Multiple sequence alignment - TraesCS2A01G078600

Loading Multiple Alignment...

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 TraesCS2A01G078600 chr2A 100.000 3233 0 0 1 3233 35786783 35783551 0.000000e+00 5971.0
1 TraesCS2A01G078600 chr2A 86.941 827 90 6 1382 2208 35852266 35851458 0.000000e+00 913.0
2 TraesCS2A01G078600 chr2A 84.679 842 118 8 1389 2226 35677296 35676462 0.000000e+00 830.0
3 TraesCS2A01G078600 chr2A 84.754 610 52 18 792 1385 35854296 35853712 1.010000e-159 573.0
4 TraesCS2A01G078600 chr2A 84.524 420 36 20 971 1372 35838386 35837978 3.910000e-104 388.0
5 TraesCS2A01G078600 chr2A 86.127 346 48 0 1869 2214 35827608 35827263 1.100000e-99 374.0
6 TraesCS2A01G078600 chr2A 81.113 503 50 29 886 1372 35677816 35677343 8.530000e-96 361.0
7 TraesCS2A01G078600 chr2A 92.754 207 15 0 2225 2431 35851066 35850860 1.890000e-77 300.0
8 TraesCS2A01G078600 chr2A 90.698 172 13 1 2479 2650 35850709 35850541 3.250000e-55 226.0
9 TraesCS2A01G078600 chrUn 88.365 1547 133 21 699 2226 24940447 24938929 0.000000e+00 1816.0
10 TraesCS2A01G078600 chrUn 85.221 839 113 9 1392 2226 24927182 24926351 0.000000e+00 852.0
11 TraesCS2A01G078600 chrUn 84.110 837 114 10 1392 2226 24933954 24933135 0.000000e+00 791.0
12 TraesCS2A01G078600 chrUn 92.912 522 33 3 2466 2985 24938550 24938031 0.000000e+00 756.0
13 TraesCS2A01G078600 chrUn 80.731 602 78 20 795 1373 24934589 24934003 4.950000e-118 435.0
14 TraesCS2A01G078600 chrUn 79.530 596 82 22 803 1373 24927811 24927231 3.910000e-104 388.0
15 TraesCS2A01G078600 chrUn 92.683 41 3 0 1332 1372 24956831 24956791 3.480000e-05 60.2
16 TraesCS2A01G078600 chr6D 90.337 683 59 5 1 681 270120555 270119878 0.000000e+00 889.0
17 TraesCS2A01G078600 chr6D 90.308 681 59 4 1 681 346460265 346460938 0.000000e+00 885.0
18 TraesCS2A01G078600 chr6D 89.574 681 65 2 1 681 358091703 358092377 0.000000e+00 859.0
19 TraesCS2A01G078600 chr1B 90.512 664 58 3 19 681 317433225 317432566 0.000000e+00 872.0
20 TraesCS2A01G078600 chr1B 91.489 47 4 0 2423 2469 17695210 17695256 7.490000e-07 65.8
21 TraesCS2A01G078600 chr1B 95.000 40 2 0 2430 2469 356906931 356906970 2.690000e-06 63.9
22 TraesCS2A01G078600 chr1B 88.000 50 6 0 2420 2469 57382466 57382417 3.480000e-05 60.2
23 TraesCS2A01G078600 chr2D 89.574 681 64 3 1 681 114822438 114821765 0.000000e+00 857.0
24 TraesCS2A01G078600 chr3A 89.443 682 66 2 1 682 528589888 528590563 0.000000e+00 856.0
25 TraesCS2A01G078600 chr3A 89.600 250 25 1 2984 3233 550288120 550287872 1.870000e-82 316.0
26 TraesCS2A01G078600 chr1D 89.583 672 62 4 8 678 202951889 202952553 0.000000e+00 846.0
27 TraesCS2A01G078600 chr7D 89.037 675 69 2 8 680 26978522 26979193 0.000000e+00 832.0
28 TraesCS2A01G078600 chr7D 88.840 681 69 5 1 681 15394901 15395574 0.000000e+00 830.0
29 TraesCS2A01G078600 chr2B 84.048 840 121 11 1392 2226 53714064 53713233 0.000000e+00 797.0
30 TraesCS2A01G078600 chr2B 78.667 600 84 31 802 1373 53714696 53714113 3.070000e-95 359.0
31 TraesCS2A01G078600 chr2B 80.000 455 86 3 1750 2200 53985319 53984866 6.690000e-87 331.0
32 TraesCS2A01G078600 chr2B 75.773 388 60 24 1007 1372 53986084 53985709 7.180000e-37 165.0
33 TraesCS2A01G078600 chr2B 92.000 50 2 2 2421 2469 696361642 696361690 5.790000e-08 69.4
34 TraesCS2A01G078600 chr2B 91.837 49 4 0 2985 3033 775604056 775604008 5.790000e-08 69.4
35 TraesCS2A01G078600 chr6A 86.207 145 19 1 3089 3233 73836329 73836186 4.320000e-34 156.0
36 TraesCS2A01G078600 chr7A 87.786 131 15 1 3103 3233 692723128 692722999 5.590000e-33 152.0
37 TraesCS2A01G078600 chr3B 92.157 51 4 0 2983 3033 810509591 810509541 4.470000e-09 73.1
38 TraesCS2A01G078600 chr3D 92.000 50 4 0 2984 3033 10683153 10683202 1.610000e-08 71.3
39 TraesCS2A01G078600 chr3D 95.122 41 2 0 2429 2469 59293761 59293801 7.490000e-07 65.8
40 TraesCS2A01G078600 chr7B 91.837 49 4 0 2985 3033 126762221 126762173 5.790000e-08 69.4
41 TraesCS2A01G078600 chr7B 94.737 38 2 0 2429 2466 151121007 151121044 3.480000e-05 60.2
42 TraesCS2A01G078600 chr5D 91.667 48 4 0 2986 3033 112842650 112842603 2.080000e-07 67.6
43 TraesCS2A01G078600 chr4A 95.000 40 2 0 2430 2469 730331142 730331103 2.690000e-06 63.9
44 TraesCS2A01G078600 chr4D 96.875 32 1 0 2422 2453 451152258 451152227 2.000000e-03 54.7
45 TraesCS2A01G078600 chr4B 96.875 32 1 0 2422 2453 216760326 216760357 2.000000e-03 54.7


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 TraesCS2A01G078600 chr2A 35783551 35786783 3232 True 5971.0 5971 100.00000 1 3233 1 chr2A.!!$R1 3232
1 TraesCS2A01G078600 chr2A 35676462 35677816 1354 True 595.5 830 82.89600 886 2226 2 chr2A.!!$R4 1340
2 TraesCS2A01G078600 chr2A 35850541 35854296 3755 True 503.0 913 88.78675 792 2650 4 chr2A.!!$R5 1858
3 TraesCS2A01G078600 chrUn 24933135 24940447 7312 True 949.5 1816 86.52950 699 2985 4 chrUn.!!$R3 2286
4 TraesCS2A01G078600 chrUn 24926351 24927811 1460 True 620.0 852 82.37550 803 2226 2 chrUn.!!$R2 1423
5 TraesCS2A01G078600 chr6D 270119878 270120555 677 True 889.0 889 90.33700 1 681 1 chr6D.!!$R1 680
6 TraesCS2A01G078600 chr6D 346460265 346460938 673 False 885.0 885 90.30800 1 681 1 chr6D.!!$F1 680
7 TraesCS2A01G078600 chr6D 358091703 358092377 674 False 859.0 859 89.57400 1 681 1 chr6D.!!$F2 680
8 TraesCS2A01G078600 chr1B 317432566 317433225 659 True 872.0 872 90.51200 19 681 1 chr1B.!!$R2 662
9 TraesCS2A01G078600 chr2D 114821765 114822438 673 True 857.0 857 89.57400 1 681 1 chr2D.!!$R1 680
10 TraesCS2A01G078600 chr3A 528589888 528590563 675 False 856.0 856 89.44300 1 682 1 chr3A.!!$F1 681
11 TraesCS2A01G078600 chr1D 202951889 202952553 664 False 846.0 846 89.58300 8 678 1 chr1D.!!$F1 670
12 TraesCS2A01G078600 chr7D 26978522 26979193 671 False 832.0 832 89.03700 8 680 1 chr7D.!!$F2 672
13 TraesCS2A01G078600 chr7D 15394901 15395574 673 False 830.0 830 88.84000 1 681 1 chr7D.!!$F1 680
14 TraesCS2A01G078600 chr2B 53713233 53714696 1463 True 578.0 797 81.35750 802 2226 2 chr2B.!!$R2 1424
15 TraesCS2A01G078600 chr2B 53984866 53986084 1218 True 248.0 331 77.88650 1007 2200 2 chr2B.!!$R3 1193

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
685 697 0.174845 CGACGCAAGAGGGACCATAA 59.825 55.0 0.00 0.00 43.62 1.90 F
1627 3173 0.031585 CAAGAAGTGGACGACCGTCA 59.968 55.0 21.79 7.54 46.20 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2063 3627 0.178921 AGCTCTCACCTCTGGGACAA 60.179 55.0 0.0 0.0 38.7 3.18 R
2719 4770 0.032416 CCTCTCCCCTCCGAACCTTA 60.032 60.0 0.0 0.0 0.0 2.69 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 4.687464 GTCGTTTCCACCATCGGT 57.313 55.556 0.00 0.00 35.62 4.69
164 166 1.517257 GATCCACCAGCGACTCACG 60.517 63.158 0.00 0.00 45.66 4.35
321 323 3.381983 ACGAGATCCGGCACTGCA 61.382 61.111 2.82 0.00 43.93 4.41
466 468 4.430765 GATCCGCCACACCGTCGT 62.431 66.667 0.00 0.00 0.00 4.34
494 497 1.306997 ACCCCGTGGATCAGGATGT 60.307 57.895 0.00 0.00 34.11 3.06
499 503 1.227674 GTGGATCAGGATGTCCGCC 60.228 63.158 0.00 0.00 39.35 6.13
566 570 2.592001 TTGCACGCACGGGCTTTA 60.592 55.556 19.08 1.02 46.30 1.85
608 612 2.041928 CAGAGGGGGAGAAGGGCT 59.958 66.667 0.00 0.00 0.00 5.19
682 694 4.373116 GCGACGCAAGAGGGACCA 62.373 66.667 16.42 0.00 43.62 4.02
683 695 2.579201 CGACGCAAGAGGGACCAT 59.421 61.111 0.00 0.00 43.62 3.55
684 696 1.813859 CGACGCAAGAGGGACCATA 59.186 57.895 0.00 0.00 43.62 2.74
685 697 0.174845 CGACGCAAGAGGGACCATAA 59.825 55.000 0.00 0.00 43.62 1.90
686 698 1.404986 CGACGCAAGAGGGACCATAAA 60.405 52.381 0.00 0.00 43.62 1.40
687 699 2.706890 GACGCAAGAGGGACCATAAAA 58.293 47.619 0.00 0.00 43.62 1.52
688 700 3.078837 GACGCAAGAGGGACCATAAAAA 58.921 45.455 0.00 0.00 43.62 1.94
689 701 3.694566 GACGCAAGAGGGACCATAAAAAT 59.305 43.478 0.00 0.00 43.62 1.82
690 702 4.086457 ACGCAAGAGGGACCATAAAAATT 58.914 39.130 0.00 0.00 43.62 1.82
691 703 4.526650 ACGCAAGAGGGACCATAAAAATTT 59.473 37.500 0.00 0.00 43.62 1.82
692 704 5.102313 CGCAAGAGGGACCATAAAAATTTC 58.898 41.667 0.00 0.00 43.02 2.17
693 705 5.336372 CGCAAGAGGGACCATAAAAATTTCA 60.336 40.000 0.00 0.00 43.02 2.69
694 706 6.463360 GCAAGAGGGACCATAAAAATTTCAA 58.537 36.000 0.00 0.00 0.00 2.69
695 707 6.591448 GCAAGAGGGACCATAAAAATTTCAAG 59.409 38.462 0.00 0.00 0.00 3.02
696 708 7.525360 GCAAGAGGGACCATAAAAATTTCAAGA 60.525 37.037 0.00 0.00 0.00 3.02
697 709 7.709149 AGAGGGACCATAAAAATTTCAAGAG 57.291 36.000 0.00 0.00 0.00 2.85
711 723 0.835941 CAAGAGCAGCTGATACCCCT 59.164 55.000 20.43 2.93 0.00 4.79
723 735 3.194620 TGATACCCCTAAAGGAAAGCCA 58.805 45.455 0.00 0.00 38.24 4.75
744 763 1.906574 GTTCATGGTGGTGAGGTCCTA 59.093 52.381 0.00 0.00 0.00 2.94
819 838 3.317150 CACACTCGTGCTCTGATTGTAA 58.683 45.455 0.00 0.00 36.06 2.41
911 946 4.174129 GCAACATACCACCGCGCC 62.174 66.667 0.00 0.00 0.00 6.53
947 984 0.835941 ACCAGCAAACCATGGCAAAA 59.164 45.000 13.04 0.00 40.45 2.44
948 985 1.228533 CCAGCAAACCATGGCAAAAC 58.771 50.000 13.04 0.00 0.00 2.43
949 986 1.202675 CCAGCAAACCATGGCAAAACT 60.203 47.619 13.04 0.00 0.00 2.66
953 990 1.055849 AAACCATGGCAAAACTCCCC 58.944 50.000 13.04 0.00 0.00 4.81
956 995 1.315257 CCATGGCAAAACTCCCCTCG 61.315 60.000 0.00 0.00 0.00 4.63
961 1000 1.534729 GCAAAACTCCCCTCGTCATT 58.465 50.000 0.00 0.00 0.00 2.57
1187 1263 2.126189 GCCACTGTCGTACCCGTC 60.126 66.667 0.00 0.00 35.01 4.79
1202 1278 1.378778 CGTCCCTTCTCTCCCTCGT 60.379 63.158 0.00 0.00 0.00 4.18
1315 1406 2.288395 CCCGAATGCAATTTCTATGGCC 60.288 50.000 0.00 0.00 36.07 5.36
1446 2986 1.672030 CAACATGGTGCAGCTCGGA 60.672 57.895 18.08 0.00 0.00 4.55
1512 3058 1.214175 TCAAACAAGAGCCTGAACCCA 59.786 47.619 0.00 0.00 0.00 4.51
1514 3060 0.535102 AACAAGAGCCTGAACCCACG 60.535 55.000 0.00 0.00 0.00 4.94
1517 3063 2.281484 GAGCCTGAACCCACGCAA 60.281 61.111 0.00 0.00 0.00 4.85
1581 3127 0.314302 GCAGGGTAGCGTACATCGAT 59.686 55.000 0.00 0.00 42.86 3.59
1627 3173 0.031585 CAAGAAGTGGACGACCGTCA 59.968 55.000 21.79 7.54 46.20 4.35
1638 3187 3.050703 GACCGTCAATGTCGCTGAT 57.949 52.632 0.00 0.00 0.00 2.90
1666 3215 0.172578 CTACGACGACATGGCCTTCA 59.827 55.000 3.32 0.00 0.00 3.02
1689 3241 2.432300 CGAAGGGGACAGGGCGTAT 61.432 63.158 0.00 0.00 0.00 3.06
1709 3261 5.334802 CGTATTTTCTCAGTTCATGTGGCAA 60.335 40.000 0.00 0.00 0.00 4.52
1714 3266 0.662619 CAGTTCATGTGGCAACGTGT 59.337 50.000 13.21 0.00 42.86 4.49
1798 3362 1.154921 CATGACCCCAACCCAACCA 59.845 57.895 0.00 0.00 0.00 3.67
1866 3430 1.377202 GCACATCTTCCTCCGCCAA 60.377 57.895 0.00 0.00 0.00 4.52
1912 3476 1.478510 ACACCAATGCCAACGTCAAAA 59.521 42.857 0.00 0.00 0.00 2.44
1969 3533 1.608055 TTTCGTCCTCAGGTACGACA 58.392 50.000 15.40 8.61 46.82 4.35
2019 3583 0.859760 AGGATCTAGGAGGCTGCTCT 59.140 55.000 13.31 0.00 0.00 4.09
2049 3613 4.400961 AAGAGCAGCAGCCCGGTC 62.401 66.667 0.00 3.87 43.56 4.79
2136 3703 3.230976 TCCGATGGTGTGTGATATAGCT 58.769 45.455 0.00 0.00 0.00 3.32
2143 3710 2.029290 GTGTGTGATATAGCTACCGGGG 60.029 54.545 6.32 0.00 0.00 5.73
2167 3734 0.034186 CAAGCCATGGGTGCTTCCTA 60.034 55.000 19.09 0.00 45.58 2.94
2170 3737 1.288932 AGCCATGGGTGCTTCCTAATT 59.711 47.619 17.49 0.00 34.87 1.40
2173 3740 2.101783 CATGGGTGCTTCCTAATTGCA 58.898 47.619 0.00 0.00 36.25 4.08
2174 3741 2.530460 TGGGTGCTTCCTAATTGCAT 57.470 45.000 0.00 0.00 39.00 3.96
2237 4180 2.485426 CGAGCATTGATGTTTGAGGTGT 59.515 45.455 0.00 0.00 0.00 4.16
2303 4246 5.134169 TGAGAATGGGATTATCATGGTTCCA 59.866 40.000 0.00 0.00 35.75 3.53
2333 4276 2.945440 GCAGGTCCACATGGCTATCAAA 60.945 50.000 0.00 0.00 34.44 2.69
2380 4323 0.545309 TTCCTACCACTGGCAGAGCT 60.545 55.000 23.66 2.81 0.00 4.09
2386 4329 1.239968 CCACTGGCAGAGCTTTGTCC 61.240 60.000 23.66 8.38 0.00 4.02
2431 4374 8.663911 GCTCATGGCTGAAAATATATCTTCTAC 58.336 37.037 0.69 0.00 38.06 2.59
2433 4376 9.935241 TCATGGCTGAAAATATATCTTCTACTC 57.065 33.333 0.69 0.00 0.00 2.59
2434 4377 9.160496 CATGGCTGAAAATATATCTTCTACTCC 57.840 37.037 0.69 0.00 0.00 3.85
2435 4378 7.680730 TGGCTGAAAATATATCTTCTACTCCC 58.319 38.462 0.69 0.00 0.00 4.30
2437 4380 8.038351 GGCTGAAAATATATCTTCTACTCCCTC 58.962 40.741 0.69 0.00 0.00 4.30
2438 4381 8.038351 GCTGAAAATATATCTTCTACTCCCTCC 58.962 40.741 0.69 0.00 0.00 4.30
2441 4384 7.706100 AAATATATCTTCTACTCCCTCCGTC 57.294 40.000 0.00 0.00 0.00 4.79
2442 4385 2.368311 ATCTTCTACTCCCTCCGTCC 57.632 55.000 0.00 0.00 0.00 4.79
2443 4386 0.258194 TCTTCTACTCCCTCCGTCCC 59.742 60.000 0.00 0.00 0.00 4.46
2444 4387 0.033405 CTTCTACTCCCTCCGTCCCA 60.033 60.000 0.00 0.00 0.00 4.37
2446 4389 1.526315 TCTACTCCCTCCGTCCCATA 58.474 55.000 0.00 0.00 0.00 2.74
2447 4390 1.854939 TCTACTCCCTCCGTCCCATAA 59.145 52.381 0.00 0.00 0.00 1.90
2449 4392 1.718280 ACTCCCTCCGTCCCATAATC 58.282 55.000 0.00 0.00 0.00 1.75
2450 4393 1.220750 ACTCCCTCCGTCCCATAATCT 59.779 52.381 0.00 0.00 0.00 2.40
2453 4396 3.507411 TCCCTCCGTCCCATAATCTAAG 58.493 50.000 0.00 0.00 0.00 2.18
2454 4397 3.141460 TCCCTCCGTCCCATAATCTAAGA 59.859 47.826 0.00 0.00 0.00 2.10
2455 4398 3.258622 CCCTCCGTCCCATAATCTAAGAC 59.741 52.174 0.00 0.00 0.00 3.01
2457 4400 4.528596 CCTCCGTCCCATAATCTAAGACAT 59.471 45.833 0.00 0.00 0.00 3.06
2458 4401 5.012148 CCTCCGTCCCATAATCTAAGACATT 59.988 44.000 0.00 0.00 0.00 2.71
2459 4402 6.464465 CCTCCGTCCCATAATCTAAGACATTT 60.464 42.308 0.00 0.00 0.00 2.32
2460 4403 6.895782 TCCGTCCCATAATCTAAGACATTTT 58.104 36.000 0.00 0.00 0.00 1.82
2461 4404 6.990349 TCCGTCCCATAATCTAAGACATTTTC 59.010 38.462 0.00 0.00 0.00 2.29
2462 4405 6.992715 CCGTCCCATAATCTAAGACATTTTCT 59.007 38.462 0.00 0.00 35.32 2.52
2464 4407 7.710907 CGTCCCATAATCTAAGACATTTTCTGA 59.289 37.037 0.00 0.00 33.46 3.27
2470 4520 7.588143 AATCTAAGACATTTTCTGACACTCG 57.412 36.000 0.00 0.00 33.46 4.18
2476 4526 3.181465 ACATTTTCTGACACTCGGACTGT 60.181 43.478 0.00 0.00 30.17 3.55
2581 4632 7.040473 TCTTTTTAATTTTGTACGAGGGCAA 57.960 32.000 0.00 0.00 0.00 4.52
2654 4705 1.394917 GTGAAATGATGCGCTTCTCGT 59.605 47.619 22.11 9.09 41.07 4.18
2659 4710 0.457443 TGATGCGCTTCTCGTGATCT 59.543 50.000 22.11 0.00 41.07 2.75
2719 4770 8.596293 TCCATTGCAAAAGAAAGAGGAAAATAT 58.404 29.630 1.71 0.00 0.00 1.28
2737 4788 2.089600 ATAAGGTTCGGAGGGGAGAG 57.910 55.000 0.00 0.00 0.00 3.20
2743 4794 1.581923 TTCGGAGGGGAGAGGCTAGT 61.582 60.000 0.00 0.00 0.00 2.57
2795 4846 4.067896 CTGCTCCAGTTGTGTTGTATCTT 58.932 43.478 0.00 0.00 0.00 2.40
2829 4880 2.550855 CCAGGTCTTAGCACTTGAGCAA 60.551 50.000 0.00 0.00 36.85 3.91
2842 4893 3.222603 CTTGAGCAACTAACCTGGGTTT 58.777 45.455 10.42 0.00 39.31 3.27
2847 4898 3.075432 AGCAACTAACCTGGGTTTGGTAT 59.925 43.478 10.42 0.00 39.31 2.73
2864 4915 2.163613 GGTATGCTGTTTGGTGGTTAGC 59.836 50.000 0.00 0.00 35.06 3.09
2885 4936 3.487209 GCGTTTTCGTTCAGGTGGTAAAA 60.487 43.478 0.00 0.00 46.03 1.52
2959 5010 3.444388 AGGATGACTTGACTCGGTCTAAC 59.556 47.826 5.77 0.00 33.15 2.34
2985 5036 8.702438 CAATAAATAACTGCTGGTTTGAACAAG 58.298 33.333 0.00 0.00 39.17 3.16
2986 5037 4.853924 ATAACTGCTGGTTTGAACAAGG 57.146 40.909 0.75 0.00 39.17 3.61
2987 5038 1.402787 ACTGCTGGTTTGAACAAGGG 58.597 50.000 0.75 0.00 30.35 3.95
2988 5039 1.064017 ACTGCTGGTTTGAACAAGGGA 60.064 47.619 0.75 0.00 30.35 4.20
2990 5041 2.430332 CTGCTGGTTTGAACAAGGGAAA 59.570 45.455 0.75 0.00 30.35 3.13
2991 5042 2.167487 TGCTGGTTTGAACAAGGGAAAC 59.833 45.455 0.75 0.00 30.35 2.78
2992 5043 2.798145 GCTGGTTTGAACAAGGGAAACG 60.798 50.000 0.75 0.00 30.35 3.60
2996 6962 3.861113 GGTTTGAACAAGGGAAACGTTTC 59.139 43.478 28.83 28.83 36.00 2.78
3046 7012 4.337060 TCGCGTGTGAGTCGGGTG 62.337 66.667 5.77 0.00 40.94 4.61
3050 7016 2.382746 CGTGTGAGTCGGGTGCATG 61.383 63.158 0.00 0.00 0.00 4.06
3052 7018 0.602638 GTGTGAGTCGGGTGCATGAA 60.603 55.000 0.00 0.00 0.00 2.57
3053 7019 0.107643 TGTGAGTCGGGTGCATGAAA 59.892 50.000 0.00 0.00 0.00 2.69
3054 7020 1.271325 TGTGAGTCGGGTGCATGAAAT 60.271 47.619 0.00 0.00 0.00 2.17
3056 7022 1.811965 TGAGTCGGGTGCATGAAATTG 59.188 47.619 0.00 0.00 0.00 2.32
3057 7023 1.133025 GAGTCGGGTGCATGAAATTGG 59.867 52.381 0.00 0.00 0.00 3.16
3058 7024 1.173043 GTCGGGTGCATGAAATTGGA 58.827 50.000 0.00 0.00 0.00 3.53
3061 7027 1.268692 CGGGTGCATGAAATTGGATCG 60.269 52.381 0.00 0.00 0.00 3.69
3063 7029 2.480073 GGGTGCATGAAATTGGATCGTG 60.480 50.000 0.00 0.00 36.98 4.35
3068 7034 2.488204 TGAAATTGGATCGTGCTGGA 57.512 45.000 0.00 0.00 0.00 3.86
3069 7035 3.003394 TGAAATTGGATCGTGCTGGAT 57.997 42.857 0.00 0.00 0.00 3.41
3070 7036 2.945008 TGAAATTGGATCGTGCTGGATC 59.055 45.455 8.51 8.51 41.67 3.36
3077 7043 1.936547 GATCGTGCTGGATCCTTTCAC 59.063 52.381 14.23 15.66 37.45 3.18
3078 7044 2.081526 CGTGCTGGATCCTTTCACG 58.918 57.895 26.67 26.67 43.19 4.35
3079 7045 1.796796 GTGCTGGATCCTTTCACGC 59.203 57.895 14.23 6.55 0.00 5.34
3080 7046 0.955428 GTGCTGGATCCTTTCACGCA 60.955 55.000 14.23 8.99 0.00 5.24
3081 7047 0.674581 TGCTGGATCCTTTCACGCAG 60.675 55.000 14.23 0.00 30.54 5.18
3082 7048 1.372087 GCTGGATCCTTTCACGCAGG 61.372 60.000 14.23 0.00 0.00 4.85
3084 7050 0.250234 TGGATCCTTTCACGCAGGAG 59.750 55.000 14.23 0.00 43.96 3.69
3085 7051 0.462759 GGATCCTTTCACGCAGGAGG 60.463 60.000 3.84 0.00 43.96 4.30
3086 7052 0.462759 GATCCTTTCACGCAGGAGGG 60.463 60.000 0.00 0.00 43.96 4.30
3096 7062 4.394712 CAGGAGGGTGCCACGACC 62.395 72.222 0.00 0.00 34.96 4.79
3098 7064 4.699522 GGAGGGTGCCACGACCAC 62.700 72.222 0.00 0.00 37.80 4.16
3143 7461 1.966451 CCCGCGTTCCTCTTGCTTT 60.966 57.895 4.92 0.00 0.00 3.51
3144 7462 0.672401 CCCGCGTTCCTCTTGCTTTA 60.672 55.000 4.92 0.00 0.00 1.85
3145 7463 1.369625 CCGCGTTCCTCTTGCTTTAT 58.630 50.000 4.92 0.00 0.00 1.40
3146 7464 1.327764 CCGCGTTCCTCTTGCTTTATC 59.672 52.381 4.92 0.00 0.00 1.75
3149 7467 2.609916 GCGTTCCTCTTGCTTTATCCTC 59.390 50.000 0.00 0.00 0.00 3.71
3150 7468 3.680196 GCGTTCCTCTTGCTTTATCCTCT 60.680 47.826 0.00 0.00 0.00 3.69
3155 8968 4.718774 TCCTCTTGCTTTATCCTCTCACAT 59.281 41.667 0.00 0.00 0.00 3.21
3160 8973 3.209410 GCTTTATCCTCTCACATGGGTG 58.791 50.000 0.00 0.00 46.66 4.61
3165 8978 1.077828 TCCTCTCACATGGGTGTCTCT 59.922 52.381 0.00 0.00 45.45 3.10
3169 8982 2.705658 TCTCACATGGGTGTCTCTGTTT 59.294 45.455 0.00 0.00 45.45 2.83
3172 8985 3.136443 TCACATGGGTGTCTCTGTTTTCT 59.864 43.478 0.00 0.00 45.45 2.52
3173 8986 3.499918 CACATGGGTGTCTCTGTTTTCTC 59.500 47.826 0.00 0.00 40.24 2.87
3176 8989 1.070289 GGGTGTCTCTGTTTTCTCCGT 59.930 52.381 0.00 0.00 0.00 4.69
3178 8991 2.036089 GGTGTCTCTGTTTTCTCCGTCT 59.964 50.000 0.00 0.00 0.00 4.18
3180 8993 3.004944 GTGTCTCTGTTTTCTCCGTCTCT 59.995 47.826 0.00 0.00 0.00 3.10
3182 8995 2.484651 TCTCTGTTTTCTCCGTCTCTCG 59.515 50.000 0.00 0.00 39.52 4.04
3184 8997 3.082548 TCTGTTTTCTCCGTCTCTCGAT 58.917 45.455 0.00 0.00 42.86 3.59
3185 8998 3.127203 TCTGTTTTCTCCGTCTCTCGATC 59.873 47.826 0.00 0.00 42.86 3.69
3186 8999 2.163815 TGTTTTCTCCGTCTCTCGATCC 59.836 50.000 0.00 0.00 42.86 3.36
3187 9000 1.390565 TTTCTCCGTCTCTCGATCCC 58.609 55.000 0.00 0.00 42.86 3.85
3188 9001 0.255033 TTCTCCGTCTCTCGATCCCA 59.745 55.000 0.00 0.00 42.86 4.37
3189 9002 0.474614 TCTCCGTCTCTCGATCCCAT 59.525 55.000 0.00 0.00 42.86 4.00
3190 9003 0.878416 CTCCGTCTCTCGATCCCATC 59.122 60.000 0.00 0.00 42.86 3.51
3193 9006 1.544537 CCGTCTCTCGATCCCATCTCT 60.545 57.143 0.00 0.00 42.86 3.10
3194 9007 2.226330 CGTCTCTCGATCCCATCTCTT 58.774 52.381 0.00 0.00 42.86 2.85
3195 9008 2.621055 CGTCTCTCGATCCCATCTCTTT 59.379 50.000 0.00 0.00 42.86 2.52
3196 9009 3.304391 CGTCTCTCGATCCCATCTCTTTC 60.304 52.174 0.00 0.00 42.86 2.62
3197 9010 3.888930 GTCTCTCGATCCCATCTCTTTCT 59.111 47.826 0.00 0.00 0.00 2.52
3198 9011 4.340950 GTCTCTCGATCCCATCTCTTTCTT 59.659 45.833 0.00 0.00 0.00 2.52
3202 9631 5.877012 TCTCGATCCCATCTCTTTCTTTTTG 59.123 40.000 0.00 0.00 0.00 2.44
3208 9637 5.776716 TCCCATCTCTTTCTTTTTGCTTCAT 59.223 36.000 0.00 0.00 0.00 2.57
3213 9642 7.514784 TCTCTTTCTTTTTGCTTCATGATGA 57.485 32.000 12.54 0.00 0.00 2.92
3215 9644 6.144854 TCTTTCTTTTTGCTTCATGATGACG 58.855 36.000 12.54 0.00 0.00 4.35
3219 9648 0.390998 TTGCTTCATGATGACGGCGA 60.391 50.000 16.62 9.30 31.07 5.54
3220 9649 0.807275 TGCTTCATGATGACGGCGAG 60.807 55.000 16.62 0.00 31.07 5.03
3222 9651 1.493950 CTTCATGATGACGGCGAGCC 61.494 60.000 16.62 3.59 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.826096 TCGTTCATACCGATGGTGGAA 59.174 47.619 0.00 0.15 36.19 3.53
6 7 1.407618 CTCGTTCATACCGATGGTGGA 59.592 52.381 0.00 0.00 36.19 4.02
12 13 2.956333 TGGATGACTCGTTCATACCGAT 59.044 45.455 8.84 0.00 44.38 4.18
17 18 5.394224 GGAAACTCTGGATGACTCGTTCATA 60.394 44.000 2.81 0.00 45.67 2.15
99 100 0.250945 TGCATTTGGTGGCCTACGAA 60.251 50.000 3.32 3.08 0.00 3.85
105 106 2.048316 CCGTTGCATTTGGTGGCC 60.048 61.111 0.00 0.00 0.00 5.36
164 166 2.100631 CGTCTTGACCGCATGGACC 61.101 63.158 0.00 0.00 39.21 4.46
253 255 0.698238 CATGGAGGAACCTGGACCAA 59.302 55.000 0.00 0.00 39.86 3.67
390 392 0.253347 ATCCATGGGTGTGGGACTCT 60.253 55.000 13.02 0.00 39.80 3.24
549 553 2.592001 TAAAGCCCGTGCGTGCAA 60.592 55.556 0.00 0.00 44.33 4.08
550 554 3.350612 GTAAAGCCCGTGCGTGCA 61.351 61.111 1.66 0.00 44.33 4.57
551 555 4.097863 GGTAAAGCCCGTGCGTGC 62.098 66.667 0.00 0.00 44.33 5.34
592 596 2.260524 AGAGCCCTTCTCCCCCTCT 61.261 63.158 0.00 0.00 42.90 3.69
608 612 2.279073 CCGCCTAGTCCCTCCAGA 59.721 66.667 0.00 0.00 0.00 3.86
672 684 7.310052 GCTCTTGAAATTTTTATGGTCCCTCTT 60.310 37.037 0.00 0.00 0.00 2.85
682 694 8.193438 GGTATCAGCTGCTCTTGAAATTTTTAT 58.807 33.333 9.47 0.00 0.00 1.40
683 695 7.362920 GGGTATCAGCTGCTCTTGAAATTTTTA 60.363 37.037 9.47 0.00 0.00 1.52
684 696 6.393171 GGTATCAGCTGCTCTTGAAATTTTT 58.607 36.000 9.47 0.00 0.00 1.94
685 697 5.105595 GGGTATCAGCTGCTCTTGAAATTTT 60.106 40.000 9.47 0.00 0.00 1.82
686 698 4.400567 GGGTATCAGCTGCTCTTGAAATTT 59.599 41.667 9.47 0.00 0.00 1.82
687 699 3.950395 GGGTATCAGCTGCTCTTGAAATT 59.050 43.478 9.47 0.00 0.00 1.82
688 700 3.549794 GGGTATCAGCTGCTCTTGAAAT 58.450 45.455 9.47 0.00 0.00 2.17
689 701 2.356125 GGGGTATCAGCTGCTCTTGAAA 60.356 50.000 9.47 0.00 0.00 2.69
690 702 1.210478 GGGGTATCAGCTGCTCTTGAA 59.790 52.381 9.47 0.00 0.00 2.69
691 703 0.833287 GGGGTATCAGCTGCTCTTGA 59.167 55.000 9.47 0.00 0.00 3.02
692 704 0.835941 AGGGGTATCAGCTGCTCTTG 59.164 55.000 9.47 0.00 0.00 3.02
693 705 2.478872 TAGGGGTATCAGCTGCTCTT 57.521 50.000 9.47 0.00 0.00 2.85
694 706 2.478872 TTAGGGGTATCAGCTGCTCT 57.521 50.000 9.47 2.38 0.00 4.09
695 707 2.224402 CCTTTAGGGGTATCAGCTGCTC 60.224 54.545 9.47 1.34 0.00 4.26
696 708 1.771255 CCTTTAGGGGTATCAGCTGCT 59.229 52.381 9.47 0.82 0.00 4.24
697 709 1.768870 TCCTTTAGGGGTATCAGCTGC 59.231 52.381 9.47 0.00 35.41 5.25
723 735 0.693049 GGACCTCACCACCATGAACT 59.307 55.000 0.00 0.00 0.00 3.01
781 800 8.705134 CACGAGTGTGTATGTAATAAAAGTCAA 58.295 33.333 0.00 0.00 41.34 3.18
819 838 1.640917 ACGGTGGAGGACTGTACAAT 58.359 50.000 0.00 0.00 42.84 2.71
911 946 6.068473 TGCTGGTATATTATATACTCGGCG 57.932 41.667 23.47 0.00 33.61 6.46
947 984 6.517864 CGGTTTATTATAATGACGAGGGGAGT 60.518 42.308 8.28 0.00 0.00 3.85
948 985 5.867716 CGGTTTATTATAATGACGAGGGGAG 59.132 44.000 8.28 0.00 0.00 4.30
949 986 5.305128 ACGGTTTATTATAATGACGAGGGGA 59.695 40.000 8.28 0.00 0.00 4.81
953 990 5.694910 AGCCACGGTTTATTATAATGACGAG 59.305 40.000 8.28 5.98 0.00 4.18
956 995 5.107220 CGGAGCCACGGTTTATTATAATGAC 60.107 44.000 8.28 6.72 0.00 3.06
961 1000 3.384146 TCACGGAGCCACGGTTTATTATA 59.616 43.478 2.64 0.00 38.39 0.98
1005 1062 1.026718 CACTTGGCGTGGAGGAATCC 61.027 60.000 0.00 0.00 40.02 3.01
1187 1263 1.000486 TGGACGAGGGAGAGAAGGG 60.000 63.158 0.00 0.00 0.00 3.95
1255 1331 2.516888 CCGTGTGGAGGTGGAAGGT 61.517 63.158 0.00 0.00 37.49 3.50
1330 1421 2.811317 GTTGCCTGAGCCGACGAG 60.811 66.667 0.00 0.00 38.69 4.18
1431 2971 0.879400 GAGATCCGAGCTGCACCATG 60.879 60.000 1.02 0.00 0.00 3.66
1433 2973 2.725312 GGAGATCCGAGCTGCACCA 61.725 63.158 1.02 0.00 0.00 4.17
1467 3007 2.890808 ACACGATCTTGCATACGGAT 57.109 45.000 0.00 0.00 0.00 4.18
1503 3049 2.203280 TGGTTGCGTGGGTTCAGG 60.203 61.111 0.00 0.00 0.00 3.86
1512 3058 1.022451 AGTTGTCGTTGTGGTTGCGT 61.022 50.000 0.00 0.00 0.00 5.24
1514 3060 0.248458 CCAGTTGTCGTTGTGGTTGC 60.248 55.000 0.00 0.00 0.00 4.17
1517 3063 0.828022 TCTCCAGTTGTCGTTGTGGT 59.172 50.000 0.00 0.00 0.00 4.16
1627 3173 1.406539 GCAATTCCCATCAGCGACATT 59.593 47.619 0.00 0.00 0.00 2.71
1638 3187 0.604073 TGTCGTCGTAGCAATTCCCA 59.396 50.000 0.00 0.00 0.00 4.37
1666 3215 4.016706 CCTGTCCCCTTCGGCGTT 62.017 66.667 6.85 0.00 0.00 4.84
1673 3225 0.702316 AAAATACGCCCTGTCCCCTT 59.298 50.000 0.00 0.00 0.00 3.95
1682 3234 3.689649 ACATGAACTGAGAAAATACGCCC 59.310 43.478 0.00 0.00 0.00 6.13
1685 3237 4.154015 TGCCACATGAACTGAGAAAATACG 59.846 41.667 0.00 0.00 0.00 3.06
1689 3241 3.243035 CGTTGCCACATGAACTGAGAAAA 60.243 43.478 0.00 0.00 0.00 2.29
1714 3266 1.663379 CGTGGCATGAGGAGGACGTA 61.663 60.000 0.00 0.00 0.00 3.57
1912 3476 2.190578 GAAGTAGCCGCTGCCCAT 59.809 61.111 2.16 0.00 38.69 4.00
1959 3523 2.084681 GCGTTCCGTGTCGTACCTG 61.085 63.158 0.00 0.00 0.00 4.00
2019 3583 1.301716 GCTCTTGCCGAGGAACACA 60.302 57.895 0.00 0.00 40.25 3.72
2049 3613 3.175976 GACAACGGGTTGCACCACG 62.176 63.158 3.60 3.60 44.03 4.94
2063 3627 0.178921 AGCTCTCACCTCTGGGACAA 60.179 55.000 0.00 0.00 38.70 3.18
2173 3740 1.682854 CCAACAGTCACCTTTGCACAT 59.317 47.619 0.00 0.00 0.00 3.21
2174 3741 1.102154 CCAACAGTCACCTTTGCACA 58.898 50.000 0.00 0.00 0.00 4.57
2237 4180 6.678568 AAGAGTCAAATCTTCTTCTCCTCA 57.321 37.500 0.00 0.00 34.37 3.86
2316 4259 5.329035 ACAATTTTGATAGCCATGTGGAC 57.671 39.130 2.55 0.00 37.39 4.02
2333 4276 3.829601 TGGTTGCCGGAAAGAATACAATT 59.170 39.130 5.05 0.00 0.00 2.32
2380 4323 2.847327 CTCCTGAGCTCTTGGACAAA 57.153 50.000 20.11 5.48 0.00 2.83
2386 4329 2.578128 AGCGCTCCTGAGCTCTTG 59.422 61.111 16.19 7.77 46.23 3.02
2431 4374 2.016905 AGATTATGGGACGGAGGGAG 57.983 55.000 0.00 0.00 0.00 4.30
2433 4376 3.258622 GTCTTAGATTATGGGACGGAGGG 59.741 52.174 0.00 0.00 0.00 4.30
2434 4377 3.895656 TGTCTTAGATTATGGGACGGAGG 59.104 47.826 0.00 0.00 0.00 4.30
2435 4378 5.730296 ATGTCTTAGATTATGGGACGGAG 57.270 43.478 0.00 0.00 0.00 4.63
2437 4380 6.992715 AGAAAATGTCTTAGATTATGGGACGG 59.007 38.462 0.00 0.00 29.66 4.79
2438 4381 7.710907 TCAGAAAATGTCTTAGATTATGGGACG 59.289 37.037 0.00 0.00 32.70 4.79
2441 4384 8.616076 GTGTCAGAAAATGTCTTAGATTATGGG 58.384 37.037 0.00 0.00 32.70 4.00
2442 4385 9.388506 AGTGTCAGAAAATGTCTTAGATTATGG 57.611 33.333 0.00 0.00 32.70 2.74
2444 4387 9.307121 CGAGTGTCAGAAAATGTCTTAGATTAT 57.693 33.333 0.00 0.00 32.70 1.28
2446 4389 6.591834 CCGAGTGTCAGAAAATGTCTTAGATT 59.408 38.462 0.00 0.00 32.70 2.40
2447 4390 6.071334 TCCGAGTGTCAGAAAATGTCTTAGAT 60.071 38.462 0.00 0.00 32.70 1.98
2449 4392 5.346281 GTCCGAGTGTCAGAAAATGTCTTAG 59.654 44.000 0.00 0.00 32.70 2.18
2450 4393 5.010719 AGTCCGAGTGTCAGAAAATGTCTTA 59.989 40.000 0.00 0.00 32.70 2.10
2453 4396 3.430218 CAGTCCGAGTGTCAGAAAATGTC 59.570 47.826 0.00 0.00 0.00 3.06
2454 4397 3.181465 ACAGTCCGAGTGTCAGAAAATGT 60.181 43.478 2.80 0.00 0.00 2.71
2455 4398 3.393800 ACAGTCCGAGTGTCAGAAAATG 58.606 45.455 2.80 0.00 0.00 2.32
2457 4400 3.536956 AACAGTCCGAGTGTCAGAAAA 57.463 42.857 9.34 0.00 28.76 2.29
2458 4401 3.536956 AAACAGTCCGAGTGTCAGAAA 57.463 42.857 9.34 0.00 28.76 2.52
2459 4402 3.536956 AAAACAGTCCGAGTGTCAGAA 57.463 42.857 9.34 0.00 28.76 3.02
2460 4403 3.536956 AAAAACAGTCCGAGTGTCAGA 57.463 42.857 9.34 0.00 28.76 3.27
2483 4533 8.559536 TGCTTGTTTTGTGTTTTTCATAACAAA 58.440 25.926 12.62 0.00 41.82 2.83
2486 4536 8.174422 ACATGCTTGTTTTGTGTTTTTCATAAC 58.826 29.630 0.00 0.00 29.55 1.89
2521 4572 8.843733 CAAATCGCCTATAAATGAAAATCATCG 58.156 33.333 0.00 0.00 35.76 3.84
2616 4667 4.782019 TCACCCACTGTGCATTAAATTC 57.218 40.909 1.29 0.00 45.03 2.17
2673 4724 5.279685 TGGAGAAAGGAATGCCCAAAATAT 58.720 37.500 0.00 0.00 37.41 1.28
2674 4725 4.682563 TGGAGAAAGGAATGCCCAAAATA 58.317 39.130 0.00 0.00 37.41 1.40
2691 4742 4.728772 TCCTCTTTCTTTTGCAATGGAGA 58.271 39.130 0.00 1.59 0.00 3.71
2719 4770 0.032416 CCTCTCCCCTCCGAACCTTA 60.032 60.000 0.00 0.00 0.00 2.69
2726 4777 1.830408 CACTAGCCTCTCCCCTCCG 60.830 68.421 0.00 0.00 0.00 4.63
2737 4788 1.593296 AACGTCCTCGGTCACTAGCC 61.593 60.000 0.00 0.00 41.85 3.93
2743 4794 1.117142 AGGGAAAACGTCCTCGGTCA 61.117 55.000 0.00 0.00 46.92 4.02
2767 4818 3.782889 ACACAACTGGAGCAGAAAAAC 57.217 42.857 0.00 0.00 35.18 2.43
2795 4846 7.389607 GTGCTAAGACCTGGAATTAAACACTTA 59.610 37.037 0.00 0.00 0.00 2.24
2829 4880 2.647802 AGCATACCAAACCCAGGTTAGT 59.352 45.455 1.71 6.46 40.54 2.24
2842 4893 2.373335 AACCACCAAACAGCATACCA 57.627 45.000 0.00 0.00 0.00 3.25
2847 4898 0.464735 ACGCTAACCACCAAACAGCA 60.465 50.000 0.00 0.00 32.46 4.41
2864 4915 3.948196 TTTACCACCTGAACGAAAACG 57.052 42.857 0.00 0.00 0.00 3.60
2885 4936 1.065926 ACATCATGTGTCCGCTCATGT 60.066 47.619 0.00 0.00 43.33 3.21
2914 4965 7.230108 TCCTGATACGTCTCGTTCCTAATAAAT 59.770 37.037 0.00 0.00 41.54 1.40
2926 4977 3.312697 TCAAGTCATCCTGATACGTCTCG 59.687 47.826 0.00 0.00 0.00 4.04
2959 5010 8.586570 TTGTTCAAACCAGCAGTTATTTATTG 57.413 30.769 0.00 0.00 37.88 1.90
2987 5038 1.650363 CACCGTGGGGAAACGTTTC 59.350 57.895 28.83 28.83 42.01 2.78
2988 5039 2.483197 GCACCGTGGGGAAACGTTT 61.483 57.895 14.57 14.57 42.01 3.60
3029 6995 4.337060 CACCCGACTCACACGCGA 62.337 66.667 15.93 0.00 0.00 5.87
3031 6997 4.961511 TGCACCCGACTCACACGC 62.962 66.667 0.00 0.00 0.00 5.34
3033 6999 0.602638 TTCATGCACCCGACTCACAC 60.603 55.000 0.00 0.00 0.00 3.82
3034 7000 0.107643 TTTCATGCACCCGACTCACA 59.892 50.000 0.00 0.00 0.00 3.58
3035 7001 1.453155 ATTTCATGCACCCGACTCAC 58.547 50.000 0.00 0.00 0.00 3.51
3036 7002 1.811965 CAATTTCATGCACCCGACTCA 59.188 47.619 0.00 0.00 0.00 3.41
3038 7004 1.176527 CCAATTTCATGCACCCGACT 58.823 50.000 0.00 0.00 0.00 4.18
3039 7005 1.173043 TCCAATTTCATGCACCCGAC 58.827 50.000 0.00 0.00 0.00 4.79
3040 7006 2.023673 GATCCAATTTCATGCACCCGA 58.976 47.619 0.00 0.00 0.00 5.14
3041 7007 1.268692 CGATCCAATTTCATGCACCCG 60.269 52.381 0.00 0.00 0.00 5.28
3042 7008 1.750778 ACGATCCAATTTCATGCACCC 59.249 47.619 0.00 0.00 0.00 4.61
3043 7009 2.801063 CACGATCCAATTTCATGCACC 58.199 47.619 0.00 0.00 0.00 5.01
3044 7010 2.159338 AGCACGATCCAATTTCATGCAC 60.159 45.455 0.00 0.00 34.03 4.57
3046 7012 2.456989 CAGCACGATCCAATTTCATGC 58.543 47.619 0.00 0.00 0.00 4.06
3047 7013 2.684374 TCCAGCACGATCCAATTTCATG 59.316 45.455 0.00 0.00 0.00 3.07
3050 7016 3.615849 GATCCAGCACGATCCAATTTC 57.384 47.619 0.00 0.00 33.83 2.17
3057 7023 1.936547 GTGAAAGGATCCAGCACGATC 59.063 52.381 15.82 4.81 38.36 3.69
3058 7024 2.029838 GTGAAAGGATCCAGCACGAT 57.970 50.000 15.82 0.00 0.00 3.73
3061 7027 0.955428 TGCGTGAAAGGATCCAGCAC 60.955 55.000 15.82 16.58 35.44 4.40
3063 7029 1.372087 CCTGCGTGAAAGGATCCAGC 61.372 60.000 15.82 9.63 36.91 4.85
3064 7030 0.250234 TCCTGCGTGAAAGGATCCAG 59.750 55.000 15.82 0.00 38.96 3.86
3065 7031 0.250234 CTCCTGCGTGAAAGGATCCA 59.750 55.000 15.82 0.00 42.94 3.41
3066 7032 0.462759 CCTCCTGCGTGAAAGGATCC 60.463 60.000 2.48 2.48 42.94 3.36
3068 7034 1.201429 ACCCTCCTGCGTGAAAGGAT 61.201 55.000 0.00 0.00 42.94 3.24
3069 7035 1.841556 ACCCTCCTGCGTGAAAGGA 60.842 57.895 0.00 0.00 41.66 3.36
3070 7036 1.672356 CACCCTCCTGCGTGAAAGG 60.672 63.158 0.00 0.00 36.02 3.11
3071 7037 2.328099 GCACCCTCCTGCGTGAAAG 61.328 63.158 0.00 0.00 31.36 2.62
3079 7045 4.394712 GGTCGTGGCACCCTCCTG 62.395 72.222 12.86 0.00 0.00 3.86
3080 7046 4.954118 TGGTCGTGGCACCCTCCT 62.954 66.667 12.86 0.00 35.26 3.69
3081 7047 4.699522 GTGGTCGTGGCACCCTCC 62.700 72.222 12.86 12.15 35.26 4.30
3125 7443 0.672401 TAAAGCAAGAGGAACGCGGG 60.672 55.000 12.47 0.00 0.00 6.13
3130 7448 4.873259 GTGAGAGGATAAAGCAAGAGGAAC 59.127 45.833 0.00 0.00 0.00 3.62
3131 7449 4.532126 TGTGAGAGGATAAAGCAAGAGGAA 59.468 41.667 0.00 0.00 0.00 3.36
3132 7450 4.096681 TGTGAGAGGATAAAGCAAGAGGA 58.903 43.478 0.00 0.00 0.00 3.71
3133 7451 4.478206 TGTGAGAGGATAAAGCAAGAGG 57.522 45.455 0.00 0.00 0.00 3.69
3135 7453 4.384537 CCCATGTGAGAGGATAAAGCAAGA 60.385 45.833 0.00 0.00 0.00 3.02
3136 7454 3.881688 CCCATGTGAGAGGATAAAGCAAG 59.118 47.826 0.00 0.00 0.00 4.01
3137 7455 3.266772 ACCCATGTGAGAGGATAAAGCAA 59.733 43.478 0.00 0.00 0.00 3.91
3138 7456 2.846206 ACCCATGTGAGAGGATAAAGCA 59.154 45.455 0.00 0.00 0.00 3.91
3140 7458 4.163078 AGACACCCATGTGAGAGGATAAAG 59.837 45.833 0.00 0.00 45.76 1.85
3141 7459 4.104086 AGACACCCATGTGAGAGGATAAA 58.896 43.478 0.00 0.00 45.76 1.40
3143 7461 3.052566 AGAGACACCCATGTGAGAGGATA 60.053 47.826 0.00 0.00 45.76 2.59
3144 7462 2.114616 GAGACACCCATGTGAGAGGAT 58.885 52.381 0.00 0.00 45.76 3.24
3145 7463 1.077828 AGAGACACCCATGTGAGAGGA 59.922 52.381 0.00 0.00 45.76 3.71
3146 7464 1.206610 CAGAGACACCCATGTGAGAGG 59.793 57.143 0.00 0.00 45.76 3.69
3149 7467 2.847327 AACAGAGACACCCATGTGAG 57.153 50.000 0.00 0.00 45.76 3.51
3150 7468 3.136443 AGAAAACAGAGACACCCATGTGA 59.864 43.478 0.00 0.00 45.76 3.58
3155 8968 1.070134 CGGAGAAAACAGAGACACCCA 59.930 52.381 0.00 0.00 0.00 4.51
3160 8973 3.668491 CGAGAGACGGAGAAAACAGAGAC 60.668 52.174 0.00 0.00 38.46 3.36
3165 8978 2.163815 GGATCGAGAGACGGAGAAAACA 59.836 50.000 0.00 0.00 46.97 2.83
3169 8982 0.255033 TGGGATCGAGAGACGGAGAA 59.745 55.000 0.00 0.00 46.97 2.87
3172 8985 0.474614 AGATGGGATCGAGAGACGGA 59.525 55.000 0.00 0.00 46.97 4.69
3173 8986 0.878416 GAGATGGGATCGAGAGACGG 59.122 60.000 0.00 0.00 46.97 4.79
3178 8991 5.683876 AAAAGAAAGAGATGGGATCGAGA 57.316 39.130 0.00 0.00 0.00 4.04
3180 8993 4.396166 GCAAAAAGAAAGAGATGGGATCGA 59.604 41.667 0.00 0.00 0.00 3.59
3182 8995 5.911378 AGCAAAAAGAAAGAGATGGGATC 57.089 39.130 0.00 0.00 0.00 3.36
3184 8997 5.139727 TGAAGCAAAAAGAAAGAGATGGGA 58.860 37.500 0.00 0.00 0.00 4.37
3185 8998 5.458041 TGAAGCAAAAAGAAAGAGATGGG 57.542 39.130 0.00 0.00 0.00 4.00
3186 8999 6.684686 TCATGAAGCAAAAAGAAAGAGATGG 58.315 36.000 0.00 0.00 0.00 3.51
3187 9000 8.027189 TCATCATGAAGCAAAAAGAAAGAGATG 58.973 33.333 0.00 0.00 0.00 2.90
3188 9001 8.027771 GTCATCATGAAGCAAAAAGAAAGAGAT 58.972 33.333 0.00 0.00 0.00 2.75
3189 9002 7.365741 GTCATCATGAAGCAAAAAGAAAGAGA 58.634 34.615 0.00 0.00 0.00 3.10
3190 9003 6.304922 CGTCATCATGAAGCAAAAAGAAAGAG 59.695 38.462 0.00 0.00 0.00 2.85
3193 9006 5.221880 CCGTCATCATGAAGCAAAAAGAAA 58.778 37.500 0.00 0.00 0.00 2.52
3194 9007 4.797471 CCGTCATCATGAAGCAAAAAGAA 58.203 39.130 0.00 0.00 0.00 2.52
3195 9008 3.366273 GCCGTCATCATGAAGCAAAAAGA 60.366 43.478 0.00 0.00 30.73 2.52
3196 9009 2.919229 GCCGTCATCATGAAGCAAAAAG 59.081 45.455 0.00 0.00 30.73 2.27
3197 9010 2.668001 CGCCGTCATCATGAAGCAAAAA 60.668 45.455 0.00 0.00 30.73 1.94
3198 9011 1.135717 CGCCGTCATCATGAAGCAAAA 60.136 47.619 0.00 0.00 30.73 2.44
3202 9631 1.930100 CTCGCCGTCATCATGAAGC 59.070 57.895 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.