Multiple sequence alignment - TraesCS6D01G178000

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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 TraesCS6D01G178000 chr6D 100.000 4719 0 0 1 4719 183711525 183706807 0.000000e+00 8715.0
1 TraesCS6D01G178000 chr6A 96.880 2853 73 8 958 3803 229083951 229086794 0.000000e+00 4761.0
2 TraesCS6D01G178000 chr6A 93.383 801 39 12 39 835 229082237 229083027 0.000000e+00 1173.0
3 TraesCS6D01G178000 chr6A 92.982 798 37 10 3927 4719 229086793 229087576 0.000000e+00 1146.0
4 TraesCS6D01G178000 chr6A 92.233 103 8 0 861 963 229083541 229083643 3.810000e-31 147.0
5 TraesCS6D01G178000 chr6B 96.633 2851 77 12 999 3841 304895934 304893095 0.000000e+00 4715.0
6 TraesCS6D01G178000 chr6B 92.335 835 46 11 2 826 304897712 304896886 0.000000e+00 1171.0
7 TraesCS6D01G178000 chr6B 91.691 686 38 9 3927 4606 304893136 304892464 0.000000e+00 933.0
8 TraesCS6D01G178000 chr6B 96.610 118 3 1 4602 4719 304815728 304815612 1.340000e-45 195.0
9 TraesCS6D01G178000 chr7D 89.450 218 21 2 614 830 5173695 5173479 1.670000e-69 274.0
10 TraesCS6D01G178000 chr7D 77.528 445 60 22 4294 4703 117573585 117574024 1.020000e-56 231.0
11 TraesCS6D01G178000 chr7D 90.476 147 3 7 2976 3114 74596051 74596194 2.900000e-42 183.0
12 TraesCS6D01G178000 chr7D 80.808 99 15 3 4599 4693 561879238 561879140 1.820000e-09 75.0
13 TraesCS6D01G178000 chr7D 100.000 35 0 0 2180 2214 507424550 507424584 1.100000e-06 65.8
14 TraesCS6D01G178000 chr2B 82.456 285 42 7 4294 4573 447494211 447494492 4.720000e-60 243.0
15 TraesCS6D01G178000 chr2B 89.404 151 5 6 2977 3120 190023032 190022886 3.750000e-41 180.0
16 TraesCS6D01G178000 chr7A 86.697 218 27 2 614 830 610191229 610191445 1.700000e-59 241.0
17 TraesCS6D01G178000 chr7A 96.212 132 5 0 3797 3928 173720153 173720284 2.860000e-52 217.0
18 TraesCS6D01G178000 chr7A 80.420 286 49 6 4294 4573 121936946 121937230 1.330000e-50 211.0
19 TraesCS6D01G178000 chr7A 88.060 67 7 1 4225 4290 85106832 85106898 1.410000e-10 78.7
20 TraesCS6D01G178000 chr7A 80.374 107 15 4 4592 4693 646836094 646835989 5.060000e-10 76.8
21 TraesCS6D01G178000 chr3D 96.552 145 3 2 3792 3935 351086614 351086757 6.100000e-59 239.0
22 TraesCS6D01G178000 chr3D 94.000 150 7 2 3781 3928 614251069 614251218 4.750000e-55 226.0
23 TraesCS6D01G178000 chr3D 78.014 282 51 10 4298 4573 545383129 545382853 2.920000e-37 167.0
24 TraesCS6D01G178000 chr3D 100.000 35 0 0 2180 2214 365921888 365921922 1.100000e-06 65.8
25 TraesCS6D01G178000 chr1B 97.778 135 3 0 3794 3928 623731977 623732111 2.840000e-57 233.0
26 TraesCS6D01G178000 chr1B 100.000 34 0 0 2180 2213 268400013 268400046 3.940000e-06 63.9
27 TraesCS6D01G178000 chr2D 81.724 290 41 9 4294 4576 376052777 376052493 1.020000e-56 231.0
28 TraesCS6D01G178000 chr2A 96.403 139 5 0 3794 3932 630094756 630094618 3.670000e-56 230.0
29 TraesCS6D01G178000 chr2A 81.661 289 41 11 4294 4576 764817142 764816860 3.670000e-56 230.0
30 TraesCS6D01G178000 chr2A 95.172 145 4 2 3789 3931 41235664 41235521 4.750000e-55 226.0
31 TraesCS6D01G178000 chr2A 80.000 285 42 12 4294 4573 684197509 684197783 3.730000e-46 196.0
32 TraesCS6D01G178000 chr3A 96.350 137 5 0 3795 3931 529615404 529615268 4.750000e-55 226.0
33 TraesCS6D01G178000 chr3A 79.585 289 49 9 4294 4576 23920528 23920244 1.040000e-46 198.0
34 TraesCS6D01G178000 chr3A 89.333 150 5 5 2976 3118 383691074 383690929 1.350000e-40 178.0
35 TraesCS6D01G178000 chr3A 97.297 37 0 1 2180 2216 158356929 158356894 1.420000e-05 62.1
36 TraesCS6D01G178000 chr4D 95.683 139 6 0 3790 3928 106682240 106682378 1.710000e-54 224.0
37 TraesCS6D01G178000 chr1D 95.714 140 4 2 3791 3930 265352336 265352199 1.710000e-54 224.0
38 TraesCS6D01G178000 chr5D 90.667 150 6 3 2970 3114 528717282 528717428 4.820000e-45 193.0
39 TraesCS6D01G178000 chr5A 90.667 150 6 3 2970 3114 656872289 656872435 4.820000e-45 193.0
40 TraesCS6D01G178000 chr5B 90.000 150 7 2 2970 3114 665744473 665744619 2.240000e-43 187.0
41 TraesCS6D01G178000 chr5B 100.000 34 0 0 2181 2214 34898360 34898393 3.940000e-06 63.9
42 TraesCS6D01G178000 chr5B 100.000 34 0 0 2182 2215 44628343 44628376 3.940000e-06 63.9
43 TraesCS6D01G178000 chrUn 87.500 160 10 3 2970 3122 96471178 96471022 4.850000e-40 176.0
44 TraesCS6D01G178000 chrUn 80.531 113 10 10 16 120 103388418 103388310 5.060000e-10 76.8
45 TraesCS6D01G178000 chrUn 92.683 41 3 0 2177 2217 100215115 100215075 5.100000e-05 60.2
46 TraesCS6D01G178000 chr7B 77.686 242 42 12 4302 4535 119182098 119182335 2.290000e-28 137.0
47 TraesCS6D01G178000 chr4A 80.892 157 18 11 3 152 677961225 677961376 3.860000e-21 113.0


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 TraesCS6D01G178000 chr6D 183706807 183711525 4718 True 8715.00 8715 100.0000 1 4719 1 chr6D.!!$R1 4718
1 TraesCS6D01G178000 chr6A 229082237 229087576 5339 False 1806.75 4761 93.8695 39 4719 4 chr6A.!!$F1 4680
2 TraesCS6D01G178000 chr6B 304892464 304897712 5248 True 2273.00 4715 93.5530 2 4606 3 chr6B.!!$R2 4604

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
835 1340 0.175760 TCGGAGCACATAAGGAGCAC 59.824 55.0 0.00 0.0 0.00 4.40 F
1720 2538 0.035056 AAGGATGCTAGTGCCGCTTT 60.035 50.0 0.00 0.0 38.71 3.51 F
1726 2544 0.313987 GCTAGTGCCGCTTTTGGTTT 59.686 50.0 0.00 0.0 0.00 3.27 F
3359 4183 0.381801 CACGTGCTGCCTTTTTGACT 59.618 50.0 0.82 0.0 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1901 2719 1.285962 AGCACAACTATCCCCAGCAAT 59.714 47.619 0.0 0.0 0.00 3.56 R
3319 4142 0.601046 CTCAAGCACGCCAAGACAGA 60.601 55.000 0.0 0.0 0.00 3.41 R
3443 4267 1.003118 AGAGGCCGATGCTTGTAACAA 59.997 47.619 0.0 0.0 37.74 2.83 R
4597 5432 1.688772 ATGAACTGCCCTGCATGATC 58.311 50.000 0.0 0.0 38.13 2.92 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
91 93 3.513662 TCGGAAAACATATTTCGCTCGA 58.486 40.909 0.00 0.00 0.00 4.04
207 210 7.780008 TTTAAAACTGATTTCACTCGTCTCA 57.220 32.000 0.00 0.00 32.27 3.27
326 330 6.885735 ACCGATTTCACTTGTTTCAAAAAG 57.114 33.333 0.00 0.00 0.00 2.27
434 438 8.296713 GGTCTTTGCAACAAGAGTTCAAATATA 58.703 33.333 0.00 0.00 35.86 0.86
547 552 3.037549 AGAGAGAATGAGGATGTGGACC 58.962 50.000 0.00 0.00 0.00 4.46
661 667 9.663904 CACGTGATGTATAATCCCTAAAAATTG 57.336 33.333 10.90 0.00 0.00 2.32
743 750 1.934849 GCAGAAAACGCCCCAAACATC 60.935 52.381 0.00 0.00 0.00 3.06
761 768 1.154035 CCCGGAAATGACGCTTTGC 60.154 57.895 0.73 0.00 0.00 3.68
770 777 1.291184 TGACGCTTTGCTCCACATCG 61.291 55.000 0.00 0.00 0.00 3.84
772 779 2.679934 CGCTTTGCTCCACATCGCA 61.680 57.895 0.00 0.00 0.00 5.10
835 1340 0.175760 TCGGAGCACATAAGGAGCAC 59.824 55.000 0.00 0.00 0.00 4.40
836 1341 0.811616 CGGAGCACATAAGGAGCACC 60.812 60.000 0.00 0.00 35.95 5.01
838 1343 1.661341 GAGCACATAAGGAGCACCAG 58.339 55.000 2.07 0.00 38.94 4.00
846 1351 5.931146 CACATAAGGAGCACCAGATATTCTC 59.069 44.000 2.07 0.00 38.94 2.87
850 1355 1.964223 GAGCACCAGATATTCTCCCGA 59.036 52.381 0.00 0.00 0.00 5.14
853 1358 2.037772 GCACCAGATATTCTCCCGATGT 59.962 50.000 0.00 0.00 0.00 3.06
854 1359 3.657634 CACCAGATATTCTCCCGATGTG 58.342 50.000 0.00 0.00 0.00 3.21
855 1360 2.634940 ACCAGATATTCTCCCGATGTGG 59.365 50.000 0.00 0.00 39.36 4.17
856 1361 2.899900 CCAGATATTCTCCCGATGTGGA 59.100 50.000 0.00 0.00 42.00 4.02
864 1369 2.040544 CCCGATGTGGAGTTGTGGC 61.041 63.158 0.00 0.00 42.00 5.01
877 1382 1.786937 TTGTGGCCCAACTGATTTGT 58.213 45.000 0.00 0.00 32.71 2.83
882 1387 0.240945 GCCCAACTGATTTGTCGTGG 59.759 55.000 0.00 0.00 32.71 4.94
886 1391 2.162208 CCAACTGATTTGTCGTGGATGG 59.838 50.000 0.00 0.00 32.71 3.51
939 1444 2.280628 CAACTGGTTATTCGCCCTCTC 58.719 52.381 0.00 0.00 0.00 3.20
942 1447 1.069258 GGTTATTCGCCCTCTCCGG 59.931 63.158 0.00 0.00 0.00 5.14
1031 1849 2.777692 TGTCTCAAAGTGTTTCCCCTCT 59.222 45.455 0.00 0.00 0.00 3.69
1032 1850 3.181454 TGTCTCAAAGTGTTTCCCCTCTC 60.181 47.826 0.00 0.00 0.00 3.20
1033 1851 2.372172 TCTCAAAGTGTTTCCCCTCTCC 59.628 50.000 0.00 0.00 0.00 3.71
1034 1852 1.071699 TCAAAGTGTTTCCCCTCTCCG 59.928 52.381 0.00 0.00 0.00 4.63
1035 1853 0.250770 AAAGTGTTTCCCCTCTCCGC 60.251 55.000 0.00 0.00 0.00 5.54
1036 1854 2.046217 GTGTTTCCCCTCTCCGCC 60.046 66.667 0.00 0.00 0.00 6.13
1212 2030 3.644399 GACCACTTCGCCCTCGACC 62.644 68.421 0.00 0.00 45.43 4.79
1309 2127 3.181461 GGGTTAGGATCAGTGGACAGATG 60.181 52.174 0.00 0.00 0.00 2.90
1348 2166 1.884235 CAGACGGATCTTATTGGGGC 58.116 55.000 0.00 0.00 30.42 5.80
1690 2508 0.458197 CAGACTCTGCAGGAAGAGCG 60.458 60.000 15.13 0.00 46.46 5.03
1720 2538 0.035056 AAGGATGCTAGTGCCGCTTT 60.035 50.000 0.00 0.00 38.71 3.51
1726 2544 0.313987 GCTAGTGCCGCTTTTGGTTT 59.686 50.000 0.00 0.00 0.00 3.27
1901 2719 1.708193 CGATTTCCATCGCTGCAGCA 61.708 55.000 36.03 23.76 45.66 4.41
2110 2928 8.820153 AATCCTGAAGAATGAAATTAGAGCTT 57.180 30.769 0.00 0.00 36.07 3.74
2304 3122 5.342806 TCAAATTCAGACAGCGTAGTTTG 57.657 39.130 0.00 0.00 0.00 2.93
2305 3123 3.813529 AATTCAGACAGCGTAGTTTGC 57.186 42.857 0.00 0.00 0.00 3.68
2320 3138 6.183359 GCGTAGTTTGCTTTCTGTAAAAATCG 60.183 38.462 0.00 0.00 32.34 3.34
2370 3188 5.643379 TGCCACTATTTTTGTGATCCTTC 57.357 39.130 0.00 0.00 37.60 3.46
2373 3191 5.393461 GCCACTATTTTTGTGATCCTTCCTG 60.393 44.000 0.00 0.00 37.60 3.86
2385 3204 5.005740 TGATCCTTCCTGTTTTCTCATGTG 58.994 41.667 0.00 0.00 0.00 3.21
2465 3284 2.706339 AGATAGAACCTGCTTGCTGG 57.294 50.000 15.42 15.42 0.00 4.85
2745 3566 1.462731 AAACTGCCGCATCAAGCCAA 61.463 50.000 0.00 0.00 41.38 4.52
2751 3572 1.213537 CGCATCAAGCCAAACCCAG 59.786 57.895 0.00 0.00 41.38 4.45
2772 3593 5.163693 CCAGTAATTACGATTTGGTTCCCAC 60.164 44.000 9.91 0.00 30.78 4.61
2776 3597 0.768622 ACGATTTGGTTCCCACTGGA 59.231 50.000 0.00 0.00 39.54 3.86
2813 3634 8.503458 AATTCAACTGGATCTTAGTGAATGAG 57.497 34.615 17.57 0.00 32.02 2.90
2852 3673 7.796838 TCAAACTATTCAAACTGACAGAATCG 58.203 34.615 10.08 0.00 34.19 3.34
3125 3948 3.194968 CGGAGGGAGTACATAACAGTTGT 59.805 47.826 0.00 0.00 0.00 3.32
3221 4044 5.134725 AGTCCTAGGGATTTCATGCAAAT 57.865 39.130 9.46 3.67 37.41 2.32
3244 4067 8.738645 AATTCAGGACTGGAAATATTAGACAC 57.261 34.615 0.00 0.00 0.00 3.67
3319 4142 2.566724 CCCATTAAAACAGTGGCATGGT 59.433 45.455 0.00 0.00 30.90 3.55
3359 4183 0.381801 CACGTGCTGCCTTTTTGACT 59.618 50.000 0.82 0.00 0.00 3.41
3500 4325 3.135712 TGTGTGTGAACAATACAGAGGGT 59.864 43.478 0.00 0.00 0.00 4.34
3565 4390 1.149987 GATCGCAAAACGTGTACCCA 58.850 50.000 0.00 0.00 44.19 4.51
3638 4463 1.059098 TGAGCCAGCCTTCTTGAAGA 58.941 50.000 11.53 0.00 0.00 2.87
3811 4637 8.754991 ATCAGATATATTTACTACTCCCTCCG 57.245 38.462 0.00 0.00 0.00 4.63
3812 4638 7.696981 TCAGATATATTTACTACTCCCTCCGT 58.303 38.462 0.00 0.00 0.00 4.69
3813 4639 7.828223 TCAGATATATTTACTACTCCCTCCGTC 59.172 40.741 0.00 0.00 0.00 4.79
3814 4640 7.067251 CAGATATATTTACTACTCCCTCCGTCC 59.933 44.444 0.00 0.00 0.00 4.79
3815 4641 2.149973 TTTACTACTCCCTCCGTCCC 57.850 55.000 0.00 0.00 0.00 4.46
3816 4642 1.002069 TTACTACTCCCTCCGTCCCA 58.998 55.000 0.00 0.00 0.00 4.37
3817 4643 1.002069 TACTACTCCCTCCGTCCCAA 58.998 55.000 0.00 0.00 0.00 4.12
3818 4644 0.115745 ACTACTCCCTCCGTCCCAAA 59.884 55.000 0.00 0.00 0.00 3.28
3819 4645 1.272807 CTACTCCCTCCGTCCCAAAA 58.727 55.000 0.00 0.00 0.00 2.44
3820 4646 1.838077 CTACTCCCTCCGTCCCAAAAT 59.162 52.381 0.00 0.00 0.00 1.82
3821 4647 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
3822 4648 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
3823 4649 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
3824 4650 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
3825 4651 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
3826 4652 2.514803 CCTCCGTCCCAAAATTCTTGT 58.485 47.619 0.00 0.00 0.00 3.16
3827 4653 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
3828 4654 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
3829 4655 3.821033 CTCCGTCCCAAAATTCTTGTCTT 59.179 43.478 0.00 0.00 0.00 3.01
3830 4656 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
3831 4657 5.001232 TCCGTCCCAAAATTCTTGTCTTAG 58.999 41.667 0.00 0.00 0.00 2.18
3832 4658 5.001232 CCGTCCCAAAATTCTTGTCTTAGA 58.999 41.667 0.00 0.00 0.00 2.10
3833 4659 5.648092 CCGTCCCAAAATTCTTGTCTTAGAT 59.352 40.000 0.00 0.00 0.00 1.98
3834 4660 6.151144 CCGTCCCAAAATTCTTGTCTTAGATT 59.849 38.462 0.00 0.00 0.00 2.40
3835 4661 7.309194 CCGTCCCAAAATTCTTGTCTTAGATTT 60.309 37.037 0.00 0.00 0.00 2.17
3836 4662 7.538678 CGTCCCAAAATTCTTGTCTTAGATTTG 59.461 37.037 0.00 0.00 29.84 2.32
3837 4663 8.360390 GTCCCAAAATTCTTGTCTTAGATTTGT 58.640 33.333 0.00 0.00 28.79 2.83
3838 4664 8.576442 TCCCAAAATTCTTGTCTTAGATTTGTC 58.424 33.333 0.00 0.00 28.79 3.18
3839 4665 8.579863 CCCAAAATTCTTGTCTTAGATTTGTCT 58.420 33.333 0.00 0.00 28.79 3.41
3847 4673 8.622157 TCTTGTCTTAGATTTGTCTAGATACGG 58.378 37.037 0.00 0.00 0.00 4.02
3848 4674 8.515695 TTGTCTTAGATTTGTCTAGATACGGA 57.484 34.615 0.00 0.00 0.00 4.69
3849 4675 8.693120 TGTCTTAGATTTGTCTAGATACGGAT 57.307 34.615 0.00 0.00 0.00 4.18
3850 4676 8.568794 TGTCTTAGATTTGTCTAGATACGGATG 58.431 37.037 0.00 0.00 0.00 3.51
3851 4677 8.569641 GTCTTAGATTTGTCTAGATACGGATGT 58.430 37.037 0.00 0.00 0.00 3.06
3852 4678 9.788889 TCTTAGATTTGTCTAGATACGGATGTA 57.211 33.333 0.00 0.00 34.45 2.29
3869 4695 8.792831 ACGGATGTATCTAATACTAAAACGTG 57.207 34.615 0.00 0.00 36.70 4.49
3870 4696 7.864379 ACGGATGTATCTAATACTAAAACGTGG 59.136 37.037 0.00 0.00 36.70 4.94
3871 4697 7.148853 CGGATGTATCTAATACTAAAACGTGGC 60.149 40.741 0.00 0.00 36.70 5.01
3872 4698 7.871463 GGATGTATCTAATACTAAAACGTGGCT 59.129 37.037 0.00 0.00 36.70 4.75
3873 4699 9.257651 GATGTATCTAATACTAAAACGTGGCTT 57.742 33.333 0.00 0.00 36.70 4.35
3874 4700 8.415192 TGTATCTAATACTAAAACGTGGCTTG 57.585 34.615 0.00 0.00 36.70 4.01
3875 4701 8.252417 TGTATCTAATACTAAAACGTGGCTTGA 58.748 33.333 0.00 0.00 36.70 3.02
3876 4702 9.257651 GTATCTAATACTAAAACGTGGCTTGAT 57.742 33.333 0.00 0.00 33.00 2.57
3878 4704 8.638685 TCTAATACTAAAACGTGGCTTGATAC 57.361 34.615 0.00 0.00 0.00 2.24
3879 4705 8.252417 TCTAATACTAAAACGTGGCTTGATACA 58.748 33.333 0.00 0.00 0.00 2.29
3880 4706 7.859325 AATACTAAAACGTGGCTTGATACAT 57.141 32.000 0.00 0.00 0.00 2.29
3881 4707 5.796350 ACTAAAACGTGGCTTGATACATC 57.204 39.130 0.00 0.00 0.00 3.06
3882 4708 4.634443 ACTAAAACGTGGCTTGATACATCC 59.366 41.667 0.00 0.00 0.00 3.51
3883 4709 1.651987 AACGTGGCTTGATACATCCG 58.348 50.000 0.00 0.00 0.00 4.18
3884 4710 0.535335 ACGTGGCTTGATACATCCGT 59.465 50.000 0.00 0.00 0.00 4.69
3885 4711 1.752498 ACGTGGCTTGATACATCCGTA 59.248 47.619 0.00 0.00 0.00 4.02
3886 4712 2.364324 ACGTGGCTTGATACATCCGTAT 59.636 45.455 0.00 0.00 41.16 3.06
3887 4713 3.181469 ACGTGGCTTGATACATCCGTATT 60.181 43.478 0.00 0.00 38.48 1.89
3888 4714 3.807622 CGTGGCTTGATACATCCGTATTT 59.192 43.478 0.00 0.00 38.48 1.40
3889 4715 4.986034 CGTGGCTTGATACATCCGTATTTA 59.014 41.667 0.00 0.00 38.48 1.40
3890 4716 5.118664 CGTGGCTTGATACATCCGTATTTAG 59.881 44.000 0.00 0.00 38.48 1.85
3891 4717 6.220930 GTGGCTTGATACATCCGTATTTAGA 58.779 40.000 0.00 0.00 38.48 2.10
3892 4718 6.145696 GTGGCTTGATACATCCGTATTTAGAC 59.854 42.308 0.00 0.00 38.48 2.59
3893 4719 6.183360 TGGCTTGATACATCCGTATTTAGACA 60.183 38.462 0.00 0.00 38.48 3.41
3894 4720 6.704493 GGCTTGATACATCCGTATTTAGACAA 59.296 38.462 0.00 0.00 38.48 3.18
3895 4721 7.225931 GGCTTGATACATCCGTATTTAGACAAA 59.774 37.037 0.00 0.00 38.48 2.83
3896 4722 8.774586 GCTTGATACATCCGTATTTAGACAAAT 58.225 33.333 0.00 0.00 38.48 2.32
3903 4729 9.530633 ACATCCGTATTTAGACAAATCTAAGAC 57.469 33.333 0.00 0.83 45.93 3.01
3904 4730 9.529325 CATCCGTATTTAGACAAATCTAAGACA 57.471 33.333 9.81 0.00 45.93 3.41
3906 4732 9.582431 TCCGTATTTAGACAAATCTAAGACAAG 57.418 33.333 9.81 3.88 45.93 3.16
3907 4733 9.582431 CCGTATTTAGACAAATCTAAGACAAGA 57.418 33.333 9.81 0.00 45.93 3.02
3915 4741 8.579863 AGACAAATCTAAGACAAGAATTTTGGG 58.420 33.333 0.00 0.00 33.04 4.12
3916 4742 8.477419 ACAAATCTAAGACAAGAATTTTGGGA 57.523 30.769 0.00 0.00 33.04 4.37
3917 4743 8.923270 ACAAATCTAAGACAAGAATTTTGGGAA 58.077 29.630 0.00 0.00 33.04 3.97
3918 4744 9.415544 CAAATCTAAGACAAGAATTTTGGGAAG 57.584 33.333 5.68 0.00 28.49 3.46
3919 4745 7.709149 ATCTAAGACAAGAATTTTGGGAAGG 57.291 36.000 5.68 0.00 0.00 3.46
3920 4746 6.848069 TCTAAGACAAGAATTTTGGGAAGGA 58.152 36.000 5.68 0.00 0.00 3.36
3921 4747 6.942576 TCTAAGACAAGAATTTTGGGAAGGAG 59.057 38.462 5.68 0.00 0.00 3.69
3922 4748 4.411013 AGACAAGAATTTTGGGAAGGAGG 58.589 43.478 5.68 0.00 0.00 4.30
3923 4749 3.510459 ACAAGAATTTTGGGAAGGAGGG 58.490 45.455 5.68 0.00 0.00 4.30
3924 4750 3.142028 ACAAGAATTTTGGGAAGGAGGGA 59.858 43.478 5.68 0.00 0.00 4.20
3925 4751 3.746792 AGAATTTTGGGAAGGAGGGAG 57.253 47.619 0.00 0.00 0.00 4.30
3926 4752 2.996742 AGAATTTTGGGAAGGAGGGAGT 59.003 45.455 0.00 0.00 0.00 3.85
3927 4753 4.183916 AGAATTTTGGGAAGGAGGGAGTA 58.816 43.478 0.00 0.00 0.00 2.59
3938 4764 5.222296 GGAAGGAGGGAGTATTAGCCTAGTA 60.222 48.000 0.00 0.00 0.00 1.82
3964 4790 8.736244 ACACTACAACAGTTTTTGTCTTATGTT 58.264 29.630 0.00 0.00 39.73 2.71
3965 4791 9.221775 CACTACAACAGTTTTTGTCTTATGTTC 57.778 33.333 0.00 0.00 39.73 3.18
4032 4858 5.132648 TCCTAAATGTGCCATTACTCTGGAT 59.867 40.000 1.52 0.00 38.69 3.41
4055 4881 7.769044 GGATATATGTTTTATCTATGCGGGTGT 59.231 37.037 0.00 0.00 0.00 4.16
4101 4929 2.410785 GGTGCTTTACCGTTGAAACC 57.589 50.000 0.00 0.00 40.26 3.27
4112 4940 3.619233 CGTTGAAACCGGAAGAACATT 57.381 42.857 9.46 0.00 0.00 2.71
4272 5102 3.443681 CGGTGGTAAATGAGCAAGGATTT 59.556 43.478 0.00 0.00 37.28 2.17
4288 5118 5.277857 AGGATTTGGTCGTTGTATCCTAG 57.722 43.478 0.00 0.00 42.43 3.02
4296 5126 6.802608 TGGTCGTTGTATCCTAGTTTGATAG 58.197 40.000 0.00 0.00 0.00 2.08
4311 5143 2.540383 TGATAGTGTCTTCACCCTGCT 58.460 47.619 0.00 0.00 44.83 4.24
4332 5164 7.159322 TGCTTTTAAAGGACAACTACACAAA 57.841 32.000 6.84 0.00 0.00 2.83
4458 5291 7.126061 TCTCTGAAGATCAAACCTCATACCTA 58.874 38.462 0.00 0.00 0.00 3.08
4652 5487 3.006323 TGAGAAGCAAGAGAGAGAACCAC 59.994 47.826 0.00 0.00 0.00 4.16
4655 5490 2.334023 AGCAAGAGAGAGAACCACCTT 58.666 47.619 0.00 0.00 0.00 3.50
4656 5491 3.511477 AGCAAGAGAGAGAACCACCTTA 58.489 45.455 0.00 0.00 0.00 2.69
4657 5492 3.513515 AGCAAGAGAGAGAACCACCTTAG 59.486 47.826 0.00 0.00 0.00 2.18
4697 5532 7.499232 CCCATAGTCCAAAGAAACTACTAATGG 59.501 40.741 0.00 0.00 31.15 3.16
4699 5534 5.254115 AGTCCAAAGAAACTACTAATGGGC 58.746 41.667 0.00 0.00 34.20 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 7.806690 TCCGAAATGAGTGAATAAGTTTTGAG 58.193 34.615 0.00 0.00 0.00 3.02
172 175 9.748708 TGAAATCAGTTTTAAAAATGAGTGGAG 57.251 29.630 28.40 5.50 44.75 3.86
207 210 6.899393 TGAAATGAGTGAGGTATGCTTTTT 57.101 33.333 0.00 0.00 0.00 1.94
547 552 0.605589 GAGCACCAGATATCCTCCCG 59.394 60.000 0.00 0.00 0.00 5.14
697 704 5.320549 ACATTGATGCTGGATTTGTCTTC 57.679 39.130 0.00 0.00 0.00 2.87
743 750 1.154035 GCAAAGCGTCATTTCCGGG 60.154 57.895 0.00 0.00 0.00 5.73
772 779 1.968493 GATCCAATGGGCAGCATCATT 59.032 47.619 0.00 7.23 34.31 2.57
835 1340 2.899900 TCCACATCGGGAGAATATCTGG 59.100 50.000 0.00 0.00 45.37 3.86
846 1351 2.040544 GCCACAACTCCACATCGGG 61.041 63.158 0.00 0.00 34.36 5.14
850 1355 1.541169 TTGGGCCACAACTCCACAT 59.459 52.632 5.23 0.00 33.18 3.21
858 1363 1.686052 GACAAATCAGTTGGGCCACAA 59.314 47.619 5.23 3.45 41.97 3.33
859 1364 1.327303 GACAAATCAGTTGGGCCACA 58.673 50.000 5.23 0.00 41.97 4.17
864 1369 1.890876 TCCACGACAAATCAGTTGGG 58.109 50.000 0.00 0.00 41.97 4.12
877 1382 1.452110 CACAAATCAGCCATCCACGA 58.548 50.000 0.00 0.00 0.00 4.35
882 1387 1.733389 CGCAACCACAAATCAGCCATC 60.733 52.381 0.00 0.00 0.00 3.51
886 1391 2.677836 TCTATCGCAACCACAAATCAGC 59.322 45.455 0.00 0.00 0.00 4.26
939 1444 2.481289 AGAGAGGAAGAAAAAGCCGG 57.519 50.000 0.00 0.00 0.00 6.13
942 1447 4.004314 GGGTGTAGAGAGGAAGAAAAAGC 58.996 47.826 0.00 0.00 0.00 3.51
1212 2030 1.204113 AAGCCAGTGGAGGAAGAGGG 61.204 60.000 15.20 0.00 0.00 4.30
1309 2127 1.399791 GCTCTTGCATAGCAGAACCAC 59.600 52.381 14.83 0.00 40.61 4.16
1348 2166 3.499737 GTGCGCTGGAATCCACCG 61.500 66.667 12.32 12.32 35.89 4.94
1690 2508 1.454663 GCATCCTTCCCTTGCTCCC 60.455 63.158 0.00 0.00 33.61 4.30
1726 2544 2.410322 ATCGCCACCAGGTTCAGCAA 62.410 55.000 6.79 0.00 37.19 3.91
1901 2719 1.285962 AGCACAACTATCCCCAGCAAT 59.714 47.619 0.00 0.00 0.00 3.56
1975 2793 6.801539 TTACCTTATCATCAAATGCGATCC 57.198 37.500 0.00 0.00 0.00 3.36
2110 2928 6.295249 TCAATCAGATGAACAAACAGGTACA 58.705 36.000 0.00 0.00 0.00 2.90
2304 3122 3.896122 TGGTGCGATTTTTACAGAAAGC 58.104 40.909 0.00 0.00 0.00 3.51
2305 3123 5.698832 TGATGGTGCGATTTTTACAGAAAG 58.301 37.500 0.00 0.00 0.00 2.62
2320 3138 3.282021 ACCAGACAATACATGATGGTGC 58.718 45.455 0.00 0.00 44.99 5.01
2370 3188 8.739039 TCCATAATAAACACATGAGAAAACAGG 58.261 33.333 0.00 0.00 0.00 4.00
2439 3258 4.118410 CAAGCAGGTTCTATCTACAGCAG 58.882 47.826 0.00 0.00 0.00 4.24
2465 3284 5.067283 ACACACTGGTCACCTTAAATTGAAC 59.933 40.000 0.00 0.00 0.00 3.18
2745 3566 5.416639 GGAACCAAATCGTAATTACTGGGTT 59.583 40.000 20.02 16.53 30.12 4.11
2772 3593 8.571336 CCAGTTGAATTATATAAAGGCTTCCAG 58.429 37.037 0.00 0.00 0.00 3.86
2852 3673 6.484977 GGAGTTAATCATGAGAATCTGGGAAC 59.515 42.308 0.09 0.00 34.92 3.62
3026 3849 6.597672 ACTGAAATGAGTAACACACTGAAACA 59.402 34.615 0.00 0.00 37.72 2.83
3221 4044 6.629515 CGGTGTCTAATATTTCCAGTCCTGAA 60.630 42.308 0.00 0.00 0.00 3.02
3319 4142 0.601046 CTCAAGCACGCCAAGACAGA 60.601 55.000 0.00 0.00 0.00 3.41
3359 4183 4.566426 TGACATCCCACATTGACATGTA 57.434 40.909 0.00 0.00 42.14 2.29
3443 4267 1.003118 AGAGGCCGATGCTTGTAACAA 59.997 47.619 0.00 0.00 37.74 2.83
3500 4325 1.371183 CGGTCTGCAAACTGGGAGA 59.629 57.895 0.00 0.00 32.43 3.71
3565 4390 3.742640 GCACCAGACAAAGTTCTCAGAGT 60.743 47.826 0.00 0.00 0.00 3.24
3638 4463 6.388100 TCCAACAGGGAGATCTTCTTATGAAT 59.612 38.462 0.00 0.00 42.15 2.57
3803 4629 1.282157 AGAATTTTGGGACGGAGGGAG 59.718 52.381 0.00 0.00 0.00 4.30
3804 4630 1.368374 AGAATTTTGGGACGGAGGGA 58.632 50.000 0.00 0.00 0.00 4.20
3805 4631 1.818674 CAAGAATTTTGGGACGGAGGG 59.181 52.381 0.00 0.00 0.00 4.30
3806 4632 2.488153 GACAAGAATTTTGGGACGGAGG 59.512 50.000 0.00 0.00 0.00 4.30
3807 4633 3.412386 AGACAAGAATTTTGGGACGGAG 58.588 45.455 0.00 0.00 0.00 4.63
3808 4634 3.502123 AGACAAGAATTTTGGGACGGA 57.498 42.857 0.00 0.00 0.00 4.69
3809 4635 5.001232 TCTAAGACAAGAATTTTGGGACGG 58.999 41.667 0.00 0.00 0.00 4.79
3810 4636 6.743575 ATCTAAGACAAGAATTTTGGGACG 57.256 37.500 5.68 0.00 0.00 4.79
3811 4637 8.360390 ACAAATCTAAGACAAGAATTTTGGGAC 58.640 33.333 0.00 0.00 33.04 4.46
3812 4638 8.477419 ACAAATCTAAGACAAGAATTTTGGGA 57.523 30.769 0.00 0.00 33.04 4.37
3813 4639 8.579863 AGACAAATCTAAGACAAGAATTTTGGG 58.420 33.333 0.00 0.00 33.04 4.12
3821 4647 8.622157 CCGTATCTAGACAAATCTAAGACAAGA 58.378 37.037 0.00 0.00 36.98 3.02
3822 4648 8.622157 TCCGTATCTAGACAAATCTAAGACAAG 58.378 37.037 0.00 0.00 36.98 3.16
3823 4649 8.515695 TCCGTATCTAGACAAATCTAAGACAA 57.484 34.615 0.00 0.00 36.98 3.18
3824 4650 8.568794 CATCCGTATCTAGACAAATCTAAGACA 58.431 37.037 0.00 0.00 36.98 3.41
3825 4651 8.569641 ACATCCGTATCTAGACAAATCTAAGAC 58.430 37.037 0.00 0.00 36.98 3.01
3826 4652 8.693120 ACATCCGTATCTAGACAAATCTAAGA 57.307 34.615 0.00 0.00 36.98 2.10
3843 4669 9.882996 CACGTTTTAGTATTAGATACATCCGTA 57.117 33.333 0.00 0.00 38.21 4.02
3844 4670 7.864379 CCACGTTTTAGTATTAGATACATCCGT 59.136 37.037 0.00 0.00 38.21 4.69
3845 4671 7.148853 GCCACGTTTTAGTATTAGATACATCCG 60.149 40.741 0.00 0.00 38.21 4.18
3846 4672 7.871463 AGCCACGTTTTAGTATTAGATACATCC 59.129 37.037 0.00 0.00 38.21 3.51
3847 4673 8.813643 AGCCACGTTTTAGTATTAGATACATC 57.186 34.615 0.00 0.00 38.21 3.06
3848 4674 9.042008 CAAGCCACGTTTTAGTATTAGATACAT 57.958 33.333 0.00 0.00 38.21 2.29
3849 4675 8.252417 TCAAGCCACGTTTTAGTATTAGATACA 58.748 33.333 0.00 0.00 38.21 2.29
3850 4676 8.638685 TCAAGCCACGTTTTAGTATTAGATAC 57.361 34.615 0.00 0.00 35.99 2.24
3852 4678 9.257651 GTATCAAGCCACGTTTTAGTATTAGAT 57.742 33.333 0.00 0.00 0.00 1.98
3853 4679 8.252417 TGTATCAAGCCACGTTTTAGTATTAGA 58.748 33.333 0.00 0.00 0.00 2.10
3854 4680 8.415192 TGTATCAAGCCACGTTTTAGTATTAG 57.585 34.615 0.00 0.00 0.00 1.73
3855 4681 8.951787 ATGTATCAAGCCACGTTTTAGTATTA 57.048 30.769 0.00 0.00 0.00 0.98
3856 4682 7.012044 GGATGTATCAAGCCACGTTTTAGTATT 59.988 37.037 0.00 0.00 0.00 1.89
3857 4683 6.482308 GGATGTATCAAGCCACGTTTTAGTAT 59.518 38.462 0.00 0.00 0.00 2.12
3858 4684 5.813672 GGATGTATCAAGCCACGTTTTAGTA 59.186 40.000 0.00 0.00 0.00 1.82
3859 4685 4.634443 GGATGTATCAAGCCACGTTTTAGT 59.366 41.667 0.00 0.00 0.00 2.24
3860 4686 4.260212 CGGATGTATCAAGCCACGTTTTAG 60.260 45.833 0.00 0.00 0.00 1.85
3861 4687 3.619483 CGGATGTATCAAGCCACGTTTTA 59.381 43.478 0.00 0.00 0.00 1.52
3862 4688 2.418628 CGGATGTATCAAGCCACGTTTT 59.581 45.455 0.00 0.00 0.00 2.43
3863 4689 2.006888 CGGATGTATCAAGCCACGTTT 58.993 47.619 0.00 0.00 0.00 3.60
3864 4690 1.066430 ACGGATGTATCAAGCCACGTT 60.066 47.619 0.00 0.00 0.00 3.99
3865 4691 0.535335 ACGGATGTATCAAGCCACGT 59.465 50.000 0.00 0.00 0.00 4.49
3866 4692 2.502213 TACGGATGTATCAAGCCACG 57.498 50.000 0.00 0.00 0.00 4.94
3867 4693 6.145696 GTCTAAATACGGATGTATCAAGCCAC 59.854 42.308 0.00 0.00 40.42 5.01
3868 4694 6.183360 TGTCTAAATACGGATGTATCAAGCCA 60.183 38.462 0.00 0.00 40.42 4.75
3869 4695 6.220930 TGTCTAAATACGGATGTATCAAGCC 58.779 40.000 0.00 0.00 40.42 4.35
3870 4696 7.709269 TTGTCTAAATACGGATGTATCAAGC 57.291 36.000 0.00 0.00 40.42 4.01
3877 4703 9.530633 GTCTTAGATTTGTCTAAATACGGATGT 57.469 33.333 0.26 0.00 36.66 3.06
3878 4704 9.529325 TGTCTTAGATTTGTCTAAATACGGATG 57.471 33.333 0.26 0.00 36.66 3.51
3880 4706 9.582431 CTTGTCTTAGATTTGTCTAAATACGGA 57.418 33.333 0.26 0.00 36.66 4.69
3881 4707 9.582431 TCTTGTCTTAGATTTGTCTAAATACGG 57.418 33.333 0.26 0.99 36.66 4.02
3889 4715 8.579863 CCCAAAATTCTTGTCTTAGATTTGTCT 58.420 33.333 0.00 0.00 28.79 3.41
3890 4716 8.576442 TCCCAAAATTCTTGTCTTAGATTTGTC 58.424 33.333 0.00 0.00 28.79 3.18
3891 4717 8.477419 TCCCAAAATTCTTGTCTTAGATTTGT 57.523 30.769 0.00 0.00 28.79 2.83
3892 4718 9.415544 CTTCCCAAAATTCTTGTCTTAGATTTG 57.584 33.333 0.00 0.00 29.84 2.32
3893 4719 8.588472 CCTTCCCAAAATTCTTGTCTTAGATTT 58.412 33.333 0.00 0.00 0.00 2.17
3894 4720 7.950124 TCCTTCCCAAAATTCTTGTCTTAGATT 59.050 33.333 0.00 0.00 0.00 2.40
3895 4721 7.470192 TCCTTCCCAAAATTCTTGTCTTAGAT 58.530 34.615 0.00 0.00 0.00 1.98
3896 4722 6.848069 TCCTTCCCAAAATTCTTGTCTTAGA 58.152 36.000 0.00 0.00 0.00 2.10
3897 4723 6.151817 CCTCCTTCCCAAAATTCTTGTCTTAG 59.848 42.308 0.00 0.00 0.00 2.18
3898 4724 6.010219 CCTCCTTCCCAAAATTCTTGTCTTA 58.990 40.000 0.00 0.00 0.00 2.10
3899 4725 4.835056 CCTCCTTCCCAAAATTCTTGTCTT 59.165 41.667 0.00 0.00 0.00 3.01
3900 4726 4.411013 CCTCCTTCCCAAAATTCTTGTCT 58.589 43.478 0.00 0.00 0.00 3.41
3901 4727 3.511540 CCCTCCTTCCCAAAATTCTTGTC 59.488 47.826 0.00 0.00 0.00 3.18
3902 4728 3.142028 TCCCTCCTTCCCAAAATTCTTGT 59.858 43.478 0.00 0.00 0.00 3.16
3903 4729 3.766051 CTCCCTCCTTCCCAAAATTCTTG 59.234 47.826 0.00 0.00 0.00 3.02
3904 4730 3.402708 ACTCCCTCCTTCCCAAAATTCTT 59.597 43.478 0.00 0.00 0.00 2.52
3905 4731 2.996742 ACTCCCTCCTTCCCAAAATTCT 59.003 45.455 0.00 0.00 0.00 2.40
3906 4732 3.458044 ACTCCCTCCTTCCCAAAATTC 57.542 47.619 0.00 0.00 0.00 2.17
3907 4733 5.552430 AATACTCCCTCCTTCCCAAAATT 57.448 39.130 0.00 0.00 0.00 1.82
3908 4734 5.399152 GCTAATACTCCCTCCTTCCCAAAAT 60.399 44.000 0.00 0.00 0.00 1.82
3909 4735 4.079958 GCTAATACTCCCTCCTTCCCAAAA 60.080 45.833 0.00 0.00 0.00 2.44
3910 4736 3.458487 GCTAATACTCCCTCCTTCCCAAA 59.542 47.826 0.00 0.00 0.00 3.28
3911 4737 3.046374 GCTAATACTCCCTCCTTCCCAA 58.954 50.000 0.00 0.00 0.00 4.12
3912 4738 2.690840 GCTAATACTCCCTCCTTCCCA 58.309 52.381 0.00 0.00 0.00 4.37
3913 4739 1.979308 GGCTAATACTCCCTCCTTCCC 59.021 57.143 0.00 0.00 0.00 3.97
3914 4740 2.979177 AGGCTAATACTCCCTCCTTCC 58.021 52.381 0.00 0.00 0.00 3.46
3915 4741 4.743124 ACTAGGCTAATACTCCCTCCTTC 58.257 47.826 0.00 0.00 0.00 3.46
3916 4742 4.836255 ACTAGGCTAATACTCCCTCCTT 57.164 45.455 0.00 0.00 0.00 3.36
3917 4743 4.668812 TGTACTAGGCTAATACTCCCTCCT 59.331 45.833 13.63 0.00 0.00 3.69
3918 4744 4.766373 GTGTACTAGGCTAATACTCCCTCC 59.234 50.000 13.63 0.00 0.00 4.30
3919 4745 5.633117 AGTGTACTAGGCTAATACTCCCTC 58.367 45.833 13.63 1.37 0.00 4.30
3920 4746 5.666474 AGTGTACTAGGCTAATACTCCCT 57.334 43.478 13.63 5.10 0.00 4.20
3921 4747 6.302269 TGTAGTGTACTAGGCTAATACTCCC 58.698 44.000 13.63 5.46 0.00 4.30
3922 4748 7.284034 TGTTGTAGTGTACTAGGCTAATACTCC 59.716 40.741 13.63 5.29 0.00 3.85
3923 4749 8.218338 TGTTGTAGTGTACTAGGCTAATACTC 57.782 38.462 13.63 10.25 0.00 2.59
3924 4750 7.833183 ACTGTTGTAGTGTACTAGGCTAATACT 59.167 37.037 13.63 7.59 38.49 2.12
3925 4751 7.994194 ACTGTTGTAGTGTACTAGGCTAATAC 58.006 38.462 6.21 6.21 38.49 1.89
3926 4752 8.585471 AACTGTTGTAGTGTACTAGGCTAATA 57.415 34.615 0.00 0.00 40.26 0.98
3927 4753 7.477945 AACTGTTGTAGTGTACTAGGCTAAT 57.522 36.000 0.00 0.00 40.26 1.73
3938 4764 8.276252 ACATAAGACAAAAACTGTTGTAGTGT 57.724 30.769 0.00 0.00 41.78 3.55
4032 4858 8.911918 AAACACCCGCATAGATAAAACATATA 57.088 30.769 0.00 0.00 0.00 0.86
4072 4898 2.583143 GGTAAAGCACCCACATATCCC 58.417 52.381 0.00 0.00 42.07 3.85
4073 4899 2.218603 CGGTAAAGCACCCACATATCC 58.781 52.381 0.00 0.00 45.52 2.59
4101 4929 2.357637 ACACCACAACAATGTTCTTCCG 59.642 45.455 0.00 0.00 37.82 4.30
4112 4940 3.655615 AAAGAGGGTTACACCACAACA 57.344 42.857 0.00 0.00 41.02 3.33
4146 4974 2.104281 GGCACGTCCATAAGAGGGTTAT 59.896 50.000 0.00 0.00 34.56 1.89
4223 5053 2.362397 AGATCAAGATACGACGCACCAT 59.638 45.455 0.00 0.00 0.00 3.55
4272 5102 5.670792 ATCAAACTAGGATACAACGACCA 57.329 39.130 0.00 0.00 41.41 4.02
4288 5118 3.437049 GCAGGGTGAAGACACTATCAAAC 59.563 47.826 0.00 0.00 45.32 2.93
4296 5126 4.261614 CCTTTAAAAGCAGGGTGAAGACAC 60.262 45.833 0.00 0.00 45.27 3.67
4311 5143 8.962679 AGATGTTTGTGTAGTTGTCCTTTAAAA 58.037 29.630 0.00 0.00 0.00 1.52
4332 5164 4.523083 TGCCGCTAGGAATAAAAAGATGT 58.477 39.130 0.00 0.00 41.02 3.06
4458 5291 6.540189 CCGATCTATTCTCTGTTTTTGTGGAT 59.460 38.462 0.00 0.00 0.00 3.41
4597 5432 1.688772 ATGAACTGCCCTGCATGATC 58.311 50.000 0.00 0.00 38.13 2.92
4607 5442 7.315142 TCAATACAAAGATCAAATGAACTGCC 58.685 34.615 0.00 0.00 0.00 4.85
4652 5487 3.145286 GGGTCCGTAGTAGTAGCTAAGG 58.855 54.545 0.00 0.00 40.43 2.69
4655 5490 4.594920 ACTATGGGTCCGTAGTAGTAGCTA 59.405 45.833 17.61 0.00 44.26 3.32
4656 5491 3.393941 ACTATGGGTCCGTAGTAGTAGCT 59.606 47.826 17.61 0.00 44.26 3.32
4657 5492 3.749226 ACTATGGGTCCGTAGTAGTAGC 58.251 50.000 17.61 0.00 44.26 3.58
4688 5523 5.644977 TGAGACATATCGCCCATTAGTAG 57.355 43.478 0.00 0.00 0.00 2.57
4697 5532 4.887763 GATACGTTTGAGACATATCGCC 57.112 45.455 0.00 0.00 0.00 5.54


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

AutoCloner maintained by Alex Coulton.