Multiple sequence alignment - TraesCS6B01G315900

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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 TraesCS6B01G315900 chr6B 100.000 3543 0 0 1 3543 564057129 564053587 0.000000e+00 6543.0
1 TraesCS6B01G315900 chr6B 87.706 1212 84 28 1540 2720 620695266 620696443 0.000000e+00 1352.0
2 TraesCS6B01G315900 chr6B 91.892 481 32 5 1 474 21063888 21063408 0.000000e+00 665.0
3 TraesCS6B01G315900 chr6B 80.911 571 84 12 2988 3543 650755929 650756489 9.090000e-116 427.0
4 TraesCS6B01G315900 chr6A 89.514 2899 225 31 670 3543 68885024 68887868 0.000000e+00 3596.0
5 TraesCS6B01G315900 chr5B 88.855 2925 219 47 673 3543 692427110 692429981 0.000000e+00 3496.0
6 TraesCS6B01G315900 chr5B 85.735 2110 186 63 670 2697 526430411 526432487 0.000000e+00 2122.0
7 TraesCS6B01G315900 chr5B 88.457 875 86 10 668 1537 536797177 536796313 0.000000e+00 1042.0
8 TraesCS6B01G315900 chr5B 85.901 383 29 7 1433 1804 536796383 536796015 5.550000e-103 385.0
9 TraesCS6B01G315900 chr6D 91.446 1929 108 14 669 2586 460814770 460812888 0.000000e+00 2595.0
10 TraesCS6B01G315900 chr6D 85.275 781 62 22 2801 3543 387622879 387622114 0.000000e+00 756.0
11 TraesCS6B01G315900 chr6D 87.619 630 48 17 2 626 377575371 377574767 0.000000e+00 704.0
12 TraesCS6B01G315900 chr6D 83.130 575 85 7 2963 3533 380785890 380786456 6.780000e-142 514.0
13 TraesCS6B01G315900 chr6D 92.727 55 4 0 615 669 377550247 377550193 2.930000e-11 80.5
14 TraesCS6B01G315900 chr3B 86.516 2262 225 46 670 2875 813214384 813212147 0.000000e+00 2414.0
15 TraesCS6B01G315900 chr3B 85.656 739 56 19 2849 3543 725544808 725545540 0.000000e+00 732.0
16 TraesCS6B01G315900 chr3B 85.149 202 14 8 1605 1804 85165360 85165173 3.610000e-45 193.0
17 TraesCS6B01G315900 chr2B 86.854 2130 175 49 670 2745 646599573 646601651 0.000000e+00 2285.0
18 TraesCS6B01G315900 chr2B 83.094 1461 168 42 670 2105 117934961 117936367 0.000000e+00 1256.0
19 TraesCS6B01G315900 chr2B 84.417 738 69 19 2849 3543 765112917 765112183 0.000000e+00 684.0
20 TraesCS6B01G315900 chr2B 89.041 73 7 1 2849 2921 765112976 765112905 4.870000e-14 89.8
21 TraesCS6B01G315900 chr2B 90.385 52 5 0 2870 2921 765113015 765112964 6.350000e-08 69.4
22 TraesCS6B01G315900 chr2B 82.895 76 10 2 1463 1537 646600319 646600392 8.210000e-07 65.8
23 TraesCS6B01G315900 chr7D 85.708 2127 179 63 669 2697 530867457 530865358 0.000000e+00 2128.0
24 TraesCS6B01G315900 chr3D 90.562 1282 88 17 1678 2937 603109093 603107823 0.000000e+00 1666.0
25 TraesCS6B01G315900 chr3D 87.449 733 57 8 2835 3543 447607938 447607217 0.000000e+00 811.0
26 TraesCS6B01G315900 chr3D 85.915 781 57 22 2801 3543 374009039 374008274 0.000000e+00 784.0
27 TraesCS6B01G315900 chr3D 88.012 684 49 8 2883 3543 580650278 580649605 0.000000e+00 778.0
28 TraesCS6B01G315900 chr4D 89.435 1344 96 20 1540 2867 43370662 43371975 0.000000e+00 1653.0
29 TraesCS6B01G315900 chr4D 90.787 1042 70 16 1678 2697 46607059 46608096 0.000000e+00 1369.0
30 TraesCS6B01G315900 chr4D 87.244 878 84 21 671 1537 46605931 46606791 0.000000e+00 976.0
31 TraesCS6B01G315900 chr4D 91.286 482 35 5 1 475 6226788 6227269 0.000000e+00 651.0
32 TraesCS6B01G315900 chr7A 88.183 1227 100 32 1710 2907 110524848 110526058 0.000000e+00 1421.0
33 TraesCS6B01G315900 chr5D 88.206 1204 98 22 1540 2703 369015813 369014614 0.000000e+00 1397.0
34 TraesCS6B01G315900 chr5D 86.971 921 92 21 746 1648 557814912 557815822 0.000000e+00 1011.0
35 TraesCS6B01G315900 chr5D 85.128 780 65 26 2801 3543 504763252 504764017 0.000000e+00 750.0
36 TraesCS6B01G315900 chr1B 90.628 1003 74 6 1761 2762 495766872 495765889 0.000000e+00 1314.0
37 TraesCS6B01G315900 chr1B 87.691 983 94 16 670 1637 148152747 148153717 0.000000e+00 1120.0
38 TraesCS6B01G315900 chr1B 88.660 873 70 17 671 1537 229996893 229997742 0.000000e+00 1037.0
39 TraesCS6B01G315900 chr1B 91.684 481 33 5 1 474 269218420 269218900 0.000000e+00 660.0
40 TraesCS6B01G315900 chr1B 91.476 481 34 5 1 474 644278683 644278203 0.000000e+00 654.0
41 TraesCS6B01G315900 chr1B 87.404 389 24 7 1427 1804 229997666 229998040 1.180000e-114 424.0
42 TraesCS6B01G315900 chr1B 81.250 80 10 3 1460 1537 148153498 148153574 3.820000e-05 60.2
43 TraesCS6B01G315900 chr1D 90.139 862 71 11 670 1525 422072811 422073664 0.000000e+00 1109.0
44 TraesCS6B01G315900 chr1D 88.243 791 45 26 1540 2298 422073716 422074490 0.000000e+00 902.0
45 TraesCS6B01G315900 chr1D 85.147 781 65 22 2801 3543 422848955 422848188 0.000000e+00 752.0
46 TraesCS6B01G315900 chr2A 87.516 777 71 10 2782 3543 202213562 202214327 0.000000e+00 874.0
47 TraesCS6B01G315900 chr2A 84.605 773 60 15 2794 3543 751415545 751414809 0.000000e+00 713.0
48 TraesCS6B01G315900 chr2A 83.167 802 82 27 2792 3543 184515219 184514421 0.000000e+00 684.0
49 TraesCS6B01G315900 chr2D 85.769 780 59 22 2801 3543 207004396 207003632 0.000000e+00 778.0
50 TraesCS6B01G315900 chr2D 85.513 780 62 24 2801 3543 535664157 535664922 0.000000e+00 767.0
51 TraesCS6B01G315900 chr7B 85.250 739 68 11 2835 3543 11699689 11698962 0.000000e+00 723.0
52 TraesCS6B01G315900 chr7B 91.667 480 34 4 1 474 624711853 624711374 0.000000e+00 660.0
53 TraesCS6B01G315900 chr7B 91.476 481 34 5 1 474 74092833 74093313 0.000000e+00 654.0
54 TraesCS6B01G315900 chr7B 91.458 480 33 6 1 473 556430982 556431460 0.000000e+00 652.0
55 TraesCS6B01G315900 chrUn 85.402 733 56 13 2835 3543 112554736 112554031 0.000000e+00 713.0
56 TraesCS6B01G315900 chrUn 91.476 481 33 6 1 474 51423321 51422842 0.000000e+00 654.0


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 TraesCS6B01G315900 chr6B 564053587 564057129 3542 True 6543.000000 6543 100.000000 1 3543 1 chr6B.!!$R2 3542
1 TraesCS6B01G315900 chr6B 620695266 620696443 1177 False 1352.000000 1352 87.706000 1540 2720 1 chr6B.!!$F1 1180
2 TraesCS6B01G315900 chr6B 650755929 650756489 560 False 427.000000 427 80.911000 2988 3543 1 chr6B.!!$F2 555
3 TraesCS6B01G315900 chr6A 68885024 68887868 2844 False 3596.000000 3596 89.514000 670 3543 1 chr6A.!!$F1 2873
4 TraesCS6B01G315900 chr5B 692427110 692429981 2871 False 3496.000000 3496 88.855000 673 3543 1 chr5B.!!$F2 2870
5 TraesCS6B01G315900 chr5B 526430411 526432487 2076 False 2122.000000 2122 85.735000 670 2697 1 chr5B.!!$F1 2027
6 TraesCS6B01G315900 chr5B 536796015 536797177 1162 True 713.500000 1042 87.179000 668 1804 2 chr5B.!!$R1 1136
7 TraesCS6B01G315900 chr6D 460812888 460814770 1882 True 2595.000000 2595 91.446000 669 2586 1 chr6D.!!$R4 1917
8 TraesCS6B01G315900 chr6D 387622114 387622879 765 True 756.000000 756 85.275000 2801 3543 1 chr6D.!!$R3 742
9 TraesCS6B01G315900 chr6D 377574767 377575371 604 True 704.000000 704 87.619000 2 626 1 chr6D.!!$R2 624
10 TraesCS6B01G315900 chr6D 380785890 380786456 566 False 514.000000 514 83.130000 2963 3533 1 chr6D.!!$F1 570
11 TraesCS6B01G315900 chr3B 813212147 813214384 2237 True 2414.000000 2414 86.516000 670 2875 1 chr3B.!!$R2 2205
12 TraesCS6B01G315900 chr3B 725544808 725545540 732 False 732.000000 732 85.656000 2849 3543 1 chr3B.!!$F1 694
13 TraesCS6B01G315900 chr2B 117934961 117936367 1406 False 1256.000000 1256 83.094000 670 2105 1 chr2B.!!$F1 1435
14 TraesCS6B01G315900 chr2B 646599573 646601651 2078 False 1175.400000 2285 84.874500 670 2745 2 chr2B.!!$F2 2075
15 TraesCS6B01G315900 chr2B 765112183 765113015 832 True 281.066667 684 87.947667 2849 3543 3 chr2B.!!$R1 694
16 TraesCS6B01G315900 chr7D 530865358 530867457 2099 True 2128.000000 2128 85.708000 669 2697 1 chr7D.!!$R1 2028
17 TraesCS6B01G315900 chr3D 603107823 603109093 1270 True 1666.000000 1666 90.562000 1678 2937 1 chr3D.!!$R4 1259
18 TraesCS6B01G315900 chr3D 447607217 447607938 721 True 811.000000 811 87.449000 2835 3543 1 chr3D.!!$R2 708
19 TraesCS6B01G315900 chr3D 374008274 374009039 765 True 784.000000 784 85.915000 2801 3543 1 chr3D.!!$R1 742
20 TraesCS6B01G315900 chr3D 580649605 580650278 673 True 778.000000 778 88.012000 2883 3543 1 chr3D.!!$R3 660
21 TraesCS6B01G315900 chr4D 43370662 43371975 1313 False 1653.000000 1653 89.435000 1540 2867 1 chr4D.!!$F2 1327
22 TraesCS6B01G315900 chr4D 46605931 46608096 2165 False 1172.500000 1369 89.015500 671 2697 2 chr4D.!!$F3 2026
23 TraesCS6B01G315900 chr7A 110524848 110526058 1210 False 1421.000000 1421 88.183000 1710 2907 1 chr7A.!!$F1 1197
24 TraesCS6B01G315900 chr5D 369014614 369015813 1199 True 1397.000000 1397 88.206000 1540 2703 1 chr5D.!!$R1 1163
25 TraesCS6B01G315900 chr5D 557814912 557815822 910 False 1011.000000 1011 86.971000 746 1648 1 chr5D.!!$F2 902
26 TraesCS6B01G315900 chr5D 504763252 504764017 765 False 750.000000 750 85.128000 2801 3543 1 chr5D.!!$F1 742
27 TraesCS6B01G315900 chr1B 495765889 495766872 983 True 1314.000000 1314 90.628000 1761 2762 1 chr1B.!!$R1 1001
28 TraesCS6B01G315900 chr1B 229996893 229998040 1147 False 730.500000 1037 88.032000 671 1804 2 chr1B.!!$F3 1133
29 TraesCS6B01G315900 chr1B 148152747 148153717 970 False 590.100000 1120 84.470500 670 1637 2 chr1B.!!$F2 967
30 TraesCS6B01G315900 chr1D 422072811 422074490 1679 False 1005.500000 1109 89.191000 670 2298 2 chr1D.!!$F1 1628
31 TraesCS6B01G315900 chr1D 422848188 422848955 767 True 752.000000 752 85.147000 2801 3543 1 chr1D.!!$R1 742
32 TraesCS6B01G315900 chr2A 202213562 202214327 765 False 874.000000 874 87.516000 2782 3543 1 chr2A.!!$F1 761
33 TraesCS6B01G315900 chr2A 751414809 751415545 736 True 713.000000 713 84.605000 2794 3543 1 chr2A.!!$R2 749
34 TraesCS6B01G315900 chr2A 184514421 184515219 798 True 684.000000 684 83.167000 2792 3543 1 chr2A.!!$R1 751
35 TraesCS6B01G315900 chr2D 207003632 207004396 764 True 778.000000 778 85.769000 2801 3543 1 chr2D.!!$R1 742
36 TraesCS6B01G315900 chr2D 535664157 535664922 765 False 767.000000 767 85.513000 2801 3543 1 chr2D.!!$F1 742
37 TraesCS6B01G315900 chr7B 11698962 11699689 727 True 723.000000 723 85.250000 2835 3543 1 chr7B.!!$R1 708
38 TraesCS6B01G315900 chrUn 112554031 112554736 705 True 713.000000 713 85.402000 2835 3543 1 chrUn.!!$R2 708

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
662 667 0.178973 GGCAAGGTAGTTGTGGGGTT 60.179 55.0 0.00 0.0 38.55 4.11 F
1527 1622 0.321387 AGAGATGTGTGGTGCAGCAG 60.321 55.0 20.85 0.0 0.00 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2043 2305 1.771854 TCTTCCACCAACTGGCTGTAA 59.228 47.619 0.0 0.0 40.39 2.41 R
3005 3505 1.494960 AGAAGGAGGAGTGAGATGCC 58.505 55.000 0.0 0.0 0.00 4.40 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
17 18 4.456806 GAGTCGGGCACAACTTGT 57.543 55.556 0.00 0.00 0.00 3.16
45 46 1.905687 GACAGTCGAGAAATCGTCGTG 59.094 52.381 0.00 0.00 38.60 4.35
54 55 0.249398 AAATCGTCGTGCTAAGGCCT 59.751 50.000 0.00 0.00 37.74 5.19
60 61 1.040646 TCGTGCTAAGGCCTCATAGG 58.959 55.000 5.23 0.00 38.80 2.57
72 73 0.962489 CTCATAGGACTAGCACCCGG 59.038 60.000 0.00 0.00 0.00 5.73
73 74 0.554305 TCATAGGACTAGCACCCGGA 59.446 55.000 0.73 0.00 0.00 5.14
75 76 1.068741 CATAGGACTAGCACCCGGAAC 59.931 57.143 0.73 0.00 0.00 3.62
78 79 1.448013 GACTAGCACCCGGAACAGC 60.448 63.158 0.73 0.28 0.00 4.40
79 80 2.167398 GACTAGCACCCGGAACAGCA 62.167 60.000 0.73 0.00 0.00 4.41
81 82 0.605319 CTAGCACCCGGAACAGCAAA 60.605 55.000 0.73 0.00 0.00 3.68
82 83 0.887387 TAGCACCCGGAACAGCAAAC 60.887 55.000 0.73 0.00 0.00 2.93
83 84 2.637025 CACCCGGAACAGCAAACG 59.363 61.111 0.73 0.00 0.00 3.60
84 85 1.890041 CACCCGGAACAGCAAACGA 60.890 57.895 0.73 0.00 0.00 3.85
86 87 2.549282 CCGGAACAGCAAACGACG 59.451 61.111 0.00 0.00 0.00 5.12
87 88 2.127758 CGGAACAGCAAACGACGC 60.128 61.111 0.00 0.00 0.00 5.19
97 98 1.922444 GCAAACGACGCCGATGAAAAA 60.922 47.619 0.00 0.00 39.50 1.94
127 128 1.369625 CGGAAGGATCCAAACCGAAG 58.630 55.000 28.08 8.79 46.97 3.79
132 133 1.697432 AGGATCCAAACCGAAGACACA 59.303 47.619 15.82 0.00 0.00 3.72
134 135 1.804748 GATCCAAACCGAAGACACACC 59.195 52.381 0.00 0.00 0.00 4.16
137 138 1.953686 CCAAACCGAAGACACACCAAT 59.046 47.619 0.00 0.00 0.00 3.16
142 143 2.631062 ACCGAAGACACACCAATGTAGA 59.369 45.455 0.00 0.00 36.72 2.59
149 150 5.189928 AGACACACCAATGTAGACAAACAA 58.810 37.500 0.00 0.00 36.72 2.83
172 173 1.414181 ACGAGATCCGAGCAAATCCAT 59.586 47.619 10.05 0.00 41.76 3.41
208 209 1.664965 GAGACACACCTCCACACGC 60.665 63.158 0.00 0.00 0.00 5.34
228 229 1.421410 CCACCAACGATGCTAGACGC 61.421 60.000 0.00 0.00 39.77 5.19
282 284 0.984230 TTCCATCTTCAAGGAGCCGT 59.016 50.000 0.00 0.00 34.91 5.68
285 287 1.153549 ATCTTCAAGGAGCCGTCGC 60.154 57.895 0.00 0.00 0.00 5.19
321 323 2.054799 AGGACACAAACCCTAGCAAGA 58.945 47.619 0.00 0.00 0.00 3.02
323 325 3.074538 AGGACACAAACCCTAGCAAGATT 59.925 43.478 0.00 0.00 0.00 2.40
324 326 3.191371 GGACACAAACCCTAGCAAGATTG 59.809 47.826 0.00 0.00 0.00 2.67
325 327 4.072131 GACACAAACCCTAGCAAGATTGA 58.928 43.478 0.00 0.00 0.00 2.57
352 354 2.603953 CGACTAAAAACGGAGTCTCCC 58.396 52.381 13.54 0.00 45.00 4.30
376 378 2.615465 CCCTTGCCAGGATCCACCA 61.615 63.158 15.82 4.65 44.19 4.17
378 380 1.746615 CTTGCCAGGATCCACCACG 60.747 63.158 15.82 1.59 42.04 4.94
449 451 0.460311 CGAGAGGCACGAACCCTAAT 59.540 55.000 0.00 0.00 31.41 1.73
483 488 3.731728 GGAGGAGGCCACCATGCA 61.732 66.667 22.29 0.00 34.35 3.96
484 489 2.439156 GAGGAGGCCACCATGCAC 60.439 66.667 22.29 3.57 0.00 4.57
528 533 7.210873 ACCGTGAATTTATTTTAGTTTGGCAA 58.789 30.769 0.00 0.00 0.00 4.52
530 535 8.167985 CCGTGAATTTATTTTAGTTTGGCAATG 58.832 33.333 0.00 0.00 0.00 2.82
577 582 3.831911 TGGCTTTGGGGATTAAAGTCTTG 59.168 43.478 0.00 0.00 39.74 3.02
585 590 5.222233 TGGGGATTAAAGTCTTGATGGTTGA 60.222 40.000 0.00 0.00 0.00 3.18
626 631 8.237949 CACATAAATTACACCGTGACCAAAATA 58.762 33.333 5.28 0.00 0.00 1.40
627 632 8.455682 ACATAAATTACACCGTGACCAAAATAG 58.544 33.333 5.28 0.00 0.00 1.73
628 633 8.670135 CATAAATTACACCGTGACCAAAATAGA 58.330 33.333 5.28 0.00 0.00 1.98
629 634 6.737254 AATTACACCGTGACCAAAATAGAG 57.263 37.500 5.28 0.00 0.00 2.43
630 635 3.764237 ACACCGTGACCAAAATAGAGT 57.236 42.857 5.28 0.00 0.00 3.24
631 636 4.877378 ACACCGTGACCAAAATAGAGTA 57.123 40.909 5.28 0.00 0.00 2.59
632 637 4.817517 ACACCGTGACCAAAATAGAGTAG 58.182 43.478 5.28 0.00 0.00 2.57
633 638 3.617263 CACCGTGACCAAAATAGAGTAGC 59.383 47.826 0.00 0.00 0.00 3.58
634 639 3.259876 ACCGTGACCAAAATAGAGTAGCA 59.740 43.478 0.00 0.00 0.00 3.49
635 640 4.250464 CCGTGACCAAAATAGAGTAGCAA 58.750 43.478 0.00 0.00 0.00 3.91
636 641 4.693566 CCGTGACCAAAATAGAGTAGCAAA 59.306 41.667 0.00 0.00 0.00 3.68
637 642 5.354234 CCGTGACCAAAATAGAGTAGCAAAT 59.646 40.000 0.00 0.00 0.00 2.32
638 643 6.128007 CCGTGACCAAAATAGAGTAGCAAATT 60.128 38.462 0.00 0.00 0.00 1.82
639 644 6.742718 CGTGACCAAAATAGAGTAGCAAATTG 59.257 38.462 0.00 0.00 0.00 2.32
640 645 7.573096 CGTGACCAAAATAGAGTAGCAAATTGT 60.573 37.037 0.00 0.00 0.00 2.71
641 646 8.082242 GTGACCAAAATAGAGTAGCAAATTGTT 58.918 33.333 0.00 0.00 0.00 2.83
642 647 8.637986 TGACCAAAATAGAGTAGCAAATTGTTT 58.362 29.630 0.00 0.00 0.00 2.83
643 648 8.816640 ACCAAAATAGAGTAGCAAATTGTTTG 57.183 30.769 0.00 0.00 43.44 2.93
644 649 7.872483 ACCAAAATAGAGTAGCAAATTGTTTGG 59.128 33.333 13.70 13.70 44.31 3.28
645 650 7.148590 CCAAAATAGAGTAGCAAATTGTTTGGC 60.149 37.037 6.18 0.00 40.94 4.52
646 651 6.588719 AATAGAGTAGCAAATTGTTTGGCA 57.411 33.333 4.77 0.00 40.94 4.92
647 652 4.935352 AGAGTAGCAAATTGTTTGGCAA 57.065 36.364 0.00 0.00 40.94 4.52
648 653 4.874970 AGAGTAGCAAATTGTTTGGCAAG 58.125 39.130 0.00 0.00 40.86 4.01
649 654 3.989817 GAGTAGCAAATTGTTTGGCAAGG 59.010 43.478 0.00 0.00 40.86 3.61
650 655 3.387699 AGTAGCAAATTGTTTGGCAAGGT 59.612 39.130 0.00 0.00 40.86 3.50
651 656 4.586841 AGTAGCAAATTGTTTGGCAAGGTA 59.413 37.500 0.00 0.00 40.86 3.08
652 657 3.993920 AGCAAATTGTTTGGCAAGGTAG 58.006 40.909 0.00 0.00 40.86 3.18
653 658 3.387699 AGCAAATTGTTTGGCAAGGTAGT 59.612 39.130 0.00 0.00 40.86 2.73
654 659 4.126437 GCAAATTGTTTGGCAAGGTAGTT 58.874 39.130 0.00 0.00 40.86 2.24
655 660 4.024977 GCAAATTGTTTGGCAAGGTAGTTG 60.025 41.667 0.00 6.68 40.86 3.16
656 661 5.115480 CAAATTGTTTGGCAAGGTAGTTGT 58.885 37.500 0.00 0.00 40.86 3.32
657 662 3.791973 TTGTTTGGCAAGGTAGTTGTG 57.208 42.857 0.00 0.00 38.55 3.33
658 663 2.028130 TGTTTGGCAAGGTAGTTGTGG 58.972 47.619 0.00 0.00 38.55 4.17
659 664 1.339929 GTTTGGCAAGGTAGTTGTGGG 59.660 52.381 0.00 0.00 38.55 4.61
660 665 0.178975 TTGGCAAGGTAGTTGTGGGG 60.179 55.000 0.00 0.00 38.55 4.96
661 666 1.357272 TGGCAAGGTAGTTGTGGGGT 61.357 55.000 0.00 0.00 38.55 4.95
662 667 0.178973 GGCAAGGTAGTTGTGGGGTT 60.179 55.000 0.00 0.00 38.55 4.11
663 668 1.074244 GGCAAGGTAGTTGTGGGGTTA 59.926 52.381 0.00 0.00 38.55 2.85
664 669 2.156917 GCAAGGTAGTTGTGGGGTTAC 58.843 52.381 0.00 0.00 38.55 2.50
665 670 2.487625 GCAAGGTAGTTGTGGGGTTACA 60.488 50.000 0.00 0.00 38.55 2.41
666 671 3.408634 CAAGGTAGTTGTGGGGTTACAG 58.591 50.000 0.00 0.00 0.00 2.74
904 933 2.462782 GGCCGTTAATGCCGCGTTA 61.463 57.895 4.92 0.65 39.48 3.18
908 937 1.202203 CGTTAATGCCGCGTTAGCTA 58.798 50.000 14.84 0.00 42.32 3.32
910 939 2.220133 CGTTAATGCCGCGTTAGCTATT 59.780 45.455 14.84 6.98 42.32 1.73
992 1036 4.605967 CTCCTCGCTCGCTCGCTC 62.606 72.222 0.00 0.00 0.00 5.03
1014 1060 2.314549 ACTCACTCCTCCTCATCCTCTT 59.685 50.000 0.00 0.00 0.00 2.85
1022 1068 1.933051 TCCTCATCCTCTTCCTCTCCA 59.067 52.381 0.00 0.00 0.00 3.86
1085 1140 1.480954 GCCGGTAGAACTTGAGGATGA 59.519 52.381 1.90 0.00 0.00 2.92
1181 1236 3.758023 TGCATAATGGTGGAACAGAGTTG 59.242 43.478 0.00 0.00 41.80 3.16
1311 1368 5.239525 GTGGTTCTTACACTGAATCTTTGCT 59.760 40.000 0.00 0.00 35.98 3.91
1522 1617 0.886043 TGTGCAGAGATGTGTGGTGC 60.886 55.000 0.00 0.00 34.62 5.01
1523 1618 0.886043 GTGCAGAGATGTGTGGTGCA 60.886 55.000 0.00 0.00 41.72 4.57
1524 1619 0.604511 TGCAGAGATGTGTGGTGCAG 60.605 55.000 0.00 0.00 39.17 4.41
1525 1620 1.919956 GCAGAGATGTGTGGTGCAGC 61.920 60.000 9.47 9.47 34.18 5.25
1526 1621 0.604511 CAGAGATGTGTGGTGCAGCA 60.605 55.000 15.99 15.99 0.00 4.41
1527 1622 0.321387 AGAGATGTGTGGTGCAGCAG 60.321 55.000 20.85 0.00 0.00 4.24
1529 1624 1.601759 GATGTGTGGTGCAGCAGGT 60.602 57.895 20.85 5.37 0.00 4.00
1530 1625 0.321564 GATGTGTGGTGCAGCAGGTA 60.322 55.000 20.85 8.60 0.00 3.08
1531 1626 0.329261 ATGTGTGGTGCAGCAGGTAT 59.671 50.000 20.85 10.63 0.00 2.73
1673 1865 7.975750 ACTGAAAAGAACAGAGTTAACTGAAC 58.024 34.615 14.14 0.00 40.63 3.18
1674 1866 7.606456 ACTGAAAAGAACAGAGTTAACTGAACA 59.394 33.333 14.14 0.00 40.63 3.18
1675 1867 7.748847 TGAAAAGAACAGAGTTAACTGAACAC 58.251 34.615 14.14 0.00 40.86 3.32
1676 1868 7.389330 TGAAAAGAACAGAGTTAACTGAACACA 59.611 33.333 14.14 0.00 40.86 3.72
1965 2220 5.419542 GACATGTACCATGAGCAGAACTTA 58.580 41.667 10.96 0.00 0.00 2.24
2007 2262 1.556911 GCTCATGAGAAAGAGGTGGGA 59.443 52.381 27.04 0.00 32.54 4.37
2191 2453 5.947228 TCAGGCAAAGATTGAGTTAAGTG 57.053 39.130 0.00 0.00 0.00 3.16
2281 2543 1.710244 TGAGGAAGGCCATGAAGGAAA 59.290 47.619 5.01 0.00 41.22 3.13
2284 2546 2.312741 AGGAAGGCCATGAAGGAAATGA 59.687 45.455 5.01 0.00 41.22 2.57
2298 2560 2.996742 GGAAATGAAGGGGGATAGGGAT 59.003 50.000 0.00 0.00 0.00 3.85
2345 2607 4.934602 GCTGGAGTATCTTATTGCTGATCC 59.065 45.833 0.00 0.00 33.73 3.36
2415 2677 5.357878 GGCAATAATGAATGAGTGAAGTGGA 59.642 40.000 0.00 0.00 0.00 4.02
2488 2750 6.710295 TGGAATGTGATGCATATTAGGTGTAC 59.290 38.462 0.00 0.00 36.67 2.90
2495 2757 8.405531 GTGATGCATATTAGGTGTACATTTTGT 58.594 33.333 0.00 0.00 0.00 2.83
2631 2949 7.445707 CCTACTATGCTAAGTGAGTACTCATGA 59.554 40.741 27.54 14.86 42.18 3.07
2747 3068 7.698506 AGCTAACTAACAGTAGTGACATACA 57.301 36.000 4.09 0.00 39.79 2.29
2769 3090 5.124457 ACATGGAAATGATAACACTGACAGC 59.876 40.000 1.25 0.00 0.00 4.40
2770 3091 3.684305 TGGAAATGATAACACTGACAGCG 59.316 43.478 1.25 0.00 0.00 5.18
2842 3203 8.183104 ACATAGATAGCAAGTACATAGCAAGA 57.817 34.615 0.00 0.00 0.00 3.02
2852 3213 7.492669 GCAAGTACATAGCAAGAAGATACTGAA 59.507 37.037 0.00 0.00 0.00 3.02
2916 3392 6.582677 ACCTGCATAGATAGTCTGACATAC 57.417 41.667 10.88 0.66 0.00 2.39
2917 3393 6.071320 ACCTGCATAGATAGTCTGACATACA 58.929 40.000 10.88 0.00 0.00 2.29
2918 3394 6.723515 ACCTGCATAGATAGTCTGACATACAT 59.276 38.462 10.88 0.00 0.00 2.29
2919 3395 7.890655 ACCTGCATAGATAGTCTGACATACATA 59.109 37.037 10.88 0.00 0.00 2.29
2920 3396 8.404765 CCTGCATAGATAGTCTGACATACATAG 58.595 40.741 10.88 0.00 0.00 2.23
2921 3397 9.171877 CTGCATAGATAGTCTGACATACATAGA 57.828 37.037 10.88 0.00 0.00 1.98
2922 3398 9.520515 TGCATAGATAGTCTGACATACATAGAA 57.479 33.333 10.88 0.00 0.00 2.10
2923 3399 9.781834 GCATAGATAGTCTGACATACATAGAAC 57.218 37.037 10.88 0.00 0.00 3.01
2984 3470 5.409643 ACTGACGAAACTGAACATTTCTG 57.590 39.130 0.00 0.00 34.50 3.02
3005 3505 2.657372 GCTACTGACGAAACTGAAGACG 59.343 50.000 0.00 0.00 0.00 4.18
3039 3539 2.909006 TCCTTCTTCAGCATCTTCAGGT 59.091 45.455 0.00 0.00 0.00 4.00
3127 3628 2.762459 ATCTTCACCGCCGCCCTA 60.762 61.111 0.00 0.00 0.00 3.53
3158 3659 1.154450 CACGACGACGACCTCTGTC 60.154 63.158 15.32 0.00 42.66 3.51
3220 3721 2.284699 CTTCTCCCCCTCCACGGT 60.285 66.667 0.00 0.00 0.00 4.83
3296 3842 0.898320 CCTCCACCTCGTTGTCAGAT 59.102 55.000 0.00 0.00 0.00 2.90
3298 3844 2.289694 CCTCCACCTCGTTGTCAGATTT 60.290 50.000 0.00 0.00 0.00 2.17
3301 3847 2.878406 CCACCTCGTTGTCAGATTTGTT 59.122 45.455 0.00 0.00 0.00 2.83
3318 3876 5.536554 TTTGTTAGAGTAGTAGTCGTCCG 57.463 43.478 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.531974 TGACAAGTTGTGCCCGACTC 60.532 55.000 14.57 0.00 34.00 3.36
33 34 1.641577 GCCTTAGCACGACGATTTCT 58.358 50.000 0.00 0.00 39.53 2.52
37 38 1.320344 TGAGGCCTTAGCACGACGAT 61.320 55.000 6.77 0.00 42.56 3.73
45 46 2.232696 GCTAGTCCTATGAGGCCTTAGC 59.767 54.545 6.77 10.09 34.61 3.09
54 55 0.554305 TCCGGGTGCTAGTCCTATGA 59.446 55.000 0.00 0.00 0.00 2.15
60 61 1.448013 GCTGTTCCGGGTGCTAGTC 60.448 63.158 0.00 0.00 0.00 2.59
72 73 1.897398 ATCGGCGTCGTTTGCTGTTC 61.897 55.000 10.18 0.00 39.73 3.18
73 74 1.959226 ATCGGCGTCGTTTGCTGTT 60.959 52.632 10.18 0.00 39.73 3.16
75 76 1.896339 TTCATCGGCGTCGTTTGCTG 61.896 55.000 10.18 0.81 40.13 4.41
78 79 2.025544 TTTTTCATCGGCGTCGTTTG 57.974 45.000 10.18 9.13 37.69 2.93
79 80 2.981400 ATTTTTCATCGGCGTCGTTT 57.019 40.000 10.18 0.00 37.69 3.60
81 82 2.737783 TGTTATTTTTCATCGGCGTCGT 59.262 40.909 10.18 0.00 37.69 4.34
82 83 3.377434 TGTTATTTTTCATCGGCGTCG 57.623 42.857 1.15 1.15 37.82 5.12
83 84 5.007332 ACCTATGTTATTTTTCATCGGCGTC 59.993 40.000 6.85 0.00 32.44 5.19
84 85 4.879545 ACCTATGTTATTTTTCATCGGCGT 59.120 37.500 6.85 0.00 32.44 5.68
86 87 5.440685 CGACCTATGTTATTTTTCATCGGC 58.559 41.667 0.00 0.00 32.44 5.54
87 88 5.756347 TCCGACCTATGTTATTTTTCATCGG 59.244 40.000 0.00 0.00 34.46 4.18
97 98 4.489737 TGGATCCTTCCGACCTATGTTAT 58.510 43.478 14.23 0.00 45.89 1.89
127 128 5.270853 GTTGTTTGTCTACATTGGTGTGTC 58.729 41.667 0.00 0.00 39.39 3.67
132 133 3.246699 CGTCGTTGTTTGTCTACATTGGT 59.753 43.478 0.00 0.00 0.00 3.67
134 135 4.443063 TCTCGTCGTTGTTTGTCTACATTG 59.557 41.667 0.00 0.00 0.00 2.82
137 138 3.696281 TCTCGTCGTTGTTTGTCTACA 57.304 42.857 0.00 0.00 0.00 2.74
142 143 1.001048 TCGGATCTCGTCGTTGTTTGT 60.001 47.619 0.00 0.00 40.32 2.83
149 150 0.456221 ATTTGCTCGGATCTCGTCGT 59.544 50.000 0.00 0.00 40.32 4.34
172 173 3.319405 GTCTCCGGCAGATCTATCTTTGA 59.681 47.826 0.00 0.00 34.22 2.69
208 209 0.806102 CGTCTAGCATCGTTGGTGGG 60.806 60.000 8.40 2.07 34.79 4.61
233 234 4.387343 ACCTAGCCCCCGTTCCGA 62.387 66.667 0.00 0.00 0.00 4.55
250 251 4.788075 TGAAGATGGAATAAAGGTCTCCCA 59.212 41.667 0.00 0.00 0.00 4.37
282 284 3.452786 CTCAGGAAGGCGAGGCGA 61.453 66.667 0.00 0.00 0.00 5.54
285 287 2.186384 CTGCTCAGGAAGGCGAGG 59.814 66.667 0.00 0.00 0.00 4.63
297 299 1.946283 GCTAGGGTTTGTGTCCTGCTC 60.946 57.143 0.00 0.00 34.75 4.26
300 302 2.154462 CTTGCTAGGGTTTGTGTCCTG 58.846 52.381 0.00 0.00 34.75 3.86
331 333 2.603953 GGAGACTCCGTTTTTAGTCGG 58.396 52.381 5.55 0.00 45.47 4.79
332 334 2.603953 GGGAGACTCCGTTTTTAGTCG 58.396 52.381 15.46 0.00 45.47 4.18
333 335 2.603953 CGGGAGACTCCGTTTTTAGTC 58.396 52.381 15.46 0.00 44.60 2.59
390 392 2.439701 TCGTCTCGGTGGCCCTAG 60.440 66.667 0.00 0.00 0.00 3.02
391 393 2.439701 CTCGTCTCGGTGGCCCTA 60.440 66.667 0.00 0.00 0.00 3.53
400 402 4.180946 CAGGTCCGCCTCGTCTCG 62.181 72.222 0.00 0.00 44.97 4.04
449 451 3.980698 TCCTCCTCCTCCAAGAAAGAAAA 59.019 43.478 0.00 0.00 0.00 2.29
483 488 8.460428 TCACGGTTTACTTAACTTTTGAAATGT 58.540 29.630 0.00 0.00 36.93 2.71
484 489 8.844441 TCACGGTTTACTTAACTTTTGAAATG 57.156 30.769 0.00 0.00 36.93 2.32
545 550 8.971032 TTAATCCCCAAAGCCAAATGATATAT 57.029 30.769 0.00 0.00 0.00 0.86
577 582 4.336713 GGAACAAGCTCCTTATCAACCATC 59.663 45.833 0.00 0.00 32.21 3.51
626 631 4.262164 CCTTGCCAAACAATTTGCTACTCT 60.262 41.667 0.00 0.00 39.31 3.24
627 632 3.989817 CCTTGCCAAACAATTTGCTACTC 59.010 43.478 0.00 0.00 39.31 2.59
628 633 3.387699 ACCTTGCCAAACAATTTGCTACT 59.612 39.130 0.00 0.00 39.31 2.57
629 634 3.727726 ACCTTGCCAAACAATTTGCTAC 58.272 40.909 0.00 0.00 39.31 3.58
630 635 4.586841 ACTACCTTGCCAAACAATTTGCTA 59.413 37.500 0.00 0.00 39.31 3.49
631 636 3.387699 ACTACCTTGCCAAACAATTTGCT 59.612 39.130 0.00 0.00 39.31 3.91
632 637 3.727726 ACTACCTTGCCAAACAATTTGC 58.272 40.909 0.00 0.00 39.31 3.68
633 638 5.006552 CACAACTACCTTGCCAAACAATTTG 59.993 40.000 0.00 0.00 37.72 2.32
634 639 5.115480 CACAACTACCTTGCCAAACAATTT 58.885 37.500 0.00 0.00 37.72 1.82
635 640 4.442753 CCACAACTACCTTGCCAAACAATT 60.443 41.667 0.00 0.00 37.72 2.32
636 641 3.069443 CCACAACTACCTTGCCAAACAAT 59.931 43.478 0.00 0.00 37.72 2.71
637 642 2.428890 CCACAACTACCTTGCCAAACAA 59.571 45.455 0.00 0.00 36.62 2.83
638 643 2.028130 CCACAACTACCTTGCCAAACA 58.972 47.619 0.00 0.00 32.41 2.83
639 644 1.339929 CCCACAACTACCTTGCCAAAC 59.660 52.381 0.00 0.00 32.41 2.93
640 645 1.698506 CCCACAACTACCTTGCCAAA 58.301 50.000 0.00 0.00 32.41 3.28
641 646 0.178975 CCCCACAACTACCTTGCCAA 60.179 55.000 0.00 0.00 32.41 4.52
642 647 1.357272 ACCCCACAACTACCTTGCCA 61.357 55.000 0.00 0.00 32.41 4.92
643 648 0.178973 AACCCCACAACTACCTTGCC 60.179 55.000 0.00 0.00 32.41 4.52
644 649 2.156917 GTAACCCCACAACTACCTTGC 58.843 52.381 0.00 0.00 32.41 4.01
645 650 3.071892 TCTGTAACCCCACAACTACCTTG 59.928 47.826 0.00 0.00 35.77 3.61
646 651 3.320129 TCTGTAACCCCACAACTACCTT 58.680 45.455 0.00 0.00 0.00 3.50
647 652 2.980548 TCTGTAACCCCACAACTACCT 58.019 47.619 0.00 0.00 0.00 3.08
648 653 3.325716 TCTTCTGTAACCCCACAACTACC 59.674 47.826 0.00 0.00 0.00 3.18
649 654 4.040095 ACTCTTCTGTAACCCCACAACTAC 59.960 45.833 0.00 0.00 0.00 2.73
650 655 4.228824 ACTCTTCTGTAACCCCACAACTA 58.771 43.478 0.00 0.00 0.00 2.24
651 656 3.046374 ACTCTTCTGTAACCCCACAACT 58.954 45.455 0.00 0.00 0.00 3.16
652 657 3.487120 ACTCTTCTGTAACCCCACAAC 57.513 47.619 0.00 0.00 0.00 3.32
653 658 5.836024 AATACTCTTCTGTAACCCCACAA 57.164 39.130 0.00 0.00 0.00 3.33
654 659 5.836024 AAATACTCTTCTGTAACCCCACA 57.164 39.130 0.00 0.00 0.00 4.17
655 660 6.596888 GGTTAAATACTCTTCTGTAACCCCAC 59.403 42.308 0.00 0.00 36.17 4.61
656 661 6.272792 TGGTTAAATACTCTTCTGTAACCCCA 59.727 38.462 7.69 0.00 39.72 4.96
657 662 6.714278 TGGTTAAATACTCTTCTGTAACCCC 58.286 40.000 7.69 0.00 39.72 4.95
658 663 8.625786 TTTGGTTAAATACTCTTCTGTAACCC 57.374 34.615 7.69 0.00 39.72 4.11
662 667 9.629878 TGGTTTTTGGTTAAATACTCTTCTGTA 57.370 29.630 0.00 0.00 31.16 2.74
663 668 8.410912 GTGGTTTTTGGTTAAATACTCTTCTGT 58.589 33.333 0.00 0.00 31.16 3.41
664 669 7.865889 GGTGGTTTTTGGTTAAATACTCTTCTG 59.134 37.037 0.00 0.00 31.16 3.02
665 670 7.562088 TGGTGGTTTTTGGTTAAATACTCTTCT 59.438 33.333 0.00 0.00 31.16 2.85
666 671 7.650504 GTGGTGGTTTTTGGTTAAATACTCTTC 59.349 37.037 0.00 0.00 31.16 2.87
713 718 6.590357 CACAAAATCGTAGAGTGGTAGTTTG 58.410 40.000 0.00 0.00 43.63 2.93
778 796 2.241880 CGGTTTCGCGAGTTGGTGT 61.242 57.895 9.59 0.00 0.00 4.16
779 797 2.549282 CGGTTTCGCGAGTTGGTG 59.451 61.111 9.59 0.00 0.00 4.17
827 846 3.615509 GATTCGTGGGCCCAACCGA 62.616 63.158 30.64 29.30 40.62 4.69
904 933 2.513897 GGCGCCGTTCCAATAGCT 60.514 61.111 12.58 0.00 0.00 3.32
908 937 2.746277 GACAGGCGCCGTTCCAAT 60.746 61.111 23.20 0.00 0.00 3.16
989 1033 1.408702 GATGAGGAGGAGTGAGTGAGC 59.591 57.143 0.00 0.00 0.00 4.26
990 1034 2.031120 GGATGAGGAGGAGTGAGTGAG 58.969 57.143 0.00 0.00 0.00 3.51
991 1035 1.643286 AGGATGAGGAGGAGTGAGTGA 59.357 52.381 0.00 0.00 0.00 3.41
992 1036 2.031120 GAGGATGAGGAGGAGTGAGTG 58.969 57.143 0.00 0.00 0.00 3.51
1014 1060 0.041684 TCAGAGCACCATGGAGAGGA 59.958 55.000 21.47 5.13 0.00 3.71
1085 1140 1.759445 CTCCTCGTCATTCCAGGATGT 59.241 52.381 0.00 0.00 35.70 3.06
1181 1236 2.848071 TGGATGAACTAACCCTAACCCC 59.152 50.000 0.00 0.00 0.00 4.95
1522 1617 2.358957 TGCTGCACTTAATACCTGCTG 58.641 47.619 0.00 0.00 34.10 4.41
1523 1618 2.787473 TGCTGCACTTAATACCTGCT 57.213 45.000 0.00 0.00 0.00 4.24
1524 1619 6.372659 ACATATATGCTGCACTTAATACCTGC 59.627 38.462 12.79 0.00 0.00 4.85
1525 1620 7.603784 TCACATATATGCTGCACTTAATACCTG 59.396 37.037 12.79 0.78 0.00 4.00
1526 1621 7.679783 TCACATATATGCTGCACTTAATACCT 58.320 34.615 12.79 0.00 0.00 3.08
1527 1622 7.905604 TCACATATATGCTGCACTTAATACC 57.094 36.000 12.79 0.00 0.00 2.73
1529 1624 9.559732 ACTTTCACATATATGCTGCACTTAATA 57.440 29.630 12.79 1.43 0.00 0.98
1530 1625 8.455903 ACTTTCACATATATGCTGCACTTAAT 57.544 30.769 12.79 0.00 0.00 1.40
1531 1626 7.864108 ACTTTCACATATATGCTGCACTTAA 57.136 32.000 12.79 0.00 0.00 1.85
1673 1865 8.598924 CAGCAGAGATAACTAAGTTAACATGTG 58.401 37.037 8.61 0.00 31.56 3.21
1674 1866 7.278868 GCAGCAGAGATAACTAAGTTAACATGT 59.721 37.037 8.61 0.00 31.56 3.21
1675 1867 7.493971 AGCAGCAGAGATAACTAAGTTAACATG 59.506 37.037 8.61 0.00 31.56 3.21
1676 1868 7.560368 AGCAGCAGAGATAACTAAGTTAACAT 58.440 34.615 8.61 0.00 31.56 2.71
1685 1877 8.144478 CACCTTATTTAGCAGCAGAGATAACTA 58.856 37.037 0.00 0.00 0.00 2.24
1686 1878 6.989169 CACCTTATTTAGCAGCAGAGATAACT 59.011 38.462 0.00 0.00 0.00 2.24
1687 1879 6.763610 ACACCTTATTTAGCAGCAGAGATAAC 59.236 38.462 0.00 0.00 0.00 1.89
1750 1987 8.018537 TCCTATGCTTACTTAAATGCACTCTA 57.981 34.615 0.00 0.00 38.29 2.43
1755 1992 7.013274 GTGGAATCCTATGCTTACTTAAATGCA 59.987 37.037 0.00 0.00 39.83 3.96
1965 2220 2.414612 TGTTTGTCCTTCACCCTACCT 58.585 47.619 0.00 0.00 0.00 3.08
2034 2296 4.588528 ACCAACTGGCTGTAATTGTTTGAT 59.411 37.500 0.00 0.00 39.32 2.57
2043 2305 1.771854 TCTTCCACCAACTGGCTGTAA 59.228 47.619 0.00 0.00 40.39 2.41
2233 2495 5.889853 TCTGAATGATATCTGCTTGGCTTTT 59.110 36.000 3.98 0.00 0.00 2.27
2281 2543 3.675183 AGTAGATCCCTATCCCCCTTCAT 59.325 47.826 0.00 0.00 31.98 2.57
2284 2546 5.666738 CTTAAGTAGATCCCTATCCCCCTT 58.333 45.833 0.00 0.00 31.98 3.95
2298 2560 7.039363 AGCTTCTTCTTCTCTTGCTTAAGTAGA 60.039 37.037 4.02 6.78 0.00 2.59
2415 2677 9.444600 CTACTAATTACTTAACCAACACACCAT 57.555 33.333 0.00 0.00 0.00 3.55
2488 2750 7.467557 AAGCACATGAAACTTACACAAAATG 57.532 32.000 0.00 0.00 0.00 2.32
2495 2757 6.459573 GGTTCTGAAAGCACATGAAACTTACA 60.460 38.462 0.00 0.00 29.04 2.41
2661 2979 3.365364 GCACAGTAAAACAGCCTCATCAC 60.365 47.826 0.00 0.00 0.00 3.06
2720 3040 6.754702 TGTCACTACTGTTAGTTAGCTAGG 57.245 41.667 0.00 0.00 36.31 3.02
2731 3052 7.394016 TCATTTCCATGTATGTCACTACTGTT 58.606 34.615 0.00 0.00 0.00 3.16
2747 3068 4.333649 CGCTGTCAGTGTTATCATTTCCAT 59.666 41.667 5.17 0.00 0.00 3.41
2769 3090 6.923508 TGCTATCTAATTGAAGTATGTCACCG 59.076 38.462 0.00 0.00 0.00 4.94
2770 3091 8.662781 TTGCTATCTAATTGAAGTATGTCACC 57.337 34.615 0.00 0.00 0.00 4.02
2842 3203 9.757227 GAACTTGCTATCTATGTTCAGTATCTT 57.243 33.333 0.00 0.00 37.52 2.40
2852 3213 9.060347 CCAACAATATGAACTTGCTATCTATGT 57.940 33.333 0.00 0.00 0.00 2.29
2922 3398 9.581289 AGCTGTATCAGTTCTATCTATGTTAGT 57.419 33.333 0.00 0.00 33.43 2.24
2923 3399 9.838975 CAGCTGTATCAGTTCTATCTATGTTAG 57.161 37.037 5.25 0.00 33.43 2.34
2924 3400 8.797438 CCAGCTGTATCAGTTCTATCTATGTTA 58.203 37.037 13.81 0.00 33.43 2.41
2925 3401 7.665690 CCAGCTGTATCAGTTCTATCTATGTT 58.334 38.462 13.81 0.00 33.43 2.71
2926 3402 6.295011 GCCAGCTGTATCAGTTCTATCTATGT 60.295 42.308 13.81 0.00 33.43 2.29
2927 3403 6.098679 GCCAGCTGTATCAGTTCTATCTATG 58.901 44.000 13.81 0.00 33.43 2.23
2928 3404 5.777223 TGCCAGCTGTATCAGTTCTATCTAT 59.223 40.000 13.81 0.00 33.43 1.98
2929 3405 5.140454 TGCCAGCTGTATCAGTTCTATCTA 58.860 41.667 13.81 0.00 33.43 1.98
2930 3406 3.963374 TGCCAGCTGTATCAGTTCTATCT 59.037 43.478 13.81 0.00 33.43 1.98
2931 3407 4.327982 TGCCAGCTGTATCAGTTCTATC 57.672 45.455 13.81 0.00 33.43 2.08
2932 3408 4.970860 ATGCCAGCTGTATCAGTTCTAT 57.029 40.909 13.81 0.00 33.43 1.98
2933 3409 4.895889 AGTATGCCAGCTGTATCAGTTCTA 59.104 41.667 13.81 0.00 33.43 2.10
2934 3410 3.708631 AGTATGCCAGCTGTATCAGTTCT 59.291 43.478 13.81 5.09 33.43 3.01
2935 3411 4.065321 AGTATGCCAGCTGTATCAGTTC 57.935 45.455 13.81 3.13 33.43 3.01
2936 3412 5.104941 TGTTAGTATGCCAGCTGTATCAGTT 60.105 40.000 13.81 0.00 33.43 3.16
2937 3413 4.405680 TGTTAGTATGCCAGCTGTATCAGT 59.594 41.667 13.81 0.81 33.43 3.41
2938 3414 4.948847 TGTTAGTATGCCAGCTGTATCAG 58.051 43.478 13.81 0.00 34.12 2.90
2939 3415 5.551305 ATGTTAGTATGCCAGCTGTATCA 57.449 39.130 13.81 7.96 0.00 2.15
2944 3420 4.747108 GTCAGTATGTTAGTATGCCAGCTG 59.253 45.833 6.78 6.78 37.40 4.24
2946 3422 3.736252 CGTCAGTATGTTAGTATGCCAGC 59.264 47.826 0.00 0.00 37.40 4.85
2984 3470 2.657372 CGTCTTCAGTTTCGTCAGTAGC 59.343 50.000 0.00 0.00 0.00 3.58
3005 3505 1.494960 AGAAGGAGGAGTGAGATGCC 58.505 55.000 0.00 0.00 0.00 4.40
3127 3628 2.731976 GTCGTCGTGAAGCAAGAAGAAT 59.268 45.455 0.00 0.00 33.54 2.40
3158 3659 2.927014 GCTACCAGAGGTTGTCGACAAG 60.927 54.545 30.38 19.41 37.09 3.16
3165 3666 3.197983 GTGGATAAGCTACCAGAGGTTGT 59.802 47.826 7.34 0.00 45.51 3.32
3197 3698 1.612739 GGAGGGGGAGAAGAACCGT 60.613 63.158 0.00 0.00 0.00 4.83
3296 3842 5.237815 TCGGACGACTACTACTCTAACAAA 58.762 41.667 0.00 0.00 0.00 2.83
3298 3844 4.081972 ACTCGGACGACTACTACTCTAACA 60.082 45.833 0.00 0.00 0.00 2.41
3301 3847 3.242903 CGACTCGGACGACTACTACTCTA 60.243 52.174 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.