Multiple sequence alignment - TraesCS5B01G032900

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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 TraesCS5B01G032900 chr5B 100.000 5460 0 0 336 5795 36222335 36216876 0.000000e+00 10083.0
1 TraesCS5B01G032900 chr5B 88.215 857 77 16 4952 5795 36445176 36446021 0.000000e+00 1002.0
2 TraesCS5B01G032900 chr5B 100.000 176 0 0 1 176 36222670 36222495 5.600000e-85 326.0
3 TraesCS5B01G032900 chr5B 85.139 323 27 9 4752 5053 36227936 36227614 1.570000e-80 311.0
4 TraesCS5B01G032900 chr5B 85.959 292 25 6 1274 1550 37736406 37736116 1.220000e-76 298.0
5 TraesCS5B01G032900 chr5D 91.983 4503 182 63 937 5336 41550512 41546086 0.000000e+00 6150.0
6 TraesCS5B01G032900 chr5D 89.336 844 68 16 4952 5784 41810483 41811315 0.000000e+00 1040.0
7 TraesCS5B01G032900 chr5D 90.625 288 14 9 336 612 41551000 41550715 2.550000e-98 370.0
8 TraesCS5B01G032900 chr5D 94.944 178 7 2 1 176 41551259 41551082 1.590000e-70 278.0
9 TraesCS5B01G032900 chr5D 83.959 293 29 6 1274 1550 428135290 428135580 1.240000e-66 265.0
10 TraesCS5B01G032900 chr5D 81.538 195 17 6 1373 1550 165175571 165175379 6.050000e-30 143.0
11 TraesCS5B01G032900 chr5D 81.538 130 13 6 2 131 412079915 412080033 4.780000e-16 97.1
12 TraesCS5B01G032900 chr5A 94.498 4017 120 39 990 4954 29896338 29892371 0.000000e+00 6100.0
13 TraesCS5B01G032900 chr5A 95.189 291 14 0 629 919 494285245 494285535 1.470000e-125 460.0
14 TraesCS5B01G032900 chr4B 92.904 761 25 8 1123 1863 645498953 645499704 0.000000e+00 1079.0
15 TraesCS5B01G032900 chr4B 94.631 298 15 1 623 919 104440194 104439897 1.470000e-125 460.0
16 TraesCS5B01G032900 chr4B 96.835 158 5 0 4223 4380 555698163 555698006 1.240000e-66 265.0
17 TraesCS5B01G032900 chr4B 96.835 158 5 0 4223 4380 578297655 578297812 1.240000e-66 265.0
18 TraesCS5B01G032900 chr7B 90.802 761 41 6 1123 1863 422868618 422869369 0.000000e+00 990.0
19 TraesCS5B01G032900 chr7B 93.471 291 19 0 629 919 272691896 272691606 3.210000e-117 433.0
20 TraesCS5B01G032900 chr7B 98.101 158 3 0 4223 4380 711414997 711414840 5.720000e-70 276.0
21 TraesCS5B01G032900 chr7B 83.562 292 32 9 1274 1550 676673006 676673296 5.760000e-65 259.0
22 TraesCS5B01G032900 chr7B 91.111 45 3 1 483 526 673283827 673283783 6.270000e-05 60.2
23 TraesCS5B01G032900 chr3B 95.862 290 12 0 628 917 217156761 217157050 2.440000e-128 470.0
24 TraesCS5B01G032900 chr3B 83.904 292 31 6 1274 1550 321022018 321021728 1.240000e-66 265.0
25 TraesCS5B01G032900 chr1A 95.548 292 13 0 628 919 44477471 44477762 8.790000e-128 468.0
26 TraesCS5B01G032900 chr6A 94.502 291 16 0 629 919 9328811 9329101 3.180000e-122 449.0
27 TraesCS5B01G032900 chr6A 93.814 291 17 1 629 919 162445004 162444715 2.480000e-118 436.0
28 TraesCS5B01G032900 chr6A 85.274 292 27 6 1274 1550 54393801 54393511 2.640000e-73 287.0
29 TraesCS5B01G032900 chr2B 94.502 291 16 0 629 919 790520067 790519777 3.180000e-122 449.0
30 TraesCS5B01G032900 chr4A 94.158 291 17 0 629 919 515453783 515453493 1.480000e-120 444.0
31 TraesCS5B01G032900 chr4A 96.429 140 5 0 4223 4362 133946040 133946179 1.260000e-56 231.0
32 TraesCS5B01G032900 chr1D 85.959 292 25 6 1274 1550 123238469 123238759 1.220000e-76 298.0
33 TraesCS5B01G032900 chr6B 96.689 151 5 0 4223 4373 689849885 689849735 9.640000e-63 252.0
34 TraesCS5B01G032900 chr1B 95.570 158 6 1 4223 4380 23782020 23782176 9.640000e-63 252.0
35 TraesCS5B01G032900 chrUn 95.364 151 7 0 4223 4373 61758501 61758351 2.090000e-59 241.0
36 TraesCS5B01G032900 chr6D 81.229 293 37 6 1274 1550 195980533 195980823 2.720000e-53 220.0


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 TraesCS5B01G032900 chr5B 36216876 36222670 5794 True 5204.5 10083 100.000000 1 5795 2 chr5B.!!$R3 5794
1 TraesCS5B01G032900 chr5B 36445176 36446021 845 False 1002.0 1002 88.215000 4952 5795 1 chr5B.!!$F1 843
2 TraesCS5B01G032900 chr5D 41546086 41551259 5173 True 2266.0 6150 92.517333 1 5336 3 chr5D.!!$R2 5335
3 TraesCS5B01G032900 chr5D 41810483 41811315 832 False 1040.0 1040 89.336000 4952 5784 1 chr5D.!!$F1 832
4 TraesCS5B01G032900 chr5A 29892371 29896338 3967 True 6100.0 6100 94.498000 990 4954 1 chr5A.!!$R1 3964
5 TraesCS5B01G032900 chr4B 645498953 645499704 751 False 1079.0 1079 92.904000 1123 1863 1 chr4B.!!$F2 740
6 TraesCS5B01G032900 chr7B 422868618 422869369 751 False 990.0 990 90.802000 1123 1863 1 chr7B.!!$F1 740

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
917 1105 0.164647 CTGTAGCAGCGTGACTTTGC 59.835 55.000 0.70 0.70 38.09 3.68 F
924 1112 0.322975 AGCGTGACTTTGCTGAGGAT 59.677 50.000 0.00 0.00 40.62 3.24 F
1452 1671 1.235724 GCTTTCGGTTGGTTAGTGCT 58.764 50.000 0.00 0.00 0.00 4.40 F
2234 2465 1.222936 CAGGGGCTGCTCCTGTTAG 59.777 63.158 35.28 14.49 44.97 2.34 F
3118 3351 1.078848 AGCATGACGGCAACTCTCC 60.079 57.895 0.00 0.00 35.83 3.71 F
3380 3613 1.802880 CGAAACTCCGGTAGATGCCTG 60.803 57.143 0.00 0.00 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1992 2211 1.485838 CGGAATCTGCTGCAGCTACG 61.486 60.0 36.61 25.76 42.66 3.51 R
2130 2349 2.605837 TCGAGGCTTAAACACACACA 57.394 45.0 0.00 0.00 0.00 3.72 R
3089 3322 1.372582 CGTCATGCTGCCTTGTGTAT 58.627 50.0 0.00 0.00 0.00 2.29 R
3472 3705 1.935933 ATCTGGCCATAACGTTCGAC 58.064 50.0 5.51 0.00 0.00 4.20 R
4254 4517 1.294659 GGCACTTCAGAACCTGAGCG 61.295 60.0 0.00 0.00 41.75 5.03 R
5242 5543 0.034574 ATGGGCACGCACCTTCAATA 60.035 50.0 0.00 0.00 0.00 1.90 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
45 47 6.911511 CCGCCATGCCATTAAAAATAAAAATG 59.088 34.615 0.00 0.00 0.00 2.32
50 52 9.372541 CATGCCATTAAAAATAAAAATGATCGC 57.627 29.630 0.00 0.00 33.38 4.58
387 394 8.637196 TTTCTCTCTCTAGAATACACACAAGA 57.363 34.615 0.00 0.00 35.48 3.02
388 395 8.815565 TTCTCTCTCTAGAATACACACAAGAT 57.184 34.615 0.00 0.00 30.54 2.40
389 396 8.219546 TCTCTCTCTAGAATACACACAAGATG 57.780 38.462 0.00 0.00 0.00 2.90
390 397 6.800543 TCTCTCTAGAATACACACAAGATGC 58.199 40.000 0.00 0.00 0.00 3.91
425 433 2.640316 AAACCTGTCCACAAGAGTCC 57.360 50.000 0.00 0.00 0.00 3.85
437 445 2.159014 ACAAGAGTCCGCAACTACAACA 60.159 45.455 0.00 0.00 38.74 3.33
444 452 5.001232 AGTCCGCAACTACAACAATACAAT 58.999 37.500 0.00 0.00 36.07 2.71
445 453 5.086058 GTCCGCAACTACAACAATACAATG 58.914 41.667 0.00 0.00 0.00 2.82
452 460 1.472480 ACAACAATACAATGCTCGCCC 59.528 47.619 0.00 0.00 0.00 6.13
454 462 1.832883 ACAATACAATGCTCGCCCAA 58.167 45.000 0.00 0.00 0.00 4.12
472 480 5.458015 GCCCAACTTACAACAATTGACTAC 58.542 41.667 13.59 0.00 0.00 2.73
483 491 6.040955 ACAACAATTGACTACAGAGAGTCTCA 59.959 38.462 22.05 0.62 45.21 3.27
515 524 4.492160 GCCGAGATCCGTGCGACA 62.492 66.667 0.00 0.00 36.31 4.35
537 546 1.074566 CAGGGAAGCTGGAAGAAAGGT 59.925 52.381 0.00 0.00 34.07 3.50
539 548 2.177888 AGGGAAGCTGGAAGAAAGGTTT 59.822 45.455 0.00 0.00 35.59 3.27
540 549 2.965831 GGGAAGCTGGAAGAAAGGTTTT 59.034 45.455 0.00 0.00 35.59 2.43
574 587 8.248945 TCTTTTCTTCTACCTCAACGGTTATAG 58.751 37.037 0.00 0.00 46.37 1.31
578 591 4.018490 TCTACCTCAACGGTTATAGCACA 58.982 43.478 0.00 0.00 46.37 4.57
628 816 4.012895 GTGAACCAGCCGCACACG 62.013 66.667 0.00 0.00 39.67 4.49
639 827 2.959275 CGCACACGGAACTAGATCC 58.041 57.895 8.98 8.98 36.05 3.36
640 828 0.456221 CGCACACGGAACTAGATCCT 59.544 55.000 16.28 1.93 37.34 3.24
641 829 1.534175 CGCACACGGAACTAGATCCTC 60.534 57.143 16.28 1.10 37.34 3.71
642 830 1.751924 GCACACGGAACTAGATCCTCT 59.248 52.381 16.28 0.00 37.34 3.69
643 831 2.950309 GCACACGGAACTAGATCCTCTA 59.050 50.000 16.28 0.00 37.34 2.43
644 832 3.380637 GCACACGGAACTAGATCCTCTAA 59.619 47.826 16.28 0.00 37.34 2.10
645 833 4.734108 GCACACGGAACTAGATCCTCTAAC 60.734 50.000 16.28 0.87 37.34 2.34
646 834 4.398358 CACACGGAACTAGATCCTCTAACA 59.602 45.833 16.28 0.00 37.34 2.41
647 835 5.067936 CACACGGAACTAGATCCTCTAACAT 59.932 44.000 16.28 0.00 37.34 2.71
648 836 5.657302 ACACGGAACTAGATCCTCTAACATT 59.343 40.000 16.28 0.00 37.34 2.71
649 837 6.832384 ACACGGAACTAGATCCTCTAACATTA 59.168 38.462 16.28 0.00 37.34 1.90
650 838 7.341256 ACACGGAACTAGATCCTCTAACATTAA 59.659 37.037 16.28 0.00 37.34 1.40
651 839 7.863375 CACGGAACTAGATCCTCTAACATTAAG 59.137 40.741 16.28 0.01 37.34 1.85
652 840 7.778853 ACGGAACTAGATCCTCTAACATTAAGA 59.221 37.037 16.28 0.00 37.34 2.10
653 841 8.630917 CGGAACTAGATCCTCTAACATTAAGAA 58.369 37.037 16.28 0.00 37.34 2.52
654 842 9.974980 GGAACTAGATCCTCTAACATTAAGAAG 57.025 37.037 11.67 0.00 36.50 2.85
655 843 9.974980 GAACTAGATCCTCTAACATTAAGAAGG 57.025 37.037 0.00 0.00 0.00 3.46
656 844 9.716556 AACTAGATCCTCTAACATTAAGAAGGA 57.283 33.333 0.00 0.00 0.00 3.36
657 845 9.716556 ACTAGATCCTCTAACATTAAGAAGGAA 57.283 33.333 0.00 0.00 29.80 3.36
660 848 9.052365 AGATCCTCTAACATTAAGAAGGAAAGT 57.948 33.333 0.00 0.00 29.80 2.66
661 849 9.674068 GATCCTCTAACATTAAGAAGGAAAGTT 57.326 33.333 0.00 0.00 29.80 2.66
669 857 8.554835 ACATTAAGAAGGAAAGTTAGAGAAGC 57.445 34.615 0.00 0.00 0.00 3.86
670 858 8.379331 ACATTAAGAAGGAAAGTTAGAGAAGCT 58.621 33.333 0.00 0.00 0.00 3.74
671 859 9.877178 CATTAAGAAGGAAAGTTAGAGAAGCTA 57.123 33.333 0.00 0.00 0.00 3.32
672 860 9.878667 ATTAAGAAGGAAAGTTAGAGAAGCTAC 57.121 33.333 0.00 0.00 0.00 3.58
673 861 6.919775 AGAAGGAAAGTTAGAGAAGCTACA 57.080 37.500 0.00 0.00 0.00 2.74
674 862 7.304497 AGAAGGAAAGTTAGAGAAGCTACAA 57.696 36.000 0.00 0.00 0.00 2.41
675 863 7.912719 AGAAGGAAAGTTAGAGAAGCTACAAT 58.087 34.615 0.00 0.00 0.00 2.71
676 864 8.038351 AGAAGGAAAGTTAGAGAAGCTACAATC 58.962 37.037 0.00 0.00 0.00 2.67
677 865 6.645306 AGGAAAGTTAGAGAAGCTACAATCC 58.355 40.000 0.00 0.00 0.00 3.01
678 866 6.442244 AGGAAAGTTAGAGAAGCTACAATCCT 59.558 38.462 0.00 0.00 0.00 3.24
679 867 6.759356 GGAAAGTTAGAGAAGCTACAATCCTC 59.241 42.308 0.00 0.00 0.00 3.71
680 868 7.364320 GGAAAGTTAGAGAAGCTACAATCCTCT 60.364 40.741 0.00 0.00 37.84 3.69
681 869 8.596781 AAAGTTAGAGAAGCTACAATCCTCTA 57.403 34.615 0.00 0.00 35.93 2.43
682 870 8.596781 AAGTTAGAGAAGCTACAATCCTCTAA 57.403 34.615 0.00 0.00 41.44 2.10
685 873 8.596781 TTAGAGAAGCTACAATCCTCTAACTT 57.403 34.615 0.00 0.00 39.87 2.66
686 874 7.489239 AGAGAAGCTACAATCCTCTAACTTT 57.511 36.000 0.00 0.00 32.95 2.66
687 875 7.552459 AGAGAAGCTACAATCCTCTAACTTTC 58.448 38.462 0.00 0.00 32.95 2.62
688 876 6.645306 AGAAGCTACAATCCTCTAACTTTCC 58.355 40.000 0.00 0.00 0.00 3.13
689 877 6.442244 AGAAGCTACAATCCTCTAACTTTCCT 59.558 38.462 0.00 0.00 0.00 3.36
690 878 6.628644 AGCTACAATCCTCTAACTTTCCTT 57.371 37.500 0.00 0.00 0.00 3.36
691 879 6.645306 AGCTACAATCCTCTAACTTTCCTTC 58.355 40.000 0.00 0.00 0.00 3.46
692 880 6.442244 AGCTACAATCCTCTAACTTTCCTTCT 59.558 38.462 0.00 0.00 0.00 2.85
693 881 7.037945 AGCTACAATCCTCTAACTTTCCTTCTT 60.038 37.037 0.00 0.00 0.00 2.52
694 882 7.065204 GCTACAATCCTCTAACTTTCCTTCTTG 59.935 40.741 0.00 0.00 0.00 3.02
695 883 5.707764 ACAATCCTCTAACTTTCCTTCTTGC 59.292 40.000 0.00 0.00 0.00 4.01
696 884 4.974645 TCCTCTAACTTTCCTTCTTGCA 57.025 40.909 0.00 0.00 0.00 4.08
697 885 5.304686 TCCTCTAACTTTCCTTCTTGCAA 57.695 39.130 0.00 0.00 0.00 4.08
698 886 5.880901 TCCTCTAACTTTCCTTCTTGCAAT 58.119 37.500 0.00 0.00 0.00 3.56
699 887 5.940470 TCCTCTAACTTTCCTTCTTGCAATC 59.060 40.000 0.00 0.00 0.00 2.67
700 888 5.124617 CCTCTAACTTTCCTTCTTGCAATCC 59.875 44.000 0.00 0.00 0.00 3.01
701 889 5.630121 TCTAACTTTCCTTCTTGCAATCCA 58.370 37.500 0.00 0.00 0.00 3.41
702 890 6.248433 TCTAACTTTCCTTCTTGCAATCCAT 58.752 36.000 0.00 0.00 0.00 3.41
703 891 7.402054 TCTAACTTTCCTTCTTGCAATCCATA 58.598 34.615 0.00 0.00 0.00 2.74
704 892 8.055181 TCTAACTTTCCTTCTTGCAATCCATAT 58.945 33.333 0.00 0.00 0.00 1.78
705 893 6.461110 ACTTTCCTTCTTGCAATCCATATG 57.539 37.500 0.00 0.00 0.00 1.78
706 894 6.189859 ACTTTCCTTCTTGCAATCCATATGA 58.810 36.000 3.65 0.00 0.00 2.15
707 895 6.837568 ACTTTCCTTCTTGCAATCCATATGAT 59.162 34.615 3.65 0.00 34.22 2.45
708 896 7.343833 ACTTTCCTTCTTGCAATCCATATGATT 59.656 33.333 3.65 0.00 44.67 2.57
709 897 8.765488 TTTCCTTCTTGCAATCCATATGATTA 57.235 30.769 3.65 0.00 41.85 1.75
710 898 8.765488 TTCCTTCTTGCAATCCATATGATTAA 57.235 30.769 3.65 0.00 41.85 1.40
711 899 8.400184 TCCTTCTTGCAATCCATATGATTAAG 57.600 34.615 3.65 4.70 41.85 1.85
712 900 7.449395 TCCTTCTTGCAATCCATATGATTAAGG 59.551 37.037 3.65 10.68 41.85 2.69
713 901 6.579666 TCTTGCAATCCATATGATTAAGGC 57.420 37.500 3.65 1.02 41.85 4.35
714 902 6.069994 TCTTGCAATCCATATGATTAAGGCA 58.930 36.000 3.65 3.67 41.85 4.75
715 903 6.550481 TCTTGCAATCCATATGATTAAGGCAA 59.450 34.615 3.65 10.85 42.69 4.52
716 904 6.728089 TGCAATCCATATGATTAAGGCAAA 57.272 33.333 3.65 0.00 41.85 3.68
717 905 7.122138 TGCAATCCATATGATTAAGGCAAAA 57.878 32.000 3.65 0.00 41.85 2.44
718 906 7.563020 TGCAATCCATATGATTAAGGCAAAAA 58.437 30.769 3.65 0.00 41.85 1.94
719 907 8.212312 TGCAATCCATATGATTAAGGCAAAAAT 58.788 29.630 3.65 0.00 41.85 1.82
720 908 9.709495 GCAATCCATATGATTAAGGCAAAAATA 57.291 29.630 3.65 0.00 41.85 1.40
793 981 9.636879 TCATTACATACAAACAATTTGATGGTG 57.363 29.630 8.24 7.82 43.26 4.17
794 982 9.636879 CATTACATACAAACAATTTGATGGTGA 57.363 29.630 8.24 1.13 43.26 4.02
867 1055 9.971744 TTAAATAATCCGCTAAACGTCTTTAAC 57.028 29.630 0.00 0.00 41.42 2.01
868 1056 7.599630 AATAATCCGCTAAACGTCTTTAACA 57.400 32.000 0.00 0.00 41.42 2.41
869 1057 7.781548 ATAATCCGCTAAACGTCTTTAACAT 57.218 32.000 0.00 0.00 41.42 2.71
870 1058 6.490566 AATCCGCTAAACGTCTTTAACATT 57.509 33.333 0.00 0.00 41.42 2.71
871 1059 5.520022 TCCGCTAAACGTCTTTAACATTC 57.480 39.130 0.00 0.00 41.42 2.67
872 1060 4.389687 TCCGCTAAACGTCTTTAACATTCC 59.610 41.667 0.00 0.00 41.42 3.01
873 1061 4.390909 CCGCTAAACGTCTTTAACATTCCT 59.609 41.667 0.00 0.00 41.42 3.36
874 1062 5.106830 CCGCTAAACGTCTTTAACATTCCTT 60.107 40.000 0.00 0.00 41.42 3.36
875 1063 6.013689 CGCTAAACGTCTTTAACATTCCTTC 58.986 40.000 0.00 0.00 36.87 3.46
876 1064 6.128634 CGCTAAACGTCTTTAACATTCCTTCT 60.129 38.462 0.00 0.00 36.87 2.85
877 1065 7.570691 CGCTAAACGTCTTTAACATTCCTTCTT 60.571 37.037 0.00 0.00 36.87 2.52
878 1066 8.074370 GCTAAACGTCTTTAACATTCCTTCTTT 58.926 33.333 0.00 0.00 0.00 2.52
905 1093 9.884636 AATTTACACTATGATTACACTGTAGCA 57.115 29.630 0.00 0.00 0.00 3.49
906 1094 8.926715 TTTACACTATGATTACACTGTAGCAG 57.073 34.615 0.00 0.00 37.52 4.24
907 1095 5.352284 ACACTATGATTACACTGTAGCAGC 58.648 41.667 0.00 0.00 34.37 5.25
908 1096 4.442403 CACTATGATTACACTGTAGCAGCG 59.558 45.833 0.00 0.00 34.37 5.18
909 1097 3.526931 ATGATTACACTGTAGCAGCGT 57.473 42.857 0.00 0.00 34.37 5.07
910 1098 2.606108 TGATTACACTGTAGCAGCGTG 58.394 47.619 0.66 0.00 34.37 5.34
911 1099 2.230266 TGATTACACTGTAGCAGCGTGA 59.770 45.455 5.28 0.00 34.37 4.35
912 1100 2.060326 TTACACTGTAGCAGCGTGAC 57.940 50.000 5.28 0.00 34.37 3.67
913 1101 1.244816 TACACTGTAGCAGCGTGACT 58.755 50.000 5.28 0.00 34.37 3.41
914 1102 0.389391 ACACTGTAGCAGCGTGACTT 59.611 50.000 5.28 0.00 34.37 3.01
915 1103 1.202533 ACACTGTAGCAGCGTGACTTT 60.203 47.619 5.28 0.00 34.37 2.66
916 1104 1.193203 CACTGTAGCAGCGTGACTTTG 59.807 52.381 0.00 0.00 34.37 2.77
917 1105 0.164647 CTGTAGCAGCGTGACTTTGC 59.835 55.000 0.70 0.70 38.09 3.68
922 1110 4.368391 AGCGTGACTTTGCTGAGG 57.632 55.556 0.00 0.00 40.62 3.86
923 1111 1.748403 AGCGTGACTTTGCTGAGGA 59.252 52.632 0.00 0.00 40.62 3.71
924 1112 0.322975 AGCGTGACTTTGCTGAGGAT 59.677 50.000 0.00 0.00 40.62 3.24
925 1113 1.550524 AGCGTGACTTTGCTGAGGATA 59.449 47.619 0.00 0.00 40.62 2.59
926 1114 1.661112 GCGTGACTTTGCTGAGGATAC 59.339 52.381 0.00 0.00 0.00 2.24
927 1115 2.930887 GCGTGACTTTGCTGAGGATACA 60.931 50.000 0.00 0.00 41.41 2.29
928 1116 2.668457 CGTGACTTTGCTGAGGATACAC 59.332 50.000 0.00 0.00 41.41 2.90
929 1117 3.003480 GTGACTTTGCTGAGGATACACC 58.997 50.000 0.00 0.00 41.41 4.16
973 1161 5.337009 CCCAATCCAAATGGTTCTTCTCAAG 60.337 44.000 0.00 0.00 36.14 3.02
1039 1227 1.796017 CCTCCTCCCCTTTCTCCTAC 58.204 60.000 0.00 0.00 0.00 3.18
1085 1276 2.585698 CCGCCCGCTAAACCCTAA 59.414 61.111 0.00 0.00 0.00 2.69
1452 1671 1.235724 GCTTTCGGTTGGTTAGTGCT 58.764 50.000 0.00 0.00 0.00 4.40
1719 1938 5.597806 TCAGTTAGTTACGGCTATGATTGG 58.402 41.667 0.00 0.00 0.00 3.16
1720 1939 5.128171 TCAGTTAGTTACGGCTATGATTGGT 59.872 40.000 0.00 0.00 0.00 3.67
1739 1958 6.385649 TTGGTGTTCAATAGAAACAGTTCC 57.614 37.500 0.00 0.00 35.08 3.62
1749 1968 4.595762 AGAAACAGTTCCGTTAGCTACA 57.404 40.909 0.00 0.00 33.92 2.74
1852 2071 2.370189 AGCTATCTTGGGATGTAGGTGC 59.630 50.000 0.00 0.00 33.71 5.01
1857 2076 3.393687 TCTTGGGATGTAGGTGCCTTAT 58.606 45.455 0.00 0.00 0.00 1.73
1858 2077 3.391296 TCTTGGGATGTAGGTGCCTTATC 59.609 47.826 0.00 1.82 0.00 1.75
1859 2078 3.060479 TGGGATGTAGGTGCCTTATCT 57.940 47.619 0.00 0.00 0.00 1.98
1860 2079 3.393687 TGGGATGTAGGTGCCTTATCTT 58.606 45.455 0.00 0.00 0.00 2.40
1861 2080 3.136443 TGGGATGTAGGTGCCTTATCTTG 59.864 47.826 0.00 0.00 0.00 3.02
1862 2081 3.391296 GGGATGTAGGTGCCTTATCTTGA 59.609 47.826 0.00 0.00 0.00 3.02
1863 2082 4.042187 GGGATGTAGGTGCCTTATCTTGAT 59.958 45.833 0.00 0.00 0.00 2.57
2042 2261 2.927871 GCATCCAGGCATGTCACAAAAC 60.928 50.000 0.00 0.00 0.00 2.43
2058 2277 8.409371 TGTCACAAAACTATGCTGTTGATAAAA 58.591 29.630 0.00 0.00 0.00 1.52
2110 2329 4.546570 CTGAGAAACGATATACATGCGGA 58.453 43.478 0.00 0.00 0.00 5.54
2177 2396 4.141733 CCAGGAACAAATTGTTTCCAGGTT 60.142 41.667 20.87 1.45 41.28 3.50
2234 2465 1.222936 CAGGGGCTGCTCCTGTTAG 59.777 63.158 35.28 14.49 44.97 2.34
2267 2498 6.152831 CCCCCAAAAGACGAAAAATAGAGATT 59.847 38.462 0.00 0.00 0.00 2.40
2425 2656 4.384056 ACAAATTCCTGACTCAGACACTG 58.616 43.478 7.69 0.00 32.44 3.66
2499 2730 4.717877 TGGGAAGCACAATATAGATGTGG 58.282 43.478 18.11 5.56 46.43 4.17
2779 3012 9.764363 TCTACAGGTACTTTATTCTATGCATTG 57.236 33.333 3.54 2.26 34.60 2.82
2916 3149 7.236529 TGGAGTAAGGTATACTCGTGGATATT 58.763 38.462 2.25 0.00 43.53 1.28
2961 3194 8.169977 TGGATATTTGTCCAGCATATCTTTTC 57.830 34.615 0.00 0.00 43.20 2.29
3080 3313 3.744309 AGGCTAGTTAAGGTATGGGGTT 58.256 45.455 0.00 0.00 0.00 4.11
3118 3351 1.078848 AGCATGACGGCAACTCTCC 60.079 57.895 0.00 0.00 35.83 3.71
3380 3613 1.802880 CGAAACTCCGGTAGATGCCTG 60.803 57.143 0.00 0.00 0.00 4.85
3472 3705 3.787476 GCGTCATGCCCAAAGTTTATACG 60.787 47.826 0.00 0.00 37.76 3.06
3489 3722 1.995991 CGTCGAACGTTATGGCCAG 59.004 57.895 13.05 0.00 36.74 4.85
3559 3792 5.653769 ACTTTATGTGAATCCCATGTCCAAG 59.346 40.000 0.00 0.00 0.00 3.61
4149 4382 2.118313 TGATGTCTGATTGCCTGGTG 57.882 50.000 0.00 0.00 0.00 4.17
4254 4517 8.137437 TCTTTGTCCTTTTTGATGATCAGAAAC 58.863 33.333 7.00 0.56 29.15 2.78
4385 4648 1.168407 ACACATGTGCAGTCACTGGC 61.168 55.000 25.68 0.00 43.49 4.85
4445 4708 2.379972 AGAGGTCTTGAGTCCATACCG 58.620 52.381 0.00 0.00 35.19 4.02
4498 4761 5.944007 AGGTAAATATTTCCGTATGCCATCC 59.056 40.000 3.39 0.00 0.00 3.51
4502 4765 2.983907 TTTCCGTATGCCATCCGTAA 57.016 45.000 0.00 0.00 0.00 3.18
4504 4767 3.478857 TTCCGTATGCCATCCGTAAAT 57.521 42.857 0.00 0.00 0.00 1.40
4506 4769 4.811969 TCCGTATGCCATCCGTAAATAT 57.188 40.909 0.00 0.00 0.00 1.28
4507 4770 5.155278 TCCGTATGCCATCCGTAAATATT 57.845 39.130 0.00 0.00 0.00 1.28
4508 4771 5.553123 TCCGTATGCCATCCGTAAATATTT 58.447 37.500 5.89 5.89 0.00 1.40
4510 4773 5.163794 CCGTATGCCATCCGTAAATATTTCC 60.164 44.000 3.39 0.00 0.00 3.13
4515 4778 5.998981 TGCCATCCGTAAATATTTCCGTATT 59.001 36.000 11.55 0.00 0.00 1.89
4518 4781 7.308109 GCCATCCGTAAATATTTCCGTATTCAA 60.308 37.037 11.55 0.00 0.00 2.69
4534 4797 9.582431 TCCGTATTCAATAGTTGTTCTCTTTAG 57.418 33.333 0.00 0.00 0.00 1.85
4677 4940 2.012673 GTCAATGAGCAGCTACCCTTG 58.987 52.381 0.00 0.00 0.00 3.61
4755 5018 5.278266 CGGAGAGGACATATCTGAAGAAGTC 60.278 48.000 0.00 0.00 0.00 3.01
4920 5205 1.682740 TTTTCTGGACGGGGTCAAAC 58.317 50.000 0.00 0.00 33.68 2.93
4942 5227 6.742559 ACATTTATAGGTCGGGATTACTGT 57.257 37.500 0.00 0.00 0.00 3.55
5112 5403 2.810439 TGCAAAAACCGGAAGAATGG 57.190 45.000 9.46 0.00 0.00 3.16
5120 5412 0.181350 CCGGAAGAATGGCCTAGCTT 59.819 55.000 3.32 4.10 0.00 3.74
5149 5441 8.571336 GTTTCTGATACTAATAATGGCTGCATT 58.429 33.333 0.50 2.42 0.00 3.56
5220 5521 8.978472 AGGTTGCTCTTAGTACAGTTGATAATA 58.022 33.333 0.00 0.00 0.00 0.98
5221 5522 9.595823 GGTTGCTCTTAGTACAGTTGATAATAA 57.404 33.333 0.00 0.00 0.00 1.40
5264 5566 0.250945 TGAAGGTGCGTGCCCATTTA 60.251 50.000 2.88 0.00 0.00 1.40
5275 5577 0.817654 GCCCATTTACCAGGTTCTGC 59.182 55.000 0.00 0.00 0.00 4.26
5276 5578 1.474330 CCCATTTACCAGGTTCTGCC 58.526 55.000 0.00 0.00 37.58 4.85
5278 5580 1.613255 CCATTTACCAGGTTCTGCCGT 60.613 52.381 0.00 0.00 43.70 5.68
5279 5581 1.468520 CATTTACCAGGTTCTGCCGTG 59.531 52.381 0.00 0.00 43.70 4.94
5280 5582 0.887387 TTTACCAGGTTCTGCCGTGC 60.887 55.000 0.00 0.00 43.70 5.34
5281 5583 2.741486 TTACCAGGTTCTGCCGTGCC 62.741 60.000 0.00 0.00 43.70 5.01
5303 5605 4.157656 CCAGTTTGACAGTCTTTTCAACCA 59.842 41.667 1.31 0.00 31.42 3.67
5306 5608 5.123979 AGTTTGACAGTCTTTTCAACCAGTC 59.876 40.000 1.31 0.00 31.42 3.51
5351 5654 5.759763 CCTTTTTGTTTCATTTCCCCTTCTG 59.240 40.000 0.00 0.00 0.00 3.02
5452 5755 9.695526 TTATGTCCATGAACAATCTTTTCAAAG 57.304 29.630 0.00 0.00 36.57 2.77
5462 5767 9.399403 GAACAATCTTTTCAAAGACTATGAACC 57.601 33.333 4.08 0.00 46.80 3.62
5499 5804 5.823045 GGTGGAAGGGAGATTGTATTACTTG 59.177 44.000 0.00 0.00 0.00 3.16
5510 5815 7.275920 AGATTGTATTACTTGAGGTGGATCAC 58.724 38.462 0.00 0.00 0.00 3.06
5731 6042 1.935799 AACATGCTTAATGGGCCACA 58.064 45.000 9.28 1.19 40.94 4.17
5732 6043 2.163810 ACATGCTTAATGGGCCACAT 57.836 45.000 9.28 4.20 40.94 3.21
5734 6045 2.033372 CATGCTTAATGGGCCACATCA 58.967 47.619 9.28 3.04 39.40 3.07
5736 6047 2.533916 TGCTTAATGGGCCACATCAAA 58.466 42.857 9.28 0.00 39.40 2.69
5784 6096 3.695830 TTCCTCAACTATTCCACGCTT 57.304 42.857 0.00 0.00 0.00 4.68
5790 6102 5.178252 CCTCAACTATTCCACGCTTATCATG 59.822 44.000 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 47 9.774742 GATGGTAATTTTATTATTCAGGCGATC 57.225 33.333 0.00 0.00 0.00 3.69
67 69 6.044682 GGCATTTTTGTTATCAAGAGGATGG 58.955 40.000 0.00 0.00 36.72 3.51
124 127 7.753309 ATTGTAGCATGGCGGTTATTATTAA 57.247 32.000 0.00 0.00 0.00 1.40
132 135 6.648879 ATTATTTATTGTAGCATGGCGGTT 57.351 33.333 0.00 0.00 0.00 4.44
425 433 4.722194 AGCATTGTATTGTTGTAGTTGCG 58.278 39.130 0.00 0.00 33.04 4.85
437 445 2.128771 AGTTGGGCGAGCATTGTATT 57.871 45.000 0.00 0.00 0.00 1.89
444 452 0.179043 TGTTGTAAGTTGGGCGAGCA 60.179 50.000 0.00 0.00 0.00 4.26
445 453 0.948678 TTGTTGTAAGTTGGGCGAGC 59.051 50.000 0.00 0.00 0.00 5.03
452 460 8.365399 TCTCTGTAGTCAATTGTTGTAAGTTG 57.635 34.615 5.13 0.00 0.00 3.16
454 462 7.727181 ACTCTCTGTAGTCAATTGTTGTAAGT 58.273 34.615 5.13 0.00 0.00 2.24
472 480 2.093764 GGTCAACCCATGAGACTCTCTG 60.094 54.545 7.58 1.64 39.19 3.35
483 491 2.676471 GGCGCAAGGTCAACCCAT 60.676 61.111 10.83 0.00 36.42 4.00
515 524 0.773644 TTTCTTCCAGCTTCCCTGCT 59.226 50.000 0.00 0.00 45.18 4.24
546 559 5.593183 CCGTTGAGGTAGAAGAAAAGAAC 57.407 43.478 0.00 0.00 34.51 3.01
574 587 3.067742 AGCTGATTAGAAATGCCATGTGC 59.932 43.478 0.00 0.00 41.77 4.57
578 591 4.337555 GTGACAGCTGATTAGAAATGCCAT 59.662 41.667 23.35 0.00 0.00 4.40
622 810 2.211353 GAGGATCTAGTTCCGTGTGC 57.789 55.000 13.13 0.67 40.94 4.57
635 823 9.674068 AACTTTCCTTCTTAATGTTAGAGGATC 57.326 33.333 0.00 0.00 0.00 3.36
643 831 9.004717 GCTTCTCTAACTTTCCTTCTTAATGTT 57.995 33.333 0.00 0.00 0.00 2.71
644 832 8.379331 AGCTTCTCTAACTTTCCTTCTTAATGT 58.621 33.333 0.00 0.00 0.00 2.71
645 833 8.785329 AGCTTCTCTAACTTTCCTTCTTAATG 57.215 34.615 0.00 0.00 0.00 1.90
646 834 9.878667 GTAGCTTCTCTAACTTTCCTTCTTAAT 57.121 33.333 0.00 0.00 0.00 1.40
647 835 8.867097 TGTAGCTTCTCTAACTTTCCTTCTTAA 58.133 33.333 0.00 0.00 0.00 1.85
648 836 8.418597 TGTAGCTTCTCTAACTTTCCTTCTTA 57.581 34.615 0.00 0.00 0.00 2.10
649 837 7.304497 TGTAGCTTCTCTAACTTTCCTTCTT 57.696 36.000 0.00 0.00 0.00 2.52
650 838 6.919775 TGTAGCTTCTCTAACTTTCCTTCT 57.080 37.500 0.00 0.00 0.00 2.85
651 839 7.279090 GGATTGTAGCTTCTCTAACTTTCCTTC 59.721 40.741 0.00 0.00 0.00 3.46
652 840 7.037945 AGGATTGTAGCTTCTCTAACTTTCCTT 60.038 37.037 0.00 0.00 0.00 3.36
653 841 6.442244 AGGATTGTAGCTTCTCTAACTTTCCT 59.558 38.462 0.00 0.00 0.00 3.36
654 842 6.645306 AGGATTGTAGCTTCTCTAACTTTCC 58.355 40.000 0.00 0.00 0.00 3.13
655 843 7.552459 AGAGGATTGTAGCTTCTCTAACTTTC 58.448 38.462 0.00 0.00 33.58 2.62
656 844 7.489239 AGAGGATTGTAGCTTCTCTAACTTT 57.511 36.000 0.00 0.00 33.58 2.66
657 845 8.596781 TTAGAGGATTGTAGCTTCTCTAACTT 57.403 34.615 0.00 0.00 40.19 2.66
660 848 8.596781 AAGTTAGAGGATTGTAGCTTCTCTAA 57.403 34.615 0.00 0.00 41.73 2.10
661 849 8.596781 AAAGTTAGAGGATTGTAGCTTCTCTA 57.403 34.615 0.00 0.00 36.39 2.43
662 850 7.364320 GGAAAGTTAGAGGATTGTAGCTTCTCT 60.364 40.741 0.00 0.00 38.26 3.10
663 851 6.759356 GGAAAGTTAGAGGATTGTAGCTTCTC 59.241 42.308 0.00 0.00 0.00 2.87
664 852 6.442244 AGGAAAGTTAGAGGATTGTAGCTTCT 59.558 38.462 0.00 0.00 0.00 2.85
665 853 6.645306 AGGAAAGTTAGAGGATTGTAGCTTC 58.355 40.000 0.00 0.00 0.00 3.86
666 854 6.628644 AGGAAAGTTAGAGGATTGTAGCTT 57.371 37.500 0.00 0.00 0.00 3.74
667 855 6.442244 AGAAGGAAAGTTAGAGGATTGTAGCT 59.558 38.462 0.00 0.00 0.00 3.32
668 856 6.645306 AGAAGGAAAGTTAGAGGATTGTAGC 58.355 40.000 0.00 0.00 0.00 3.58
669 857 7.065204 GCAAGAAGGAAAGTTAGAGGATTGTAG 59.935 40.741 0.00 0.00 0.00 2.74
670 858 6.879458 GCAAGAAGGAAAGTTAGAGGATTGTA 59.121 38.462 0.00 0.00 0.00 2.41
671 859 5.707764 GCAAGAAGGAAAGTTAGAGGATTGT 59.292 40.000 0.00 0.00 0.00 2.71
672 860 5.707298 TGCAAGAAGGAAAGTTAGAGGATTG 59.293 40.000 0.00 0.00 0.00 2.67
673 861 5.880901 TGCAAGAAGGAAAGTTAGAGGATT 58.119 37.500 0.00 0.00 0.00 3.01
674 862 5.505181 TGCAAGAAGGAAAGTTAGAGGAT 57.495 39.130 0.00 0.00 0.00 3.24
675 863 4.974645 TGCAAGAAGGAAAGTTAGAGGA 57.025 40.909 0.00 0.00 0.00 3.71
676 864 5.124617 GGATTGCAAGAAGGAAAGTTAGAGG 59.875 44.000 4.94 0.00 0.00 3.69
677 865 5.707298 TGGATTGCAAGAAGGAAAGTTAGAG 59.293 40.000 4.94 0.00 0.00 2.43
678 866 5.630121 TGGATTGCAAGAAGGAAAGTTAGA 58.370 37.500 4.94 0.00 0.00 2.10
679 867 5.964958 TGGATTGCAAGAAGGAAAGTTAG 57.035 39.130 4.94 0.00 0.00 2.34
680 868 7.833682 TCATATGGATTGCAAGAAGGAAAGTTA 59.166 33.333 4.94 0.00 0.00 2.24
681 869 6.664816 TCATATGGATTGCAAGAAGGAAAGTT 59.335 34.615 4.94 0.00 0.00 2.66
682 870 6.189859 TCATATGGATTGCAAGAAGGAAAGT 58.810 36.000 4.94 0.00 0.00 2.66
683 871 6.704289 TCATATGGATTGCAAGAAGGAAAG 57.296 37.500 4.94 0.00 0.00 2.62
684 872 7.664552 AATCATATGGATTGCAAGAAGGAAA 57.335 32.000 4.94 0.00 44.51 3.13
685 873 8.765488 TTAATCATATGGATTGCAAGAAGGAA 57.235 30.769 4.94 0.00 45.70 3.36
686 874 7.449395 CCTTAATCATATGGATTGCAAGAAGGA 59.551 37.037 4.94 0.00 43.38 3.36
687 875 7.600065 CCTTAATCATATGGATTGCAAGAAGG 58.400 38.462 4.94 7.22 45.70 3.46
688 876 7.088905 GCCTTAATCATATGGATTGCAAGAAG 58.911 38.462 4.94 2.80 45.70 2.85
689 877 6.550481 TGCCTTAATCATATGGATTGCAAGAA 59.450 34.615 4.94 0.00 45.70 2.52
690 878 6.069994 TGCCTTAATCATATGGATTGCAAGA 58.930 36.000 4.94 0.00 45.70 3.02
691 879 6.335471 TGCCTTAATCATATGGATTGCAAG 57.665 37.500 4.94 3.96 45.70 4.01
692 880 6.728089 TTGCCTTAATCATATGGATTGCAA 57.272 33.333 0.00 0.00 45.70 4.08
693 881 6.728089 TTTGCCTTAATCATATGGATTGCA 57.272 33.333 2.13 5.40 45.70 4.08
694 882 8.611654 ATTTTTGCCTTAATCATATGGATTGC 57.388 30.769 2.13 3.19 45.70 3.56
767 955 9.636879 CACCATCAAATTGTTTGTATGTAATGA 57.363 29.630 2.74 0.00 41.36 2.57
768 956 9.636879 TCACCATCAAATTGTTTGTATGTAATG 57.363 29.630 2.74 0.00 41.36 1.90
841 1029 9.971744 GTTAAAGACGTTTAGCGGATTATTTAA 57.028 29.630 0.00 0.00 46.52 1.52
842 1030 9.149225 TGTTAAAGACGTTTAGCGGATTATTTA 57.851 29.630 0.00 0.00 46.52 1.40
843 1031 8.031848 TGTTAAAGACGTTTAGCGGATTATTT 57.968 30.769 0.00 0.00 46.52 1.40
844 1032 7.599630 TGTTAAAGACGTTTAGCGGATTATT 57.400 32.000 0.00 0.00 46.52 1.40
845 1033 7.781548 ATGTTAAAGACGTTTAGCGGATTAT 57.218 32.000 0.00 0.00 46.52 1.28
846 1034 7.201548 GGAATGTTAAAGACGTTTAGCGGATTA 60.202 37.037 0.00 0.00 46.52 1.75
847 1035 6.402875 GGAATGTTAAAGACGTTTAGCGGATT 60.403 38.462 0.00 0.00 46.52 3.01
848 1036 5.064325 GGAATGTTAAAGACGTTTAGCGGAT 59.936 40.000 0.00 0.00 46.52 4.18
849 1037 4.389687 GGAATGTTAAAGACGTTTAGCGGA 59.610 41.667 0.00 0.00 46.52 5.54
850 1038 4.390909 AGGAATGTTAAAGACGTTTAGCGG 59.609 41.667 0.00 0.00 46.52 5.52
852 1040 7.130303 AGAAGGAATGTTAAAGACGTTTAGC 57.870 36.000 0.00 0.00 37.60 3.09
879 1067 9.884636 TGCTACAGTGTAATCATAGTGTAAATT 57.115 29.630 4.21 0.00 0.00 1.82
880 1068 9.534565 CTGCTACAGTGTAATCATAGTGTAAAT 57.465 33.333 4.21 0.00 0.00 1.40
881 1069 7.491372 GCTGCTACAGTGTAATCATAGTGTAAA 59.509 37.037 4.21 0.00 33.43 2.01
882 1070 6.978659 GCTGCTACAGTGTAATCATAGTGTAA 59.021 38.462 4.21 0.00 33.43 2.41
883 1071 6.504398 GCTGCTACAGTGTAATCATAGTGTA 58.496 40.000 4.21 0.00 33.43 2.90
884 1072 5.352284 GCTGCTACAGTGTAATCATAGTGT 58.648 41.667 4.21 0.00 33.43 3.55
885 1073 4.442403 CGCTGCTACAGTGTAATCATAGTG 59.558 45.833 4.21 2.18 37.23 2.74
886 1074 4.611943 CGCTGCTACAGTGTAATCATAGT 58.388 43.478 4.21 0.00 37.23 2.12
896 1084 1.193203 CAAAGTCACGCTGCTACAGTG 59.807 52.381 6.60 6.60 46.11 3.66
897 1085 1.502231 CAAAGTCACGCTGCTACAGT 58.498 50.000 0.00 0.00 33.43 3.55
898 1086 0.164647 GCAAAGTCACGCTGCTACAG 59.835 55.000 0.00 0.00 33.20 2.74
899 1087 0.249868 AGCAAAGTCACGCTGCTACA 60.250 50.000 4.96 0.00 44.44 2.74
900 1088 2.533318 AGCAAAGTCACGCTGCTAC 58.467 52.632 4.96 0.00 44.44 3.58
905 1093 0.322975 ATCCTCAGCAAAGTCACGCT 59.677 50.000 0.00 0.00 39.66 5.07
906 1094 1.661112 GTATCCTCAGCAAAGTCACGC 59.339 52.381 0.00 0.00 0.00 5.34
907 1095 2.668457 GTGTATCCTCAGCAAAGTCACG 59.332 50.000 0.00 0.00 0.00 4.35
908 1096 3.003480 GGTGTATCCTCAGCAAAGTCAC 58.997 50.000 0.00 0.00 36.09 3.67
909 1097 2.906389 AGGTGTATCCTCAGCAAAGTCA 59.094 45.455 0.00 0.00 44.42 3.41
910 1098 3.618690 AGGTGTATCCTCAGCAAAGTC 57.381 47.619 0.00 0.00 44.42 3.01
921 1109 2.171725 GTGCCGCGAAGGTGTATCC 61.172 63.158 8.23 0.00 43.70 2.59
922 1110 2.514013 CGTGCCGCGAAGGTGTATC 61.514 63.158 8.23 0.00 44.77 2.24
923 1111 2.508439 CGTGCCGCGAAGGTGTAT 60.508 61.111 8.23 0.00 44.77 2.29
985 1173 3.118665 CGAGCCATTTGGATTGGGATTTT 60.119 43.478 0.00 0.00 37.39 1.82
1085 1276 2.370403 TGGTCAGGGGTTTGGGGT 60.370 61.111 0.00 0.00 0.00 4.95
1452 1671 4.133078 GGCAAACAAAATGGGAAATCACA 58.867 39.130 0.00 0.00 0.00 3.58
1719 1938 5.668558 ACGGAACTGTTTCTATTGAACAC 57.331 39.130 0.00 0.00 31.71 3.32
1720 1939 6.073440 GCTAACGGAACTGTTTCTATTGAACA 60.073 38.462 4.34 0.00 33.32 3.18
1767 1986 9.449719 CTGACAAAACTGTTTCCCTATAACTAT 57.550 33.333 6.20 0.00 0.00 2.12
1768 1987 8.653191 TCTGACAAAACTGTTTCCCTATAACTA 58.347 33.333 6.20 0.00 0.00 2.24
1852 2071 8.239998 GGAGTTTGTTCAAGAATCAAGATAAGG 58.760 37.037 0.00 0.00 0.00 2.69
1857 2076 6.428159 GCTAGGAGTTTGTTCAAGAATCAAGA 59.572 38.462 0.00 0.00 0.00 3.02
1858 2077 6.429385 AGCTAGGAGTTTGTTCAAGAATCAAG 59.571 38.462 0.00 0.00 0.00 3.02
1859 2078 6.299141 AGCTAGGAGTTTGTTCAAGAATCAA 58.701 36.000 0.00 0.00 0.00 2.57
1860 2079 5.869579 AGCTAGGAGTTTGTTCAAGAATCA 58.130 37.500 0.00 0.00 0.00 2.57
1861 2080 5.934625 TGAGCTAGGAGTTTGTTCAAGAATC 59.065 40.000 0.00 0.00 0.00 2.52
1862 2081 5.869579 TGAGCTAGGAGTTTGTTCAAGAAT 58.130 37.500 0.00 0.00 0.00 2.40
1863 2082 5.163301 ACTGAGCTAGGAGTTTGTTCAAGAA 60.163 40.000 0.00 0.00 0.00 2.52
1992 2211 1.485838 CGGAATCTGCTGCAGCTACG 61.486 60.000 36.61 25.76 42.66 3.51
2058 2277 9.561069 CTACCTAACAGGCTAACATGATTTAAT 57.439 33.333 0.00 0.00 39.63 1.40
2130 2349 2.605837 TCGAGGCTTAAACACACACA 57.394 45.000 0.00 0.00 0.00 3.72
2177 2396 5.546621 AAGTGTTGTTTCAGCTACTCCTA 57.453 39.130 0.00 0.00 0.00 2.94
2267 2498 5.944007 TCACTGACATACTACTCTAACTGCA 59.056 40.000 0.00 0.00 0.00 4.41
2344 2575 4.164030 ACATAAATGCAAATTTCCCCTCCC 59.836 41.667 0.00 0.00 0.00 4.30
2396 2627 5.046591 TCTGAGTCAGGAATTTGTTATCGGT 60.047 40.000 19.99 0.00 31.51 4.69
2425 2656 3.002553 CACAATGCAAAAGGGTTTCAAGC 59.997 43.478 0.00 0.00 0.00 4.01
2539 2770 3.367646 CTCCCTACAGTAGAGGACACA 57.632 52.381 9.38 0.00 35.99 3.72
3050 3283 2.007608 CTTAACTAGCCTTGAACCCGC 58.992 52.381 0.00 0.00 0.00 6.13
3080 3313 4.124238 GCTGCCTTGTGTATCGGTTAATA 58.876 43.478 0.00 0.00 0.00 0.98
3089 3322 1.372582 CGTCATGCTGCCTTGTGTAT 58.627 50.000 0.00 0.00 0.00 2.29
3380 3613 3.565307 TCCCCTTAAATCACATGGCATC 58.435 45.455 0.00 0.00 0.00 3.91
3472 3705 1.935933 ATCTGGCCATAACGTTCGAC 58.064 50.000 5.51 0.00 0.00 4.20
3559 3792 9.061610 CAACACGAAATAAATCAAACTATCCAC 57.938 33.333 0.00 0.00 0.00 4.02
3910 4143 7.389607 ACAACGCTATTACCATTATTCCATACC 59.610 37.037 0.00 0.00 0.00 2.73
3911 4144 8.319143 ACAACGCTATTACCATTATTCCATAC 57.681 34.615 0.00 0.00 0.00 2.39
4149 4382 2.890945 ACAGAAGGTATGCAAACCAACC 59.109 45.455 0.00 0.00 42.40 3.77
4254 4517 1.294659 GGCACTTCAGAACCTGAGCG 61.295 60.000 0.00 0.00 41.75 5.03
4385 4648 3.822735 TCTCCAACTCAGAAATGCCTTTG 59.177 43.478 0.00 0.00 0.00 2.77
4506 4769 8.842358 AAGAGAACAACTATTGAATACGGAAA 57.158 30.769 0.00 0.00 0.00 3.13
4507 4770 8.842358 AAAGAGAACAACTATTGAATACGGAA 57.158 30.769 0.00 0.00 30.01 4.30
4508 4771 9.582431 CTAAAGAGAACAACTATTGAATACGGA 57.418 33.333 0.00 0.00 30.01 4.69
4518 4781 9.289782 AGCAACAATTCTAAAGAGAACAACTAT 57.710 29.630 0.00 0.00 44.50 2.12
4534 4797 6.917477 TCATGTAACAACTGAAGCAACAATTC 59.083 34.615 0.00 0.00 0.00 2.17
4657 4920 2.012673 CAAGGGTAGCTGCTCATTGAC 58.987 52.381 4.91 0.00 0.00 3.18
4677 4940 6.768381 CCCTCAAGTCTATAGTCCAAAAATCC 59.232 42.308 0.00 0.00 0.00 3.01
4755 5018 1.963172 TGCTGAATATGCTGCTCAGG 58.037 50.000 13.26 1.91 37.62 3.86
4920 5205 6.990349 ACAACAGTAATCCCGACCTATAAATG 59.010 38.462 0.00 0.00 0.00 2.32
4942 5227 5.069119 ACACAGATCTGTAGAACAGTGACAA 59.931 40.000 27.44 0.00 46.03 3.18
5048 5335 6.693761 TTCGATTTGTGCATGATTGAAAAG 57.306 33.333 0.00 0.00 0.00 2.27
5112 5403 4.508662 AGTATCAGAAACACAAGCTAGGC 58.491 43.478 0.00 0.00 0.00 3.93
5120 5412 7.012327 GCAGCCATTATTAGTATCAGAAACACA 59.988 37.037 0.00 0.00 0.00 3.72
5149 5441 2.092968 AGAAATTAGTGGAGATGCGGCA 60.093 45.455 4.58 4.58 0.00 5.69
5153 5445 3.198068 TGCGAGAAATTAGTGGAGATGC 58.802 45.455 0.00 0.00 0.00 3.91
5242 5543 0.034574 ATGGGCACGCACCTTCAATA 60.035 50.000 0.00 0.00 0.00 1.90
5264 5566 4.643387 GGCACGGCAGAACCTGGT 62.643 66.667 0.00 0.00 35.61 4.00
5275 5577 0.532862 AGACTGTCAAACTGGCACGG 60.533 55.000 10.88 0.00 42.99 4.94
5276 5578 1.299541 AAGACTGTCAAACTGGCACG 58.700 50.000 10.88 0.00 0.00 5.34
5278 5580 3.351740 TGAAAAGACTGTCAAACTGGCA 58.648 40.909 10.88 0.00 0.00 4.92
5279 5581 4.105486 GTTGAAAAGACTGTCAAACTGGC 58.895 43.478 10.88 0.00 35.60 4.85
5280 5582 4.157656 TGGTTGAAAAGACTGTCAAACTGG 59.842 41.667 10.88 0.00 41.20 4.00
5281 5583 5.106157 ACTGGTTGAAAAGACTGTCAAACTG 60.106 40.000 10.88 16.34 41.20 3.16
5426 5729 9.695526 CTTTGAAAAGATTGTTCATGGACATAA 57.304 29.630 7.89 0.00 38.28 1.90
5467 5772 2.638325 TCTCCCTTCCACCCACAATAA 58.362 47.619 0.00 0.00 0.00 1.40
5468 5773 2.352561 TCTCCCTTCCACCCACAATA 57.647 50.000 0.00 0.00 0.00 1.90
5469 5774 1.686236 ATCTCCCTTCCACCCACAAT 58.314 50.000 0.00 0.00 0.00 2.71
5704 6015 6.382570 TGGCCCATTAAGCATGTTACTATTTT 59.617 34.615 0.00 0.00 0.00 1.82
5708 6019 4.204012 GTGGCCCATTAAGCATGTTACTA 58.796 43.478 0.00 0.00 0.00 1.82
5710 6021 2.757868 TGTGGCCCATTAAGCATGTTAC 59.242 45.455 0.00 0.00 0.00 2.50
5731 6042 0.620556 ACTCAGATGGCCGGTTTGAT 59.379 50.000 1.90 0.00 0.00 2.57
5732 6043 0.321564 CACTCAGATGGCCGGTTTGA 60.322 55.000 1.90 0.00 0.00 2.69
5734 6045 0.606401 CACACTCAGATGGCCGGTTT 60.606 55.000 1.90 0.00 0.00 3.27
5736 6047 1.913262 TCACACTCAGATGGCCGGT 60.913 57.895 1.90 0.00 0.00 5.28


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

AutoCloner maintained by Alex Coulton.