Multiple sequence alignment - TraesCS7A01G262500

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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 TraesCS7A01G262500 chr7A 100.000 3405 0 0 1 3405 258416966 258413562 0.000000e+00 6288.0
1 TraesCS7A01G262500 chr7A 100.000 2004 0 0 3703 5706 258413264 258411261 0.000000e+00 3701.0
2 TraesCS7A01G262500 chr7A 92.366 930 61 4 1 923 129153766 129152840 0.000000e+00 1315.0
3 TraesCS7A01G262500 chr7A 87.138 933 84 19 1 918 149850995 149851906 0.000000e+00 1026.0
4 TraesCS7A01G262500 chr7A 100.000 171 0 0 4862 5032 258411937 258411767 3.320000e-82 316.0
5 TraesCS7A01G262500 chr7A 100.000 171 0 0 5030 5200 258412105 258411935 3.320000e-82 316.0
6 TraesCS7A01G262500 chr7A 75.468 481 53 32 1764 2243 110256377 110255961 2.110000e-39 174.0
7 TraesCS7A01G262500 chr7A 89.189 111 12 0 4305 4415 258412617 258412507 7.710000e-29 139.0
8 TraesCS7A01G262500 chr7A 89.189 111 12 0 4350 4460 258412662 258412552 7.710000e-29 139.0
9 TraesCS7A01G262500 chr7A 89.855 69 5 1 5340 5406 62261258 62261190 2.830000e-13 87.9
10 TraesCS7A01G262500 chr7D 95.750 2494 90 10 923 3405 243336105 243333617 0.000000e+00 4004.0
11 TraesCS7A01G262500 chr7D 94.844 737 28 3 4305 5032 243332692 243331957 0.000000e+00 1142.0
12 TraesCS7A01G262500 chr7D 97.260 657 17 1 3804 4460 243333237 243332582 0.000000e+00 1112.0
13 TraesCS7A01G262500 chr7D 88.418 708 41 19 5033 5706 243332130 243331430 0.000000e+00 815.0
14 TraesCS7A01G262500 chr7D 79.927 274 30 15 1764 2036 105432660 105432411 1.630000e-40 178.0
15 TraesCS7A01G262500 chr7D 95.238 105 4 1 3703 3806 243333567 243333463 1.270000e-36 165.0
16 TraesCS7A01G262500 chr7D 85.156 128 18 1 4305 4431 243332647 243332520 4.640000e-26 130.0
17 TraesCS7A01G262500 chr7D 92.308 65 5 0 5340 5404 613502432 613502368 6.090000e-15 93.5
18 TraesCS7A01G262500 chr7B 94.189 1394 57 11 933 2308 218821099 218819712 0.000000e+00 2104.0
19 TraesCS7A01G262500 chr7B 96.613 1181 29 4 3861 5032 218816767 218815589 0.000000e+00 1949.0
20 TraesCS7A01G262500 chr7B 95.495 1110 44 3 2298 3405 218818469 218817364 0.000000e+00 1768.0
21 TraesCS7A01G262500 chr7B 88.515 653 45 13 5033 5675 218815762 218815130 0.000000e+00 763.0
22 TraesCS7A01G262500 chr7B 75.941 478 50 31 1764 2240 64035054 64034641 9.760000e-43 185.0
23 TraesCS7A01G262500 chr7B 96.190 105 3 1 3703 3806 218817314 218817210 2.730000e-38 171.0
24 TraesCS7A01G262500 chr7B 100.000 65 0 0 3804 3868 218816982 218816918 2.790000e-23 121.0
25 TraesCS7A01G262500 chr7B 93.220 59 4 0 5348 5406 570411328 570411270 2.830000e-13 87.9
26 TraesCS7A01G262500 chr5A 92.688 930 58 4 1 923 40057833 40058759 0.000000e+00 1332.0
27 TraesCS7A01G262500 chr5A 91.459 925 69 4 1 918 438842737 438843658 0.000000e+00 1262.0
28 TraesCS7A01G262500 chr5A 91.113 934 61 9 1 918 631628269 631629196 0.000000e+00 1245.0
29 TraesCS7A01G262500 chr5A 80.964 415 65 10 967 1376 501921250 501920845 3.320000e-82 316.0
30 TraesCS7A01G262500 chr2A 92.449 927 58 6 1 918 718915491 718916414 0.000000e+00 1314.0
31 TraesCS7A01G262500 chr2A 92.117 926 62 5 1 918 752029944 752030866 0.000000e+00 1295.0
32 TraesCS7A01G262500 chr2A 85.185 216 22 4 710 918 682016699 682016911 4.480000e-51 213.0
33 TraesCS7A01G262500 chr2A 93.478 46 2 1 1991 2036 467026613 467026569 3.690000e-07 67.6
34 TraesCS7A01G262500 chr4A 90.538 930 77 4 1 923 594998198 594999123 0.000000e+00 1219.0
35 TraesCS7A01G262500 chr4A 94.545 55 3 0 5340 5394 394858454 394858508 1.020000e-12 86.1
36 TraesCS7A01G262500 chr3A 91.735 859 59 5 67 918 720859848 720858995 0.000000e+00 1182.0
37 TraesCS7A01G262500 chr5B 81.658 398 61 9 984 1376 476015868 476015478 2.570000e-83 320.0
38 TraesCS7A01G262500 chr5B 77.003 287 45 16 2805 3082 476014559 476014285 1.660000e-30 145.0
39 TraesCS7A01G262500 chr5D 80.964 415 65 10 967 1376 396142237 396141832 3.320000e-82 316.0
40 TraesCS7A01G262500 chr5D 77.163 289 45 16 2803 3082 396140920 396140644 1.280000e-31 148.0
41 TraesCS7A01G262500 chr6B 91.176 68 6 0 5340 5407 113328178 113328111 6.090000e-15 93.5
42 TraesCS7A01G262500 chr6A 91.304 69 5 1 5340 5407 27649271 27649203 6.090000e-15 93.5
43 TraesCS7A01G262500 chr1A 85.393 89 11 2 1943 2029 288511953 288511865 2.190000e-14 91.6
44 TraesCS7A01G262500 chr6D 86.585 82 10 1 1199 1279 404602779 404602698 7.870000e-14 89.8
45 TraesCS7A01G262500 chr6D 82.353 85 14 1 5521 5605 372825152 372825069 7.930000e-09 73.1
46 TraesCS7A01G262500 chr3D 83.871 93 11 4 5340 5431 499592842 499592753 1.020000e-12 86.1
47 TraesCS7A01G262500 chr4D 88.732 71 5 1 1783 1850 75049145 75049215 3.660000e-12 84.2
48 TraesCS7A01G262500 chr1D 81.000 100 16 2 1933 2029 222338283 222338184 6.130000e-10 76.8
49 TraesCS7A01G262500 chr1B 81.000 100 16 2 1933 2029 321876764 321876665 6.130000e-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 TraesCS7A01G262500 chr7A 258411261 258416966 5705 True 1816.5 6288 96.396333 1 5706 6 chr7A.!!$R4 5705
1 TraesCS7A01G262500 chr7A 129152840 129153766 926 True 1315.0 1315 92.366000 1 923 1 chr7A.!!$R3 922
2 TraesCS7A01G262500 chr7A 149850995 149851906 911 False 1026.0 1026 87.138000 1 918 1 chr7A.!!$F1 917
3 TraesCS7A01G262500 chr7D 243331430 243336105 4675 True 1228.0 4004 92.777667 923 5706 6 chr7D.!!$R3 4783
4 TraesCS7A01G262500 chr7B 218815130 218821099 5969 True 1146.0 2104 95.167000 933 5675 6 chr7B.!!$R3 4742
5 TraesCS7A01G262500 chr5A 40057833 40058759 926 False 1332.0 1332 92.688000 1 923 1 chr5A.!!$F1 922
6 TraesCS7A01G262500 chr5A 438842737 438843658 921 False 1262.0 1262 91.459000 1 918 1 chr5A.!!$F2 917
7 TraesCS7A01G262500 chr5A 631628269 631629196 927 False 1245.0 1245 91.113000 1 918 1 chr5A.!!$F3 917
8 TraesCS7A01G262500 chr2A 718915491 718916414 923 False 1314.0 1314 92.449000 1 918 1 chr2A.!!$F2 917
9 TraesCS7A01G262500 chr2A 752029944 752030866 922 False 1295.0 1295 92.117000 1 918 1 chr2A.!!$F3 917
10 TraesCS7A01G262500 chr4A 594998198 594999123 925 False 1219.0 1219 90.538000 1 923 1 chr4A.!!$F2 922
11 TraesCS7A01G262500 chr3A 720858995 720859848 853 True 1182.0 1182 91.735000 67 918 1 chr3A.!!$R1 851
12 TraesCS7A01G262500 chr5B 476014285 476015868 1583 True 232.5 320 79.330500 984 3082 2 chr5B.!!$R1 2098
13 TraesCS7A01G262500 chr5D 396140644 396142237 1593 True 232.0 316 79.063500 967 3082 2 chr5D.!!$R1 2115

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
481 493 0.035317 TGCTGTGGAGTCATCGCTTT 59.965 50.000 0.00 0.0 0.00 3.51 F
1372 1411 0.822164 CCAGGTCGTCGGAAGGTATT 59.178 55.000 0.00 0.0 0.00 1.89 F
1461 1589 1.059692 CGCGCTCTTGTTGTGTAGATG 59.940 52.381 5.56 0.0 0.00 2.90 F
2274 2414 0.691332 TATGCACGTACCCCAACCAA 59.309 50.000 0.00 0.0 0.00 3.67 F
2448 4081 0.983467 TGTCTATTGTCTGCTGGGCA 59.017 50.000 0.00 0.0 36.92 5.36 F
3945 6061 3.005684 GCACATGACAGGAATTGGTGAAA 59.994 43.478 0.00 0.0 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1598 1737 0.035317 GGGCATCACTGTGTCTGTGA 59.965 55.000 7.79 10.75 44.01 3.58 R
2178 2318 0.763652 CAGGCTCCCACATATGCTCT 59.236 55.000 1.58 0.00 0.00 4.09 R
2340 3733 1.303561 TACTACGGCGGGACACAGT 60.304 57.895 13.24 6.79 0.00 3.55 R
4087 6203 1.451387 AAAGTTGCGGGGCCTATCG 60.451 57.895 0.84 5.98 0.00 2.92 R
4353 6514 0.179004 TGTCTGTGGGTTCGGCATTT 60.179 50.000 0.00 0.00 0.00 2.32 R
5431 7603 0.107831 TAGCGCCGCCCTGAAAATAT 59.892 50.000 4.98 0.00 0.00 1.28 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
88 97 1.541452 CGCTCTCTCCGTCTCTCCATA 60.541 57.143 0.00 0.00 0.00 2.74
205 216 4.753662 TCCGGCACCTACTCCGCT 62.754 66.667 0.00 0.00 44.01 5.52
221 232 2.278857 CTGAGATTCGGTCGGGCG 60.279 66.667 0.00 0.00 0.00 6.13
406 418 1.204704 ACTGACGAGGATCATCGCAAA 59.795 47.619 27.96 13.54 46.60 3.68
414 426 1.939934 GGATCATCGCAAACATCGGAA 59.060 47.619 0.00 0.00 0.00 4.30
462 474 2.045926 GGACGAGCAAGCCATGGT 60.046 61.111 14.67 0.00 43.97 3.55
481 493 0.035317 TGCTGTGGAGTCATCGCTTT 59.965 50.000 0.00 0.00 0.00 3.51
497 509 2.706890 GCTTTCCGGAAGACACCAATA 58.293 47.619 17.97 0.00 37.57 1.90
523 535 2.163509 CAGTTCTTCGTCCAGAGGAGA 58.836 52.381 0.00 0.00 36.29 3.71
539 560 1.134220 GGAGAGCGAAGAGGAGAGAGA 60.134 57.143 0.00 0.00 0.00 3.10
545 566 1.063469 CGAAGAGGAGAGAGAAGCGAC 59.937 57.143 0.00 0.00 0.00 5.19
611 632 2.108168 ACAACCAAGCGCTAGGAGATA 58.892 47.619 12.05 0.00 0.00 1.98
618 639 0.953003 GCGCTAGGAGATACGTCCTT 59.047 55.000 0.00 0.00 45.39 3.36
647 668 1.503542 GACGACGAGCGGTTCCTTA 59.496 57.895 0.00 0.00 46.49 2.69
721 742 5.700373 GTCGGACGAGTAGTAATAGGAGAAT 59.300 44.000 0.00 0.00 0.00 2.40
722 751 5.699915 TCGGACGAGTAGTAATAGGAGAATG 59.300 44.000 0.00 0.00 0.00 2.67
821 851 4.129737 GCTAGAGCGGCGTGGACA 62.130 66.667 9.37 0.00 0.00 4.02
883 913 1.154225 CGCAAAAGCTGGCTAACCG 60.154 57.895 0.00 0.00 39.70 4.44
938 972 4.261698 GCGAGACTAAACCCTTATCTCCTC 60.262 50.000 0.00 0.00 33.66 3.71
1245 1284 3.149005 GAGACTATCCTCCTCGATGGT 57.851 52.381 0.00 0.00 36.74 3.55
1275 1314 2.612972 CGAACACTGGCTGGTAGTCATT 60.613 50.000 0.00 0.00 0.00 2.57
1309 1348 1.335964 GCGACGCTGCTAATCCTGATA 60.336 52.381 13.73 0.00 0.00 2.15
1372 1411 0.822164 CCAGGTCGTCGGAAGGTATT 59.178 55.000 0.00 0.00 0.00 1.89
1461 1589 1.059692 CGCGCTCTTGTTGTGTAGATG 59.940 52.381 5.56 0.00 0.00 2.90
1598 1737 4.833478 ATGTCTGGTGTGAGCTAAGAAT 57.167 40.909 0.00 0.00 0.00 2.40
1654 1793 3.810310 TTCGGCATTCCAAAAACAACT 57.190 38.095 0.00 0.00 0.00 3.16
1754 1894 9.689976 ATGAGAAAACGAGATGAGATATTAGTG 57.310 33.333 0.00 0.00 0.00 2.74
1779 1919 4.965532 ACTAGCAGGATCTTAACATCAGGT 59.034 41.667 0.00 0.00 0.00 4.00
1782 1922 4.018960 AGCAGGATCTTAACATCAGGTTGT 60.019 41.667 0.00 0.00 40.73 3.32
1814 1954 1.145738 ACCCATGGATGATTGGCTACC 59.854 52.381 15.22 0.00 0.00 3.18
2088 2228 2.667418 GGAAGAGAGGCTGCTGCA 59.333 61.111 17.89 0.88 41.91 4.41
2090 2230 2.047465 AAGAGAGGCTGCTGCACG 60.047 61.111 17.89 0.00 41.91 5.34
2178 2318 2.218603 GAGCTCGTTCCTTTTTGTGGA 58.781 47.619 0.00 0.00 0.00 4.02
2258 2398 1.227943 CCCGTGTCCCCAGCATATG 60.228 63.158 0.00 0.00 0.00 1.78
2274 2414 0.691332 TATGCACGTACCCCAACCAA 59.309 50.000 0.00 0.00 0.00 3.67
2340 3733 1.148273 GGCTTATCCCGCCATGTCA 59.852 57.895 0.00 0.00 46.77 3.58
2349 3742 2.034879 CGCCATGTCACTGTGTCCC 61.035 63.158 7.79 0.00 0.00 4.46
2437 4070 6.017605 AGAGTGCTTTGTTTCTGTGTCTATTG 60.018 38.462 0.00 0.00 0.00 1.90
2448 4081 0.983467 TGTCTATTGTCTGCTGGGCA 59.017 50.000 0.00 0.00 36.92 5.36
2457 4090 4.666253 TGCTGGGCAGGCACTTCC 62.666 66.667 0.00 0.00 42.40 3.46
2524 4158 5.877012 CCTTATTGCTCTAGTGTGATGTGTT 59.123 40.000 0.00 0.00 0.00 3.32
2540 4174 7.232330 TGTGATGTGTTATTTGGGATCTTTCAA 59.768 33.333 0.00 0.00 0.00 2.69
2850 4546 4.970611 CAGAAGATATACTCGGTGTCAACG 59.029 45.833 3.17 3.17 0.00 4.10
3153 4877 8.445275 TTCTCTTCTGAGCTCAGTATAGTTAG 57.555 38.462 36.32 24.40 44.12 2.34
3165 4889 7.470147 GCTCAGTATAGTTAGCATGGTACTTCA 60.470 40.741 3.60 0.00 35.05 3.02
3252 4976 5.022787 GGGTTAGATATCAGATCTGGAGCT 58.977 45.833 22.42 19.22 0.00 4.09
3319 5045 3.811497 TCTGAACTTTGCTGTGTCATGAG 59.189 43.478 0.00 0.00 0.00 2.90
3740 5466 3.695830 TTCGGACAAATTAGGAGCTGT 57.304 42.857 0.00 0.00 0.00 4.40
3795 5521 4.582869 AGCAGATGTCAGTTTCTTGCATA 58.417 39.130 0.00 0.00 0.00 3.14
3796 5522 5.191426 AGCAGATGTCAGTTTCTTGCATAT 58.809 37.500 0.00 0.00 0.00 1.78
3797 5523 5.066117 AGCAGATGTCAGTTTCTTGCATATG 59.934 40.000 0.00 0.00 32.31 1.78
3800 5526 4.032960 TGTCAGTTTCTTGCATATGGGT 57.967 40.909 4.56 0.00 0.00 4.51
3802 5528 5.565509 TGTCAGTTTCTTGCATATGGGTTA 58.434 37.500 4.56 0.00 0.00 2.85
3945 6061 3.005684 GCACATGACAGGAATTGGTGAAA 59.994 43.478 0.00 0.00 0.00 2.69
3946 6062 4.549458 CACATGACAGGAATTGGTGAAAC 58.451 43.478 0.00 0.00 0.00 2.78
3947 6063 4.279169 CACATGACAGGAATTGGTGAAACT 59.721 41.667 0.00 0.00 36.74 2.66
4468 6629 1.077716 GAACCAACAGGCGGGCTAT 60.078 57.895 2.84 0.00 0.00 2.97
4728 6889 2.544685 CTAAGGATGAGGCAACGTGAG 58.455 52.381 0.00 0.00 46.39 3.51
4873 7037 3.447586 TCGATTCTCCCTGAAGTAACCTG 59.552 47.826 0.00 0.00 38.18 4.00
4958 7128 3.128242 GCACATTCTGCAATTAGCTGTCT 59.872 43.478 0.00 0.00 46.29 3.41
4996 7166 3.194062 GAGCTGTGCTATCTGTTTCCTC 58.806 50.000 0.00 0.00 39.88 3.71
4998 7168 2.935201 GCTGTGCTATCTGTTTCCTCTG 59.065 50.000 0.00 0.00 0.00 3.35
4999 7169 3.529533 CTGTGCTATCTGTTTCCTCTGG 58.470 50.000 0.00 0.00 0.00 3.86
5000 7170 2.906389 TGTGCTATCTGTTTCCTCTGGT 59.094 45.455 0.00 0.00 0.00 4.00
5001 7171 3.055819 TGTGCTATCTGTTTCCTCTGGTC 60.056 47.826 0.00 0.00 0.00 4.02
5002 7172 3.055819 GTGCTATCTGTTTCCTCTGGTCA 60.056 47.826 0.00 0.00 0.00 4.02
5003 7173 3.776969 TGCTATCTGTTTCCTCTGGTCAT 59.223 43.478 0.00 0.00 0.00 3.06
5004 7174 4.962362 TGCTATCTGTTTCCTCTGGTCATA 59.038 41.667 0.00 0.00 0.00 2.15
5005 7175 5.425217 TGCTATCTGTTTCCTCTGGTCATAA 59.575 40.000 0.00 0.00 0.00 1.90
5006 7176 6.100279 TGCTATCTGTTTCCTCTGGTCATAAT 59.900 38.462 0.00 0.00 0.00 1.28
5007 7177 6.426328 GCTATCTGTTTCCTCTGGTCATAATG 59.574 42.308 0.00 0.00 0.00 1.90
5008 7178 5.762179 TCTGTTTCCTCTGGTCATAATGT 57.238 39.130 0.00 0.00 0.00 2.71
5009 7179 6.867519 TCTGTTTCCTCTGGTCATAATGTA 57.132 37.500 0.00 0.00 0.00 2.29
5010 7180 7.437713 TCTGTTTCCTCTGGTCATAATGTAT 57.562 36.000 0.00 0.00 0.00 2.29
5011 7181 7.861629 TCTGTTTCCTCTGGTCATAATGTATT 58.138 34.615 0.00 0.00 0.00 1.89
5012 7182 7.987458 TCTGTTTCCTCTGGTCATAATGTATTC 59.013 37.037 0.00 0.00 0.00 1.75
5013 7183 7.054124 TGTTTCCTCTGGTCATAATGTATTCC 58.946 38.462 0.00 0.00 0.00 3.01
5014 7184 7.092444 TGTTTCCTCTGGTCATAATGTATTCCT 60.092 37.037 0.00 0.00 0.00 3.36
5015 7185 8.429641 GTTTCCTCTGGTCATAATGTATTCCTA 58.570 37.037 0.00 0.00 0.00 2.94
5016 7186 7.782897 TCCTCTGGTCATAATGTATTCCTAG 57.217 40.000 0.00 0.00 0.00 3.02
5017 7187 7.535738 TCCTCTGGTCATAATGTATTCCTAGA 58.464 38.462 0.00 0.00 0.00 2.43
5018 7188 7.451877 TCCTCTGGTCATAATGTATTCCTAGAC 59.548 40.741 0.00 0.00 0.00 2.59
5019 7189 7.453126 CCTCTGGTCATAATGTATTCCTAGACT 59.547 40.741 0.00 0.00 0.00 3.24
5020 7190 8.783660 TCTGGTCATAATGTATTCCTAGACTT 57.216 34.615 0.00 0.00 0.00 3.01
5021 7191 8.861086 TCTGGTCATAATGTATTCCTAGACTTC 58.139 37.037 0.00 0.00 0.00 3.01
5022 7192 8.783660 TGGTCATAATGTATTCCTAGACTTCT 57.216 34.615 0.00 0.00 0.00 2.85
5023 7193 9.877222 TGGTCATAATGTATTCCTAGACTTCTA 57.123 33.333 0.00 0.00 0.00 2.10
5029 7199 6.090483 TGTATTCCTAGACTTCTATGCTGC 57.910 41.667 0.00 0.00 0.00 5.25
5030 7200 5.835819 TGTATTCCTAGACTTCTATGCTGCT 59.164 40.000 0.00 0.00 0.00 4.24
5031 7201 4.662468 TTCCTAGACTTCTATGCTGCTG 57.338 45.455 0.00 0.00 0.00 4.41
5032 7202 3.903467 TCCTAGACTTCTATGCTGCTGA 58.097 45.455 0.00 0.00 0.00 4.26
5033 7203 4.281657 TCCTAGACTTCTATGCTGCTGAA 58.718 43.478 0.00 2.46 0.00 3.02
5034 7204 4.340666 TCCTAGACTTCTATGCTGCTGAAG 59.659 45.833 20.23 20.23 41.87 3.02
5036 7206 5.300539 CCTAGACTTCTATGCTGCTGAAGTA 59.699 44.000 24.24 15.16 46.85 2.24
5037 7207 5.667539 AGACTTCTATGCTGCTGAAGTAA 57.332 39.130 24.24 5.03 46.85 2.24
5038 7208 5.415221 AGACTTCTATGCTGCTGAAGTAAC 58.585 41.667 24.24 17.31 46.85 2.50
5039 7209 4.508662 ACTTCTATGCTGCTGAAGTAACC 58.491 43.478 23.52 0.00 45.61 2.85
5040 7210 4.223923 ACTTCTATGCTGCTGAAGTAACCT 59.776 41.667 23.52 8.56 45.61 3.50
5041 7211 4.128925 TCTATGCTGCTGAAGTAACCTG 57.871 45.455 0.00 0.00 0.00 4.00
5042 7212 3.769300 TCTATGCTGCTGAAGTAACCTGA 59.231 43.478 0.00 0.00 0.00 3.86
5043 7213 2.928801 TGCTGCTGAAGTAACCTGAA 57.071 45.000 0.00 0.00 0.00 3.02
5044 7214 3.423539 TGCTGCTGAAGTAACCTGAAT 57.576 42.857 0.00 0.00 0.00 2.57
5045 7215 4.551702 TGCTGCTGAAGTAACCTGAATA 57.448 40.909 0.00 0.00 0.00 1.75
5046 7216 5.102953 TGCTGCTGAAGTAACCTGAATAT 57.897 39.130 0.00 0.00 0.00 1.28
5047 7217 5.500234 TGCTGCTGAAGTAACCTGAATATT 58.500 37.500 0.00 0.00 0.00 1.28
5048 7218 5.586243 TGCTGCTGAAGTAACCTGAATATTC 59.414 40.000 8.60 8.60 0.00 1.75
5049 7219 5.819901 GCTGCTGAAGTAACCTGAATATTCT 59.180 40.000 16.24 0.00 0.00 2.40
5050 7220 6.238320 GCTGCTGAAGTAACCTGAATATTCTG 60.238 42.308 16.24 14.95 0.00 3.02
5051 7221 6.711277 TGCTGAAGTAACCTGAATATTCTGT 58.289 36.000 16.24 10.49 0.00 3.41
5052 7222 6.595326 TGCTGAAGTAACCTGAATATTCTGTG 59.405 38.462 16.24 11.60 0.00 3.66
5053 7223 6.818644 GCTGAAGTAACCTGAATATTCTGTGA 59.181 38.462 16.24 4.63 0.00 3.58
5054 7224 7.497249 GCTGAAGTAACCTGAATATTCTGTGAT 59.503 37.037 16.24 7.59 0.00 3.06
5055 7225 8.722480 TGAAGTAACCTGAATATTCTGTGATG 57.278 34.615 16.24 6.02 0.00 3.07
5056 7226 7.280876 TGAAGTAACCTGAATATTCTGTGATGC 59.719 37.037 16.24 8.37 0.00 3.91
5057 7227 6.893583 AGTAACCTGAATATTCTGTGATGCT 58.106 36.000 16.24 10.06 0.00 3.79
5058 7228 6.765036 AGTAACCTGAATATTCTGTGATGCTG 59.235 38.462 16.24 4.46 0.00 4.41
5059 7229 5.363562 ACCTGAATATTCTGTGATGCTGA 57.636 39.130 16.24 0.00 0.00 4.26
5060 7230 5.748402 ACCTGAATATTCTGTGATGCTGAA 58.252 37.500 16.24 0.00 38.96 3.02
5061 7231 5.587844 ACCTGAATATTCTGTGATGCTGAAC 59.412 40.000 16.24 0.00 37.76 3.18
5062 7232 5.821470 CCTGAATATTCTGTGATGCTGAACT 59.179 40.000 16.24 0.00 37.76 3.01
5063 7233 6.318144 CCTGAATATTCTGTGATGCTGAACTT 59.682 38.462 16.24 0.00 37.76 2.66
5064 7234 7.148120 CCTGAATATTCTGTGATGCTGAACTTT 60.148 37.037 16.24 0.00 37.76 2.66
5065 7235 8.114331 TGAATATTCTGTGATGCTGAACTTTT 57.886 30.769 16.24 0.00 37.76 2.27
5066 7236 9.230122 TGAATATTCTGTGATGCTGAACTTTTA 57.770 29.630 16.24 0.00 37.76 1.52
5070 7240 6.882610 TCTGTGATGCTGAACTTTTAATGT 57.117 33.333 0.00 0.00 0.00 2.71
5071 7241 6.671190 TCTGTGATGCTGAACTTTTAATGTG 58.329 36.000 0.00 0.00 0.00 3.21
5072 7242 5.221880 TGTGATGCTGAACTTTTAATGTGC 58.778 37.500 0.00 0.00 0.00 4.57
5073 7243 5.221204 TGTGATGCTGAACTTTTAATGTGCA 60.221 36.000 0.00 0.00 0.00 4.57
5074 7244 5.691305 GTGATGCTGAACTTTTAATGTGCAA 59.309 36.000 0.00 0.00 32.88 4.08
5075 7245 5.691305 TGATGCTGAACTTTTAATGTGCAAC 59.309 36.000 0.00 0.00 32.88 4.17
5089 7259 3.163630 GTGCAACAATGGTTCAGTTGT 57.836 42.857 0.00 0.00 43.31 3.32
5090 7260 3.115554 GTGCAACAATGGTTCAGTTGTC 58.884 45.455 0.00 0.00 43.31 3.18
5091 7261 2.100584 TGCAACAATGGTTCAGTTGTCC 59.899 45.455 0.00 0.00 43.31 4.02
5092 7262 2.100584 GCAACAATGGTTCAGTTGTCCA 59.899 45.455 0.00 0.00 43.31 4.02
5093 7263 3.705604 CAACAATGGTTCAGTTGTCCAC 58.294 45.455 0.00 0.00 37.56 4.02
5094 7264 3.011566 ACAATGGTTCAGTTGTCCACA 57.988 42.857 0.00 0.00 33.53 4.17
5095 7265 3.565307 ACAATGGTTCAGTTGTCCACAT 58.435 40.909 0.00 0.00 33.53 3.21
5096 7266 3.569701 ACAATGGTTCAGTTGTCCACATC 59.430 43.478 0.00 0.00 33.53 3.06
5097 7267 3.795688 ATGGTTCAGTTGTCCACATCT 57.204 42.857 0.00 0.00 33.91 2.90
5098 7268 3.126001 TGGTTCAGTTGTCCACATCTC 57.874 47.619 0.00 0.00 0.00 2.75
5099 7269 2.437651 TGGTTCAGTTGTCCACATCTCA 59.562 45.455 0.00 0.00 0.00 3.27
5100 7270 3.070018 GGTTCAGTTGTCCACATCTCAG 58.930 50.000 0.00 0.00 0.00 3.35
5101 7271 2.462456 TCAGTTGTCCACATCTCAGC 57.538 50.000 0.00 0.00 0.00 4.26
5102 7272 1.073964 CAGTTGTCCACATCTCAGCG 58.926 55.000 0.00 0.00 0.00 5.18
5103 7273 0.681733 AGTTGTCCACATCTCAGCGT 59.318 50.000 0.00 0.00 0.00 5.07
5104 7274 0.792640 GTTGTCCACATCTCAGCGTG 59.207 55.000 0.00 0.00 0.00 5.34
5105 7275 0.950555 TTGTCCACATCTCAGCGTGC 60.951 55.000 0.00 0.00 0.00 5.34
5106 7276 1.374631 GTCCACATCTCAGCGTGCA 60.375 57.895 0.00 0.00 0.00 4.57
5107 7277 1.374631 TCCACATCTCAGCGTGCAC 60.375 57.895 6.82 6.82 0.00 4.57
5108 7278 1.668793 CCACATCTCAGCGTGCACA 60.669 57.895 18.64 0.00 0.00 4.57
5109 7279 1.022982 CCACATCTCAGCGTGCACAT 61.023 55.000 18.64 0.95 0.00 3.21
5110 7280 0.800631 CACATCTCAGCGTGCACATT 59.199 50.000 18.64 0.20 0.00 2.71
5111 7281 1.081892 ACATCTCAGCGTGCACATTC 58.918 50.000 18.64 5.12 0.00 2.67
5112 7282 1.338484 ACATCTCAGCGTGCACATTCT 60.338 47.619 18.64 7.54 0.00 2.40
5113 7283 1.062148 CATCTCAGCGTGCACATTCTG 59.938 52.381 18.64 18.87 0.00 3.02
5124 7294 3.498927 GCACATTCTGCAATTAGCTGT 57.501 42.857 0.00 0.00 46.29 4.40
5125 7295 3.432782 GCACATTCTGCAATTAGCTGTC 58.567 45.455 0.00 0.00 46.29 3.51
5126 7296 3.128242 GCACATTCTGCAATTAGCTGTCT 59.872 43.478 0.00 0.00 46.29 3.41
5127 7297 4.659088 CACATTCTGCAATTAGCTGTCTG 58.341 43.478 0.00 0.00 45.94 3.51
5128 7298 4.155462 CACATTCTGCAATTAGCTGTCTGT 59.845 41.667 0.00 0.00 45.94 3.41
5129 7299 4.763793 ACATTCTGCAATTAGCTGTCTGTT 59.236 37.500 0.00 0.00 45.94 3.16
5130 7300 5.242393 ACATTCTGCAATTAGCTGTCTGTTT 59.758 36.000 0.00 0.00 45.94 2.83
5131 7301 6.430925 ACATTCTGCAATTAGCTGTCTGTTTA 59.569 34.615 0.00 0.00 45.94 2.01
5132 7302 6.875948 TTCTGCAATTAGCTGTCTGTTTAA 57.124 33.333 0.00 0.00 45.94 1.52
5133 7303 7.452880 TTCTGCAATTAGCTGTCTGTTTAAT 57.547 32.000 0.00 0.00 45.94 1.40
5134 7304 7.452880 TCTGCAATTAGCTGTCTGTTTAATT 57.547 32.000 0.00 0.00 45.94 1.40
5135 7305 7.307694 TCTGCAATTAGCTGTCTGTTTAATTG 58.692 34.615 0.00 3.14 45.94 2.32
5136 7306 6.389091 TGCAATTAGCTGTCTGTTTAATTGG 58.611 36.000 13.44 0.61 45.94 3.16
5137 7307 6.015519 TGCAATTAGCTGTCTGTTTAATTGGT 60.016 34.615 13.44 0.00 45.94 3.67
5138 7308 6.528072 GCAATTAGCTGTCTGTTTAATTGGTC 59.472 38.462 13.44 0.00 40.90 4.02
5139 7309 6.759497 ATTAGCTGTCTGTTTAATTGGTCC 57.241 37.500 0.00 0.00 0.00 4.46
5140 7310 4.373156 AGCTGTCTGTTTAATTGGTCCT 57.627 40.909 0.00 0.00 0.00 3.85
5141 7311 4.729868 AGCTGTCTGTTTAATTGGTCCTT 58.270 39.130 0.00 0.00 0.00 3.36
5142 7312 5.140454 AGCTGTCTGTTTAATTGGTCCTTT 58.860 37.500 0.00 0.00 0.00 3.11
5143 7313 5.010012 AGCTGTCTGTTTAATTGGTCCTTTG 59.990 40.000 0.00 0.00 0.00 2.77
5144 7314 5.009610 GCTGTCTGTTTAATTGGTCCTTTGA 59.990 40.000 0.00 0.00 0.00 2.69
5145 7315 6.633500 TGTCTGTTTAATTGGTCCTTTGAG 57.367 37.500 0.00 0.00 0.00 3.02
5146 7316 5.009610 TGTCTGTTTAATTGGTCCTTTGAGC 59.990 40.000 0.00 0.00 39.48 4.26
5147 7317 5.241728 GTCTGTTTAATTGGTCCTTTGAGCT 59.758 40.000 0.00 0.00 39.75 4.09
5148 7318 5.241506 TCTGTTTAATTGGTCCTTTGAGCTG 59.758 40.000 0.00 0.00 39.75 4.24
5149 7319 4.892934 TGTTTAATTGGTCCTTTGAGCTGT 59.107 37.500 0.00 0.00 39.75 4.40
5150 7320 5.221224 TGTTTAATTGGTCCTTTGAGCTGTG 60.221 40.000 0.00 0.00 39.75 3.66
5151 7321 1.251251 ATTGGTCCTTTGAGCTGTGC 58.749 50.000 0.00 0.00 39.75 4.57
5152 7322 0.183492 TTGGTCCTTTGAGCTGTGCT 59.817 50.000 0.00 0.00 43.88 4.40
5153 7323 1.055849 TGGTCCTTTGAGCTGTGCTA 58.944 50.000 0.00 0.00 39.88 3.49
5154 7324 1.630369 TGGTCCTTTGAGCTGTGCTAT 59.370 47.619 0.00 0.00 39.88 2.97
5155 7325 2.284190 GGTCCTTTGAGCTGTGCTATC 58.716 52.381 0.00 0.00 39.88 2.08
5156 7326 2.093235 GGTCCTTTGAGCTGTGCTATCT 60.093 50.000 0.00 0.00 39.88 1.98
5157 7327 2.935201 GTCCTTTGAGCTGTGCTATCTG 59.065 50.000 0.00 0.00 39.88 2.90
5158 7328 2.568956 TCCTTTGAGCTGTGCTATCTGT 59.431 45.455 0.00 0.00 39.88 3.41
5159 7329 3.008375 TCCTTTGAGCTGTGCTATCTGTT 59.992 43.478 0.00 0.00 39.88 3.16
5160 7330 3.755378 CCTTTGAGCTGTGCTATCTGTTT 59.245 43.478 0.00 0.00 39.88 2.83
5161 7331 4.142730 CCTTTGAGCTGTGCTATCTGTTTC 60.143 45.833 0.00 0.00 39.88 2.78
5162 7332 2.977914 TGAGCTGTGCTATCTGTTTCC 58.022 47.619 0.00 0.00 39.88 3.13
5163 7333 2.568956 TGAGCTGTGCTATCTGTTTCCT 59.431 45.455 0.00 0.00 39.88 3.36
5164 7334 3.194062 GAGCTGTGCTATCTGTTTCCTC 58.806 50.000 0.00 0.00 39.88 3.71
5165 7335 2.836981 AGCTGTGCTATCTGTTTCCTCT 59.163 45.455 0.00 0.00 36.99 3.69
5166 7336 2.935201 GCTGTGCTATCTGTTTCCTCTG 59.065 50.000 0.00 0.00 0.00 3.35
5181 7351 7.054124 TGTTTCCTCTGGTCATAATGTATTCC 58.946 38.462 0.00 0.00 0.00 3.01
5203 7373 3.692257 AGACTTCTATGCTGCTGTTGT 57.308 42.857 0.00 0.00 0.00 3.32
5382 7554 8.313779 ACGCTATAGTGTGTTGAGAATTGTCTC 61.314 40.741 18.00 0.00 42.82 3.36
5464 7651 2.739293 GCGCTATTTTCTGTAGTGCC 57.261 50.000 0.00 0.00 45.36 5.01
5465 7652 2.280628 GCGCTATTTTCTGTAGTGCCT 58.719 47.619 0.00 0.00 45.36 4.75
5536 7724 9.989869 GCTTAGTCTAATGAAACTAATTTGGTC 57.010 33.333 0.00 0.00 0.00 4.02
5548 7744 8.983702 AAACTAATTTGGTCTTGTAGGTGTTA 57.016 30.769 0.00 0.00 0.00 2.41
5615 7811 7.875971 ACTTAGGACAAATCTCAAATGTCAAC 58.124 34.615 7.36 0.00 44.05 3.18
5648 7846 7.363268 GGAACGGAAGGAGTAGTGATTTACTTA 60.363 40.741 0.00 0.00 40.89 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 2.494059 GAGGCGCTGCAATTTATAGGA 58.506 47.619 7.64 0.00 0.00 2.94
205 216 3.833645 CCGCCCGACCGAATCTCA 61.834 66.667 0.00 0.00 0.00 3.27
379 391 2.796557 TGATCCTCGTCAGTGAGAAGT 58.203 47.619 0.00 0.00 38.28 3.01
406 418 2.650813 GATGCTCCCGCTTCCGATGT 62.651 60.000 0.00 0.00 35.05 3.06
414 426 2.755876 TGAGACGATGCTCCCGCT 60.756 61.111 0.00 0.00 36.97 5.52
462 474 0.035317 AAAGCGATGACTCCACAGCA 59.965 50.000 0.00 0.00 32.61 4.41
481 493 4.202377 TGTTTCTTATTGGTGTCTTCCGGA 60.202 41.667 0.00 0.00 0.00 5.14
513 525 0.395036 CCTCTTCGCTCTCCTCTGGA 60.395 60.000 0.00 0.00 0.00 3.86
523 535 1.102978 GCTTCTCTCTCCTCTTCGCT 58.897 55.000 0.00 0.00 0.00 4.93
611 632 0.538977 TCGGAGTTCCAGAAGGACGT 60.539 55.000 0.00 0.00 45.73 4.34
618 639 1.296755 CTCGTCGTCGGAGTTCCAGA 61.297 60.000 1.55 0.00 37.69 3.86
647 668 2.178521 CGTCAGAGCGTAGGCGTT 59.821 61.111 1.05 0.00 46.35 4.84
747 776 9.529325 CATATTTGGTTTCGTAGATAGTTCTCA 57.471 33.333 0.00 0.00 35.04 3.27
799 829 2.439701 ACGCCGCTCTAGCAGGTA 60.440 61.111 2.44 0.00 42.21 3.08
800 830 4.135153 CACGCCGCTCTAGCAGGT 62.135 66.667 2.44 0.00 42.21 4.00
918 952 5.134661 CGAGAGGAGATAAGGGTTTAGTCT 58.865 45.833 0.00 0.00 0.00 3.24
938 972 1.931172 GACGGAAGAGAGAGAGACGAG 59.069 57.143 0.00 0.00 0.00 4.18
1245 1284 1.495584 GCCAGTGTTCGAAGTCGCAA 61.496 55.000 0.00 0.00 39.60 4.85
1309 1348 0.382158 ATGATCTCGTCGCGTGTGAT 59.618 50.000 5.77 11.83 0.00 3.06
1372 1411 2.177394 TGCGAGAAATGGTTACAGCA 57.823 45.000 0.00 0.00 0.00 4.41
1461 1589 6.985188 TTAGTGAGACATAAAATGCAGGAC 57.015 37.500 0.00 0.00 0.00 3.85
1525 1664 3.444388 TCAACCAAGCAAAAACCGTTAGT 59.556 39.130 0.00 0.00 0.00 2.24
1526 1665 4.035278 TCAACCAAGCAAAAACCGTTAG 57.965 40.909 0.00 0.00 0.00 2.34
1598 1737 0.035317 GGGCATCACTGTGTCTGTGA 59.965 55.000 7.79 10.75 44.01 3.58
1754 1894 5.988561 CCTGATGTTAAGATCCTGCTAGTTC 59.011 44.000 9.91 0.00 0.00 3.01
1779 1919 1.801242 TGGGTGAGACTGAAGGACAA 58.199 50.000 0.00 0.00 0.00 3.18
1782 1922 1.203300 TCCATGGGTGAGACTGAAGGA 60.203 52.381 13.02 0.00 0.00 3.36
1921 2061 3.203546 CTGCTTGCCTGCTTGCGTT 62.204 57.895 0.00 0.00 0.00 4.84
1956 2096 2.991076 GCTGCTGCTTGCTTCCCTG 61.991 63.158 8.53 0.00 43.37 4.45
1957 2097 2.675772 GCTGCTGCTTGCTTCCCT 60.676 61.111 8.53 0.00 43.37 4.20
2040 2180 1.296715 CGCTCAAGCAGGTAACCCT 59.703 57.895 2.50 0.00 44.02 4.34
2088 2228 3.636043 CGACGCTGTTTGCCACGT 61.636 61.111 0.00 0.00 42.27 4.49
2090 2230 4.683334 GCCGACGCTGTTTGCCAC 62.683 66.667 0.00 0.00 38.78 5.01
2178 2318 0.763652 CAGGCTCCCACATATGCTCT 59.236 55.000 1.58 0.00 0.00 4.09
2244 2384 1.153188 CGTGCATATGCTGGGGACA 60.153 57.895 27.13 3.32 42.66 4.02
2254 2394 0.913205 TGGTTGGGGTACGTGCATAT 59.087 50.000 5.86 0.00 0.00 1.78
2258 2398 0.891904 ACATTGGTTGGGGTACGTGC 60.892 55.000 0.00 0.00 0.00 5.34
2340 3733 1.303561 TACTACGGCGGGACACAGT 60.304 57.895 13.24 6.79 0.00 3.55
2411 4044 5.023533 AGACACAGAAACAAAGCACTCTA 57.976 39.130 0.00 0.00 0.00 2.43
2457 4090 8.006298 TCCCAACATTACTTTTGCCATAATAG 57.994 34.615 0.00 0.00 0.00 1.73
2524 4158 3.963129 ACGCCTTGAAAGATCCCAAATA 58.037 40.909 0.00 0.00 0.00 1.40
2540 4174 3.418684 AAGACAAGATTACCAACGCCT 57.581 42.857 0.00 0.00 0.00 5.52
2649 4283 1.919918 GGTAACACGACCCGTATTTCG 59.080 52.381 0.00 0.00 38.32 3.46
2779 4413 9.855021 ACATTAAAAGAAGTTAATATGTGCCAC 57.145 29.630 0.00 0.00 33.00 5.01
2850 4546 4.666402 GCACCAAAAGCAAAATAATGACGC 60.666 41.667 0.00 0.00 0.00 5.19
3153 4877 6.389906 ACTGCTTAATTTTGAAGTACCATGC 58.610 36.000 0.00 0.00 0.00 4.06
3252 4976 6.530120 ACCAACATACAGTCTGTTAACATCA 58.470 36.000 11.54 0.00 35.15 3.07
3319 5045 8.542497 TGGTCATGTAACTGTAAAAGTACATC 57.458 34.615 0.00 0.00 39.51 3.06
3740 5466 6.384015 TGTCAAGGCTATCAGATTAGAAAGGA 59.616 38.462 0.00 0.00 0.00 3.36
3795 5521 5.424252 TGCTTAGCAACTACTACTAACCCAT 59.576 40.000 3.67 0.00 34.76 4.00
3796 5522 4.773674 TGCTTAGCAACTACTACTAACCCA 59.226 41.667 3.67 0.00 34.76 4.51
3797 5523 5.334724 TGCTTAGCAACTACTACTAACCC 57.665 43.478 3.67 0.00 34.76 4.11
4087 6203 1.451387 AAAGTTGCGGGGCCTATCG 60.451 57.895 0.84 5.98 0.00 2.92
4134 6250 1.734465 GGAAGTTCTGCATGTTCTCCG 59.266 52.381 2.25 0.00 0.00 4.63
4353 6514 0.179004 TGTCTGTGGGTTCGGCATTT 60.179 50.000 0.00 0.00 0.00 2.32
4468 6629 0.472925 TAGAAGCACCACTGGGGACA 60.473 55.000 1.10 0.00 41.15 4.02
4728 6889 0.674895 CTCAGTGGCACCTTGGTAGC 60.675 60.000 15.27 0.00 0.00 3.58
4849 7013 5.302059 CAGGTTACTTCAGGGAGAATCGATA 59.698 44.000 0.00 0.00 35.25 2.92
4861 7025 8.824781 CATCACAGAATATTCAGGTTACTTCAG 58.175 37.037 17.56 2.70 0.00 3.02
4863 7027 7.497249 AGCATCACAGAATATTCAGGTTACTTC 59.503 37.037 17.56 4.11 0.00 3.01
4958 7128 4.892934 ACAGCTCAAAGGACCAATTAAACA 59.107 37.500 0.00 0.00 0.00 2.83
4996 7166 8.865090 AGAAGTCTAGGAATACATTATGACCAG 58.135 37.037 0.00 0.00 0.00 4.00
5003 7173 8.307483 GCAGCATAGAAGTCTAGGAATACATTA 58.693 37.037 4.25 0.00 32.42 1.90
5004 7174 7.016072 AGCAGCATAGAAGTCTAGGAATACATT 59.984 37.037 4.25 0.00 32.42 2.71
5005 7175 6.496565 AGCAGCATAGAAGTCTAGGAATACAT 59.503 38.462 4.25 0.00 32.42 2.29
5006 7176 5.835819 AGCAGCATAGAAGTCTAGGAATACA 59.164 40.000 4.25 0.00 32.42 2.29
5007 7177 6.015856 TCAGCAGCATAGAAGTCTAGGAATAC 60.016 42.308 4.25 0.00 32.42 1.89
5008 7178 6.071320 TCAGCAGCATAGAAGTCTAGGAATA 58.929 40.000 4.25 0.00 32.42 1.75
5009 7179 4.898265 TCAGCAGCATAGAAGTCTAGGAAT 59.102 41.667 4.25 0.00 32.42 3.01
5010 7180 4.281657 TCAGCAGCATAGAAGTCTAGGAA 58.718 43.478 4.25 0.00 32.42 3.36
5011 7181 3.903467 TCAGCAGCATAGAAGTCTAGGA 58.097 45.455 4.25 0.00 32.42 2.94
5012 7182 4.099266 ACTTCAGCAGCATAGAAGTCTAGG 59.901 45.833 17.38 0.00 46.47 3.02
5013 7183 5.261209 ACTTCAGCAGCATAGAAGTCTAG 57.739 43.478 17.38 0.00 46.47 2.43
5014 7184 6.405953 GGTTACTTCAGCAGCATAGAAGTCTA 60.406 42.308 23.20 14.23 46.47 2.59
5015 7185 5.415221 GTTACTTCAGCAGCATAGAAGTCT 58.585 41.667 23.20 9.55 46.47 3.24
5016 7186 4.568760 GGTTACTTCAGCAGCATAGAAGTC 59.431 45.833 23.20 14.21 46.47 3.01
5018 7188 4.569966 CAGGTTACTTCAGCAGCATAGAAG 59.430 45.833 16.37 16.37 43.27 2.85
5019 7189 4.222810 TCAGGTTACTTCAGCAGCATAGAA 59.777 41.667 0.00 0.00 0.00 2.10
5020 7190 3.769300 TCAGGTTACTTCAGCAGCATAGA 59.231 43.478 0.00 0.00 0.00 1.98
5021 7191 4.128925 TCAGGTTACTTCAGCAGCATAG 57.871 45.455 0.00 0.00 0.00 2.23
5022 7192 4.551702 TTCAGGTTACTTCAGCAGCATA 57.448 40.909 0.00 0.00 0.00 3.14
5023 7193 3.423539 TTCAGGTTACTTCAGCAGCAT 57.576 42.857 0.00 0.00 0.00 3.79
5024 7194 2.928801 TTCAGGTTACTTCAGCAGCA 57.071 45.000 0.00 0.00 0.00 4.41
5025 7195 5.819901 AGAATATTCAGGTTACTTCAGCAGC 59.180 40.000 17.56 0.00 0.00 5.25
5026 7196 6.820656 ACAGAATATTCAGGTTACTTCAGCAG 59.179 38.462 17.56 0.00 0.00 4.24
5027 7197 6.595326 CACAGAATATTCAGGTTACTTCAGCA 59.405 38.462 17.56 0.00 0.00 4.41
5028 7198 6.818644 TCACAGAATATTCAGGTTACTTCAGC 59.181 38.462 17.56 0.00 0.00 4.26
5029 7199 8.824781 CATCACAGAATATTCAGGTTACTTCAG 58.175 37.037 17.56 2.70 0.00 3.02
5030 7200 7.280876 GCATCACAGAATATTCAGGTTACTTCA 59.719 37.037 17.56 0.00 0.00 3.02
5031 7201 7.497249 AGCATCACAGAATATTCAGGTTACTTC 59.503 37.037 17.56 4.11 0.00 3.01
5032 7202 7.281774 CAGCATCACAGAATATTCAGGTTACTT 59.718 37.037 17.56 0.00 0.00 2.24
5033 7203 6.765036 CAGCATCACAGAATATTCAGGTTACT 59.235 38.462 17.56 4.03 0.00 2.24
5034 7204 6.763135 TCAGCATCACAGAATATTCAGGTTAC 59.237 38.462 17.56 1.89 0.00 2.50
5035 7205 6.888105 TCAGCATCACAGAATATTCAGGTTA 58.112 36.000 17.56 7.30 0.00 2.85
5036 7206 5.748402 TCAGCATCACAGAATATTCAGGTT 58.252 37.500 17.56 0.00 0.00 3.50
5037 7207 5.363562 TCAGCATCACAGAATATTCAGGT 57.636 39.130 17.56 11.80 0.00 4.00
5038 7208 5.821470 AGTTCAGCATCACAGAATATTCAGG 59.179 40.000 17.56 11.19 0.00 3.86
5039 7209 6.922247 AGTTCAGCATCACAGAATATTCAG 57.078 37.500 17.56 11.95 0.00 3.02
5040 7210 7.692460 AAAGTTCAGCATCACAGAATATTCA 57.308 32.000 17.56 0.00 0.00 2.57
5044 7214 9.013229 ACATTAAAAGTTCAGCATCACAGAATA 57.987 29.630 0.00 0.00 0.00 1.75
5045 7215 7.811236 CACATTAAAAGTTCAGCATCACAGAAT 59.189 33.333 0.00 0.00 0.00 2.40
5046 7216 7.140705 CACATTAAAAGTTCAGCATCACAGAA 58.859 34.615 0.00 0.00 0.00 3.02
5047 7217 6.671190 CACATTAAAAGTTCAGCATCACAGA 58.329 36.000 0.00 0.00 0.00 3.41
5048 7218 5.344128 GCACATTAAAAGTTCAGCATCACAG 59.656 40.000 0.00 0.00 0.00 3.66
5049 7219 5.221204 TGCACATTAAAAGTTCAGCATCACA 60.221 36.000 0.00 0.00 0.00 3.58
5050 7220 5.221880 TGCACATTAAAAGTTCAGCATCAC 58.778 37.500 0.00 0.00 0.00 3.06
5051 7221 5.450592 TGCACATTAAAAGTTCAGCATCA 57.549 34.783 0.00 0.00 0.00 3.07
5052 7222 5.691305 TGTTGCACATTAAAAGTTCAGCATC 59.309 36.000 0.00 0.00 0.00 3.91
5053 7223 5.599732 TGTTGCACATTAAAAGTTCAGCAT 58.400 33.333 0.00 0.00 0.00 3.79
5054 7224 5.003692 TGTTGCACATTAAAAGTTCAGCA 57.996 34.783 0.00 0.00 0.00 4.41
5055 7225 5.964887 TTGTTGCACATTAAAAGTTCAGC 57.035 34.783 0.00 0.00 0.00 4.26
5056 7226 6.479660 ACCATTGTTGCACATTAAAAGTTCAG 59.520 34.615 0.00 0.00 0.00 3.02
5057 7227 6.344500 ACCATTGTTGCACATTAAAAGTTCA 58.656 32.000 0.00 0.00 0.00 3.18
5058 7228 6.843069 ACCATTGTTGCACATTAAAAGTTC 57.157 33.333 0.00 0.00 0.00 3.01
5059 7229 6.820656 TGAACCATTGTTGCACATTAAAAGTT 59.179 30.769 0.00 0.00 33.97 2.66
5060 7230 6.344500 TGAACCATTGTTGCACATTAAAAGT 58.656 32.000 0.00 0.00 33.97 2.66
5061 7231 6.479660 ACTGAACCATTGTTGCACATTAAAAG 59.520 34.615 0.00 0.00 33.97 2.27
5062 7232 6.344500 ACTGAACCATTGTTGCACATTAAAA 58.656 32.000 0.00 0.00 33.97 1.52
5063 7233 5.911752 ACTGAACCATTGTTGCACATTAAA 58.088 33.333 0.00 0.00 33.97 1.52
5064 7234 5.528043 ACTGAACCATTGTTGCACATTAA 57.472 34.783 0.00 0.00 33.97 1.40
5065 7235 5.163468 ACAACTGAACCATTGTTGCACATTA 60.163 36.000 0.00 0.00 43.19 1.90
5066 7236 4.121317 CAACTGAACCATTGTTGCACATT 58.879 39.130 0.00 0.00 35.39 2.71
5067 7237 3.132646 ACAACTGAACCATTGTTGCACAT 59.867 39.130 0.00 0.00 43.19 3.21
5068 7238 2.495270 ACAACTGAACCATTGTTGCACA 59.505 40.909 0.00 0.00 43.19 4.57
5069 7239 3.115554 GACAACTGAACCATTGTTGCAC 58.884 45.455 0.00 0.00 43.19 4.57
5070 7240 2.100584 GGACAACTGAACCATTGTTGCA 59.899 45.455 0.00 0.00 43.19 4.08
5071 7241 2.100584 TGGACAACTGAACCATTGTTGC 59.899 45.455 0.00 0.00 43.19 4.17
5072 7242 3.130164 TGTGGACAACTGAACCATTGTTG 59.870 43.478 0.00 0.00 44.44 3.33
5073 7243 3.360867 TGTGGACAACTGAACCATTGTT 58.639 40.909 0.00 0.00 39.13 2.83
5074 7244 3.011566 TGTGGACAACTGAACCATTGT 57.988 42.857 0.00 0.00 41.70 2.71
5075 7245 3.822735 AGATGTGGACAACTGAACCATTG 59.177 43.478 0.00 0.00 36.09 2.82
5076 7246 4.074970 GAGATGTGGACAACTGAACCATT 58.925 43.478 0.00 0.00 36.09 3.16
5077 7247 3.072915 TGAGATGTGGACAACTGAACCAT 59.927 43.478 0.00 0.00 36.09 3.55
5078 7248 2.437651 TGAGATGTGGACAACTGAACCA 59.562 45.455 0.00 0.00 0.00 3.67
5079 7249 3.070018 CTGAGATGTGGACAACTGAACC 58.930 50.000 0.00 0.00 0.00 3.62
5080 7250 2.481952 GCTGAGATGTGGACAACTGAAC 59.518 50.000 0.00 0.00 0.00 3.18
5081 7251 2.771089 GCTGAGATGTGGACAACTGAA 58.229 47.619 0.00 0.00 0.00 3.02
5082 7252 1.337167 CGCTGAGATGTGGACAACTGA 60.337 52.381 0.00 0.00 0.00 3.41
5083 7253 1.073964 CGCTGAGATGTGGACAACTG 58.926 55.000 0.00 0.00 0.00 3.16
5084 7254 0.681733 ACGCTGAGATGTGGACAACT 59.318 50.000 0.00 0.00 0.00 3.16
5085 7255 0.792640 CACGCTGAGATGTGGACAAC 59.207 55.000 0.00 0.00 32.47 3.32
5086 7256 0.950555 GCACGCTGAGATGTGGACAA 60.951 55.000 7.26 0.00 36.61 3.18
5087 7257 1.374631 GCACGCTGAGATGTGGACA 60.375 57.895 7.26 0.00 36.61 4.02
5088 7258 1.374631 TGCACGCTGAGATGTGGAC 60.375 57.895 7.26 0.00 36.61 4.02
5089 7259 1.374631 GTGCACGCTGAGATGTGGA 60.375 57.895 0.00 1.99 36.61 4.02
5090 7260 1.022982 ATGTGCACGCTGAGATGTGG 61.023 55.000 13.13 0.00 36.61 4.17
5091 7261 0.800631 AATGTGCACGCTGAGATGTG 59.199 50.000 13.13 1.50 39.10 3.21
5092 7262 1.081892 GAATGTGCACGCTGAGATGT 58.918 50.000 13.13 0.00 0.00 3.06
5093 7263 1.062148 CAGAATGTGCACGCTGAGATG 59.938 52.381 22.33 8.14 0.00 2.90
5094 7264 1.366679 CAGAATGTGCACGCTGAGAT 58.633 50.000 22.33 4.08 0.00 2.75
5095 7265 2.831597 CAGAATGTGCACGCTGAGA 58.168 52.632 22.33 1.81 0.00 3.27
5105 7275 4.155462 ACAGACAGCTAATTGCAGAATGTG 59.845 41.667 0.00 0.00 45.94 3.21
5106 7276 4.330250 ACAGACAGCTAATTGCAGAATGT 58.670 39.130 0.00 0.00 45.94 2.71
5107 7277 4.959596 ACAGACAGCTAATTGCAGAATG 57.040 40.909 0.00 0.00 45.94 2.67
5108 7278 5.972107 AAACAGACAGCTAATTGCAGAAT 57.028 34.783 0.00 0.00 45.94 2.40
5109 7279 6.875948 TTAAACAGACAGCTAATTGCAGAA 57.124 33.333 0.00 0.00 45.94 3.02
5110 7280 7.307694 CAATTAAACAGACAGCTAATTGCAGA 58.692 34.615 2.35 0.00 45.94 4.26
5111 7281 6.529125 CCAATTAAACAGACAGCTAATTGCAG 59.471 38.462 8.25 0.00 45.94 4.41
5112 7282 6.015519 ACCAATTAAACAGACAGCTAATTGCA 60.016 34.615 8.25 0.00 45.94 4.08
5113 7283 6.389906 ACCAATTAAACAGACAGCTAATTGC 58.610 36.000 8.25 0.00 39.09 3.56
5114 7284 7.029563 GGACCAATTAAACAGACAGCTAATTG 58.970 38.462 7.16 7.16 39.67 2.32
5115 7285 6.948309 AGGACCAATTAAACAGACAGCTAATT 59.052 34.615 0.00 0.00 0.00 1.40
5116 7286 6.485171 AGGACCAATTAAACAGACAGCTAAT 58.515 36.000 0.00 0.00 0.00 1.73
5117 7287 5.876357 AGGACCAATTAAACAGACAGCTAA 58.124 37.500 0.00 0.00 0.00 3.09
5118 7288 5.499004 AGGACCAATTAAACAGACAGCTA 57.501 39.130 0.00 0.00 0.00 3.32
5119 7289 4.373156 AGGACCAATTAAACAGACAGCT 57.627 40.909 0.00 0.00 0.00 4.24
5120 7290 5.009610 TCAAAGGACCAATTAAACAGACAGC 59.990 40.000 0.00 0.00 0.00 4.40
5121 7291 6.633500 TCAAAGGACCAATTAAACAGACAG 57.367 37.500 0.00 0.00 0.00 3.51
5122 7292 5.009610 GCTCAAAGGACCAATTAAACAGACA 59.990 40.000 0.00 0.00 0.00 3.41
5123 7293 5.241728 AGCTCAAAGGACCAATTAAACAGAC 59.758 40.000 0.00 0.00 0.00 3.51
5124 7294 5.241506 CAGCTCAAAGGACCAATTAAACAGA 59.758 40.000 0.00 0.00 0.00 3.41
5125 7295 5.010012 ACAGCTCAAAGGACCAATTAAACAG 59.990 40.000 0.00 0.00 0.00 3.16
5126 7296 4.892934 ACAGCTCAAAGGACCAATTAAACA 59.107 37.500 0.00 0.00 0.00 2.83
5127 7297 5.222631 CACAGCTCAAAGGACCAATTAAAC 58.777 41.667 0.00 0.00 0.00 2.01
5128 7298 4.261994 GCACAGCTCAAAGGACCAATTAAA 60.262 41.667 0.00 0.00 0.00 1.52
5129 7299 3.255642 GCACAGCTCAAAGGACCAATTAA 59.744 43.478 0.00 0.00 0.00 1.40
5130 7300 2.819608 GCACAGCTCAAAGGACCAATTA 59.180 45.455 0.00 0.00 0.00 1.40
5131 7301 1.615392 GCACAGCTCAAAGGACCAATT 59.385 47.619 0.00 0.00 0.00 2.32
5132 7302 1.202976 AGCACAGCTCAAAGGACCAAT 60.203 47.619 0.00 0.00 30.62 3.16
5133 7303 0.183492 AGCACAGCTCAAAGGACCAA 59.817 50.000 0.00 0.00 30.62 3.67
5134 7304 1.055849 TAGCACAGCTCAAAGGACCA 58.944 50.000 0.00 0.00 40.44 4.02
5135 7305 2.093235 AGATAGCACAGCTCAAAGGACC 60.093 50.000 0.00 0.00 40.44 4.46
5136 7306 2.935201 CAGATAGCACAGCTCAAAGGAC 59.065 50.000 0.00 0.00 40.44 3.85
5137 7307 2.568956 ACAGATAGCACAGCTCAAAGGA 59.431 45.455 0.00 0.00 40.44 3.36
5138 7308 2.983229 ACAGATAGCACAGCTCAAAGG 58.017 47.619 0.00 0.00 40.44 3.11
5139 7309 4.142730 GGAAACAGATAGCACAGCTCAAAG 60.143 45.833 0.00 0.00 40.44 2.77
5140 7310 3.753272 GGAAACAGATAGCACAGCTCAAA 59.247 43.478 0.00 0.00 40.44 2.69
5141 7311 3.008375 AGGAAACAGATAGCACAGCTCAA 59.992 43.478 0.00 0.00 40.44 3.02
5142 7312 2.568956 AGGAAACAGATAGCACAGCTCA 59.431 45.455 0.00 0.00 40.44 4.26
5143 7313 3.118811 AGAGGAAACAGATAGCACAGCTC 60.119 47.826 0.00 0.00 40.44 4.09
5144 7314 2.836981 AGAGGAAACAGATAGCACAGCT 59.163 45.455 0.00 0.00 43.41 4.24
5145 7315 2.935201 CAGAGGAAACAGATAGCACAGC 59.065 50.000 0.00 0.00 0.00 4.40
5146 7316 3.055530 ACCAGAGGAAACAGATAGCACAG 60.056 47.826 0.00 0.00 0.00 3.66
5147 7317 2.906389 ACCAGAGGAAACAGATAGCACA 59.094 45.455 0.00 0.00 0.00 4.57
5148 7318 3.055819 TGACCAGAGGAAACAGATAGCAC 60.056 47.826 0.00 0.00 0.00 4.40
5149 7319 3.173151 TGACCAGAGGAAACAGATAGCA 58.827 45.455 0.00 0.00 0.00 3.49
5150 7320 3.895232 TGACCAGAGGAAACAGATAGC 57.105 47.619 0.00 0.00 0.00 2.97
5151 7321 7.504403 ACATTATGACCAGAGGAAACAGATAG 58.496 38.462 0.00 0.00 0.00 2.08
5152 7322 7.437713 ACATTATGACCAGAGGAAACAGATA 57.562 36.000 0.00 0.00 0.00 1.98
5153 7323 6.319048 ACATTATGACCAGAGGAAACAGAT 57.681 37.500 0.00 0.00 0.00 2.90
5154 7324 5.762179 ACATTATGACCAGAGGAAACAGA 57.238 39.130 0.00 0.00 0.00 3.41
5155 7325 7.227512 GGAATACATTATGACCAGAGGAAACAG 59.772 40.741 0.00 0.00 0.00 3.16
5156 7326 7.054124 GGAATACATTATGACCAGAGGAAACA 58.946 38.462 0.00 0.00 0.00 2.83
5157 7327 7.283329 AGGAATACATTATGACCAGAGGAAAC 58.717 38.462 0.00 0.00 0.00 2.78
5158 7328 7.451731 AGGAATACATTATGACCAGAGGAAA 57.548 36.000 0.00 0.00 0.00 3.13
5159 7329 8.010697 TCTAGGAATACATTATGACCAGAGGAA 58.989 37.037 0.00 0.00 0.00 3.36
5160 7330 7.451877 GTCTAGGAATACATTATGACCAGAGGA 59.548 40.741 0.00 0.00 0.00 3.71
5161 7331 7.453126 AGTCTAGGAATACATTATGACCAGAGG 59.547 40.741 0.00 0.00 0.00 3.69
5162 7332 8.415950 AGTCTAGGAATACATTATGACCAGAG 57.584 38.462 0.00 0.29 0.00 3.35
5163 7333 8.783660 AAGTCTAGGAATACATTATGACCAGA 57.216 34.615 0.00 1.50 0.00 3.86
5164 7334 8.865090 AGAAGTCTAGGAATACATTATGACCAG 58.135 37.037 0.00 0.00 0.00 4.00
5165 7335 8.783660 AGAAGTCTAGGAATACATTATGACCA 57.216 34.615 0.00 0.00 0.00 4.02
5181 7351 4.753233 ACAACAGCAGCATAGAAGTCTAG 58.247 43.478 0.00 0.00 0.00 2.43
5417 7589 7.201821 GCCCTGAAAATATGCTACTAACAATGT 60.202 37.037 0.00 0.00 0.00 2.71
5423 7595 4.385825 CCGCCCTGAAAATATGCTACTAA 58.614 43.478 0.00 0.00 0.00 2.24
5426 7598 1.266989 GCCGCCCTGAAAATATGCTAC 59.733 52.381 0.00 0.00 0.00 3.58
5429 7601 1.008538 CGCCGCCCTGAAAATATGC 60.009 57.895 0.00 0.00 0.00 3.14
5430 7602 1.008538 GCGCCGCCCTGAAAATATG 60.009 57.895 0.00 0.00 0.00 1.78
5431 7603 0.107831 TAGCGCCGCCCTGAAAATAT 59.892 50.000 4.98 0.00 0.00 1.28
5432 7604 0.107831 ATAGCGCCGCCCTGAAAATA 59.892 50.000 4.98 0.00 0.00 1.40
5433 7605 0.751643 AATAGCGCCGCCCTGAAAAT 60.752 50.000 4.98 0.00 0.00 1.82
5438 7625 1.819632 AGAAAATAGCGCCGCCCTG 60.820 57.895 4.98 0.00 0.00 4.45
5439 7626 1.819632 CAGAAAATAGCGCCGCCCT 60.820 57.895 4.98 0.00 0.00 5.19
5605 7801 6.442952 TCCGTTCCAAAATAGTTGACATTTG 58.557 36.000 0.00 0.00 33.62 2.32
5615 7811 5.581085 CACTACTCCTTCCGTTCCAAAATAG 59.419 44.000 0.00 0.00 0.00 1.73
5665 7863 2.102420 CCTTTTCAGGGGTCACCAAAAC 59.898 50.000 0.00 0.00 43.89 2.43
5666 7864 2.393646 CCTTTTCAGGGGTCACCAAAA 58.606 47.619 0.00 0.00 43.89 2.44


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

AutoCloner maintained by Alex Coulton.