Multiple sequence alignment - TraesCS4A01G472000

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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 TraesCS4A01G472000 chr4A 100.000 4799 0 0 1 4799 732354489 732359287 0.000000e+00 8863.0
1 TraesCS4A01G472000 chr4A 92.131 3660 238 22 1 3649 731851729 731848109 0.000000e+00 5118.0
2 TraesCS4A01G472000 chr4A 81.157 2903 478 53 320 3177 731875436 731872558 0.000000e+00 2266.0
3 TraesCS4A01G472000 chr4A 85.499 1724 206 20 382 2070 731616801 731615087 0.000000e+00 1759.0
4 TraesCS4A01G472000 chr4A 83.149 1721 271 17 2071 3777 731860005 731858290 0.000000e+00 1554.0
5 TraesCS4A01G472000 chr4A 82.837 1713 283 11 2073 3778 731615054 731613346 0.000000e+00 1524.0
6 TraesCS4A01G472000 chr4A 80.854 1990 329 36 1869 3826 731759685 731757716 0.000000e+00 1517.0
7 TraesCS4A01G472000 chr4A 83.573 1601 243 13 262 1849 731861877 731860284 0.000000e+00 1482.0
8 TraesCS4A01G472000 chr4A 80.900 1712 302 20 2072 3772 732379856 732381553 0.000000e+00 1327.0
9 TraesCS4A01G472000 chr4A 83.226 1240 187 12 109 1340 732408716 732409942 0.000000e+00 1118.0
10 TraesCS4A01G472000 chr4A 94.545 440 24 0 3972 4411 731847611 731847172 0.000000e+00 680.0
11 TraesCS4A01G472000 chr4A 95.506 178 7 1 4561 4737 646994645 646994822 2.830000e-72 283.0
12 TraesCS4A01G472000 chr4A 95.973 149 3 2 4417 4563 731847088 731846941 6.210000e-59 239.0
13 TraesCS4A01G472000 chr4A 79.758 331 64 2 3457 3784 731741678 731741348 2.230000e-58 237.0
14 TraesCS4A01G472000 chr4A 87.786 131 16 0 169 299 731664445 731664315 2.310000e-33 154.0
15 TraesCS4A01G472000 chr4A 95.522 67 0 1 4736 4799 731846949 731846883 2.360000e-18 104.0
16 TraesCS4A01G472000 chr7A 93.670 3823 213 19 1 3809 56204578 56208385 0.000000e+00 5692.0
17 TraesCS4A01G472000 chr7A 78.064 2799 509 73 322 3056 80861975 80864732 0.000000e+00 1670.0
18 TraesCS4A01G472000 chr7A 79.025 1354 226 42 2666 3992 8673654 8674976 0.000000e+00 874.0
19 TraesCS4A01G472000 chr7D 81.361 3718 591 72 320 3973 7712568 7716247 0.000000e+00 2933.0
20 TraesCS4A01G472000 chr7D 80.602 3954 620 90 399 4270 8177092 8180980 0.000000e+00 2916.0
21 TraesCS4A01G472000 chr7D 82.385 3355 526 50 466 3778 7606284 7609615 0.000000e+00 2861.0
22 TraesCS4A01G472000 chr7D 83.733 2920 423 36 320 3207 7749985 7752884 0.000000e+00 2713.0
23 TraesCS4A01G472000 chr7D 83.799 1790 247 26 309 2070 8030614 8032388 0.000000e+00 1659.0
24 TraesCS4A01G472000 chr7D 77.774 2740 499 82 322 2997 76743550 76746243 0.000000e+00 1585.0
25 TraesCS4A01G472000 chr7D 83.615 1538 233 11 320 1846 8052779 8054308 0.000000e+00 1426.0
26 TraesCS4A01G472000 chr7D 78.987 2013 361 40 2072 4055 8032444 8034423 0.000000e+00 1317.0
27 TraesCS4A01G472000 chr7D 80.181 1766 329 17 2077 3827 7550188 7551947 0.000000e+00 1303.0
28 TraesCS4A01G472000 chr7D 84.286 70 7 4 3914 3982 7793219 7793285 1.110000e-06 65.8
29 TraesCS4A01G472000 chr7D 96.875 32 1 0 3935 3966 7603511 7603542 2.000000e-03 54.7
30 TraesCS4A01G472000 chr3B 86.437 1541 190 10 320 1850 741463153 741464684 0.000000e+00 1670.0
31 TraesCS4A01G472000 chr3B 81.845 1724 281 20 2072 3770 741464963 741466679 0.000000e+00 1421.0
32 TraesCS4A01G472000 chr3B 95.556 180 6 2 4558 4735 819814905 819815084 2.190000e-73 287.0
33 TraesCS4A01G472000 chr7B 78.135 2735 505 66 322 2997 23596695 23599395 0.000000e+00 1652.0
34 TraesCS4A01G472000 chr7B 78.451 2441 436 67 518 2902 23958186 23960592 0.000000e+00 1511.0
35 TraesCS4A01G472000 chr7B 100.000 46 0 0 4365 4410 124532439 124532394 8.560000e-13 86.1
36 TraesCS4A01G472000 chr7B 95.556 45 2 0 4362 4406 743378575 743378619 6.660000e-09 73.1
37 TraesCS4A01G472000 chr6B 95.455 176 7 1 4563 4737 525106241 525106416 3.660000e-71 279.0
38 TraesCS4A01G472000 chr6B 89.100 211 19 3 4537 4746 597296842 597297049 4.760000e-65 259.0
39 TraesCS4A01G472000 chr6B 97.959 49 1 0 4363 4411 153227943 153227991 8.560000e-13 86.1
40 TraesCS4A01G472000 chr6B 95.745 47 2 0 4365 4411 676296621 676296575 5.150000e-10 76.8
41 TraesCS4A01G472000 chr2B 93.229 192 9 4 4560 4750 377539001 377538813 3.660000e-71 279.0
42 TraesCS4A01G472000 chr2B 97.778 45 1 0 4365 4409 329360389 329360433 1.430000e-10 78.7
43 TraesCS4A01G472000 chr5B 94.944 178 8 1 4559 4735 346616160 346616337 1.320000e-70 278.0
44 TraesCS4A01G472000 chr1B 93.617 188 9 3 4559 4744 25246053 25246239 1.320000e-70 278.0
45 TraesCS4A01G472000 chr1B 95.833 48 2 0 4364 4411 61951777 61951730 1.430000e-10 78.7
46 TraesCS4A01G472000 chr4D 91.960 199 11 5 4554 4750 14433500 14433695 1.700000e-69 274.0
47 TraesCS4A01G472000 chr4B 93.011 186 12 1 4552 4736 606181072 606181257 2.200000e-68 270.0
48 TraesCS4A01G472000 chrUn 96.000 50 2 0 4362 4411 60456576 60456625 1.110000e-11 82.4
49 TraesCS4A01G472000 chr3D 93.617 47 3 0 4365 4411 568843456 568843502 2.400000e-08 71.3


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 TraesCS4A01G472000 chr4A 732354489 732359287 4798 False 8863.00 8863 100.00000 1 4799 1 chr4A.!!$F2 4798
1 TraesCS4A01G472000 chr4A 731872558 731875436 2878 True 2266.00 2266 81.15700 320 3177 1 chr4A.!!$R4 2857
2 TraesCS4A01G472000 chr4A 731613346 731616801 3455 True 1641.50 1759 84.16800 382 3778 2 chr4A.!!$R5 3396
3 TraesCS4A01G472000 chr4A 731846883 731851729 4846 True 1535.25 5118 94.54275 1 4799 4 chr4A.!!$R6 4798
4 TraesCS4A01G472000 chr4A 731858290 731861877 3587 True 1518.00 1554 83.36100 262 3777 2 chr4A.!!$R7 3515
5 TraesCS4A01G472000 chr4A 731757716 731759685 1969 True 1517.00 1517 80.85400 1869 3826 1 chr4A.!!$R3 1957
6 TraesCS4A01G472000 chr4A 732379856 732381553 1697 False 1327.00 1327 80.90000 2072 3772 1 chr4A.!!$F3 1700
7 TraesCS4A01G472000 chr4A 732408716 732409942 1226 False 1118.00 1118 83.22600 109 1340 1 chr4A.!!$F4 1231
8 TraesCS4A01G472000 chr7A 56204578 56208385 3807 False 5692.00 5692 93.67000 1 3809 1 chr7A.!!$F2 3808
9 TraesCS4A01G472000 chr7A 80861975 80864732 2757 False 1670.00 1670 78.06400 322 3056 1 chr7A.!!$F3 2734
10 TraesCS4A01G472000 chr7A 8673654 8674976 1322 False 874.00 874 79.02500 2666 3992 1 chr7A.!!$F1 1326
11 TraesCS4A01G472000 chr7D 7712568 7716247 3679 False 2933.00 2933 81.36100 320 3973 1 chr7D.!!$F2 3653
12 TraesCS4A01G472000 chr7D 8177092 8180980 3888 False 2916.00 2916 80.60200 399 4270 1 chr7D.!!$F6 3871
13 TraesCS4A01G472000 chr7D 7749985 7752884 2899 False 2713.00 2713 83.73300 320 3207 1 chr7D.!!$F3 2887
14 TraesCS4A01G472000 chr7D 76743550 76746243 2693 False 1585.00 1585 77.77400 322 2997 1 chr7D.!!$F7 2675
15 TraesCS4A01G472000 chr7D 8030614 8034423 3809 False 1488.00 1659 81.39300 309 4055 2 chr7D.!!$F9 3746
16 TraesCS4A01G472000 chr7D 7603511 7609615 6104 False 1457.85 2861 89.63000 466 3966 2 chr7D.!!$F8 3500
17 TraesCS4A01G472000 chr7D 8052779 8054308 1529 False 1426.00 1426 83.61500 320 1846 1 chr7D.!!$F5 1526
18 TraesCS4A01G472000 chr7D 7550188 7551947 1759 False 1303.00 1303 80.18100 2077 3827 1 chr7D.!!$F1 1750
19 TraesCS4A01G472000 chr3B 741463153 741466679 3526 False 1545.50 1670 84.14100 320 3770 2 chr3B.!!$F2 3450
20 TraesCS4A01G472000 chr7B 23596695 23599395 2700 False 1652.00 1652 78.13500 322 2997 1 chr7B.!!$F1 2675
21 TraesCS4A01G472000 chr7B 23958186 23960592 2406 False 1511.00 1511 78.45100 518 2902 1 chr7B.!!$F2 2384

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
728 3041 0.179121 TACTTGGCTACATCACGCGG 60.179 55.000 12.47 0.0 0.00 6.46 F
795 3108 0.316607 CGTCCTCGAGAAGATCAGCG 60.317 60.000 15.71 0.0 39.71 5.18 F
889 3202 0.593128 GCGGCAGACACACTCAAAAT 59.407 50.000 0.00 0.0 0.00 1.82 F
1344 3669 2.480037 CACATGTCGAAGCAAGCAAGTA 59.520 45.455 0.00 0.0 0.00 2.24 F
3197 5721 0.685097 TTGCTTCTAGACGCCCAACT 59.315 50.000 17.70 0.0 0.00 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2196 4698 3.181520 GCAATGTAACGATGTCAGACACC 60.182 47.826 5.05 0.00 0.00 4.16 R
2749 5270 4.446371 ACAGGTATACTCTTGCATCTTGC 58.554 43.478 2.25 0.00 45.29 4.01 R
3018 5539 2.224992 TGGAATACTTGCAAGCTTGGGA 60.225 45.455 27.10 8.58 0.00 4.37 R
3372 5897 0.391661 GATCAAAGCACCCGAGCTCA 60.392 55.000 15.40 0.00 45.89 4.26 R
4629 7598 0.394938 TGTGCTGACGTGGGTTGTAT 59.605 50.000 0.00 0.00 0.00 2.29 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
63 64 2.819608 TGTTGCTCTTTCACCTATTGGC 59.180 45.455 0.00 0.00 36.63 4.52
87 88 4.279671 ACAAGATCAAATTTGGGCGTTGTA 59.720 37.500 17.90 0.00 0.00 2.41
93 94 2.109425 ATTTGGGCGTTGTAGAGGTC 57.891 50.000 0.00 0.00 0.00 3.85
113 114 4.704057 GGTCAATTCTCTGCTCAATCCTTT 59.296 41.667 0.00 0.00 0.00 3.11
117 118 8.465201 GTCAATTCTCTGCTCAATCCTTTATTT 58.535 33.333 0.00 0.00 0.00 1.40
122 123 8.181904 TCTCTGCTCAATCCTTTATTTTGTTT 57.818 30.769 0.00 0.00 0.00 2.83
123 124 8.641541 TCTCTGCTCAATCCTTTATTTTGTTTT 58.358 29.630 0.00 0.00 0.00 2.43
136 137 2.774439 TTGTTTTGCTCTTCTTCGGC 57.226 45.000 0.00 0.00 0.00 5.54
351 356 3.877508 GTGTTCTGTCAGTGCTTAACCTT 59.122 43.478 0.00 0.00 0.00 3.50
395 407 2.609747 ACAGTCCTTGTTCCTCTAGCA 58.390 47.619 0.00 0.00 36.31 3.49
515 2822 4.513519 GGTGATGATCGCCGAACA 57.486 55.556 9.55 0.00 37.29 3.18
728 3041 0.179121 TACTTGGCTACATCACGCGG 60.179 55.000 12.47 0.00 0.00 6.46
795 3108 0.316607 CGTCCTCGAGAAGATCAGCG 60.317 60.000 15.71 0.00 39.71 5.18
796 3109 0.593773 GTCCTCGAGAAGATCAGCGC 60.594 60.000 15.71 0.00 0.00 5.92
797 3110 1.656875 CCTCGAGAAGATCAGCGCG 60.657 63.158 15.71 0.00 0.00 6.86
889 3202 0.593128 GCGGCAGACACACTCAAAAT 59.407 50.000 0.00 0.00 0.00 1.82
1040 3356 4.067896 ACAACTCTTGCTAAGATGGTGTG 58.932 43.478 13.00 7.63 36.18 3.82
1108 3424 3.723260 TGCGTGTCAGACAACTTTGATA 58.277 40.909 4.32 0.00 0.00 2.15
1111 3427 3.121279 CGTGTCAGACAACTTTGATACCG 59.879 47.826 4.32 0.00 33.48 4.02
1130 3447 3.383185 ACCGTTGCTCTTTTGAAATCCAA 59.617 39.130 0.00 0.00 0.00 3.53
1344 3669 2.480037 CACATGTCGAAGCAAGCAAGTA 59.520 45.455 0.00 0.00 0.00 2.24
1543 3874 2.582052 TGGGTGGATTGTTGAGTTCAC 58.418 47.619 0.00 0.00 0.00 3.18
1622 3956 5.367937 ACAGAGGTAAATATGAGGTCATGCT 59.632 40.000 2.56 0.00 37.15 3.79
1640 3974 8.072567 GGTCATGCTCATATTAAAGTTAAGCTG 58.927 37.037 0.00 0.00 0.00 4.24
1857 4197 9.770097 CAAGATAAGAAAGTGCTAGAATATCCA 57.230 33.333 0.00 0.00 0.00 3.41
1949 4316 7.169813 TGCAAGTATAGATGAACTAAATCAGCG 59.830 37.037 0.00 0.00 40.55 5.18
1970 4337 4.423732 CGGAAGGCATTGTTAAAAGATGG 58.576 43.478 0.00 0.00 0.00 3.51
1994 4361 3.384146 TGTCACATGCAAATGTCAAAGGT 59.616 39.130 0.00 0.00 31.37 3.50
1995 4362 4.141981 TGTCACATGCAAATGTCAAAGGTT 60.142 37.500 0.00 0.00 31.37 3.50
2070 4512 3.526931 TTGTTAGCTCCTTCAGGATCG 57.473 47.619 0.00 0.00 44.46 3.69
2196 4698 4.627611 TTTACGGTATCTTGACCTCTCG 57.372 45.455 0.00 0.00 37.34 4.04
2339 4847 9.458727 AAAGCTCATCAATCTTTATCTCTTTGA 57.541 29.630 0.00 0.00 0.00 2.69
2458 4966 4.815533 ATAGAGCAGCTCAAAGACTTGA 57.184 40.909 24.64 0.00 39.30 3.02
2639 5159 6.374333 GTGCTCCAATGTTTAGAACCTCATTA 59.626 38.462 0.00 0.00 0.00 1.90
2693 5214 5.083122 TGGTGGTCCACAAATATCACAATT 58.917 37.500 23.48 0.00 39.03 2.32
2749 5270 4.601019 AGAACTCAAAATGTCAAACTGCG 58.399 39.130 0.00 0.00 0.00 5.18
2784 5305 6.273730 AGAGTATACCTGTAGTATGGCTCTCT 59.726 42.308 0.00 9.09 43.73 3.10
3018 5539 8.635765 TTGAAGTGCTAAGGATAGAAAATTGT 57.364 30.769 0.00 0.00 0.00 2.71
3197 5721 0.685097 TTGCTTCTAGACGCCCAACT 59.315 50.000 17.70 0.00 0.00 3.16
3289 5813 8.103305 ACACAAGGTTTGTATTGTCTAGATCAT 58.897 33.333 0.00 0.00 43.23 2.45
3313 5838 4.141959 GCCTTATGCCTTGGAAATGCTTTA 60.142 41.667 0.00 0.00 38.35 1.85
3372 5897 2.086869 CTTGTTCGTTGGCCATCAGAT 58.913 47.619 6.09 0.00 0.00 2.90
3453 5978 4.282496 AGGAGGACACTTCATCGTCTAAT 58.718 43.478 0.00 0.00 33.07 1.73
3699 6232 1.508088 GTTGCCTGCCCTCGAATTG 59.492 57.895 0.00 0.00 0.00 2.32
3734 6270 0.834687 TGCCCGGAGTTGGTAAGACT 60.835 55.000 0.73 0.00 0.00 3.24
3743 6279 4.442192 GGAGTTGGTAAGACTATGCAGAGG 60.442 50.000 13.85 0.00 0.00 3.69
3750 6289 3.121929 AGACTATGCAGAGGAGGGAAA 57.878 47.619 13.85 0.00 0.00 3.13
3757 6296 4.860802 TGCAGAGGAGGGAAATATTTCA 57.139 40.909 25.55 3.18 38.92 2.69
3809 6363 3.781079 TTTTGATTAGGCGCCATGAAG 57.219 42.857 31.54 0.00 0.00 3.02
3811 6365 1.953559 TGATTAGGCGCCATGAAGAC 58.046 50.000 31.54 16.55 0.00 3.01
3828 6407 4.261801 GAAGACCCAAGCTGCAAAGTATA 58.738 43.478 1.02 0.00 0.00 1.47
3830 6409 4.662278 AGACCCAAGCTGCAAAGTATAAA 58.338 39.130 1.02 0.00 0.00 1.40
3831 6410 5.264395 AGACCCAAGCTGCAAAGTATAAAT 58.736 37.500 1.02 0.00 0.00 1.40
3832 6411 5.358160 AGACCCAAGCTGCAAAGTATAAATC 59.642 40.000 1.02 0.00 0.00 2.17
3833 6412 5.016173 ACCCAAGCTGCAAAGTATAAATCA 58.984 37.500 1.02 0.00 0.00 2.57
3837 6416 7.189512 CCAAGCTGCAAAGTATAAATCAGTAC 58.810 38.462 1.02 0.00 0.00 2.73
3839 6418 7.308782 AGCTGCAAAGTATAAATCAGTACAC 57.691 36.000 1.02 0.00 0.00 2.90
3840 6419 6.036083 AGCTGCAAAGTATAAATCAGTACACG 59.964 38.462 1.02 0.00 0.00 4.49
3841 6420 6.102006 TGCAAAGTATAAATCAGTACACGC 57.898 37.500 0.00 0.00 0.00 5.34
3842 6421 5.639931 TGCAAAGTATAAATCAGTACACGCA 59.360 36.000 0.00 0.00 0.00 5.24
3843 6422 6.315144 TGCAAAGTATAAATCAGTACACGCAT 59.685 34.615 0.00 0.00 0.00 4.73
3844 6423 6.628856 GCAAAGTATAAATCAGTACACGCATG 59.371 38.462 0.00 0.00 0.00 4.06
3846 6425 7.464830 AAGTATAAATCAGTACACGCATGAC 57.535 36.000 0.00 0.00 0.00 3.06
3847 6426 6.569780 AGTATAAATCAGTACACGCATGACA 58.430 36.000 0.00 0.00 0.00 3.58
3848 6427 5.718649 ATAAATCAGTACACGCATGACAC 57.281 39.130 0.00 0.00 0.00 3.67
3849 6428 1.629013 ATCAGTACACGCATGACACG 58.371 50.000 0.00 0.00 0.00 4.49
3850 6429 0.594110 TCAGTACACGCATGACACGA 59.406 50.000 0.00 0.00 0.00 4.35
3937 6531 8.006741 TGATAACATTCGATGAATCATGTACG 57.993 34.615 0.00 0.00 34.09 3.67
4002 6824 3.546543 GTCGATCCGCCCCCATCA 61.547 66.667 0.00 0.00 0.00 3.07
4015 6837 1.517694 CCATCATGCCTTTGTGCGC 60.518 57.895 0.00 0.00 0.00 6.09
4047 6869 2.642254 CCAACCGCCGTACTCCTCA 61.642 63.158 0.00 0.00 0.00 3.86
4135 7024 2.601666 ACCTCAGAGCGCACTCCA 60.602 61.111 11.47 0.00 44.65 3.86
4139 7028 3.699894 CAGAGCGCACTCCAGGGT 61.700 66.667 11.47 0.00 44.65 4.34
4150 7039 1.903877 CTCCAGGGTGGTGCTTCGAT 61.904 60.000 0.00 0.00 39.03 3.59
4288 7177 2.741211 GACGGTGGGTTCGAAGCC 60.741 66.667 34.10 34.10 46.58 4.35
4290 7179 4.016706 CGGTGGGTTCGAAGCCCT 62.017 66.667 36.30 0.00 45.85 5.19
4291 7180 2.046217 GGTGGGTTCGAAGCCCTC 60.046 66.667 36.30 28.53 45.85 4.30
4294 7183 1.535444 TGGGTTCGAAGCCCTCTGA 60.535 57.895 36.30 19.57 45.85 3.27
4304 7193 3.347216 GAAGCCCTCTGAAATTAGCACA 58.653 45.455 0.00 0.00 0.00 4.57
4363 7252 9.354673 CTTAGCTTAATGGATATTCCTGGAAAA 57.645 33.333 14.03 0.00 37.46 2.29
4371 7260 5.917087 TGGATATTCCTGGAAAATACTCCCT 59.083 40.000 14.03 0.00 37.46 4.20
4373 7262 6.273495 GGATATTCCTGGAAAATACTCCCTCT 59.727 42.308 14.03 0.00 34.22 3.69
4377 7266 4.601857 TCCTGGAAAATACTCCCTCTGTTT 59.398 41.667 0.00 0.00 34.22 2.83
4411 7300 6.358558 TCGTCGTGATTTTAGTTCAAATTTGC 59.641 34.615 13.54 0.46 0.00 3.68
4413 7302 7.148983 CGTCGTGATTTTAGTTCAAATTTGCAT 60.149 33.333 13.54 4.33 0.00 3.96
4414 7303 7.946237 GTCGTGATTTTAGTTCAAATTTGCATG 59.054 33.333 13.54 7.70 0.00 4.06
4415 7304 6.733280 CGTGATTTTAGTTCAAATTTGCATGC 59.267 34.615 11.82 11.82 0.00 4.06
4539 7508 1.062505 TGGTTGAGCCTTCCCCTTTTT 60.063 47.619 0.00 0.00 38.35 1.94
4563 7532 0.528249 GGCCACGGCATTGCAAATAG 60.528 55.000 11.39 0.00 44.11 1.73
4564 7533 0.528249 GCCACGGCATTGCAAATAGG 60.528 55.000 11.39 5.81 41.49 2.57
4565 7534 0.102844 CCACGGCATTGCAAATAGGG 59.897 55.000 11.39 0.00 0.00 3.53
4566 7535 1.102154 CACGGCATTGCAAATAGGGA 58.898 50.000 11.39 0.00 0.00 4.20
4567 7536 1.066002 CACGGCATTGCAAATAGGGAG 59.934 52.381 11.39 0.00 0.00 4.30
4568 7537 1.340991 ACGGCATTGCAAATAGGGAGT 60.341 47.619 11.39 0.00 0.00 3.85
4569 7538 2.092646 ACGGCATTGCAAATAGGGAGTA 60.093 45.455 11.39 0.00 0.00 2.59
4570 7539 3.149196 CGGCATTGCAAATAGGGAGTAT 58.851 45.455 11.39 0.00 0.00 2.12
4571 7540 3.189287 CGGCATTGCAAATAGGGAGTATC 59.811 47.826 11.39 0.00 0.00 2.24
4572 7541 4.401925 GGCATTGCAAATAGGGAGTATCT 58.598 43.478 11.39 0.00 33.73 1.98
4573 7542 4.217118 GGCATTGCAAATAGGGAGTATCTG 59.783 45.833 11.39 0.00 33.73 2.90
4574 7543 4.217118 GCATTGCAAATAGGGAGTATCTGG 59.783 45.833 1.71 0.00 33.73 3.86
4575 7544 5.624159 CATTGCAAATAGGGAGTATCTGGA 58.376 41.667 1.71 0.00 33.73 3.86
4576 7545 5.708736 TTGCAAATAGGGAGTATCTGGAA 57.291 39.130 0.00 0.00 33.73 3.53
4577 7546 5.036117 TGCAAATAGGGAGTATCTGGAAC 57.964 43.478 0.00 0.00 33.73 3.62
4578 7547 4.721776 TGCAAATAGGGAGTATCTGGAACT 59.278 41.667 0.00 0.00 33.73 3.01
4579 7548 5.163301 TGCAAATAGGGAGTATCTGGAACTC 60.163 44.000 0.00 0.00 42.19 3.01
4580 7549 5.163301 GCAAATAGGGAGTATCTGGAACTCA 60.163 44.000 5.67 0.00 44.25 3.41
4581 7550 6.465035 GCAAATAGGGAGTATCTGGAACTCAT 60.465 42.308 5.67 0.00 44.25 2.90
4582 7551 6.926630 AATAGGGAGTATCTGGAACTCATC 57.073 41.667 5.67 0.00 44.25 2.92
4583 7552 4.551215 AGGGAGTATCTGGAACTCATCT 57.449 45.455 5.67 0.39 44.25 2.90
4584 7553 5.671463 AGGGAGTATCTGGAACTCATCTA 57.329 43.478 5.67 0.00 44.25 1.98
4585 7554 5.640147 AGGGAGTATCTGGAACTCATCTAG 58.360 45.833 5.67 0.00 44.25 2.43
4604 7573 9.152327 TCATCTAGATGAGACATAATTTGGTCT 57.848 33.333 27.93 10.45 46.51 3.85
4614 7583 8.641498 AGACATAATTTGGTCTCATTCACTTT 57.359 30.769 6.01 0.00 40.18 2.66
4615 7584 8.517878 AGACATAATTTGGTCTCATTCACTTTG 58.482 33.333 6.01 0.00 40.18 2.77
4616 7585 7.605449 ACATAATTTGGTCTCATTCACTTTGG 58.395 34.615 0.00 0.00 0.00 3.28
4617 7586 7.451255 ACATAATTTGGTCTCATTCACTTTGGA 59.549 33.333 0.00 0.00 0.00 3.53
4618 7587 6.729690 AATTTGGTCTCATTCACTTTGGAA 57.270 33.333 0.00 0.00 0.00 3.53
4619 7588 6.729690 ATTTGGTCTCATTCACTTTGGAAA 57.270 33.333 0.00 0.00 0.00 3.13
4620 7589 5.514274 TTGGTCTCATTCACTTTGGAAAC 57.486 39.130 0.00 0.00 0.00 2.78
4621 7590 4.531854 TGGTCTCATTCACTTTGGAAACA 58.468 39.130 0.00 0.00 39.83 2.83
4637 7606 4.825085 TGGAAACAAGAACAGATACAACCC 59.175 41.667 0.00 0.00 37.44 4.11
4638 7607 4.825085 GGAAACAAGAACAGATACAACCCA 59.175 41.667 0.00 0.00 0.00 4.51
4639 7608 5.278315 GGAAACAAGAACAGATACAACCCAC 60.278 44.000 0.00 0.00 0.00 4.61
4640 7609 3.399330 ACAAGAACAGATACAACCCACG 58.601 45.455 0.00 0.00 0.00 4.94
4641 7610 3.181458 ACAAGAACAGATACAACCCACGT 60.181 43.478 0.00 0.00 0.00 4.49
4642 7611 3.314541 AGAACAGATACAACCCACGTC 57.685 47.619 0.00 0.00 0.00 4.34
4643 7612 2.631062 AGAACAGATACAACCCACGTCA 59.369 45.455 0.00 0.00 0.00 4.35
4644 7613 2.743636 ACAGATACAACCCACGTCAG 57.256 50.000 0.00 0.00 0.00 3.51
4645 7614 1.337823 ACAGATACAACCCACGTCAGC 60.338 52.381 0.00 0.00 0.00 4.26
4646 7615 0.973632 AGATACAACCCACGTCAGCA 59.026 50.000 0.00 0.00 0.00 4.41
4647 7616 1.076332 GATACAACCCACGTCAGCAC 58.924 55.000 0.00 0.00 0.00 4.40
4648 7617 0.394938 ATACAACCCACGTCAGCACA 59.605 50.000 0.00 0.00 0.00 4.57
4649 7618 0.531090 TACAACCCACGTCAGCACAC 60.531 55.000 0.00 0.00 0.00 3.82
4650 7619 1.817520 CAACCCACGTCAGCACACA 60.818 57.895 0.00 0.00 0.00 3.72
4651 7620 1.817941 AACCCACGTCAGCACACAC 60.818 57.895 0.00 0.00 0.00 3.82
4652 7621 3.337889 CCCACGTCAGCACACACG 61.338 66.667 0.00 0.00 41.90 4.49
4653 7622 4.000557 CCACGTCAGCACACACGC 62.001 66.667 0.00 0.00 39.73 5.34
4654 7623 3.261216 CACGTCAGCACACACGCA 61.261 61.111 0.00 0.00 39.73 5.24
4655 7624 2.280119 ACGTCAGCACACACGCAT 60.280 55.556 0.00 0.00 39.73 4.73
4656 7625 2.310233 ACGTCAGCACACACGCATC 61.310 57.895 0.00 0.00 39.73 3.91
4657 7626 2.023771 CGTCAGCACACACGCATCT 61.024 57.895 0.00 0.00 0.00 2.90
4658 7627 1.560004 CGTCAGCACACACGCATCTT 61.560 55.000 0.00 0.00 0.00 2.40
4659 7628 1.428448 GTCAGCACACACGCATCTTA 58.572 50.000 0.00 0.00 0.00 2.10
4660 7629 2.002586 GTCAGCACACACGCATCTTAT 58.997 47.619 0.00 0.00 0.00 1.73
4661 7630 3.186909 GTCAGCACACACGCATCTTATA 58.813 45.455 0.00 0.00 0.00 0.98
4662 7631 3.243877 GTCAGCACACACGCATCTTATAG 59.756 47.826 0.00 0.00 0.00 1.31
4663 7632 2.033407 CAGCACACACGCATCTTATAGC 60.033 50.000 0.00 0.00 0.00 2.97
4664 7633 1.933181 GCACACACGCATCTTATAGCA 59.067 47.619 0.00 0.00 0.00 3.49
4665 7634 2.545526 GCACACACGCATCTTATAGCAT 59.454 45.455 0.00 0.00 0.00 3.79
4666 7635 3.363378 GCACACACGCATCTTATAGCATC 60.363 47.826 0.00 0.00 0.00 3.91
4667 7636 3.803778 CACACACGCATCTTATAGCATCA 59.196 43.478 0.00 0.00 0.00 3.07
4668 7637 3.804325 ACACACGCATCTTATAGCATCAC 59.196 43.478 0.00 0.00 0.00 3.06
4669 7638 3.803778 CACACGCATCTTATAGCATCACA 59.196 43.478 0.00 0.00 0.00 3.58
4670 7639 4.450080 CACACGCATCTTATAGCATCACAT 59.550 41.667 0.00 0.00 0.00 3.21
4671 7640 4.687948 ACACGCATCTTATAGCATCACATC 59.312 41.667 0.00 0.00 0.00 3.06
4672 7641 4.092529 CACGCATCTTATAGCATCACATCC 59.907 45.833 0.00 0.00 0.00 3.51
4673 7642 4.248058 CGCATCTTATAGCATCACATCCA 58.752 43.478 0.00 0.00 0.00 3.41
4674 7643 4.692155 CGCATCTTATAGCATCACATCCAA 59.308 41.667 0.00 0.00 0.00 3.53
4675 7644 5.353400 CGCATCTTATAGCATCACATCCAAT 59.647 40.000 0.00 0.00 0.00 3.16
4676 7645 6.552629 GCATCTTATAGCATCACATCCAATG 58.447 40.000 0.00 0.00 0.00 2.82
4677 7646 6.404403 GCATCTTATAGCATCACATCCAATGG 60.404 42.308 0.00 0.00 33.60 3.16
4678 7647 5.005740 TCTTATAGCATCACATCCAATGGC 58.994 41.667 0.00 0.00 33.60 4.40
4679 7648 3.520691 ATAGCATCACATCCAATGGCT 57.479 42.857 0.00 0.00 33.60 4.75
4680 7649 4.645863 ATAGCATCACATCCAATGGCTA 57.354 40.909 0.00 0.00 33.60 3.93
4681 7650 3.520691 AGCATCACATCCAATGGCTAT 57.479 42.857 0.00 0.00 33.60 2.97
4682 7651 4.645863 AGCATCACATCCAATGGCTATA 57.354 40.909 0.00 0.00 33.60 1.31
4683 7652 4.989277 AGCATCACATCCAATGGCTATAA 58.011 39.130 0.00 0.00 33.60 0.98
4684 7653 5.387788 AGCATCACATCCAATGGCTATAAA 58.612 37.500 0.00 0.00 33.60 1.40
4685 7654 5.834742 AGCATCACATCCAATGGCTATAAAA 59.165 36.000 0.00 0.00 33.60 1.52
4686 7655 6.015688 AGCATCACATCCAATGGCTATAAAAG 60.016 38.462 0.00 0.00 33.60 2.27
4687 7656 6.684686 CATCACATCCAATGGCTATAAAAGG 58.315 40.000 0.00 0.00 33.60 3.11
4688 7657 5.765510 TCACATCCAATGGCTATAAAAGGT 58.234 37.500 0.00 0.00 33.60 3.50
4689 7658 5.593909 TCACATCCAATGGCTATAAAAGGTG 59.406 40.000 0.00 0.00 33.60 4.00
4690 7659 5.593909 CACATCCAATGGCTATAAAAGGTGA 59.406 40.000 0.00 0.00 33.60 4.02
4691 7660 6.096705 CACATCCAATGGCTATAAAAGGTGAA 59.903 38.462 0.00 0.00 33.60 3.18
4692 7661 6.840705 ACATCCAATGGCTATAAAAGGTGAAT 59.159 34.615 0.00 0.00 33.60 2.57
4693 7662 6.713762 TCCAATGGCTATAAAAGGTGAATG 57.286 37.500 0.00 0.00 0.00 2.67
4694 7663 6.430864 TCCAATGGCTATAAAAGGTGAATGA 58.569 36.000 0.00 0.00 0.00 2.57
4695 7664 6.547141 TCCAATGGCTATAAAAGGTGAATGAG 59.453 38.462 0.00 0.00 0.00 2.90
4696 7665 6.547141 CCAATGGCTATAAAAGGTGAATGAGA 59.453 38.462 0.00 0.00 0.00 3.27
4697 7666 7.420800 CAATGGCTATAAAAGGTGAATGAGAC 58.579 38.462 0.00 0.00 0.00 3.36
4698 7667 6.313519 TGGCTATAAAAGGTGAATGAGACT 57.686 37.500 0.00 0.00 0.00 3.24
4699 7668 7.432148 TGGCTATAAAAGGTGAATGAGACTA 57.568 36.000 0.00 0.00 0.00 2.59
4700 7669 7.857456 TGGCTATAAAAGGTGAATGAGACTAA 58.143 34.615 0.00 0.00 0.00 2.24
4701 7670 8.494433 TGGCTATAAAAGGTGAATGAGACTAAT 58.506 33.333 0.00 0.00 0.00 1.73
4702 7671 9.343539 GGCTATAAAAGGTGAATGAGACTAATT 57.656 33.333 0.00 0.00 0.00 1.40
4738 7707 6.385033 AGATGATTTCTAGCAAAACTGTTGC 58.615 36.000 2.85 2.85 45.22 4.17
4739 7708 7.174772 TAGATGATTTCTAGCAAAACTGTTGCA 59.825 33.333 13.10 0.00 40.57 4.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 53 3.998913 TGATCTTGTGCCAATAGGTGA 57.001 42.857 0.00 0.00 37.19 4.02
63 64 3.302365 ACGCCCAAATTTGATCTTGTG 57.698 42.857 19.86 10.61 0.00 3.33
70 71 2.817258 CCTCTACAACGCCCAAATTTGA 59.183 45.455 19.86 0.00 0.00 2.69
71 72 2.556622 ACCTCTACAACGCCCAAATTTG 59.443 45.455 11.40 11.40 0.00 2.32
87 88 4.383989 GGATTGAGCAGAGAATTGACCTCT 60.384 45.833 0.00 0.00 41.35 3.69
93 94 9.084164 CAAAATAAAGGATTGAGCAGAGAATTG 57.916 33.333 0.00 0.00 0.00 2.32
113 114 5.009610 AGCCGAAGAAGAGCAAAACAAAATA 59.990 36.000 0.00 0.00 0.00 1.40
117 118 2.033299 CAGCCGAAGAAGAGCAAAACAA 59.967 45.455 0.00 0.00 0.00 2.83
122 123 1.070758 AGAACAGCCGAAGAAGAGCAA 59.929 47.619 0.00 0.00 0.00 3.91
123 124 0.681733 AGAACAGCCGAAGAAGAGCA 59.318 50.000 0.00 0.00 0.00 4.26
182 184 3.847671 GCCTTTGCCCTACTAGAGAAT 57.152 47.619 0.00 0.00 0.00 2.40
243 245 6.349300 TGTATAGCTCTTGTTCATCCCTTTC 58.651 40.000 0.00 0.00 0.00 2.62
395 407 2.098607 CGATTCTGCCATGTTCTTGCAT 59.901 45.455 0.00 0.00 33.97 3.96
499 2806 1.003545 CCAATGTTCGGCGATCATCAC 60.004 52.381 27.79 16.25 0.00 3.06
515 2822 2.937379 CTAGCAGCTGGCGCTCCAAT 62.937 60.000 17.12 0.00 45.15 3.16
795 3108 0.884704 TCTCCTCAACCAACTTGCGC 60.885 55.000 0.00 0.00 0.00 6.09
796 3109 1.466167 CATCTCCTCAACCAACTTGCG 59.534 52.381 0.00 0.00 0.00 4.85
797 3110 2.783135 TCATCTCCTCAACCAACTTGC 58.217 47.619 0.00 0.00 0.00 4.01
889 3202 6.373216 CCAAATATTTTGGTAGAGTCGTCCAA 59.627 38.462 14.86 14.86 39.12 3.53
933 3249 1.228063 CAGCAGCTTGACCACCACT 60.228 57.895 0.00 0.00 0.00 4.00
1040 3356 5.763204 TGTTTCTGGACTTCTTGGTCATTAC 59.237 40.000 0.00 0.00 37.91 1.89
1108 3424 2.955660 TGGATTTCAAAAGAGCAACGGT 59.044 40.909 0.00 0.00 0.00 4.83
1111 3427 6.479660 TCAATGTTGGATTTCAAAAGAGCAAC 59.520 34.615 0.00 0.00 37.08 4.17
1243 3567 7.075797 TCCTCCCACATTCTCTTATCTTCATA 58.924 38.462 0.00 0.00 0.00 2.15
1344 3669 1.136305 ACCGTGCACATTATAGACGCT 59.864 47.619 18.64 0.00 0.00 5.07
1347 3672 4.025145 GGCTTAACCGTGCACATTATAGAC 60.025 45.833 18.64 12.15 0.00 2.59
1399 3724 6.648192 TGTTTGAAAACAAGTCCCATGAATT 58.352 32.000 6.15 0.00 45.17 2.17
1543 3874 7.381766 TCTTCCATTCATGTACATGTTTCTG 57.618 36.000 30.03 21.88 39.72 3.02
1622 3956 8.026607 GGTGTTTGCAGCTTAACTTTAATATGA 58.973 33.333 10.89 0.00 39.79 2.15
1640 3974 3.988379 TTTCAGATGACAGGTGTTTGC 57.012 42.857 0.00 0.00 0.00 3.68
1694 4028 4.215827 CCTTCTGCATCTCATAATCCTTGC 59.784 45.833 0.00 0.00 0.00 4.01
1857 4197 9.407380 TCATGCATTTTACATACTACCATTCTT 57.593 29.630 0.00 0.00 0.00 2.52
1949 4316 5.405935 ACCATCTTTTAACAATGCCTTCC 57.594 39.130 0.00 0.00 0.00 3.46
1970 4337 4.209703 CCTTTGACATTTGCATGTGACAAC 59.790 41.667 13.31 0.00 44.22 3.32
1994 4361 9.308000 ACCCACTAATTTGTTCTAATTCATCAA 57.692 29.630 0.00 0.00 0.00 2.57
1995 4362 8.877864 ACCCACTAATTTGTTCTAATTCATCA 57.122 30.769 0.00 0.00 0.00 3.07
2070 4512 6.417930 GCAACTCTTTAAAATCCTTGTGTGAC 59.582 38.462 0.00 0.00 0.00 3.67
2196 4698 3.181520 GCAATGTAACGATGTCAGACACC 60.182 47.826 5.05 0.00 0.00 4.16
2339 4847 8.532186 AGACATACTTCTGAGACTATCACAAT 57.468 34.615 0.00 0.00 33.22 2.71
2646 5166 7.445402 CCATATCCGAGTATCTCCAAATTTTGT 59.555 37.037 8.26 0.00 0.00 2.83
2693 5214 8.324306 AGTTAAACATCTCAGGATTTCTCATCA 58.676 33.333 0.00 0.00 0.00 3.07
2749 5270 4.446371 ACAGGTATACTCTTGCATCTTGC 58.554 43.478 2.25 0.00 45.29 4.01
3018 5539 2.224992 TGGAATACTTGCAAGCTTGGGA 60.225 45.455 27.10 8.58 0.00 4.37
3197 5721 6.837312 TCAAGAGGTCTTTCACTTTGGATTA 58.163 36.000 0.00 0.00 33.11 1.75
3272 5796 7.388776 GCATAAGGCATGATCTAGACAATACAA 59.611 37.037 0.00 0.00 43.97 2.41
3289 5813 5.846359 AAAGCATTTCCAAGGCATAAGGCA 61.846 41.667 0.00 0.00 38.00 4.75
3313 5838 6.423776 AATCACCAACATTTCCACAAATCT 57.576 33.333 0.00 0.00 28.97 2.40
3372 5897 0.391661 GATCAAAGCACCCGAGCTCA 60.392 55.000 15.40 0.00 45.89 4.26
3453 5978 2.741092 GACAGCGGAAGTGTCCCA 59.259 61.111 0.00 0.00 41.44 4.37
3486 6014 6.024552 ACCAGATGTTTGCATAACGAAATT 57.975 33.333 0.00 0.00 35.07 1.82
3699 6232 2.290641 CGGGCAGCCATGTATCTTTAAC 59.709 50.000 15.19 0.00 0.00 2.01
3734 6270 6.514012 TGAAATATTTCCCTCCTCTGCATA 57.486 37.500 22.42 0.00 36.36 3.14
3743 6279 6.183360 CGAGACCAAGTTGAAATATTTCCCTC 60.183 42.308 22.42 13.57 36.36 4.30
3750 6289 7.210873 GGATAGACGAGACCAAGTTGAAATAT 58.789 38.462 3.87 0.00 0.00 1.28
3757 6296 2.496470 GTGGGATAGACGAGACCAAGTT 59.504 50.000 0.00 0.00 32.19 2.66
3809 6363 5.125417 TGATTTATACTTTGCAGCTTGGGTC 59.875 40.000 0.00 0.00 0.00 4.46
3811 6365 5.126061 ACTGATTTATACTTTGCAGCTTGGG 59.874 40.000 0.00 0.00 0.00 4.12
3828 6407 2.411748 CGTGTCATGCGTGTACTGATTT 59.588 45.455 5.68 0.00 0.00 2.17
3830 6409 1.201414 TCGTGTCATGCGTGTACTGAT 59.799 47.619 5.68 0.00 0.00 2.90
3831 6410 0.594110 TCGTGTCATGCGTGTACTGA 59.406 50.000 5.68 6.26 0.00 3.41
3832 6411 0.984829 CTCGTGTCATGCGTGTACTG 59.015 55.000 5.68 4.30 0.00 2.74
3833 6412 0.596577 ACTCGTGTCATGCGTGTACT 59.403 50.000 5.68 0.00 34.89 2.73
3837 6416 2.471607 GCACTCGTGTCATGCGTG 59.528 61.111 10.26 10.26 0.00 5.34
3839 6418 3.490759 GGGCACTCGTGTCATGCG 61.491 66.667 3.90 0.00 40.37 4.73
3840 6419 2.046892 AGGGCACTCGTGTCATGC 60.047 61.111 3.90 0.00 36.81 4.06
3841 6420 1.742880 CCAGGGCACTCGTGTCATG 60.743 63.158 9.12 9.12 45.35 3.07
3842 6421 0.902984 TACCAGGGCACTCGTGTCAT 60.903 55.000 0.00 0.00 36.81 3.06
3843 6422 1.116536 TTACCAGGGCACTCGTGTCA 61.117 55.000 0.00 0.00 36.81 3.58
3844 6423 0.034337 TTTACCAGGGCACTCGTGTC 59.966 55.000 0.00 0.00 0.00 3.67
3846 6425 1.600023 TTTTTACCAGGGCACTCGTG 58.400 50.000 0.00 0.00 0.00 4.35
3911 6493 8.650714 CGTACATGATTCATCGAATGTTATCAT 58.349 33.333 0.00 10.70 40.35 2.45
3921 6503 3.115554 CTGCACGTACATGATTCATCGA 58.884 45.455 11.75 0.00 0.00 3.59
3937 6531 0.615331 TCAGAGATTCCCACCTGCAC 59.385 55.000 0.00 0.00 0.00 4.57
4038 6860 1.134560 CTACGCCCTGTTGAGGAGTAC 59.865 57.143 0.00 0.00 42.93 2.73
4047 6869 2.687566 CCCCCTCTACGCCCTGTT 60.688 66.667 0.00 0.00 0.00 3.16
4135 7024 2.671070 CCATCGAAGCACCACCCT 59.329 61.111 0.00 0.00 0.00 4.34
4139 7028 2.741985 CACGCCATCGAAGCACCA 60.742 61.111 10.92 0.00 39.41 4.17
4288 7177 5.633830 ACATGTTGTGCTAATTTCAGAGG 57.366 39.130 0.00 0.00 0.00 3.69
4290 7179 7.744087 ACTTACATGTTGTGCTAATTTCAGA 57.256 32.000 2.30 0.00 0.00 3.27
4291 7180 8.693504 CAAACTTACATGTTGTGCTAATTTCAG 58.306 33.333 2.30 0.00 0.00 3.02
4294 7183 7.721402 TCCAAACTTACATGTTGTGCTAATTT 58.279 30.769 2.30 0.00 0.00 1.82
4363 7252 6.793505 AGTAAATCGAAACAGAGGGAGTAT 57.206 37.500 0.00 0.00 0.00 2.12
4388 7277 7.388290 TGCAAATTTGAACTAAAATCACGAC 57.612 32.000 22.31 0.00 0.00 4.34
4442 7409 5.673514 TGCAAGATGCTTGTGACTATATGA 58.326 37.500 8.74 0.00 45.31 2.15
4539 7508 1.596477 GCAATGCCGTGGCCAAAAA 60.596 52.632 7.24 0.00 41.09 1.94
4550 7519 4.217118 CAGATACTCCCTATTTGCAATGCC 59.783 45.833 1.53 0.00 0.00 4.40
4563 7532 5.636123 TCTAGATGAGTTCCAGATACTCCC 58.364 45.833 0.00 0.00 41.02 4.30
4564 7533 6.945435 TCATCTAGATGAGTTCCAGATACTCC 59.055 42.308 27.93 0.00 42.42 3.85
4565 7534 7.994425 TCATCTAGATGAGTTCCAGATACTC 57.006 40.000 27.93 0.00 42.42 2.59
4578 7547 9.152327 AGACCAAATTATGTCTCATCTAGATGA 57.848 33.333 29.17 29.17 44.83 2.92
4589 7558 8.517878 CAAAGTGAATGAGACCAAATTATGTCT 58.482 33.333 8.99 8.99 44.25 3.41
4590 7559 7.756722 CCAAAGTGAATGAGACCAAATTATGTC 59.243 37.037 0.19 0.19 0.00 3.06
4591 7560 7.451255 TCCAAAGTGAATGAGACCAAATTATGT 59.549 33.333 0.00 0.00 0.00 2.29
4592 7561 7.829725 TCCAAAGTGAATGAGACCAAATTATG 58.170 34.615 0.00 0.00 0.00 1.90
4593 7562 8.421249 TTCCAAAGTGAATGAGACCAAATTAT 57.579 30.769 0.00 0.00 0.00 1.28
4594 7563 7.831691 TTCCAAAGTGAATGAGACCAAATTA 57.168 32.000 0.00 0.00 0.00 1.40
4595 7564 6.729690 TTCCAAAGTGAATGAGACCAAATT 57.270 33.333 0.00 0.00 0.00 1.82
4596 7565 6.098124 TGTTTCCAAAGTGAATGAGACCAAAT 59.902 34.615 0.00 0.00 0.00 2.32
4597 7566 5.420421 TGTTTCCAAAGTGAATGAGACCAAA 59.580 36.000 0.00 0.00 0.00 3.28
4598 7567 4.952957 TGTTTCCAAAGTGAATGAGACCAA 59.047 37.500 0.00 0.00 0.00 3.67
4599 7568 4.531854 TGTTTCCAAAGTGAATGAGACCA 58.468 39.130 0.00 0.00 0.00 4.02
4600 7569 5.299279 TCTTGTTTCCAAAGTGAATGAGACC 59.701 40.000 0.00 0.00 0.00 3.85
4601 7570 6.377327 TCTTGTTTCCAAAGTGAATGAGAC 57.623 37.500 0.00 0.00 0.00 3.36
4602 7571 6.376864 TGTTCTTGTTTCCAAAGTGAATGAGA 59.623 34.615 0.00 0.00 0.00 3.27
4603 7572 6.563422 TGTTCTTGTTTCCAAAGTGAATGAG 58.437 36.000 0.00 0.00 0.00 2.90
4604 7573 6.376864 TCTGTTCTTGTTTCCAAAGTGAATGA 59.623 34.615 0.00 0.00 0.00 2.57
4605 7574 6.563422 TCTGTTCTTGTTTCCAAAGTGAATG 58.437 36.000 0.00 0.00 0.00 2.67
4606 7575 6.773976 TCTGTTCTTGTTTCCAAAGTGAAT 57.226 33.333 0.00 0.00 0.00 2.57
4607 7576 6.773976 ATCTGTTCTTGTTTCCAAAGTGAA 57.226 33.333 0.00 0.00 0.00 3.18
4608 7577 6.826231 TGTATCTGTTCTTGTTTCCAAAGTGA 59.174 34.615 0.00 0.00 0.00 3.41
4609 7578 7.026631 TGTATCTGTTCTTGTTTCCAAAGTG 57.973 36.000 0.00 0.00 0.00 3.16
4610 7579 7.416326 GGTTGTATCTGTTCTTGTTTCCAAAGT 60.416 37.037 0.00 0.00 0.00 2.66
4611 7580 6.918022 GGTTGTATCTGTTCTTGTTTCCAAAG 59.082 38.462 0.00 0.00 0.00 2.77
4612 7581 6.183360 GGGTTGTATCTGTTCTTGTTTCCAAA 60.183 38.462 0.00 0.00 0.00 3.28
4613 7582 5.300792 GGGTTGTATCTGTTCTTGTTTCCAA 59.699 40.000 0.00 0.00 0.00 3.53
4614 7583 4.825085 GGGTTGTATCTGTTCTTGTTTCCA 59.175 41.667 0.00 0.00 0.00 3.53
4615 7584 4.825085 TGGGTTGTATCTGTTCTTGTTTCC 59.175 41.667 0.00 0.00 0.00 3.13
4616 7585 5.560183 CGTGGGTTGTATCTGTTCTTGTTTC 60.560 44.000 0.00 0.00 0.00 2.78
4617 7586 4.274950 CGTGGGTTGTATCTGTTCTTGTTT 59.725 41.667 0.00 0.00 0.00 2.83
4618 7587 3.813166 CGTGGGTTGTATCTGTTCTTGTT 59.187 43.478 0.00 0.00 0.00 2.83
4619 7588 3.181458 ACGTGGGTTGTATCTGTTCTTGT 60.181 43.478 0.00 0.00 0.00 3.16
4620 7589 3.399330 ACGTGGGTTGTATCTGTTCTTG 58.601 45.455 0.00 0.00 0.00 3.02
4621 7590 3.070446 TGACGTGGGTTGTATCTGTTCTT 59.930 43.478 0.00 0.00 0.00 2.52
4622 7591 2.631062 TGACGTGGGTTGTATCTGTTCT 59.369 45.455 0.00 0.00 0.00 3.01
4623 7592 2.993899 CTGACGTGGGTTGTATCTGTTC 59.006 50.000 0.00 0.00 0.00 3.18
4624 7593 2.870435 GCTGACGTGGGTTGTATCTGTT 60.870 50.000 0.00 0.00 0.00 3.16
4625 7594 1.337823 GCTGACGTGGGTTGTATCTGT 60.338 52.381 0.00 0.00 0.00 3.41
4626 7595 1.337728 TGCTGACGTGGGTTGTATCTG 60.338 52.381 0.00 0.00 0.00 2.90
4627 7596 0.973632 TGCTGACGTGGGTTGTATCT 59.026 50.000 0.00 0.00 0.00 1.98
4628 7597 1.076332 GTGCTGACGTGGGTTGTATC 58.924 55.000 0.00 0.00 0.00 2.24
4629 7598 0.394938 TGTGCTGACGTGGGTTGTAT 59.605 50.000 0.00 0.00 0.00 2.29
4630 7599 0.531090 GTGTGCTGACGTGGGTTGTA 60.531 55.000 0.00 0.00 0.00 2.41
4631 7600 1.817941 GTGTGCTGACGTGGGTTGT 60.818 57.895 0.00 0.00 0.00 3.32
4632 7601 1.817520 TGTGTGCTGACGTGGGTTG 60.818 57.895 0.00 0.00 0.00 3.77
4633 7602 1.817941 GTGTGTGCTGACGTGGGTT 60.818 57.895 0.00 0.00 0.00 4.11
4634 7603 2.203015 GTGTGTGCTGACGTGGGT 60.203 61.111 0.00 0.00 0.00 4.51
4635 7604 3.337889 CGTGTGTGCTGACGTGGG 61.338 66.667 0.00 0.00 0.00 4.61
4636 7605 4.000557 GCGTGTGTGCTGACGTGG 62.001 66.667 0.00 0.00 37.89 4.94
4637 7606 2.484631 GATGCGTGTGTGCTGACGTG 62.485 60.000 0.00 0.00 37.89 4.49
4638 7607 2.280119 ATGCGTGTGTGCTGACGT 60.280 55.556 0.00 0.00 37.89 4.34
4639 7608 1.560004 AAGATGCGTGTGTGCTGACG 61.560 55.000 0.00 0.00 38.63 4.35
4640 7609 1.428448 TAAGATGCGTGTGTGCTGAC 58.572 50.000 0.00 0.00 35.36 3.51
4641 7610 2.385013 ATAAGATGCGTGTGTGCTGA 57.615 45.000 0.00 0.00 35.36 4.26
4642 7611 2.033407 GCTATAAGATGCGTGTGTGCTG 60.033 50.000 0.00 0.00 35.36 4.41
4643 7612 2.205074 GCTATAAGATGCGTGTGTGCT 58.795 47.619 0.00 0.00 35.36 4.40
4644 7613 1.933181 TGCTATAAGATGCGTGTGTGC 59.067 47.619 0.00 0.00 0.00 4.57
4645 7614 3.803778 TGATGCTATAAGATGCGTGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
4646 7615 3.804325 GTGATGCTATAAGATGCGTGTGT 59.196 43.478 0.00 0.00 0.00 3.72
4647 7616 3.803778 TGTGATGCTATAAGATGCGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
4648 7617 4.058721 TGTGATGCTATAAGATGCGTGT 57.941 40.909 0.00 0.00 0.00 4.49
4649 7618 4.092529 GGATGTGATGCTATAAGATGCGTG 59.907 45.833 0.00 0.00 0.00 5.34
4650 7619 4.248859 GGATGTGATGCTATAAGATGCGT 58.751 43.478 0.00 0.00 0.00 5.24
4651 7620 4.248058 TGGATGTGATGCTATAAGATGCG 58.752 43.478 0.00 0.00 0.00 4.73
4652 7621 6.404403 CCATTGGATGTGATGCTATAAGATGC 60.404 42.308 0.00 0.00 0.00 3.91
4653 7622 6.404403 GCCATTGGATGTGATGCTATAAGATG 60.404 42.308 6.95 0.00 0.00 2.90
4654 7623 5.651139 GCCATTGGATGTGATGCTATAAGAT 59.349 40.000 6.95 0.00 0.00 2.40
4655 7624 5.005740 GCCATTGGATGTGATGCTATAAGA 58.994 41.667 6.95 0.00 0.00 2.10
4656 7625 5.008331 AGCCATTGGATGTGATGCTATAAG 58.992 41.667 6.95 0.00 0.00 1.73
4657 7626 4.989277 AGCCATTGGATGTGATGCTATAA 58.011 39.130 6.95 0.00 0.00 0.98
4658 7627 4.645863 AGCCATTGGATGTGATGCTATA 57.354 40.909 6.95 0.00 0.00 1.31
4659 7628 3.520691 AGCCATTGGATGTGATGCTAT 57.479 42.857 6.95 0.00 0.00 2.97
4660 7629 4.645863 ATAGCCATTGGATGTGATGCTA 57.354 40.909 6.95 0.00 0.00 3.49
4661 7630 3.520691 ATAGCCATTGGATGTGATGCT 57.479 42.857 6.95 0.00 0.00 3.79
4662 7631 5.710513 TTTATAGCCATTGGATGTGATGC 57.289 39.130 6.95 0.00 0.00 3.91
4663 7632 6.266103 ACCTTTTATAGCCATTGGATGTGATG 59.734 38.462 6.95 0.00 0.00 3.07
4664 7633 6.266103 CACCTTTTATAGCCATTGGATGTGAT 59.734 38.462 6.95 0.00 0.00 3.06
4665 7634 5.593909 CACCTTTTATAGCCATTGGATGTGA 59.406 40.000 6.95 0.00 0.00 3.58
4666 7635 5.593909 TCACCTTTTATAGCCATTGGATGTG 59.406 40.000 6.95 2.95 0.00 3.21
4667 7636 5.765510 TCACCTTTTATAGCCATTGGATGT 58.234 37.500 6.95 0.10 0.00 3.06
4668 7637 6.713762 TTCACCTTTTATAGCCATTGGATG 57.286 37.500 6.95 0.00 0.00 3.51
4669 7638 7.068702 TCATTCACCTTTTATAGCCATTGGAT 58.931 34.615 6.95 1.78 0.00 3.41
4670 7639 6.430864 TCATTCACCTTTTATAGCCATTGGA 58.569 36.000 6.95 0.00 0.00 3.53
4671 7640 6.547141 TCTCATTCACCTTTTATAGCCATTGG 59.453 38.462 0.00 0.00 0.00 3.16
4672 7641 7.284034 AGTCTCATTCACCTTTTATAGCCATTG 59.716 37.037 0.00 0.00 0.00 2.82
4673 7642 7.349598 AGTCTCATTCACCTTTTATAGCCATT 58.650 34.615 0.00 0.00 0.00 3.16
4674 7643 6.904626 AGTCTCATTCACCTTTTATAGCCAT 58.095 36.000 0.00 0.00 0.00 4.40
4675 7644 6.313519 AGTCTCATTCACCTTTTATAGCCA 57.686 37.500 0.00 0.00 0.00 4.75
4676 7645 8.910351 ATTAGTCTCATTCACCTTTTATAGCC 57.090 34.615 0.00 0.00 0.00 3.93
4713 7682 7.174772 TGCAACAGTTTTGCTAGAAATCATCTA 59.825 33.333 14.69 0.00 45.13 1.98
4714 7683 6.016024 TGCAACAGTTTTGCTAGAAATCATCT 60.016 34.615 14.69 0.00 45.13 2.90
4715 7684 6.151691 TGCAACAGTTTTGCTAGAAATCATC 58.848 36.000 14.69 0.00 45.13 2.92
4716 7685 6.088016 TGCAACAGTTTTGCTAGAAATCAT 57.912 33.333 14.69 0.00 45.13 2.45
4717 7686 5.512753 TGCAACAGTTTTGCTAGAAATCA 57.487 34.783 14.69 0.00 45.13 2.57
4718 7687 6.826893 TTTGCAACAGTTTTGCTAGAAATC 57.173 33.333 14.69 0.00 45.13 2.17
4719 7688 8.885494 TTATTTGCAACAGTTTTGCTAGAAAT 57.115 26.923 14.69 13.46 45.13 2.17
4720 7689 8.885494 ATTATTTGCAACAGTTTTGCTAGAAA 57.115 26.923 14.69 7.77 45.13 2.52
4725 7694 9.874205 ACATATATTATTTGCAACAGTTTTGCT 57.126 25.926 14.69 0.00 45.13 3.91
4742 7711 9.679661 TCTGTTGAGAAAGGCAAACATATATTA 57.320 29.630 0.00 0.00 0.00 0.98
4743 7712 8.579850 TCTGTTGAGAAAGGCAAACATATATT 57.420 30.769 0.00 0.00 0.00 1.28


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

AutoCloner maintained by Alex Coulton.