Multiple sequence alignment - TraesCS5B01G477900

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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 TraesCS5B01G477900 chr5B 100.000 6561 0 0 527 7087 650017301 650023861 0.000000e+00 12116.0
1 TraesCS5B01G477900 chr5B 88.029 685 59 14 1470 2139 589807397 589806721 0.000000e+00 789.0
2 TraesCS5B01G477900 chr5B 100.000 158 0 0 1 158 650016775 650016932 6.950000e-75 292.0
3 TraesCS5B01G477900 chr5B 89.595 173 18 0 1895 2067 650018495 650018667 3.330000e-53 220.0
4 TraesCS5B01G477900 chr5D 95.501 5268 169 29 536 5764 517429853 517435091 0.000000e+00 8353.0
5 TraesCS5B01G477900 chr5D 89.484 523 40 11 6177 6687 517435473 517435992 0.000000e+00 647.0
6 TraesCS5B01G477900 chr5D 96.848 349 9 2 5830 6177 517435090 517435437 3.680000e-162 582.0
7 TraesCS5B01G477900 chr5D 82.400 375 51 9 6718 7087 517436072 517436436 5.340000e-81 313.0
8 TraesCS5B01G477900 chr5D 89.595 173 18 0 1895 2067 517431054 517431226 3.330000e-53 220.0
9 TraesCS5B01G477900 chr5D 92.784 97 4 3 59 155 517429339 517429432 3.450000e-28 137.0
10 TraesCS5B01G477900 chr5D 100.000 48 0 0 6687 6734 517436013 517436060 9.790000e-14 89.8
11 TraesCS5B01G477900 chr5D 97.561 41 1 0 7047 7087 446400813 446400773 3.550000e-08 71.3
12 TraesCS5B01G477900 chr5D 95.238 42 0 2 7046 7087 522112152 522112113 1.650000e-06 65.8
13 TraesCS5B01G477900 chr5A 95.137 3023 125 6 1537 4557 644814450 644817452 0.000000e+00 4748.0
14 TraesCS5B01G477900 chr5A 94.721 1307 51 12 4882 6177 644818759 644820058 0.000000e+00 2015.0
15 TraesCS5B01G477900 chr5A 85.928 938 99 19 528 1444 644813139 644814064 0.000000e+00 970.0
16 TraesCS5B01G477900 chr5A 88.972 671 60 10 1476 2139 493617399 493618062 0.000000e+00 817.0
17 TraesCS5B01G477900 chr5A 86.613 493 50 10 6210 6687 644820121 644820612 1.350000e-146 531.0
18 TraesCS5B01G477900 chr5A 83.905 379 39 14 6718 7087 644820694 644821059 6.810000e-90 342.0
19 TraesCS5B01G477900 chr5A 91.908 173 14 0 1721 1893 493617818 493617990 7.100000e-60 243.0
20 TraesCS5B01G477900 chr5A 91.908 173 14 0 1721 1893 644814804 644814976 7.100000e-60 243.0
21 TraesCS5B01G477900 chr5A 87.283 173 22 0 1895 2067 644814630 644814802 1.560000e-46 198.0
22 TraesCS5B01G477900 chr5A 91.304 138 9 1 4638 4772 644818615 644818752 1.210000e-42 185.0
23 TraesCS5B01G477900 chr5A 97.222 72 2 0 87 158 644812873 644812944 9.650000e-24 122.0
24 TraesCS5B01G477900 chr5A 92.537 67 5 0 3 69 644812755 644812821 5.850000e-16 97.1
25 TraesCS5B01G477900 chr5A 87.952 83 8 2 4584 4665 644817455 644817536 5.850000e-16 97.1
26 TraesCS5B01G477900 chr5A 100.000 48 0 0 6687 6734 644820635 644820682 9.790000e-14 89.8
27 TraesCS5B01G477900 chr5A 95.122 41 2 0 7047 7087 564075130 564075090 1.650000e-06 65.8
28 TraesCS5B01G477900 chr1A 89.419 671 57 10 1476 2139 372634718 372635381 0.000000e+00 833.0
29 TraesCS5B01G477900 chr1A 85.878 262 30 5 2213 2469 97850082 97849823 9.060000e-69 272.0
30 TraesCS5B01G477900 chr1A 87.395 238 28 1 2227 2462 441824184 441824421 9.060000e-69 272.0
31 TraesCS5B01G477900 chr1A 92.486 173 13 0 1721 1893 372635137 372635309 1.530000e-61 248.0
32 TraesCS5B01G477900 chr1A 97.500 40 1 0 7048 7087 553982929 553982890 1.280000e-07 69.4
33 TraesCS5B01G477900 chr2A 86.918 451 40 10 1470 1907 52420762 52421206 8.260000e-134 488.0
34 TraesCS5B01G477900 chr2A 91.209 273 20 4 1972 2241 52421202 52421473 1.120000e-97 368.0
35 TraesCS5B01G477900 chr3A 88.362 232 27 0 2231 2462 36319819 36319588 5.410000e-71 279.0
36 TraesCS5B01G477900 chrUn 85.771 253 33 2 2213 2462 194086594 194086846 1.520000e-66 265.0
37 TraesCS5B01G477900 chr7B 95.238 42 1 1 7047 7087 677968216 677968257 1.650000e-06 65.8
38 TraesCS5B01G477900 chr7B 95.238 42 1 1 7047 7087 678011973 678012014 1.650000e-06 65.8
39 TraesCS5B01G477900 chr7B 95.238 42 1 1 7047 7087 678291261 678291220 1.650000e-06 65.8


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 TraesCS5B01G477900 chr5B 650016775 650023861 7086 False 6204.000000 12116 100.000000 1 7087 2 chr5B.!!$F2 7086
1 TraesCS5B01G477900 chr5B 589806721 589807397 676 True 789.000000 789 88.029000 1470 2139 1 chr5B.!!$R1 669
2 TraesCS5B01G477900 chr5D 517429339 517435091 5752 False 4245.000000 8353 94.142500 59 5764 2 chr5D.!!$F1 5705
3 TraesCS5B01G477900 chr5D 517431054 517436436 5382 False 370.360000 647 91.665400 1895 7087 5 chr5D.!!$F2 5192
4 TraesCS5B01G477900 chr5A 644812755 644821059 8304 False 803.166667 4748 91.209167 3 7087 12 chr5A.!!$F2 7084
5 TraesCS5B01G477900 chr5A 493617399 493618062 663 False 530.000000 817 90.440000 1476 2139 2 chr5A.!!$F1 663
6 TraesCS5B01G477900 chr1A 372634718 372635381 663 False 540.500000 833 90.952500 1476 2139 2 chr1A.!!$F2 663
7 TraesCS5B01G477900 chr2A 52420762 52421473 711 False 428.000000 488 89.063500 1470 2241 2 chr2A.!!$F1 771

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
557 653 0.107508 AGATGTGAACTGCGGGGATG 60.108 55.000 0.00 0.00 0.00 3.51 F
1105 1224 0.441145 GGTAAACGCTGGCAGTTACG 59.559 55.000 17.16 13.59 0.00 3.18 F
1784 2237 0.664166 GTGCATGCAAAGGACCGTTG 60.664 55.000 24.58 15.07 0.00 4.10 F
2249 2711 1.900498 GTTGACTGCAGCTGCCCTT 60.900 57.895 34.64 19.27 41.18 3.95 F
3447 3910 1.751924 AGGAGAGAGGCACAACGATAC 59.248 52.381 0.00 0.00 0.00 2.24 F
4434 4899 1.072331 AGCACACCTACCCTGTGAAAG 59.928 52.381 2.73 0.00 41.43 2.62 F
6036 7633 0.889186 CCCATTCCGGCGGATTAAGG 60.889 60.000 31.59 25.65 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2249 2711 0.033366 TTACACGCAGAGCAGCTTCA 59.967 50.000 0.00 0.00 0.00 3.02 R
2454 2916 3.533547 GCTGAGAGATGCTCTGTTTCAT 58.466 45.455 1.02 0.00 41.35 2.57 R
3420 3883 0.172352 GTGCCTCTCTCCTTCTGACG 59.828 60.000 0.00 0.00 0.00 4.35 R
4248 4713 1.337703 TCAGACACAGTGCAATTTGGC 59.662 47.619 5.20 0.96 0.00 4.52 R
4547 5012 0.467290 TGTGGGCTTTTGACAGACCC 60.467 55.000 0.00 0.00 42.20 4.46 R
6053 7650 0.448990 TCATCTCAAATGCACGCTGC 59.551 50.000 0.00 3.44 45.29 5.25 R
6960 8688 0.309302 CACGCCCGTTGATCAAAACA 59.691 50.000 10.35 0.00 0.00 2.83 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
69 70 2.981350 GGTGCGGCGGGAAGAAAA 60.981 61.111 9.78 0.00 0.00 2.29
71 72 1.964373 GTGCGGCGGGAAGAAAAGA 60.964 57.895 9.78 0.00 0.00 2.52
73 74 2.687805 GCGGCGGGAAGAAAAGACC 61.688 63.158 9.78 0.00 0.00 3.85
75 76 0.605589 CGGCGGGAAGAAAAGACCTT 60.606 55.000 0.00 0.00 0.00 3.50
76 77 1.617322 GGCGGGAAGAAAAGACCTTT 58.383 50.000 0.00 0.00 0.00 3.11
81 82 2.288457 GGGAAGAAAAGACCTTTGCTGC 60.288 50.000 3.88 2.15 37.46 5.25
83 84 2.071778 AGAAAAGACCTTTGCTGCCA 57.928 45.000 2.30 0.00 37.08 4.92
84 85 1.683385 AGAAAAGACCTTTGCTGCCAC 59.317 47.619 2.30 0.00 37.08 5.01
85 86 1.408702 GAAAAGACCTTTGCTGCCACA 59.591 47.619 0.00 0.00 32.36 4.17
550 646 0.678048 GGTGGGGAGATGTGAACTGC 60.678 60.000 0.00 0.00 0.00 4.40
551 647 1.021390 GTGGGGAGATGTGAACTGCG 61.021 60.000 0.00 0.00 0.00 5.18
555 651 1.596934 GAGATGTGAACTGCGGGGA 59.403 57.895 0.00 0.00 0.00 4.81
556 652 0.179000 GAGATGTGAACTGCGGGGAT 59.821 55.000 0.00 0.00 0.00 3.85
557 653 0.107508 AGATGTGAACTGCGGGGATG 60.108 55.000 0.00 0.00 0.00 3.51
558 654 1.718757 GATGTGAACTGCGGGGATGC 61.719 60.000 0.00 0.00 0.00 3.91
559 655 3.499737 GTGAACTGCGGGGATGCG 61.500 66.667 0.00 0.00 37.81 4.73
610 706 6.045955 GCTTCTTCGAGTTCTTCAGGATAAT 58.954 40.000 0.00 0.00 0.00 1.28
717 813 6.272822 GCCTTGTGAGGTGATTTTCTATTT 57.727 37.500 0.00 0.00 45.44 1.40
718 814 6.095377 GCCTTGTGAGGTGATTTTCTATTTG 58.905 40.000 0.00 0.00 45.44 2.32
720 816 6.209391 CCTTGTGAGGTGATTTTCTATTTGGT 59.791 38.462 0.00 0.00 38.32 3.67
721 817 6.573664 TGTGAGGTGATTTTCTATTTGGTG 57.426 37.500 0.00 0.00 0.00 4.17
722 818 5.476599 TGTGAGGTGATTTTCTATTTGGTGG 59.523 40.000 0.00 0.00 0.00 4.61
724 820 6.657541 GTGAGGTGATTTTCTATTTGGTGGTA 59.342 38.462 0.00 0.00 0.00 3.25
725 821 7.175990 GTGAGGTGATTTTCTATTTGGTGGTAA 59.824 37.037 0.00 0.00 0.00 2.85
726 822 7.175990 TGAGGTGATTTTCTATTTGGTGGTAAC 59.824 37.037 0.00 0.00 0.00 2.50
744 856 2.066999 CCCTGTCCCTGTAGGCTCC 61.067 68.421 0.00 0.00 34.51 4.70
809 927 3.180584 GCTATATTCAGTCGAGCGTGTTG 59.819 47.826 0.00 0.00 0.00 3.33
838 956 0.973632 GGGAAAGCCCGGTTCAATTT 59.026 50.000 0.00 0.00 46.48 1.82
840 958 2.563620 GGGAAAGCCCGGTTCAATTTTA 59.436 45.455 0.00 0.00 46.48 1.52
841 959 3.196901 GGGAAAGCCCGGTTCAATTTTAT 59.803 43.478 0.00 0.00 46.48 1.40
842 960 4.323180 GGGAAAGCCCGGTTCAATTTTATT 60.323 41.667 0.00 0.00 46.48 1.40
899 1018 5.006386 ACTGAAACTGGAGATTGGTCATTC 58.994 41.667 0.00 0.00 0.00 2.67
903 1022 4.392921 ACTGGAGATTGGTCATTCGTAG 57.607 45.455 0.00 0.00 0.00 3.51
932 1051 5.537295 TGGCATAAGATTGAATTGGATCTGG 59.463 40.000 0.00 0.00 33.12 3.86
939 1058 5.477291 AGATTGAATTGGATCTGGATGCATC 59.523 40.000 18.81 18.81 38.92 3.91
963 1082 5.960113 TGGTGTGTTTGTGCATATTTATCC 58.040 37.500 0.00 0.00 0.00 2.59
1086 1205 1.635663 GGAGTTGTCGGAATGCCACG 61.636 60.000 0.00 0.00 0.00 4.94
1105 1224 0.441145 GGTAAACGCTGGCAGTTACG 59.559 55.000 17.16 13.59 0.00 3.18
1193 1312 7.450014 CAGAGAGGTAGGCTAAGATTCTTGATA 59.550 40.741 9.22 0.00 0.00 2.15
1211 1330 9.996554 TTCTTGATACTAATCACTGAAGTTTGA 57.003 29.630 0.00 0.00 41.87 2.69
1226 1345 7.339466 ACTGAAGTTTGATCACAACTTAGGTTT 59.661 33.333 23.81 10.66 35.63 3.27
1257 1376 9.731819 CATTCTGTTGGATCAAATAAATCAGAG 57.268 33.333 0.00 0.00 32.42 3.35
1306 1431 7.597743 GCCTTTAATGATTCAATCCTGCATAAG 59.402 37.037 0.00 0.00 0.00 1.73
1336 1461 3.217626 CTCTGTGGGTTTCTTCTTTGCT 58.782 45.455 0.00 0.00 0.00 3.91
1485 1925 5.989168 GCCTATTGTTATGGTTTTAATGGGC 59.011 40.000 0.00 0.00 44.32 5.36
1544 1987 4.279922 CCTTGATGGATTGCATTATGAGCA 59.720 41.667 0.00 0.00 37.98 4.26
1557 2000 7.526608 TGCATTATGAGCAAACAAGTTAGTAC 58.473 34.615 0.00 0.00 39.39 2.73
1784 2237 0.664166 GTGCATGCAAAGGACCGTTG 60.664 55.000 24.58 15.07 0.00 4.10
1874 2327 5.234543 GGATGATAAACAACTAGAAGTCCGC 59.765 44.000 0.00 0.00 0.00 5.54
1929 2382 3.053693 AGCCAATGTTAGCCCACAGATTA 60.054 43.478 0.00 0.00 0.00 1.75
1982 2435 5.350504 AGGACTCTTATGTTGATGGTCAG 57.649 43.478 0.00 0.00 0.00 3.51
2054 2514 2.963782 ACAACAAGGAGTCCGTAGAGTT 59.036 45.455 2.76 2.98 0.00 3.01
2249 2711 1.900498 GTTGACTGCAGCTGCCCTT 60.900 57.895 34.64 19.27 41.18 3.95
2454 2916 2.425312 CAAGGCCACAACACAACTAACA 59.575 45.455 5.01 0.00 0.00 2.41
2480 2942 3.892200 GAGCATCTCTCAGCCTAGC 57.108 57.895 0.00 0.00 41.51 3.42
2757 3219 4.223923 ACTTGAGGAATCCAGTAAGAGGTG 59.776 45.833 14.22 0.00 0.00 4.00
2796 3258 5.945466 AAATTTGTTGCCCATGAACATTC 57.055 34.783 0.00 0.00 33.41 2.67
3183 3646 5.186198 GCAATGAAGTACCCACTAGTCAAT 58.814 41.667 0.00 0.00 33.48 2.57
3384 3847 5.011738 GGACCTATATCAAACATCTCGGGAA 59.988 44.000 0.00 0.00 0.00 3.97
3420 3883 4.644103 AATGATGTTAATGTGGCAGCTC 57.356 40.909 0.00 0.00 0.00 4.09
3447 3910 1.751924 AGGAGAGAGGCACAACGATAC 59.248 52.381 0.00 0.00 0.00 2.24
3807 4270 5.968254 TCTTGAGTAAATATGTGCACGGTA 58.032 37.500 13.13 8.29 0.00 4.02
4105 4568 7.350744 TCTTTCCCCTAAAAAGGTTTGTTAC 57.649 36.000 0.00 0.00 35.03 2.50
4156 4620 6.151817 CCATCTCTCGTTCATCATGTATCCTA 59.848 42.308 0.00 0.00 0.00 2.94
4245 4710 8.907222 AAAATTGCACATCCATTTTCTTTACT 57.093 26.923 1.11 0.00 0.00 2.24
4248 4713 5.771469 TGCACATCCATTTTCTTTACTGTG 58.229 37.500 0.00 0.00 36.66 3.66
4290 4755 1.476488 AGGTGTTTGTTGCAACAGGTC 59.524 47.619 29.50 22.58 40.50 3.85
4354 4819 5.939296 TGGATTTTGAATTCCAATTGGCTTC 59.061 36.000 20.33 21.91 39.05 3.86
4385 4850 2.649190 TCAAGCTGGTTTACTGTTGCA 58.351 42.857 0.00 0.00 0.00 4.08
4434 4899 1.072331 AGCACACCTACCCTGTGAAAG 59.928 52.381 2.73 0.00 41.43 2.62
4493 4958 8.299570 TGAAAGCTTCAGTTTTCATATCTTTCC 58.700 33.333 13.13 0.00 45.70 3.13
4527 4992 5.538118 GAGGGAAAATTACCAAACACCTTG 58.462 41.667 0.00 0.00 31.71 3.61
4547 5012 7.276218 CACCTTGAAAGTGTATATGCATTTTGG 59.724 37.037 16.84 14.09 30.26 3.28
4549 5014 6.219417 TGAAAGTGTATATGCATTTTGGGG 57.781 37.500 16.84 0.00 30.26 4.96
4663 6234 6.073222 CCGAACTTAAACTCAAGCAACATAGT 60.073 38.462 0.00 0.00 0.00 2.12
4680 6251 7.652507 GCAACATAGTGTACCTAAGAACTATCC 59.347 40.741 0.00 0.00 34.41 2.59
4844 6425 3.536956 TTGTAAGAATCCGAGCCGATT 57.463 42.857 0.00 0.00 35.14 3.34
4849 6430 2.760374 AGAATCCGAGCCGATTGATTC 58.240 47.619 12.56 12.56 42.05 2.52
5004 6585 7.894753 TGATGCTCAATTTTTGATATACCCA 57.105 32.000 0.00 0.00 39.30 4.51
5055 6636 6.032094 GCATACAGTGGAGATTTCAACATTG 58.968 40.000 0.00 0.00 28.89 2.82
5071 6652 2.491693 ACATTGGGCCAATCAGTTTACG 59.508 45.455 28.54 16.74 31.05 3.18
5151 6732 7.202526 TCAGCTTCTGTTCAAAATTTTCGAAT 58.797 30.769 14.58 0.00 32.61 3.34
5270 6852 5.818136 TTGTCATAGTTAAGAGGCATTGC 57.182 39.130 0.00 0.00 0.00 3.56
5293 6875 8.635765 TGCCTTAGTTCACTCTTAATTTGATT 57.364 30.769 0.00 0.00 0.00 2.57
5373 6957 2.872245 CACGATGTGGCCCTTACATTAG 59.128 50.000 8.48 8.52 38.78 1.73
5460 7047 3.810941 TGAAGGATAAAAGTTGTTCGCGT 59.189 39.130 5.77 0.00 0.00 6.01
5517 7104 1.767759 GCCATCTAAGCCATTGTGGT 58.232 50.000 0.00 0.00 40.46 4.16
5523 7110 2.237143 TCTAAGCCATTGTGGTCTGGAG 59.763 50.000 0.00 0.00 40.46 3.86
5577 7164 6.494893 TTGAATGTAGAAACTTCCATTCCG 57.505 37.500 13.97 0.00 41.44 4.30
5788 7384 2.464459 GGATCCGAACGGCTTGCTG 61.464 63.158 8.48 0.00 34.68 4.41
5882 7479 5.881923 ATGTTTCCCTACGCTTTATCCTA 57.118 39.130 0.00 0.00 0.00 2.94
5888 7485 7.797038 TTCCCTACGCTTTATCCTATTTTTC 57.203 36.000 0.00 0.00 0.00 2.29
5895 7492 7.762382 ACGCTTTATCCTATTTTTCTTCCAAG 58.238 34.615 0.00 0.00 0.00 3.61
5901 7498 4.766891 TCCTATTTTTCTTCCAAGCTGGTG 59.233 41.667 0.00 0.00 39.03 4.17
5943 7540 6.371548 CCTCTAATTCTCCTGTATCTCTCTCG 59.628 46.154 0.00 0.00 0.00 4.04
6036 7633 0.889186 CCCATTCCGGCGGATTAAGG 60.889 60.000 31.59 25.65 0.00 2.69
6053 7650 1.843368 AGGTGCCATCATTCCAACAG 58.157 50.000 0.00 0.00 0.00 3.16
6164 7761 1.511850 TGGCATGTTTCTGTCACGAG 58.488 50.000 0.00 0.00 0.00 4.18
6206 7854 4.398549 TTTGCAAATACGAGAAAGGTCG 57.601 40.909 8.05 0.00 45.76 4.79
6217 7866 1.615107 GAAAGGTCGAAGCGTCCGTG 61.615 60.000 0.00 0.00 39.76 4.94
6225 7874 1.078759 GAAGCGTCCGTGATGGTGAG 61.079 60.000 0.00 0.00 39.52 3.51
6250 7899 1.523032 GTGGTATACAGCCGCCCAC 60.523 63.158 5.01 0.00 38.86 4.61
6407 8057 2.778299 ACACTGCTTAGAAATCGGCAA 58.222 42.857 0.00 0.00 34.21 4.52
6416 8066 2.229792 AGAAATCGGCAACTGAGCAAA 58.770 42.857 0.00 0.00 35.83 3.68
6417 8067 2.622942 AGAAATCGGCAACTGAGCAAAA 59.377 40.909 0.00 0.00 35.83 2.44
6419 8069 3.665745 AATCGGCAACTGAGCAAAATT 57.334 38.095 0.00 0.00 35.83 1.82
6420 8070 2.704725 TCGGCAACTGAGCAAAATTC 57.295 45.000 0.00 0.00 35.83 2.17
6423 8073 2.287788 CGGCAACTGAGCAAAATTCTGT 60.288 45.455 0.00 0.00 35.83 3.41
6424 8074 3.058293 CGGCAACTGAGCAAAATTCTGTA 60.058 43.478 0.00 0.00 35.83 2.74
6425 8075 4.479619 GGCAACTGAGCAAAATTCTGTAG 58.520 43.478 0.00 0.00 35.83 2.74
6426 8076 4.022849 GGCAACTGAGCAAAATTCTGTAGT 60.023 41.667 0.00 0.00 35.83 2.73
6427 8077 4.913924 GCAACTGAGCAAAATTCTGTAGTG 59.086 41.667 0.00 0.00 0.00 2.74
6428 8078 4.756084 ACTGAGCAAAATTCTGTAGTGC 57.244 40.909 0.00 0.00 35.41 4.40
6437 8099 6.034256 GCAAAATTCTGTAGTGCATGATCAAC 59.966 38.462 0.00 0.00 35.28 3.18
6438 8100 5.475273 AATTCTGTAGTGCATGATCAACG 57.525 39.130 0.00 0.00 0.00 4.10
6443 8107 0.541392 AGTGCATGATCAACGGGCTA 59.459 50.000 0.00 0.00 0.00 3.93
6514 8179 5.564048 GACTAGTCCAGACTCGTTGTATT 57.436 43.478 12.13 0.00 42.54 1.89
6536 8201 9.241317 GTATTTCAATCTCCTTGCATGTATTTG 57.759 33.333 0.00 0.00 34.66 2.32
6548 8213 8.971321 CCTTGCATGTATTTGTAAGAATATTGC 58.029 33.333 0.00 1.78 40.49 3.56
6619 8284 6.588348 AAAGCACTGTTGATTTTAAGTTGC 57.412 33.333 0.00 0.00 38.16 4.17
6627 8292 8.132362 ACTGTTGATTTTAAGTTGCGAATACAA 58.868 29.630 0.00 0.00 0.00 2.41
6658 8323 6.463190 GGGTGTGTTTTAGCTTTATTTTGGGA 60.463 38.462 0.00 0.00 0.00 4.37
6659 8324 7.158697 GGTGTGTTTTAGCTTTATTTTGGGAT 58.841 34.615 0.00 0.00 0.00 3.85
6666 8331 8.825667 TTTAGCTTTATTTTGGGATTGTGTTC 57.174 30.769 0.00 0.00 0.00 3.18
6798 8514 4.122149 TGGGGGCGCCCTATGTTG 62.122 66.667 42.70 0.00 44.66 3.33
6817 8533 4.083003 TGTTGCCGGTTTCTCATGATAAAC 60.083 41.667 22.16 22.16 35.34 2.01
6818 8534 3.680490 TGCCGGTTTCTCATGATAAACA 58.320 40.909 27.86 12.44 37.33 2.83
6824 8540 6.801862 CCGGTTTCTCATGATAAACAAAACTC 59.198 38.462 27.86 14.60 37.33 3.01
6846 8562 5.673818 CTCGGAGATATGCATCGTAATTCGA 60.674 44.000 0.19 5.00 45.30 3.71
6884 8601 9.216117 ACCGATTCATAATATTTTACTGCCTAC 57.784 33.333 0.00 0.00 0.00 3.18
6885 8602 9.436957 CCGATTCATAATATTTTACTGCCTACT 57.563 33.333 0.00 0.00 0.00 2.57
6908 8625 8.186178 ACTATTGACGCTGTTCAAGTAAATAG 57.814 34.615 15.61 15.61 38.87 1.73
6942 8664 2.779430 TGGACAGAGGAATGCATATGGT 59.221 45.455 0.00 0.00 0.00 3.55
6958 8686 5.983118 GCATATGGTTGTATTAACTTTGGCC 59.017 40.000 4.56 0.00 0.00 5.36
6959 8687 6.406400 GCATATGGTTGTATTAACTTTGGCCA 60.406 38.462 0.00 0.00 0.00 5.36
6960 8688 7.686615 GCATATGGTTGTATTAACTTTGGCCAT 60.687 37.037 6.09 0.00 37.82 4.40
6961 8689 5.398603 TGGTTGTATTAACTTTGGCCATG 57.601 39.130 6.09 5.34 0.00 3.66
6962 8690 4.835615 TGGTTGTATTAACTTTGGCCATGT 59.164 37.500 6.09 6.11 0.00 3.21
6963 8691 5.305644 TGGTTGTATTAACTTTGGCCATGTT 59.694 36.000 22.60 22.60 0.00 2.71
6964 8692 6.183361 TGGTTGTATTAACTTTGGCCATGTTT 60.183 34.615 23.68 12.64 0.00 2.83
6965 8693 6.708502 GGTTGTATTAACTTTGGCCATGTTTT 59.291 34.615 23.68 16.18 0.00 2.43
6966 8694 7.307692 GGTTGTATTAACTTTGGCCATGTTTTG 60.308 37.037 23.68 7.53 0.00 2.44
6967 8695 7.055667 TGTATTAACTTTGGCCATGTTTTGA 57.944 32.000 23.68 13.87 0.00 2.69
6968 8696 7.675062 TGTATTAACTTTGGCCATGTTTTGAT 58.325 30.769 23.68 17.99 0.00 2.57
6969 8697 7.816995 TGTATTAACTTTGGCCATGTTTTGATC 59.183 33.333 23.68 13.98 0.00 2.92
6970 8698 4.686191 AACTTTGGCCATGTTTTGATCA 57.314 36.364 6.09 0.00 0.00 2.92
6971 8699 4.686191 ACTTTGGCCATGTTTTGATCAA 57.314 36.364 6.09 3.38 0.00 2.57
6972 8700 4.379652 ACTTTGGCCATGTTTTGATCAAC 58.620 39.130 6.09 0.00 0.00 3.18
6981 8709 2.136196 TTTTGATCAACGGGCGTGGC 62.136 55.000 7.89 0.00 0.00 5.01
6986 8714 2.573609 ATCAACGGGCGTGGCTAGAC 62.574 60.000 0.00 0.00 0.00 2.59
6987 8715 4.078516 AACGGGCGTGGCTAGACC 62.079 66.667 0.00 0.00 39.84 3.85
7011 8739 7.661847 ACCATTCTAACCTGACTGAAACTAAAG 59.338 37.037 0.00 0.00 0.00 1.85
7012 8740 7.361286 CCATTCTAACCTGACTGAAACTAAAGC 60.361 40.741 0.00 0.00 0.00 3.51
7014 8742 3.857157 ACCTGACTGAAACTAAAGCCA 57.143 42.857 0.00 0.00 0.00 4.75
7016 8744 2.485814 CCTGACTGAAACTAAAGCCAGC 59.514 50.000 0.00 0.00 0.00 4.85
7018 8746 2.106511 TGACTGAAACTAAAGCCAGCCT 59.893 45.455 0.00 0.00 0.00 4.58
7028 8756 8.451908 AAACTAAAGCCAGCCTACAATATTAG 57.548 34.615 0.00 0.00 0.00 1.73
7030 8758 3.045601 AGCCAGCCTACAATATTAGCG 57.954 47.619 0.00 0.00 0.00 4.26
7032 8760 2.766313 CCAGCCTACAATATTAGCGCA 58.234 47.619 11.47 0.00 0.00 6.09
7047 8775 2.459442 CGCAGCTGTAGCAAGCCTC 61.459 63.158 16.64 0.00 44.68 4.70
7051 8779 0.397941 AGCTGTAGCAAGCCTCAACA 59.602 50.000 6.65 0.00 44.68 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 2.687805 GGTCTTTTCTTCCCGCCGC 61.688 63.158 0.00 0.00 0.00 6.53
69 70 2.584835 TAATGTGGCAGCAAAGGTCT 57.415 45.000 0.00 0.00 0.00 3.85
71 72 1.826720 CCATAATGTGGCAGCAAAGGT 59.173 47.619 0.00 0.00 42.12 3.50
83 84 2.819552 GCGGTTCGCGCCATAATGT 61.820 57.895 0.00 0.00 44.55 2.71
84 85 2.052237 GCGGTTCGCGCCATAATG 60.052 61.111 0.00 0.00 44.55 1.90
527 562 0.914417 TTCACATCTCCCCACCTCCC 60.914 60.000 0.00 0.00 0.00 4.30
528 563 0.253327 GTTCACATCTCCCCACCTCC 59.747 60.000 0.00 0.00 0.00 4.30
529 564 1.065854 CAGTTCACATCTCCCCACCTC 60.066 57.143 0.00 0.00 0.00 3.85
530 565 0.987294 CAGTTCACATCTCCCCACCT 59.013 55.000 0.00 0.00 0.00 4.00
532 567 1.021390 CGCAGTTCACATCTCCCCAC 61.021 60.000 0.00 0.00 0.00 4.61
533 568 1.296392 CGCAGTTCACATCTCCCCA 59.704 57.895 0.00 0.00 0.00 4.96
535 570 1.450312 CCCGCAGTTCACATCTCCC 60.450 63.158 0.00 0.00 0.00 4.30
555 651 2.366167 AGAAGAGGGAGGGCGCAT 60.366 61.111 10.83 0.00 0.00 4.73
556 652 3.393970 CAGAAGAGGGAGGGCGCA 61.394 66.667 10.83 0.00 0.00 6.09
557 653 3.077556 TCAGAAGAGGGAGGGCGC 61.078 66.667 0.00 0.00 0.00 6.53
558 654 2.896443 GTCAGAAGAGGGAGGGCG 59.104 66.667 0.00 0.00 0.00 6.13
559 655 2.896443 CGTCAGAAGAGGGAGGGC 59.104 66.667 0.00 0.00 0.00 5.19
560 656 2.726351 GGCGTCAGAAGAGGGAGGG 61.726 68.421 0.00 0.00 0.00 4.30
561 657 2.726351 GGGCGTCAGAAGAGGGAGG 61.726 68.421 0.00 0.00 0.00 4.30
562 658 1.261238 AAGGGCGTCAGAAGAGGGAG 61.261 60.000 0.00 0.00 0.00 4.30
563 659 0.836400 AAAGGGCGTCAGAAGAGGGA 60.836 55.000 0.00 0.00 0.00 4.20
717 813 1.131303 CAGGGACAGGGTTACCACCA 61.131 60.000 2.98 0.00 46.43 4.17
718 814 1.131928 ACAGGGACAGGGTTACCACC 61.132 60.000 2.98 0.77 43.37 4.61
720 816 1.553884 CCTACAGGGACAGGGTTACCA 60.554 57.143 2.98 0.00 36.76 3.25
721 817 1.201424 CCTACAGGGACAGGGTTACC 58.799 60.000 0.00 0.00 37.23 2.85
722 818 0.540454 GCCTACAGGGACAGGGTTAC 59.460 60.000 0.00 0.00 37.23 2.50
724 820 0.910088 GAGCCTACAGGGACAGGGTT 60.910 60.000 0.00 0.00 42.61 4.11
725 821 1.306226 GAGCCTACAGGGACAGGGT 60.306 63.158 0.00 0.00 45.18 4.34
726 822 2.066999 GGAGCCTACAGGGACAGGG 61.067 68.421 0.00 0.00 37.23 4.45
730 842 1.380112 ACTCGGAGCCTACAGGGAC 60.380 63.158 4.58 0.00 37.23 4.46
731 843 1.379977 CACTCGGAGCCTACAGGGA 60.380 63.158 4.58 0.00 37.23 4.20
744 856 4.310769 AGAAATCAAAGGACAGACACTCG 58.689 43.478 0.00 0.00 0.00 4.18
852 970 3.536956 TGTCGATAAGGTGGAATGGTC 57.463 47.619 0.00 0.00 0.00 4.02
858 976 3.322541 TCAGTTGTTGTCGATAAGGTGGA 59.677 43.478 0.00 0.00 0.00 4.02
899 1018 6.618287 TTCAATCTTATGCCATTTCCTACG 57.382 37.500 0.00 0.00 0.00 3.51
903 1022 6.819284 TCCAATTCAATCTTATGCCATTTCC 58.181 36.000 0.00 0.00 0.00 3.13
932 1051 2.923605 GCACAAACACACCAGATGCATC 60.924 50.000 19.37 19.37 0.00 3.91
939 1058 6.035843 GGATAAATATGCACAAACACACCAG 58.964 40.000 0.00 0.00 0.00 4.00
963 1082 4.811024 ACAGTGCACCGAGAAACATATATG 59.189 41.667 14.63 11.29 0.00 1.78
1086 1205 0.441145 CGTAACTGCCAGCGTTTACC 59.559 55.000 0.00 0.00 0.00 2.85
1098 1217 2.812178 CGGAACCCGCCGTAACTG 60.812 66.667 0.00 0.00 46.07 3.16
1193 1312 7.716998 AGTTGTGATCAAACTTCAGTGATTAGT 59.283 33.333 13.96 0.00 34.61 2.24
1211 1330 8.137437 CAGAATGACAAAAACCTAAGTTGTGAT 58.863 33.333 0.00 0.00 39.69 3.06
1257 1376 5.278858 GCTACAGGTACATGTACTACCATCC 60.279 48.000 29.89 15.33 36.80 3.51
1321 1446 1.807142 CTCGGAGCAAAGAAGAAACCC 59.193 52.381 0.00 0.00 0.00 4.11
1323 1448 4.510340 TGTAACTCGGAGCAAAGAAGAAAC 59.490 41.667 4.58 0.00 0.00 2.78
1336 1461 5.878116 CCTGGAACAAATAATGTAACTCGGA 59.122 40.000 0.00 0.00 42.99 4.55
1485 1925 6.751425 TGAAAACACATGCACAAAGTTAGAAG 59.249 34.615 0.00 0.00 0.00 2.85
1544 1987 7.852971 TGTTTGCTACTGTACTAACTTGTTT 57.147 32.000 0.00 0.00 0.00 2.83
1557 2000 5.048782 TGTTTCAAGCCTATGTTTGCTACTG 60.049 40.000 0.00 0.00 36.66 2.74
1784 2237 3.879892 GACCATCAACATAAGAGCCCTTC 59.120 47.826 0.00 0.00 33.94 3.46
1874 2327 3.577848 AGATATCCTTGCTAGCCACTCTG 59.422 47.826 13.29 0.00 0.00 3.35
1929 2382 6.096846 GGTCCTTTGCATGTACCAGAATTTAT 59.903 38.462 0.00 0.00 0.00 1.40
1982 2435 1.135460 GCAGCTTTGATCTCTTGTGCC 60.135 52.381 0.00 0.00 0.00 5.01
2054 2514 5.012664 TGGTTTAGTGACATCCTTGCTAGAA 59.987 40.000 0.00 0.00 0.00 2.10
2249 2711 0.033366 TTACACGCAGAGCAGCTTCA 59.967 50.000 0.00 0.00 0.00 3.02
2454 2916 3.533547 GCTGAGAGATGCTCTGTTTCAT 58.466 45.455 1.02 0.00 41.35 2.57
2480 2942 6.740040 ATGTCTACATCATGTGGGGCACAG 62.740 50.000 0.00 0.00 38.89 3.66
3183 3646 2.639347 TCCTCTGTTTGCATTCAGGAGA 59.361 45.455 15.39 10.93 33.13 3.71
3384 3847 6.491714 AACATCATTATGAGCCAGACTACT 57.508 37.500 0.29 0.00 36.54 2.57
3420 3883 0.172352 GTGCCTCTCTCCTTCTGACG 59.828 60.000 0.00 0.00 0.00 4.35
3807 4270 7.016153 TGAGGATCACCAAAAGTATGTACTT 57.984 36.000 0.00 0.00 44.28 2.24
3910 4373 8.383175 ACCAAAAACTCTAGTCCATGAAATAGA 58.617 33.333 0.00 0.00 0.00 1.98
4105 4568 4.815846 CCAAGAAACAAAAGGGAAATGGTG 59.184 41.667 0.00 0.00 0.00 4.17
4214 4679 9.504708 AGAAAATGGATGTGCAATTTTAAATGA 57.495 25.926 6.12 0.00 34.51 2.57
4248 4713 1.337703 TCAGACACAGTGCAATTTGGC 59.662 47.619 5.20 0.96 0.00 4.52
4290 4755 5.631512 GCCATATAAGAACTTAGCTGTCGAG 59.368 44.000 0.00 0.00 0.00 4.04
4385 4850 4.278419 GTGTCATTGCTTACTTTCCAGGTT 59.722 41.667 0.00 0.00 0.00 3.50
4493 4958 5.811100 GGTAATTTTCCCTCGACTACTTCAG 59.189 44.000 0.00 0.00 0.00 3.02
4527 4992 6.096846 AGACCCCAAAATGCATATACACTTTC 59.903 38.462 0.00 0.00 0.00 2.62
4547 5012 0.467290 TGTGGGCTTTTGACAGACCC 60.467 55.000 0.00 0.00 42.20 4.46
4549 5014 2.229792 TCATGTGGGCTTTTGACAGAC 58.770 47.619 0.00 0.00 0.00 3.51
4623 5088 9.059260 GTTTAAGTTCGGATAATTTAGCCCATA 57.941 33.333 5.16 0.00 0.00 2.74
4697 6271 9.642327 TTAAGCTAATTAATCGTGTCAGTGTTA 57.358 29.630 0.00 0.00 0.00 2.41
4761 6335 3.059325 GCATCTACATCGACTTTCCATGC 60.059 47.826 0.00 0.00 0.00 4.06
4821 6402 1.327764 CGGCTCGGATTCTTACAAAGC 59.672 52.381 0.00 0.00 0.00 3.51
4844 6425 4.250464 GAGTATGTTTGACACCCGAATCA 58.750 43.478 0.00 0.00 0.00 2.57
4849 6430 2.742053 CCTTGAGTATGTTTGACACCCG 59.258 50.000 0.00 0.00 0.00 5.28
5055 6636 3.602483 TCTTACGTAAACTGATTGGCCC 58.398 45.455 9.68 0.00 0.00 5.80
5151 6732 6.262944 CAGGCTTGCAACATACCTTGATAATA 59.737 38.462 0.00 0.00 0.00 0.98
5400 6987 6.970484 TCCTTGAAGAGATACAAAAACTTGC 58.030 36.000 0.00 0.00 0.00 4.01
5430 7017 6.515832 ACAACTTTTATCCTTCAAGCTTTGG 58.484 36.000 0.00 0.00 0.00 3.28
5460 7047 6.099159 TCATTTGCAACAAGAATGATTCCA 57.901 33.333 0.00 0.00 35.51 3.53
5517 7104 4.156556 GCTGTTTTTATGTCATGCTCCAGA 59.843 41.667 0.00 0.00 0.00 3.86
5523 7110 3.216147 ACCGCTGTTTTTATGTCATGC 57.784 42.857 0.00 0.00 0.00 4.06
5651 7247 8.665643 TTCTCTGTACTGACTTATAGAGCTAC 57.334 38.462 0.00 0.00 37.29 3.58
5665 7261 6.504398 TGTGACAAGTTACTTCTCTGTACTG 58.496 40.000 0.00 0.00 0.00 2.74
5667 7263 6.755141 TGTTGTGACAAGTTACTTCTCTGTAC 59.245 38.462 0.00 0.00 31.49 2.90
5758 7354 3.797256 CGTTCGGATCCTAATCAGTTGAC 59.203 47.826 10.75 0.00 33.21 3.18
5788 7384 0.680921 TGTCTTATTGGCAGCAGGGC 60.681 55.000 0.00 0.00 43.73 5.19
5882 7479 5.357742 AAACACCAGCTTGGAAGAAAAAT 57.642 34.783 8.91 0.00 40.96 1.82
5888 7485 4.946157 AGATGATAAACACCAGCTTGGAAG 59.054 41.667 8.91 4.24 40.96 3.46
5895 7492 3.624861 CACTGGAGATGATAAACACCAGC 59.375 47.826 0.00 0.00 41.23 4.85
5901 7498 4.414337 AGAGGCACTGGAGATGATAAAC 57.586 45.455 0.00 0.00 41.55 2.01
6036 7633 0.889994 TGCTGTTGGAATGATGGCAC 59.110 50.000 0.00 0.00 0.00 5.01
6053 7650 0.448990 TCATCTCAAATGCACGCTGC 59.551 50.000 0.00 3.44 45.29 5.25
6164 7761 4.376340 AAAATGATGAGGCGAATCCAAC 57.624 40.909 0.00 0.00 37.29 3.77
6204 7852 2.180769 CCATCACGGACGCTTCGA 59.819 61.111 0.00 0.00 36.56 3.71
6205 7853 2.126071 ACCATCACGGACGCTTCG 60.126 61.111 0.00 0.00 38.63 3.79
6206 7854 1.078759 CTCACCATCACGGACGCTTC 61.079 60.000 0.00 0.00 38.63 3.86
6217 7866 1.276622 ACCACTACCACCTCACCATC 58.723 55.000 0.00 0.00 0.00 3.51
6225 7874 1.068127 CGGCTGTATACCACTACCACC 59.932 57.143 0.00 0.00 0.00 4.61
6250 7899 4.813750 AGCCCTTGGAATTCTTCAAATG 57.186 40.909 5.23 0.00 0.00 2.32
6407 8057 4.136796 TGCACTACAGAATTTTGCTCAGT 58.863 39.130 0.00 0.00 34.18 3.41
6416 8066 4.333649 CCGTTGATCATGCACTACAGAATT 59.666 41.667 0.00 0.00 0.00 2.17
6417 8067 3.873361 CCGTTGATCATGCACTACAGAAT 59.127 43.478 0.00 0.00 0.00 2.40
6419 8069 2.418609 CCCGTTGATCATGCACTACAGA 60.419 50.000 0.00 0.00 0.00 3.41
6420 8070 1.935873 CCCGTTGATCATGCACTACAG 59.064 52.381 0.00 0.00 0.00 2.74
6423 8073 0.541392 AGCCCGTTGATCATGCACTA 59.459 50.000 0.00 0.00 0.00 2.74
6424 8074 0.541392 TAGCCCGTTGATCATGCACT 59.459 50.000 0.00 0.00 0.00 4.40
6425 8075 1.597742 ATAGCCCGTTGATCATGCAC 58.402 50.000 0.00 0.00 0.00 4.57
6426 8076 2.221169 GAATAGCCCGTTGATCATGCA 58.779 47.619 0.00 0.00 0.00 3.96
6427 8077 1.195448 CGAATAGCCCGTTGATCATGC 59.805 52.381 0.00 0.00 0.00 4.06
6428 8078 1.195448 GCGAATAGCCCGTTGATCATG 59.805 52.381 0.00 0.00 40.81 3.07
6443 8107 7.639113 TTAAATAGAATGAAACAGGGCGAAT 57.361 32.000 0.00 0.00 0.00 3.34
6506 8170 5.295431 TGCAAGGAGATTGAAATACAACG 57.705 39.130 0.00 0.00 41.83 4.10
6507 8171 6.624423 ACATGCAAGGAGATTGAAATACAAC 58.376 36.000 0.00 0.00 41.83 3.32
6514 8179 6.839124 ACAAATACATGCAAGGAGATTGAA 57.161 33.333 8.87 0.00 41.83 2.69
6548 8213 8.638565 GCATTGTAATTACAGCTTACAACAAAG 58.361 33.333 17.36 0.71 46.26 2.77
6596 8261 5.231991 CGCAACTTAAAATCAACAGTGCTTT 59.768 36.000 0.00 0.00 0.00 3.51
6599 8264 4.286910 TCGCAACTTAAAATCAACAGTGC 58.713 39.130 0.00 0.00 0.00 4.40
6600 8265 6.991485 ATTCGCAACTTAAAATCAACAGTG 57.009 33.333 0.00 0.00 0.00 3.66
6601 8266 7.644490 TGTATTCGCAACTTAAAATCAACAGT 58.356 30.769 0.00 0.00 0.00 3.55
6602 8267 8.500837 TTGTATTCGCAACTTAAAATCAACAG 57.499 30.769 0.00 0.00 0.00 3.16
6609 8274 7.247728 CCTAGCATTGTATTCGCAACTTAAAA 58.752 34.615 0.00 0.00 0.00 1.52
6615 8280 2.943033 ACCCTAGCATTGTATTCGCAAC 59.057 45.455 0.00 0.00 0.00 4.17
6619 8284 3.531538 ACACACCCTAGCATTGTATTCG 58.468 45.455 0.00 0.00 0.00 3.34
6627 8292 3.721087 AGCTAAAACACACCCTAGCAT 57.279 42.857 3.07 0.00 39.39 3.79
6658 8323 4.718961 AGTTCTAAGCACTGGAACACAAT 58.281 39.130 14.60 0.00 40.97 2.71
6659 8324 4.150897 AGTTCTAAGCACTGGAACACAA 57.849 40.909 14.60 0.00 40.97 3.33
6666 8331 2.481952 GCACTGAAGTTCTAAGCACTGG 59.518 50.000 4.17 0.00 0.00 4.00
6798 8514 4.695217 TTGTTTATCATGAGAAACCGGC 57.305 40.909 32.22 15.82 40.63 6.13
6817 8533 3.804325 ACGATGCATATCTCCGAGTTTTG 59.196 43.478 11.22 0.00 0.00 2.44
6818 8534 4.060038 ACGATGCATATCTCCGAGTTTT 57.940 40.909 11.22 0.00 0.00 2.43
6824 8540 4.412207 TCGAATTACGATGCATATCTCCG 58.588 43.478 0.00 0.30 46.45 4.63
6858 8575 9.216117 GTAGGCAGTAAAATATTATGAATCGGT 57.784 33.333 0.00 0.00 0.00 4.69
6859 8576 9.436957 AGTAGGCAGTAAAATATTATGAATCGG 57.563 33.333 0.00 0.00 0.00 4.18
6884 8601 8.407457 TCTATTTACTTGAACAGCGTCAATAG 57.593 34.615 1.73 0.00 36.92 1.73
6885 8602 8.766000 TTCTATTTACTTGAACAGCGTCAATA 57.234 30.769 1.73 0.00 36.92 1.90
6886 8603 7.667043 TTCTATTTACTTGAACAGCGTCAAT 57.333 32.000 1.73 0.00 36.92 2.57
6916 8638 6.470278 CATATGCATTCCTCTGTCCAGATAA 58.530 40.000 3.54 0.00 36.76 1.75
6920 8642 3.181447 ACCATATGCATTCCTCTGTCCAG 60.181 47.826 3.54 0.00 0.00 3.86
6927 8649 8.396272 AGTTAATACAACCATATGCATTCCTC 57.604 34.615 3.54 0.00 0.00 3.71
6934 8656 5.983118 GGCCAAAGTTAATACAACCATATGC 59.017 40.000 0.00 0.00 0.00 3.14
6942 8664 7.500992 TCAAAACATGGCCAAAGTTAATACAA 58.499 30.769 22.60 7.29 0.00 2.41
6958 8686 1.068610 ACGCCCGTTGATCAAAACATG 60.069 47.619 10.35 3.34 0.00 3.21
6959 8687 1.068610 CACGCCCGTTGATCAAAACAT 60.069 47.619 10.35 0.00 0.00 2.71
6960 8688 0.309302 CACGCCCGTTGATCAAAACA 59.691 50.000 10.35 0.00 0.00 2.83
6961 8689 0.386731 CCACGCCCGTTGATCAAAAC 60.387 55.000 10.35 0.00 0.00 2.43
6962 8690 1.953017 CCACGCCCGTTGATCAAAA 59.047 52.632 10.35 0.00 0.00 2.44
6963 8691 2.622011 GCCACGCCCGTTGATCAAA 61.622 57.895 10.35 0.00 0.00 2.69
6964 8692 2.173758 TAGCCACGCCCGTTGATCAA 62.174 55.000 3.38 3.38 0.00 2.57
6965 8693 2.572095 CTAGCCACGCCCGTTGATCA 62.572 60.000 0.00 0.00 0.00 2.92
6966 8694 1.883084 CTAGCCACGCCCGTTGATC 60.883 63.158 0.00 0.00 0.00 2.92
6967 8695 2.186903 CTAGCCACGCCCGTTGAT 59.813 61.111 0.00 0.00 0.00 2.57
6968 8696 2.992689 TCTAGCCACGCCCGTTGA 60.993 61.111 0.00 0.00 0.00 3.18
6969 8697 2.813908 GTCTAGCCACGCCCGTTG 60.814 66.667 0.00 0.00 0.00 4.10
6970 8698 4.078516 GGTCTAGCCACGCCCGTT 62.079 66.667 0.00 0.00 37.17 4.44
6981 8709 6.531503 TTCAGTCAGGTTAGAATGGTCTAG 57.468 41.667 0.00 0.00 37.65 2.43
6986 8714 7.361286 GCTTTAGTTTCAGTCAGGTTAGAATGG 60.361 40.741 0.00 0.00 34.59 3.16
6987 8715 7.361286 GGCTTTAGTTTCAGTCAGGTTAGAATG 60.361 40.741 0.00 0.00 35.10 2.67
6988 8716 6.655425 GGCTTTAGTTTCAGTCAGGTTAGAAT 59.345 38.462 0.00 0.00 0.00 2.40
6991 8719 5.305585 TGGCTTTAGTTTCAGTCAGGTTAG 58.694 41.667 0.00 0.00 0.00 2.34
6994 8722 3.744660 CTGGCTTTAGTTTCAGTCAGGT 58.255 45.455 0.00 0.00 38.82 4.00
7011 8739 1.464997 GCGCTAATATTGTAGGCTGGC 59.535 52.381 0.00 0.00 0.00 4.85
7012 8740 2.738846 CTGCGCTAATATTGTAGGCTGG 59.261 50.000 9.73 0.00 0.00 4.85
7014 8742 2.037772 AGCTGCGCTAATATTGTAGGCT 59.962 45.455 9.73 0.00 36.99 4.58
7016 8744 3.393800 ACAGCTGCGCTAATATTGTAGG 58.606 45.455 15.27 0.00 36.40 3.18
7018 8746 3.987868 GCTACAGCTGCGCTAATATTGTA 59.012 43.478 15.27 8.07 36.40 2.41
7028 8756 4.171416 GGCTTGCTACAGCTGCGC 62.171 66.667 15.27 17.33 42.66 6.09
7030 8758 0.957395 TTGAGGCTTGCTACAGCTGC 60.957 55.000 15.27 0.00 42.66 5.25
7032 8760 0.397941 TGTTGAGGCTTGCTACAGCT 59.602 50.000 2.44 0.00 42.66 4.24
7039 8767 0.379669 CGGATCATGTTGAGGCTTGC 59.620 55.000 0.00 0.00 0.00 4.01
7044 8772 2.099263 ACTACGACGGATCATGTTGAGG 59.901 50.000 10.61 6.04 0.00 3.86
7047 8775 3.422417 AGACTACGACGGATCATGTTG 57.578 47.619 0.00 0.00 0.00 3.33
7051 8779 3.139850 CACCTAGACTACGACGGATCAT 58.860 50.000 0.00 0.00 0.00 2.45


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

AutoCloner maintained by Alex Coulton.