Multiple sequence alignment - TraesCS2D01G209700

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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 TraesCS2D01G209700 chr2D 100.000 6718 0 0 1 6718 165481222 165474505 0.000000e+00 12406
1 TraesCS2D01G209700 chr2D 96.823 598 16 3 27 622 592265314 592264718 0.000000e+00 996
2 TraesCS2D01G209700 chr2D 93.182 88 6 0 2018 2105 100900311 100900224 5.470000e-26 130
3 TraesCS2D01G209700 chr2B 91.692 5007 241 62 1809 6718 232269320 232274248 0.000000e+00 6780
4 TraesCS2D01G209700 chr2B 90.841 1201 83 14 623 1817 232266179 232267358 0.000000e+00 1583
5 TraesCS2D01G209700 chr2B 96.512 86 3 0 2018 2103 650285735 650285650 7.020000e-30 143
6 TraesCS2D01G209700 chr2A 93.705 3511 179 21 620 4107 185272926 185276417 0.000000e+00 5221
7 TraesCS2D01G209700 chr2A 90.853 2613 123 36 4168 6717 185276418 185278977 0.000000e+00 3395
8 TraesCS2D01G209700 chr2A 89.506 648 35 12 1 616 370497119 370497765 0.000000e+00 789
9 TraesCS2D01G209700 chr5B 87.711 651 36 21 1 619 316375237 316374599 0.000000e+00 719
10 TraesCS2D01G209700 chr5B 93.258 89 6 0 2018 2106 35382371 35382459 1.520000e-26 132
11 TraesCS2D01G209700 chr1A 87.195 656 51 16 1 624 474234922 474234268 0.000000e+00 715
12 TraesCS2D01G209700 chr5D 93.737 463 21 6 158 619 537085144 537084689 0.000000e+00 688
13 TraesCS2D01G209700 chr5D 91.183 465 39 2 158 621 70214569 70215032 1.230000e-176 630
14 TraesCS2D01G209700 chr5D 94.304 158 9 0 1 158 70214381 70214538 6.730000e-60 243
15 TraesCS2D01G209700 chr5D 96.667 120 4 0 42 161 537085291 537085172 4.110000e-47 200
16 TraesCS2D01G209700 chr7D 92.241 464 33 3 158 620 19330938 19331399 0.000000e+00 654
17 TraesCS2D01G209700 chr7D 90.123 162 9 4 4 158 19330746 19330907 3.180000e-48 204
18 TraesCS2D01G209700 chr7D 89.691 97 9 1 2015 2110 195626095 195626191 9.150000e-24 122
19 TraesCS2D01G209700 chr7D 87.619 105 12 1 2003 2107 42640105 42640002 3.290000e-23 121
20 TraesCS2D01G209700 chr5A 91.810 464 36 2 158 620 546707620 546707158 0.000000e+00 645
21 TraesCS2D01G209700 chr5A 91.489 94 8 0 2013 2106 442712368 442712461 5.470000e-26 130
22 TraesCS2D01G209700 chr7A 91.379 464 39 1 158 621 281564020 281564482 9.500000e-178 634
23 TraesCS2D01G209700 chr7A 93.631 157 10 0 1 157 281563832 281563988 1.130000e-57 235
24 TraesCS2D01G209700 chr7A 93.421 76 3 2 4 78 84458734 84458808 1.980000e-20 111
25 TraesCS2D01G209700 chr3A 90.733 464 41 2 158 620 11589194 11588732 9.570000e-173 617
26 TraesCS2D01G209700 chr6B 81.511 622 102 10 2883 3495 470792544 470793161 3.620000e-137 499
27 TraesCS2D01G209700 chr6B 76.942 412 63 26 965 1361 470786013 470786407 8.830000e-49 206
28 TraesCS2D01G209700 chr6A 81.511 622 102 10 2883 3495 440539258 440538641 3.620000e-137 499
29 TraesCS2D01G209700 chr6D 81.220 623 102 12 2883 3495 306054188 306053571 7.830000e-134 488
30 TraesCS2D01G209700 chr1B 94.904 157 7 1 1 157 605447118 605447273 1.870000e-60 244
31 TraesCS2D01G209700 chr3D 92.941 85 6 0 2018 2102 67481316 67481232 2.540000e-24 124


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 TraesCS2D01G209700 chr2D 165474505 165481222 6717 True 12406.0 12406 100.0000 1 6718 1 chr2D.!!$R2 6717
1 TraesCS2D01G209700 chr2D 592264718 592265314 596 True 996.0 996 96.8230 27 622 1 chr2D.!!$R3 595
2 TraesCS2D01G209700 chr2B 232266179 232274248 8069 False 4181.5 6780 91.2665 623 6718 2 chr2B.!!$F1 6095
3 TraesCS2D01G209700 chr2A 185272926 185278977 6051 False 4308.0 5221 92.2790 620 6717 2 chr2A.!!$F2 6097
4 TraesCS2D01G209700 chr2A 370497119 370497765 646 False 789.0 789 89.5060 1 616 1 chr2A.!!$F1 615
5 TraesCS2D01G209700 chr5B 316374599 316375237 638 True 719.0 719 87.7110 1 619 1 chr5B.!!$R1 618
6 TraesCS2D01G209700 chr1A 474234268 474234922 654 True 715.0 715 87.1950 1 624 1 chr1A.!!$R1 623
7 TraesCS2D01G209700 chr5D 537084689 537085291 602 True 444.0 688 95.2020 42 619 2 chr5D.!!$R1 577
8 TraesCS2D01G209700 chr5D 70214381 70215032 651 False 436.5 630 92.7435 1 621 2 chr5D.!!$F1 620
9 TraesCS2D01G209700 chr7D 19330746 19331399 653 False 429.0 654 91.1820 4 620 2 chr7D.!!$F2 616
10 TraesCS2D01G209700 chr7A 281563832 281564482 650 False 434.5 634 92.5050 1 621 2 chr7A.!!$F2 620
11 TraesCS2D01G209700 chr6B 470792544 470793161 617 False 499.0 499 81.5110 2883 3495 1 chr6B.!!$F2 612
12 TraesCS2D01G209700 chr6A 440538641 440539258 617 True 499.0 499 81.5110 2883 3495 1 chr6A.!!$R1 612
13 TraesCS2D01G209700 chr6D 306053571 306054188 617 True 488.0 488 81.2200 2883 3495 1 chr6D.!!$R1 612

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
773 817 0.458025 CGTCTCCTCCCACTAAACGC 60.458 60.0 0.00 0.00 0.00 4.84 F
1912 3934 1.512156 TTTTTCGAGGAACCGGCAGC 61.512 55.0 0.00 0.00 0.00 5.25 F
2328 4354 0.320683 CCAATGTGAGACTGCCGTGA 60.321 55.0 0.00 0.00 0.00 4.35 F
3664 5706 0.543277 CACCATTAGGCTGGCTGAGA 59.457 55.0 14.70 0.05 40.15 3.27 F
4107 6157 0.249615 TATCGCTGACTGCATCCTGC 60.250 55.0 5.11 0.00 45.29 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2266 4292 0.539051 CCTGAAGGAGGTCAAGCGAT 59.461 55.000 0.0 0.0 37.02 4.58 R
3856 5898 1.195674 GCTTTGTGACGAGAGAAAGGC 59.804 52.381 0.0 0.0 0.00 4.35 R
4041 6091 0.117340 AGAGCCACCCTACCAAGAGT 59.883 55.000 0.0 0.0 0.00 3.24 R
5592 7679 0.169009 GCTGCAAGATCCAACGGTTC 59.831 55.000 0.0 0.0 34.07 3.62 R
5733 7820 0.039708 GTGCTCCTGTTTGAAGCTGC 60.040 55.000 0.0 0.0 0.00 5.25 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
23 26 2.684881 AGCCAACTAAGCATATGTGTGC 59.315 45.455 4.29 0.00 45.38 4.57
168 207 2.954318 AGGTTGTCATGATTATGCAGCC 59.046 45.455 14.83 14.83 39.54 4.85
190 230 9.800433 CAGCCCTAAAATTTTGTTTTGAAAAAT 57.200 25.926 13.76 0.00 38.54 1.82
233 273 6.693315 AAGTTGCACAACACAGTACTAAAT 57.307 33.333 15.40 0.00 43.47 1.40
332 376 2.493675 CTCGATGTGAGGAGTCCAAAGA 59.506 50.000 12.86 0.00 41.29 2.52
346 390 6.049955 AGTCCAAAGATGAAAACGGATCTA 57.950 37.500 0.00 0.00 0.00 1.98
427 471 4.157849 TCAGTCACATACGGAGAGAGAT 57.842 45.455 0.00 0.00 0.00 2.75
592 636 2.548295 GCTCGGTTCGCCCAAACAA 61.548 57.895 0.00 0.00 0.00 2.83
671 715 0.882042 AGAAGCTCACACACTTGCCG 60.882 55.000 0.00 0.00 0.00 5.69
683 727 1.608590 CACTTGCCGGTTCATCACTTT 59.391 47.619 1.90 0.00 0.00 2.66
735 779 1.343782 TGATCCATCTGAGGCCTGACT 60.344 52.381 12.00 0.00 0.00 3.41
736 780 1.344114 GATCCATCTGAGGCCTGACTC 59.656 57.143 12.00 0.00 37.99 3.36
739 783 0.464870 CATCTGAGGCCTGACTCCTG 59.535 60.000 12.00 0.00 36.66 3.86
762 806 5.125097 TGGTAGTAGATGAAAACGTCTCCTC 59.875 44.000 0.00 0.00 0.00 3.71
771 815 3.397849 AAACGTCTCCTCCCACTAAAC 57.602 47.619 0.00 0.00 0.00 2.01
773 817 0.458025 CGTCTCCTCCCACTAAACGC 60.458 60.000 0.00 0.00 0.00 4.84
778 822 2.025418 CTCCCACTAAACGCGCGTT 61.025 57.895 39.88 39.88 40.45 4.84
781 825 2.549282 CACTAAACGCGCGTTGCT 59.451 55.556 44.28 32.65 43.27 3.91
836 881 7.496591 ACGAACACTAAGATTTGAACTTTGGTA 59.503 33.333 0.00 0.00 0.00 3.25
876 921 2.749621 CCTCTTAACCATCCAACACAGC 59.250 50.000 0.00 0.00 0.00 4.40
931 976 9.301153 GTGATCAACAAATGGGTACATAATTTC 57.699 33.333 0.00 0.00 35.94 2.17
932 977 9.253832 TGATCAACAAATGGGTACATAATTTCT 57.746 29.630 0.00 0.00 35.94 2.52
933 978 9.520204 GATCAACAAATGGGTACATAATTTCTG 57.480 33.333 0.00 0.00 35.94 3.02
934 979 8.642935 TCAACAAATGGGTACATAATTTCTGA 57.357 30.769 0.00 1.06 35.94 3.27
936 981 9.357652 CAACAAATGGGTACATAATTTCTGAAG 57.642 33.333 0.00 0.00 35.94 3.02
937 982 8.877864 ACAAATGGGTACATAATTTCTGAAGA 57.122 30.769 0.00 0.00 35.94 2.87
1027 1075 3.068691 TCCACCTCTCGCTTCCGG 61.069 66.667 0.00 0.00 34.56 5.14
1127 1175 3.145551 GCAAGCTCCCAGGCCATG 61.146 66.667 5.01 0.00 0.00 3.66
1161 1209 2.177394 TGTGATTTCGGTAGCAGCAA 57.823 45.000 0.00 0.00 0.00 3.91
1261 1309 2.441822 GATGCGATCTCCCCTTCCCG 62.442 65.000 0.00 0.00 0.00 5.14
1608 1657 5.343307 AAAGTCAGTTCCTTGCAAATGTT 57.657 34.783 0.00 0.00 0.00 2.71
1618 1667 6.100404 TCCTTGCAAATGTTTGATAAAGCT 57.900 33.333 9.53 0.00 40.55 3.74
1643 1692 5.289675 CGAGACATATTGTGTGAAGAGGTTC 59.710 44.000 0.00 0.00 42.36 3.62
1664 1713 6.407639 GGTTCATTTCTGGGGTAAAGTTTTGT 60.408 38.462 0.00 0.00 0.00 2.83
1724 1773 6.478344 CAGTATGCTAGACACAGAGAAAATCC 59.522 42.308 0.00 0.00 0.00 3.01
1735 1784 6.016777 ACACAGAGAAAATCCAGTCATTTCAC 60.017 38.462 0.00 0.00 35.91 3.18
1833 3854 7.336679 CCATGTGAGTGTGATCATAAAAGGTAA 59.663 37.037 0.00 0.00 0.00 2.85
1912 3934 1.512156 TTTTTCGAGGAACCGGCAGC 61.512 55.000 0.00 0.00 0.00 5.25
1938 3960 5.619981 GCACTGCCTTTTCATTTAGACGAAT 60.620 40.000 0.00 0.00 0.00 3.34
1940 3962 7.679638 GCACTGCCTTTTCATTTAGACGAATAT 60.680 37.037 0.00 0.00 0.00 1.28
1972 3994 9.676195 TTTATGTACAGATGTGTCATGTTTTTG 57.324 29.630 0.00 0.00 38.19 2.44
1992 4014 1.534697 AGGGAACTTGGCGGAAACA 59.465 52.632 0.00 0.00 37.44 2.83
2061 4083 5.348997 ACAAGAGCGTTTAGATCACTAAAGC 59.651 40.000 0.00 0.00 45.42 3.51
2122 4147 4.668138 ACCTTAAAGCCAATACCTTCCA 57.332 40.909 0.00 0.00 0.00 3.53
2221 4247 2.411748 TGAAGATGCGACGATTGTGTTC 59.588 45.455 0.00 0.00 0.00 3.18
2266 4292 5.897250 TGTATAAGAGAATACCACTCTGGCA 59.103 40.000 0.00 0.00 42.67 4.92
2325 4351 1.300971 CCACCAATGTGAGACTGCCG 61.301 60.000 0.00 0.00 45.76 5.69
2328 4354 0.320683 CCAATGTGAGACTGCCGTGA 60.321 55.000 0.00 0.00 0.00 4.35
2339 4365 2.541762 GACTGCCGTGATGAATAGAAGC 59.458 50.000 0.00 0.00 0.00 3.86
2375 4401 5.046304 CACCATATCCATATTCTCTCCCGTT 60.046 44.000 0.00 0.00 0.00 4.44
2392 4418 2.413634 CCGTTCAATCTTTAACGTGGCC 60.414 50.000 0.00 0.00 45.26 5.36
2469 4495 1.683943 CCCCAGACATAGTTGGCATG 58.316 55.000 0.00 0.00 30.96 4.06
2472 4498 1.682702 CCAGACATAGTTGGCATGGCA 60.683 52.381 19.43 19.43 33.54 4.92
2480 4506 3.520691 AGTTGGCATGGCAGATCATAT 57.479 42.857 22.17 1.97 0.00 1.78
2501 4527 4.859304 TGGCCATCAAATGCTTCATATC 57.141 40.909 0.00 0.00 0.00 1.63
2805 4840 4.594136 CACTAAACCCAAACGTTGACTTC 58.406 43.478 0.00 0.00 0.00 3.01
2873 4908 4.450976 TGCCTAGCATGTTATCGATTGTT 58.549 39.130 1.71 0.00 31.71 2.83
3280 5322 7.552687 GGTTCACCTTTAACTCATGATGATGTA 59.447 37.037 0.00 0.00 0.00 2.29
3310 5352 4.562552 GCTATTGATAGAGGAGGCAAGGAC 60.563 50.000 2.25 0.00 32.05 3.85
3664 5706 0.543277 CACCATTAGGCTGGCTGAGA 59.457 55.000 14.70 0.05 40.15 3.27
3706 5748 1.405872 TCATTGCTCCATCCCATTGC 58.594 50.000 0.00 0.00 0.00 3.56
3720 5762 2.821378 CCCATTGCTCATTGTCTTCACA 59.179 45.455 0.00 0.00 0.00 3.58
3728 5770 4.260784 GCTCATTGTCTTCACAAACTTCGT 60.261 41.667 0.00 0.00 45.78 3.85
3738 5780 5.281693 TCACAAACTTCGTATGCATTCTG 57.718 39.130 3.54 0.00 0.00 3.02
3787 5829 8.272889 TGCAAGATTCTACTACTCCTCTACTTA 58.727 37.037 0.00 0.00 0.00 2.24
3835 5877 3.652057 AACCCAATGGAGTCATTCGAT 57.348 42.857 0.00 0.00 41.29 3.59
3856 5898 6.200665 TCGATGCCTTTCTTTTGAAAATTGTG 59.799 34.615 0.00 0.00 46.42 3.33
3866 5908 6.980397 TCTTTTGAAAATTGTGCCTTTCTCTC 59.020 34.615 0.00 0.00 33.55 3.20
3906 5948 4.327680 GAAGCCAAGTTGTAAGAGTCCAT 58.672 43.478 1.45 0.00 0.00 3.41
3943 5985 1.045911 AGCCTAGCCAGCTGAGTACC 61.046 60.000 17.39 0.00 39.69 3.34
3987 6037 3.419732 AAAGGGGGCATATTGGAACAT 57.580 42.857 0.00 0.00 39.30 2.71
3989 6039 1.147817 AGGGGGCATATTGGAACATCC 59.852 52.381 0.00 0.00 39.30 3.51
3993 6043 3.321968 GGGGCATATTGGAACATCCTTTC 59.678 47.826 0.00 0.00 39.30 2.62
4010 6060 3.470709 CTTTCCTGTGATGTGTCAGTGT 58.529 45.455 0.00 0.00 34.36 3.55
4011 6061 4.503123 CCTTTCCTGTGATGTGTCAGTGTA 60.503 45.833 0.00 0.00 34.36 2.90
4012 6062 4.890158 TTCCTGTGATGTGTCAGTGTAT 57.110 40.909 0.00 0.00 34.36 2.29
4041 6091 0.776810 TTGTTCCTGAAGGCCATCCA 59.223 50.000 5.01 0.00 34.44 3.41
4050 6100 1.559682 GAAGGCCATCCACTCTTGGTA 59.440 52.381 5.01 0.00 44.35 3.25
4078 6128 4.513318 GGCTCTGTGTTCATTATAAGGCTC 59.487 45.833 0.00 0.00 0.00 4.70
4091 6141 4.899352 ATAAGGCTCATCACTGGGTATC 57.101 45.455 0.00 0.00 0.00 2.24
4098 6148 1.410517 CATCACTGGGTATCGCTGACT 59.589 52.381 0.00 0.00 0.00 3.41
4107 6157 0.249615 TATCGCTGACTGCATCCTGC 60.250 55.000 5.11 0.00 45.29 4.85
4122 6172 3.788227 TCCTGCAACTTGGAGTACAAT 57.212 42.857 9.23 0.00 38.65 2.71
4127 6177 3.249799 TGCAACTTGGAGTACAATCGTTG 59.750 43.478 13.41 13.41 43.05 4.10
4136 6186 5.693104 TGGAGTACAATCGTTGTTACAGAAC 59.307 40.000 8.33 1.56 42.22 3.01
4220 6270 5.629020 TCTTCTCAAACGCACATTAAAATGC 59.371 36.000 2.60 4.59 40.04 3.56
4249 6299 7.987268 TGTACTAGAAAATGTCGTGATGATC 57.013 36.000 0.00 0.00 0.00 2.92
4304 6354 0.257039 GGCCTCCATCATGTGTTCCT 59.743 55.000 0.00 0.00 0.00 3.36
4305 6355 1.341383 GGCCTCCATCATGTGTTCCTT 60.341 52.381 0.00 0.00 0.00 3.36
4332 6382 3.242349 GCATAAGCGATCTAGATGCATGC 60.242 47.826 21.95 21.95 39.62 4.06
4343 6393 3.772619 ATGCATGCATCAAAAGCCC 57.227 47.368 27.46 0.00 29.42 5.19
4346 6396 0.741927 GCATGCATCAAAAGCCCCAC 60.742 55.000 14.21 0.00 0.00 4.61
4375 6425 2.654749 TGAGACTCATAGCACGTTGG 57.345 50.000 0.00 0.00 0.00 3.77
4385 6435 0.470766 AGCACGTTGGGGTTTGTAGA 59.529 50.000 0.00 0.00 0.00 2.59
4471 6521 9.400638 TCATTTTATTTACTGGCGTAAAGTTTG 57.599 29.630 15.80 10.71 45.72 2.93
4479 6529 0.778223 GCGTAAAGTTTGCTTGCAGC 59.222 50.000 0.00 1.70 42.82 5.25
4480 6530 1.600413 GCGTAAAGTTTGCTTGCAGCT 60.600 47.619 0.00 0.00 42.97 4.24
4556 6607 9.689976 CAAGTATGACAAAGTAGGATATCTGAG 57.310 37.037 2.05 0.00 0.00 3.35
4581 6632 6.096673 ACTTAGTTTGGCAAATTAGGGTTG 57.903 37.500 22.34 11.82 0.00 3.77
4667 6718 9.495754 CATGCTTTCTAAAATTCTAAGTGCTAC 57.504 33.333 0.00 0.00 0.00 3.58
4704 6755 9.256477 GATCATGGTCACTACATTTTCGTATTA 57.744 33.333 0.00 0.00 0.00 0.98
4771 6822 1.966451 GGCTCTTGTGGTGAACGGG 60.966 63.158 0.00 0.00 0.00 5.28
4783 6834 0.320374 TGAACGGGAAGGTAGCAGTG 59.680 55.000 0.00 0.00 0.00 3.66
4819 6879 3.436243 TCCAAATTGGACCAATGGTACC 58.564 45.455 20.50 12.45 42.67 3.34
4820 6880 3.169099 CCAAATTGGACCAATGGTACCA 58.831 45.455 20.50 18.99 40.96 3.25
4889 6949 5.513788 GGCATCCTTATGGTGTCTCATGTAT 60.514 44.000 0.00 0.00 33.38 2.29
5048 7108 5.997746 ACTTGGAACATGATACCATTATCCG 59.002 40.000 0.00 0.00 39.30 4.18
5065 7125 2.036387 TCCGTCCTCTTTGACTCAACA 58.964 47.619 0.00 0.00 32.97 3.33
5068 7128 3.194861 CGTCCTCTTTGACTCAACAACA 58.805 45.455 0.00 0.00 32.97 3.33
5071 7131 5.059833 GTCCTCTTTGACTCAACAACAGAT 58.940 41.667 0.00 0.00 32.39 2.90
5156 7219 8.925161 TGTTGCATTTTCTATTTATTACCAGC 57.075 30.769 0.00 0.00 0.00 4.85
5157 7220 8.526978 TGTTGCATTTTCTATTTATTACCAGCA 58.473 29.630 0.00 0.00 0.00 4.41
5158 7221 9.533253 GTTGCATTTTCTATTTATTACCAGCAT 57.467 29.630 0.00 0.00 0.00 3.79
5359 7422 4.527427 TGAAATTCCAATGGTTCTGCATGA 59.473 37.500 0.00 0.00 0.00 3.07
5472 7535 0.395586 TTTGTGTGCAGGAAGCTGGT 60.396 50.000 0.00 0.00 45.94 4.00
5487 7550 3.679824 GCTGGTGGTCAGGTATATACC 57.320 52.381 22.39 22.39 46.82 2.73
5518 7603 9.302345 TCTGAAATCTACATTTGTTCTATCGAC 57.698 33.333 0.00 0.00 31.94 4.20
5541 7626 8.025445 CGACTAACCGGCATTAGTATTATAACT 58.975 37.037 15.39 0.00 43.83 2.24
5591 7678 2.174360 CAGATCAGTGACTGGAGTGGA 58.826 52.381 13.33 0.00 31.51 4.02
5592 7679 2.166050 CAGATCAGTGACTGGAGTGGAG 59.834 54.545 13.33 0.00 31.51 3.86
5636 7723 2.939103 CCTAACAGGGCGAAGAATTCTG 59.061 50.000 9.17 0.00 44.75 3.02
5660 7747 0.868406 CTTCAGGCGGTGTTCTTGTC 59.132 55.000 0.00 0.00 0.00 3.18
5669 7756 1.533129 GGTGTTCTTGTCACAAACGGC 60.533 52.381 0.00 0.00 37.52 5.68
5726 7813 9.481340 TCAGCAAACTATAAATAGTAGATGCAG 57.519 33.333 23.25 19.04 42.47 4.41
5733 7820 7.382488 ACTATAAATAGTAGATGCAGTGTTGCG 59.618 37.037 0.70 0.00 46.01 4.85
5762 7849 3.626028 AACAGGAGCACGATTTTGTTC 57.374 42.857 0.00 0.00 0.00 3.18
5782 7869 5.049954 TGTTCTGTCTGTAACATTTTACCGC 60.050 40.000 0.00 0.00 37.39 5.68
5783 7870 4.633175 TCTGTCTGTAACATTTTACCGCA 58.367 39.130 0.00 0.00 37.39 5.69
5790 7888 6.017026 TCTGTAACATTTTACCGCATGACAAA 60.017 34.615 0.00 0.00 37.39 2.83
5812 7910 1.686587 TGTATCGGGTCTCGCATTCAT 59.313 47.619 0.00 0.00 39.05 2.57
5818 7916 1.689273 GGGTCTCGCATTCATAGAGGT 59.311 52.381 0.00 0.00 33.16 3.85
5822 7924 4.745620 GGTCTCGCATTCATAGAGGTAAAC 59.254 45.833 0.00 0.00 33.16 2.01
5824 7926 4.404394 TCTCGCATTCATAGAGGTAAACCA 59.596 41.667 1.26 0.00 38.89 3.67
5827 7929 4.271049 CGCATTCATAGAGGTAAACCACAG 59.729 45.833 1.26 0.00 38.89 3.66
5895 8000 5.748402 TGACTAATGAGCACCTGAATGAAT 58.252 37.500 0.00 0.00 0.00 2.57
5899 8004 4.730949 ATGAGCACCTGAATGAATTTGG 57.269 40.909 0.00 0.00 0.00 3.28
5959 8067 1.079127 CCGTGCTCGATGTTCCCTT 60.079 57.895 10.21 0.00 39.71 3.95
5976 8084 3.199946 TCCCTTGAGTCGGCATCTAAATT 59.800 43.478 0.00 0.00 0.00 1.82
6017 8126 0.322975 TTGGCCTTCAGAGTCTCTGC 59.677 55.000 22.95 12.37 43.95 4.26
6019 8128 0.540923 GGCCTTCAGAGTCTCTGCAT 59.459 55.000 22.95 0.00 43.95 3.96
6033 8142 3.776969 TCTCTGCATCTGTTGGATAACCT 59.223 43.478 0.00 0.00 35.92 3.50
6142 8251 1.135083 GGAGAAGCGAAATCTCGGACA 60.135 52.381 0.00 0.00 45.55 4.02
6186 8300 2.807392 CAACATGTTTGGCCACCAATTC 59.193 45.455 3.88 0.00 43.55 2.17
6187 8301 2.328319 ACATGTTTGGCCACCAATTCT 58.672 42.857 3.88 0.00 43.55 2.40
6188 8302 2.299867 ACATGTTTGGCCACCAATTCTC 59.700 45.455 3.88 0.00 43.55 2.87
6189 8303 2.380064 TGTTTGGCCACCAATTCTCT 57.620 45.000 3.88 0.00 43.55 3.10
6190 8304 2.676748 TGTTTGGCCACCAATTCTCTT 58.323 42.857 3.88 0.00 43.55 2.85
6207 8321 3.891366 TCTCTTCAAGCCCAAGAAAAAGG 59.109 43.478 0.00 0.00 29.36 3.11
6391 8538 2.282674 TGACACGTACCTCCGCCT 60.283 61.111 0.00 0.00 0.00 5.52
6466 8614 1.660560 ATGCTGACTTTGATGGGCGC 61.661 55.000 0.00 0.00 0.00 6.53
6512 8664 3.057876 TGTTTTTGTGTGCAGAAAGTCGT 60.058 39.130 0.00 0.00 30.75 4.34
6513 8665 4.154375 TGTTTTTGTGTGCAGAAAGTCGTA 59.846 37.500 0.00 0.00 30.75 3.43
6590 8748 6.183360 GCTATCAGGGTGAAATTAAGTTGTCC 60.183 42.308 0.00 0.00 0.00 4.02
6705 8873 2.124570 CCCCGGCTGATTGACCAG 60.125 66.667 0.00 0.00 37.23 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 26 2.724977 TGACAGGAAGACTAGTTGCG 57.275 50.000 0.00 0.00 0.00 4.85
190 230 7.360861 GCAACTTTAGTACTACATGATGCAACA 60.361 37.037 17.95 0.00 0.00 3.33
346 390 4.599047 TTCAAACCTTGCATCGGAATTT 57.401 36.364 9.34 0.00 0.00 1.82
416 460 4.279671 GTGATGTCCATTATCTCTCTCCGT 59.720 45.833 0.00 0.00 0.00 4.69
427 471 8.308931 AGAAAAAGTAGTACGTGATGTCCATTA 58.691 33.333 0.00 0.00 0.00 1.90
646 690 3.550437 AGTGTGTGAGCTTCTCTGTTT 57.450 42.857 0.00 0.00 0.00 2.83
651 695 0.871057 GGCAAGTGTGTGAGCTTCTC 59.129 55.000 0.00 0.00 0.00 2.87
671 715 7.201435 GCCGAAATTATTTCAAAGTGATGAACC 60.201 37.037 16.57 0.00 38.95 3.62
683 727 5.461032 ACAAACAGGCCGAAATTATTTCA 57.539 34.783 16.57 0.00 39.63 2.69
735 779 5.014858 AGACGTTTTCATCTACTACCAGGA 58.985 41.667 0.00 0.00 0.00 3.86
736 780 5.326200 AGACGTTTTCATCTACTACCAGG 57.674 43.478 0.00 0.00 0.00 4.45
739 783 5.450274 GGAGGAGACGTTTTCATCTACTACC 60.450 48.000 13.05 1.90 36.19 3.18
773 817 2.314561 TCAGAATTTTCAGCAACGCG 57.685 45.000 3.53 3.53 0.00 6.01
811 855 6.725246 ACCAAAGTTCAAATCTTAGTGTTCG 58.275 36.000 0.00 0.00 0.00 3.95
831 876 6.127423 GGACAGTGCTATTCTTAGTCTACCAA 60.127 42.308 0.00 0.00 0.00 3.67
836 881 5.515106 AGAGGACAGTGCTATTCTTAGTCT 58.485 41.667 0.00 0.00 0.00 3.24
844 889 5.396884 GGATGGTTAAGAGGACAGTGCTATT 60.397 44.000 7.16 7.16 0.00 1.73
1070 1118 2.043852 GAGAGGGAGGAGGCGTCA 60.044 66.667 8.91 0.00 0.00 4.35
1433 1481 6.215495 ACTTTACATCAAGAGAGCTACTCC 57.785 41.667 8.89 0.00 45.96 3.85
1434 1482 6.470877 CGAACTTTACATCAAGAGAGCTACTC 59.529 42.308 5.36 5.36 45.22 2.59
1435 1483 6.151312 TCGAACTTTACATCAAGAGAGCTACT 59.849 38.462 0.00 0.00 0.00 2.57
1559 1608 1.420430 TCCACGGACCTTTTCACTCT 58.580 50.000 0.00 0.00 0.00 3.24
1570 1619 0.584876 CTTTTCGGTGTTCCACGGAC 59.415 55.000 4.38 0.00 41.92 4.79
1608 1657 7.010460 CACACAATATGTCTCGAGCTTTATCAA 59.990 37.037 7.81 0.00 40.64 2.57
1618 1667 4.462834 ACCTCTTCACACAATATGTCTCGA 59.537 41.667 0.00 0.00 40.64 4.04
1643 1692 7.865889 GTCTTACAAAACTTTACCCCAGAAATG 59.134 37.037 0.00 0.00 0.00 2.32
1664 1713 7.994425 TGGATGCTTAAAATGTTCTGTCTTA 57.006 32.000 0.00 0.00 0.00 2.10
1724 1773 2.942710 ACCGAGTACGTGAAATGACTG 58.057 47.619 0.00 0.00 37.88 3.51
1735 1784 6.968904 TGATTTTACTAAAGCTACCGAGTACG 59.031 38.462 0.00 0.00 33.64 3.67
1912 3934 4.479619 GTCTAAATGAAAAGGCAGTGCTG 58.520 43.478 16.11 0.00 0.00 4.41
1938 3960 8.536175 TGACACATCTGTACATAAACCTTCATA 58.464 33.333 0.00 0.00 0.00 2.15
1940 3962 6.764379 TGACACATCTGTACATAAACCTTCA 58.236 36.000 0.00 0.00 0.00 3.02
1972 3994 0.596577 GTTTCCGCCAAGTTCCCTTC 59.403 55.000 0.00 0.00 0.00 3.46
1992 4014 7.726033 ATAGTCAGTCTGTTCCTGTCTTATT 57.274 36.000 0.00 0.00 32.07 1.40
2038 4060 5.348724 TGCTTTAGTGATCTAAACGCTCTTG 59.651 40.000 15.47 2.66 40.05 3.02
2077 4099 8.424133 GGTACTCCCTCCGTAAAGAAATATAAA 58.576 37.037 0.00 0.00 0.00 1.40
2213 4239 5.418840 GTGGAACATATGGAAGGAACACAAT 59.581 40.000 7.80 0.00 44.52 2.71
2266 4292 0.539051 CCTGAAGGAGGTCAAGCGAT 59.461 55.000 0.00 0.00 37.02 4.58
2325 4351 3.270877 ACCCAACGCTTCTATTCATCAC 58.729 45.455 0.00 0.00 0.00 3.06
2328 4354 2.741878 CGGACCCAACGCTTCTATTCAT 60.742 50.000 0.00 0.00 0.00 2.57
2352 4378 4.689062 ACGGGAGAGAATATGGATATGGT 58.311 43.478 0.00 0.00 0.00 3.55
2375 4401 1.074084 TGGGGCCACGTTAAAGATTGA 59.926 47.619 4.39 0.00 0.00 2.57
2392 4418 0.671781 CTTCTTGACAGCGGTCTGGG 60.672 60.000 17.94 8.04 44.54 4.45
2469 4495 2.502142 TGATGGCCATATGATCTGCC 57.498 50.000 20.84 12.37 44.27 4.85
2472 4498 4.673968 AGCATTTGATGGCCATATGATCT 58.326 39.130 24.98 13.65 36.65 2.75
2480 4506 4.216708 TGATATGAAGCATTTGATGGCCA 58.783 39.130 8.56 8.56 0.00 5.36
2501 4527 5.046910 ACTTCAGAAATAAACGGTGCATG 57.953 39.130 0.00 0.00 0.00 4.06
2617 4650 5.183904 GCTTCAGTGAATGGATGTACCTTTT 59.816 40.000 5.91 0.00 39.86 2.27
2628 4661 6.461110 AATAATTCTGGCTTCAGTGAATGG 57.539 37.500 5.91 0.00 39.45 3.16
2670 4703 6.775629 TGGTCTTTGCCTATTGAACTTAAACT 59.224 34.615 0.00 0.00 0.00 2.66
2676 4709 6.670695 AAATTGGTCTTTGCCTATTGAACT 57.329 33.333 0.00 0.00 34.95 3.01
2709 4743 4.695396 TCTCAGTAACCGCAACAAAACTA 58.305 39.130 0.00 0.00 0.00 2.24
2805 4840 2.070262 TGATGCACTGAGAACTCACG 57.930 50.000 0.00 1.09 35.46 4.35
2863 4898 7.722363 TCAGGTTATCAGCTAAACAATCGATA 58.278 34.615 0.00 0.00 28.63 2.92
2871 4906 5.661458 TGTAGCTCAGGTTATCAGCTAAAC 58.339 41.667 1.53 0.00 45.19 2.01
2873 4908 6.485830 AATGTAGCTCAGGTTATCAGCTAA 57.514 37.500 1.53 0.00 45.19 3.09
3061 5097 8.046708 TCAGATAAAGGTACAAAGTGCATATGT 58.953 33.333 4.29 0.00 0.00 2.29
3280 5322 5.187576 GCCTCCTCTATCAATAGCTCTCAAT 59.812 44.000 0.00 0.00 0.00 2.57
3310 5352 4.437930 GGATTTGAATCAAAGGAGACAGCG 60.438 45.833 14.10 0.00 36.76 5.18
3664 5706 7.691213 TGATAGACTGCTAGCTACCTACTTAT 58.309 38.462 17.23 3.52 34.18 1.73
3706 5748 5.409643 ACGAAGTTTGTGAAGACAATGAG 57.590 39.130 0.00 0.00 37.78 2.90
3720 5762 5.106555 CCAAGACAGAATGCATACGAAGTTT 60.107 40.000 0.00 0.00 36.99 2.66
3728 5770 3.370840 AAGCCCAAGACAGAATGCATA 57.629 42.857 0.00 0.00 42.53 3.14
3738 5780 2.579410 TCAACCCTTAAGCCCAAGAC 57.421 50.000 0.00 0.00 0.00 3.01
3835 5877 4.335037 GGCACAATTTTCAAAAGAAAGGCA 59.665 37.500 0.00 0.00 0.00 4.75
3856 5898 1.195674 GCTTTGTGACGAGAGAAAGGC 59.804 52.381 0.00 0.00 0.00 4.35
3906 5948 6.875726 GCTAGGCTGTGACATCATGAATATTA 59.124 38.462 0.00 0.00 0.00 0.98
3969 6011 1.147817 GGATGTTCCAATATGCCCCCT 59.852 52.381 0.00 0.00 36.28 4.79
3971 6013 2.683211 AGGATGTTCCAATATGCCCC 57.317 50.000 0.00 0.00 39.61 5.80
3973 6015 4.590850 GGAAAGGATGTTCCAATATGCC 57.409 45.455 0.00 0.00 45.57 4.40
3977 6019 6.524018 ACATCACAGGAAAGGATGTTCCAATA 60.524 38.462 6.73 0.00 46.93 1.90
3978 6020 5.752936 ACATCACAGGAAAGGATGTTCCAAT 60.753 40.000 6.73 0.00 46.93 3.16
3987 6037 2.705658 ACTGACACATCACAGGAAAGGA 59.294 45.455 0.00 0.00 38.30 3.36
3989 6039 3.470709 ACACTGACACATCACAGGAAAG 58.529 45.455 0.00 0.00 38.30 2.62
3993 6043 3.264947 CCATACACTGACACATCACAGG 58.735 50.000 0.00 0.00 38.30 4.00
4010 6060 2.580322 TCAGGAACAATCTTGCCCCATA 59.420 45.455 4.65 0.00 32.94 2.74
4011 6061 1.358787 TCAGGAACAATCTTGCCCCAT 59.641 47.619 4.65 0.00 32.94 4.00
4012 6062 0.776810 TCAGGAACAATCTTGCCCCA 59.223 50.000 4.65 0.00 32.94 4.96
4041 6091 0.117340 AGAGCCACCCTACCAAGAGT 59.883 55.000 0.00 0.00 0.00 3.24
4050 6100 0.773644 AATGAACACAGAGCCACCCT 59.226 50.000 0.00 0.00 0.00 4.34
4078 6128 1.410517 AGTCAGCGATACCCAGTGATG 59.589 52.381 0.00 0.00 0.00 3.07
4107 6157 5.418310 AACAACGATTGTACTCCAAGTTG 57.582 39.130 15.03 15.03 44.59 3.16
4122 6172 3.936902 GTTGCAGTTCTGTAACAACGA 57.063 42.857 22.05 0.00 38.12 3.85
4127 6177 0.941542 TGCCGTTGCAGTTCTGTAAC 59.058 50.000 18.78 18.78 44.23 2.50
4143 6193 6.699575 ATGTTCATAACAAAGGTCTATGCC 57.300 37.500 0.00 0.00 45.86 4.40
4197 6247 5.836009 GCATTTTAATGTGCGTTTGAGAAG 58.164 37.500 4.54 0.00 38.65 2.85
4220 6270 7.730067 TCACGACATTTTCTAGTACAATACG 57.270 36.000 0.00 0.00 0.00 3.06
4249 6299 8.721478 GCTACACATATAAACAGTCCAATATGG 58.279 37.037 11.58 0.00 36.87 2.74
4261 6311 6.480320 CCCTGAGACAAGCTACACATATAAAC 59.520 42.308 0.00 0.00 0.00 2.01
4304 6354 5.635280 GCATCTAGATCGCTTATGCTACAAA 59.365 40.000 15.63 0.00 38.38 2.83
4305 6355 5.164233 GCATCTAGATCGCTTATGCTACAA 58.836 41.667 15.63 0.00 38.38 2.41
4332 6382 1.962807 TGTTGAGTGGGGCTTTTGATG 59.037 47.619 0.00 0.00 0.00 3.07
4343 6393 6.423302 GCTATGAGTCTCATAATGTTGAGTGG 59.577 42.308 20.51 8.45 43.02 4.00
4346 6396 6.143598 CGTGCTATGAGTCTCATAATGTTGAG 59.856 42.308 20.51 11.69 38.72 3.02
4361 6411 1.468520 CAAACCCCAACGTGCTATGAG 59.531 52.381 0.00 0.00 0.00 2.90
4375 6425 7.035612 GTGGAAAATCATCAATCTACAAACCC 58.964 38.462 0.00 0.00 0.00 4.11
4385 6435 5.722923 AGGAACCATGTGGAAAATCATCAAT 59.277 36.000 5.96 0.00 38.94 2.57
4494 6545 3.030291 TGCAAATCCAAAAGGACAGTGT 58.970 40.909 0.00 0.00 0.00 3.55
4535 6586 9.427821 AAGTACTCAGATATCCTACTTTGTCAT 57.572 33.333 0.00 0.00 0.00 3.06
4543 6594 8.083462 GCCAAACTAAGTACTCAGATATCCTAC 58.917 40.741 0.00 0.00 0.00 3.18
4550 6601 9.167311 CTAATTTGCCAAACTAAGTACTCAGAT 57.833 33.333 0.00 0.00 0.00 2.90
4556 6607 6.829229 ACCCTAATTTGCCAAACTAAGTAC 57.171 37.500 0.00 0.00 0.00 2.73
4581 6632 5.510323 CGAGCGAACAAAAATGGTATTTACC 59.490 40.000 0.00 0.00 46.62 2.85
4667 6718 4.063689 GTGACCATGATCTATTGCTCAGG 58.936 47.826 0.00 0.00 0.00 3.86
4710 6761 7.966246 AGCAAGAATAGCTTCATATCAGAAG 57.034 36.000 0.00 0.00 46.06 2.85
4771 6822 1.267121 TCACTCCCACTGCTACCTTC 58.733 55.000 0.00 0.00 0.00 3.46
4783 6834 0.918983 TTGGACATCCCATCACTCCC 59.081 55.000 0.00 0.00 46.10 4.30
4812 6872 1.202830 TCTTGTTTGCCGTGGTACCAT 60.203 47.619 19.72 0.00 0.00 3.55
4813 6873 0.180642 TCTTGTTTGCCGTGGTACCA 59.819 50.000 11.60 11.60 0.00 3.25
4814 6874 1.310904 TTCTTGTTTGCCGTGGTACC 58.689 50.000 4.43 4.43 0.00 3.34
4815 6875 2.614983 TCTTTCTTGTTTGCCGTGGTAC 59.385 45.455 0.00 0.00 0.00 3.34
4816 6876 2.920524 TCTTTCTTGTTTGCCGTGGTA 58.079 42.857 0.00 0.00 0.00 3.25
4817 6877 1.757682 TCTTTCTTGTTTGCCGTGGT 58.242 45.000 0.00 0.00 0.00 4.16
4818 6878 2.357637 TCTTCTTTCTTGTTTGCCGTGG 59.642 45.455 0.00 0.00 0.00 4.94
4819 6879 3.691049 TCTTCTTTCTTGTTTGCCGTG 57.309 42.857 0.00 0.00 0.00 4.94
4820 6880 4.712122 TTTCTTCTTTCTTGTTTGCCGT 57.288 36.364 0.00 0.00 0.00 5.68
4889 6949 1.899814 CCTAGACCAAGTACCACAGCA 59.100 52.381 0.00 0.00 0.00 4.41
5048 7108 4.442706 TCTGTTGTTGAGTCAAAGAGGAC 58.557 43.478 7.25 3.21 38.08 3.85
5068 7128 7.167535 TCTCATCTCGAGTATCAGATTCATCT 58.832 38.462 13.13 0.00 42.88 2.90
5071 7131 7.757941 ATTCTCATCTCGAGTATCAGATTCA 57.242 36.000 13.13 0.00 42.88 2.57
5380 7443 5.348986 AGGTCAGCGTATGTGTAAACATAG 58.651 41.667 5.96 2.75 33.74 2.23
5487 7550 8.545229 AGAACAAATGTAGATTTCAGACAGAG 57.455 34.615 0.00 0.00 28.65 3.35
5490 7553 9.087424 CGATAGAACAAATGTAGATTTCAGACA 57.913 33.333 0.00 0.00 39.76 3.41
5491 7554 9.302345 TCGATAGAACAAATGTAGATTTCAGAC 57.698 33.333 0.00 0.00 46.15 3.51
5520 7605 9.181061 ACAAAAGTTATAATACTAATGCCGGTT 57.819 29.630 1.90 0.00 0.00 4.44
5570 7657 1.898472 CCACTCCAGTCACTGATCTGT 59.102 52.381 6.30 0.00 32.44 3.41
5591 7678 1.813513 CTGCAAGATCCAACGGTTCT 58.186 50.000 0.00 0.00 34.07 3.01
5592 7679 0.169009 GCTGCAAGATCCAACGGTTC 59.831 55.000 0.00 0.00 34.07 3.62
5627 7714 3.619979 CGCCTGAAGGGTACAGAATTCTT 60.620 47.826 4.86 0.43 37.54 2.52
5636 7723 0.672711 GAACACCGCCTGAAGGGTAC 60.673 60.000 0.00 0.00 33.95 3.34
5660 7747 3.648982 TGCAGAGCGCCGTTTGTG 61.649 61.111 2.29 0.00 41.33 3.33
5669 7756 2.724708 GAGCTTGTCGTGCAGAGCG 61.725 63.158 0.00 0.00 36.79 5.03
5726 7813 0.525242 TGTTTGAAGCTGCGCAACAC 60.525 50.000 13.05 6.30 0.00 3.32
5731 7818 1.208614 CTCCTGTTTGAAGCTGCGC 59.791 57.895 0.00 0.00 0.00 6.09
5733 7820 0.039708 GTGCTCCTGTTTGAAGCTGC 60.040 55.000 0.00 0.00 0.00 5.25
5762 7849 5.121611 TCATGCGGTAAAATGTTACAGACAG 59.878 40.000 9.81 0.00 42.62 3.51
5782 7869 3.861840 AGACCCGATACAGTTTGTCATG 58.138 45.455 0.00 0.00 0.00 3.07
5783 7870 3.428999 CGAGACCCGATACAGTTTGTCAT 60.429 47.826 0.00 0.00 41.76 3.06
5790 7888 1.067212 GAATGCGAGACCCGATACAGT 59.933 52.381 0.00 0.00 41.76 3.55
5812 7910 2.976882 ACAAGGCTGTGGTTTACCTCTA 59.023 45.455 0.00 0.00 33.30 2.43
5818 7916 3.569194 TCTGAACAAGGCTGTGGTTTA 57.431 42.857 0.00 0.00 35.37 2.01
5822 7924 5.649782 AAATATTCTGAACAAGGCTGTGG 57.350 39.130 0.00 0.00 35.37 4.17
5824 7926 7.611467 TCATGTAAATATTCTGAACAAGGCTGT 59.389 33.333 0.00 0.00 37.39 4.40
5827 7929 9.455847 GATTCATGTAAATATTCTGAACAAGGC 57.544 33.333 0.00 0.00 0.00 4.35
5895 8000 1.435515 GGTGACGTTGCTTGCCAAA 59.564 52.632 0.00 0.00 34.68 3.28
5899 8004 1.444119 TTCTGGGTGACGTTGCTTGC 61.444 55.000 0.00 0.00 0.00 4.01
5976 8084 5.957771 AGGACTGTATAATTCTGAAGGCA 57.042 39.130 0.00 0.00 0.00 4.75
5989 8097 2.503356 CTCTGAAGGCCAAGGACTGTAT 59.497 50.000 5.01 0.00 31.22 2.29
6017 8126 5.587844 CCTTCTCAAGGTTATCCAACAGATG 59.412 44.000 0.00 0.00 43.95 2.90
6019 8128 5.165961 CCTTCTCAAGGTTATCCAACAGA 57.834 43.478 0.00 0.00 43.95 3.41
6033 8142 2.028839 CCATGCAATGCAACCTTCTCAA 60.029 45.455 13.45 0.00 44.97 3.02
6077 8186 3.710722 CTTCGGCTCAGGGGTGCT 61.711 66.667 0.00 0.00 34.07 4.40
6142 8251 1.089920 GGTGCAGCGATGTCAGATTT 58.910 50.000 1.22 0.00 0.00 2.17
6186 8300 3.553715 GCCTTTTTCTTGGGCTTGAAGAG 60.554 47.826 0.00 0.00 42.31 2.85
6187 8301 2.365293 GCCTTTTTCTTGGGCTTGAAGA 59.635 45.455 0.00 0.00 42.31 2.87
6188 8302 2.102925 TGCCTTTTTCTTGGGCTTGAAG 59.897 45.455 0.00 0.00 45.45 3.02
6189 8303 2.114616 TGCCTTTTTCTTGGGCTTGAA 58.885 42.857 0.00 0.00 45.45 2.69
6190 8304 1.412343 GTGCCTTTTTCTTGGGCTTGA 59.588 47.619 0.00 0.00 45.45 3.02
6207 8321 3.230522 CTGCAAGCTTTGGGGGTGC 62.231 63.158 0.00 0.00 0.00 5.01
6264 8384 4.702131 GGGCTAATCATGCTTATAAGGTGG 59.298 45.833 14.28 0.00 0.00 4.61
6391 8538 1.962306 GTTTACTGAACCCGCGGCA 60.962 57.895 22.85 12.15 31.85 5.69
6466 8614 7.714377 ACATCTGATCAGTAGCCTTTCTTATTG 59.286 37.037 21.92 3.40 0.00 1.90
6512 8664 5.408204 TCTGAAGACGCGTACGATAATTA 57.592 39.130 21.65 0.00 43.93 1.40
6513 8665 4.282950 TCTGAAGACGCGTACGATAATT 57.717 40.909 21.65 7.70 43.93 1.40
6590 8748 3.690460 AGTTAACCCTCTTGATGCCTTG 58.310 45.455 0.88 0.00 0.00 3.61
6682 8850 2.117206 AATCAGCCGGGGTTTGCA 59.883 55.556 2.18 0.00 0.00 4.08
6683 8851 1.976474 TCAATCAGCCGGGGTTTGC 60.976 57.895 2.18 0.00 0.00 3.68
6684 8852 1.595093 GGTCAATCAGCCGGGGTTTG 61.595 60.000 2.18 0.00 0.00 2.93
6685 8853 1.304134 GGTCAATCAGCCGGGGTTT 60.304 57.895 2.18 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.