Multiple sequence alignment - TraesCS5B01G295400

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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 TraesCS5B01G295400 chr5B 100.000 5500 0 0 1 5500 479318688 479324187 0.000000e+00 10157.0
1 TraesCS5B01G295400 chr5B 90.450 555 50 3 1 554 531916012 531916564 0.000000e+00 728.0
2 TraesCS5B01G295400 chr5B 90.208 337 22 9 5132 5459 711878762 711878428 3.940000e-116 429.0
3 TraesCS5B01G295400 chr5A 88.897 2774 191 47 656 3363 504765112 504767834 0.000000e+00 3308.0
4 TraesCS5B01G295400 chr5A 91.751 594 36 4 3360 3940 504767956 504768549 0.000000e+00 813.0
5 TraesCS5B01G295400 chr5A 85.309 810 60 25 4165 4937 504768543 504769330 0.000000e+00 782.0
6 TraesCS5B01G295400 chr5A 79.822 337 32 15 5024 5353 504769436 504769743 4.320000e-51 213.0
7 TraesCS5B01G295400 chr5A 89.474 76 6 1 5392 5465 504769742 504769817 1.630000e-15 95.3
8 TraesCS5B01G295400 chr5A 96.429 56 1 1 582 637 504764619 504764673 2.110000e-14 91.6
9 TraesCS5B01G295400 chr5A 93.182 44 3 0 5457 5500 504772532 504772575 1.280000e-06 65.8
10 TraesCS5B01G295400 chr5D 91.183 2189 100 35 3181 5334 399147802 399149932 0.000000e+00 2887.0
11 TraesCS5B01G295400 chr5D 92.430 1572 77 23 601 2141 399145073 399146633 0.000000e+00 2206.0
12 TraesCS5B01G295400 chr5D 94.995 1019 35 8 2140 3149 399146792 399147803 0.000000e+00 1585.0
13 TraesCS5B01G295400 chr5D 92.199 141 8 2 5359 5497 399149923 399150062 4.350000e-46 196.0
14 TraesCS5B01G295400 chr4B 93.490 553 31 3 4 554 517624958 517624409 0.000000e+00 817.0
15 TraesCS5B01G295400 chr3B 91.219 558 46 3 1 555 42337538 42338095 0.000000e+00 756.0
16 TraesCS5B01G295400 chr1B 93.241 503 33 1 54 555 87964250 87964752 0.000000e+00 739.0
17 TraesCS5B01G295400 chr1B 90.253 554 52 2 1 552 565806475 565807028 0.000000e+00 723.0
18 TraesCS5B01G295400 chr7B 90.200 551 51 3 6 553 151420405 151420955 0.000000e+00 715.0
19 TraesCS5B01G295400 chr7B 89.550 555 50 7 4 555 526240711 526240162 0.000000e+00 697.0
20 TraesCS5B01G295400 chr7D 89.803 559 52 5 1 555 312180033 312180590 0.000000e+00 712.0
21 TraesCS5B01G295400 chr3D 88.428 579 59 8 1 573 302008558 302009134 0.000000e+00 691.0


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 TraesCS5B01G295400 chr5B 479318688 479324187 5499 False 10157.000000 10157 100.000000 1 5500 1 chr5B.!!$F1 5499
1 TraesCS5B01G295400 chr5B 531916012 531916564 552 False 728.000000 728 90.450000 1 554 1 chr5B.!!$F2 553
2 TraesCS5B01G295400 chr5A 504764619 504772575 7956 False 766.957143 3308 89.266286 582 5500 7 chr5A.!!$F1 4918
3 TraesCS5B01G295400 chr5D 399145073 399150062 4989 False 1718.500000 2887 92.701750 601 5497 4 chr5D.!!$F1 4896
4 TraesCS5B01G295400 chr4B 517624409 517624958 549 True 817.000000 817 93.490000 4 554 1 chr4B.!!$R1 550
5 TraesCS5B01G295400 chr3B 42337538 42338095 557 False 756.000000 756 91.219000 1 555 1 chr3B.!!$F1 554
6 TraesCS5B01G295400 chr1B 87964250 87964752 502 False 739.000000 739 93.241000 54 555 1 chr1B.!!$F1 501
7 TraesCS5B01G295400 chr1B 565806475 565807028 553 False 723.000000 723 90.253000 1 552 1 chr1B.!!$F2 551
8 TraesCS5B01G295400 chr7B 151420405 151420955 550 False 715.000000 715 90.200000 6 553 1 chr7B.!!$F1 547
9 TraesCS5B01G295400 chr7B 526240162 526240711 549 True 697.000000 697 89.550000 4 555 1 chr7B.!!$R1 551
10 TraesCS5B01G295400 chr7D 312180033 312180590 557 False 712.000000 712 89.803000 1 555 1 chr7D.!!$F1 554
11 TraesCS5B01G295400 chr3D 302008558 302009134 576 False 691.000000 691 88.428000 1 573 1 chr3D.!!$F1 572

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
210 212 1.067565 GTTTTTCCTGCTAAGCCTGCC 60.068 52.381 0.00 0.00 0.00 4.85 F
1330 1767 0.413434 CCCCAAACCCCCTCAGATTT 59.587 55.000 0.00 0.00 0.00 2.17 F
1750 2208 0.167470 CAGCGGATGTGCAGAAGTTG 59.833 55.000 0.00 0.00 37.31 3.16 F
1915 2373 1.135199 GGATTGGTCAGCTGCATTGTG 60.135 52.381 9.47 0.00 0.00 3.33 F
2800 3457 1.164411 TGCGAGTATGCAACAAAGGG 58.836 50.000 0.00 0.00 43.02 3.95 F
3134 3820 1.337110 GCGAAATGCGTGGTTTCTGC 61.337 55.000 0.00 8.13 43.41 4.26 F
4239 5067 1.445716 CTTCCCTCGACGGACGCTAT 61.446 60.000 2.29 0.00 42.26 2.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1732 2190 0.250467 ACAACTTCTGCACATCCGCT 60.250 50.000 0.00 0.0 0.00 5.52 R
3123 3809 0.375454 TGAACAACGCAGAAACCACG 59.625 50.000 0.00 0.0 0.00 4.94 R
3636 4457 1.613437 GTATGTGCTGCAAAAGTGGGT 59.387 47.619 2.77 0.0 0.00 4.51 R
3733 4556 2.717639 GCCCTGAGCTTCCAGAATTA 57.282 50.000 4.03 0.0 38.99 1.40 R
4116 4944 0.172352 GGCATTCGGAAATTTCGCCA 59.828 50.000 21.95 6.7 33.65 5.69 R
4485 5331 0.178767 TGGGTTCATCCGAGCATCTG 59.821 55.000 0.00 0.0 37.00 2.90 R
5365 6312 0.107165 CTTGGCTTGGCTACCTACCC 60.107 60.000 0.00 0.0 0.00 3.69 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
38 39 6.634805 TCTTCTGGTGTTGTATCAGATCTTC 58.365 40.000 0.00 0.00 45.65 2.87
44 45 5.289675 GGTGTTGTATCAGATCTTCGTTGAG 59.710 44.000 0.00 0.00 0.00 3.02
118 119 2.003548 GTTGGGGCCCAGAGGAGAT 61.004 63.158 27.05 0.00 33.81 2.75
138 140 1.144936 TTTTTGGGTGGGCTTTGCG 59.855 52.632 0.00 0.00 0.00 4.85
160 162 1.609061 CGATGTGCTGGACTCTTTGGT 60.609 52.381 0.00 0.00 0.00 3.67
174 176 4.094442 ACTCTTTGGTCGACAAGAAACAAC 59.906 41.667 18.91 0.00 40.82 3.32
175 177 4.004314 TCTTTGGTCGACAAGAAACAACA 58.996 39.130 18.91 0.00 40.82 3.33
210 212 1.067565 GTTTTTCCTGCTAAGCCTGCC 60.068 52.381 0.00 0.00 0.00 4.85
332 334 3.387699 GCTTCTGCTATCTCCCTTTCTCT 59.612 47.826 0.00 0.00 36.03 3.10
492 500 1.088306 GTGGTGTTCGTTGTGGTTGA 58.912 50.000 0.00 0.00 0.00 3.18
580 589 9.672673 AAATTGCTGACACTATGAACTATTACT 57.327 29.630 0.00 0.00 0.00 2.24
581 590 8.654230 ATTGCTGACACTATGAACTATTACTG 57.346 34.615 0.00 0.00 0.00 2.74
582 591 7.170393 TGCTGACACTATGAACTATTACTGT 57.830 36.000 0.00 0.00 0.00 3.55
583 592 8.288689 TGCTGACACTATGAACTATTACTGTA 57.711 34.615 0.00 0.00 0.00 2.74
584 593 8.745590 TGCTGACACTATGAACTATTACTGTAA 58.254 33.333 2.26 2.26 0.00 2.41
585 594 9.021863 GCTGACACTATGAACTATTACTGTAAC 57.978 37.037 1.73 0.00 0.00 2.50
740 1169 1.086634 GTCACCGAGCCAATGAGAGC 61.087 60.000 0.00 0.00 0.00 4.09
760 1189 3.047877 CCCGAACACCGAACCAGC 61.048 66.667 0.00 0.00 41.76 4.85
964 1400 4.949856 TCCAAACAGCAGAAAAGAAGAACT 59.050 37.500 0.00 0.00 0.00 3.01
967 1403 6.260936 CCAAACAGCAGAAAAGAAGAACTCTA 59.739 38.462 0.00 0.00 32.46 2.43
976 1412 7.600752 CAGAAAAGAAGAACTCTATTCCGAACT 59.399 37.037 0.00 0.00 32.46 3.01
1061 1497 2.835431 CCGCATCCTCCTCCTCGT 60.835 66.667 0.00 0.00 0.00 4.18
1066 1502 1.757699 GCATCCTCCTCCTCGTAGTTT 59.242 52.381 0.00 0.00 0.00 2.66
1082 1518 1.906824 TTTCTCTCCTGTCGGCGGT 60.907 57.895 7.21 0.00 0.00 5.68
1329 1766 2.096168 CCCCAAACCCCCTCAGATT 58.904 57.895 0.00 0.00 0.00 2.40
1330 1767 0.413434 CCCCAAACCCCCTCAGATTT 59.587 55.000 0.00 0.00 0.00 2.17
1332 1769 2.043801 CCCCAAACCCCCTCAGATTTTA 59.956 50.000 0.00 0.00 0.00 1.52
1333 1770 3.096852 CCCAAACCCCCTCAGATTTTAC 58.903 50.000 0.00 0.00 0.00 2.01
1334 1771 3.245622 CCCAAACCCCCTCAGATTTTACT 60.246 47.826 0.00 0.00 0.00 2.24
1337 1774 5.828328 CCAAACCCCCTCAGATTTTACTATC 59.172 44.000 0.00 0.00 0.00 2.08
1338 1775 6.423182 CAAACCCCCTCAGATTTTACTATCA 58.577 40.000 0.00 0.00 0.00 2.15
1339 1776 5.896073 ACCCCCTCAGATTTTACTATCAG 57.104 43.478 0.00 0.00 0.00 2.90
1340 1777 5.289510 ACCCCCTCAGATTTTACTATCAGT 58.710 41.667 0.00 0.00 0.00 3.41
1350 1802 9.530129 CAGATTTTACTATCAGTTTGTTTCGAC 57.470 33.333 0.00 0.00 0.00 4.20
1381 1833 9.527157 TTTGGAAAATGTTGGATTATGAGTAGA 57.473 29.630 0.00 0.00 0.00 2.59
1389 1841 7.918076 TGTTGGATTATGAGTAGAGGAACTTT 58.082 34.615 0.00 0.00 41.55 2.66
1394 1846 9.620259 GGATTATGAGTAGAGGAACTTTTCAAT 57.380 33.333 0.00 0.00 41.55 2.57
1404 1856 8.112016 AGAGGAACTTTTCAATTTTAGTAGGC 57.888 34.615 0.00 0.00 41.55 3.93
1460 1913 4.243270 CGAATTCTCCCGAAGTGTTACTT 58.757 43.478 3.52 0.00 41.95 2.24
1498 1956 7.906527 GGCTTTCGACGTTGTAAATAAATACAT 59.093 33.333 1.96 0.00 35.80 2.29
1661 2119 2.227388 ACACTGCTGCATTTTACTGAGC 59.773 45.455 1.31 0.00 0.00 4.26
1670 2128 4.813161 TGCATTTTACTGAGCTCTATCTGC 59.187 41.667 16.19 14.04 0.00 4.26
1694 2152 1.187087 GGTGGTTGGTTTTGGTGACA 58.813 50.000 0.00 0.00 39.83 3.58
1732 2190 1.271597 GGAAGGCTGAAAGAAGAGGCA 60.272 52.381 0.00 0.00 37.23 4.75
1750 2208 0.167470 CAGCGGATGTGCAGAAGTTG 59.833 55.000 0.00 0.00 37.31 3.16
1826 2284 5.467035 TTCAGGATTCATGTTTTGGGTTC 57.533 39.130 0.00 0.00 0.00 3.62
1886 2344 7.278461 TCTATTCACATCAGAACCTAGTAGC 57.722 40.000 0.00 0.00 0.00 3.58
1915 2373 1.135199 GGATTGGTCAGCTGCATTGTG 60.135 52.381 9.47 0.00 0.00 3.33
2069 2534 9.515226 TGCCTTAATATCTTTATAATGACCACC 57.485 33.333 3.35 0.00 0.00 4.61
2070 2535 8.957466 GCCTTAATATCTTTATAATGACCACCC 58.043 37.037 3.35 0.00 0.00 4.61
2085 2550 4.284550 CCCACCACCCACCACTGG 62.285 72.222 0.00 0.00 37.29 4.00
2225 2854 3.069289 TGCTAATTAGATGAGGCATGCG 58.931 45.455 16.85 0.00 0.00 4.73
2240 2869 2.227865 GCATGCGTTCTTTTGGGAACTA 59.772 45.455 0.00 0.00 42.20 2.24
2241 2870 3.670627 GCATGCGTTCTTTTGGGAACTAG 60.671 47.826 0.00 0.00 42.20 2.57
2248 2877 6.459985 GCGTTCTTTTGGGAACTAGGTTTTAA 60.460 38.462 0.00 0.00 42.20 1.52
2473 3111 7.620806 GCATTGCAAGAGCTTTTAATTCTTGTC 60.621 37.037 16.80 7.67 45.93 3.18
2661 3318 8.766994 ATAATCTACAGTTTTGCCATAACCAT 57.233 30.769 0.00 0.00 0.00 3.55
2704 3361 5.145513 ACTAGGATTTACTAGGGTGCTCT 57.854 43.478 2.01 0.00 43.72 4.09
2705 3362 4.896482 ACTAGGATTTACTAGGGTGCTCTG 59.104 45.833 2.01 0.00 43.72 3.35
2706 3363 3.725634 AGGATTTACTAGGGTGCTCTGT 58.274 45.455 0.00 0.00 0.00 3.41
2800 3457 1.164411 TGCGAGTATGCAACAAAGGG 58.836 50.000 0.00 0.00 43.02 3.95
2857 3534 4.633126 TCTGAAACTGTATCTTGCTCATGC 59.367 41.667 0.00 0.00 40.20 4.06
3035 3712 2.919229 CGCACAAAGGAGCATTTTGATC 59.081 45.455 12.59 0.00 38.55 2.92
3052 3729 9.678941 CATTTTGATCTCAATGATGTATCTTGG 57.321 33.333 10.38 0.00 35.14 3.61
3082 3759 7.657354 TGCAGAGTATAACGCTTCATTAATCAT 59.343 33.333 0.00 0.00 0.00 2.45
3123 3809 8.620533 ATTTTATTTTCTAGTGAGCGAAATGC 57.379 30.769 0.00 0.00 46.98 3.56
3134 3820 1.337110 GCGAAATGCGTGGTTTCTGC 61.337 55.000 0.00 8.13 43.41 4.26
3148 3834 5.517054 GTGGTTTCTGCGTTGTTCAAATAAA 59.483 36.000 0.00 0.00 0.00 1.40
3149 3835 6.035112 GTGGTTTCTGCGTTGTTCAAATAAAA 59.965 34.615 0.00 0.00 0.00 1.52
3150 3836 6.035112 TGGTTTCTGCGTTGTTCAAATAAAAC 59.965 34.615 0.00 0.00 0.00 2.43
3221 3908 9.455847 GCTTGAAAATGATGTTTATATGTCTCC 57.544 33.333 0.00 0.00 0.00 3.71
3235 3922 3.805066 TGTCTCCCATTTCACCATTGA 57.195 42.857 0.00 0.00 0.00 2.57
3265 3952 6.320672 CCCTCGTGGTAGTTTCTTCTATTCTA 59.679 42.308 2.33 0.00 0.00 2.10
3619 4440 3.311596 GGAATACAAGCACATAACCGGTC 59.688 47.826 8.04 0.00 0.00 4.79
3636 4457 2.695359 GGTCCAGCTGTGACGAAATTA 58.305 47.619 21.52 0.00 33.46 1.40
3733 4556 2.634940 TGACCTAGCAGACTTTCAGCTT 59.365 45.455 0.00 0.00 39.93 3.74
3786 4609 5.622770 AGTGAACGTGTTTTTCTGAAGTT 57.377 34.783 0.00 0.00 0.00 2.66
3823 4646 6.039270 TGTTATCAACTTTTGACCTTGACCTG 59.961 38.462 0.00 0.00 43.48 4.00
3939 4765 2.614057 GTTCCTTGTGTGGACTTGTCTG 59.386 50.000 0.61 0.00 35.58 3.51
4012 4838 8.574196 AGTTTAATACGCATGGATTTTATTGC 57.426 30.769 0.00 0.00 0.00 3.56
4023 4849 7.148639 GCATGGATTTTATTGCTCAATGCTATG 60.149 37.037 5.43 0.00 41.25 2.23
4045 4871 2.157421 GCTCTCAGCAACCACTTCG 58.843 57.895 0.00 0.00 41.89 3.79
4102 4930 4.202274 TGTCAAGGAATGGAAGTAACGACA 60.202 41.667 0.00 0.00 0.00 4.35
4103 4931 4.389077 GTCAAGGAATGGAAGTAACGACAG 59.611 45.833 0.00 0.00 0.00 3.51
4104 4932 3.611766 AGGAATGGAAGTAACGACAGG 57.388 47.619 0.00 0.00 0.00 4.00
4105 4933 3.170717 AGGAATGGAAGTAACGACAGGA 58.829 45.455 0.00 0.00 0.00 3.86
4106 4934 3.195825 AGGAATGGAAGTAACGACAGGAG 59.804 47.826 0.00 0.00 0.00 3.69
4107 4935 3.056035 GGAATGGAAGTAACGACAGGAGT 60.056 47.826 0.00 0.00 0.00 3.85
4108 4936 4.159135 GGAATGGAAGTAACGACAGGAGTA 59.841 45.833 0.00 0.00 0.00 2.59
4109 4937 4.985538 ATGGAAGTAACGACAGGAGTAG 57.014 45.455 0.00 0.00 0.00 2.57
4110 4938 4.025040 TGGAAGTAACGACAGGAGTAGA 57.975 45.455 0.00 0.00 0.00 2.59
4111 4939 4.401022 TGGAAGTAACGACAGGAGTAGAA 58.599 43.478 0.00 0.00 0.00 2.10
4113 4941 6.182627 TGGAAGTAACGACAGGAGTAGAATA 58.817 40.000 0.00 0.00 0.00 1.75
4114 4942 6.094603 TGGAAGTAACGACAGGAGTAGAATAC 59.905 42.308 0.00 0.00 43.47 1.89
4160 4988 2.232452 AGTAAGACCTGCACTGCTACAG 59.768 50.000 1.98 0.00 37.52 2.74
4164 4992 3.329300 CCTGCACTGCTACAGGTTT 57.671 52.632 1.98 0.00 46.95 3.27
4165 4993 1.609208 CCTGCACTGCTACAGGTTTT 58.391 50.000 1.98 0.00 46.95 2.43
4175 5003 5.221641 ACTGCTACAGGTTTTGACTGACATA 60.222 40.000 0.00 0.00 39.24 2.29
4183 5011 5.241728 AGGTTTTGACTGACATAGGCTTTTC 59.758 40.000 0.00 0.00 34.56 2.29
4239 5067 1.445716 CTTCCCTCGACGGACGCTAT 61.446 60.000 2.29 0.00 42.26 2.97
4485 5331 0.249155 TACAGCTACGGCGGCATTAC 60.249 55.000 13.24 0.00 44.37 1.89
4490 5336 1.139989 CTACGGCGGCATTACAGATG 58.860 55.000 13.24 0.00 0.00 2.90
4502 5348 2.890808 TACAGATGCTCGGATGAACC 57.109 50.000 0.00 0.00 0.00 3.62
4514 5360 2.171003 GGATGAACCCAAGGGAAACAG 58.829 52.381 13.15 0.00 38.96 3.16
4541 5387 1.588404 CGTTTCCGATCCAGTGAATCG 59.412 52.381 4.54 4.54 37.54 3.34
4593 5440 8.523658 AGTAGATTATTTTTCAAAAGGGTCTGC 58.476 33.333 6.28 5.44 0.00 4.26
4729 5582 6.483307 GCATTTGCAGGACTAGTTATGACATA 59.517 38.462 11.34 0.00 41.59 2.29
4733 5586 4.344102 GCAGGACTAGTTATGACATACCCA 59.656 45.833 11.34 0.00 0.00 4.51
4754 5607 4.379813 CCATGTGTTTCTTGGGAGATTTCG 60.380 45.833 0.00 0.00 37.61 3.46
4796 5657 7.175119 CACGATGATCCTCCTGTTATAGAAGTA 59.825 40.741 0.00 0.00 0.00 2.24
4797 5658 7.175293 ACGATGATCCTCCTGTTATAGAAGTAC 59.825 40.741 0.00 0.00 0.00 2.73
4798 5659 7.175119 CGATGATCCTCCTGTTATAGAAGTACA 59.825 40.741 0.00 0.00 0.00 2.90
4824 5689 9.893305 ACAAAAATGTCTTGTATTTAGCTACAC 57.107 29.630 0.00 0.00 35.26 2.90
4877 5748 0.961019 ACACACCATTGTCATGTGCC 59.039 50.000 10.99 0.00 46.19 5.01
4896 5767 1.798813 CCGTTACCTGCACTTTGAGAC 59.201 52.381 0.00 0.00 0.00 3.36
4914 5786 5.891451 TGAGACGATGTGGTATTGAACTAG 58.109 41.667 0.00 0.00 0.00 2.57
5020 5924 1.068588 CGTCTTCCATGAATCCGGCTA 59.931 52.381 0.00 0.00 0.00 3.93
5021 5925 2.760374 GTCTTCCATGAATCCGGCTAG 58.240 52.381 0.00 0.00 0.00 3.42
5022 5926 2.103263 GTCTTCCATGAATCCGGCTAGT 59.897 50.000 0.00 0.00 0.00 2.57
5023 5927 2.365617 TCTTCCATGAATCCGGCTAGTC 59.634 50.000 0.00 0.00 0.00 2.59
5024 5928 0.673985 TCCATGAATCCGGCTAGTCG 59.326 55.000 10.46 10.46 0.00 4.18
5025 5929 0.946221 CCATGAATCCGGCTAGTCGC 60.946 60.000 12.24 0.00 38.13 5.19
5026 5930 0.249447 CATGAATCCGGCTAGTCGCA 60.249 55.000 12.24 4.01 41.67 5.10
5027 5931 0.032678 ATGAATCCGGCTAGTCGCAG 59.967 55.000 12.24 0.00 41.67 5.18
5056 5988 1.481683 GAACAGTCGCGTGTTCGTC 59.518 57.895 21.85 5.74 45.09 4.20
5091 6028 0.261109 TGGCATGGCATGGGAATACA 59.739 50.000 27.48 0.00 0.00 2.29
5118 6055 2.900337 GCGGCTATTCAACGGGGG 60.900 66.667 0.00 0.00 0.00 5.40
5186 6125 4.271816 CCGATCCGTCCCTCGCAG 62.272 72.222 0.00 0.00 38.35 5.18
5187 6126 4.933064 CGATCCGTCCCTCGCAGC 62.933 72.222 0.00 0.00 38.35 5.25
5188 6127 3.838271 GATCCGTCCCTCGCAGCA 61.838 66.667 0.00 0.00 38.35 4.41
5189 6128 3.157217 GATCCGTCCCTCGCAGCAT 62.157 63.158 0.00 0.00 38.35 3.79
5190 6129 2.650813 GATCCGTCCCTCGCAGCATT 62.651 60.000 0.00 0.00 38.35 3.56
5191 6130 2.650813 ATCCGTCCCTCGCAGCATTC 62.651 60.000 0.00 0.00 38.35 2.67
5192 6131 3.257561 CGTCCCTCGCAGCATTCG 61.258 66.667 0.00 0.00 0.00 3.34
5193 6132 2.892425 GTCCCTCGCAGCATTCGG 60.892 66.667 0.00 0.00 0.00 4.30
5194 6133 4.838152 TCCCTCGCAGCATTCGGC 62.838 66.667 0.00 0.00 45.30 5.54
5248 6187 3.101428 CGTGACCACCGTACGCAC 61.101 66.667 10.49 11.09 0.00 5.34
5304 6246 0.740737 TTACCGGAAGCGGTAGTAGC 59.259 55.000 9.46 0.00 44.16 3.58
5309 6251 1.002684 CGGAAGCGGTAGTAGCAGTAG 60.003 57.143 0.00 0.00 37.01 2.57
5310 6252 2.022934 GGAAGCGGTAGTAGCAGTAGT 58.977 52.381 0.00 0.00 37.01 2.73
5311 6253 3.209410 GGAAGCGGTAGTAGCAGTAGTA 58.791 50.000 0.00 0.00 37.01 1.82
5372 6319 4.388499 CTTGGCGCACGGGTAGGT 62.388 66.667 10.83 0.00 0.00 3.08
5373 6320 2.996153 TTGGCGCACGGGTAGGTA 60.996 61.111 10.83 0.00 0.00 3.08
5374 6321 2.901051 CTTGGCGCACGGGTAGGTAG 62.901 65.000 10.83 0.00 0.00 3.18
5375 6322 4.886121 GGCGCACGGGTAGGTAGC 62.886 72.222 10.83 0.00 0.00 3.58
5376 6323 4.886121 GCGCACGGGTAGGTAGCC 62.886 72.222 0.30 0.00 40.38 3.93
5377 6324 3.454573 CGCACGGGTAGGTAGCCA 61.455 66.667 6.08 0.00 43.88 4.75
5378 6325 2.983791 GCACGGGTAGGTAGCCAA 59.016 61.111 6.08 0.00 43.88 4.52
5379 6326 1.153429 GCACGGGTAGGTAGCCAAG 60.153 63.158 6.08 0.00 43.88 3.61
5380 6327 1.153429 CACGGGTAGGTAGCCAAGC 60.153 63.158 6.08 0.00 43.88 4.01
5381 6328 2.364780 ACGGGTAGGTAGCCAAGCC 61.365 63.158 6.08 3.61 43.88 4.35
5382 6329 2.363975 CGGGTAGGTAGCCAAGCCA 61.364 63.158 12.10 0.00 43.88 4.75
5383 6330 1.906105 CGGGTAGGTAGCCAAGCCAA 61.906 60.000 12.10 0.00 43.88 4.52
5384 6331 0.107165 GGGTAGGTAGCCAAGCCAAG 60.107 60.000 7.93 0.00 43.19 3.61
5385 6332 0.748367 GGTAGGTAGCCAAGCCAAGC 60.748 60.000 0.00 0.00 0.00 4.01
5386 6333 0.748367 GTAGGTAGCCAAGCCAAGCC 60.748 60.000 0.00 0.00 0.00 4.35
5387 6334 1.921869 TAGGTAGCCAAGCCAAGCCC 61.922 60.000 0.00 0.00 0.00 5.19
5388 6335 2.755876 GTAGCCAAGCCAAGCCCC 60.756 66.667 0.00 0.00 0.00 5.80
5389 6336 4.060667 TAGCCAAGCCAAGCCCCC 62.061 66.667 0.00 0.00 0.00 5.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 0.108615 CCTCCAGGCTACACTCAACG 60.109 60.000 0.00 0.00 0.00 4.10
59 60 2.558795 CGAAGGTCTGAGAAAGAGGACA 59.441 50.000 0.00 0.00 34.84 4.02
138 140 0.674895 AAAGAGTCCAGCACATCGCC 60.675 55.000 0.00 0.00 44.04 5.54
160 162 8.596271 TCAATAGTAATGTTGTTTCTTGTCGA 57.404 30.769 0.00 0.00 0.00 4.20
174 176 8.863049 GCAGGAAAAACATGTTCAATAGTAATG 58.137 33.333 12.39 4.03 32.48 1.90
175 177 8.806146 AGCAGGAAAAACATGTTCAATAGTAAT 58.194 29.630 12.39 0.00 32.48 1.89
332 334 1.134521 CCTAACTGCCGGCATGAACTA 60.135 52.381 32.87 15.23 0.00 2.24
492 500 3.110705 AGCCACCAGACAGAGTCATAAT 58.889 45.455 0.00 0.00 34.60 1.28
555 564 9.102757 CAGTAATAGTTCATAGTGTCAGCAATT 57.897 33.333 0.00 0.00 0.00 2.32
556 565 8.260818 ACAGTAATAGTTCATAGTGTCAGCAAT 58.739 33.333 0.00 0.00 31.66 3.56
557 566 7.611770 ACAGTAATAGTTCATAGTGTCAGCAA 58.388 34.615 0.00 0.00 31.66 3.91
558 567 7.170393 ACAGTAATAGTTCATAGTGTCAGCA 57.830 36.000 0.00 0.00 31.66 4.41
559 568 9.021863 GTTACAGTAATAGTTCATAGTGTCAGC 57.978 37.037 0.00 0.00 37.05 4.26
578 587 8.919145 CAGGGAAAGAGATTATAGAGTTACAGT 58.081 37.037 0.00 0.00 0.00 3.55
579 588 7.870445 GCAGGGAAAGAGATTATAGAGTTACAG 59.130 40.741 0.00 0.00 0.00 2.74
580 589 7.344612 TGCAGGGAAAGAGATTATAGAGTTACA 59.655 37.037 0.00 0.00 0.00 2.41
581 590 7.727181 TGCAGGGAAAGAGATTATAGAGTTAC 58.273 38.462 0.00 0.00 0.00 2.50
582 591 7.914427 TGCAGGGAAAGAGATTATAGAGTTA 57.086 36.000 0.00 0.00 0.00 2.24
583 592 6.814954 TGCAGGGAAAGAGATTATAGAGTT 57.185 37.500 0.00 0.00 0.00 3.01
584 593 6.814954 TTGCAGGGAAAGAGATTATAGAGT 57.185 37.500 0.00 0.00 0.00 3.24
585 594 8.511604 TTTTTGCAGGGAAAGAGATTATAGAG 57.488 34.615 0.00 0.00 0.00 2.43
586 595 8.328758 TCTTTTTGCAGGGAAAGAGATTATAGA 58.671 33.333 14.31 0.00 37.06 1.98
587 596 8.511604 TCTTTTTGCAGGGAAAGAGATTATAG 57.488 34.615 14.31 0.00 37.06 1.31
698 1127 1.065928 CGCCGGAGAAGATACGCTT 59.934 57.895 5.05 0.00 40.25 4.68
699 1128 2.119655 ACGCCGGAGAAGATACGCT 61.120 57.895 13.83 0.00 0.00 5.07
964 1400 2.024273 AGGAGTGGGAGTTCGGAATAGA 60.024 50.000 0.00 0.00 0.00 1.98
967 1403 0.905357 CAGGAGTGGGAGTTCGGAAT 59.095 55.000 0.00 0.00 0.00 3.01
976 1412 3.005539 GGAGCAGCAGGAGTGGGA 61.006 66.667 0.00 0.00 0.00 4.37
1019 1455 2.026879 GACTGGATCGCTCCGAGC 59.973 66.667 10.59 10.59 45.37 5.03
1049 1485 2.577105 AGAGAAACTACGAGGAGGAGGA 59.423 50.000 0.00 0.00 34.15 3.71
1061 1497 0.809385 CGCCGACAGGAGAGAAACTA 59.191 55.000 0.00 0.00 39.96 2.24
1066 1502 2.282958 AACCGCCGACAGGAGAGA 60.283 61.111 0.00 0.00 39.96 3.10
1329 1766 5.406175 CGGGTCGAAACAAACTGATAGTAAA 59.594 40.000 0.00 0.00 0.00 2.01
1330 1767 4.925054 CGGGTCGAAACAAACTGATAGTAA 59.075 41.667 0.00 0.00 0.00 2.24
1332 1769 3.323243 CGGGTCGAAACAAACTGATAGT 58.677 45.455 0.00 0.00 0.00 2.12
1333 1770 2.093783 GCGGGTCGAAACAAACTGATAG 59.906 50.000 0.00 0.00 0.00 2.08
1334 1771 2.070783 GCGGGTCGAAACAAACTGATA 58.929 47.619 0.00 0.00 0.00 2.15
1337 1774 0.661020 AAGCGGGTCGAAACAAACTG 59.339 50.000 0.00 0.00 0.00 3.16
1338 1775 1.064952 CAAAGCGGGTCGAAACAAACT 59.935 47.619 0.00 0.00 0.00 2.66
1339 1776 1.472990 CAAAGCGGGTCGAAACAAAC 58.527 50.000 0.00 0.00 0.00 2.93
1340 1777 0.382515 CCAAAGCGGGTCGAAACAAA 59.617 50.000 0.00 0.00 0.00 2.83
1350 1802 1.342819 TCCAACATTTTCCAAAGCGGG 59.657 47.619 0.00 0.00 34.36 6.13
1381 1833 6.569801 GCGCCTACTAAAATTGAAAAGTTCCT 60.570 38.462 0.00 0.00 30.03 3.36
1389 1841 3.756434 AGCAAGCGCCTACTAAAATTGAA 59.244 39.130 2.29 0.00 39.83 2.69
1394 1846 1.271163 ACCAGCAAGCGCCTACTAAAA 60.271 47.619 2.29 0.00 39.83 1.52
1396 1848 0.323629 AACCAGCAAGCGCCTACTAA 59.676 50.000 2.29 0.00 39.83 2.24
1401 1853 2.980233 GACAACCAGCAAGCGCCT 60.980 61.111 2.29 0.00 39.83 5.52
1402 1854 4.043200 GGACAACCAGCAAGCGCC 62.043 66.667 2.29 0.00 39.83 6.53
1403 1855 1.234615 TAAGGACAACCAGCAAGCGC 61.235 55.000 0.00 0.00 38.94 5.92
1404 1856 0.798776 CTAAGGACAACCAGCAAGCG 59.201 55.000 0.00 0.00 38.94 4.68
1460 1913 3.246699 CGTCGAAAGCCTGACTAAAAACA 59.753 43.478 0.00 0.00 32.93 2.83
1558 2016 8.164070 AGTTCCTACATCTTAAACCAACTTCAT 58.836 33.333 0.00 0.00 0.00 2.57
1661 2119 4.141620 ACCAACCACCAATAGCAGATAGAG 60.142 45.833 0.00 0.00 0.00 2.43
1670 2128 3.639094 TCACCAAAACCAACCACCAATAG 59.361 43.478 0.00 0.00 0.00 1.73
1694 2152 2.850833 TCCTGGATCTGAATTCCCTGT 58.149 47.619 2.27 0.00 31.87 4.00
1732 2190 0.250467 ACAACTTCTGCACATCCGCT 60.250 50.000 0.00 0.00 0.00 5.52
1750 2208 0.822811 TGAGCAGCTCATCCTCAGAC 59.177 55.000 21.85 0.00 35.39 3.51
1850 2308 6.175471 TGATGTGAATAGAAGCAGACATGTT 58.825 36.000 0.00 0.00 0.00 2.71
1851 2309 5.737860 TGATGTGAATAGAAGCAGACATGT 58.262 37.500 0.00 0.00 0.00 3.21
1886 2344 1.135575 GCTGACCAATCCAGAAAAGCG 60.136 52.381 0.00 0.00 33.65 4.68
1915 2373 5.581085 CCACTTCAACAACTAGGTATAGTGC 59.419 44.000 0.00 0.00 41.54 4.40
2059 2524 0.772517 TGGGTGGTGGGTGGTCATTA 60.773 55.000 0.00 0.00 0.00 1.90
2060 2525 2.088096 TGGGTGGTGGGTGGTCATT 61.088 57.895 0.00 0.00 0.00 2.57
2061 2526 2.451493 TGGGTGGTGGGTGGTCAT 60.451 61.111 0.00 0.00 0.00 3.06
2062 2527 3.494254 GTGGGTGGTGGGTGGTCA 61.494 66.667 0.00 0.00 0.00 4.02
2063 2528 4.280019 GGTGGGTGGTGGGTGGTC 62.280 72.222 0.00 0.00 0.00 4.02
2065 2530 4.596585 GTGGTGGGTGGTGGGTGG 62.597 72.222 0.00 0.00 0.00 4.61
2066 2531 3.498071 AGTGGTGGGTGGTGGGTG 61.498 66.667 0.00 0.00 0.00 4.61
2067 2532 3.498071 CAGTGGTGGGTGGTGGGT 61.498 66.667 0.00 0.00 0.00 4.51
2068 2533 4.284550 CCAGTGGTGGGTGGTGGG 62.285 72.222 0.00 0.00 40.67 4.61
2069 2534 4.974721 GCCAGTGGTGGGTGGTGG 62.975 72.222 11.74 0.00 45.17 4.61
2085 2550 7.061789 CCTTGGAAAGTTTAAACATGAATACGC 59.938 37.037 20.06 0.00 44.25 4.42
2174 2799 8.575649 TTTCTCAGGAAAATTAACATAGGGAC 57.424 34.615 0.00 0.00 38.35 4.46
2210 2835 2.988010 AGAACGCATGCCTCATCTAA 57.012 45.000 13.15 0.00 0.00 2.10
2225 2854 8.229253 TCTTAAAACCTAGTTCCCAAAAGAAC 57.771 34.615 0.00 0.00 45.34 3.01
2240 2869 4.944317 GCTGTCTGCCTAATCTTAAAACCT 59.056 41.667 0.00 0.00 35.15 3.50
2241 2870 4.944317 AGCTGTCTGCCTAATCTTAAAACC 59.056 41.667 0.00 0.00 44.23 3.27
2248 2877 1.577736 ACCAGCTGTCTGCCTAATCT 58.422 50.000 13.81 0.00 44.23 2.40
2473 3111 3.713858 TTTGCATTATCAATGGGCTCG 57.286 42.857 0.00 0.00 39.31 5.03
2527 3165 4.526262 ACAGCAGTGAGATACTCCCATATC 59.474 45.833 0.00 0.00 37.60 1.63
2625 3282 9.421806 CAAAACTGTAGATTATTTCATTGGCAA 57.578 29.630 0.68 0.68 0.00 4.52
2784 3441 7.120726 ACAACTATAACCCTTTGTTGCATACTC 59.879 37.037 0.00 0.00 40.88 2.59
2800 3457 6.613755 AAAGGTCACACACACAACTATAAC 57.386 37.500 0.00 0.00 0.00 1.89
2857 3534 3.213506 TGTCAAGGTCTGGTCACAAATG 58.786 45.455 0.00 0.00 0.00 2.32
3035 3712 5.587443 TGCAGAACCAAGATACATCATTGAG 59.413 40.000 0.00 0.00 0.00 3.02
3052 3729 4.174009 TGAAGCGTTATACTCTGCAGAAC 58.826 43.478 18.85 11.51 0.00 3.01
3123 3809 0.375454 TGAACAACGCAGAAACCACG 59.625 50.000 0.00 0.00 0.00 4.94
3134 3820 8.274939 AGCATTCATTGTTTTATTTGAACAACG 58.725 29.630 4.73 0.00 46.24 4.10
3148 3834 9.410556 GACAAATTTACAGTAGCATTCATTGTT 57.589 29.630 0.00 0.00 0.00 2.83
3149 3835 8.796475 AGACAAATTTACAGTAGCATTCATTGT 58.204 29.630 0.00 0.00 0.00 2.71
3150 3836 9.630098 AAGACAAATTTACAGTAGCATTCATTG 57.370 29.630 0.00 0.00 0.00 2.82
3221 3908 5.412594 CGAGGGTATATCAATGGTGAAATGG 59.587 44.000 0.00 0.00 37.30 3.16
3265 3952 5.981315 CACAGCTGACAATCAGTTTGAAAAT 59.019 36.000 23.35 0.00 45.94 1.82
3619 4440 1.737793 GGGTAATTTCGTCACAGCTGG 59.262 52.381 19.93 7.28 0.00 4.85
3636 4457 1.613437 GTATGTGCTGCAAAAGTGGGT 59.387 47.619 2.77 0.00 0.00 4.51
3733 4556 2.717639 GCCCTGAGCTTCCAGAATTA 57.282 50.000 4.03 0.00 38.99 1.40
3755 4578 7.165812 CAGAAAAACACGTTCACTTAAGAATGG 59.834 37.037 10.09 0.00 38.53 3.16
3807 4630 3.360249 CTTGCAGGTCAAGGTCAAAAG 57.640 47.619 0.00 0.00 46.50 2.27
3823 4646 5.703130 AGACACTCATCTTACCTTTTCTTGC 59.297 40.000 0.00 0.00 0.00 4.01
3939 4765 3.395639 CATATTCATGCACCAAATGGCC 58.604 45.455 0.00 0.00 39.32 5.36
4012 4838 4.389382 GCTGAGAGCATACATAGCATTGAG 59.611 45.833 0.00 0.00 41.89 3.02
4038 4864 5.356882 TTCTAAACATTCTTGCGAAGTGG 57.643 39.130 0.00 0.00 31.60 4.00
4044 4870 5.630680 ACTTGCATTTCTAAACATTCTTGCG 59.369 36.000 0.00 0.00 0.00 4.85
4045 4871 8.693542 ATACTTGCATTTCTAAACATTCTTGC 57.306 30.769 0.00 0.00 0.00 4.01
4091 4919 7.319142 AGTATTCTACTCCTGTCGTTACTTC 57.681 40.000 0.00 0.00 32.47 3.01
4102 4930 5.615925 ATTTCGCCAAGTATTCTACTCCT 57.384 39.130 0.00 0.00 38.26 3.69
4103 4931 6.238402 GGAAATTTCGCCAAGTATTCTACTCC 60.238 42.308 11.95 0.00 38.26 3.85
4104 4932 6.509677 CGGAAATTTCGCCAAGTATTCTACTC 60.510 42.308 11.95 0.00 38.26 2.59
4105 4933 5.293569 CGGAAATTTCGCCAAGTATTCTACT 59.706 40.000 11.95 0.00 41.73 2.57
4106 4934 5.292589 TCGGAAATTTCGCCAAGTATTCTAC 59.707 40.000 11.95 0.00 0.00 2.59
4107 4935 5.421277 TCGGAAATTTCGCCAAGTATTCTA 58.579 37.500 11.95 0.00 0.00 2.10
4108 4936 4.258543 TCGGAAATTTCGCCAAGTATTCT 58.741 39.130 11.95 0.00 0.00 2.40
4109 4937 4.609691 TCGGAAATTTCGCCAAGTATTC 57.390 40.909 11.95 0.00 0.00 1.75
4110 4938 5.339990 CATTCGGAAATTTCGCCAAGTATT 58.660 37.500 11.95 0.00 0.00 1.89
4111 4939 4.733523 GCATTCGGAAATTTCGCCAAGTAT 60.734 41.667 11.95 0.00 0.00 2.12
4113 4941 2.671070 GCATTCGGAAATTTCGCCAAGT 60.671 45.455 11.95 0.00 0.00 3.16
4114 4942 1.919918 GCATTCGGAAATTTCGCCAAG 59.080 47.619 11.95 3.61 0.00 3.61
4115 4943 1.403514 GGCATTCGGAAATTTCGCCAA 60.404 47.619 21.95 11.55 33.65 4.52
4116 4944 0.172352 GGCATTCGGAAATTTCGCCA 59.828 50.000 21.95 6.70 33.65 5.69
4117 4945 0.172352 TGGCATTCGGAAATTTCGCC 59.828 50.000 20.76 20.76 33.91 5.54
4118 4946 2.119457 GATGGCATTCGGAAATTTCGC 58.881 47.619 11.95 8.96 0.00 4.70
4160 4988 5.453567 AAAAGCCTATGTCAGTCAAAACC 57.546 39.130 0.00 0.00 0.00 3.27
4164 4992 3.686016 GGGAAAAGCCTATGTCAGTCAA 58.314 45.455 0.00 0.00 36.66 3.18
4165 4993 2.354704 CGGGAAAAGCCTATGTCAGTCA 60.355 50.000 0.00 0.00 36.66 3.41
4175 5003 0.759060 AAAACCTGCGGGAAAAGCCT 60.759 50.000 21.41 0.00 36.66 4.58
4183 5011 2.028925 GCCAACAAAACCTGCGGG 59.971 61.111 11.02 11.02 38.88 6.13
4239 5067 1.296392 CCGCATGACTCCAAGTCCA 59.704 57.895 0.00 0.00 44.44 4.02
4427 5271 3.643763 CGAGTTAGCCAGGATCACATAC 58.356 50.000 0.00 0.00 0.00 2.39
4485 5331 0.178767 TGGGTTCATCCGAGCATCTG 59.821 55.000 0.00 0.00 37.00 2.90
4490 5336 1.452108 CCCTTGGGTTCATCCGAGC 60.452 63.158 0.00 0.00 37.06 5.03
4502 5348 1.607467 CCTGCCCTGTTTCCCTTGG 60.607 63.158 0.00 0.00 0.00 3.61
4613 5462 1.106944 ACAACCCTCCGGCAAAAGTG 61.107 55.000 0.00 0.00 0.00 3.16
4631 5480 5.634020 GCATCGAATCCTACACCACTATAAC 59.366 44.000 0.00 0.00 0.00 1.89
4733 5586 4.398319 ACGAAATCTCCCAAGAAACACAT 58.602 39.130 0.00 0.00 34.49 3.21
4762 5615 2.223923 GGAGGATCATCGTGTCTTCCAG 60.224 54.545 0.56 0.00 39.62 3.86
4796 5657 9.893305 GTAGCTAAATACAAGACATTTTTGTGT 57.107 29.630 0.00 0.00 39.03 3.72
4797 5658 9.891828 TGTAGCTAAATACAAGACATTTTTGTG 57.108 29.630 0.00 0.00 39.03 3.33
4798 5659 9.893305 GTGTAGCTAAATACAAGACATTTTTGT 57.107 29.630 0.00 0.00 41.36 2.83
4824 5689 3.710326 TTGTACGAGCTGCTACCTATG 57.290 47.619 0.15 0.00 0.00 2.23
4833 5698 3.370978 CACTAAACCCATTGTACGAGCTG 59.629 47.826 0.00 0.00 0.00 4.24
4877 5748 1.455786 CGTCTCAAAGTGCAGGTAACG 59.544 52.381 0.00 0.00 46.39 3.18
4896 5767 7.704899 TGTCATAACTAGTTCAATACCACATCG 59.295 37.037 12.39 0.00 0.00 3.84
4914 5786 4.473477 AGGCCAAGTCTACTGTCATAAC 57.527 45.455 5.01 0.00 0.00 1.89
4946 5850 3.379057 CCAACAAAACGTACCCACTCTTT 59.621 43.478 0.00 0.00 0.00 2.52
5026 5930 4.711949 CTGTTCCAGCCGCAGCCT 62.712 66.667 0.00 0.00 41.25 4.58
5028 5932 3.426568 GACTGTTCCAGCCGCAGC 61.427 66.667 0.00 0.00 34.37 5.25
5029 5933 3.114616 CGACTGTTCCAGCCGCAG 61.115 66.667 0.00 0.00 30.03 5.18
5091 6028 3.951775 TGAATAGCCGCAATTTTGGTT 57.048 38.095 0.00 0.00 0.00 3.67
5186 6125 4.872476 CGTACAATCGCCGAATGC 57.128 55.556 1.31 0.00 0.00 3.56
5194 6133 1.813753 CAGGTGGGGCGTACAATCG 60.814 63.158 0.00 0.00 0.00 3.34
5195 6134 2.112815 GCAGGTGGGGCGTACAATC 61.113 63.158 0.00 0.00 0.00 2.67
5196 6135 2.045340 GCAGGTGGGGCGTACAAT 60.045 61.111 0.00 0.00 0.00 2.71
5304 6246 1.084370 GCGCCTGCCAACTACTACTG 61.084 60.000 0.00 0.00 33.98 2.74
5355 6302 2.901051 CTACCTACCCGTGCGCCAAG 62.901 65.000 4.18 0.00 0.00 3.61
5356 6303 2.996153 TACCTACCCGTGCGCCAA 60.996 61.111 4.18 0.00 0.00 4.52
5357 6304 3.454573 CTACCTACCCGTGCGCCA 61.455 66.667 4.18 0.00 0.00 5.69
5358 6305 4.886121 GCTACCTACCCGTGCGCC 62.886 72.222 4.18 0.00 0.00 6.53
5359 6306 4.886121 GGCTACCTACCCGTGCGC 62.886 72.222 0.00 0.00 0.00 6.09
5360 6307 2.901051 CTTGGCTACCTACCCGTGCG 62.901 65.000 0.00 0.00 0.00 5.34
5361 6308 1.153429 CTTGGCTACCTACCCGTGC 60.153 63.158 0.00 0.00 0.00 5.34
5362 6309 1.153429 GCTTGGCTACCTACCCGTG 60.153 63.158 0.00 0.00 0.00 4.94
5363 6310 2.364780 GGCTTGGCTACCTACCCGT 61.365 63.158 0.00 0.00 0.00 5.28
5364 6311 1.906105 TTGGCTTGGCTACCTACCCG 61.906 60.000 0.00 0.00 0.00 5.28
5365 6312 0.107165 CTTGGCTTGGCTACCTACCC 60.107 60.000 0.00 0.00 0.00 3.69
5366 6313 0.748367 GCTTGGCTTGGCTACCTACC 60.748 60.000 0.00 0.00 0.00 3.18
5367 6314 0.748367 GGCTTGGCTTGGCTACCTAC 60.748 60.000 0.00 0.00 0.00 3.18
5368 6315 1.607612 GGCTTGGCTTGGCTACCTA 59.392 57.895 0.00 0.00 0.00 3.08
5369 6316 2.356667 GGCTTGGCTTGGCTACCT 59.643 61.111 0.00 0.00 0.00 3.08
5370 6317 2.755876 GGGCTTGGCTTGGCTACC 60.756 66.667 4.28 0.00 0.00 3.18
5371 6318 2.755876 GGGGCTTGGCTTGGCTAC 60.756 66.667 4.28 0.00 0.00 3.58
5372 6319 4.060667 GGGGGCTTGGCTTGGCTA 62.061 66.667 4.28 0.00 0.00 3.93
5444 6393 3.902112 CCGGGGATGGGGAATGGG 61.902 72.222 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.