Multiple sequence alignment - TraesCS5B01G277400

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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 TraesCS5B01G277400 chr5B 100.000 3975 0 0 1 3975 463805461 463801487 0.000000e+00 7341.0
1 TraesCS5B01G277400 chr7B 96.008 977 14 2 3010 3975 1051335 1052297 0.000000e+00 1565.0
2 TraesCS5B01G277400 chr3A 95.803 977 28 3 3010 3975 13320906 13319932 0.000000e+00 1565.0
3 TraesCS5B01G277400 chr3A 95.701 977 29 3 3010 3975 686940271 686939297 0.000000e+00 1559.0
4 TraesCS5B01G277400 chr3A 95.292 977 28 2 3010 3975 726205217 726206186 0.000000e+00 1533.0
5 TraesCS5B01G277400 chr3A 83.400 747 100 19 3189 3920 7212380 7211643 0.000000e+00 671.0
6 TraesCS5B01G277400 chr3A 81.763 329 55 4 380 703 220639077 220639405 1.820000e-68 270.0
7 TraesCS5B01G277400 chr3A 80.198 202 31 7 3637 3831 716544574 716544773 4.140000e-30 143.0
8 TraesCS5B01G277400 chr3A 100.000 28 0 0 746 773 726234190 726234217 7.000000e-03 52.8
9 TraesCS5B01G277400 chr6A 95.311 981 28 5 3011 3975 360453740 360454718 0.000000e+00 1541.0
10 TraesCS5B01G277400 chr6A 84.066 182 25 2 3011 3188 485777085 485776904 5.280000e-39 172.0
11 TraesCS5B01G277400 chr5A 91.429 1085 74 12 1760 2842 487808132 487807065 0.000000e+00 1471.0
12 TraesCS5B01G277400 chr5A 94.882 762 34 2 986 1747 487809097 487808341 0.000000e+00 1186.0
13 TraesCS5B01G277400 chr5A 81.647 583 56 25 1 546 487831085 487830517 1.700000e-118 436.0
14 TraesCS5B01G277400 chr5A 86.885 183 18 5 814 992 487817986 487817806 2.420000e-47 200.0
15 TraesCS5B01G277400 chr5D 93.717 573 24 5 1760 2331 385904319 385903758 0.000000e+00 848.0
16 TraesCS5B01G277400 chr5D 95.949 469 13 2 1159 1627 385923684 385923222 0.000000e+00 756.0
17 TraesCS5B01G277400 chr5D 92.751 469 26 4 2402 2870 385903711 385903251 0.000000e+00 671.0
18 TraesCS5B01G277400 chr5D 81.169 616 100 14 2402 3015 385879219 385879820 7.730000e-132 481.0
19 TraesCS5B01G277400 chr5D 86.957 368 32 4 383 749 385924900 385924548 2.230000e-107 399.0
20 TraesCS5B01G277400 chr5D 85.348 273 13 3 1 273 385925242 385924997 1.420000e-64 257.0
21 TraesCS5B01G277400 chr5D 86.341 205 9 5 811 1013 385924549 385924362 5.210000e-49 206.0
22 TraesCS5B01G277400 chr5D 91.057 123 11 0 1625 1747 385904651 385904529 2.460000e-37 167.0
23 TraesCS5B01G277400 chr5D 88.660 97 11 0 3010 3106 83675402 83675306 6.980000e-23 119.0
24 TraesCS5B01G277400 chr5D 84.127 126 13 5 144 265 505558448 505558326 9.030000e-22 115.0
25 TraesCS5B01G277400 chr5D 92.405 79 6 0 1096 1174 385924234 385924156 3.250000e-21 113.0
26 TraesCS5B01G277400 chr5D 86.441 59 7 1 3592 3649 438978512 438978454 3.320000e-06 63.9
27 TraesCS5B01G277400 chr5D 96.970 33 1 0 316 348 385924999 385924967 5.550000e-04 56.5
28 TraesCS5B01G277400 chr7D 86.316 665 76 13 3189 3840 63567894 63568556 0.000000e+00 710.0
29 TraesCS5B01G277400 chr7D 75.530 613 98 31 135 707 247322984 247322384 1.830000e-63 254.0
30 TraesCS5B01G277400 chr7D 96.154 78 3 0 3843 3920 63568590 63568667 1.160000e-25 128.0
31 TraesCS5B01G277400 chrUn 97.000 400 10 2 3392 3791 478955868 478955471 0.000000e+00 671.0
32 TraesCS5B01G277400 chr3D 86.709 316 31 9 3189 3497 44212663 44212974 1.370000e-89 340.0
33 TraesCS5B01G277400 chr3D 81.459 329 52 6 380 701 481928902 481929228 1.100000e-65 261.0
34 TraesCS5B01G277400 chr3D 83.784 148 16 7 166 311 128540131 128540272 2.490000e-27 134.0
35 TraesCS5B01G277400 chr3D 89.691 97 10 0 3010 3106 19564322 19564226 1.500000e-24 124.0
36 TraesCS5B01G277400 chr3D 78.740 127 21 4 185 308 453147560 453147683 3.290000e-11 80.5
37 TraesCS5B01G277400 chr2B 86.262 313 32 9 3192 3497 778965758 778965450 2.960000e-86 329.0
38 TraesCS5B01G277400 chr2B 82.258 124 20 2 186 308 425145165 425145287 5.430000e-19 106.0
39 TraesCS5B01G277400 chr1A 83.582 335 50 4 380 709 556086129 556086463 3.860000e-80 309.0
40 TraesCS5B01G277400 chr1A 80.982 326 53 6 387 709 486897676 486897995 2.370000e-62 250.0
41 TraesCS5B01G277400 chr1A 88.235 102 10 1 201 302 338602959 338603058 1.940000e-23 121.0
42 TraesCS5B01G277400 chr2D 81.155 329 53 7 380 701 638385863 638386189 5.100000e-64 255.0
43 TraesCS5B01G277400 chr2D 79.856 139 21 6 171 307 458739043 458738910 1.180000e-15 95.3
44 TraesCS5B01G277400 chr4D 80.909 330 52 9 380 701 502032108 502031782 2.370000e-62 250.0
45 TraesCS5B01G277400 chr4D 80.303 330 53 9 380 701 499253948 499253623 5.130000e-59 239.0
46 TraesCS5B01G277400 chr1D 80.818 318 52 7 387 699 70493177 70493490 1.430000e-59 241.0
47 TraesCS5B01G277400 chr1D 89.583 96 10 0 3011 3106 249859675 249859770 5.390000e-24 122.0
48 TraesCS5B01G277400 chr7A 80.447 179 22 7 135 308 264855137 264854967 1.500000e-24 124.0
49 TraesCS5B01G277400 chr6D 89.744 78 8 0 3843 3920 336842376 336842299 2.530000e-17 100.0
50 TraesCS5B01G277400 chr3B 88.710 62 7 0 3859 3920 800951907 800951846 4.260000e-10 76.8


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 TraesCS5B01G277400 chr5B 463801487 463805461 3974 True 7341.000000 7341 100.000000 1 3975 1 chr5B.!!$R1 3974
1 TraesCS5B01G277400 chr7B 1051335 1052297 962 False 1565.000000 1565 96.008000 3010 3975 1 chr7B.!!$F1 965
2 TraesCS5B01G277400 chr3A 13319932 13320906 974 True 1565.000000 1565 95.803000 3010 3975 1 chr3A.!!$R2 965
3 TraesCS5B01G277400 chr3A 686939297 686940271 974 True 1559.000000 1559 95.701000 3010 3975 1 chr3A.!!$R3 965
4 TraesCS5B01G277400 chr3A 726205217 726206186 969 False 1533.000000 1533 95.292000 3010 3975 1 chr3A.!!$F3 965
5 TraesCS5B01G277400 chr3A 7211643 7212380 737 True 671.000000 671 83.400000 3189 3920 1 chr3A.!!$R1 731
6 TraesCS5B01G277400 chr6A 360453740 360454718 978 False 1541.000000 1541 95.311000 3011 3975 1 chr6A.!!$F1 964
7 TraesCS5B01G277400 chr5A 487807065 487809097 2032 True 1328.500000 1471 93.155500 986 2842 2 chr5A.!!$R3 1856
8 TraesCS5B01G277400 chr5A 487830517 487831085 568 True 436.000000 436 81.647000 1 546 1 chr5A.!!$R2 545
9 TraesCS5B01G277400 chr5D 385903251 385904651 1400 True 562.000000 848 92.508333 1625 2870 3 chr5D.!!$R4 1245
10 TraesCS5B01G277400 chr5D 385879219 385879820 601 False 481.000000 481 81.169000 2402 3015 1 chr5D.!!$F1 613
11 TraesCS5B01G277400 chr5D 385923222 385925242 2020 True 297.916667 756 90.661667 1 1627 6 chr5D.!!$R5 1626
12 TraesCS5B01G277400 chr7D 63567894 63568667 773 False 419.000000 710 91.235000 3189 3920 2 chr7D.!!$F1 731
13 TraesCS5B01G277400 chr7D 247322384 247322984 600 True 254.000000 254 75.530000 135 707 1 chr7D.!!$R1 572

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
630 736 0.546598 GAAGGGGGAATGATGACGGT 59.453 55.0 0.00 0.00 0.0 4.83 F
1457 2095 0.463833 GCACACTACATACCCTGCCC 60.464 60.0 0.00 0.00 0.0 5.36 F
1883 2724 0.532862 CATGGAAACCTAGCGGCGAT 60.533 55.0 12.98 7.15 0.0 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1712 2350 0.518636 CAAACATGTGCGGAGGTGAG 59.481 55.0 0.00 0.00 0.0 3.51 R
2573 3439 0.767060 ACTCTTTCCCCGACCAACCT 60.767 55.0 0.00 0.00 0.0 3.50 R
3585 4462 0.403655 TGTATTCCCCTGTTGCAGCA 59.596 50.0 2.37 2.37 0.0 4.41 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
30 31 6.920758 CCTAAACGAATTGTGATGGTTTTTGA 59.079 34.615 0.00 0.00 33.35 2.69
116 117 4.658901 TCTGAAACAAGAGGGGTAAGTCTT 59.341 41.667 0.00 0.00 33.09 3.01
123 124 4.143406 AGAGGGGTAAGTCTTGTAAGGT 57.857 45.455 0.00 0.00 0.00 3.50
124 125 4.500452 AGAGGGGTAAGTCTTGTAAGGTT 58.500 43.478 0.00 0.00 0.00 3.50
125 126 4.286291 AGAGGGGTAAGTCTTGTAAGGTTG 59.714 45.833 0.00 0.00 0.00 3.77
127 128 4.414514 AGGGGTAAGTCTTGTAAGGTTGTT 59.585 41.667 0.00 0.00 0.00 2.83
129 130 5.936372 GGGGTAAGTCTTGTAAGGTTGTTAG 59.064 44.000 0.00 0.00 0.00 2.34
177 189 1.002502 GTCAAAGGCGGCTAGGGTT 60.003 57.895 13.71 0.00 0.00 4.11
180 192 1.304134 AAAGGCGGCTAGGGTTTGG 60.304 57.895 13.71 0.00 0.00 3.28
191 203 1.228154 GGGTTTGGACGCCTCTTGT 60.228 57.895 0.00 0.00 32.93 3.16
219 231 2.107705 CGCAGGTCTATCCGTCTGT 58.892 57.895 0.00 0.00 41.99 3.41
263 275 2.756760 GTGGTGGATCTCGGTACTTGTA 59.243 50.000 0.00 0.00 0.00 2.41
270 282 1.001020 TCGGTACTTGTAGGCGGGA 60.001 57.895 0.00 0.00 0.00 5.14
271 283 1.033746 TCGGTACTTGTAGGCGGGAG 61.034 60.000 0.00 0.00 0.00 4.30
272 284 1.821258 GGTACTTGTAGGCGGGAGG 59.179 63.158 0.00 0.00 0.00 4.30
273 285 1.683418 GGTACTTGTAGGCGGGAGGG 61.683 65.000 0.00 0.00 0.00 4.30
274 286 2.062177 TACTTGTAGGCGGGAGGGC 61.062 63.158 0.00 0.00 42.69 5.19
288 300 4.830573 GGGCTCCAGCTCTGTTTT 57.169 55.556 0.00 0.00 38.82 2.43
289 301 3.042481 GGGCTCCAGCTCTGTTTTT 57.958 52.632 0.00 0.00 38.82 1.94
310 322 6.827586 TTTTAGGTGTCTTTTGTGTCTTGT 57.172 33.333 0.00 0.00 0.00 3.16
311 323 5.811399 TTAGGTGTCTTTTGTGTCTTGTG 57.189 39.130 0.00 0.00 0.00 3.33
312 324 3.016736 AGGTGTCTTTTGTGTCTTGTGG 58.983 45.455 0.00 0.00 0.00 4.17
313 325 2.752903 GGTGTCTTTTGTGTCTTGTGGT 59.247 45.455 0.00 0.00 0.00 4.16
314 326 3.942748 GGTGTCTTTTGTGTCTTGTGGTA 59.057 43.478 0.00 0.00 0.00 3.25
348 414 1.074405 TCCCTGGAGATGGCATAATGC 59.926 52.381 0.00 0.00 44.08 3.56
410 511 3.187699 CTCCGGCGGATCTCGTGAG 62.188 68.421 31.23 11.40 41.72 3.51
439 540 0.958822 GTGTTTGCCTTCGGTGGATT 59.041 50.000 0.00 0.00 0.00 3.01
481 586 2.001872 CGTCTGCATGTGTATCTGCAA 58.998 47.619 0.00 0.00 46.87 4.08
501 606 4.503991 GCAAGTTGGATCCTTCCGATCTAT 60.504 45.833 14.23 0.00 45.90 1.98
506 611 3.648067 TGGATCCTTCCGATCTATGCTTT 59.352 43.478 14.23 0.00 45.90 3.51
526 631 3.449095 CTTAATCGGCGGCGGTTGC 62.449 63.158 36.33 0.00 41.71 4.17
562 667 1.562475 GTCCTATGGGGCCTTAACACA 59.438 52.381 0.84 0.00 34.39 3.72
570 675 1.235724 GGCCTTAACACAGCGACTTT 58.764 50.000 0.00 0.00 0.00 2.66
596 701 6.262944 TCGACTGTCTACTACAACAAGGTTTA 59.737 38.462 6.21 0.00 37.74 2.01
597 702 7.040201 TCGACTGTCTACTACAACAAGGTTTAT 60.040 37.037 6.21 0.00 37.74 1.40
630 736 0.546598 GAAGGGGGAATGATGACGGT 59.453 55.000 0.00 0.00 0.00 4.83
659 765 2.351418 CGGCTCGCTTCATTGATTGTAA 59.649 45.455 0.00 0.00 0.00 2.41
665 771 6.676456 GCTCGCTTCATTGATTGTAATTGTCT 60.676 38.462 0.00 0.00 0.00 3.41
669 775 8.390354 CGCTTCATTGATTGTAATTGTCTCTAA 58.610 33.333 0.00 0.00 0.00 2.10
670 776 9.713740 GCTTCATTGATTGTAATTGTCTCTAAG 57.286 33.333 0.00 0.00 0.00 2.18
721 827 9.502091 TTTATTTCCAGTGTCCTATATATGCAC 57.498 33.333 0.00 0.25 0.00 4.57
735 841 9.110502 CCTATATATGCACTACTATCTTGACGA 57.889 37.037 0.00 0.00 0.00 4.20
749 855 8.068977 ACTATCTTGACGATTGACGAATACTAC 58.931 37.037 0.00 0.00 45.77 2.73
750 856 6.432607 TCTTGACGATTGACGAATACTACT 57.567 37.500 0.00 0.00 45.77 2.57
751 857 6.484540 TCTTGACGATTGACGAATACTACTC 58.515 40.000 0.00 0.00 45.77 2.59
752 858 6.315642 TCTTGACGATTGACGAATACTACTCT 59.684 38.462 0.00 0.00 45.77 3.24
753 859 6.045698 TGACGATTGACGAATACTACTCTC 57.954 41.667 0.00 0.00 45.77 3.20
754 860 5.816258 TGACGATTGACGAATACTACTCTCT 59.184 40.000 0.00 0.00 45.77 3.10
755 861 6.018913 TGACGATTGACGAATACTACTCTCTC 60.019 42.308 0.00 0.00 45.77 3.20
756 862 5.236911 ACGATTGACGAATACTACTCTCTCC 59.763 44.000 0.00 0.00 45.77 3.71
757 863 5.612925 CGATTGACGAATACTACTCTCTCCG 60.613 48.000 0.00 0.00 45.77 4.63
758 864 4.134379 TGACGAATACTACTCTCTCCGT 57.866 45.455 0.00 0.00 0.00 4.69
759 865 4.118410 TGACGAATACTACTCTCTCCGTC 58.882 47.826 0.00 0.00 43.48 4.79
760 866 4.118410 GACGAATACTACTCTCTCCGTCA 58.882 47.826 0.00 0.00 42.94 4.35
761 867 3.870419 ACGAATACTACTCTCTCCGTCAC 59.130 47.826 0.00 0.00 0.00 3.67
762 868 3.869832 CGAATACTACTCTCTCCGTCACA 59.130 47.826 0.00 0.00 0.00 3.58
763 869 4.512198 CGAATACTACTCTCTCCGTCACAT 59.488 45.833 0.00 0.00 0.00 3.21
764 870 5.695363 CGAATACTACTCTCTCCGTCACATA 59.305 44.000 0.00 0.00 0.00 2.29
765 871 6.202379 CGAATACTACTCTCTCCGTCACATAA 59.798 42.308 0.00 0.00 0.00 1.90
766 872 7.095144 CGAATACTACTCTCTCCGTCACATAAT 60.095 40.741 0.00 0.00 0.00 1.28
767 873 9.217278 GAATACTACTCTCTCCGTCACATAATA 57.783 37.037 0.00 0.00 0.00 0.98
768 874 9.742144 AATACTACTCTCTCCGTCACATAATAT 57.258 33.333 0.00 0.00 0.00 1.28
771 877 9.221933 ACTACTCTCTCCGTCACATAATATAAG 57.778 37.037 0.00 0.00 0.00 1.73
772 878 9.438228 CTACTCTCTCCGTCACATAATATAAGA 57.562 37.037 0.00 0.00 0.00 2.10
773 879 8.693120 ACTCTCTCCGTCACATAATATAAGAA 57.307 34.615 0.00 0.00 0.00 2.52
774 880 8.569641 ACTCTCTCCGTCACATAATATAAGAAC 58.430 37.037 0.00 0.00 0.00 3.01
775 881 8.459911 TCTCTCCGTCACATAATATAAGAACA 57.540 34.615 0.00 0.00 0.00 3.18
776 882 9.078990 TCTCTCCGTCACATAATATAAGAACAT 57.921 33.333 0.00 0.00 0.00 2.71
857 963 7.693969 AAAATAATCAGGGTCTGAGTTTCTG 57.306 36.000 3.25 0.00 44.08 3.02
858 964 3.710209 AATCAGGGTCTGAGTTTCTGG 57.290 47.619 3.94 0.00 44.08 3.86
859 965 2.103153 TCAGGGTCTGAGTTTCTGGT 57.897 50.000 0.00 0.00 35.39 4.00
860 966 2.408565 TCAGGGTCTGAGTTTCTGGTT 58.591 47.619 0.00 0.00 35.39 3.67
861 967 2.777692 TCAGGGTCTGAGTTTCTGGTTT 59.222 45.455 0.00 0.00 35.39 3.27
862 968 2.880890 CAGGGTCTGAGTTTCTGGTTTG 59.119 50.000 0.00 0.00 32.44 2.93
863 969 2.158608 AGGGTCTGAGTTTCTGGTTTGG 60.159 50.000 0.00 0.00 0.00 3.28
864 970 2.230660 GGTCTGAGTTTCTGGTTTGGG 58.769 52.381 0.00 0.00 0.00 4.12
865 971 2.422945 GGTCTGAGTTTCTGGTTTGGGT 60.423 50.000 0.00 0.00 0.00 4.51
866 972 3.288092 GTCTGAGTTTCTGGTTTGGGTT 58.712 45.455 0.00 0.00 0.00 4.11
867 973 3.699538 GTCTGAGTTTCTGGTTTGGGTTT 59.300 43.478 0.00 0.00 0.00 3.27
868 974 4.159693 GTCTGAGTTTCTGGTTTGGGTTTT 59.840 41.667 0.00 0.00 0.00 2.43
869 975 4.775253 TCTGAGTTTCTGGTTTGGGTTTTT 59.225 37.500 0.00 0.00 0.00 1.94
972 1078 3.138205 CGCCTTCGCTCCTATATACTG 57.862 52.381 0.00 0.00 0.00 2.74
973 1079 2.732597 CGCCTTCGCTCCTATATACTGC 60.733 54.545 0.00 0.00 0.00 4.40
974 1080 2.732597 GCCTTCGCTCCTATATACTGCG 60.733 54.545 10.98 10.98 46.71 5.18
1258 1896 2.440946 CCGCTCTATGGGATCCACA 58.559 57.895 15.23 9.75 35.80 4.17
1425 2063 3.643554 CCCCTCCCGGAAAACCGT 61.644 66.667 0.73 0.00 0.00 4.83
1457 2095 0.463833 GCACACTACATACCCTGCCC 60.464 60.000 0.00 0.00 0.00 5.36
1461 2099 1.367840 CTACATACCCTGCCCGCTC 59.632 63.158 0.00 0.00 0.00 5.03
1463 2101 1.399744 TACATACCCTGCCCGCTCAG 61.400 60.000 0.00 0.00 0.00 3.35
1466 2104 2.946988 ATACCCTGCCCGCTCAGCTA 62.947 60.000 0.00 0.00 32.87 3.32
1467 2105 2.946988 TACCCTGCCCGCTCAGCTAT 62.947 60.000 0.00 0.00 32.87 2.97
1468 2106 2.210013 CCCTGCCCGCTCAGCTATA 61.210 63.158 0.00 0.00 32.87 1.31
1564 2202 2.813474 TTGTTCTCCGCCGCGATG 60.813 61.111 15.93 6.49 0.00 3.84
1623 2261 2.202623 GAGCGCGATCCTTGTCGT 60.203 61.111 14.62 0.00 43.27 4.34
1718 2356 2.045926 GCATCCCGTTGCTCACCT 60.046 61.111 0.00 0.00 39.57 4.00
1723 2361 4.680237 CCGTTGCTCACCTCCGCA 62.680 66.667 0.00 0.00 0.00 5.69
1724 2362 3.414700 CGTTGCTCACCTCCGCAC 61.415 66.667 0.00 0.00 35.60 5.34
1747 2385 6.468956 CACATGTTTGGTAAGAATCAATACGC 59.531 38.462 0.00 0.00 0.00 4.42
1748 2386 6.150307 ACATGTTTGGTAAGAATCAATACGCA 59.850 34.615 0.00 0.00 0.00 5.24
1750 2388 5.703592 TGTTTGGTAAGAATCAATACGCACT 59.296 36.000 0.00 0.00 0.00 4.40
1751 2389 6.128391 TGTTTGGTAAGAATCAATACGCACTC 60.128 38.462 0.00 0.00 0.00 3.51
1753 2391 5.483811 TGGTAAGAATCAATACGCACTCAA 58.516 37.500 0.00 0.00 0.00 3.02
1755 2393 6.037062 TGGTAAGAATCAATACGCACTCAATG 59.963 38.462 0.00 0.00 0.00 2.82
1757 2395 6.932356 AAGAATCAATACGCACTCAATGAT 57.068 33.333 0.00 0.00 0.00 2.45
1802 2643 9.915629 TTTTGGATTTGTAACTAATTATTGCGT 57.084 25.926 0.00 0.00 0.00 5.24
1875 2716 1.743623 CGGCGCACATGGAAACCTA 60.744 57.895 10.83 0.00 0.00 3.08
1883 2724 0.532862 CATGGAAACCTAGCGGCGAT 60.533 55.000 12.98 7.15 0.00 4.58
2019 2860 0.546507 TCGCCTATGCCCCCATCATA 60.547 55.000 0.00 0.00 32.85 2.15
2078 2919 4.026052 TCAGAGGTGAGTATCTTGCATGA 58.974 43.478 4.57 4.57 34.92 3.07
2079 2920 4.118410 CAGAGGTGAGTATCTTGCATGAC 58.882 47.826 4.14 0.00 34.92 3.06
2080 2921 3.119291 GAGGTGAGTATCTTGCATGACG 58.881 50.000 4.14 0.00 34.92 4.35
2081 2922 2.760650 AGGTGAGTATCTTGCATGACGA 59.239 45.455 4.14 0.00 34.92 4.20
2082 2923 3.386078 AGGTGAGTATCTTGCATGACGAT 59.614 43.478 4.14 0.00 34.92 3.73
2225 3066 1.136057 GGCGGAAACAAGATCGTCAAC 60.136 52.381 0.00 0.00 0.00 3.18
2232 3073 1.344438 ACAAGATCGTCAACCTGCTCA 59.656 47.619 0.00 0.00 0.00 4.26
2244 3085 1.675801 CTGCTCAGCAAGTGGGAGA 59.324 57.895 0.00 0.00 38.41 3.71
2249 3090 2.109774 CTCAGCAAGTGGGAGAGATCT 58.890 52.381 0.00 0.00 0.00 2.75
2390 3231 8.553459 AGAACTATTGTGTGTTCTCCTTAATG 57.447 34.615 0.00 0.00 46.70 1.90
2392 3233 6.237901 ACTATTGTGTGTTCTCCTTAATGCA 58.762 36.000 0.00 0.00 0.00 3.96
2393 3234 6.886459 ACTATTGTGTGTTCTCCTTAATGCAT 59.114 34.615 0.00 0.00 0.00 3.96
2416 3282 9.217278 GCATCTGATGTATTGTGATTAAGATCT 57.783 33.333 18.19 0.00 33.28 2.75
2549 3415 4.641645 CCTGGTTCGGGCTGTGCA 62.642 66.667 0.00 0.00 0.00 4.57
2572 3438 2.289592 ACTCAAGGAGGTACGTGTCT 57.710 50.000 0.00 0.00 33.35 3.41
2573 3439 3.430042 ACTCAAGGAGGTACGTGTCTA 57.570 47.619 0.00 0.00 33.35 2.59
2651 3517 1.216977 CGATGTAAGGCCCGTGTCA 59.783 57.895 0.00 0.00 0.00 3.58
2770 3636 2.293677 CGTCACCGGCATATACTCTTCT 59.706 50.000 0.00 0.00 0.00 2.85
2780 3646 5.810587 GGCATATACTCTTCTTGTTTCGACA 59.189 40.000 0.00 0.00 0.00 4.35
2803 3669 4.153673 CAGAGCTTCTTCTGGGATTGAT 57.846 45.455 0.00 0.00 40.69 2.57
2819 3685 4.201990 GGATTGATGCAATTGGACTCTGAC 60.202 45.833 7.72 0.00 33.90 3.51
2821 3687 4.025040 TGATGCAATTGGACTCTGACTT 57.975 40.909 7.72 0.00 0.00 3.01
2822 3688 4.401022 TGATGCAATTGGACTCTGACTTT 58.599 39.130 7.72 0.00 0.00 2.66
2844 3710 7.124448 ACTTTAGGACTCTTGGTCTACATTAGG 59.876 40.741 0.00 0.00 43.97 2.69
2879 3745 4.240888 CTGATTGTTCAGCGAGAGAAGAA 58.759 43.478 0.00 0.00 42.79 2.52
2880 3746 4.825422 TGATTGTTCAGCGAGAGAAGAAT 58.175 39.130 6.90 6.90 40.38 2.40
2881 3747 5.965922 TGATTGTTCAGCGAGAGAAGAATA 58.034 37.500 7.09 0.00 38.57 1.75
2882 3748 6.038985 TGATTGTTCAGCGAGAGAAGAATAG 58.961 40.000 7.09 0.00 38.57 1.73
2884 3750 4.738124 TGTTCAGCGAGAGAAGAATAGTG 58.262 43.478 0.00 0.00 0.00 2.74
2886 3752 3.621558 TCAGCGAGAGAAGAATAGTGGA 58.378 45.455 0.00 0.00 0.00 4.02
2887 3753 3.629855 TCAGCGAGAGAAGAATAGTGGAG 59.370 47.826 0.00 0.00 0.00 3.86
2910 3777 2.350522 GCTAGTTGCTACTGTGCATGT 58.649 47.619 11.27 0.00 42.96 3.21
2914 3781 5.753438 GCTAGTTGCTACTGTGCATGTATTA 59.247 40.000 11.27 0.00 42.96 0.98
2921 3788 8.731275 TGCTACTGTGCATGTATTACTAATTT 57.269 30.769 0.00 0.00 38.12 1.82
2925 3792 5.815850 TGTGCATGTATTACTAATTTGCCG 58.184 37.500 0.00 0.00 0.00 5.69
2932 3799 7.089770 TGTATTACTAATTTGCCGCATCAAA 57.910 32.000 0.00 3.30 39.87 2.69
2933 3800 7.711846 TGTATTACTAATTTGCCGCATCAAAT 58.288 30.769 7.19 7.19 45.54 2.32
2934 3801 8.841300 TGTATTACTAATTTGCCGCATCAAATA 58.159 29.630 11.93 0.06 43.56 1.40
2937 3804 6.147864 ACTAATTTGCCGCATCAAATATGT 57.852 33.333 11.93 10.85 43.56 2.29
2941 3808 1.948834 TGCCGCATCAAATATGTCTGG 59.051 47.619 0.00 0.00 0.00 3.86
2959 3826 1.177401 GGTTGGATTCTGAGGTTGGC 58.823 55.000 0.00 0.00 0.00 4.52
2961 3828 0.400213 TTGGATTCTGAGGTTGGCGT 59.600 50.000 0.00 0.00 0.00 5.68
2972 3839 3.181463 TGAGGTTGGCGTAGTTGTACTTT 60.181 43.478 0.00 0.00 0.00 2.66
2984 3851 6.090763 CGTAGTTGTACTTTGATTGATCAGCA 59.909 38.462 0.00 0.00 38.19 4.41
2988 3855 6.732531 TGTACTTTGATTGATCAGCAAGAG 57.267 37.500 10.74 12.92 40.42 2.85
2989 3856 6.233434 TGTACTTTGATTGATCAGCAAGAGT 58.767 36.000 19.32 19.32 40.42 3.24
2995 3862 6.291648 TGATTGATCAGCAAGAGTAGAACT 57.708 37.500 0.00 0.00 40.42 3.01
3002 3869 7.869937 TGATCAGCAAGAGTAGAACTTATATGC 59.130 37.037 0.00 0.00 0.00 3.14
3003 3870 7.353414 TCAGCAAGAGTAGAACTTATATGCT 57.647 36.000 0.00 0.00 0.00 3.79
3004 3871 8.465273 TCAGCAAGAGTAGAACTTATATGCTA 57.535 34.615 0.00 0.00 0.00 3.49
3005 3872 8.914011 TCAGCAAGAGTAGAACTTATATGCTAA 58.086 33.333 0.00 0.00 0.00 3.09
3585 4462 7.495901 TGAAAACAAATGTGGTAATCATGTGT 58.504 30.769 0.00 0.00 43.10 3.72
3599 4477 2.203337 GTGTGCTGCAACAGGGGA 60.203 61.111 2.77 0.00 31.21 4.81
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 81 1.066430 GTTTCAGATGGCCCGTGTCTA 60.066 52.381 0.00 0.00 0.00 2.59
81 82 0.321653 GTTTCAGATGGCCCGTGTCT 60.322 55.000 0.00 0.00 0.00 3.41
116 117 2.914695 ACACGCCTAACAACCTTACA 57.085 45.000 0.00 0.00 0.00 2.41
118 119 2.028203 GGGTACACGCCTAACAACCTTA 60.028 50.000 0.00 0.00 0.00 2.69
119 120 1.271001 GGGTACACGCCTAACAACCTT 60.271 52.381 0.00 0.00 0.00 3.50
120 121 0.322648 GGGTACACGCCTAACAACCT 59.677 55.000 0.00 0.00 0.00 3.50
121 122 0.674581 GGGGTACACGCCTAACAACC 60.675 60.000 8.14 0.00 44.66 3.77
177 189 2.342279 CCGACAAGAGGCGTCCAA 59.658 61.111 2.06 0.00 0.00 3.53
270 282 0.480252 AAAAACAGAGCTGGAGCCCT 59.520 50.000 0.00 0.00 43.38 5.19
271 283 3.042481 AAAAACAGAGCTGGAGCCC 57.958 52.632 0.00 0.00 43.38 5.19
286 298 7.087639 CACAAGACACAAAAGACACCTAAAAA 58.912 34.615 0.00 0.00 0.00 1.94
287 299 6.349777 CCACAAGACACAAAAGACACCTAAAA 60.350 38.462 0.00 0.00 0.00 1.52
288 300 5.124776 CCACAAGACACAAAAGACACCTAAA 59.875 40.000 0.00 0.00 0.00 1.85
289 301 4.638421 CCACAAGACACAAAAGACACCTAA 59.362 41.667 0.00 0.00 0.00 2.69
290 302 4.196193 CCACAAGACACAAAAGACACCTA 58.804 43.478 0.00 0.00 0.00 3.08
291 303 3.016736 CCACAAGACACAAAAGACACCT 58.983 45.455 0.00 0.00 0.00 4.00
292 304 2.752903 ACCACAAGACACAAAAGACACC 59.247 45.455 0.00 0.00 0.00 4.16
293 305 5.448632 CCTTACCACAAGACACAAAAGACAC 60.449 44.000 0.00 0.00 0.00 3.67
294 306 4.638421 CCTTACCACAAGACACAAAAGACA 59.362 41.667 0.00 0.00 0.00 3.41
295 307 4.497507 GCCTTACCACAAGACACAAAAGAC 60.498 45.833 0.00 0.00 0.00 3.01
296 308 3.630312 GCCTTACCACAAGACACAAAAGA 59.370 43.478 0.00 0.00 0.00 2.52
297 309 3.243401 GGCCTTACCACAAGACACAAAAG 60.243 47.826 0.00 0.00 38.86 2.27
298 310 2.691011 GGCCTTACCACAAGACACAAAA 59.309 45.455 0.00 0.00 38.86 2.44
299 311 2.303175 GGCCTTACCACAAGACACAAA 58.697 47.619 0.00 0.00 38.86 2.83
300 312 1.812324 CGGCCTTACCACAAGACACAA 60.812 52.381 0.00 0.00 39.03 3.33
301 313 0.250124 CGGCCTTACCACAAGACACA 60.250 55.000 0.00 0.00 39.03 3.72
302 314 0.250166 ACGGCCTTACCACAAGACAC 60.250 55.000 0.00 0.00 39.03 3.67
303 315 0.250124 CACGGCCTTACCACAAGACA 60.250 55.000 0.00 0.00 39.03 3.41
304 316 0.953960 CCACGGCCTTACCACAAGAC 60.954 60.000 0.00 0.00 39.03 3.01
305 317 1.122632 TCCACGGCCTTACCACAAGA 61.123 55.000 0.00 0.00 39.03 3.02
306 318 0.673644 CTCCACGGCCTTACCACAAG 60.674 60.000 0.00 0.00 39.03 3.16
307 319 1.373435 CTCCACGGCCTTACCACAA 59.627 57.895 0.00 0.00 39.03 3.33
308 320 2.589157 CCTCCACGGCCTTACCACA 61.589 63.158 0.00 0.00 39.03 4.17
309 321 2.267961 CCTCCACGGCCTTACCAC 59.732 66.667 0.00 0.00 39.03 4.16
410 511 2.908688 AGGCAAACACCAACCAAATC 57.091 45.000 0.00 0.00 0.00 2.17
414 515 1.388065 CCGAAGGCAAACACCAACCA 61.388 55.000 0.00 0.00 46.14 3.67
439 540 0.690192 TGAAGACCGGATCCAAGCAA 59.310 50.000 9.46 0.00 0.00 3.91
501 606 0.450184 GCCGCCGATTAAGAAAAGCA 59.550 50.000 0.00 0.00 0.00 3.91
506 611 1.078988 AACCGCCGCCGATTAAGAA 60.079 52.632 0.00 0.00 36.29 2.52
526 631 0.737715 GGACCAGCGCACTAGAACAG 60.738 60.000 11.47 0.00 0.00 3.16
562 667 6.764276 TGTAGTAGACAGTCGAAAAGTCGCT 61.764 44.000 7.30 10.74 39.21 4.93
570 675 4.581824 ACCTTGTTGTAGTAGACAGTCGAA 59.418 41.667 0.00 0.00 39.88 3.71
596 701 2.363795 TTCCTCACCGGAGCCGAT 60.364 61.111 9.46 0.00 44.28 4.18
597 702 3.068691 CTTCCTCACCGGAGCCGA 61.069 66.667 9.46 0.00 44.28 5.54
612 718 0.255890 CACCGTCATCATTCCCCCTT 59.744 55.000 0.00 0.00 0.00 3.95
618 724 2.033407 CGAAGATGCACCGTCATCATTC 60.033 50.000 0.00 9.84 43.94 2.67
619 725 1.935873 CGAAGATGCACCGTCATCATT 59.064 47.619 0.00 4.30 43.94 2.57
630 736 1.811266 GAAGCGAGCCGAAGATGCA 60.811 57.895 0.00 0.00 0.00 3.96
659 765 4.398673 GTCCGTAGACCACTTAGAGACAAT 59.601 45.833 0.00 0.00 37.00 2.71
665 771 3.021695 CCATGTCCGTAGACCACTTAGA 58.978 50.000 0.00 0.00 42.81 2.10
669 775 1.757118 CATCCATGTCCGTAGACCACT 59.243 52.381 0.00 0.00 42.81 4.00
670 776 1.480954 ACATCCATGTCCGTAGACCAC 59.519 52.381 0.00 0.00 42.81 4.16
714 820 7.810282 GTCAATCGTCAAGATAGTAGTGCATAT 59.190 37.037 0.00 0.00 38.98 1.78
715 821 7.139392 GTCAATCGTCAAGATAGTAGTGCATA 58.861 38.462 0.00 0.00 38.98 3.14
716 822 5.980116 GTCAATCGTCAAGATAGTAGTGCAT 59.020 40.000 0.00 0.00 38.98 3.96
717 823 5.340803 GTCAATCGTCAAGATAGTAGTGCA 58.659 41.667 0.00 0.00 38.98 4.57
718 824 4.438145 CGTCAATCGTCAAGATAGTAGTGC 59.562 45.833 0.00 0.00 38.98 4.40
719 825 5.807344 TCGTCAATCGTCAAGATAGTAGTG 58.193 41.667 0.00 0.00 38.98 2.74
720 826 6.432607 TTCGTCAATCGTCAAGATAGTAGT 57.567 37.500 0.00 0.00 38.98 2.73
721 827 8.283992 AGTATTCGTCAATCGTCAAGATAGTAG 58.716 37.037 0.00 0.00 38.98 2.57
731 837 6.289745 AGAGAGTAGTATTCGTCAATCGTC 57.710 41.667 0.00 0.00 40.80 4.20
735 841 5.124645 ACGGAGAGAGTAGTATTCGTCAAT 58.875 41.667 0.00 0.00 0.00 2.57
749 855 8.568794 TGTTCTTATATTATGTGACGGAGAGAG 58.431 37.037 0.00 0.00 0.00 3.20
750 856 8.459911 TGTTCTTATATTATGTGACGGAGAGA 57.540 34.615 0.00 0.00 0.00 3.10
795 901 9.373450 ACTTATGATATACTGTCTCTGTTCCAT 57.627 33.333 0.00 0.00 0.00 3.41
796 902 8.768501 ACTTATGATATACTGTCTCTGTTCCA 57.231 34.615 0.00 0.00 0.00 3.53
802 908 9.737427 CGACAAAACTTATGATATACTGTCTCT 57.263 33.333 0.00 0.00 0.00 3.10
803 909 9.731819 TCGACAAAACTTATGATATACTGTCTC 57.268 33.333 0.00 0.00 0.00 3.36
804 910 9.737427 CTCGACAAAACTTATGATATACTGTCT 57.263 33.333 0.00 0.00 0.00 3.41
805 911 9.731819 TCTCGACAAAACTTATGATATACTGTC 57.268 33.333 0.00 0.00 0.00 3.51
856 962 1.205055 GGACCCAAAAACCCAAACCA 58.795 50.000 0.00 0.00 0.00 3.67
857 963 0.105224 CGGACCCAAAAACCCAAACC 59.895 55.000 0.00 0.00 0.00 3.27
858 964 0.825410 ACGGACCCAAAAACCCAAAC 59.175 50.000 0.00 0.00 0.00 2.93
859 965 0.824759 CACGGACCCAAAAACCCAAA 59.175 50.000 0.00 0.00 0.00 3.28
860 966 0.324460 ACACGGACCCAAAAACCCAA 60.324 50.000 0.00 0.00 0.00 4.12
861 967 0.324460 AACACGGACCCAAAAACCCA 60.324 50.000 0.00 0.00 0.00 4.51
862 968 0.825410 AAACACGGACCCAAAAACCC 59.175 50.000 0.00 0.00 0.00 4.11
863 969 2.950975 TCTAAACACGGACCCAAAAACC 59.049 45.455 0.00 0.00 0.00 3.27
864 970 4.276431 TCATCTAAACACGGACCCAAAAAC 59.724 41.667 0.00 0.00 0.00 2.43
865 971 4.276431 GTCATCTAAACACGGACCCAAAAA 59.724 41.667 0.00 0.00 0.00 1.94
866 972 3.816523 GTCATCTAAACACGGACCCAAAA 59.183 43.478 0.00 0.00 0.00 2.44
867 973 3.404899 GTCATCTAAACACGGACCCAAA 58.595 45.455 0.00 0.00 0.00 3.28
868 974 2.289819 GGTCATCTAAACACGGACCCAA 60.290 50.000 0.00 0.00 41.67 4.12
869 975 1.276989 GGTCATCTAAACACGGACCCA 59.723 52.381 0.00 0.00 41.67 4.51
908 1014 1.286501 GTCAATCGAATACAGGCGCA 58.713 50.000 10.83 0.00 0.00 6.09
913 1019 2.936498 GGGTGGTGTCAATCGAATACAG 59.064 50.000 0.00 0.00 0.00 2.74
988 1094 0.540597 ACTTTGAAAGGGGAGGCAGC 60.541 55.000 10.02 0.00 0.00 5.25
992 1098 2.381752 ACCAACTTTGAAAGGGGAGG 57.618 50.000 20.14 12.99 33.05 4.30
1094 1245 0.464373 GAGATTGAAGCCCGCCATCA 60.464 55.000 0.00 0.00 0.00 3.07
1138 1289 2.342279 CTCGACCTCCGGCAACAA 59.658 61.111 0.00 0.00 39.14 2.83
1140 1291 4.452733 CCCTCGACCTCCGGCAAC 62.453 72.222 0.00 0.00 39.14 4.17
1425 2063 3.573967 TGTAGTGTGCTCACATGAGAAGA 59.426 43.478 20.16 0.00 46.01 2.87
1457 2095 8.031277 TGCAATATCCATATATATAGCTGAGCG 58.969 37.037 0.00 0.00 0.00 5.03
1461 2099 9.444600 TGCATGCAATATCCATATATATAGCTG 57.555 33.333 20.30 0.00 0.00 4.24
1467 2105 9.856162 AGAACATGCATGCAATATCCATATATA 57.144 29.630 26.68 0.00 0.00 0.86
1468 2106 8.762481 AGAACATGCATGCAATATCCATATAT 57.238 30.769 26.68 0.00 0.00 0.86
1540 2178 2.671963 GCGGAGAACAACACCCCC 60.672 66.667 0.00 0.00 0.00 5.40
1623 2261 0.913924 TCCAATGGAGATCTGCAGCA 59.086 50.000 22.03 0.33 33.50 4.41
1711 2349 1.237285 AAACATGTGCGGAGGTGAGC 61.237 55.000 0.00 0.00 0.00 4.26
1712 2350 0.518636 CAAACATGTGCGGAGGTGAG 59.481 55.000 0.00 0.00 0.00 3.51
1718 2356 2.552599 TCTTACCAAACATGTGCGGA 57.447 45.000 18.29 2.38 0.00 5.54
1723 2361 6.150307 TGCGTATTGATTCTTACCAAACATGT 59.850 34.615 0.00 0.00 0.00 3.21
1724 2362 6.468956 GTGCGTATTGATTCTTACCAAACATG 59.531 38.462 0.00 0.00 0.00 3.21
1800 2641 4.581493 AGAACGTACATATACACACGACG 58.419 43.478 8.36 0.00 37.80 5.12
1801 2642 6.023435 TGAAGAACGTACATATACACACGAC 58.977 40.000 8.36 3.63 37.80 4.34
1802 2643 6.180771 TGAAGAACGTACATATACACACGA 57.819 37.500 8.36 0.00 37.80 4.35
1883 2724 2.760092 ACAAGCAGAAAGAAGGCAAACA 59.240 40.909 0.00 0.00 0.00 2.83
1921 2762 3.725459 TGGCAACGCGACATGCAG 61.725 61.111 27.41 7.44 46.97 4.41
2125 2966 1.678635 CCGGCCACAACCACATGAT 60.679 57.895 2.24 0.00 0.00 2.45
2126 2967 2.135903 ATCCGGCCACAACCACATGA 62.136 55.000 2.24 0.00 0.00 3.07
2225 3066 1.376942 CTCCCACTTGCTGAGCAGG 60.377 63.158 15.41 15.41 40.61 4.85
2232 3073 3.118956 CGTTTAGATCTCTCCCACTTGCT 60.119 47.826 0.00 0.00 0.00 3.91
2244 3085 3.751518 ACCCTGCAAAACGTTTAGATCT 58.248 40.909 15.03 0.00 0.00 2.75
2249 3090 5.068723 TGGAATAAACCCTGCAAAACGTTTA 59.931 36.000 15.03 0.00 35.72 2.01
2366 3207 7.094805 TGCATTAAGGAGAACACACAATAGTTC 60.095 37.037 0.00 0.00 43.33 3.01
2367 3208 6.714810 TGCATTAAGGAGAACACACAATAGTT 59.285 34.615 0.00 0.00 0.00 2.24
2368 3209 6.237901 TGCATTAAGGAGAACACACAATAGT 58.762 36.000 0.00 0.00 0.00 2.12
2369 3210 6.741992 TGCATTAAGGAGAACACACAATAG 57.258 37.500 0.00 0.00 0.00 1.73
2370 3211 7.066163 CAGATGCATTAAGGAGAACACACAATA 59.934 37.037 0.00 0.00 0.00 1.90
2371 3212 5.948162 AGATGCATTAAGGAGAACACACAAT 59.052 36.000 0.00 0.00 0.00 2.71
2372 3213 5.181811 CAGATGCATTAAGGAGAACACACAA 59.818 40.000 0.00 0.00 0.00 3.33
2373 3214 4.696877 CAGATGCATTAAGGAGAACACACA 59.303 41.667 0.00 0.00 0.00 3.72
2374 3215 4.937620 TCAGATGCATTAAGGAGAACACAC 59.062 41.667 0.00 0.00 0.00 3.82
2379 3220 7.994911 ACAATACATCAGATGCATTAAGGAGAA 59.005 33.333 10.59 0.00 0.00 2.87
2390 3231 9.217278 AGATCTTAATCACAATACATCAGATGC 57.783 33.333 10.59 0.00 34.07 3.91
2410 3276 9.646427 GACACAGAGAAACAGTTATTAGATCTT 57.354 33.333 0.00 0.00 0.00 2.40
2416 3282 7.676004 TCATGGACACAGAGAAACAGTTATTA 58.324 34.615 0.00 0.00 0.00 0.98
2417 3283 6.533730 TCATGGACACAGAGAAACAGTTATT 58.466 36.000 0.00 0.00 0.00 1.40
2418 3284 6.114187 TCATGGACACAGAGAAACAGTTAT 57.886 37.500 0.00 0.00 0.00 1.89
2459 3325 3.059982 CACCGGGTCTCTTGCTGA 58.940 61.111 6.32 0.00 0.00 4.26
2549 3415 3.946558 GACACGTACCTCCTTGAGTATCT 59.053 47.826 0.00 0.00 34.92 1.98
2572 3438 1.272807 CTCTTTCCCCGACCAACCTA 58.727 55.000 0.00 0.00 0.00 3.08
2573 3439 0.767060 ACTCTTTCCCCGACCAACCT 60.767 55.000 0.00 0.00 0.00 3.50
2651 3517 2.351276 GACGAAGGCCACCATGGT 59.649 61.111 13.00 13.00 40.46 3.55
2770 3636 2.158957 AGAAGCTCTGGTGTCGAAACAA 60.159 45.455 8.27 0.00 37.08 2.83
2803 3669 4.041567 TCCTAAAGTCAGAGTCCAATTGCA 59.958 41.667 0.00 0.00 0.00 4.08
2821 3687 7.970294 ACACCTAATGTAGACCAAGAGTCCTAA 60.970 40.741 0.00 0.00 40.88 2.69
2822 3688 6.525417 ACACCTAATGTAGACCAAGAGTCCTA 60.525 42.308 0.00 0.00 40.88 2.94
2844 3710 5.470368 TGAACAATCAGACTGCTAGTACAC 58.530 41.667 0.00 0.00 0.00 2.90
2902 3769 5.731967 GCGGCAAATTAGTAATACATGCACA 60.732 40.000 20.69 0.00 34.14 4.57
2904 3771 4.336713 TGCGGCAAATTAGTAATACATGCA 59.663 37.500 20.69 13.90 34.14 3.96
2905 3772 4.854399 TGCGGCAAATTAGTAATACATGC 58.146 39.130 0.00 14.98 0.00 4.06
2906 3773 6.667370 TGATGCGGCAAATTAGTAATACATG 58.333 36.000 6.82 0.00 0.00 3.21
2910 3777 9.838975 CATATTTGATGCGGCAAATTAGTAATA 57.161 29.630 17.98 5.34 43.83 0.98
2914 3781 6.039717 AGACATATTTGATGCGGCAAATTAGT 59.960 34.615 17.98 16.16 43.83 2.24
2921 3788 1.948834 CCAGACATATTTGATGCGGCA 59.051 47.619 4.58 4.58 0.00 5.69
2925 3792 5.779529 ATCCAACCAGACATATTTGATGC 57.220 39.130 0.00 0.00 0.00 3.91
2932 3799 4.723789 ACCTCAGAATCCAACCAGACATAT 59.276 41.667 0.00 0.00 0.00 1.78
2933 3800 4.104086 ACCTCAGAATCCAACCAGACATA 58.896 43.478 0.00 0.00 0.00 2.29
2934 3801 2.915604 ACCTCAGAATCCAACCAGACAT 59.084 45.455 0.00 0.00 0.00 3.06
2937 3804 2.040278 CCAACCTCAGAATCCAACCAGA 59.960 50.000 0.00 0.00 0.00 3.86
2941 3808 0.804989 CGCCAACCTCAGAATCCAAC 59.195 55.000 0.00 0.00 0.00 3.77
2959 3826 6.090763 TGCTGATCAATCAAAGTACAACTACG 59.909 38.462 0.00 0.00 36.18 3.51
2961 3828 7.877612 TCTTGCTGATCAATCAAAGTACAACTA 59.122 33.333 10.22 0.00 36.18 2.24
2972 3839 6.291648 AGTTCTACTCTTGCTGATCAATCA 57.708 37.500 0.00 0.00 33.57 2.57
3002 3869 5.047943 ACGGGCATTCTACTAGTAGCATTAG 60.048 44.000 22.87 9.63 33.32 1.73
3003 3870 4.831155 ACGGGCATTCTACTAGTAGCATTA 59.169 41.667 22.87 9.88 33.32 1.90
3004 3871 3.641906 ACGGGCATTCTACTAGTAGCATT 59.358 43.478 22.87 8.73 33.32 3.56
3005 3872 3.005897 CACGGGCATTCTACTAGTAGCAT 59.994 47.826 22.87 16.06 33.32 3.79
3585 4462 0.403655 TGTATTCCCCTGTTGCAGCA 59.596 50.000 2.37 2.37 0.00 4.41


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

AutoCloner maintained by Alex Coulton.