Multiple sequence alignment - TraesCS5A01G287700

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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 TraesCS5A01G287700 chr5A 100.000 3539 0 0 1 3539 495398423 495394885 0.000000e+00 6536.0
1 TraesCS5A01G287700 chr5A 89.233 1839 146 14 906 2744 663336583 663338369 0.000000e+00 2252.0
2 TraesCS5A01G287700 chr5A 88.877 1843 149 15 906 2748 495728881 495727095 0.000000e+00 2217.0
3 TraesCS5A01G287700 chr5A 90.435 345 24 7 2451 2793 495585157 495584820 2.510000e-121 446.0
4 TraesCS5A01G287700 chr5A 90.110 182 11 4 2567 2748 495586877 495586703 2.750000e-56 230.0
5 TraesCS5A01G287700 chr5A 90.909 110 10 0 768 877 495589430 495589321 7.920000e-32 148.0
6 TraesCS5A01G287700 chr5A 90.000 110 11 0 768 877 495730128 495730019 3.680000e-30 143.0
7 TraesCS5A01G287700 chr5D 96.205 2240 62 8 602 2829 393619846 393617618 0.000000e+00 3644.0
8 TraesCS5A01G287700 chr5D 90.249 1887 128 15 906 2791 393739210 393737379 0.000000e+00 2414.0
9 TraesCS5A01G287700 chr5D 86.216 1509 197 5 1013 2520 549324009 549325507 0.000000e+00 1624.0
10 TraesCS5A01G287700 chr5D 94.991 579 21 4 1 579 393620757 393620187 0.000000e+00 902.0
11 TraesCS5A01G287700 chr5D 92.400 500 35 3 3001 3499 393617628 393617131 0.000000e+00 710.0
12 TraesCS5A01G287700 chr5D 82.306 503 75 12 3001 3499 393736875 393736383 1.170000e-114 424.0
13 TraesCS5A01G287700 chr5D 93.229 192 12 1 2821 3012 406201093 406201283 7.480000e-72 281.0
14 TraesCS5A01G287700 chr5D 84.768 151 20 2 2681 2829 393737014 393736865 7.920000e-32 148.0
15 TraesCS5A01G287700 chr5B 95.426 2252 86 11 585 2829 473520565 473518324 0.000000e+00 3572.0
16 TraesCS5A01G287700 chr5B 89.984 1887 141 16 906 2790 473610435 473608595 0.000000e+00 2394.0
17 TraesCS5A01G287700 chr5B 85.835 1539 198 13 999 2527 700945315 700946843 0.000000e+00 1616.0
18 TraesCS5A01G287700 chr5B 86.100 1518 192 13 1013 2527 701003445 701001944 0.000000e+00 1616.0
19 TraesCS5A01G287700 chr5B 93.122 567 19 9 1 567 473602943 473602397 0.000000e+00 813.0
20 TraesCS5A01G287700 chr5B 93.273 550 29 2 745 1293 473594553 473594011 0.000000e+00 804.0
21 TraesCS5A01G287700 chr5B 94.845 485 17 4 97 579 473521098 473520620 0.000000e+00 750.0
22 TraesCS5A01G287700 chr5B 84.615 507 39 10 1 476 473624563 473624065 5.350000e-128 468.0
23 TraesCS5A01G287700 chr5B 83.135 504 70 13 3001 3499 473608116 473607623 2.510000e-121 446.0
24 TraesCS5A01G287700 chr5B 94.186 172 7 3 587 757 473602299 473602130 3.500000e-65 259.0
25 TraesCS5A01G287700 chr5B 85.714 147 19 1 2685 2829 473608252 473608106 1.700000e-33 154.0
26 TraesCS5A01G287700 chr5B 85.366 82 6 3 524 605 473602398 473602323 2.930000e-11 80.5
27 TraesCS5A01G287700 chr5B 90.741 54 4 1 3487 3539 702223558 702223505 1.760000e-08 71.3
28 TraesCS5A01G287700 chr4A 86.574 1512 189 8 1013 2520 620950969 620952470 0.000000e+00 1655.0
29 TraesCS5A01G287700 chr4A 94.565 184 10 0 2828 3011 579437848 579437665 5.780000e-73 285.0
30 TraesCS5A01G287700 chr7B 87.481 1294 152 7 1224 2513 559561840 559563127 0.000000e+00 1483.0
31 TraesCS5A01G287700 chr1A 94.271 192 9 2 2816 3007 337152804 337152993 3.460000e-75 292.0
32 TraesCS5A01G287700 chr1A 91.304 46 4 0 3494 3539 543775934 543775889 2.950000e-06 63.9
33 TraesCS5A01G287700 chr7A 95.580 181 7 1 2830 3009 671420710 671420890 4.470000e-74 289.0
34 TraesCS5A01G287700 chr7A 92.462 199 10 5 2830 3026 57976888 57977083 2.690000e-71 279.0
35 TraesCS5A01G287700 chr7A 92.000 50 3 1 3488 3537 543343861 543343909 6.340000e-08 69.4
36 TraesCS5A01G287700 chr2A 93.651 189 11 1 2823 3010 3370775 3370963 7.480000e-72 281.0
37 TraesCS5A01G287700 chr2A 92.268 194 13 2 2829 3022 470645822 470645631 1.250000e-69 274.0
38 TraesCS5A01G287700 chr7D 92.000 200 12 2 2816 3012 610780767 610780965 9.680000e-71 278.0
39 TraesCS5A01G287700 chr7D 91.837 196 16 0 2825 3020 616769166 616769361 1.250000e-69 274.0
40 TraesCS5A01G287700 chr2D 92.308 52 4 0 3488 3539 96794168 96794219 1.360000e-09 75.0
41 TraesCS5A01G287700 chr3D 93.478 46 3 0 3494 3539 368287655 368287610 6.340000e-08 69.4
42 TraesCS5A01G287700 chr1D 91.667 48 4 0 3492 3539 224137307 224137260 2.280000e-07 67.6
43 TraesCS5A01G287700 chr6B 91.304 46 4 0 3494 3539 150785731 150785776 2.950000e-06 63.9
44 TraesCS5A01G287700 chr6B 85.484 62 5 3 3478 3537 135990339 135990398 1.060000e-05 62.1
45 TraesCS5A01G287700 chr3B 91.304 46 4 0 3494 3539 672373753 672373708 2.950000e-06 63.9


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 TraesCS5A01G287700 chr5A 495394885 495398423 3538 True 6536.000000 6536 100.000000 1 3539 1 chr5A.!!$R1 3538
1 TraesCS5A01G287700 chr5A 663336583 663338369 1786 False 2252.000000 2252 89.233000 906 2744 1 chr5A.!!$F1 1838
2 TraesCS5A01G287700 chr5A 495727095 495730128 3033 True 1180.000000 2217 89.438500 768 2748 2 chr5A.!!$R3 1980
3 TraesCS5A01G287700 chr5A 495584820 495589430 4610 True 274.666667 446 90.484667 768 2793 3 chr5A.!!$R2 2025
4 TraesCS5A01G287700 chr5D 393617131 393620757 3626 True 1752.000000 3644 94.532000 1 3499 3 chr5D.!!$R1 3498
5 TraesCS5A01G287700 chr5D 549324009 549325507 1498 False 1624.000000 1624 86.216000 1013 2520 1 chr5D.!!$F2 1507
6 TraesCS5A01G287700 chr5D 393736383 393739210 2827 True 995.333333 2414 85.774333 906 3499 3 chr5D.!!$R2 2593
7 TraesCS5A01G287700 chr5B 473518324 473521098 2774 True 2161.000000 3572 95.135500 97 2829 2 chr5B.!!$R5 2732
8 TraesCS5A01G287700 chr5B 700945315 700946843 1528 False 1616.000000 1616 85.835000 999 2527 1 chr5B.!!$F1 1528
9 TraesCS5A01G287700 chr5B 701001944 701003445 1501 True 1616.000000 1616 86.100000 1013 2527 1 chr5B.!!$R3 1514
10 TraesCS5A01G287700 chr5B 473607623 473610435 2812 True 998.000000 2394 86.277667 906 3499 3 chr5B.!!$R7 2593
11 TraesCS5A01G287700 chr5B 473594011 473594553 542 True 804.000000 804 93.273000 745 1293 1 chr5B.!!$R1 548
12 TraesCS5A01G287700 chr5B 473602130 473602943 813 True 384.166667 813 90.891333 1 757 3 chr5B.!!$R6 756
13 TraesCS5A01G287700 chr4A 620950969 620952470 1501 False 1655.000000 1655 86.574000 1013 2520 1 chr4A.!!$F1 1507
14 TraesCS5A01G287700 chr7B 559561840 559563127 1287 False 1483.000000 1483 87.481000 1224 2513 1 chr7B.!!$F1 1289

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
610 649 0.033991 CGGGAAGAGGGAGTGAGAGA 60.034 60.0 0.0 0.0 0.00 3.10 F
899 2405 0.892755 CATGCCATTGCCAGTCACTT 59.107 50.0 0.0 0.0 36.33 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1968 3486 0.036952 CCTCCTGCGCTTTCTTCAGA 60.037 55.0 9.73 0.0 0.0 3.27 R
2545 5884 0.250901 GCTTGTCACACCATGGTCCT 60.251 55.0 16.53 0.0 0.0 3.85 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
48 49 7.106439 TCCAAAGTGAAAAGTTCTTATTGCA 57.894 32.000 0.00 0.00 0.00 4.08
118 119 1.762460 GCCTCACTAGCTAGGGCCA 60.762 63.158 24.35 4.96 39.73 5.36
119 120 1.338136 GCCTCACTAGCTAGGGCCAA 61.338 60.000 24.35 4.20 39.73 4.52
120 121 0.466124 CCTCACTAGCTAGGGCCAAC 59.534 60.000 24.35 0.00 39.73 3.77
121 122 0.103208 CTCACTAGCTAGGGCCAACG 59.897 60.000 24.35 4.05 39.73 4.10
201 204 4.769345 TGTTATGGCATATGTGGTGAGA 57.231 40.909 8.24 0.00 0.00 3.27
391 394 9.788960 CATTTAGGTGTCTTAAAATTAAGAGCC 57.211 33.333 14.29 17.06 46.94 4.70
404 407 7.838079 AAATTAAGAGCCATGGCATATTACA 57.162 32.000 37.18 20.23 44.88 2.41
477 480 9.926158 TTCGTACATAACTAAAAACATACTCCA 57.074 29.630 0.00 0.00 0.00 3.86
494 497 7.234782 ACATACTCCATCCGAACCTGAAATATA 59.765 37.037 0.00 0.00 0.00 0.86
522 525 2.234908 CTGGAGAGATTTTCCGACCAGT 59.765 50.000 0.00 0.00 37.36 4.00
543 546 1.215382 CAAGAGTGATGCGACGGGA 59.785 57.895 0.00 0.00 0.00 5.14
607 646 0.323908 AGACGGGAAGAGGGAGTGAG 60.324 60.000 0.00 0.00 0.00 3.51
608 647 0.323542 GACGGGAAGAGGGAGTGAGA 60.324 60.000 0.00 0.00 0.00 3.27
610 649 0.033991 CGGGAAGAGGGAGTGAGAGA 60.034 60.000 0.00 0.00 0.00 3.10
611 650 1.410932 CGGGAAGAGGGAGTGAGAGAT 60.411 57.143 0.00 0.00 0.00 2.75
614 653 2.038659 GAAGAGGGAGTGAGAGATGGG 58.961 57.143 0.00 0.00 0.00 4.00
615 654 1.313889 AGAGGGAGTGAGAGATGGGA 58.686 55.000 0.00 0.00 0.00 4.37
677 1020 1.878656 GAGTGGTGGTGGACGAGGAG 61.879 65.000 0.00 0.00 0.00 3.69
898 2404 0.968901 CCATGCCATTGCCAGTCACT 60.969 55.000 0.00 0.00 36.33 3.41
899 2405 0.892755 CATGCCATTGCCAGTCACTT 59.107 50.000 0.00 0.00 36.33 3.16
900 2406 1.274167 CATGCCATTGCCAGTCACTTT 59.726 47.619 0.00 0.00 36.33 2.66
901 2407 2.284754 TGCCATTGCCAGTCACTTTA 57.715 45.000 0.00 0.00 36.33 1.85
902 2408 2.806434 TGCCATTGCCAGTCACTTTAT 58.194 42.857 0.00 0.00 36.33 1.40
903 2409 3.961849 TGCCATTGCCAGTCACTTTATA 58.038 40.909 0.00 0.00 36.33 0.98
904 2410 3.947196 TGCCATTGCCAGTCACTTTATAG 59.053 43.478 0.00 0.00 36.33 1.31
1052 2563 2.102357 CATCCCCGTCGTCTCGTG 59.898 66.667 0.00 0.00 0.00 4.35
1254 2768 3.453679 GTCTCTTCCTCCGCGGCT 61.454 66.667 23.51 0.00 0.00 5.52
1341 2855 2.126228 CTCTCGTACGGGCGCAAA 60.126 61.111 16.52 0.00 0.00 3.68
1626 3141 2.716017 GCACGTGCTAGAGGAGGCT 61.716 63.158 32.55 0.00 38.21 4.58
1761 3276 1.202582 GACAGCTTCTTCGAGGCAGTA 59.797 52.381 0.00 0.00 34.93 2.74
1968 3486 1.745489 GATCCGGAAGCCGCAAGTT 60.745 57.895 9.01 0.00 46.86 2.66
2076 3615 2.237392 GCTGACCTACCTGAAGATGGTT 59.763 50.000 0.00 0.00 38.88 3.67
2410 3949 1.876799 CCAACATGTTGTACGGCTTCA 59.123 47.619 31.20 0.00 38.85 3.02
2449 3997 3.335356 ATGGTGGCGGAGAAGCTGG 62.335 63.158 0.00 0.00 37.29 4.85
2522 5861 1.306312 TGCCCACCCCATACGTACT 60.306 57.895 0.00 0.00 0.00 2.73
2565 5912 1.577328 GGACCATGGTGTGACAAGCG 61.577 60.000 25.52 0.00 0.00 4.68
2732 6084 4.923281 GCACAAATTTGCTCCGAGTTTATT 59.077 37.500 18.12 0.00 39.59 1.40
2793 6145 6.051717 ACTATGATTGATTCGAAACAGAGGG 58.948 40.000 8.19 2.06 0.00 4.30
2794 6146 3.609853 TGATTGATTCGAAACAGAGGGG 58.390 45.455 8.19 0.00 0.00 4.79
2795 6147 2.489938 TTGATTCGAAACAGAGGGGG 57.510 50.000 8.19 0.00 0.00 5.40
2829 6658 8.438676 CCTAAGTAGGGACATGTAAAATCAAG 57.561 38.462 0.00 0.00 39.86 3.02
2830 6659 7.499232 CCTAAGTAGGGACATGTAAAATCAAGG 59.501 40.741 0.00 0.00 39.86 3.61
2831 6660 5.755849 AGTAGGGACATGTAAAATCAAGGG 58.244 41.667 0.00 0.00 0.00 3.95
2832 6661 4.946160 AGGGACATGTAAAATCAAGGGA 57.054 40.909 0.00 0.00 0.00 4.20
2833 6662 4.860022 AGGGACATGTAAAATCAAGGGAG 58.140 43.478 0.00 0.00 0.00 4.30
2834 6663 4.292306 AGGGACATGTAAAATCAAGGGAGT 59.708 41.667 0.00 0.00 0.00 3.85
2835 6664 5.491078 AGGGACATGTAAAATCAAGGGAGTA 59.509 40.000 0.00 0.00 0.00 2.59
2836 6665 6.160459 AGGGACATGTAAAATCAAGGGAGTAT 59.840 38.462 0.00 0.00 0.00 2.12
2837 6666 6.486993 GGGACATGTAAAATCAAGGGAGTATC 59.513 42.308 0.00 0.00 0.00 2.24
2838 6667 7.283329 GGACATGTAAAATCAAGGGAGTATCT 58.717 38.462 0.00 0.00 33.73 1.98
2839 6668 8.429641 GGACATGTAAAATCAAGGGAGTATCTA 58.570 37.037 0.00 0.00 33.73 1.98
2840 6669 9.482627 GACATGTAAAATCAAGGGAGTATCTAG 57.517 37.037 0.00 0.00 33.73 2.43
2841 6670 9.213777 ACATGTAAAATCAAGGGAGTATCTAGA 57.786 33.333 0.00 0.00 33.73 2.43
2844 6673 9.268282 TGTAAAATCAAGGGAGTATCTAGAACT 57.732 33.333 0.00 1.78 33.73 3.01
2845 6674 9.752961 GTAAAATCAAGGGAGTATCTAGAACTC 57.247 37.037 18.94 18.94 42.19 3.01
2846 6675 7.979786 AAATCAAGGGAGTATCTAGAACTCA 57.020 36.000 24.15 12.24 44.25 3.41
2847 6676 8.560124 AAATCAAGGGAGTATCTAGAACTCAT 57.440 34.615 24.15 15.41 44.25 2.90
2848 6677 8.560124 AATCAAGGGAGTATCTAGAACTCATT 57.440 34.615 24.15 18.44 44.25 2.57
2849 6678 7.979786 TCAAGGGAGTATCTAGAACTCATTT 57.020 36.000 24.15 17.95 44.25 2.32
2850 6679 9.661954 ATCAAGGGAGTATCTAGAACTCATTTA 57.338 33.333 24.15 15.46 44.25 1.40
2851 6680 9.137459 TCAAGGGAGTATCTAGAACTCATTTAG 57.863 37.037 24.15 15.18 44.25 1.85
2852 6681 9.137459 CAAGGGAGTATCTAGAACTCATTTAGA 57.863 37.037 24.15 0.00 44.25 2.10
2853 6682 9.890915 AAGGGAGTATCTAGAACTCATTTAGAT 57.109 33.333 24.15 0.00 44.25 1.98
2854 6683 9.308000 AGGGAGTATCTAGAACTCATTTAGATG 57.692 37.037 24.15 0.00 44.25 2.90
2855 6684 9.303116 GGGAGTATCTAGAACTCATTTAGATGA 57.697 37.037 24.15 0.00 44.25 2.92
2869 6698 8.420374 TCATTTAGATGAGACGTAATTTGGTC 57.580 34.615 0.00 1.46 37.37 4.02
2870 6699 7.494625 TCATTTAGATGAGACGTAATTTGGTCC 59.505 37.037 0.00 0.00 37.37 4.46
2871 6700 4.138487 AGATGAGACGTAATTTGGTCCC 57.862 45.455 0.00 0.00 33.66 4.46
2872 6701 3.517901 AGATGAGACGTAATTTGGTCCCA 59.482 43.478 0.00 1.31 33.66 4.37
2873 6702 3.992943 TGAGACGTAATTTGGTCCCAT 57.007 42.857 0.00 0.00 33.66 4.00
2874 6703 4.295141 TGAGACGTAATTTGGTCCCATT 57.705 40.909 0.00 0.00 33.66 3.16
2875 6704 4.258543 TGAGACGTAATTTGGTCCCATTC 58.741 43.478 0.00 0.00 33.66 2.67
2876 6705 4.258543 GAGACGTAATTTGGTCCCATTCA 58.741 43.478 0.00 0.00 33.66 2.57
2877 6706 4.007659 AGACGTAATTTGGTCCCATTCAC 58.992 43.478 0.00 0.00 33.66 3.18
2878 6707 3.086282 ACGTAATTTGGTCCCATTCACC 58.914 45.455 0.00 0.00 0.00 4.02
2879 6708 3.245122 ACGTAATTTGGTCCCATTCACCT 60.245 43.478 0.00 0.00 34.66 4.00
2880 6709 3.128589 CGTAATTTGGTCCCATTCACCTG 59.871 47.826 0.00 0.00 34.66 4.00
2881 6710 3.541242 AATTTGGTCCCATTCACCTGA 57.459 42.857 0.00 0.00 34.66 3.86
2882 6711 3.541242 ATTTGGTCCCATTCACCTGAA 57.459 42.857 0.00 0.00 38.56 3.02
2883 6712 3.320610 TTTGGTCCCATTCACCTGAAA 57.679 42.857 0.00 0.00 37.61 2.69
2884 6713 3.320610 TTGGTCCCATTCACCTGAAAA 57.679 42.857 0.00 0.00 37.61 2.29
2885 6714 3.320610 TGGTCCCATTCACCTGAAAAA 57.679 42.857 0.00 0.00 37.61 1.94
2886 6715 2.962421 TGGTCCCATTCACCTGAAAAAC 59.038 45.455 0.00 0.00 37.61 2.43
2887 6716 2.962421 GGTCCCATTCACCTGAAAAACA 59.038 45.455 0.00 0.00 37.61 2.83
2888 6717 3.386402 GGTCCCATTCACCTGAAAAACAA 59.614 43.478 0.00 0.00 37.61 2.83
2889 6718 4.501400 GGTCCCATTCACCTGAAAAACAAG 60.501 45.833 0.00 0.00 37.61 3.16
2890 6719 4.340950 GTCCCATTCACCTGAAAAACAAGA 59.659 41.667 0.00 0.00 37.61 3.02
2891 6720 4.959210 TCCCATTCACCTGAAAAACAAGAA 59.041 37.500 0.00 0.00 37.61 2.52
2892 6721 5.602145 TCCCATTCACCTGAAAAACAAGAAT 59.398 36.000 0.00 0.00 37.61 2.40
2893 6722 5.697633 CCCATTCACCTGAAAAACAAGAATG 59.302 40.000 0.00 0.00 39.38 2.67
2894 6723 5.697633 CCATTCACCTGAAAAACAAGAATGG 59.302 40.000 14.54 14.54 45.06 3.16
2895 6724 6.514947 CATTCACCTGAAAAACAAGAATGGA 58.485 36.000 0.00 0.00 37.93 3.41
2896 6725 6.729690 TTCACCTGAAAAACAAGAATGGAT 57.270 33.333 0.00 0.00 0.00 3.41
2897 6726 7.831691 TTCACCTGAAAAACAAGAATGGATA 57.168 32.000 0.00 0.00 0.00 2.59
2898 6727 7.214467 TCACCTGAAAAACAAGAATGGATAC 57.786 36.000 0.00 0.00 0.00 2.24
2913 6742 2.884827 GGATACAACCCACGTCAGTAC 58.115 52.381 0.00 0.00 0.00 2.73
2914 6743 2.231964 GGATACAACCCACGTCAGTACA 59.768 50.000 0.00 0.00 0.00 2.90
2915 6744 2.798976 TACAACCCACGTCAGTACAC 57.201 50.000 0.00 0.00 0.00 2.90
2916 6745 0.825410 ACAACCCACGTCAGTACACA 59.175 50.000 0.00 0.00 0.00 3.72
2917 6746 1.214367 CAACCCACGTCAGTACACAC 58.786 55.000 0.00 0.00 0.00 3.82
2918 6747 0.825410 AACCCACGTCAGTACACACA 59.175 50.000 0.00 0.00 0.00 3.72
2919 6748 0.103572 ACCCACGTCAGTACACACAC 59.896 55.000 0.00 0.00 0.00 3.82
2920 6749 0.103390 CCCACGTCAGTACACACACA 59.897 55.000 0.00 0.00 0.00 3.72
2921 6750 1.270094 CCCACGTCAGTACACACACAT 60.270 52.381 0.00 0.00 0.00 3.21
2922 6751 2.058798 CCACGTCAGTACACACACATC 58.941 52.381 0.00 0.00 0.00 3.06
2923 6752 2.288213 CCACGTCAGTACACACACATCT 60.288 50.000 0.00 0.00 0.00 2.90
2924 6753 3.381045 CACGTCAGTACACACACATCTT 58.619 45.455 0.00 0.00 0.00 2.40
2925 6754 4.542735 CACGTCAGTACACACACATCTTA 58.457 43.478 0.00 0.00 0.00 2.10
2926 6755 5.161358 CACGTCAGTACACACACATCTTAT 58.839 41.667 0.00 0.00 0.00 1.73
2927 6756 6.319399 CACGTCAGTACACACACATCTTATA 58.681 40.000 0.00 0.00 0.00 0.98
2928 6757 6.469275 CACGTCAGTACACACACATCTTATAG 59.531 42.308 0.00 0.00 0.00 1.31
2929 6758 5.455849 CGTCAGTACACACACATCTTATAGC 59.544 44.000 0.00 0.00 0.00 2.97
2930 6759 6.330278 GTCAGTACACACACATCTTATAGCA 58.670 40.000 0.00 0.00 0.00 3.49
2931 6760 6.980978 GTCAGTACACACACATCTTATAGCAT 59.019 38.462 0.00 0.00 0.00 3.79
2932 6761 7.168302 GTCAGTACACACACATCTTATAGCATC 59.832 40.741 0.00 0.00 0.00 3.91
2933 6762 6.980397 CAGTACACACACATCTTATAGCATCA 59.020 38.462 0.00 0.00 0.00 3.07
2934 6763 6.980978 AGTACACACACATCTTATAGCATCAC 59.019 38.462 0.00 0.00 0.00 3.06
2935 6764 5.733676 ACACACACATCTTATAGCATCACA 58.266 37.500 0.00 0.00 0.00 3.58
2936 6765 6.351711 ACACACACATCTTATAGCATCACAT 58.648 36.000 0.00 0.00 0.00 3.21
2937 6766 6.481313 ACACACACATCTTATAGCATCACATC 59.519 38.462 0.00 0.00 0.00 3.06
2938 6767 5.994054 ACACACATCTTATAGCATCACATCC 59.006 40.000 0.00 0.00 0.00 3.51
2939 6768 5.993441 CACACATCTTATAGCATCACATCCA 59.007 40.000 0.00 0.00 0.00 3.41
2940 6769 6.484308 CACACATCTTATAGCATCACATCCAA 59.516 38.462 0.00 0.00 0.00 3.53
2941 6770 7.174426 CACACATCTTATAGCATCACATCCAAT 59.826 37.037 0.00 0.00 0.00 3.16
2942 6771 7.174426 ACACATCTTATAGCATCACATCCAATG 59.826 37.037 0.00 0.00 0.00 2.82
2943 6772 6.657966 ACATCTTATAGCATCACATCCAATGG 59.342 38.462 0.00 0.00 33.60 3.16
2944 6773 5.005740 TCTTATAGCATCACATCCAATGGC 58.994 41.667 0.00 0.00 33.60 4.40
2945 6774 3.520691 ATAGCATCACATCCAATGGCT 57.479 42.857 0.00 0.00 33.60 4.75
2946 6775 4.645863 ATAGCATCACATCCAATGGCTA 57.354 40.909 0.00 0.00 33.60 3.93
2947 6776 3.520691 AGCATCACATCCAATGGCTAT 57.479 42.857 0.00 0.00 33.60 2.97
2948 6777 4.645863 AGCATCACATCCAATGGCTATA 57.354 40.909 0.00 0.00 33.60 1.31
2949 6778 4.989277 AGCATCACATCCAATGGCTATAA 58.011 39.130 0.00 0.00 33.60 0.98
2950 6779 5.387788 AGCATCACATCCAATGGCTATAAA 58.612 37.500 0.00 0.00 33.60 1.40
2951 6780 5.834742 AGCATCACATCCAATGGCTATAAAA 59.165 36.000 0.00 0.00 33.60 1.52
2952 6781 6.015688 AGCATCACATCCAATGGCTATAAAAG 60.016 38.462 0.00 0.00 33.60 2.27
2953 6782 6.684686 CATCACATCCAATGGCTATAAAAGG 58.315 40.000 0.00 0.00 33.60 3.11
2954 6783 5.765510 TCACATCCAATGGCTATAAAAGGT 58.234 37.500 0.00 0.00 33.60 3.50
2955 6784 5.593909 TCACATCCAATGGCTATAAAAGGTG 59.406 40.000 0.00 0.00 33.60 4.00
2956 6785 5.593909 CACATCCAATGGCTATAAAAGGTGA 59.406 40.000 0.00 0.00 33.60 4.02
2957 6786 6.096705 CACATCCAATGGCTATAAAAGGTGAA 59.903 38.462 0.00 0.00 33.60 3.18
2958 6787 6.840705 ACATCCAATGGCTATAAAAGGTGAAT 59.159 34.615 0.00 0.00 33.60 2.57
2959 6788 6.713762 TCCAATGGCTATAAAAGGTGAATG 57.286 37.500 0.00 0.00 0.00 2.67
2960 6789 6.430864 TCCAATGGCTATAAAAGGTGAATGA 58.569 36.000 0.00 0.00 0.00 2.57
2961 6790 6.547141 TCCAATGGCTATAAAAGGTGAATGAG 59.453 38.462 0.00 0.00 0.00 2.90
2962 6791 6.547141 CCAATGGCTATAAAAGGTGAATGAGA 59.453 38.462 0.00 0.00 0.00 3.27
2963 6792 7.420800 CAATGGCTATAAAAGGTGAATGAGAC 58.579 38.462 0.00 0.00 0.00 3.36
2964 6793 5.437060 TGGCTATAAAAGGTGAATGAGACC 58.563 41.667 0.00 0.00 0.00 3.85
2965 6794 5.045213 TGGCTATAAAAGGTGAATGAGACCA 60.045 40.000 0.00 0.00 35.76 4.02
2966 6795 5.885912 GGCTATAAAAGGTGAATGAGACCAA 59.114 40.000 0.00 0.00 35.76 3.67
2967 6796 6.377146 GGCTATAAAAGGTGAATGAGACCAAA 59.623 38.462 0.00 0.00 35.76 3.28
2968 6797 7.068716 GGCTATAAAAGGTGAATGAGACCAAAT 59.931 37.037 0.00 0.00 35.76 2.32
2969 6798 8.470002 GCTATAAAAGGTGAATGAGACCAAATT 58.530 33.333 0.00 0.00 35.76 1.82
2974 6803 9.710900 AAAAGGTGAATGAGACCAAATTAAATC 57.289 29.630 0.00 0.00 35.76 2.17
2975 6804 8.655935 AAGGTGAATGAGACCAAATTAAATCT 57.344 30.769 0.00 0.00 35.76 2.40
2976 6805 8.286191 AGGTGAATGAGACCAAATTAAATCTC 57.714 34.615 0.00 6.03 38.46 2.75
3004 6833 8.988064 CTAGATGAGTTCTAGCAAAACTGTAA 57.012 34.615 0.32 0.00 45.63 2.41
3005 6834 9.424319 CTAGATGAGTTCTAGCAAAACTGTAAA 57.576 33.333 0.32 0.00 45.63 2.01
3006 6835 8.677148 AGATGAGTTCTAGCAAAACTGTAAAA 57.323 30.769 0.32 0.00 37.10 1.52
3007 6836 9.289782 AGATGAGTTCTAGCAAAACTGTAAAAT 57.710 29.630 0.32 0.00 37.10 1.82
3008 6837 9.899226 GATGAGTTCTAGCAAAACTGTAAAATT 57.101 29.630 0.32 0.00 37.10 1.82
3096 6926 8.463930 AAGAGAATTTGTGTTTGTGAAGGATA 57.536 30.769 0.00 0.00 0.00 2.59
3115 6945 8.879427 AAGGATAATAAGTTTAGTTGCCAAGT 57.121 30.769 0.00 0.00 0.00 3.16
3128 6958 8.815565 TTAGTTGCCAAGTATGATAAATCCAA 57.184 30.769 0.00 0.00 0.00 3.53
3263 7093 8.826710 TCTAATGTCAGATTTTTAGCATTACCG 58.173 33.333 0.00 0.00 0.00 4.02
3352 7183 5.822519 TCTCAAAACTAGTCAACAGTTGCAT 59.177 36.000 8.58 2.09 36.38 3.96
3481 7313 7.938490 TGTGCATTTATATTCTGCCTGATTAGA 59.062 33.333 0.00 0.00 35.02 2.10
3495 7327 9.342308 CTGCCTGATTAGATTTAACCATTTAGA 57.658 33.333 0.00 0.00 0.00 2.10
3496 7328 9.342308 TGCCTGATTAGATTTAACCATTTAGAG 57.658 33.333 0.00 0.00 0.00 2.43
3497 7329 8.293157 GCCTGATTAGATTTAACCATTTAGAGC 58.707 37.037 0.00 0.00 0.00 4.09
3498 7330 9.342308 CCTGATTAGATTTAACCATTTAGAGCA 57.658 33.333 0.00 0.00 0.00 4.26
3503 7335 9.959721 TTAGATTTAACCATTTAGAGCAACTCT 57.040 29.630 2.23 2.23 43.83 3.24
3505 7337 9.606631 AGATTTAACCATTTAGAGCAACTCTAG 57.393 33.333 4.64 0.00 42.92 2.43
3506 7338 7.611213 TTTAACCATTTAGAGCAACTCTAGC 57.389 36.000 4.64 0.00 42.92 3.42
3507 7339 4.826274 ACCATTTAGAGCAACTCTAGCA 57.174 40.909 4.64 0.00 42.92 3.49
3508 7340 4.764172 ACCATTTAGAGCAACTCTAGCAG 58.236 43.478 4.64 0.14 42.92 4.24
3509 7341 4.467795 ACCATTTAGAGCAACTCTAGCAGA 59.532 41.667 4.64 0.00 42.92 4.26
3510 7342 4.808364 CCATTTAGAGCAACTCTAGCAGAC 59.192 45.833 4.64 0.00 42.92 3.51
3511 7343 4.457834 TTTAGAGCAACTCTAGCAGACC 57.542 45.455 4.64 0.00 42.92 3.85
3512 7344 2.230130 AGAGCAACTCTAGCAGACCT 57.770 50.000 0.00 0.00 39.28 3.85
3513 7345 2.099405 AGAGCAACTCTAGCAGACCTC 58.901 52.381 0.00 0.00 39.28 3.85
3514 7346 0.814457 AGCAACTCTAGCAGACCTCG 59.186 55.000 0.00 0.00 0.00 4.63
3515 7347 0.804156 GCAACTCTAGCAGACCTCGC 60.804 60.000 0.00 0.00 0.00 5.03
3516 7348 0.528017 CAACTCTAGCAGACCTCGCA 59.472 55.000 0.00 0.00 0.00 5.10
3517 7349 1.067565 CAACTCTAGCAGACCTCGCAA 60.068 52.381 0.00 0.00 0.00 4.85
3518 7350 1.257743 ACTCTAGCAGACCTCGCAAA 58.742 50.000 0.00 0.00 0.00 3.68
3519 7351 1.618837 ACTCTAGCAGACCTCGCAAAA 59.381 47.619 0.00 0.00 0.00 2.44
3520 7352 2.037251 ACTCTAGCAGACCTCGCAAAAA 59.963 45.455 0.00 0.00 0.00 1.94
3521 7353 3.265791 CTCTAGCAGACCTCGCAAAAAT 58.734 45.455 0.00 0.00 0.00 1.82
3522 7354 3.262420 TCTAGCAGACCTCGCAAAAATC 58.738 45.455 0.00 0.00 0.00 2.17
3523 7355 1.168714 AGCAGACCTCGCAAAAATCC 58.831 50.000 0.00 0.00 0.00 3.01
3524 7356 0.171231 GCAGACCTCGCAAAAATCCC 59.829 55.000 0.00 0.00 0.00 3.85
3525 7357 0.811281 CAGACCTCGCAAAAATCCCC 59.189 55.000 0.00 0.00 0.00 4.81
3526 7358 0.676782 AGACCTCGCAAAAATCCCCG 60.677 55.000 0.00 0.00 0.00 5.73
3527 7359 0.675522 GACCTCGCAAAAATCCCCGA 60.676 55.000 0.00 0.00 0.00 5.14
3528 7360 0.958876 ACCTCGCAAAAATCCCCGAC 60.959 55.000 0.00 0.00 0.00 4.79
3529 7361 1.654023 CCTCGCAAAAATCCCCGACC 61.654 60.000 0.00 0.00 0.00 4.79
3530 7362 1.654023 CTCGCAAAAATCCCCGACCC 61.654 60.000 0.00 0.00 0.00 4.46
3531 7363 2.882132 GCAAAAATCCCCGACCCG 59.118 61.111 0.00 0.00 0.00 5.28
3532 7364 1.974875 GCAAAAATCCCCGACCCGT 60.975 57.895 0.00 0.00 0.00 5.28
3533 7365 0.677414 GCAAAAATCCCCGACCCGTA 60.677 55.000 0.00 0.00 0.00 4.02
3534 7366 1.823797 CAAAAATCCCCGACCCGTAA 58.176 50.000 0.00 0.00 0.00 3.18
3535 7367 2.161030 CAAAAATCCCCGACCCGTAAA 58.839 47.619 0.00 0.00 0.00 2.01
3536 7368 2.557490 CAAAAATCCCCGACCCGTAAAA 59.443 45.455 0.00 0.00 0.00 1.52
3537 7369 2.812836 AAATCCCCGACCCGTAAAAT 57.187 45.000 0.00 0.00 0.00 1.82
3538 7370 3.929955 AAATCCCCGACCCGTAAAATA 57.070 42.857 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 9.994017 AGGGAGTATAGACTTAAGTTTTCTAGT 57.006 33.333 10.02 3.04 35.45 2.57
121 122 1.006832 GTGTCATGTGGCATCGGTAC 58.993 55.000 0.00 0.00 29.66 3.34
182 185 5.754782 ACTTTCTCACCACATATGCCATAA 58.245 37.500 1.58 0.00 0.00 1.90
201 204 5.126545 GGTTGGTCCTAGTGTTTTGAACTTT 59.873 40.000 0.00 0.00 0.00 2.66
391 394 2.738846 GTCGCTCCTGTAATATGCCATG 59.261 50.000 0.00 0.00 0.00 3.66
477 480 5.465724 GCGACTTTATATTTCAGGTTCGGAT 59.534 40.000 0.00 0.00 0.00 4.18
494 497 3.339141 GGAAAATCTCTCCAGCGACTTT 58.661 45.455 0.00 0.00 32.77 2.66
522 525 1.737735 CGTCGCATCACTCTTGCCA 60.738 57.895 0.00 0.00 36.75 4.92
543 546 2.756283 CGCCGTCCTCTCCCTCTT 60.756 66.667 0.00 0.00 0.00 2.85
607 646 3.950395 CCACTCCAGATTTTTCCCATCTC 59.050 47.826 0.00 0.00 0.00 2.75
608 647 3.593328 TCCACTCCAGATTTTTCCCATCT 59.407 43.478 0.00 0.00 0.00 2.90
610 649 4.284178 CATCCACTCCAGATTTTTCCCAT 58.716 43.478 0.00 0.00 0.00 4.00
611 650 3.564133 CCATCCACTCCAGATTTTTCCCA 60.564 47.826 0.00 0.00 0.00 4.37
614 653 4.848357 TCTCCATCCACTCCAGATTTTTC 58.152 43.478 0.00 0.00 0.00 2.29
615 654 4.537688 TCTCTCCATCCACTCCAGATTTTT 59.462 41.667 0.00 0.00 0.00 1.94
813 1165 9.358872 GTAAGATTTTATTTCTGGCCTCAAAAG 57.641 33.333 3.32 0.00 0.00 2.27
821 1173 9.875691 AAATTCCTGTAAGATTTTATTTCTGGC 57.124 29.630 0.00 0.00 34.07 4.85
898 2404 5.596361 TCGTCGGGGGTGTATAAACTATAAA 59.404 40.000 0.00 0.00 0.00 1.40
899 2405 5.009610 GTCGTCGGGGGTGTATAAACTATAA 59.990 44.000 0.00 0.00 0.00 0.98
900 2406 4.518970 GTCGTCGGGGGTGTATAAACTATA 59.481 45.833 0.00 0.00 0.00 1.31
901 2407 3.319122 GTCGTCGGGGGTGTATAAACTAT 59.681 47.826 0.00 0.00 0.00 2.12
902 2408 2.687935 GTCGTCGGGGGTGTATAAACTA 59.312 50.000 0.00 0.00 0.00 2.24
903 2409 1.478105 GTCGTCGGGGGTGTATAAACT 59.522 52.381 0.00 0.00 0.00 2.66
904 2410 1.471501 GGTCGTCGGGGGTGTATAAAC 60.472 57.143 0.00 0.00 0.00 2.01
951 2457 2.350964 GGAGGTTTATCTAGCTCGCTCG 60.351 54.545 0.00 0.00 42.21 5.03
1052 2563 3.426568 GCTTCGTCACCAGCAGGC 61.427 66.667 0.00 0.00 39.06 4.85
1233 2747 2.182030 GCGGAGGAAGAGACCACG 59.818 66.667 0.00 0.00 36.30 4.94
1341 2855 2.048127 GGTGAGAAGGCGACGCTT 60.048 61.111 20.77 9.77 0.00 4.68
1626 3141 1.146041 GCTGGCCGACATGTCCATA 59.854 57.895 20.03 3.70 0.00 2.74
1968 3486 0.036952 CCTCCTGCGCTTTCTTCAGA 60.037 55.000 9.73 0.00 0.00 3.27
2042 3581 4.742201 TCAGCTTCGGCAGGTCGC 62.742 66.667 0.00 0.00 44.74 5.19
2410 3949 3.710722 CTCCGGCAGCTCCCACTT 61.711 66.667 0.00 0.00 0.00 3.16
2545 5884 0.250901 GCTTGTCACACCATGGTCCT 60.251 55.000 16.53 0.00 0.00 3.85
2565 5912 6.512342 AACTCGATATATACCACTACCAGC 57.488 41.667 0.00 0.00 0.00 4.85
2640 5992 3.372514 ACGCACGCATGTATCAACAATTA 59.627 39.130 0.00 0.00 39.58 1.40
2732 6084 4.087182 ACTTTACTCAGAAGACCCGATGA 58.913 43.478 0.00 0.00 0.00 2.92
2826 6655 9.137459 TCTAAATGAGTTCTAGATACTCCCTTG 57.863 37.037 21.88 13.47 41.02 3.61
2829 6658 9.303116 TCATCTAAATGAGTTCTAGATACTCCC 57.697 37.037 21.88 8.57 41.02 4.30
2844 6673 7.494625 GGACCAAATTACGTCTCATCTAAATGA 59.505 37.037 0.00 0.00 39.63 2.57
2845 6674 7.254795 GGGACCAAATTACGTCTCATCTAAATG 60.255 40.741 0.00 0.00 29.40 2.32
2846 6675 6.766467 GGGACCAAATTACGTCTCATCTAAAT 59.234 38.462 0.00 0.00 29.40 1.40
2847 6676 6.110707 GGGACCAAATTACGTCTCATCTAAA 58.889 40.000 0.00 0.00 29.40 1.85
2848 6677 5.188163 TGGGACCAAATTACGTCTCATCTAA 59.812 40.000 0.00 0.00 34.55 2.10
2849 6678 4.712829 TGGGACCAAATTACGTCTCATCTA 59.287 41.667 0.00 0.00 34.55 1.98
2850 6679 3.517901 TGGGACCAAATTACGTCTCATCT 59.482 43.478 0.00 0.00 34.55 2.90
2851 6680 3.869065 TGGGACCAAATTACGTCTCATC 58.131 45.455 0.00 0.00 34.55 2.92
2852 6681 3.992943 TGGGACCAAATTACGTCTCAT 57.007 42.857 0.00 0.00 34.55 2.90
2853 6682 3.992943 ATGGGACCAAATTACGTCTCA 57.007 42.857 9.23 9.23 43.40 3.27
2854 6683 4.094442 GTGAATGGGACCAAATTACGTCTC 59.906 45.833 0.00 2.20 0.00 3.36
2855 6684 4.007659 GTGAATGGGACCAAATTACGTCT 58.992 43.478 0.00 0.00 0.00 4.18
2856 6685 3.128068 GGTGAATGGGACCAAATTACGTC 59.872 47.826 0.00 0.00 33.25 4.34
2857 6686 3.086282 GGTGAATGGGACCAAATTACGT 58.914 45.455 0.00 0.00 33.25 3.57
2858 6687 3.128589 CAGGTGAATGGGACCAAATTACG 59.871 47.826 0.00 0.00 35.76 3.18
2859 6688 4.340617 TCAGGTGAATGGGACCAAATTAC 58.659 43.478 0.00 0.00 35.76 1.89
2860 6689 4.666412 TCAGGTGAATGGGACCAAATTA 57.334 40.909 0.00 0.00 35.76 1.40
2861 6690 3.541242 TCAGGTGAATGGGACCAAATT 57.459 42.857 0.00 0.00 35.76 1.82
2862 6691 3.541242 TTCAGGTGAATGGGACCAAAT 57.459 42.857 0.00 0.00 35.76 2.32
2863 6692 3.320610 TTTCAGGTGAATGGGACCAAA 57.679 42.857 0.00 0.00 35.76 3.28
2864 6693 3.320610 TTTTCAGGTGAATGGGACCAA 57.679 42.857 0.00 0.00 35.76 3.67
2865 6694 2.962421 GTTTTTCAGGTGAATGGGACCA 59.038 45.455 0.00 0.00 35.76 4.02
2866 6695 2.962421 TGTTTTTCAGGTGAATGGGACC 59.038 45.455 0.00 0.00 33.54 4.46
2867 6696 4.340950 TCTTGTTTTTCAGGTGAATGGGAC 59.659 41.667 0.00 0.00 33.54 4.46
2868 6697 4.541705 TCTTGTTTTTCAGGTGAATGGGA 58.458 39.130 0.00 0.00 33.54 4.37
2869 6698 4.935352 TCTTGTTTTTCAGGTGAATGGG 57.065 40.909 0.00 0.00 33.54 4.00
2870 6699 5.697633 CCATTCTTGTTTTTCAGGTGAATGG 59.302 40.000 14.64 14.64 43.82 3.16
2871 6700 6.514947 TCCATTCTTGTTTTTCAGGTGAATG 58.485 36.000 0.00 0.00 38.36 2.67
2872 6701 6.729690 TCCATTCTTGTTTTTCAGGTGAAT 57.270 33.333 0.00 0.00 33.54 2.57
2873 6702 6.729690 ATCCATTCTTGTTTTTCAGGTGAA 57.270 33.333 0.00 0.00 0.00 3.18
2874 6703 6.775142 TGTATCCATTCTTGTTTTTCAGGTGA 59.225 34.615 0.00 0.00 0.00 4.02
2875 6704 6.980593 TGTATCCATTCTTGTTTTTCAGGTG 58.019 36.000 0.00 0.00 0.00 4.00
2876 6705 7.433680 GTTGTATCCATTCTTGTTTTTCAGGT 58.566 34.615 0.00 0.00 0.00 4.00
2877 6706 6.868339 GGTTGTATCCATTCTTGTTTTTCAGG 59.132 38.462 0.00 0.00 0.00 3.86
2878 6707 6.868339 GGGTTGTATCCATTCTTGTTTTTCAG 59.132 38.462 0.00 0.00 0.00 3.02
2879 6708 6.325028 TGGGTTGTATCCATTCTTGTTTTTCA 59.675 34.615 0.00 0.00 0.00 2.69
2880 6709 6.645003 GTGGGTTGTATCCATTCTTGTTTTTC 59.355 38.462 0.00 0.00 36.58 2.29
2881 6710 6.521162 GTGGGTTGTATCCATTCTTGTTTTT 58.479 36.000 0.00 0.00 36.58 1.94
2882 6711 5.278758 CGTGGGTTGTATCCATTCTTGTTTT 60.279 40.000 0.00 0.00 36.58 2.43
2883 6712 4.217550 CGTGGGTTGTATCCATTCTTGTTT 59.782 41.667 0.00 0.00 36.58 2.83
2884 6713 3.756434 CGTGGGTTGTATCCATTCTTGTT 59.244 43.478 0.00 0.00 36.58 2.83
2885 6714 3.244770 ACGTGGGTTGTATCCATTCTTGT 60.245 43.478 0.00 0.00 36.58 3.16
2886 6715 3.343617 ACGTGGGTTGTATCCATTCTTG 58.656 45.455 0.00 0.00 36.58 3.02
2887 6716 3.008594 TGACGTGGGTTGTATCCATTCTT 59.991 43.478 0.00 0.00 36.58 2.52
2888 6717 2.569853 TGACGTGGGTTGTATCCATTCT 59.430 45.455 0.00 0.00 36.58 2.40
2889 6718 2.936498 CTGACGTGGGTTGTATCCATTC 59.064 50.000 0.00 0.00 36.58 2.67
2890 6719 2.304761 ACTGACGTGGGTTGTATCCATT 59.695 45.455 0.00 0.00 36.58 3.16
2891 6720 1.906574 ACTGACGTGGGTTGTATCCAT 59.093 47.619 0.00 0.00 36.58 3.41
2892 6721 1.344065 ACTGACGTGGGTTGTATCCA 58.656 50.000 0.00 0.00 0.00 3.41
2893 6722 2.231964 TGTACTGACGTGGGTTGTATCC 59.768 50.000 0.00 0.00 0.00 2.59
2894 6723 3.248266 GTGTACTGACGTGGGTTGTATC 58.752 50.000 0.00 0.00 0.00 2.24
2895 6724 2.629137 TGTGTACTGACGTGGGTTGTAT 59.371 45.455 0.00 0.00 0.00 2.29
2896 6725 2.030371 TGTGTACTGACGTGGGTTGTA 58.970 47.619 0.00 0.00 0.00 2.41
2897 6726 0.825410 TGTGTACTGACGTGGGTTGT 59.175 50.000 0.00 0.00 0.00 3.32
2898 6727 1.214367 GTGTGTACTGACGTGGGTTG 58.786 55.000 0.00 0.00 0.00 3.77
2899 6728 0.825410 TGTGTGTACTGACGTGGGTT 59.175 50.000 0.00 0.00 0.00 4.11
2900 6729 0.103572 GTGTGTGTACTGACGTGGGT 59.896 55.000 0.00 0.00 0.00 4.51
2901 6730 0.103390 TGTGTGTGTACTGACGTGGG 59.897 55.000 0.00 0.00 0.00 4.61
2902 6731 2.058798 GATGTGTGTGTACTGACGTGG 58.941 52.381 0.00 0.00 0.00 4.94
2903 6732 3.013276 AGATGTGTGTGTACTGACGTG 57.987 47.619 0.00 0.00 0.00 4.49
2904 6733 3.728076 AAGATGTGTGTGTACTGACGT 57.272 42.857 0.00 0.00 0.00 4.34
2905 6734 5.455849 GCTATAAGATGTGTGTGTACTGACG 59.544 44.000 0.00 0.00 0.00 4.35
2906 6735 6.330278 TGCTATAAGATGTGTGTGTACTGAC 58.670 40.000 0.00 0.00 0.00 3.51
2907 6736 6.524101 TGCTATAAGATGTGTGTGTACTGA 57.476 37.500 0.00 0.00 0.00 3.41
2908 6737 6.980397 TGATGCTATAAGATGTGTGTGTACTG 59.020 38.462 0.00 0.00 0.00 2.74
2909 6738 6.980978 GTGATGCTATAAGATGTGTGTGTACT 59.019 38.462 0.00 0.00 0.00 2.73
2910 6739 6.756542 TGTGATGCTATAAGATGTGTGTGTAC 59.243 38.462 0.00 0.00 0.00 2.90
2911 6740 6.872920 TGTGATGCTATAAGATGTGTGTGTA 58.127 36.000 0.00 0.00 0.00 2.90
2912 6741 5.733676 TGTGATGCTATAAGATGTGTGTGT 58.266 37.500 0.00 0.00 0.00 3.72
2913 6742 6.073385 GGATGTGATGCTATAAGATGTGTGTG 60.073 42.308 0.00 0.00 0.00 3.82
2914 6743 5.994054 GGATGTGATGCTATAAGATGTGTGT 59.006 40.000 0.00 0.00 0.00 3.72
2915 6744 5.993441 TGGATGTGATGCTATAAGATGTGTG 59.007 40.000 0.00 0.00 0.00 3.82
2916 6745 6.178607 TGGATGTGATGCTATAAGATGTGT 57.821 37.500 0.00 0.00 0.00 3.72
2917 6746 7.361799 CCATTGGATGTGATGCTATAAGATGTG 60.362 40.741 0.00 0.00 0.00 3.21
2918 6747 6.657966 CCATTGGATGTGATGCTATAAGATGT 59.342 38.462 0.00 0.00 0.00 3.06
2919 6748 6.404403 GCCATTGGATGTGATGCTATAAGATG 60.404 42.308 6.95 0.00 0.00 2.90
2920 6749 5.651139 GCCATTGGATGTGATGCTATAAGAT 59.349 40.000 6.95 0.00 0.00 2.40
2921 6750 5.005740 GCCATTGGATGTGATGCTATAAGA 58.994 41.667 6.95 0.00 0.00 2.10
2922 6751 5.008331 AGCCATTGGATGTGATGCTATAAG 58.992 41.667 6.95 0.00 0.00 1.73
2923 6752 4.989277 AGCCATTGGATGTGATGCTATAA 58.011 39.130 6.95 0.00 0.00 0.98
2924 6753 4.645863 AGCCATTGGATGTGATGCTATA 57.354 40.909 6.95 0.00 0.00 1.31
2925 6754 3.520691 AGCCATTGGATGTGATGCTAT 57.479 42.857 6.95 0.00 0.00 2.97
2926 6755 4.645863 ATAGCCATTGGATGTGATGCTA 57.354 40.909 6.95 0.00 0.00 3.49
2927 6756 3.520691 ATAGCCATTGGATGTGATGCT 57.479 42.857 6.95 0.00 0.00 3.79
2928 6757 5.710513 TTTATAGCCATTGGATGTGATGC 57.289 39.130 6.95 0.00 0.00 3.91
2929 6758 6.266103 ACCTTTTATAGCCATTGGATGTGATG 59.734 38.462 6.95 0.00 0.00 3.07
2930 6759 6.266103 CACCTTTTATAGCCATTGGATGTGAT 59.734 38.462 6.95 0.00 0.00 3.06
2931 6760 5.593909 CACCTTTTATAGCCATTGGATGTGA 59.406 40.000 6.95 0.00 0.00 3.58
2932 6761 5.593909 TCACCTTTTATAGCCATTGGATGTG 59.406 40.000 6.95 2.95 0.00 3.21
2933 6762 5.765510 TCACCTTTTATAGCCATTGGATGT 58.234 37.500 6.95 0.10 0.00 3.06
2934 6763 6.713762 TTCACCTTTTATAGCCATTGGATG 57.286 37.500 6.95 0.00 0.00 3.51
2935 6764 7.068702 TCATTCACCTTTTATAGCCATTGGAT 58.931 34.615 6.95 1.78 0.00 3.41
2936 6765 6.430864 TCATTCACCTTTTATAGCCATTGGA 58.569 36.000 6.95 0.00 0.00 3.53
2937 6766 6.547141 TCTCATTCACCTTTTATAGCCATTGG 59.453 38.462 0.00 0.00 0.00 3.16
2938 6767 7.420800 GTCTCATTCACCTTTTATAGCCATTG 58.579 38.462 0.00 0.00 0.00 2.82
2939 6768 6.547510 GGTCTCATTCACCTTTTATAGCCATT 59.452 38.462 0.00 0.00 0.00 3.16
2940 6769 6.064717 GGTCTCATTCACCTTTTATAGCCAT 58.935 40.000 0.00 0.00 0.00 4.40
2941 6770 5.045213 TGGTCTCATTCACCTTTTATAGCCA 60.045 40.000 0.00 0.00 34.66 4.75
2942 6771 5.437060 TGGTCTCATTCACCTTTTATAGCC 58.563 41.667 0.00 0.00 34.66 3.93
2943 6772 7.391148 TTTGGTCTCATTCACCTTTTATAGC 57.609 36.000 0.00 0.00 34.66 2.97
2948 6777 9.710900 GATTTAATTTGGTCTCATTCACCTTTT 57.289 29.630 0.00 0.00 34.66 2.27
2949 6778 9.093458 AGATTTAATTTGGTCTCATTCACCTTT 57.907 29.630 0.00 0.00 34.66 3.11
2950 6779 8.655935 AGATTTAATTTGGTCTCATTCACCTT 57.344 30.769 0.00 0.00 34.66 3.50
2951 6780 7.890127 TGAGATTTAATTTGGTCTCATTCACCT 59.110 33.333 10.50 0.00 41.40 4.00
2952 6781 8.055279 TGAGATTTAATTTGGTCTCATTCACC 57.945 34.615 10.50 0.00 41.40 4.02
2980 6809 9.772973 TTTTACAGTTTTGCTAGAACTCATCTA 57.227 29.630 0.00 0.00 39.71 1.98
2981 6810 8.677148 TTTTACAGTTTTGCTAGAACTCATCT 57.323 30.769 0.00 0.00 42.48 2.90
2982 6811 9.899226 AATTTTACAGTTTTGCTAGAACTCATC 57.101 29.630 0.00 0.00 35.26 2.92
3010 6839 9.950496 GACATGGGATTTGTAGTAGAATCATAT 57.050 33.333 0.00 1.34 34.67 1.78
3016 6845 6.867519 TCTGACATGGGATTTGTAGTAGAA 57.132 37.500 0.00 0.00 0.00 2.10
3019 6848 8.877864 AAAAATCTGACATGGGATTTGTAGTA 57.122 30.769 17.75 0.00 40.58 1.82
3070 6900 7.873719 TCCTTCACAAACACAAATTCTCTTA 57.126 32.000 0.00 0.00 0.00 2.10
3115 6945 8.746052 AAATGAACTCGGTTGGATTTATCATA 57.254 30.769 0.00 0.00 0.00 2.15
3157 6987 9.627395 GATGTAGAATTTAGTATACGAGCATGT 57.373 33.333 0.00 0.00 0.00 3.21
3168 6998 7.432148 TGGCTGAAGGATGTAGAATTTAGTA 57.568 36.000 0.00 0.00 0.00 1.82
3177 7007 7.094205 ACAAATTTAGTTGGCTGAAGGATGTAG 60.094 37.037 0.00 0.00 32.50 2.74
3179 7009 5.539955 ACAAATTTAGTTGGCTGAAGGATGT 59.460 36.000 0.00 0.00 32.50 3.06
3319 7150 4.202326 TGACTAGTTTTGAGAGGGAACACC 60.202 45.833 0.00 0.00 40.67 4.16
3352 7183 4.171878 TGTGAAAGAAACCATACACCCA 57.828 40.909 0.00 0.00 0.00 4.51
3481 7313 7.829211 TGCTAGAGTTGCTCTAAATGGTTAAAT 59.171 33.333 7.22 0.00 41.74 1.40
3495 7327 0.814457 CGAGGTCTGCTAGAGTTGCT 59.186 55.000 0.00 0.00 0.00 3.91
3496 7328 0.804156 GCGAGGTCTGCTAGAGTTGC 60.804 60.000 0.00 0.00 0.00 4.17
3497 7329 0.528017 TGCGAGGTCTGCTAGAGTTG 59.472 55.000 0.00 0.00 0.00 3.16
3498 7330 1.257743 TTGCGAGGTCTGCTAGAGTT 58.742 50.000 0.00 0.00 0.00 3.01
3499 7331 1.257743 TTTGCGAGGTCTGCTAGAGT 58.742 50.000 0.00 0.00 0.00 3.24
3500 7332 2.370281 TTTTGCGAGGTCTGCTAGAG 57.630 50.000 0.00 0.00 0.00 2.43
3501 7333 2.831685 TTTTTGCGAGGTCTGCTAGA 57.168 45.000 0.00 0.00 0.00 2.43
3502 7334 2.352960 GGATTTTTGCGAGGTCTGCTAG 59.647 50.000 0.00 0.00 0.00 3.42
3503 7335 2.356135 GGATTTTTGCGAGGTCTGCTA 58.644 47.619 0.00 0.00 0.00 3.49
3504 7336 1.168714 GGATTTTTGCGAGGTCTGCT 58.831 50.000 0.00 0.00 0.00 4.24
3505 7337 0.171231 GGGATTTTTGCGAGGTCTGC 59.829 55.000 0.00 0.00 0.00 4.26
3506 7338 0.811281 GGGGATTTTTGCGAGGTCTG 59.189 55.000 0.00 0.00 0.00 3.51
3507 7339 0.676782 CGGGGATTTTTGCGAGGTCT 60.677 55.000 0.00 0.00 0.00 3.85
3508 7340 0.675522 TCGGGGATTTTTGCGAGGTC 60.676 55.000 0.00 0.00 0.00 3.85
3509 7341 0.958876 GTCGGGGATTTTTGCGAGGT 60.959 55.000 0.00 0.00 0.00 3.85
3510 7342 1.654023 GGTCGGGGATTTTTGCGAGG 61.654 60.000 0.00 0.00 0.00 4.63
3511 7343 1.654023 GGGTCGGGGATTTTTGCGAG 61.654 60.000 0.00 0.00 0.00 5.03
3512 7344 1.676303 GGGTCGGGGATTTTTGCGA 60.676 57.895 0.00 0.00 0.00 5.10
3513 7345 2.882132 GGGTCGGGGATTTTTGCG 59.118 61.111 0.00 0.00 0.00 4.85
3514 7346 0.677414 TACGGGTCGGGGATTTTTGC 60.677 55.000 0.00 0.00 0.00 3.68
3515 7347 1.823797 TTACGGGTCGGGGATTTTTG 58.176 50.000 0.00 0.00 0.00 2.44
3516 7348 2.583024 TTTACGGGTCGGGGATTTTT 57.417 45.000 0.00 0.00 0.00 1.94
3517 7349 2.583024 TTTTACGGGTCGGGGATTTT 57.417 45.000 0.00 0.00 0.00 1.82
3518 7350 2.812836 ATTTTACGGGTCGGGGATTT 57.187 45.000 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.