Multiple sequence alignment - TraesCS5D01G209600

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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 TraesCS5D01G209600 chr5D 100.000 7092 0 0 1 7092 317145239 317152330 0.000000e+00 13097
1 TraesCS5D01G209600 chr5B 95.087 4274 70 36 1 4220 366741064 366745251 0.000000e+00 6601
2 TraesCS5D01G209600 chr5B 94.643 2016 51 20 5095 7092 366746137 366748113 0.000000e+00 3072
3 TraesCS5D01G209600 chr5B 93.278 848 34 9 4284 5116 366745269 366746108 0.000000e+00 1229
4 TraesCS5D01G209600 chr5B 95.833 72 3 0 4216 4287 382074723 382074652 4.490000e-22 117
5 TraesCS5D01G209600 chr5A 92.403 3383 141 54 753 4053 411686409 411689757 0.000000e+00 4717
6 TraesCS5D01G209600 chr5A 88.610 2950 149 83 4272 7092 411690033 411692924 0.000000e+00 3413
7 TraesCS5D01G209600 chr5A 87.312 733 26 30 21 707 411685686 411686397 0.000000e+00 776
8 TraesCS5D01G209600 chr5A 88.564 376 16 11 1 358 411666483 411666849 1.410000e-116 431
9 TraesCS5D01G209600 chr2D 97.297 74 2 0 4214 4287 30406749 30406676 7.470000e-25 126
10 TraesCS5D01G209600 chr4D 97.101 69 2 0 4215 4283 54799452 54799384 4.490000e-22 117
11 TraesCS5D01G209600 chr4D 94.667 75 3 1 4212 4286 507889157 507889230 1.620000e-21 115
12 TraesCS5D01G209600 chr7B 95.775 71 3 0 4213 4283 372816562 372816632 1.620000e-21 115
13 TraesCS5D01G209600 chr6B 95.775 71 3 0 4217 4287 76858312 76858242 1.620000e-21 115
14 TraesCS5D01G209600 chr6B 91.765 85 4 2 4206 4287 413489454 413489538 1.620000e-21 115
15 TraesCS5D01G209600 chr6B 95.775 71 3 0 4215 4285 717148932 717149002 1.620000e-21 115
16 TraesCS5D01G209600 chr1B 93.421 76 5 0 4212 4287 572205782 572205707 5.810000e-21 113


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 TraesCS5D01G209600 chr5D 317145239 317152330 7091 False 13097.000000 13097 100.000000 1 7092 1 chr5D.!!$F1 7091
1 TraesCS5D01G209600 chr5B 366741064 366748113 7049 False 3634.000000 6601 94.336000 1 7092 3 chr5B.!!$F1 7091
2 TraesCS5D01G209600 chr5A 411685686 411692924 7238 False 2968.666667 4717 89.441667 21 7092 3 chr5A.!!$F2 7071

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
598 678 0.040942 TTCTCTCTCTGCCTCTGCCT 59.959 55.0 0.00 0.00 36.33 4.75 F
599 679 0.395586 TCTCTCTCTGCCTCTGCCTC 60.396 60.0 0.00 0.00 36.33 4.70 F
2072 2168 0.105778 GATCCCTCTAGCTTGCGCTT 59.894 55.0 9.73 0.00 46.47 4.68 F
2073 2169 0.179062 ATCCCTCTAGCTTGCGCTTG 60.179 55.0 9.73 1.85 46.47 4.01 F
2689 2803 0.732880 ATCGAACCGTCAAGAGCACG 60.733 55.0 0.00 0.00 36.99 5.34 F
4544 4828 0.833287 ATGTGCTACTGGCCACTAGG 59.167 55.0 17.94 4.99 40.92 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1856 1948 0.031616 ATTGGTTTGGTGGTGGTGGT 60.032 50.000 0.00 0.00 0.00 4.16 R
2198 2294 0.114168 ACACTGGCCTCACTCTCTCT 59.886 55.000 3.32 0.00 0.00 3.10 R
3701 3874 0.690762 ACCCAAGAACCTACGCACAT 59.309 50.000 0.00 0.00 0.00 3.21 R
3944 4117 3.448660 ACAATTGGCCAAGAAATAGGAGC 59.551 43.478 24.94 0.00 0.00 4.70 R
4578 4862 3.648507 AGGAGCATTTGATCAAGAGCT 57.351 42.857 26.87 26.87 35.79 4.09 R
6356 6780 0.179113 CATGGGCCGGCAAAACATAC 60.179 55.000 30.85 7.76 0.00 2.39 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
127 144 0.467659 CTACCTACAGGGAGGGACGG 60.468 65.000 1.95 0.00 42.67 4.79
128 145 0.920763 TACCTACAGGGAGGGACGGA 60.921 60.000 1.95 0.00 41.36 4.69
129 146 1.455959 CCTACAGGGAGGGACGGAG 60.456 68.421 0.00 0.00 37.23 4.63
130 147 1.613610 CTACAGGGAGGGACGGAGA 59.386 63.158 0.00 0.00 0.00 3.71
490 561 2.022527 GCCCTCCCCTATCTATCCATCT 60.023 54.545 0.00 0.00 0.00 2.90
587 667 8.020819 CGAGATAATAACCTCACATTCTCTCTC 58.979 40.741 0.00 0.00 34.59 3.20
588 668 9.077885 GAGATAATAACCTCACATTCTCTCTCT 57.922 37.037 0.00 0.00 34.23 3.10
589 669 8.859090 AGATAATAACCTCACATTCTCTCTCTG 58.141 37.037 0.00 0.00 0.00 3.35
590 670 3.608316 AACCTCACATTCTCTCTCTGC 57.392 47.619 0.00 0.00 0.00 4.26
591 671 1.830477 ACCTCACATTCTCTCTCTGCC 59.170 52.381 0.00 0.00 0.00 4.85
592 672 2.109774 CCTCACATTCTCTCTCTGCCT 58.890 52.381 0.00 0.00 0.00 4.75
593 673 2.101249 CCTCACATTCTCTCTCTGCCTC 59.899 54.545 0.00 0.00 0.00 4.70
594 674 3.025978 CTCACATTCTCTCTCTGCCTCT 58.974 50.000 0.00 0.00 0.00 3.69
595 675 2.759535 TCACATTCTCTCTCTGCCTCTG 59.240 50.000 0.00 0.00 0.00 3.35
596 676 1.481772 ACATTCTCTCTCTGCCTCTGC 59.518 52.381 0.00 0.00 38.26 4.26
597 677 1.122227 ATTCTCTCTCTGCCTCTGCC 58.878 55.000 0.00 0.00 36.33 4.85
598 678 0.040942 TTCTCTCTCTGCCTCTGCCT 59.959 55.000 0.00 0.00 36.33 4.75
599 679 0.395586 TCTCTCTCTGCCTCTGCCTC 60.396 60.000 0.00 0.00 36.33 4.70
600 680 0.396139 CTCTCTCTGCCTCTGCCTCT 60.396 60.000 0.00 0.00 36.33 3.69
714 794 6.361433 TGTTAGGAGGTTGAGAGATAGAGAG 58.639 44.000 0.00 0.00 0.00 3.20
728 808 6.947733 AGAGATAGAGAGAGAGAGAGAGAGAG 59.052 46.154 0.00 0.00 0.00 3.20
729 809 6.857848 AGATAGAGAGAGAGAGAGAGAGAGA 58.142 44.000 0.00 0.00 0.00 3.10
730 810 6.947733 AGATAGAGAGAGAGAGAGAGAGAGAG 59.052 46.154 0.00 0.00 0.00 3.20
731 811 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
732 812 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
733 813 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
734 814 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
735 815 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
736 816 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
737 817 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
738 818 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
739 819 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
740 820 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
741 821 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
742 822 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
743 823 4.222336 AGAGAGAGAGAGAGAGAGAGAGG 58.778 52.174 0.00 0.00 0.00 3.69
744 824 3.312890 AGAGAGAGAGAGAGAGAGAGGG 58.687 54.545 0.00 0.00 0.00 4.30
745 825 2.370189 GAGAGAGAGAGAGAGAGAGGGG 59.630 59.091 0.00 0.00 0.00 4.79
746 826 2.127708 GAGAGAGAGAGAGAGAGGGGT 58.872 57.143 0.00 0.00 0.00 4.95
894 980 3.214696 AGAACACCAAGAACCTTCCTG 57.785 47.619 0.00 0.00 0.00 3.86
935 1022 1.278127 CACCAATCCGACCTAGGTGTT 59.722 52.381 22.10 5.89 43.57 3.32
1572 1659 4.373116 GCGGCGTTCCTGTCCTCA 62.373 66.667 9.37 0.00 0.00 3.86
1812 1899 3.197790 CTCCATGCCCGCTTCGTG 61.198 66.667 0.00 0.00 0.00 4.35
1858 1950 2.622436 ACGAGAGTACGTACCACTACC 58.378 52.381 21.80 9.76 46.88 3.18
1861 1953 2.680339 GAGAGTACGTACCACTACCACC 59.320 54.545 21.80 6.32 0.00 4.61
1951 2043 5.352284 TCGCTGATCAAAATCTAACCTCTC 58.648 41.667 0.00 0.00 32.75 3.20
2069 2165 1.006805 CCGATCCCTCTAGCTTGCG 60.007 63.158 0.00 0.00 0.00 4.85
2072 2168 0.105778 GATCCCTCTAGCTTGCGCTT 59.894 55.000 9.73 0.00 46.47 4.68
2073 2169 0.179062 ATCCCTCTAGCTTGCGCTTG 60.179 55.000 9.73 1.85 46.47 4.01
2074 2170 2.467826 CCCTCTAGCTTGCGCTTGC 61.468 63.158 9.73 13.20 46.47 4.01
2195 2291 2.237143 TGCCATTCTTGGAGGTAGTGAG 59.763 50.000 0.00 0.00 46.92 3.51
2196 2292 2.501723 GCCATTCTTGGAGGTAGTGAGA 59.498 50.000 0.00 0.00 46.92 3.27
2197 2293 3.431486 GCCATTCTTGGAGGTAGTGAGAG 60.431 52.174 0.00 0.00 46.92 3.20
2198 2294 4.026744 CCATTCTTGGAGGTAGTGAGAGA 58.973 47.826 0.00 0.00 46.92 3.10
2233 2329 1.064017 AGTGTTTGGGGATGTGTGTGT 60.064 47.619 0.00 0.00 0.00 3.72
2239 2335 4.741781 GGATGTGTGTGTGCGCGC 62.742 66.667 27.26 27.26 36.27 6.86
2325 2426 1.076559 TGCCCACCTAGCTAGCGTA 60.077 57.895 15.74 1.49 0.00 4.42
2394 2495 1.809547 GAAGAAAGAGAAGCACAGGGC 59.190 52.381 0.00 0.00 45.30 5.19
2396 2497 1.301677 GAAAGAGAAGCACAGGGCCG 61.302 60.000 0.00 0.00 46.50 6.13
2427 2535 6.542821 AGAGAAGAACAAGAGAGAGAGAGAA 58.457 40.000 0.00 0.00 0.00 2.87
2434 2542 6.065976 ACAAGAGAGAGAGAGAATGAGAGA 57.934 41.667 0.00 0.00 0.00 3.10
2527 2641 1.528309 CTTCCGGGTGTTGCCTTGT 60.528 57.895 0.00 0.00 37.43 3.16
2689 2803 0.732880 ATCGAACCGTCAAGAGCACG 60.733 55.000 0.00 0.00 36.99 5.34
2750 2881 3.189287 GTCGTCAAGAACTCCATTGCATT 59.811 43.478 0.00 0.00 0.00 3.56
3058 3202 1.404315 GGAGCAACTCCTCAAGGTACG 60.404 57.143 6.38 0.00 46.41 3.67
3133 3281 3.016736 CAGTTTCATCACACATACCCCC 58.983 50.000 0.00 0.00 0.00 5.40
3359 3518 3.329520 ACCAGGCTAACATTTGTACCAGA 59.670 43.478 0.00 0.00 0.00 3.86
3420 3581 1.228245 GGCACACACACACCTGGAT 60.228 57.895 0.00 0.00 0.00 3.41
3579 3740 5.930135 AGAACTAAGATATCACCCGCAATT 58.070 37.500 5.32 0.00 0.00 2.32
3784 3957 1.694696 CAATCCTAGGGAGGTGGCTAC 59.305 57.143 9.46 0.00 44.19 3.58
4220 4496 9.455847 CGTGGTATTAGAGTAGGTGTAAAATAC 57.544 37.037 0.00 0.00 0.00 1.89
4226 4502 8.530804 TTAGAGTAGGTGTAAAATACTCCCTC 57.469 38.462 7.73 6.10 44.19 4.30
4227 4503 5.898397 AGAGTAGGTGTAAAATACTCCCTCC 59.102 44.000 7.73 0.00 44.19 4.30
4228 4504 4.648307 AGTAGGTGTAAAATACTCCCTCCG 59.352 45.833 5.29 0.00 41.94 4.63
4230 4506 3.450096 AGGTGTAAAATACTCCCTCCGTC 59.550 47.826 5.29 0.00 41.94 4.79
4231 4507 3.450096 GGTGTAAAATACTCCCTCCGTCT 59.550 47.826 0.00 0.00 36.57 4.18
4235 4511 4.903045 AAAATACTCCCTCCGTCTCAAA 57.097 40.909 0.00 0.00 0.00 2.69
4236 4512 5.437191 AAAATACTCCCTCCGTCTCAAAT 57.563 39.130 0.00 0.00 0.00 2.32
4237 4513 5.437191 AAATACTCCCTCCGTCTCAAATT 57.563 39.130 0.00 0.00 0.00 1.82
4238 4514 6.555463 AAATACTCCCTCCGTCTCAAATTA 57.445 37.500 0.00 0.00 0.00 1.40
4239 4515 6.555463 AATACTCCCTCCGTCTCAAATTAA 57.445 37.500 0.00 0.00 0.00 1.40
4240 4516 4.473477 ACTCCCTCCGTCTCAAATTAAG 57.527 45.455 0.00 0.00 0.00 1.85
4241 4517 3.838903 ACTCCCTCCGTCTCAAATTAAGT 59.161 43.478 0.00 0.00 0.00 2.24
4242 4518 4.184629 CTCCCTCCGTCTCAAATTAAGTG 58.815 47.826 0.00 0.00 0.00 3.16
4243 4519 3.581332 TCCCTCCGTCTCAAATTAAGTGT 59.419 43.478 0.00 0.00 0.00 3.55
4244 4520 3.933332 CCCTCCGTCTCAAATTAAGTGTC 59.067 47.826 0.00 0.00 0.00 3.67
4245 4521 4.322801 CCCTCCGTCTCAAATTAAGTGTCT 60.323 45.833 0.00 0.00 0.00 3.41
4246 4522 4.865365 CCTCCGTCTCAAATTAAGTGTCTC 59.135 45.833 0.00 0.00 0.00 3.36
4247 4523 5.462530 TCCGTCTCAAATTAAGTGTCTCA 57.537 39.130 0.00 0.00 0.00 3.27
4248 4524 5.849510 TCCGTCTCAAATTAAGTGTCTCAA 58.150 37.500 0.00 0.00 0.00 3.02
4249 4525 5.694910 TCCGTCTCAAATTAAGTGTCTCAAC 59.305 40.000 0.00 0.00 0.00 3.18
4250 4526 5.696724 CCGTCTCAAATTAAGTGTCTCAACT 59.303 40.000 0.00 0.00 0.00 3.16
4251 4527 6.202954 CCGTCTCAAATTAAGTGTCTCAACTT 59.797 38.462 0.00 0.00 42.89 2.66
4252 4528 7.254795 CCGTCTCAAATTAAGTGTCTCAACTTT 60.255 37.037 0.00 0.00 40.77 2.66
4253 4529 7.584123 CGTCTCAAATTAAGTGTCTCAACTTTG 59.416 37.037 0.00 0.00 40.77 2.77
4254 4530 8.398665 GTCTCAAATTAAGTGTCTCAACTTTGT 58.601 33.333 0.00 0.00 40.77 2.83
4255 4531 9.607988 TCTCAAATTAAGTGTCTCAACTTTGTA 57.392 29.630 0.00 0.00 40.77 2.41
4256 4532 9.651718 CTCAAATTAAGTGTCTCAACTTTGTAC 57.348 33.333 0.00 0.00 40.77 2.90
4257 4533 9.391006 TCAAATTAAGTGTCTCAACTTTGTACT 57.609 29.630 0.00 0.00 40.77 2.73
4260 4536 7.941795 TTAAGTGTCTCAACTTTGTACTAGC 57.058 36.000 0.00 0.00 40.77 3.42
4261 4537 5.793030 AGTGTCTCAACTTTGTACTAGCT 57.207 39.130 0.00 0.00 0.00 3.32
4262 4538 5.774630 AGTGTCTCAACTTTGTACTAGCTC 58.225 41.667 0.00 0.00 0.00 4.09
4263 4539 5.536916 AGTGTCTCAACTTTGTACTAGCTCT 59.463 40.000 0.00 0.00 0.00 4.09
4264 4540 6.715718 AGTGTCTCAACTTTGTACTAGCTCTA 59.284 38.462 0.00 0.00 0.00 2.43
4265 4541 7.024768 GTGTCTCAACTTTGTACTAGCTCTAG 58.975 42.308 0.00 2.55 39.04 2.43
4267 4543 7.881751 TGTCTCAACTTTGTACTAGCTCTAGTA 59.118 37.037 11.59 11.59 43.98 1.82
4324 4600 3.194005 TCCTTGCTTGTCGAGAACTTT 57.806 42.857 0.00 0.00 0.00 2.66
4349 4625 6.649155 AGAAACTGGCTTTGGTTTAAATTGT 58.351 32.000 0.00 0.00 36.04 2.71
4401 4685 4.078639 GCTATAAGCCAAGGACTGTCAT 57.921 45.455 10.38 0.00 34.48 3.06
4430 4714 6.638468 GCATAGGTTTTTCTGTATGCTTATGC 59.362 38.462 6.03 0.00 42.91 3.14
4484 4768 8.205512 ACATGCATGCAAATATTTTCCATAGAA 58.794 29.630 26.68 0.00 0.00 2.10
4544 4828 0.833287 ATGTGCTACTGGCCACTAGG 59.167 55.000 17.94 4.99 40.92 3.02
4571 4855 6.084939 CGACAAACTTGTGTTATGTCATTTCG 59.915 38.462 0.00 0.00 42.43 3.46
4654 4938 9.674068 TGTAGTCAGGCATGTAAAAACATAATA 57.326 29.630 0.00 0.00 0.00 0.98
4697 4984 9.981114 AAAAAGGTAAAAAGAATGTACTGGATG 57.019 29.630 0.00 0.00 0.00 3.51
4790 5092 7.385752 ACAACTTCCAAAATGATATTGTGCTTG 59.614 33.333 0.00 0.00 0.00 4.01
4888 5197 0.671781 CAAAGTCTGCGGTCCCTCAG 60.672 60.000 0.00 0.00 0.00 3.35
4953 5262 0.106619 AACGGTTTGGTGCTGGGTTA 60.107 50.000 0.00 0.00 0.00 2.85
4994 5303 6.726764 AGAGTAGTGATAAAGGAAGGACACTT 59.273 38.462 0.00 0.00 38.99 3.16
4995 5304 7.235812 AGAGTAGTGATAAAGGAAGGACACTTT 59.764 37.037 0.00 0.00 38.99 2.66
4996 5305 7.387643 AGTAGTGATAAAGGAAGGACACTTTC 58.612 38.462 0.00 0.00 38.99 2.62
4997 5306 5.561679 AGTGATAAAGGAAGGACACTTTCC 58.438 41.667 4.80 4.80 46.33 3.13
5107 5470 4.864704 ACACAAAACTCTCTCTCTCTCC 57.135 45.455 0.00 0.00 0.00 3.71
5155 5518 5.835257 ACGTTGTAGTGTACACTGTACAAT 58.165 37.500 31.94 21.43 40.14 2.71
5166 5529 8.139350 GTGTACACTGTACAATATACAGGCATA 58.861 37.037 21.14 5.11 46.70 3.14
5173 5536 9.358872 CTGTACAATATACAGGCATACATACAG 57.641 37.037 6.24 0.00 40.76 2.74
5192 5559 0.179189 GCTCTACATTTGCACGTGCC 60.179 55.000 35.72 19.24 41.18 5.01
5245 5612 7.361031 GCAATGCACCAATTTTGATTGTCAATA 60.361 33.333 0.00 0.00 36.11 1.90
5589 5984 2.779755 TTGTTCATCCATGGTACGCT 57.220 45.000 12.58 0.00 0.00 5.07
5607 6003 3.889538 ACGCTATGTTCCTATCTGCAGTA 59.110 43.478 14.67 4.80 0.00 2.74
6093 6507 2.024319 GCGCGGATCATGACTAGCC 61.024 63.158 8.83 0.00 0.00 3.93
6094 6508 1.363807 CGCGGATCATGACTAGCCA 59.636 57.895 0.00 0.00 0.00 4.75
6095 6509 0.037882 CGCGGATCATGACTAGCCAT 60.038 55.000 0.00 0.00 0.00 4.40
6096 6510 1.436600 GCGGATCATGACTAGCCATG 58.563 55.000 12.47 12.47 43.88 3.66
6175 6593 3.366440 GTACACCGGTACTGATCATCC 57.634 52.381 6.87 0.00 45.19 3.51
6176 6594 1.860641 ACACCGGTACTGATCATCCA 58.139 50.000 6.87 0.00 0.00 3.41
6177 6595 2.398588 ACACCGGTACTGATCATCCAT 58.601 47.619 6.87 0.00 0.00 3.41
6178 6596 2.365617 ACACCGGTACTGATCATCCATC 59.634 50.000 6.87 0.00 0.00 3.51
6197 6615 4.475944 CATCTTTTAGTTGAGTTTGCCCG 58.524 43.478 0.00 0.00 0.00 6.13
6233 6651 2.420022 CCGCTTCCGTGAAGAAATCAAT 59.580 45.455 15.23 0.00 41.71 2.57
6356 6780 7.817962 TCGAGGTTTCTTTCTTGGTTTCTATAG 59.182 37.037 0.00 0.00 0.00 1.31
6405 6833 4.007659 GCCTTCTACTCCTAGCTAGCTAG 58.992 52.174 35.39 35.39 44.07 3.42
6764 7202 7.100458 TGCTTGCTTTAGTCTTTTCTTTCTT 57.900 32.000 0.00 0.00 0.00 2.52
6765 7203 7.547227 TGCTTGCTTTAGTCTTTTCTTTCTTT 58.453 30.769 0.00 0.00 0.00 2.52
6766 7204 7.702348 TGCTTGCTTTAGTCTTTTCTTTCTTTC 59.298 33.333 0.00 0.00 0.00 2.62
6767 7205 7.918033 GCTTGCTTTAGTCTTTTCTTTCTTTCT 59.082 33.333 0.00 0.00 0.00 2.52
6768 7206 9.794685 CTTGCTTTAGTCTTTTCTTTCTTTCTT 57.205 29.630 0.00 0.00 0.00 2.52
6770 7208 9.788960 TGCTTTAGTCTTTTCTTTCTTTCTTTC 57.211 29.630 0.00 0.00 0.00 2.62
6791 7233 0.472471 TTCTTTCGCCTCCCACTTGT 59.528 50.000 0.00 0.00 0.00 3.16
6840 7286 0.745845 ATTACCTGCCTGCTTGCTCG 60.746 55.000 0.00 0.00 0.00 5.03
6841 7287 3.958147 TACCTGCCTGCTTGCTCGC 62.958 63.158 0.00 0.00 0.00 5.03
6843 7289 3.497932 CTGCCTGCTTGCTCGCTC 61.498 66.667 0.00 0.00 0.00 5.03
6869 7315 3.065306 CACCGCCCAAGTCCAGTA 58.935 61.111 0.00 0.00 0.00 2.74
6870 7316 1.079127 CACCGCCCAAGTCCAGTAG 60.079 63.158 0.00 0.00 0.00 2.57
6871 7317 1.535687 ACCGCCCAAGTCCAGTAGT 60.536 57.895 0.00 0.00 0.00 2.73
6882 7328 5.995282 CCAAGTCCAGTAGTGTGAAAATGTA 59.005 40.000 0.00 0.00 0.00 2.29
6956 7405 0.920664 CGCACATGCATGCATCAAAG 59.079 50.000 30.07 20.53 46.47 2.77
6957 7406 0.650512 GCACATGCATGCATCAAAGC 59.349 50.000 30.07 24.26 45.39 3.51
6959 7408 0.179121 ACATGCATGCATCAAAGCCG 60.179 50.000 30.07 18.76 33.90 5.52
6960 7409 0.101579 CATGCATGCATCAAAGCCGA 59.898 50.000 30.07 0.00 33.90 5.54
6961 7410 1.037493 ATGCATGCATCAAAGCCGAT 58.963 45.000 27.46 1.89 29.42 4.18
6963 7412 2.022934 TGCATGCATCAAAGCCGATTA 58.977 42.857 18.46 0.00 0.00 1.75
6964 7413 2.426381 TGCATGCATCAAAGCCGATTAA 59.574 40.909 18.46 0.00 0.00 1.40
6965 7414 3.119209 TGCATGCATCAAAGCCGATTAAA 60.119 39.130 18.46 0.00 0.00 1.52
6990 7444 2.728690 TGCAAAGCAAAGCAATCGAT 57.271 40.000 0.00 0.00 37.90 3.59
6991 7445 2.598589 TGCAAAGCAAAGCAATCGATC 58.401 42.857 0.00 0.00 37.90 3.69
6992 7446 1.580704 GCAAAGCAAAGCAATCGATCG 59.419 47.619 9.36 9.36 0.00 3.69
7041 7498 0.178767 CCTGATGCCTCGTCCATCAA 59.821 55.000 13.36 2.88 45.88 2.57
7043 7500 0.460109 TGATGCCTCGTCCATCAACG 60.460 55.000 11.10 0.00 44.27 4.10
7044 7501 4.664002 CTGATGCCTCGTCCATCAACGA 62.664 54.545 13.36 0.00 45.88 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
127 144 5.047377 TCCTTTTCTGCTTTCTCTCTCTCTC 60.047 44.000 0.00 0.00 0.00 3.20
128 145 4.837860 TCCTTTTCTGCTTTCTCTCTCTCT 59.162 41.667 0.00 0.00 0.00 3.10
129 146 5.146010 TCCTTTTCTGCTTTCTCTCTCTC 57.854 43.478 0.00 0.00 0.00 3.20
130 147 5.760484 ATCCTTTTCTGCTTTCTCTCTCT 57.240 39.130 0.00 0.00 0.00 3.10
166 188 4.720680 ATGCCCCCAGGGTTTGGC 62.721 66.667 15.84 15.84 46.51 4.52
167 189 2.684655 CATGCCCCCAGGGTTTGG 60.685 66.667 4.22 0.00 46.51 3.28
168 190 2.684655 CCATGCCCCCAGGGTTTG 60.685 66.667 4.22 0.35 46.51 2.93
169 191 4.010018 CCCATGCCCCCAGGGTTT 62.010 66.667 4.22 0.00 46.51 3.27
277 303 6.062749 TGCATGTAGGTTTTGGTTGTAGTAA 58.937 36.000 0.00 0.00 0.00 2.24
490 561 1.683365 GGGGACTGCCGTGGTACTA 60.683 63.158 0.00 0.00 33.83 1.82
587 667 0.461135 GAAGAGAGAGGCAGAGGCAG 59.539 60.000 0.00 0.00 43.71 4.85
588 668 0.251967 TGAAGAGAGAGGCAGAGGCA 60.252 55.000 0.00 0.00 43.71 4.75
589 669 0.461135 CTGAAGAGAGAGGCAGAGGC 59.539 60.000 0.00 0.00 40.13 4.70
590 670 1.851304 ACTGAAGAGAGAGGCAGAGG 58.149 55.000 0.00 0.00 32.86 3.69
591 671 3.511146 AGAAACTGAAGAGAGAGGCAGAG 59.489 47.826 0.00 0.00 32.86 3.35
592 672 3.505386 AGAAACTGAAGAGAGAGGCAGA 58.495 45.455 0.00 0.00 32.86 4.26
593 673 3.511146 AGAGAAACTGAAGAGAGAGGCAG 59.489 47.826 0.00 0.00 34.65 4.85
594 674 3.505386 AGAGAAACTGAAGAGAGAGGCA 58.495 45.455 0.00 0.00 0.00 4.75
595 675 3.763897 AGAGAGAAACTGAAGAGAGAGGC 59.236 47.826 0.00 0.00 0.00 4.70
596 676 5.256474 AGAGAGAGAAACTGAAGAGAGAGG 58.744 45.833 0.00 0.00 0.00 3.69
597 677 6.316390 GGTAGAGAGAGAAACTGAAGAGAGAG 59.684 46.154 0.00 0.00 0.00 3.20
598 678 6.012858 AGGTAGAGAGAGAAACTGAAGAGAGA 60.013 42.308 0.00 0.00 0.00 3.10
599 679 6.180472 AGGTAGAGAGAGAAACTGAAGAGAG 58.820 44.000 0.00 0.00 0.00 3.20
600 680 6.134535 AGGTAGAGAGAGAAACTGAAGAGA 57.865 41.667 0.00 0.00 0.00 3.10
714 794 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
728 808 3.046374 ACTACCCCTCTCTCTCTCTCTC 58.954 54.545 0.00 0.00 0.00 3.20
729 809 3.145559 ACTACCCCTCTCTCTCTCTCT 57.854 52.381 0.00 0.00 0.00 3.10
730 810 3.971971 AGTACTACCCCTCTCTCTCTCTC 59.028 52.174 0.00 0.00 0.00 3.20
731 811 4.016962 AGTACTACCCCTCTCTCTCTCT 57.983 50.000 0.00 0.00 0.00 3.10
732 812 4.903649 ACTAGTACTACCCCTCTCTCTCTC 59.096 50.000 0.00 0.00 0.00 3.20
733 813 4.899486 ACTAGTACTACCCCTCTCTCTCT 58.101 47.826 0.00 0.00 0.00 3.10
734 814 5.840693 ACTACTAGTACTACCCCTCTCTCTC 59.159 48.000 0.00 0.00 0.00 3.20
735 815 5.791749 ACTACTAGTACTACCCCTCTCTCT 58.208 45.833 0.00 0.00 0.00 3.10
736 816 7.290014 AGTTACTACTAGTACTACCCCTCTCTC 59.710 44.444 0.00 0.00 28.93 3.20
737 817 7.138934 AGTTACTACTAGTACTACCCCTCTCT 58.861 42.308 0.00 0.00 28.93 3.10
738 818 7.373617 AGTTACTACTAGTACTACCCCTCTC 57.626 44.000 0.00 0.00 28.93 3.20
739 819 6.328934 GGAGTTACTACTAGTACTACCCCTCT 59.671 46.154 0.00 0.00 33.84 3.69
740 820 6.100424 TGGAGTTACTACTAGTACTACCCCTC 59.900 46.154 0.00 0.67 33.84 4.30
741 821 5.973124 TGGAGTTACTACTAGTACTACCCCT 59.027 44.000 0.00 0.00 33.84 4.79
742 822 6.126623 ACTGGAGTTACTACTAGTACTACCCC 60.127 46.154 0.00 0.00 33.84 4.95
743 823 6.894682 ACTGGAGTTACTACTAGTACTACCC 58.105 44.000 0.00 0.00 33.84 3.69
744 824 8.700973 AGTACTGGAGTTACTACTAGTACTACC 58.299 40.741 24.65 9.44 45.85 3.18
867 952 2.230660 GTTCTTGGTGTTCTTGGGAGG 58.769 52.381 0.00 0.00 0.00 4.30
868 953 2.158608 AGGTTCTTGGTGTTCTTGGGAG 60.159 50.000 0.00 0.00 0.00 4.30
869 954 1.850345 AGGTTCTTGGTGTTCTTGGGA 59.150 47.619 0.00 0.00 0.00 4.37
870 955 2.364972 AGGTTCTTGGTGTTCTTGGG 57.635 50.000 0.00 0.00 0.00 4.12
935 1022 2.616330 GCCTTGCTAGCACGCACAA 61.616 57.895 24.41 7.59 40.09 3.33
1287 1374 1.652563 CAGCATCGGCATGGTCATG 59.347 57.895 6.59 6.59 44.61 3.07
1446 1533 1.483415 GGATGGTGGTAGCCGTAGAAA 59.517 52.381 0.00 0.00 0.00 2.52
1453 1540 4.910585 CGCCGGATGGTGGTAGCC 62.911 72.222 5.05 0.00 42.32 3.93
1853 1945 0.184211 GGTTTGGTGGTGGTGGTAGT 59.816 55.000 0.00 0.00 0.00 2.73
1854 1946 0.183971 TGGTTTGGTGGTGGTGGTAG 59.816 55.000 0.00 0.00 0.00 3.18
1855 1947 0.629596 TTGGTTTGGTGGTGGTGGTA 59.370 50.000 0.00 0.00 0.00 3.25
1856 1948 0.031616 ATTGGTTTGGTGGTGGTGGT 60.032 50.000 0.00 0.00 0.00 4.16
1857 1949 0.678950 GATTGGTTTGGTGGTGGTGG 59.321 55.000 0.00 0.00 0.00 4.61
1858 1950 1.613437 GAGATTGGTTTGGTGGTGGTG 59.387 52.381 0.00 0.00 0.00 4.17
1861 1953 2.162681 GGAGAGATTGGTTTGGTGGTG 58.837 52.381 0.00 0.00 0.00 4.17
2069 2165 4.056125 GCGGGTTTGGGAGCAAGC 62.056 66.667 0.00 0.00 0.00 4.01
2074 2170 3.952628 GAGACCGCGGGTTTGGGAG 62.953 68.421 31.76 0.00 35.25 4.30
2195 2291 1.340991 ACTGGCCTCACTCTCTCTCTC 60.341 57.143 3.32 0.00 0.00 3.20
2196 2292 0.704076 ACTGGCCTCACTCTCTCTCT 59.296 55.000 3.32 0.00 0.00 3.10
2197 2293 0.817013 CACTGGCCTCACTCTCTCTC 59.183 60.000 3.32 0.00 0.00 3.20
2198 2294 0.114168 ACACTGGCCTCACTCTCTCT 59.886 55.000 3.32 0.00 0.00 3.10
2239 2335 1.461127 CAACTTTTTCTCTCCCTCGCG 59.539 52.381 0.00 0.00 0.00 5.87
2240 2336 1.197949 GCAACTTTTTCTCTCCCTCGC 59.802 52.381 0.00 0.00 0.00 5.03
2305 2401 2.127869 CGCTAGCTAGGTGGGCAGA 61.128 63.158 22.10 0.00 0.00 4.26
2325 2426 0.729478 CAGACGAGACGCGAACACAT 60.729 55.000 15.93 0.00 44.57 3.21
2394 2495 1.166129 TGTTCTTCTCTCTCGTCCGG 58.834 55.000 0.00 0.00 0.00 5.14
2396 2497 3.754323 TCTCTTGTTCTTCTCTCTCGTCC 59.246 47.826 0.00 0.00 0.00 4.79
2427 2535 4.079558 AGCTTTCTCTCTCCTCTCTCTCAT 60.080 45.833 0.00 0.00 0.00 2.90
2434 2542 3.631250 CCAGTAGCTTTCTCTCTCCTCT 58.369 50.000 0.00 0.00 0.00 3.69
2698 2812 1.887707 CGAATTACCTGAGGCCGCC 60.888 63.158 3.22 0.00 0.00 6.13
2750 2881 2.747989 CGAGGTAGTGTAGACAAGAGCA 59.252 50.000 0.00 0.00 0.00 4.26
3058 3202 2.028112 TCATGTGACTTGAGCTGGTACC 60.028 50.000 4.43 4.43 0.00 3.34
3133 3281 3.288242 CGTGAAACAACAAACGATGGAG 58.712 45.455 0.00 0.00 38.27 3.86
3182 3337 6.600822 AGTGATACTTCTACGCTGTTACCTAA 59.399 38.462 0.00 0.00 0.00 2.69
3221 3380 7.537991 CGACAAAAACTAAACCAAACACACTAA 59.462 33.333 0.00 0.00 0.00 2.24
3309 3468 2.294074 TCCCAACTTTTTCAGGTGTCG 58.706 47.619 0.00 0.00 38.78 4.35
3420 3581 1.774894 GCCCTGTGTGTACCTTCCCA 61.775 60.000 0.00 0.00 0.00 4.37
3701 3874 0.690762 ACCCAAGAACCTACGCACAT 59.309 50.000 0.00 0.00 0.00 3.21
3784 3957 8.818141 TGATAAGAAAAGATAATGGAGCTACG 57.182 34.615 0.00 0.00 0.00 3.51
3944 4117 3.448660 ACAATTGGCCAAGAAATAGGAGC 59.551 43.478 24.94 0.00 0.00 4.70
4220 4496 4.184629 CACTTAATTTGAGACGGAGGGAG 58.815 47.826 0.00 0.00 0.00 4.30
4222 4498 3.933332 GACACTTAATTTGAGACGGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
4223 4499 4.822026 AGACACTTAATTTGAGACGGAGG 58.178 43.478 0.00 0.00 0.00 4.30
4226 4502 5.696724 AGTTGAGACACTTAATTTGAGACGG 59.303 40.000 0.00 0.00 0.00 4.79
4227 4503 6.771188 AGTTGAGACACTTAATTTGAGACG 57.229 37.500 0.00 0.00 0.00 4.18
4228 4504 8.398665 ACAAAGTTGAGACACTTAATTTGAGAC 58.601 33.333 0.00 0.00 35.87 3.36
4230 4506 9.651718 GTACAAAGTTGAGACACTTAATTTGAG 57.348 33.333 0.00 0.00 35.87 3.02
4231 4507 9.391006 AGTACAAAGTTGAGACACTTAATTTGA 57.609 29.630 0.00 0.00 35.87 2.69
4235 4511 8.368668 AGCTAGTACAAAGTTGAGACACTTAAT 58.631 33.333 0.00 0.00 35.87 1.40
4236 4512 7.723324 AGCTAGTACAAAGTTGAGACACTTAA 58.277 34.615 0.00 0.00 35.87 1.85
4237 4513 7.230913 AGAGCTAGTACAAAGTTGAGACACTTA 59.769 37.037 0.00 0.00 35.87 2.24
4238 4514 6.041069 AGAGCTAGTACAAAGTTGAGACACTT 59.959 38.462 0.00 0.00 38.74 3.16
4239 4515 5.536916 AGAGCTAGTACAAAGTTGAGACACT 59.463 40.000 0.00 0.00 0.00 3.55
4240 4516 5.774630 AGAGCTAGTACAAAGTTGAGACAC 58.225 41.667 0.00 0.00 0.00 3.67
4241 4517 6.715718 ACTAGAGCTAGTACAAAGTTGAGACA 59.284 38.462 8.35 0.00 43.98 3.41
4242 4518 7.148355 ACTAGAGCTAGTACAAAGTTGAGAC 57.852 40.000 8.35 0.00 43.98 3.36
4286 4562 8.879427 AGCAAGGAAATAGTAAACTAAATGGT 57.121 30.769 0.00 0.00 31.39 3.55
4294 4570 6.367969 TCTCGACAAGCAAGGAAATAGTAAAC 59.632 38.462 0.00 0.00 0.00 2.01
4324 4600 7.787028 ACAATTTAAACCAAAGCCAGTTTCTA 58.213 30.769 0.00 0.00 37.39 2.10
4401 4685 6.414732 AGCATACAGAAAAACCTATGCACTA 58.585 36.000 10.29 0.00 42.61 2.74
4430 4714 8.875803 CACTTGATCACCATGAATTAATTTTGG 58.124 33.333 21.02 21.02 32.67 3.28
4488 4772 7.886629 ACTTTTGCAGTGATATACATCCAAT 57.113 32.000 0.00 0.00 32.83 3.16
4544 4828 5.398176 TGACATAACACAAGTTTGTCGTC 57.602 39.130 13.52 0.00 42.30 4.20
4571 4855 7.434602 GGAGCATTTGATCAAGAGCTTAAAATC 59.565 37.037 27.08 17.62 34.12 2.17
4578 4862 3.648507 AGGAGCATTTGATCAAGAGCT 57.351 42.857 26.87 26.87 35.79 4.09
4623 4907 7.826744 TGTTTTTACATGCCTGACTACATGATA 59.173 33.333 9.77 0.00 45.23 2.15
4675 4959 6.151144 GCACATCCAGTACATTCTTTTTACCT 59.849 38.462 0.00 0.00 0.00 3.08
4677 4961 6.908825 TGCACATCCAGTACATTCTTTTTAC 58.091 36.000 0.00 0.00 0.00 2.01
4678 4962 7.701539 ATGCACATCCAGTACATTCTTTTTA 57.298 32.000 0.00 0.00 29.78 1.52
4684 4968 6.866010 TCAATATGCACATCCAGTACATTC 57.134 37.500 0.00 0.00 35.78 2.67
4691 4975 6.387041 AAACAGATCAATATGCACATCCAG 57.613 37.500 0.00 0.00 0.00 3.86
4790 5092 3.791973 ACGTCTGGATCAGTTCTGATC 57.208 47.619 25.69 25.69 42.82 2.92
4989 5298 3.498661 GGGACATCAAGGAAGGAAAGTGT 60.499 47.826 0.00 0.00 0.00 3.55
4994 5303 3.893753 TTTGGGACATCAAGGAAGGAA 57.106 42.857 0.00 0.00 39.30 3.36
4995 5304 3.893753 TTTTGGGACATCAAGGAAGGA 57.106 42.857 0.00 0.00 39.30 3.36
4996 5305 4.088634 TGATTTTGGGACATCAAGGAAGG 58.911 43.478 0.00 0.00 39.30 3.46
4997 5306 5.186409 ACATGATTTTGGGACATCAAGGAAG 59.814 40.000 0.00 0.00 39.30 3.46
5107 5470 4.159321 TGACTGTTTGAGCATAGAGAGAGG 59.841 45.833 0.00 0.00 0.00 3.69
5155 5518 6.946009 TGTAGAGCTGTATGTATGCCTGTATA 59.054 38.462 0.00 0.00 0.00 1.47
5166 5529 3.618594 CGTGCAAATGTAGAGCTGTATGT 59.381 43.478 0.00 0.00 0.00 2.29
5173 5536 0.179189 GGCACGTGCAAATGTAGAGC 60.179 55.000 38.60 15.88 44.36 4.09
5252 5619 7.509318 TGCTCTTGGCTTTTATATAGAGGACTA 59.491 37.037 0.00 0.00 42.39 2.59
5589 5984 8.534954 AGTTTACTACTGCAGATAGGAACATA 57.465 34.615 23.35 4.21 35.19 2.29
6093 6507 4.056050 TCGATCTGATGACTCAATGCATG 58.944 43.478 0.00 0.00 0.00 4.06
6094 6508 4.056740 GTCGATCTGATGACTCAATGCAT 58.943 43.478 0.00 0.00 32.37 3.96
6095 6509 3.119029 TGTCGATCTGATGACTCAATGCA 60.119 43.478 15.94 0.00 36.10 3.96
6096 6510 3.451526 TGTCGATCTGATGACTCAATGC 58.548 45.455 15.94 0.00 36.10 3.56
6175 6593 4.475944 CGGGCAAACTCAACTAAAAGATG 58.524 43.478 0.00 0.00 0.00 2.90
6176 6594 3.506067 CCGGGCAAACTCAACTAAAAGAT 59.494 43.478 0.00 0.00 0.00 2.40
6177 6595 2.882137 CCGGGCAAACTCAACTAAAAGA 59.118 45.455 0.00 0.00 0.00 2.52
6178 6596 2.030274 CCCGGGCAAACTCAACTAAAAG 60.030 50.000 8.08 0.00 0.00 2.27
6233 6651 4.560128 GAGCGATATATCTGAAGTTGCCA 58.440 43.478 10.93 0.00 0.00 4.92
6285 6703 4.690122 CCGGTATATATAGCTTTTCCCGG 58.310 47.826 17.49 16.74 45.47 5.73
6356 6780 0.179113 CATGGGCCGGCAAAACATAC 60.179 55.000 30.85 7.76 0.00 2.39
6438 6866 3.441572 CACAACTAATCAAAGAGGCCCAG 59.558 47.826 0.00 0.00 0.00 4.45
6764 7202 3.146847 GGGAGGCGAAAGAAAGAAAGAA 58.853 45.455 0.00 0.00 0.00 2.52
6765 7203 2.105821 TGGGAGGCGAAAGAAAGAAAGA 59.894 45.455 0.00 0.00 0.00 2.52
6766 7204 2.226674 GTGGGAGGCGAAAGAAAGAAAG 59.773 50.000 0.00 0.00 0.00 2.62
6767 7205 2.158667 AGTGGGAGGCGAAAGAAAGAAA 60.159 45.455 0.00 0.00 0.00 2.52
6768 7206 1.420138 AGTGGGAGGCGAAAGAAAGAA 59.580 47.619 0.00 0.00 0.00 2.52
6769 7207 1.056660 AGTGGGAGGCGAAAGAAAGA 58.943 50.000 0.00 0.00 0.00 2.52
6770 7208 1.537202 CAAGTGGGAGGCGAAAGAAAG 59.463 52.381 0.00 0.00 0.00 2.62
6771 7209 1.133915 ACAAGTGGGAGGCGAAAGAAA 60.134 47.619 0.00 0.00 0.00 2.52
6772 7210 0.472471 ACAAGTGGGAGGCGAAAGAA 59.528 50.000 0.00 0.00 0.00 2.52
6773 7211 0.472471 AACAAGTGGGAGGCGAAAGA 59.528 50.000 0.00 0.00 0.00 2.52
6774 7212 0.875059 GAACAAGTGGGAGGCGAAAG 59.125 55.000 0.00 0.00 0.00 2.62
6775 7213 0.882927 CGAACAAGTGGGAGGCGAAA 60.883 55.000 0.00 0.00 0.00 3.46
6840 7286 2.563427 GCGGTGCTGGAAAAGAGC 59.437 61.111 0.00 0.00 36.95 4.09
6841 7287 2.335712 GGGCGGTGCTGGAAAAGAG 61.336 63.158 0.00 0.00 0.00 2.85
6842 7288 2.282180 GGGCGGTGCTGGAAAAGA 60.282 61.111 0.00 0.00 0.00 2.52
6843 7289 2.146073 CTTGGGCGGTGCTGGAAAAG 62.146 60.000 0.00 0.00 0.00 2.27
6869 7315 3.270877 GGGCGATCTACATTTTCACACT 58.729 45.455 0.00 0.00 0.00 3.55
6870 7316 2.030457 CGGGCGATCTACATTTTCACAC 59.970 50.000 0.00 0.00 0.00 3.82
6871 7317 2.276201 CGGGCGATCTACATTTTCACA 58.724 47.619 0.00 0.00 0.00 3.58
6882 7328 4.514577 CGGTCAAGCGGGCGATCT 62.515 66.667 0.00 0.00 0.00 2.75
6901 7347 7.801716 AGTTAATTAATTAAGCTGATGCGGA 57.198 32.000 18.76 0.00 45.42 5.54
6956 7405 4.388469 TGCTTTGCAATCTTTTTAATCGGC 59.612 37.500 0.00 0.00 34.76 5.54
6957 7406 6.464895 TTGCTTTGCAATCTTTTTAATCGG 57.535 33.333 0.00 0.00 43.99 4.18
6986 7440 4.214383 GGCGACGACGACGATCGA 62.214 66.667 24.34 0.00 45.13 3.59
7033 7490 2.205074 AGCAATCGATCGTTGATGGAC 58.795 47.619 24.74 12.47 30.25 4.02
7041 7498 1.043116 TCCAGGGAGCAATCGATCGT 61.043 55.000 15.94 0.00 0.00 3.73
7043 7500 0.755686 AGTCCAGGGAGCAATCGATC 59.244 55.000 0.00 0.00 0.00 3.69
7044 7501 0.467384 CAGTCCAGGGAGCAATCGAT 59.533 55.000 0.00 0.00 0.00 3.59
7045 7502 1.617018 CCAGTCCAGGGAGCAATCGA 61.617 60.000 0.00 0.00 0.00 3.59
7046 7503 1.153289 CCAGTCCAGGGAGCAATCG 60.153 63.158 0.00 0.00 0.00 3.34


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

AutoCloner maintained by Alex Coulton.