Multiple sequence alignment - TraesCS7A01G415800

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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 TraesCS7A01G415800 chr7A 100.000 4013 0 0 1 4013 608207223 608203211 0.000000e+00 7411
1 TraesCS7A01G415800 chr7D 93.521 2732 150 13 609 3327 528028728 528026011 0.000000e+00 4039
2 TraesCS7A01G415800 chr7D 87.223 587 37 17 1 562 528029283 528028710 5.660000e-178 634
3 TraesCS7A01G415800 chr7D 91.480 446 21 9 3572 4013 528014571 528014139 7.420000e-167 597
4 TraesCS7A01G415800 chr7D 85.553 443 39 12 3575 4013 528009972 528009551 1.320000e-119 440
5 TraesCS7A01G415800 chr7D 81.928 415 37 19 3541 3952 528012260 528011881 2.330000e-82 316
6 TraesCS7A01G415800 chr7D 95.161 124 4 2 3409 3531 528023844 528023722 1.140000e-45 195
7 TraesCS7A01G415800 chr7B 92.366 2790 174 21 612 3394 565056709 565053952 0.000000e+00 3936
8 TraesCS7A01G415800 chr7B 84.926 544 37 21 2 513 565057261 565056731 3.580000e-140 508
9 TraesCS7A01G415800 chr7B 87.755 392 16 17 3409 3771 565053816 565053428 2.870000e-116 429
10 TraesCS7A01G415800 chr7B 84.580 441 45 12 3575 4013 565026826 565026407 2.230000e-112 416
11 TraesCS7A01G415800 chr7B 80.357 392 37 9 3541 3929 565050844 565050490 1.110000e-65 261
12 TraesCS7A01G415800 chr6A 82.366 448 53 21 3569 4013 74633427 74633851 2.280000e-97 366
13 TraesCS7A01G415800 chr4A 84.150 347 48 6 1921 2266 16031633 16031973 2.990000e-86 329
14 TraesCS7A01G415800 chr1A 83.333 282 34 11 1989 2266 505525423 505525151 8.610000e-62 248
15 TraesCS7A01G415800 chr6D 86.222 225 31 0 2431 2655 259460677 259460453 1.110000e-60 244
16 TraesCS7A01G415800 chr6D 84.127 252 37 1 2404 2655 259461873 259461625 1.440000e-59 241
17 TraesCS7A01G415800 chr6D 83.594 256 38 2 2400 2655 259461283 259461032 1.860000e-58 237
18 TraesCS7A01G415800 chr2A 83.784 259 38 2 2397 2655 113096673 113096927 4.010000e-60 243
19 TraesCS7A01G415800 chr2A 83.858 254 38 1 2402 2655 260836186 260835936 5.180000e-59 239
20 TraesCS7A01G415800 chr4D 83.012 259 41 1 2397 2655 126518894 126519149 8.670000e-57 231
21 TraesCS7A01G415800 chr4D 82.824 262 39 3 2397 2655 126518288 126518546 3.120000e-56 230


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 TraesCS7A01G415800 chr7A 608203211 608207223 4012 True 7411.000000 7411 100.000000 1 4013 1 chr7A.!!$R1 4012
1 TraesCS7A01G415800 chr7D 528023722 528029283 5561 True 1622.666667 4039 91.968333 1 3531 3 chr7D.!!$R2 3530
2 TraesCS7A01G415800 chr7D 528009551 528014571 5020 True 451.000000 597 86.320333 3541 4013 3 chr7D.!!$R1 472
3 TraesCS7A01G415800 chr7B 565050490 565057261 6771 True 1283.500000 3936 86.351000 2 3929 4 chr7B.!!$R2 3927
4 TraesCS7A01G415800 chr6D 259460453 259461873 1420 True 240.666667 244 84.647667 2400 2655 3 chr6D.!!$R1 255
5 TraesCS7A01G415800 chr4D 126518288 126519149 861 False 230.500000 231 82.918000 2397 2655 2 chr4D.!!$F1 258

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
602 635 0.252148 TTGCCCCAAATGGAGCATCA 60.252 50.0 9.57 0.0 39.21 3.07 F
1504 1543 0.247460 TCATGACGAGGCTGAACAGG 59.753 55.0 0.00 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1915 1954 0.103208 ATCCAGAAGATGACCGCGAC 59.897 55.0 8.23 1.2 32.41 5.19 R
3354 5324 0.316841 GGTGCATTTTGGGAAAGCGA 59.683 50.0 0.00 0.0 0.00 4.93 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
42 43 3.742640 GCCTCTCTGACTCTCTCTCTCTC 60.743 56.522 0.00 0.00 0.00 3.20
43 44 3.181461 CCTCTCTGACTCTCTCTCTCTCC 60.181 56.522 0.00 0.00 0.00 3.71
44 45 3.449918 TCTCTGACTCTCTCTCTCTCCA 58.550 50.000 0.00 0.00 0.00 3.86
45 46 3.452264 TCTCTGACTCTCTCTCTCTCCAG 59.548 52.174 0.00 0.00 0.00 3.86
46 47 3.449918 TCTGACTCTCTCTCTCTCCAGA 58.550 50.000 0.00 0.00 0.00 3.86
86 87 2.045536 GAGGGAGCTGCTGTTGGG 60.046 66.667 7.01 0.00 0.00 4.12
105 106 5.263872 TGGGTAAGAGAAGAGAAGAGAGT 57.736 43.478 0.00 0.00 0.00 3.24
106 107 5.013547 TGGGTAAGAGAAGAGAAGAGAGTG 58.986 45.833 0.00 0.00 0.00 3.51
110 111 3.968265 AGAGAAGAGAAGAGAGTGGAGG 58.032 50.000 0.00 0.00 0.00 4.30
111 112 2.427095 GAGAAGAGAAGAGAGTGGAGGC 59.573 54.545 0.00 0.00 0.00 4.70
112 113 2.042979 AGAAGAGAAGAGAGTGGAGGCT 59.957 50.000 0.00 0.00 0.00 4.58
115 116 2.175202 GAGAAGAGAGTGGAGGCTGAA 58.825 52.381 0.00 0.00 0.00 3.02
116 117 2.765699 GAGAAGAGAGTGGAGGCTGAAT 59.234 50.000 0.00 0.00 0.00 2.57
165 183 2.151502 TTCTGAATCTCCTCCTCGCT 57.848 50.000 0.00 0.00 0.00 4.93
168 186 1.337703 CTGAATCTCCTCCTCGCTCTG 59.662 57.143 0.00 0.00 0.00 3.35
208 231 1.003442 TATCCAGGTGAGGCTGCCT 59.997 57.895 23.64 23.64 36.03 4.75
242 265 6.002082 CAGATCCCTCATGCATTTTATCTCA 58.998 40.000 0.00 0.00 0.00 3.27
379 402 4.961730 TGGAATATGTGATTTGAAAGGGGG 59.038 41.667 0.00 0.00 0.00 5.40
438 463 0.616371 TCCCATTTCCGGTCGATGTT 59.384 50.000 0.00 0.00 0.00 2.71
441 466 1.014352 CATTTCCGGTCGATGTTCCC 58.986 55.000 0.00 0.00 0.00 3.97
462 487 4.460731 CCCCTTTGTCCTCTTTCAGATTTC 59.539 45.833 0.00 0.00 0.00 2.17
463 488 5.320277 CCCTTTGTCCTCTTTCAGATTTCT 58.680 41.667 0.00 0.00 0.00 2.52
469 494 4.697828 GTCCTCTTTCAGATTTCTGTTCCC 59.302 45.833 7.42 0.00 44.12 3.97
488 521 1.482278 CGTTTATCCTCTCTCAGCGC 58.518 55.000 0.00 0.00 0.00 5.92
537 570 8.200792 TGGTAAACAACAGCAATTTGTCTTTAT 58.799 29.630 0.00 0.00 36.13 1.40
542 575 7.895759 ACAACAGCAATTTGTCTTTATACCAT 58.104 30.769 0.00 0.00 31.30 3.55
543 576 9.019656 ACAACAGCAATTTGTCTTTATACCATA 57.980 29.630 0.00 0.00 31.30 2.74
546 579 8.559536 ACAGCAATTTGTCTTTATACCATATCG 58.440 33.333 0.00 0.00 0.00 2.92
547 580 8.773645 CAGCAATTTGTCTTTATACCATATCGA 58.226 33.333 0.00 0.00 0.00 3.59
548 581 9.337396 AGCAATTTGTCTTTATACCATATCGAA 57.663 29.630 0.00 0.00 0.00 3.71
549 582 9.382244 GCAATTTGTCTTTATACCATATCGAAC 57.618 33.333 0.00 0.00 0.00 3.95
552 585 7.709269 TTGTCTTTATACCATATCGAACTGC 57.291 36.000 0.00 0.00 0.00 4.40
553 586 6.220930 TGTCTTTATACCATATCGAACTGCC 58.779 40.000 0.00 0.00 0.00 4.85
554 587 6.041637 TGTCTTTATACCATATCGAACTGCCT 59.958 38.462 0.00 0.00 0.00 4.75
555 588 6.366332 GTCTTTATACCATATCGAACTGCCTG 59.634 42.308 0.00 0.00 0.00 4.85
556 589 2.526304 TACCATATCGAACTGCCTGC 57.474 50.000 0.00 0.00 0.00 4.85
557 590 0.833287 ACCATATCGAACTGCCTGCT 59.167 50.000 0.00 0.00 0.00 4.24
558 591 1.210478 ACCATATCGAACTGCCTGCTT 59.790 47.619 0.00 0.00 0.00 3.91
559 592 2.434336 ACCATATCGAACTGCCTGCTTA 59.566 45.455 0.00 0.00 0.00 3.09
560 593 3.071602 ACCATATCGAACTGCCTGCTTAT 59.928 43.478 0.00 0.00 0.00 1.73
561 594 4.067896 CCATATCGAACTGCCTGCTTATT 58.932 43.478 0.00 0.00 0.00 1.40
562 595 4.516698 CCATATCGAACTGCCTGCTTATTT 59.483 41.667 0.00 0.00 0.00 1.40
563 596 5.334414 CCATATCGAACTGCCTGCTTATTTC 60.334 44.000 0.00 0.00 0.00 2.17
564 597 1.999735 TCGAACTGCCTGCTTATTTCG 59.000 47.619 0.00 0.00 37.72 3.46
565 598 1.999735 CGAACTGCCTGCTTATTTCGA 59.000 47.619 0.00 0.00 38.44 3.71
566 599 2.609459 CGAACTGCCTGCTTATTTCGAT 59.391 45.455 0.00 0.00 38.44 3.59
567 600 3.544834 CGAACTGCCTGCTTATTTCGATG 60.545 47.826 0.00 0.00 38.44 3.84
568 601 3.266510 ACTGCCTGCTTATTTCGATGA 57.733 42.857 0.00 0.00 0.00 2.92
569 602 3.609853 ACTGCCTGCTTATTTCGATGAA 58.390 40.909 0.00 0.00 0.00 2.57
570 603 4.009675 ACTGCCTGCTTATTTCGATGAAA 58.990 39.130 0.00 0.00 35.94 2.69
571 604 4.095483 ACTGCCTGCTTATTTCGATGAAAG 59.905 41.667 0.00 0.00 34.92 2.62
572 605 3.378112 TGCCTGCTTATTTCGATGAAAGG 59.622 43.478 0.00 0.00 34.92 3.11
573 606 3.378427 GCCTGCTTATTTCGATGAAAGGT 59.622 43.478 0.00 0.00 34.92 3.50
574 607 4.731773 GCCTGCTTATTTCGATGAAAGGTG 60.732 45.833 0.00 0.00 34.92 4.00
575 608 4.201950 CCTGCTTATTTCGATGAAAGGTGG 60.202 45.833 0.00 0.00 34.92 4.61
576 609 4.584874 TGCTTATTTCGATGAAAGGTGGA 58.415 39.130 0.00 0.00 34.92 4.02
577 610 5.192927 TGCTTATTTCGATGAAAGGTGGAT 58.807 37.500 0.00 0.00 34.92 3.41
578 611 5.652014 TGCTTATTTCGATGAAAGGTGGATT 59.348 36.000 0.00 0.00 34.92 3.01
579 612 6.152661 TGCTTATTTCGATGAAAGGTGGATTT 59.847 34.615 0.00 0.00 34.92 2.17
580 613 7.035612 GCTTATTTCGATGAAAGGTGGATTTT 58.964 34.615 0.00 0.00 34.92 1.82
581 614 8.188139 GCTTATTTCGATGAAAGGTGGATTTTA 58.812 33.333 0.00 0.00 34.92 1.52
585 618 8.755696 TTTCGATGAAAGGTGGATTTTATTTG 57.244 30.769 0.00 0.00 0.00 2.32
586 619 6.329496 TCGATGAAAGGTGGATTTTATTTGC 58.671 36.000 0.00 0.00 0.00 3.68
587 620 5.519927 CGATGAAAGGTGGATTTTATTTGCC 59.480 40.000 0.00 0.00 0.00 4.52
588 621 5.159273 TGAAAGGTGGATTTTATTTGCCC 57.841 39.130 0.00 0.00 0.00 5.36
589 622 4.019771 TGAAAGGTGGATTTTATTTGCCCC 60.020 41.667 0.00 0.00 0.00 5.80
590 623 3.197927 AGGTGGATTTTATTTGCCCCA 57.802 42.857 0.00 0.00 0.00 4.96
591 624 3.525862 AGGTGGATTTTATTTGCCCCAA 58.474 40.909 0.00 0.00 0.00 4.12
592 625 3.913163 AGGTGGATTTTATTTGCCCCAAA 59.087 39.130 0.00 0.00 37.75 3.28
593 626 4.539696 AGGTGGATTTTATTTGCCCCAAAT 59.460 37.500 8.11 8.11 44.74 2.32
594 627 4.639755 GGTGGATTTTATTTGCCCCAAATG 59.360 41.667 12.14 0.00 42.91 2.32
595 628 4.639755 GTGGATTTTATTTGCCCCAAATGG 59.360 41.667 12.14 0.00 42.91 3.16
596 629 4.537688 TGGATTTTATTTGCCCCAAATGGA 59.462 37.500 12.14 0.60 42.91 3.41
597 630 5.125356 GGATTTTATTTGCCCCAAATGGAG 58.875 41.667 12.14 0.00 42.91 3.86
598 631 3.625649 TTTATTTGCCCCAAATGGAGC 57.374 42.857 12.14 0.00 42.91 4.70
599 632 2.244486 TATTTGCCCCAAATGGAGCA 57.756 45.000 4.34 4.34 42.91 4.26
600 633 1.587066 ATTTGCCCCAAATGGAGCAT 58.413 45.000 9.57 0.00 41.70 3.79
601 634 0.903942 TTTGCCCCAAATGGAGCATC 59.096 50.000 9.57 0.00 39.21 3.91
602 635 0.252148 TTGCCCCAAATGGAGCATCA 60.252 50.000 9.57 0.00 39.21 3.07
603 636 0.252148 TGCCCCAAATGGAGCATCAA 60.252 50.000 4.34 0.00 35.98 2.57
604 637 0.462789 GCCCCAAATGGAGCATCAAG 59.537 55.000 0.53 0.00 36.25 3.02
605 638 1.961435 GCCCCAAATGGAGCATCAAGA 60.961 52.381 0.53 0.00 36.25 3.02
606 639 2.459644 CCCCAAATGGAGCATCAAGAA 58.540 47.619 0.00 0.00 36.25 2.52
607 640 2.429610 CCCCAAATGGAGCATCAAGAAG 59.570 50.000 0.00 0.00 36.25 2.85
633 666 4.757657 TCGAACTGCCTGCTATTGTTTTTA 59.242 37.500 0.00 0.00 0.00 1.52
635 668 5.739161 CGAACTGCCTGCTATTGTTTTTATC 59.261 40.000 0.00 0.00 0.00 1.75
666 705 3.003068 CCTCTAATGCTCTGAATTTGGCG 59.997 47.826 0.00 0.00 0.00 5.69
737 776 6.126825 ACTCATTCAGATCTAATCCTGTTGCT 60.127 38.462 0.00 0.00 0.00 3.91
746 785 6.048732 TCTAATCCTGTTGCTACATCACAA 57.951 37.500 0.34 0.00 32.86 3.33
751 790 6.494893 TCCTGTTGCTACATCACAAATTAC 57.505 37.500 0.34 0.00 32.86 1.89
759 798 7.529158 TGCTACATCACAAATTACATCACTTG 58.471 34.615 0.00 0.00 0.00 3.16
760 799 6.470235 GCTACATCACAAATTACATCACTTGC 59.530 38.462 0.00 0.00 0.00 4.01
844 883 0.886563 AACAAGCTCCTTCTGCATGC 59.113 50.000 11.82 11.82 33.12 4.06
852 891 2.030371 TCCTTCTGCATGCACACAAAA 58.970 42.857 18.46 5.50 0.00 2.44
858 897 4.300803 TCTGCATGCACACAAAATTCTTC 58.699 39.130 18.46 0.00 0.00 2.87
859 898 3.391965 TGCATGCACACAAAATTCTTCC 58.608 40.909 18.46 0.00 0.00 3.46
1039 1078 2.745884 CCGTGAAGCCAATCGCCA 60.746 61.111 0.00 0.00 38.78 5.69
1054 1093 2.902846 CCACGCCGGACAAAACCA 60.903 61.111 5.05 0.00 36.56 3.67
1107 1146 2.977914 TCAGTTCATAAGCTGCTGGAC 58.022 47.619 1.35 0.00 33.09 4.02
1108 1147 2.568956 TCAGTTCATAAGCTGCTGGACT 59.431 45.455 1.35 0.00 33.09 3.85
1140 1179 0.706433 ACCTTGGGCTGTTGGATGAT 59.294 50.000 0.00 0.00 0.00 2.45
1218 1257 1.378250 CCTGGGAAGAAGCAGCCTG 60.378 63.158 0.00 0.00 0.00 4.85
1344 1383 4.814234 ACGTTCTGCACAAGTTTATTCTCA 59.186 37.500 0.00 0.00 0.00 3.27
1352 1391 8.114331 TGCACAAGTTTATTCTCATCATCTTT 57.886 30.769 0.00 0.00 0.00 2.52
1368 1407 1.507141 CTTTGACAAACTCGGCGCCT 61.507 55.000 26.68 2.51 0.00 5.52
1410 1449 2.203549 CTTTCCTGCCTCACCCTCCC 62.204 65.000 0.00 0.00 0.00 4.30
1494 1533 2.079158 ACAGGCAATGTTCATGACGAG 58.921 47.619 0.00 0.00 39.96 4.18
1504 1543 0.247460 TCATGACGAGGCTGAACAGG 59.753 55.000 0.00 0.00 0.00 4.00
1683 1722 1.133668 AGCCCCCAATTAGATGTGAGC 60.134 52.381 0.00 0.00 0.00 4.26
1707 1746 4.458295 CCATTGCCATTTGGTGCATTTTTA 59.542 37.500 0.00 0.00 37.33 1.52
1711 1750 7.750229 TTGCCATTTGGTGCATTTTTATTTA 57.250 28.000 0.00 0.00 37.33 1.40
1727 1766 5.895636 TTATTTATTGCAGTGTGAGGGTG 57.104 39.130 0.00 0.00 0.00 4.61
1748 1787 4.024472 GTGAAAAGCTCTCCACTGAACTTC 60.024 45.833 0.00 0.00 0.00 3.01
1757 1796 1.467734 CCACTGAACTTCTGCAGCATC 59.532 52.381 9.47 4.95 35.57 3.91
1797 1836 9.585099 CCTAGTATTCTTCTTCATCTGATATGC 57.415 37.037 0.00 0.00 0.00 3.14
1849 1888 0.366871 CTCAAATGTCGTCGCTTCCG 59.633 55.000 0.00 0.00 0.00 4.30
1852 1891 1.012486 AAATGTCGTCGCTTCCGGTC 61.012 55.000 0.00 0.00 34.56 4.79
1872 1911 1.489649 CTCATCCTGCTCCAACCAGAT 59.510 52.381 0.00 0.00 32.03 2.90
1915 1954 0.924090 CTAAACTGCCGCTTAGCTCG 59.076 55.000 1.76 0.00 0.00 5.03
1999 2038 1.154093 CGAGCGTTTCGTAGAGGCA 60.154 57.895 3.73 0.00 44.27 4.75
2017 2056 1.151668 CAGTGAACAAGCTCGAAGGG 58.848 55.000 0.00 0.00 0.00 3.95
2064 2103 8.811017 TCTGCTTTCATTTCCCAAATGTATTTA 58.189 29.630 8.46 0.00 46.46 1.40
2109 2153 9.429359 ACTCTAAATAGTTCACTTCAACATCTG 57.571 33.333 0.00 0.00 0.00 2.90
2210 2254 2.320681 TGCAGGTACTACTTCAGGGT 57.679 50.000 0.00 0.00 36.02 4.34
2216 2260 6.178324 GCAGGTACTACTTCAGGGTTATTTT 58.822 40.000 0.00 0.00 36.02 1.82
2220 2264 9.207836 AGGTACTACTTCAGGGTTATTTTCCCG 62.208 44.444 0.00 0.00 43.97 5.14
2238 2282 3.253188 TCCCGCTTCACTGAAAATGAAAG 59.747 43.478 0.00 0.00 35.70 2.62
2246 2290 6.831727 TCACTGAAAATGAAAGCAAACATG 57.168 33.333 0.00 0.00 0.00 3.21
2269 2313 9.956720 CATGTCTTCTTCTTTTCATTGTTACTT 57.043 29.630 0.00 0.00 0.00 2.24
2288 2332 5.629079 ACTTATAGTTTGCCTGTCTTTGC 57.371 39.130 0.00 0.00 0.00 3.68
2319 2363 5.002464 AGTACCGACACGCAAAGTATATT 57.998 39.130 0.00 0.00 0.00 1.28
2346 2390 7.363431 CAGAGATCAAAGAAGGTAAACAAACC 58.637 38.462 0.00 0.00 40.06 3.27
2415 2459 4.801516 TGCGATTCTGAATTTTGATGCATG 59.198 37.500 2.46 0.00 0.00 4.06
2416 2460 4.208460 GCGATTCTGAATTTTGATGCATGG 59.792 41.667 2.46 0.00 0.00 3.66
2449 2493 0.325272 AAAGAAGGCTTCCTCGGACC 59.675 55.000 23.09 0.00 31.82 4.46
2481 3132 2.125106 CCGGGTAGCAGTGGAAGC 60.125 66.667 0.00 0.00 0.00 3.86
2501 3152 2.719046 GCGATCCGTTCAAAAACAAGTG 59.281 45.455 0.00 0.00 34.93 3.16
2546 3775 1.203052 GTGCATGCATAGCAAACACCT 59.797 47.619 25.64 0.00 44.64 4.00
2631 3860 3.129988 GGATGCAAATGGAGGTTCAGAAG 59.870 47.826 0.00 0.00 0.00 2.85
2660 3889 5.104067 TCCATGAACAGCTAGAGGTAGTCTA 60.104 44.000 0.00 0.00 36.64 2.59
2663 3892 6.761099 TGAACAGCTAGAGGTAGTCTAAAG 57.239 41.667 0.00 0.00 37.32 1.85
2691 3920 3.909776 ATGCAGTTCACTGTTGTCATG 57.090 42.857 8.72 0.00 45.45 3.07
2692 3921 1.334556 TGCAGTTCACTGTTGTCATGC 59.665 47.619 8.72 0.00 45.45 4.06
2705 3934 2.076100 TGTCATGCGTGTCAGAATTCC 58.924 47.619 5.68 0.00 0.00 3.01
2714 3943 3.067106 GTGTCAGAATTCCGACATGTGT 58.933 45.455 23.66 0.00 43.59 3.72
2715 3944 3.123621 GTGTCAGAATTCCGACATGTGTC 59.876 47.826 23.66 9.88 43.59 3.67
2716 3945 3.006859 TGTCAGAATTCCGACATGTGTCT 59.993 43.478 18.48 0.00 42.66 3.41
2717 3946 3.369147 GTCAGAATTCCGACATGTGTCTG 59.631 47.826 15.50 6.51 42.66 3.51
2718 3947 3.258123 TCAGAATTCCGACATGTGTCTGA 59.742 43.478 1.15 8.70 42.66 3.27
2719 3948 3.996363 CAGAATTCCGACATGTGTCTGAA 59.004 43.478 18.06 18.06 46.78 3.02
2720 3949 3.997021 AGAATTCCGACATGTGTCTGAAC 59.003 43.478 18.10 9.68 46.01 3.18
2753 3982 7.487822 TCATCTTAGAAAGTTGTCTGGAGAT 57.512 36.000 0.00 0.00 34.65 2.75
2759 3988 2.751166 AGTTGTCTGGAGATTGTCGG 57.249 50.000 0.00 0.00 0.00 4.79
2768 3997 4.020218 TCTGGAGATTGTCGGTTTTCTGAT 60.020 41.667 0.00 0.00 37.55 2.90
2769 3998 4.002982 TGGAGATTGTCGGTTTTCTGATG 58.997 43.478 0.00 0.00 37.55 3.07
2870 4099 0.324285 CTGGAAGAGCAGCAGAAGGT 59.676 55.000 0.00 0.00 34.07 3.50
3025 4254 3.407698 TGTTCATAACAGCCGTCACATT 58.592 40.909 0.00 0.00 36.25 2.71
3027 4256 2.355197 TCATAACAGCCGTCACATTGG 58.645 47.619 0.00 0.00 0.00 3.16
3158 4388 0.605589 AGGTTTTAGCCAGTGGTCGC 60.606 55.000 11.74 0.00 0.00 5.19
3236 4466 5.049129 GGAACCAATAAGCTGATCATAGCAC 60.049 44.000 9.38 0.00 46.07 4.40
3286 4516 3.855689 AAGCCGAATTTGGATCAAGTG 57.144 42.857 16.55 0.00 0.00 3.16
3353 5323 8.372877 TGCATTTTTCATCCCCTCTTATTTTA 57.627 30.769 0.00 0.00 0.00 1.52
3354 5324 8.991275 TGCATTTTTCATCCCCTCTTATTTTAT 58.009 29.630 0.00 0.00 0.00 1.40
3360 5330 6.601332 TCATCCCCTCTTATTTTATCGCTTT 58.399 36.000 0.00 0.00 0.00 3.51
3371 5341 4.527509 TTTATCGCTTTCCCAAAATGCA 57.472 36.364 0.00 0.00 0.00 3.96
3394 5364 6.293626 GCACCTGCATCGTATATTTTCAGAAT 60.294 38.462 0.00 0.00 41.59 2.40
3395 5365 7.642669 CACCTGCATCGTATATTTTCAGAATT 58.357 34.615 0.00 0.00 0.00 2.17
3399 5369 5.565259 GCATCGTATATTTTCAGAATTGGCG 59.435 40.000 0.00 0.00 0.00 5.69
3400 5370 5.090652 TCGTATATTTTCAGAATTGGCGC 57.909 39.130 0.00 0.00 0.00 6.53
3402 5372 4.905866 CGTATATTTTCAGAATTGGCGCAG 59.094 41.667 10.83 0.00 0.00 5.18
3455 6776 5.163353 TGTTCTCCCCCAAAAATTCAGTTTC 60.163 40.000 0.00 0.00 0.00 2.78
3567 6888 2.035626 CTTGGCCGGTCCACCATT 59.964 61.111 15.99 0.00 46.55 3.16
3594 6936 1.740585 CAGTTCGTCCTCGACAGATCT 59.259 52.381 0.00 0.00 46.03 2.75
3666 7009 3.307199 GGAACGTGTGGGAAAGAAGGATA 60.307 47.826 0.00 0.00 0.00 2.59
3683 7026 2.299521 GATACGCAGTCTAGGTCAGGT 58.700 52.381 0.00 0.00 43.93 4.00
3777 7258 9.893305 GTTATATCTTTGTAACAATACCATGCC 57.107 33.333 0.00 0.00 31.70 4.40
3845 7422 9.397280 CCATAGAGTACTAATCGATCAGGATTA 57.603 37.037 0.00 0.00 37.74 1.75
3902 7479 8.717717 TCATATCCTGACAACTTCCTGAAATAT 58.282 33.333 0.00 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 6.807100 TCCCTAGAGGCTAGAGCTCTCTCT 62.807 54.167 27.32 27.32 43.03 3.10
45 46 2.290323 CCCTAGAGGCTAGAGCTCTCTC 60.290 59.091 22.17 20.04 43.03 3.20
46 47 1.705186 CCCTAGAGGCTAGAGCTCTCT 59.295 57.143 22.17 11.72 44.72 3.10
47 48 1.702957 TCCCTAGAGGCTAGAGCTCTC 59.297 57.143 22.17 6.71 41.70 3.20
48 49 1.705186 CTCCCTAGAGGCTAGAGCTCT 59.295 57.143 22.17 22.17 41.70 4.09
49 50 2.200373 CTCCCTAGAGGCTAGAGCTC 57.800 60.000 5.27 5.27 41.70 4.09
70 71 1.133809 TTACCCAACAGCAGCTCCCT 61.134 55.000 0.00 0.00 0.00 4.20
86 87 5.357032 CCTCCACTCTCTTCTCTTCTCTTAC 59.643 48.000 0.00 0.00 0.00 2.34
105 106 3.482156 GCTAATCTGATTCAGCCTCCA 57.518 47.619 6.10 0.00 0.00 3.86
110 111 3.717707 TGTACGGCTAATCTGATTCAGC 58.282 45.455 6.10 13.03 0.00 4.26
111 112 4.508124 GGTTGTACGGCTAATCTGATTCAG 59.492 45.833 6.10 7.38 0.00 3.02
112 113 4.439057 GGTTGTACGGCTAATCTGATTCA 58.561 43.478 6.10 0.00 0.00 2.57
115 116 2.769663 TGGGTTGTACGGCTAATCTGAT 59.230 45.455 0.00 0.00 0.00 2.90
116 117 2.181125 TGGGTTGTACGGCTAATCTGA 58.819 47.619 0.00 0.00 0.00 3.27
165 183 3.195182 CAGAGAAGAAGATGGACAGCAGA 59.805 47.826 0.00 0.00 0.00 4.26
168 186 2.903798 CCAGAGAAGAAGATGGACAGC 58.096 52.381 0.00 0.00 34.60 4.40
211 234 2.092968 TGCATGAGGGATCTGTGTAACC 60.093 50.000 0.00 0.00 34.36 2.85
328 351 9.715121 CACTAACCAACAGAATAGTTAAACCTA 57.285 33.333 0.00 0.00 0.00 3.08
331 354 8.015658 CAGCACTAACCAACAGAATAGTTAAAC 58.984 37.037 0.00 0.00 0.00 2.01
333 356 6.653320 CCAGCACTAACCAACAGAATAGTTAA 59.347 38.462 0.00 0.00 0.00 2.01
334 357 6.014070 TCCAGCACTAACCAACAGAATAGTTA 60.014 38.462 0.00 0.00 0.00 2.24
336 359 4.286032 TCCAGCACTAACCAACAGAATAGT 59.714 41.667 0.00 0.00 0.00 2.12
337 360 4.832248 TCCAGCACTAACCAACAGAATAG 58.168 43.478 0.00 0.00 0.00 1.73
339 362 3.788227 TCCAGCACTAACCAACAGAAT 57.212 42.857 0.00 0.00 0.00 2.40
379 402 2.604046 TCAGGAAGCGAGCTTTATCC 57.396 50.000 11.92 8.81 36.26 2.59
438 463 2.701551 TCTGAAAGAGGACAAAGGGGA 58.298 47.619 0.00 0.00 38.67 4.81
462 487 3.447586 TGAGAGAGGATAAACGGGAACAG 59.552 47.826 0.00 0.00 0.00 3.16
463 488 3.437213 TGAGAGAGGATAAACGGGAACA 58.563 45.455 0.00 0.00 0.00 3.18
469 494 1.066303 AGCGCTGAGAGAGGATAAACG 59.934 52.381 10.39 0.00 0.00 3.60
488 521 2.094286 AGCTCGTGAGAAATCCTGTCAG 60.094 50.000 0.00 0.00 41.32 3.51
537 570 2.039418 AGCAGGCAGTTCGATATGGTA 58.961 47.619 0.00 0.00 0.00 3.25
539 572 1.959042 AAGCAGGCAGTTCGATATGG 58.041 50.000 0.00 0.00 0.00 2.74
542 575 3.802139 CGAAATAAGCAGGCAGTTCGATA 59.198 43.478 8.00 0.00 40.06 2.92
543 576 2.609459 CGAAATAAGCAGGCAGTTCGAT 59.391 45.455 8.00 0.00 40.06 3.59
544 577 1.999735 CGAAATAAGCAGGCAGTTCGA 59.000 47.619 8.00 0.00 40.06 3.71
545 578 1.999735 TCGAAATAAGCAGGCAGTTCG 59.000 47.619 7.56 7.56 39.26 3.95
546 579 3.623060 TCATCGAAATAAGCAGGCAGTTC 59.377 43.478 0.00 0.00 0.00 3.01
547 580 3.609853 TCATCGAAATAAGCAGGCAGTT 58.390 40.909 0.00 0.00 0.00 3.16
548 581 3.266510 TCATCGAAATAAGCAGGCAGT 57.733 42.857 0.00 0.00 0.00 4.40
549 582 4.497006 CCTTTCATCGAAATAAGCAGGCAG 60.497 45.833 0.00 0.00 30.85 4.85
550 583 3.378112 CCTTTCATCGAAATAAGCAGGCA 59.622 43.478 0.00 0.00 30.85 4.75
551 584 3.378427 ACCTTTCATCGAAATAAGCAGGC 59.622 43.478 0.00 0.00 30.85 4.85
552 585 4.201950 CCACCTTTCATCGAAATAAGCAGG 60.202 45.833 0.00 0.00 30.85 4.85
553 586 4.635765 TCCACCTTTCATCGAAATAAGCAG 59.364 41.667 0.00 0.00 30.85 4.24
554 587 4.584874 TCCACCTTTCATCGAAATAAGCA 58.415 39.130 0.00 0.00 30.85 3.91
555 588 5.757850 ATCCACCTTTCATCGAAATAAGC 57.242 39.130 0.00 0.00 30.85 3.09
559 592 9.369904 CAAATAAAATCCACCTTTCATCGAAAT 57.630 29.630 0.00 0.00 30.85 2.17
560 593 7.330700 GCAAATAAAATCCACCTTTCATCGAAA 59.669 33.333 0.00 0.00 0.00 3.46
561 594 6.811170 GCAAATAAAATCCACCTTTCATCGAA 59.189 34.615 0.00 0.00 0.00 3.71
562 595 6.329496 GCAAATAAAATCCACCTTTCATCGA 58.671 36.000 0.00 0.00 0.00 3.59
563 596 5.519927 GGCAAATAAAATCCACCTTTCATCG 59.480 40.000 0.00 0.00 0.00 3.84
564 597 5.817296 GGGCAAATAAAATCCACCTTTCATC 59.183 40.000 0.00 0.00 0.00 2.92
565 598 5.339118 GGGGCAAATAAAATCCACCTTTCAT 60.339 40.000 0.00 0.00 0.00 2.57
566 599 4.019771 GGGGCAAATAAAATCCACCTTTCA 60.020 41.667 0.00 0.00 0.00 2.69
567 600 4.019771 TGGGGCAAATAAAATCCACCTTTC 60.020 41.667 0.00 0.00 0.00 2.62
568 601 3.913163 TGGGGCAAATAAAATCCACCTTT 59.087 39.130 0.00 0.00 0.00 3.11
569 602 3.525862 TGGGGCAAATAAAATCCACCTT 58.474 40.909 0.00 0.00 0.00 3.50
570 603 3.197927 TGGGGCAAATAAAATCCACCT 57.802 42.857 0.00 0.00 0.00 4.00
571 604 3.990959 TTGGGGCAAATAAAATCCACC 57.009 42.857 0.00 0.00 0.00 4.61
572 605 4.639755 CCATTTGGGGCAAATAAAATCCAC 59.360 41.667 0.00 0.00 41.40 4.02
573 606 4.537688 TCCATTTGGGGCAAATAAAATCCA 59.462 37.500 0.00 0.00 41.40 3.41
574 607 5.109500 TCCATTTGGGGCAAATAAAATCC 57.891 39.130 0.00 0.00 41.40 3.01
586 619 2.148446 TCTTGATGCTCCATTTGGGG 57.852 50.000 0.00 0.00 39.22 4.96
587 620 3.094572 ACTTCTTGATGCTCCATTTGGG 58.905 45.455 0.00 0.00 35.41 4.12
588 621 3.508793 ACACTTCTTGATGCTCCATTTGG 59.491 43.478 0.00 0.00 0.00 3.28
589 622 4.670992 CGACACTTCTTGATGCTCCATTTG 60.671 45.833 0.00 0.00 0.00 2.32
590 623 3.438087 CGACACTTCTTGATGCTCCATTT 59.562 43.478 0.00 0.00 0.00 2.32
591 624 3.005554 CGACACTTCTTGATGCTCCATT 58.994 45.455 0.00 0.00 0.00 3.16
592 625 2.234661 TCGACACTTCTTGATGCTCCAT 59.765 45.455 0.00 0.00 0.00 3.41
593 626 1.618343 TCGACACTTCTTGATGCTCCA 59.382 47.619 0.00 0.00 0.00 3.86
594 627 2.370281 TCGACACTTCTTGATGCTCC 57.630 50.000 0.00 0.00 0.00 4.70
595 628 3.122613 CAGTTCGACACTTCTTGATGCTC 59.877 47.826 0.00 0.00 30.92 4.26
596 629 3.062763 CAGTTCGACACTTCTTGATGCT 58.937 45.455 0.00 0.00 30.92 3.79
597 630 2.412065 GCAGTTCGACACTTCTTGATGC 60.412 50.000 0.00 0.00 30.92 3.91
598 631 2.158449 GGCAGTTCGACACTTCTTGATG 59.842 50.000 0.00 0.00 30.92 3.07
599 632 2.037772 AGGCAGTTCGACACTTCTTGAT 59.962 45.455 0.00 0.00 30.92 2.57
600 633 1.412710 AGGCAGTTCGACACTTCTTGA 59.587 47.619 0.00 0.00 30.92 3.02
601 634 1.528586 CAGGCAGTTCGACACTTCTTG 59.471 52.381 0.00 0.00 30.92 3.02
602 635 1.871080 CAGGCAGTTCGACACTTCTT 58.129 50.000 0.00 0.00 30.92 2.52
603 636 0.601311 GCAGGCAGTTCGACACTTCT 60.601 55.000 0.00 0.00 30.92 2.85
604 637 0.601311 AGCAGGCAGTTCGACACTTC 60.601 55.000 0.00 0.00 30.92 3.01
605 638 0.679505 TAGCAGGCAGTTCGACACTT 59.320 50.000 0.00 0.00 30.92 3.16
606 639 0.898320 ATAGCAGGCAGTTCGACACT 59.102 50.000 0.00 0.00 35.35 3.55
607 640 1.394917 CAATAGCAGGCAGTTCGACAC 59.605 52.381 0.00 0.00 0.00 3.67
633 666 4.476479 AGAGCATTAGAGGTCAAAAGGGAT 59.524 41.667 0.00 0.00 38.44 3.85
635 668 3.944015 CAGAGCATTAGAGGTCAAAAGGG 59.056 47.826 0.00 0.00 38.44 3.95
666 705 2.903855 AGCACACACAGCACAGGC 60.904 61.111 0.00 0.00 41.61 4.85
737 776 6.127758 GGGCAAGTGATGTAATTTGTGATGTA 60.128 38.462 0.00 0.00 0.00 2.29
746 785 4.666512 ACTTCTGGGCAAGTGATGTAATT 58.333 39.130 0.00 0.00 35.18 1.40
751 790 2.189594 TGACTTCTGGGCAAGTGATG 57.810 50.000 0.00 0.00 36.71 3.07
759 798 2.163010 CACAATGTCATGACTTCTGGGC 59.837 50.000 25.55 0.00 0.00 5.36
760 799 3.189910 CACACAATGTCATGACTTCTGGG 59.810 47.826 25.55 20.99 0.00 4.45
844 883 4.829064 TTCTCGGGAAGAATTTTGTGTG 57.171 40.909 0.00 0.00 39.12 3.82
858 897 5.707242 TGTATATACTGAAGCTTCTCGGG 57.293 43.478 26.09 15.49 0.00 5.14
859 898 8.594881 AAAATGTATATACTGAAGCTTCTCGG 57.405 34.615 26.09 17.68 0.00 4.63
899 938 6.332630 CCAAACAAACAGTTCATTCAGAGTT 58.667 36.000 0.00 0.00 40.26 3.01
1039 1078 3.273834 CGTGGTTTTGTCCGGCGT 61.274 61.111 6.01 0.00 0.00 5.68
1107 1146 2.290323 CCCAAGGTGGTCCAGTTTAGAG 60.290 54.545 0.00 0.00 35.17 2.43
1108 1147 1.702957 CCCAAGGTGGTCCAGTTTAGA 59.297 52.381 0.00 0.00 35.17 2.10
1140 1179 4.096681 ACTGACTGGTGGATGACAGATTA 58.903 43.478 0.00 0.00 38.09 1.75
1218 1257 5.392487 GCTTCTTCTCTGAAGGTTAAATGGC 60.392 44.000 7.37 0.00 42.53 4.40
1344 1383 2.416547 CGCCGAGTTTGTCAAAGATGAT 59.583 45.455 0.00 0.00 38.01 2.45
1352 1391 2.110213 AAGGCGCCGAGTTTGTCA 59.890 55.556 23.20 0.00 0.00 3.58
1410 1449 2.935201 GAGAACCTGCTGCTCATACTTG 59.065 50.000 0.00 0.00 0.00 3.16
1494 1533 0.321919 TGTCATCTGCCTGTTCAGCC 60.322 55.000 0.00 0.00 34.19 4.85
1504 1543 5.877012 TGAGGAAGTCTTTTATGTCATCTGC 59.123 40.000 0.00 0.00 0.00 4.26
1683 1722 0.253610 ATGCACCAAATGGCAATGGG 59.746 50.000 22.10 10.77 44.20 4.00
1707 1746 4.032960 TCACCCTCACACTGCAATAAAT 57.967 40.909 0.00 0.00 0.00 1.40
1711 1750 2.363306 TTTCACCCTCACACTGCAAT 57.637 45.000 0.00 0.00 0.00 3.56
1727 1766 4.213059 CAGAAGTTCAGTGGAGAGCTTTTC 59.787 45.833 5.50 0.00 38.86 2.29
1748 1787 2.415857 GTGAGTTTCAGAGATGCTGCAG 59.584 50.000 10.11 10.11 44.52 4.41
1757 1796 7.639113 AGAATACTAGGAGTGAGTTTCAGAG 57.361 40.000 0.00 0.00 0.00 3.35
1797 1836 5.288712 GTGTCGTATATGTCCTGAACAACAG 59.711 44.000 0.00 0.00 42.37 3.16
1849 1888 0.107459 GGTTGGAGCAGGATGAGACC 60.107 60.000 0.00 0.00 39.69 3.85
1852 1891 0.907486 TCTGGTTGGAGCAGGATGAG 59.093 55.000 7.23 0.00 43.47 2.90
1915 1954 0.103208 ATCCAGAAGATGACCGCGAC 59.897 55.000 8.23 1.20 32.41 5.19
1990 2029 1.071605 GCTTGTTCACTGCCTCTACG 58.928 55.000 0.00 0.00 0.00 3.51
1999 2038 0.603975 GCCCTTCGAGCTTGTTCACT 60.604 55.000 0.00 0.00 0.00 3.41
2017 2056 1.661341 CAGCCATCTTACTGTCAGGC 58.339 55.000 4.53 0.00 42.31 4.85
2109 2153 5.335976 CCTTGGGAGTTGCTTCTGAAATAAC 60.336 44.000 7.83 7.83 0.00 1.89
2115 2159 0.401738 CCCTTGGGAGTTGCTTCTGA 59.598 55.000 0.00 0.00 0.00 3.27
2210 2254 5.776173 TTTTCAGTGAAGCGGGAAAATAA 57.224 34.783 5.56 0.00 35.13 1.40
2216 2260 2.559698 TCATTTTCAGTGAAGCGGGA 57.440 45.000 5.56 0.62 0.00 5.14
2220 2264 5.291614 TGTTTGCTTTCATTTTCAGTGAAGC 59.708 36.000 5.56 4.77 36.96 3.86
2238 2282 7.223387 ACAATGAAAAGAAGAAGACATGTTTGC 59.777 33.333 0.00 0.00 0.00 3.68
2269 2313 4.905429 TCAGCAAAGACAGGCAAACTATA 58.095 39.130 0.00 0.00 0.00 1.31
2288 2332 2.316792 CGTGTCGGTACTTCTGTTCAG 58.683 52.381 0.00 0.00 0.00 3.02
2319 2363 6.433847 TGTTTACCTTCTTTGATCTCTGGA 57.566 37.500 0.00 0.00 0.00 3.86
2346 2390 8.671921 ACTTGTGAGCAATATTTATCTTCTGTG 58.328 33.333 0.00 0.00 33.65 3.66
2415 2459 3.243201 CCTTCTTTTCTGCAGACAACACC 60.243 47.826 18.03 0.00 0.00 4.16
2416 2460 3.793465 GCCTTCTTTTCTGCAGACAACAC 60.793 47.826 18.03 0.00 0.00 3.32
2449 2493 4.628766 GCTACCCGGTTGTACTTTCTTAAG 59.371 45.833 0.00 0.00 37.40 1.85
2481 3132 4.203950 TCACTTGTTTTTGAACGGATCG 57.796 40.909 0.00 0.00 0.00 3.69
2501 3152 4.985409 CCGGTGTAATAATTCAGAGAGCTC 59.015 45.833 5.27 5.27 0.00 4.09
2546 3775 9.449719 GGAAGAGATGTAAATTTCTAAGGTCAA 57.550 33.333 0.00 0.00 0.00 3.18
2631 3860 1.134580 TCTAGCTGTTCATGGAGCTGC 60.135 52.381 19.22 0.00 45.29 5.25
2660 3889 3.887716 AGTGAACTGCATTTCAGAGCTTT 59.112 39.130 18.73 0.20 45.72 3.51
2663 3892 3.198863 CAGTGAACTGCATTTCAGAGC 57.801 47.619 18.73 8.46 45.72 4.09
2705 3934 4.794329 ACTTCAGAGTTCAGACACATGTCG 60.794 45.833 6.38 2.57 40.64 4.35
2719 3948 8.207545 ACAACTTTCTAAGATGAACTTCAGAGT 58.792 33.333 4.06 0.00 39.72 3.24
2720 3949 8.600449 ACAACTTTCTAAGATGAACTTCAGAG 57.400 34.615 4.06 0.00 39.72 3.35
2741 3970 2.457366 ACCGACAATCTCCAGACAAC 57.543 50.000 0.00 0.00 0.00 3.32
2753 3982 3.436704 GCAGATCATCAGAAAACCGACAA 59.563 43.478 0.00 0.00 0.00 3.18
2759 3988 2.417933 AGCACGCAGATCATCAGAAAAC 59.582 45.455 0.00 0.00 0.00 2.43
2768 3997 2.938451 CCAAGATTAAGCACGCAGATCA 59.062 45.455 0.00 0.00 0.00 2.92
2769 3998 2.286654 GCCAAGATTAAGCACGCAGATC 60.287 50.000 0.00 0.00 0.00 2.75
2856 4085 2.977178 CCGACCTTCTGCTGCTCT 59.023 61.111 0.00 0.00 0.00 4.09
3072 4302 4.463879 CAGCTCTGCCACCGAGGG 62.464 72.222 0.00 0.00 38.09 4.30
3158 4388 8.969260 ATATACAATATACATGCATCCACTGG 57.031 34.615 0.00 0.00 0.00 4.00
3225 4455 5.895636 AATTCAAAACCGTGCTATGATCA 57.104 34.783 0.00 0.00 0.00 2.92
3236 4466 4.056452 GCTTGATGCAAATTCAAAACCG 57.944 40.909 3.04 0.00 42.31 4.44
3278 4508 6.867816 TGCAACAAATATCCAAACACTTGATC 59.132 34.615 0.00 0.00 34.14 2.92
3329 5299 9.481340 GATAAAATAAGAGGGGATGAAAAATGC 57.519 33.333 0.00 0.00 0.00 3.56
3353 5323 1.066929 GGTGCATTTTGGGAAAGCGAT 60.067 47.619 0.00 0.00 0.00 4.58
3354 5324 0.316841 GGTGCATTTTGGGAAAGCGA 59.683 50.000 0.00 0.00 0.00 4.93
3371 5341 7.255242 CCAATTCTGAAAATATACGATGCAGGT 60.255 37.037 0.00 0.00 0.00 4.00
3378 5348 4.572795 TGCGCCAATTCTGAAAATATACGA 59.427 37.500 4.18 0.00 0.00 3.43
3380 5350 5.821204 ACTGCGCCAATTCTGAAAATATAC 58.179 37.500 4.18 0.00 0.00 1.47
3385 5355 2.881513 TGTACTGCGCCAATTCTGAAAA 59.118 40.909 4.18 0.00 0.00 2.29
3386 5356 2.499197 TGTACTGCGCCAATTCTGAAA 58.501 42.857 4.18 0.00 0.00 2.69
3400 5370 7.387016 AACGAGGGTTTGCAGTTTTGTACTG 62.387 44.000 0.00 0.00 44.63 2.74
3402 5372 2.356695 ACGAGGGTTTGCAGTTTTGTAC 59.643 45.455 0.00 0.00 0.00 2.90
3532 6853 1.988406 GGTAGGCCGGACCAGAAGT 60.988 63.158 21.44 0.00 43.14 3.01
3533 6854 1.265454 AAGGTAGGCCGGACCAGAAG 61.265 60.000 26.27 0.00 43.14 2.85
3536 6857 2.584608 CAAGGTAGGCCGGACCAG 59.415 66.667 26.27 16.72 43.14 4.00
3537 6858 3.006728 CCAAGGTAGGCCGGACCA 61.007 66.667 26.27 0.00 43.14 4.02
3567 6888 1.890489 TCGAGGACGAACTGATCCAAA 59.110 47.619 0.00 0.00 45.74 3.28
3594 6936 1.270947 ACTTTACCGGAAATGTCGCCA 60.271 47.619 9.46 0.00 0.00 5.69
3666 7009 0.539901 ACACCTGACCTAGACTGCGT 60.540 55.000 0.00 0.00 0.00 5.24
3683 7026 2.155279 CTCTCTCGTTCAGGACAGACA 58.845 52.381 0.00 0.00 0.00 3.41
3771 7120 5.807011 GCTATAAGTCAAAAACAAGGCATGG 59.193 40.000 0.00 0.00 0.00 3.66
3772 7121 6.624423 AGCTATAAGTCAAAAACAAGGCATG 58.376 36.000 0.00 0.00 0.00 4.06
3845 7422 7.921041 TTATACTCTCCAATCTCCATTCAGT 57.079 36.000 0.00 0.00 0.00 3.41
3846 7423 9.790344 ATTTTATACTCTCCAATCTCCATTCAG 57.210 33.333 0.00 0.00 0.00 3.02
3851 7428 9.784531 GATCAATTTTATACTCTCCAATCTCCA 57.215 33.333 0.00 0.00 0.00 3.86
3852 7429 9.784531 TGATCAATTTTATACTCTCCAATCTCC 57.215 33.333 0.00 0.00 0.00 3.71
3966 7543 0.030773 TCACTCTGTATCGCATCCGC 59.969 55.000 0.00 0.00 0.00 5.54
3969 7546 6.128956 GCTTTCTTATCACTCTGTATCGCATC 60.129 42.308 0.00 0.00 0.00 3.91
3970 7547 5.694006 GCTTTCTTATCACTCTGTATCGCAT 59.306 40.000 0.00 0.00 0.00 4.73
3971 7548 5.043903 GCTTTCTTATCACTCTGTATCGCA 58.956 41.667 0.00 0.00 0.00 5.10
3972 7549 5.285651 AGCTTTCTTATCACTCTGTATCGC 58.714 41.667 0.00 0.00 0.00 4.58


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

AutoCloner maintained by Alex Coulton.