Multiple sequence alignment - TraesCS6A01G076000

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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 TraesCS6A01G076000 chr6A 100.000 2815 0 0 1 2815 46592167 46594981 0.000000e+00 5199.0
1 TraesCS6A01G076000 chr6A 98.202 890 15 1 1927 2815 598873321 598874210 0.000000e+00 1554.0
2 TraesCS6A01G076000 chr6A 90.060 332 24 2 1513 1844 46686780 46686458 3.350000e-114 422.0
3 TraesCS6A01G076000 chr6A 94.565 184 7 2 732 912 180309156 180309339 5.940000e-72 281.0
4 TraesCS6A01G076000 chr6A 94.915 59 3 0 916 974 46668748 46668690 2.990000e-15 93.5
5 TraesCS6A01G076000 chr2B 98.873 887 9 1 1930 2815 761286985 761286099 0.000000e+00 1581.0
6 TraesCS6A01G076000 chr2B 80.600 433 53 20 163 591 484051530 484051935 3.520000e-79 305.0
7 TraesCS6A01G076000 chr2B 81.181 271 41 8 194 460 772382091 772381827 2.840000e-50 209.0
8 TraesCS6A01G076000 chr2A 98.534 887 12 1 1930 2815 748865491 748864605 0.000000e+00 1565.0
9 TraesCS6A01G076000 chr2A 93.651 189 9 2 734 920 88796038 88796225 2.140000e-71 279.0
10 TraesCS6A01G076000 chr2A 92.000 200 10 4 731 925 701016880 701016682 2.760000e-70 276.0
11 TraesCS6A01G076000 chr2A 86.420 162 18 3 433 591 25666232 25666072 1.040000e-39 174.0
12 TraesCS6A01G076000 chr1A 98.422 887 13 1 1930 2815 50944267 50943381 0.000000e+00 1559.0
13 TraesCS6A01G076000 chr7A 98.202 890 15 1 1927 2815 73763043 73763932 0.000000e+00 1554.0
14 TraesCS6A01G076000 chr7A 92.574 202 8 7 727 922 188026613 188026813 1.650000e-72 283.0
15 TraesCS6A01G076000 chr7B 98.196 887 15 1 1930 2815 616723269 616722383 0.000000e+00 1548.0
16 TraesCS6A01G076000 chr7B 97.875 894 16 3 1923 2815 718817752 718818643 0.000000e+00 1543.0
17 TraesCS6A01G076000 chrUn 97.971 887 16 2 1930 2815 261752380 261751495 0.000000e+00 1537.0
18 TraesCS6A01G076000 chrUn 87.764 899 83 17 916 1809 27583294 27582418 0.000000e+00 1026.0
19 TraesCS6A01G076000 chrUn 90.247 687 63 3 1126 1810 27567579 27568263 0.000000e+00 894.0
20 TraesCS6A01G076000 chrUn 88.728 692 60 9 1235 1919 27526016 27526696 0.000000e+00 830.0
21 TraesCS6A01G076000 chrUn 88.756 667 70 4 1157 1819 334070619 334069954 0.000000e+00 811.0
22 TraesCS6A01G076000 chrUn 84.801 704 86 6 1235 1930 27607309 27606619 0.000000e+00 688.0
23 TraesCS6A01G076000 chrUn 91.626 203 11 4 728 925 397099516 397099717 2.760000e-70 276.0
24 TraesCS6A01G076000 chrUn 91.500 200 11 4 731 925 210394916 210394718 1.290000e-68 270.0
25 TraesCS6A01G076000 chrUn 88.384 198 11 8 933 1118 27564730 27564927 7.840000e-56 228.0
26 TraesCS6A01G076000 chrUn 87.692 195 11 7 970 1151 71741267 71741461 6.110000e-52 215.0
27 TraesCS6A01G076000 chrUn 76.325 283 49 12 183 458 263568523 263568794 4.890000e-28 135.0
28 TraesCS6A01G076000 chrUn 76.325 283 49 12 183 458 272710535 272710806 4.890000e-28 135.0
29 TraesCS6A01G076000 chrUn 85.586 111 9 3 1815 1925 27568308 27568411 2.960000e-20 110.0
30 TraesCS6A01G076000 chrUn 92.982 57 1 3 663 716 27564497 27564553 2.320000e-11 80.5
31 TraesCS6A01G076000 chrUn 80.220 91 13 4 1802 1891 27582388 27582302 2.340000e-06 63.9
32 TraesCS6A01G076000 chr3A 97.753 890 18 2 1927 2815 170969199 170970087 0.000000e+00 1531.0
33 TraesCS6A01G076000 chr3A 91.045 201 12 6 720 914 663442441 663442641 1.660000e-67 267.0
34 TraesCS6A01G076000 chr6B 90.523 918 68 12 916 1817 79955117 79956031 0.000000e+00 1195.0
35 TraesCS6A01G076000 chr6B 90.305 918 70 12 916 1817 80007636 80008550 0.000000e+00 1184.0
36 TraesCS6A01G076000 chr6B 87.909 703 65 5 1235 1930 79944863 79945552 0.000000e+00 809.0
37 TraesCS6A01G076000 chr6B 87.909 703 65 5 1235 1930 79998939 79999628 0.000000e+00 809.0
38 TraesCS6A01G076000 chr5D 82.033 551 75 12 65 595 448435837 448435291 5.530000e-122 448.0
39 TraesCS6A01G076000 chr5D 81.481 540 78 13 65 595 448437300 448436774 9.320000e-115 424.0
40 TraesCS6A01G076000 chr5D 77.519 129 23 6 461 586 27256735 27256860 3.890000e-09 73.1
41 TraesCS6A01G076000 chr4D 83.855 415 52 12 183 591 161247712 161248117 5.690000e-102 381.0
42 TraesCS6A01G076000 chr4D 83.377 385 49 12 213 591 161248978 161249353 2.690000e-90 342.0
43 TraesCS6A01G076000 chr5B 84.337 332 43 8 66 395 295991762 295991438 1.630000e-82 316.0
44 TraesCS6A01G076000 chr5B 83.832 167 24 3 427 591 13482628 13482793 3.750000e-34 156.0
45 TraesCS6A01G076000 chr4A 94.086 186 8 2 730 912 11366019 11366204 2.140000e-71 279.0
46 TraesCS6A01G076000 chr5A 91.919 198 11 2 731 923 106002046 106001849 3.570000e-69 272.0
47 TraesCS6A01G076000 chr5A 79.661 177 23 9 428 601 168561265 168561431 6.370000e-22 115.0
48 TraesCS6A01G076000 chr2D 80.926 367 48 12 65 414 636380659 636381020 1.290000e-68 270.0
49 TraesCS6A01G076000 chr7D 78.512 121 20 6 469 586 94665241 94665124 1.080000e-09 75.0


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 TraesCS6A01G076000 chr6A 46592167 46594981 2814 False 5199.000 5199 100.00000 1 2815 1 chr6A.!!$F1 2814
1 TraesCS6A01G076000 chr6A 598873321 598874210 889 False 1554.000 1554 98.20200 1927 2815 1 chr6A.!!$F3 888
2 TraesCS6A01G076000 chr2B 761286099 761286985 886 True 1581.000 1581 98.87300 1930 2815 1 chr2B.!!$R1 885
3 TraesCS6A01G076000 chr2A 748864605 748865491 886 True 1565.000 1565 98.53400 1930 2815 1 chr2A.!!$R3 885
4 TraesCS6A01G076000 chr1A 50943381 50944267 886 True 1559.000 1559 98.42200 1930 2815 1 chr1A.!!$R1 885
5 TraesCS6A01G076000 chr7A 73763043 73763932 889 False 1554.000 1554 98.20200 1927 2815 1 chr7A.!!$F1 888
6 TraesCS6A01G076000 chr7B 616722383 616723269 886 True 1548.000 1548 98.19600 1930 2815 1 chr7B.!!$R1 885
7 TraesCS6A01G076000 chr7B 718817752 718818643 891 False 1543.000 1543 97.87500 1923 2815 1 chr7B.!!$F1 892
8 TraesCS6A01G076000 chrUn 261751495 261752380 885 True 1537.000 1537 97.97100 1930 2815 1 chrUn.!!$R3 885
9 TraesCS6A01G076000 chrUn 27526016 27526696 680 False 830.000 830 88.72800 1235 1919 1 chrUn.!!$F1 684
10 TraesCS6A01G076000 chrUn 334069954 334070619 665 True 811.000 811 88.75600 1157 1819 1 chrUn.!!$R4 662
11 TraesCS6A01G076000 chrUn 27606619 27607309 690 True 688.000 688 84.80100 1235 1930 1 chrUn.!!$R1 695
12 TraesCS6A01G076000 chrUn 27582302 27583294 992 True 544.950 1026 83.99200 916 1891 2 chrUn.!!$R5 975
13 TraesCS6A01G076000 chrUn 27564497 27568411 3914 False 328.125 894 89.29975 663 1925 4 chrUn.!!$F6 1262
14 TraesCS6A01G076000 chr3A 170969199 170970087 888 False 1531.000 1531 97.75300 1927 2815 1 chr3A.!!$F1 888
15 TraesCS6A01G076000 chr6B 79955117 79956031 914 False 1195.000 1195 90.52300 916 1817 1 chr6B.!!$F2 901
16 TraesCS6A01G076000 chr6B 80007636 80008550 914 False 1184.000 1184 90.30500 916 1817 1 chr6B.!!$F4 901
17 TraesCS6A01G076000 chr6B 79944863 79945552 689 False 809.000 809 87.90900 1235 1930 1 chr6B.!!$F1 695
18 TraesCS6A01G076000 chr6B 79998939 79999628 689 False 809.000 809 87.90900 1235 1930 1 chr6B.!!$F3 695
19 TraesCS6A01G076000 chr5D 448435291 448437300 2009 True 436.000 448 81.75700 65 595 2 chr5D.!!$R1 530
20 TraesCS6A01G076000 chr4D 161247712 161249353 1641 False 361.500 381 83.61600 183 591 2 chr4D.!!$F1 408

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
630 640 0.025001 CAACATTCGGCATCGTCGAC 59.975 55.0 5.18 5.18 40.10 4.20 F
993 1264 0.601311 GGCATATGCGGTCTCCACTC 60.601 60.0 21.04 0.00 43.26 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1687 4665 1.103398 GTGCTTCTTGTGGTGTGGCT 61.103 55.000 0.0 0.0 0.0 4.75 R
2328 5785 1.227853 GGGGCGTTACTATGGGCAG 60.228 63.158 0.0 0.0 0.0 4.85 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
35 36 4.361827 CGTAGACGCTCGTCCTTG 57.638 61.111 17.53 5.14 45.59 3.61
36 37 1.500844 CGTAGACGCTCGTCCTTGT 59.499 57.895 17.53 3.34 45.59 3.16
37 38 0.520827 CGTAGACGCTCGTCCTTGTC 60.521 60.000 17.53 4.83 45.59 3.18
38 39 0.520827 GTAGACGCTCGTCCTTGTCG 60.521 60.000 17.53 0.00 45.59 4.35
39 40 2.249557 TAGACGCTCGTCCTTGTCGC 62.250 60.000 17.53 0.00 45.59 5.19
40 41 3.612371 GACGCTCGTCCTTGTCGCT 62.612 63.158 11.01 0.00 39.08 4.93
41 42 2.876645 CGCTCGTCCTTGTCGCTC 60.877 66.667 0.00 0.00 0.00 5.03
42 43 2.507324 GCTCGTCCTTGTCGCTCC 60.507 66.667 0.00 0.00 0.00 4.70
43 44 2.995872 GCTCGTCCTTGTCGCTCCT 61.996 63.158 0.00 0.00 0.00 3.69
44 45 1.153939 CTCGTCCTTGTCGCTCCTG 60.154 63.158 0.00 0.00 0.00 3.86
45 46 1.587043 CTCGTCCTTGTCGCTCCTGA 61.587 60.000 0.00 0.00 0.00 3.86
46 47 0.965866 TCGTCCTTGTCGCTCCTGAT 60.966 55.000 0.00 0.00 0.00 2.90
47 48 0.803768 CGTCCTTGTCGCTCCTGATG 60.804 60.000 0.00 0.00 0.00 3.07
48 49 0.247736 GTCCTTGTCGCTCCTGATGT 59.752 55.000 0.00 0.00 0.00 3.06
49 50 0.976641 TCCTTGTCGCTCCTGATGTT 59.023 50.000 0.00 0.00 0.00 2.71
50 51 1.081892 CCTTGTCGCTCCTGATGTTG 58.918 55.000 0.00 0.00 0.00 3.33
51 52 1.081892 CTTGTCGCTCCTGATGTTGG 58.918 55.000 0.00 0.00 0.00 3.77
52 53 0.955428 TTGTCGCTCCTGATGTTGGC 60.955 55.000 0.00 0.00 0.00 4.52
53 54 2.109126 GTCGCTCCTGATGTTGGCC 61.109 63.158 0.00 0.00 0.00 5.36
54 55 2.825836 CGCTCCTGATGTTGGCCC 60.826 66.667 0.00 0.00 0.00 5.80
55 56 2.356278 GCTCCTGATGTTGGCCCA 59.644 61.111 0.00 0.00 0.00 5.36
56 57 1.076485 GCTCCTGATGTTGGCCCAT 60.076 57.895 0.00 0.00 0.00 4.00
57 58 1.389609 GCTCCTGATGTTGGCCCATG 61.390 60.000 0.00 0.00 0.00 3.66
58 59 0.033796 CTCCTGATGTTGGCCCATGT 60.034 55.000 0.00 0.00 0.00 3.21
59 60 0.034186 TCCTGATGTTGGCCCATGTC 60.034 55.000 0.00 0.00 0.00 3.06
60 61 0.033796 CCTGATGTTGGCCCATGTCT 60.034 55.000 0.00 0.00 0.00 3.41
61 62 1.617804 CCTGATGTTGGCCCATGTCTT 60.618 52.381 0.00 0.00 0.00 3.01
62 63 1.747355 CTGATGTTGGCCCATGTCTTC 59.253 52.381 0.00 0.00 0.00 2.87
63 64 0.734889 GATGTTGGCCCATGTCTTCG 59.265 55.000 0.00 0.00 0.00 3.79
137 138 4.054825 GGTGGTCGCGTCGGGTTA 62.055 66.667 5.77 0.00 0.00 2.85
139 140 3.751246 TGGTCGCGTCGGGTTAGG 61.751 66.667 5.77 0.00 0.00 2.69
145 147 3.751246 CGTCGGGTTAGGCCGTGA 61.751 66.667 0.00 0.00 38.44 4.35
146 148 2.125793 GTCGGGTTAGGCCGTGAC 60.126 66.667 0.00 0.00 38.44 3.67
205 213 2.430921 GTGTGTGAGCTAGCGCGT 60.431 61.111 13.99 0.00 42.32 6.01
236 244 1.079681 CCACGCGGGTTAGTTAGCA 60.080 57.895 12.47 0.00 0.00 3.49
241 249 0.035725 GCGGGTTAGTTAGCAAGGGT 60.036 55.000 0.00 0.00 0.00 4.34
245 253 2.040679 GGGTTAGTTAGCAAGGGTCCAA 59.959 50.000 0.00 0.00 0.00 3.53
252 260 2.231380 GCAAGGGTCCAAGGGAGGA 61.231 63.158 0.00 0.00 34.64 3.71
259 267 3.003173 CCAAGGGAGGAGACCGCA 61.003 66.667 0.00 0.00 0.00 5.69
298 306 2.562912 GGCGACCATGTGCTTGTG 59.437 61.111 0.00 0.00 0.00 3.33
387 396 1.375140 CTGGCATGTCAGTGCTCGT 60.375 57.895 19.42 0.00 44.45 4.18
395 404 2.384828 TGTCAGTGCTCGTGGGTATAT 58.615 47.619 0.00 0.00 0.00 0.86
397 406 4.149598 TGTCAGTGCTCGTGGGTATATAT 58.850 43.478 0.00 0.00 0.00 0.86
399 408 5.771165 TGTCAGTGCTCGTGGGTATATATAA 59.229 40.000 0.00 0.00 0.00 0.98
400 409 6.265876 TGTCAGTGCTCGTGGGTATATATAAA 59.734 38.462 0.00 0.00 0.00 1.40
401 410 7.039293 TGTCAGTGCTCGTGGGTATATATAAAT 60.039 37.037 0.00 0.00 0.00 1.40
407 416 5.601748 TCGTGGGTATATATAAATCCCCCA 58.398 41.667 12.09 12.09 38.31 4.96
426 435 3.704381 CACCTCTGTGTAGCTCGAC 57.296 57.895 0.00 0.00 37.72 4.20
455 464 1.801178 GAGTTCGTGCTTGAGGGAAAG 59.199 52.381 0.00 0.00 0.00 2.62
460 469 3.486383 TCGTGCTTGAGGGAAAGAAAAT 58.514 40.909 0.00 0.00 0.00 1.82
466 475 2.593026 TGAGGGAAAGAAAATGGCGTT 58.407 42.857 0.00 0.00 0.00 4.84
467 476 2.962421 TGAGGGAAAGAAAATGGCGTTT 59.038 40.909 0.00 0.00 0.00 3.60
482 491 1.803286 CGTTTGTGCGCCGGAAAAAC 61.803 55.000 13.65 13.65 0.00 2.43
484 494 1.668101 TTTGTGCGCCGGAAAAACCT 61.668 50.000 5.05 0.00 36.31 3.50
486 496 2.112297 TGCGCCGGAAAAACCTCT 59.888 55.556 5.05 0.00 36.31 3.69
493 503 0.865769 CGGAAAAACCTCTGTGTCCG 59.134 55.000 0.00 0.00 37.67 4.79
495 505 1.594331 GAAAAACCTCTGTGTCCGCT 58.406 50.000 0.00 0.00 0.00 5.52
497 507 1.166531 AAAACCTCTGTGTCCGCTGC 61.167 55.000 0.00 0.00 0.00 5.25
498 508 3.537206 AACCTCTGTGTCCGCTGCC 62.537 63.158 0.00 0.00 0.00 4.85
500 510 2.125753 CTCTGTGTCCGCTGCCTC 60.126 66.667 0.00 0.00 0.00 4.70
502 512 4.007644 CTGTGTCCGCTGCCTCCA 62.008 66.667 0.00 0.00 0.00 3.86
508 518 3.536917 CCGCTGCCTCCACCGATA 61.537 66.667 0.00 0.00 0.00 2.92
523 533 4.262249 CCACCGATATTCTTCTTCCTCCTC 60.262 50.000 0.00 0.00 0.00 3.71
524 534 3.898741 ACCGATATTCTTCTTCCTCCTCC 59.101 47.826 0.00 0.00 0.00 4.30
546 556 0.238553 CTGTCGTTCGAGCACAGAGA 59.761 55.000 19.47 0.00 40.07 3.10
548 558 0.238817 GTCGTTCGAGCACAGAGAGT 59.761 55.000 0.00 0.00 0.00 3.24
591 601 4.727841 AGAGAGGTAGAGCTAGGGTTTAGA 59.272 45.833 0.00 0.00 0.00 2.10
595 605 3.962063 GGTAGAGCTAGGGTTTAGAGCTT 59.038 47.826 0.00 0.00 46.42 3.74
596 606 4.202172 GGTAGAGCTAGGGTTTAGAGCTTG 60.202 50.000 0.00 0.00 46.42 4.01
597 607 2.769095 AGAGCTAGGGTTTAGAGCTTGG 59.231 50.000 0.00 0.00 46.42 3.61
598 608 1.210722 AGCTAGGGTTTAGAGCTTGGC 59.789 52.381 0.00 0.00 44.08 4.52
599 609 1.065418 GCTAGGGTTTAGAGCTTGGCA 60.065 52.381 0.00 0.00 36.94 4.92
600 610 2.618045 GCTAGGGTTTAGAGCTTGGCAA 60.618 50.000 0.00 0.00 36.94 4.52
601 611 2.675658 AGGGTTTAGAGCTTGGCAAA 57.324 45.000 0.00 0.00 0.00 3.68
602 612 2.519013 AGGGTTTAGAGCTTGGCAAAG 58.481 47.619 0.00 0.00 36.41 2.77
610 620 3.041701 CTTGGCAAAGCTCGGCAA 58.958 55.556 19.74 19.74 45.54 4.52
616 626 0.318955 GCAAAGCTCGGCAACAACAT 60.319 50.000 4.80 0.00 0.00 2.71
618 628 2.053627 CAAAGCTCGGCAACAACATTC 58.946 47.619 0.00 0.00 0.00 2.67
625 635 0.798009 GGCAACAACATTCGGCATCG 60.798 55.000 0.00 0.00 37.82 3.84
626 636 0.109781 GCAACAACATTCGGCATCGT 60.110 50.000 0.00 0.00 37.69 3.73
627 637 1.882198 CAACAACATTCGGCATCGTC 58.118 50.000 0.00 0.00 37.69 4.20
629 639 0.389296 ACAACATTCGGCATCGTCGA 60.389 50.000 0.00 0.00 38.09 4.20
630 640 0.025001 CAACATTCGGCATCGTCGAC 59.975 55.000 5.18 5.18 40.10 4.20
632 642 0.736636 ACATTCGGCATCGTCGACTA 59.263 50.000 14.70 2.39 40.10 2.59
633 643 1.268589 ACATTCGGCATCGTCGACTAG 60.269 52.381 14.70 4.22 40.10 2.57
634 644 1.002792 CATTCGGCATCGTCGACTAGA 60.003 52.381 14.70 4.69 40.10 2.43
636 646 1.158484 TCGGCATCGTCGACTAGAGG 61.158 60.000 14.70 7.36 33.73 3.69
637 647 1.655329 GGCATCGTCGACTAGAGGG 59.345 63.158 14.70 2.71 35.58 4.30
638 648 1.655329 GCATCGTCGACTAGAGGGG 59.345 63.158 14.70 0.00 35.58 4.79
697 707 9.632638 AAATGCACTTTCTCCTATATTGTACAT 57.367 29.630 0.00 0.00 0.00 2.29
741 751 9.303537 TGGTTTTGTAATAAGTAACAGTTTTGC 57.696 29.630 0.00 0.00 0.00 3.68
747 757 9.887406 TGTAATAAGTAACAGTTTTGCTAAAGC 57.113 29.630 0.00 0.00 42.50 3.51
766 776 9.645059 GCTAAAGCATATCTAGATGTGTCATAA 57.355 33.333 25.01 10.69 41.59 1.90
798 808 9.486497 ACACATCTAAGTCATATGTCATTGATC 57.514 33.333 1.90 0.00 31.60 2.92
799 809 9.708092 CACATCTAAGTCATATGTCATTGATCT 57.292 33.333 1.90 0.00 31.60 2.75
868 878 8.846943 TTTTATGCTTGATTCACTCACTTAGA 57.153 30.769 0.00 0.00 32.17 2.10
869 879 9.453572 TTTTATGCTTGATTCACTCACTTAGAT 57.546 29.630 0.00 0.00 32.17 1.98
871 881 5.798132 TGCTTGATTCACTCACTTAGATGT 58.202 37.500 0.00 0.00 32.17 3.06
872 882 5.640783 TGCTTGATTCACTCACTTAGATGTG 59.359 40.000 0.00 0.00 39.15 3.21
873 883 5.641209 GCTTGATTCACTCACTTAGATGTGT 59.359 40.000 0.00 0.00 38.90 3.72
875 885 7.331934 GCTTGATTCACTCACTTAGATGTGTAA 59.668 37.037 0.00 0.00 38.90 2.41
876 886 9.376075 CTTGATTCACTCACTTAGATGTGTAAT 57.624 33.333 0.00 0.00 38.90 1.89
885 895 9.672086 CTCACTTAGATGTGTAATAACTAGAGC 57.328 37.037 0.00 0.00 38.90 4.09
886 896 9.185680 TCACTTAGATGTGTAATAACTAGAGCA 57.814 33.333 0.00 0.00 38.90 4.26
887 897 9.239002 CACTTAGATGTGTAATAACTAGAGCAC 57.761 37.037 0.00 0.00 33.61 4.40
889 899 9.973450 CTTAGATGTGTAATAACTAGAGCACAT 57.027 33.333 7.56 7.56 46.19 3.21
913 923 2.534038 TGTGCCTTAGACACACCCA 58.466 52.632 0.00 0.00 42.88 4.51
925 935 3.646637 AGACACACCCAGTAAGTAAAGCT 59.353 43.478 0.00 0.00 0.00 3.74
933 943 5.014228 ACCCAGTAAGTAAAGCTCCTTGATT 59.986 40.000 0.00 0.00 0.00 2.57
940 1195 5.532557 AGTAAAGCTCCTTGATTGCAAAAC 58.467 37.500 1.71 1.21 32.73 2.43
952 1207 8.235905 CCTTGATTGCAAAACAGAAAAGAAAAA 58.764 29.630 1.71 0.00 32.73 1.94
985 1256 4.481617 TGCGTGGGCATATGCGGT 62.482 61.111 21.04 0.00 46.21 5.68
989 1260 1.598130 GTGGGCATATGCGGTCTCC 60.598 63.158 21.04 15.96 43.26 3.71
990 1261 2.069430 TGGGCATATGCGGTCTCCA 61.069 57.895 21.04 18.27 43.26 3.86
991 1262 1.598130 GGGCATATGCGGTCTCCAC 60.598 63.158 21.04 4.79 43.26 4.02
993 1264 0.601311 GGCATATGCGGTCTCCACTC 60.601 60.000 21.04 0.00 43.26 3.51
1136 4065 4.681978 GGCGACTGTGGCGACCTT 62.682 66.667 8.69 0.00 0.00 3.50
1561 4499 2.813908 GCGCAGGGAAGTGTACCG 60.814 66.667 0.30 0.00 0.00 4.02
1787 5020 2.612212 GTTCAAGAAGGTCAAGTGCGAA 59.388 45.455 0.00 0.00 0.00 4.70
1829 5255 3.208594 CCATTGATGCTCAGGATCGAAA 58.791 45.455 0.00 0.00 0.00 3.46
1836 5272 3.628008 TGCTCAGGATCGAAACTAGGTA 58.372 45.455 0.00 0.00 0.00 3.08
1838 5274 3.548415 GCTCAGGATCGAAACTAGGTACG 60.548 52.174 0.00 0.00 0.00 3.67
1841 5277 2.686915 AGGATCGAAACTAGGTACGGTG 59.313 50.000 0.00 0.00 0.00 4.94
1842 5278 2.223665 GGATCGAAACTAGGTACGGTGG 60.224 54.545 0.00 0.00 0.00 4.61
1845 5281 1.466360 CGAAACTAGGTACGGTGGTCG 60.466 57.143 0.00 0.00 45.88 4.79
1847 5283 1.909700 AACTAGGTACGGTGGTCGAA 58.090 50.000 0.00 0.00 42.43 3.71
1848 5284 1.457346 ACTAGGTACGGTGGTCGAAG 58.543 55.000 0.00 0.00 42.43 3.79
1849 5285 1.271597 ACTAGGTACGGTGGTCGAAGT 60.272 52.381 0.00 0.00 42.43 3.01
1851 5287 0.600057 AGGTACGGTGGTCGAAGTTC 59.400 55.000 0.00 0.00 42.43 3.01
1854 5304 2.228822 GGTACGGTGGTCGAAGTTCTTA 59.771 50.000 0.56 0.00 42.43 2.10
1901 5356 3.758300 CACGGCTGATGGTTTATGTTTC 58.242 45.455 0.00 0.00 0.00 2.78
1902 5357 3.440173 CACGGCTGATGGTTTATGTTTCT 59.560 43.478 0.00 0.00 0.00 2.52
1903 5358 4.634004 CACGGCTGATGGTTTATGTTTCTA 59.366 41.667 0.00 0.00 0.00 2.10
1904 5359 4.876107 ACGGCTGATGGTTTATGTTTCTAG 59.124 41.667 0.00 0.00 0.00 2.43
1933 5388 7.661437 AGCTGATGTAATGTGACTGTTCTTTTA 59.339 33.333 0.00 0.00 0.00 1.52
2169 5626 0.318441 TTGTCTTGCCCTCGTCTGAG 59.682 55.000 0.00 0.00 42.18 3.35
2328 5785 2.392933 TTTGTTTCGCGTCATCCAAC 57.607 45.000 5.77 1.82 0.00 3.77
2690 6148 2.357075 GCCCTCCAGTTAGCTTGTTAC 58.643 52.381 0.00 0.00 0.00 2.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 0.520827 GACAAGGACGAGCGTCTACG 60.521 60.000 20.62 12.13 44.04 3.51
19 20 0.520827 CGACAAGGACGAGCGTCTAC 60.521 60.000 20.62 7.02 44.04 2.59
20 21 1.792301 CGACAAGGACGAGCGTCTA 59.208 57.895 20.62 0.00 44.04 2.59
21 22 2.561885 CGACAAGGACGAGCGTCT 59.438 61.111 20.62 2.80 44.04 4.18
22 23 3.173240 GCGACAAGGACGAGCGTC 61.173 66.667 14.17 14.17 43.87 5.19
23 24 3.612371 GAGCGACAAGGACGAGCGT 62.612 63.158 0.00 0.00 0.00 5.07
24 25 2.876645 GAGCGACAAGGACGAGCG 60.877 66.667 0.00 0.00 0.00 5.03
25 26 2.507324 GGAGCGACAAGGACGAGC 60.507 66.667 0.00 0.00 0.00 5.03
26 27 1.153939 CAGGAGCGACAAGGACGAG 60.154 63.158 0.00 0.00 0.00 4.18
27 28 0.965866 ATCAGGAGCGACAAGGACGA 60.966 55.000 0.00 0.00 0.00 4.20
28 29 0.803768 CATCAGGAGCGACAAGGACG 60.804 60.000 0.00 0.00 0.00 4.79
29 30 0.247736 ACATCAGGAGCGACAAGGAC 59.752 55.000 0.00 0.00 0.00 3.85
30 31 0.976641 AACATCAGGAGCGACAAGGA 59.023 50.000 0.00 0.00 0.00 3.36
31 32 1.081892 CAACATCAGGAGCGACAAGG 58.918 55.000 0.00 0.00 0.00 3.61
32 33 1.081892 CCAACATCAGGAGCGACAAG 58.918 55.000 0.00 0.00 0.00 3.16
33 34 0.955428 GCCAACATCAGGAGCGACAA 60.955 55.000 0.00 0.00 0.00 3.18
34 35 1.375908 GCCAACATCAGGAGCGACA 60.376 57.895 0.00 0.00 0.00 4.35
35 36 2.109126 GGCCAACATCAGGAGCGAC 61.109 63.158 0.00 0.00 0.00 5.19
36 37 2.268920 GGCCAACATCAGGAGCGA 59.731 61.111 0.00 0.00 0.00 4.93
37 38 2.825836 GGGCCAACATCAGGAGCG 60.826 66.667 4.39 0.00 0.00 5.03
38 39 1.076485 ATGGGCCAACATCAGGAGC 60.076 57.895 11.89 0.00 0.00 4.70
39 40 0.033796 ACATGGGCCAACATCAGGAG 60.034 55.000 11.89 0.00 0.00 3.69
40 41 0.034186 GACATGGGCCAACATCAGGA 60.034 55.000 11.89 0.00 0.00 3.86
41 42 0.033796 AGACATGGGCCAACATCAGG 60.034 55.000 11.89 0.00 0.00 3.86
42 43 1.747355 GAAGACATGGGCCAACATCAG 59.253 52.381 11.89 0.00 0.00 2.90
43 44 1.838112 GAAGACATGGGCCAACATCA 58.162 50.000 11.89 0.00 0.00 3.07
44 45 0.734889 CGAAGACATGGGCCAACATC 59.265 55.000 11.89 8.74 0.00 3.06
45 46 0.680921 CCGAAGACATGGGCCAACAT 60.681 55.000 11.89 0.00 0.00 2.71
46 47 1.303236 CCGAAGACATGGGCCAACA 60.303 57.895 11.89 0.00 0.00 3.33
47 48 1.303317 ACCGAAGACATGGGCCAAC 60.303 57.895 11.89 5.38 0.00 3.77
48 49 1.303236 CACCGAAGACATGGGCCAA 60.303 57.895 11.89 0.00 0.00 4.52
49 50 2.063015 AACACCGAAGACATGGGCCA 62.063 55.000 9.61 9.61 0.00 5.36
50 51 1.303317 AACACCGAAGACATGGGCC 60.303 57.895 0.00 0.00 0.00 5.80
51 52 1.586154 CCAACACCGAAGACATGGGC 61.586 60.000 0.00 0.00 0.00 5.36
52 53 0.960364 CCCAACACCGAAGACATGGG 60.960 60.000 0.00 0.00 41.38 4.00
53 54 1.586154 GCCCAACACCGAAGACATGG 61.586 60.000 0.00 0.00 0.00 3.66
54 55 0.888736 TGCCCAACACCGAAGACATG 60.889 55.000 0.00 0.00 0.00 3.21
55 56 0.179004 TTGCCCAACACCGAAGACAT 60.179 50.000 0.00 0.00 0.00 3.06
56 57 0.179004 ATTGCCCAACACCGAAGACA 60.179 50.000 0.00 0.00 0.00 3.41
57 58 1.816074 TATTGCCCAACACCGAAGAC 58.184 50.000 0.00 0.00 0.00 3.01
58 59 2.432444 CTTATTGCCCAACACCGAAGA 58.568 47.619 0.00 0.00 0.00 2.87
59 60 1.135402 GCTTATTGCCCAACACCGAAG 60.135 52.381 0.00 0.00 35.15 3.79
60 61 0.885196 GCTTATTGCCCAACACCGAA 59.115 50.000 0.00 0.00 35.15 4.30
61 62 2.562125 GCTTATTGCCCAACACCGA 58.438 52.632 0.00 0.00 35.15 4.69
101 102 4.918060 CGCACACACACACGCACG 62.918 66.667 0.00 0.00 0.00 5.34
121 122 2.505557 CTAACCCGACGCGACCAC 60.506 66.667 15.93 0.00 0.00 4.16
132 133 2.267961 CCTGTCACGGCCTAACCC 59.732 66.667 0.00 0.00 33.26 4.11
173 175 0.249280 CACACACACACCTACGCTCA 60.249 55.000 0.00 0.00 0.00 4.26
215 223 2.234913 CTAACTAACCCGCGTGGCCT 62.235 60.000 10.27 0.27 37.83 5.19
229 237 0.698818 CCCTTGGACCCTTGCTAACT 59.301 55.000 0.00 0.00 0.00 2.24
236 244 0.547954 GTCTCCTCCCTTGGACCCTT 60.548 60.000 0.00 0.00 31.94 3.95
241 249 2.683933 GCGGTCTCCTCCCTTGGA 60.684 66.667 0.00 0.00 34.52 3.53
245 253 2.835431 CGATGCGGTCTCCTCCCT 60.835 66.667 0.00 0.00 0.00 4.20
387 396 5.493250 GGTGTGGGGGATTTATATATACCCA 59.507 44.000 21.43 16.24 43.95 4.51
395 404 3.743132 ACAGAGGTGTGGGGGATTTATA 58.257 45.455 0.00 0.00 34.75 0.98
397 406 2.053747 ACAGAGGTGTGGGGGATTTA 57.946 50.000 0.00 0.00 34.75 1.40
399 408 4.690153 ACAGAGGTGTGGGGGATT 57.310 55.556 0.00 0.00 34.75 3.01
446 455 2.286365 ACGCCATTTTCTTTCCCTCA 57.714 45.000 0.00 0.00 0.00 3.86
466 475 2.065906 GAGGTTTTTCCGGCGCACAA 62.066 55.000 10.83 0.00 41.99 3.33
467 476 2.517402 AGGTTTTTCCGGCGCACA 60.517 55.556 10.83 0.00 41.99 4.57
482 491 3.655810 GAGGCAGCGGACACAGAGG 62.656 68.421 0.00 0.00 0.00 3.69
484 494 3.695606 GGAGGCAGCGGACACAGA 61.696 66.667 0.00 0.00 0.00 3.41
486 496 4.314440 GTGGAGGCAGCGGACACA 62.314 66.667 0.00 0.00 32.58 3.72
493 503 0.394565 AGAATATCGGTGGAGGCAGC 59.605 55.000 0.00 0.00 0.00 5.25
495 505 2.398588 AGAAGAATATCGGTGGAGGCA 58.601 47.619 0.00 0.00 0.00 4.75
497 507 3.643792 AGGAAGAAGAATATCGGTGGAGG 59.356 47.826 0.00 0.00 0.00 4.30
498 508 4.262249 GGAGGAAGAAGAATATCGGTGGAG 60.262 50.000 0.00 0.00 0.00 3.86
500 510 3.643792 AGGAGGAAGAAGAATATCGGTGG 59.356 47.826 0.00 0.00 0.00 4.61
502 512 3.898741 GGAGGAGGAAGAAGAATATCGGT 59.101 47.826 0.00 0.00 0.00 4.69
505 515 6.326323 ACAGAAGGAGGAGGAAGAAGAATATC 59.674 42.308 0.00 0.00 0.00 1.63
506 516 6.209026 ACAGAAGGAGGAGGAAGAAGAATAT 58.791 40.000 0.00 0.00 0.00 1.28
507 517 5.594777 ACAGAAGGAGGAGGAAGAAGAATA 58.405 41.667 0.00 0.00 0.00 1.75
508 518 4.434195 ACAGAAGGAGGAGGAAGAAGAAT 58.566 43.478 0.00 0.00 0.00 2.40
523 533 0.318699 TGTGCTCGAACGACAGAAGG 60.319 55.000 0.00 0.00 0.00 3.46
524 534 1.056103 CTGTGCTCGAACGACAGAAG 58.944 55.000 11.05 3.45 39.64 2.85
546 556 3.341043 CGCTGCACGTTGCTCACT 61.341 61.111 0.00 0.00 45.31 3.41
548 558 3.037833 CTCGCTGCACGTTGCTCA 61.038 61.111 0.00 0.00 45.31 4.26
549 559 2.724708 CTCTCGCTGCACGTTGCTC 61.725 63.158 0.00 3.33 45.31 4.26
553 563 1.211449 CTCTCTCTCGCTGCACGTT 59.789 57.895 0.00 0.00 44.19 3.99
555 565 1.062365 CTCTCTCTCTCGCTGCACG 59.938 63.158 0.00 2.79 45.62 5.34
595 605 2.124060 TTGTTGCCGAGCTTTGCCA 61.124 52.632 6.02 0.00 0.00 4.92
596 606 1.661509 GTTGTTGCCGAGCTTTGCC 60.662 57.895 6.02 0.00 0.00 4.52
597 607 0.318955 ATGTTGTTGCCGAGCTTTGC 60.319 50.000 1.72 1.72 0.00 3.68
598 608 2.053627 GAATGTTGTTGCCGAGCTTTG 58.946 47.619 0.00 0.00 0.00 2.77
599 609 1.334960 CGAATGTTGTTGCCGAGCTTT 60.335 47.619 0.00 0.00 0.00 3.51
600 610 0.238289 CGAATGTTGTTGCCGAGCTT 59.762 50.000 0.00 0.00 0.00 3.74
601 611 1.577328 CCGAATGTTGTTGCCGAGCT 61.577 55.000 0.00 0.00 0.00 4.09
602 612 1.154225 CCGAATGTTGTTGCCGAGC 60.154 57.895 0.00 0.00 0.00 5.03
603 613 1.154225 GCCGAATGTTGTTGCCGAG 60.154 57.895 0.00 0.00 0.00 4.63
604 614 1.240641 ATGCCGAATGTTGTTGCCGA 61.241 50.000 0.00 0.00 0.00 5.54
605 615 0.798009 GATGCCGAATGTTGTTGCCG 60.798 55.000 0.00 0.00 0.00 5.69
607 617 0.109781 ACGATGCCGAATGTTGTTGC 60.110 50.000 0.00 0.00 39.50 4.17
608 618 1.786575 CGACGATGCCGAATGTTGTTG 60.787 52.381 0.00 0.00 39.50 3.33
609 619 0.442310 CGACGATGCCGAATGTTGTT 59.558 50.000 0.00 0.00 39.50 2.83
610 620 0.389296 TCGACGATGCCGAATGTTGT 60.389 50.000 0.00 0.00 39.50 3.32
616 626 0.656259 CTCTAGTCGACGATGCCGAA 59.344 55.000 10.46 0.00 37.81 4.30
618 628 1.280142 CCTCTAGTCGACGATGCCG 59.720 63.158 10.46 0.00 42.50 5.69
642 652 4.298332 CGCTATGCATGGAAAATTTACCC 58.702 43.478 15.09 0.00 0.00 3.69
644 654 4.298332 CCCGCTATGCATGGAAAATTTAC 58.702 43.478 15.09 0.00 0.00 2.01
646 656 2.483538 GCCCGCTATGCATGGAAAATTT 60.484 45.455 15.09 0.00 0.00 1.82
647 657 1.069049 GCCCGCTATGCATGGAAAATT 59.931 47.619 15.09 0.00 0.00 1.82
648 658 0.675633 GCCCGCTATGCATGGAAAAT 59.324 50.000 15.09 0.00 0.00 1.82
649 659 0.682532 TGCCCGCTATGCATGGAAAA 60.683 50.000 15.09 0.00 32.85 2.29
650 660 1.077140 TGCCCGCTATGCATGGAAA 60.077 52.632 15.09 0.00 32.85 3.13
651 661 2.594536 TGCCCGCTATGCATGGAA 59.405 55.556 15.09 0.00 32.85 3.53
715 725 9.303537 GCAAAACTGTTACTTATTACAAAACCA 57.696 29.630 0.00 0.00 0.00 3.67
740 750 9.645059 TTATGACACATCTAGATATGCTTTAGC 57.355 33.333 10.98 0.00 42.50 3.09
773 783 9.708092 AGATCAATGACATATGACTTAGATGTG 57.292 33.333 10.38 0.00 41.09 3.21
842 852 9.283768 TCTAAGTGAGTGAATCAAGCATAAAAA 57.716 29.630 0.00 0.00 40.43 1.94
843 853 8.846943 TCTAAGTGAGTGAATCAAGCATAAAA 57.153 30.769 0.00 0.00 40.43 1.52
846 856 7.493645 CACATCTAAGTGAGTGAATCAAGCATA 59.506 37.037 0.00 0.00 42.05 3.14
847 857 6.315642 CACATCTAAGTGAGTGAATCAAGCAT 59.684 38.462 0.00 0.00 42.05 3.79
848 858 5.640783 CACATCTAAGTGAGTGAATCAAGCA 59.359 40.000 0.00 0.00 42.05 3.91
859 869 9.672086 GCTCTAGTTATTACACATCTAAGTGAG 57.328 37.037 0.57 0.00 42.05 3.51
861 871 9.239002 GTGCTCTAGTTATTACACATCTAAGTG 57.761 37.037 0.00 0.00 44.93 3.16
863 873 9.973450 ATGTGCTCTAGTTATTACACATCTAAG 57.027 33.333 0.00 0.00 43.27 2.18
887 897 5.046529 GTGTGTCTAAGGCACATCTAGATG 58.953 45.833 27.63 27.63 46.66 2.90
889 899 3.447586 GGTGTGTCTAAGGCACATCTAGA 59.552 47.826 9.73 0.00 46.66 2.43
890 900 3.430929 GGGTGTGTCTAAGGCACATCTAG 60.431 52.174 15.09 0.00 46.66 2.43
893 903 1.003118 TGGGTGTGTCTAAGGCACATC 59.997 52.381 9.73 9.06 46.66 3.06
894 904 1.003580 CTGGGTGTGTCTAAGGCACAT 59.996 52.381 9.73 0.00 46.66 3.21
895 905 0.396435 CTGGGTGTGTCTAAGGCACA 59.604 55.000 2.43 2.43 43.60 4.57
896 906 0.396811 ACTGGGTGTGTCTAAGGCAC 59.603 55.000 0.00 0.00 37.37 5.01
897 907 2.018355 TACTGGGTGTGTCTAAGGCA 57.982 50.000 0.00 0.00 0.00 4.75
898 908 2.302157 ACTTACTGGGTGTGTCTAAGGC 59.698 50.000 0.00 0.00 0.00 4.35
899 909 5.733620 TTACTTACTGGGTGTGTCTAAGG 57.266 43.478 0.00 0.00 0.00 2.69
900 910 5.638234 GCTTTACTTACTGGGTGTGTCTAAG 59.362 44.000 0.00 0.00 0.00 2.18
901 911 5.306160 AGCTTTACTTACTGGGTGTGTCTAA 59.694 40.000 0.00 0.00 0.00 2.10
902 912 4.836736 AGCTTTACTTACTGGGTGTGTCTA 59.163 41.667 0.00 0.00 0.00 2.59
905 915 3.244457 GGAGCTTTACTTACTGGGTGTGT 60.244 47.826 0.00 0.00 0.00 3.72
907 917 3.248888 AGGAGCTTTACTTACTGGGTGT 58.751 45.455 0.00 0.00 0.00 4.16
908 918 3.983044 AGGAGCTTTACTTACTGGGTG 57.017 47.619 0.00 0.00 0.00 4.61
910 920 4.553330 TCAAGGAGCTTTACTTACTGGG 57.447 45.455 0.00 0.00 0.00 4.45
911 921 5.163713 GCAATCAAGGAGCTTTACTTACTGG 60.164 44.000 0.00 0.00 0.00 4.00
913 923 5.560724 TGCAATCAAGGAGCTTTACTTACT 58.439 37.500 0.00 0.00 0.00 2.24
925 935 6.219417 TCTTTTCTGTTTTGCAATCAAGGA 57.781 33.333 0.00 0.00 33.12 3.36
933 943 8.600449 TTCTTCTTTTTCTTTTCTGTTTTGCA 57.400 26.923 0.00 0.00 0.00 4.08
940 1195 5.172771 CAGCGCTTCTTCTTTTTCTTTTCTG 59.827 40.000 7.50 0.00 0.00 3.02
980 1251 2.997315 CTGGGAGTGGAGACCGCA 60.997 66.667 4.21 0.00 36.32 5.69
985 1256 0.185175 TATAGCGCTGGGAGTGGAGA 59.815 55.000 22.90 0.00 0.00 3.71
989 1260 2.544685 GCATATATAGCGCTGGGAGTG 58.455 52.381 22.90 14.30 0.00 3.51
990 1261 1.482593 GGCATATATAGCGCTGGGAGT 59.517 52.381 22.90 3.95 0.00 3.85
991 1262 1.482182 TGGCATATATAGCGCTGGGAG 59.518 52.381 22.90 6.10 0.00 4.30
993 1264 2.283298 CTTGGCATATATAGCGCTGGG 58.717 52.381 22.90 3.78 0.00 4.45
1134 4063 1.301244 AGCAGTCGCCACAGTCAAG 60.301 57.895 0.00 0.00 39.83 3.02
1136 4065 2.029518 CAGCAGTCGCCACAGTCA 59.970 61.111 0.00 0.00 39.83 3.41
1433 4365 1.377856 TTCGGCGGGCATGATCAAA 60.378 52.632 7.21 0.00 0.00 2.69
1610 4548 2.203788 TGGAGGAAGTCGGCCACT 60.204 61.111 2.24 2.32 36.64 4.00
1687 4665 1.103398 GTGCTTCTTGTGGTGTGGCT 61.103 55.000 0.00 0.00 0.00 4.75
1787 5020 1.421646 CCACCAGGACCTTTCTGAACT 59.578 52.381 0.00 0.00 36.89 3.01
1829 5255 1.271597 ACTTCGACCACCGTACCTAGT 60.272 52.381 0.00 0.00 39.75 2.57
1836 5272 3.257624 AGAATAAGAACTTCGACCACCGT 59.742 43.478 0.00 0.00 39.75 4.83
1838 5274 4.626172 GTGAGAATAAGAACTTCGACCACC 59.374 45.833 0.00 0.00 0.00 4.61
1841 5277 4.865365 CCAGTGAGAATAAGAACTTCGACC 59.135 45.833 0.00 0.00 0.00 4.79
1842 5278 5.471257 ACCAGTGAGAATAAGAACTTCGAC 58.529 41.667 0.00 0.00 0.00 4.20
1845 5281 4.865365 CCGACCAGTGAGAATAAGAACTTC 59.135 45.833 0.00 0.00 0.00 3.01
1847 5283 4.087182 TCCGACCAGTGAGAATAAGAACT 58.913 43.478 0.00 0.00 0.00 3.01
1848 5284 4.082136 ACTCCGACCAGTGAGAATAAGAAC 60.082 45.833 0.00 0.00 32.84 3.01
1849 5285 4.082190 CACTCCGACCAGTGAGAATAAGAA 60.082 45.833 0.00 0.00 45.92 2.52
1851 5287 3.444034 TCACTCCGACCAGTGAGAATAAG 59.556 47.826 7.50 0.00 46.43 1.73
1854 5304 1.924731 TCACTCCGACCAGTGAGAAT 58.075 50.000 7.50 0.00 46.43 2.40
1901 5356 5.919707 CAGTCACATTACATCAGCTAGCTAG 59.080 44.000 18.86 16.84 0.00 3.42
1902 5357 5.360999 ACAGTCACATTACATCAGCTAGCTA 59.639 40.000 18.86 6.64 0.00 3.32
1903 5358 4.161189 ACAGTCACATTACATCAGCTAGCT 59.839 41.667 12.68 12.68 0.00 3.32
1904 5359 4.437239 ACAGTCACATTACATCAGCTAGC 58.563 43.478 6.62 6.62 0.00 3.42
1933 5388 2.265647 GCTTCTAGCGTCTTCGTTCT 57.734 50.000 0.00 0.00 39.49 3.01
1988 5443 6.810911 TGTTACTGTGTAACCGTTAAACCTA 58.189 36.000 15.26 0.00 35.36 3.08
2169 5626 2.609459 CCATGGAGCGTATCAAGTCAAC 59.391 50.000 5.56 0.00 0.00 3.18
2328 5785 1.227853 GGGGCGTTACTATGGGCAG 60.228 63.158 0.00 0.00 0.00 4.85
2551 6009 2.752903 GGACAACATAGCCAAACGGAAT 59.247 45.455 0.00 0.00 0.00 3.01
2690 6148 7.414098 CGGGAAATTTACAGTGAAGTCCTTATG 60.414 40.741 2.10 0.00 0.00 1.90


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

AutoCloner maintained by Alex Coulton.