Multiple sequence alignment - TraesCS3A01G473300

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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 TraesCS3A01G473300 chr3A 100.000 4649 0 0 1 4649 704588486 704583838 0.000000e+00 8586.0
1 TraesCS3A01G473300 chr3A 90.963 3906 242 51 18 3843 704684063 704687937 0.000000e+00 5155.0
2 TraesCS3A01G473300 chr3A 94.106 2918 155 13 878 3781 704766248 704769162 0.000000e+00 4420.0
3 TraesCS3A01G473300 chr3A 93.017 358 14 4 3845 4191 704688000 704688357 3.210000e-141 512.0
4 TraesCS3A01G473300 chr3A 93.780 209 8 4 3844 4049 704769270 704769476 4.520000e-80 309.0
5 TraesCS3A01G473300 chr3A 95.706 163 5 2 4031 4191 704770862 704771024 1.280000e-65 261.0
6 TraesCS3A01G473300 chr3A 95.238 105 5 0 4545 4649 704771193 704771297 2.880000e-37 167.0
7 TraesCS3A01G473300 chr3A 97.561 41 0 1 769 809 704766121 704766160 8.350000e-08 69.4
8 TraesCS3A01G473300 chr3B 92.294 3452 192 29 303 3692 760044677 760048116 0.000000e+00 4833.0
9 TraesCS3A01G473300 chr3B 85.283 761 88 12 2287 3047 759807306 759808042 0.000000e+00 763.0
10 TraesCS3A01G473300 chr3B 93.827 324 15 4 3871 4191 760048166 760048487 2.520000e-132 483.0
11 TraesCS3A01G473300 chr3B 86.006 343 19 13 4336 4649 760048485 760048827 1.600000e-89 340.0
12 TraesCS3A01G473300 chr3B 83.976 337 38 9 1189 1521 760445486 760445162 4.520000e-80 309.0
13 TraesCS3A01G473300 chr3B 98.077 156 3 0 4191 4346 2885332 2885177 5.930000e-69 272.0
14 TraesCS3A01G473300 chrUn 94.676 2930 133 11 810 3719 33131043 33128117 0.000000e+00 4525.0
15 TraesCS3A01G473300 chrUn 84.924 1446 159 26 887 2311 132108132 132109539 0.000000e+00 1408.0
16 TraesCS3A01G473300 chrUn 80.299 1670 243 44 1725 3370 33174644 33173037 0.000000e+00 1182.0
17 TraesCS3A01G473300 chrUn 84.932 803 108 11 2320 3114 132109627 132110424 0.000000e+00 800.0
18 TraesCS3A01G473300 chrUn 84.172 815 97 15 1053 1839 132088895 132089705 0.000000e+00 761.0
19 TraesCS3A01G473300 chrUn 86.364 616 72 7 2458 3073 33172999 33172396 0.000000e+00 662.0
20 TraesCS3A01G473300 chrUn 77.195 1105 206 30 1025 2103 33276109 33275025 1.850000e-168 603.0
21 TraesCS3A01G473300 chrUn 84.390 615 80 12 3102 3711 132112018 132112621 1.440000e-164 590.0
22 TraesCS3A01G473300 chrUn 81.997 661 90 13 1824 2481 132091411 132092045 6.850000e-148 534.0
23 TraesCS3A01G473300 chrUn 96.273 322 11 1 3871 4191 33127945 33127624 1.150000e-145 527.0
24 TraesCS3A01G473300 chrUn 81.188 505 87 6 1601 2103 377887864 377887366 2.610000e-107 399.0
25 TraesCS3A01G473300 chrUn 81.188 505 87 6 1601 2103 431581707 431581209 2.610000e-107 399.0
26 TraesCS3A01G473300 chrUn 83.987 306 16 15 4375 4649 33127621 33127318 3.570000e-66 263.0
27 TraesCS3A01G473300 chrUn 93.590 156 10 0 2488 2643 132099405 132099560 2.800000e-57 233.0
28 TraesCS3A01G473300 chrUn 90.286 175 17 0 1189 1363 132203948 132204122 3.620000e-56 230.0
29 TraesCS3A01G473300 chr7A 98.710 155 1 1 4191 4344 348798060 348798214 1.650000e-69 274.0
30 TraesCS3A01G473300 chr7A 97.531 162 1 3 4191 4352 630034487 630034329 1.650000e-69 274.0
31 TraesCS3A01G473300 chr7A 98.701 154 1 1 4191 4343 426576446 426576599 5.930000e-69 272.0
32 TraesCS3A01G473300 chr6B 99.338 151 1 0 4191 4341 717967223 717967073 1.650000e-69 274.0
33 TraesCS3A01G473300 chr6B 100.000 28 0 0 1053 1080 680805051 680805024 8.000000e-03 52.8
34 TraesCS3A01G473300 chr4A 98.693 153 2 0 4191 4343 731664174 731664326 5.930000e-69 272.0
35 TraesCS3A01G473300 chr2B 98.693 153 1 1 4191 4343 314771419 314771570 2.130000e-68 270.0
36 TraesCS3A01G473300 chr1A 98.693 153 1 1 4191 4343 562740360 562740209 2.130000e-68 270.0
37 TraesCS3A01G473300 chr7B 97.452 157 4 0 4191 4347 163011528 163011684 7.670000e-68 268.0
38 TraesCS3A01G473300 chr6D 100.000 28 0 0 1053 1080 449232317 449232290 8.000000e-03 52.8


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 TraesCS3A01G473300 chr3A 704583838 704588486 4648 True 8586.000000 8586 100.000000 1 4649 1 chr3A.!!$R1 4648
1 TraesCS3A01G473300 chr3A 704684063 704688357 4294 False 2833.500000 5155 91.990000 18 4191 2 chr3A.!!$F1 4173
2 TraesCS3A01G473300 chr3A 704766121 704771297 5176 False 1045.280000 4420 95.278200 769 4649 5 chr3A.!!$F2 3880
3 TraesCS3A01G473300 chr3B 760044677 760048827 4150 False 1885.333333 4833 90.709000 303 4649 3 chr3B.!!$F2 4346
4 TraesCS3A01G473300 chr3B 759807306 759808042 736 False 763.000000 763 85.283000 2287 3047 1 chr3B.!!$F1 760
5 TraesCS3A01G473300 chrUn 33127318 33131043 3725 True 1771.666667 4525 91.645333 810 4649 3 chrUn.!!$R4 3839
6 TraesCS3A01G473300 chrUn 132108132 132112621 4489 False 932.666667 1408 84.748667 887 3711 3 chrUn.!!$F4 2824
7 TraesCS3A01G473300 chrUn 33172396 33174644 2248 True 922.000000 1182 83.331500 1725 3370 2 chrUn.!!$R5 1645
8 TraesCS3A01G473300 chrUn 132088895 132092045 3150 False 647.500000 761 83.084500 1053 2481 2 chrUn.!!$F3 1428
9 TraesCS3A01G473300 chrUn 33275025 33276109 1084 True 603.000000 603 77.195000 1025 2103 1 chrUn.!!$R1 1078

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
769 794 0.666274 GACGGTGATGAGAACGTGCA 60.666 55.0 0.00 0.0 39.95 4.57 F
1743 1855 0.371645 CTCGCGCAGATGGTCTTTTC 59.628 55.0 8.75 0.0 0.00 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1758 1870 0.177836 TGACCACATAGCCATGGACG 59.822 55.000 18.40 1.93 39.46 4.79 R
3738 7663 1.714414 CTTGAGCGAGTCTGCATGC 59.286 57.895 11.82 11.82 37.31 4.06 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
41 42 9.515226 AAAAGCTATTTTCCATTCAGTACTACA 57.485 29.630 0.00 0.00 33.21 2.74
42 43 9.686683 AAAGCTATTTTCCATTCAGTACTACAT 57.313 29.630 0.00 0.00 0.00 2.29
45 46 9.982651 GCTATTTTCCATTCAGTACTACATAGA 57.017 33.333 0.00 0.00 0.00 1.98
86 90 1.103398 GCCCCTCTTATTGCGCACAT 61.103 55.000 11.12 10.02 0.00 3.21
87 91 0.947244 CCCCTCTTATTGCGCACATC 59.053 55.000 11.12 0.00 0.00 3.06
88 92 1.475751 CCCCTCTTATTGCGCACATCT 60.476 52.381 11.12 0.00 0.00 2.90
89 93 1.600957 CCCTCTTATTGCGCACATCTG 59.399 52.381 11.12 0.00 0.00 2.90
90 94 1.003116 CCTCTTATTGCGCACATCTGC 60.003 52.381 11.12 0.00 40.38 4.26
91 95 1.667212 CTCTTATTGCGCACATCTGCA 59.333 47.619 11.12 0.00 44.50 4.41
92 96 1.398041 TCTTATTGCGCACATCTGCAC 59.602 47.619 11.12 0.00 44.50 4.57
93 97 1.130938 CTTATTGCGCACATCTGCACA 59.869 47.619 11.12 0.00 44.50 4.57
99 103 1.791555 GCGCACATCTGCACATGTTAC 60.792 52.381 4.69 0.28 44.50 2.50
101 105 2.475022 CGCACATCTGCACATGTTACAG 60.475 50.000 16.33 16.33 44.50 2.74
118 122 5.009210 TGTTACAGAAGTTATGGTTTGTGCC 59.991 40.000 2.04 0.00 0.00 5.01
141 145 3.755905 TGAATGCAAACCGTGTGTGATAT 59.244 39.130 0.00 0.00 0.00 1.63
150 154 4.894784 ACCGTGTGTGATATCTTTCTTGT 58.105 39.130 3.98 0.00 0.00 3.16
155 159 4.864806 TGTGTGATATCTTTCTTGTCGCTC 59.135 41.667 3.98 0.00 0.00 5.03
158 162 5.521372 TGTGATATCTTTCTTGTCGCTCATG 59.479 40.000 3.98 0.00 0.00 3.07
162 166 3.182182 TCTTTCTTGTCGCTCATGATCG 58.818 45.455 12.62 12.62 31.79 3.69
174 178 3.244814 GCTCATGATCGCTACAGAACAAG 59.755 47.826 0.00 0.00 0.00 3.16
175 179 3.190079 TCATGATCGCTACAGAACAAGC 58.810 45.455 0.00 0.00 35.33 4.01
190 194 3.476295 ACAAGCATGCACGATAAACTG 57.524 42.857 21.98 5.04 0.00 3.16
198 202 3.540617 TGCACGATAAACTGCATATGGT 58.459 40.909 4.56 0.00 38.49 3.55
199 203 3.559655 TGCACGATAAACTGCATATGGTC 59.440 43.478 4.56 0.00 38.49 4.02
227 231 6.377780 TGGATAAATCGTGTGAAATGTGTTG 58.622 36.000 0.00 0.00 0.00 3.33
241 245 3.081329 TGTGTTGCACAATCACACATG 57.919 42.857 15.52 0.00 41.69 3.21
245 249 4.853196 GTGTTGCACAATCACACATGATAC 59.147 41.667 12.60 0.00 45.26 2.24
246 250 4.090729 GTTGCACAATCACACATGATACG 58.909 43.478 0.00 0.00 45.26 3.06
248 252 3.618150 TGCACAATCACACATGATACGAG 59.382 43.478 0.00 0.00 45.26 4.18
261 265 5.775701 ACATGATACGAGAGGGCTAACTATT 59.224 40.000 0.00 0.00 0.00 1.73
281 285 8.673626 ACTATTTGCGATACACTTTTCAATTG 57.326 30.769 0.00 0.00 0.00 2.32
282 286 6.949578 ATTTGCGATACACTTTTCAATTGG 57.050 33.333 5.42 0.00 0.00 3.16
286 290 4.394920 GCGATACACTTTTCAATTGGGAGA 59.605 41.667 5.42 0.00 0.00 3.71
287 291 5.066505 GCGATACACTTTTCAATTGGGAGAT 59.933 40.000 5.42 0.00 0.00 2.75
294 299 8.960591 ACACTTTTCAATTGGGAGATTACATAG 58.039 33.333 5.42 0.00 0.00 2.23
305 310 5.509163 GGGAGATTACATAGCGCTGAAACTA 60.509 44.000 22.90 0.00 0.00 2.24
308 313 6.210078 AGATTACATAGCGCTGAAACTACTC 58.790 40.000 22.90 7.34 0.00 2.59
310 315 6.688637 TTACATAGCGCTGAAACTACTCTA 57.311 37.500 22.90 0.00 0.00 2.43
375 380 9.183368 AGAGAAAGGATTAAAGCCTTCATTTAG 57.817 33.333 11.96 0.00 44.72 1.85
407 414 4.466015 AGCCTTTCCAGACAACTTGAAAAA 59.534 37.500 0.00 0.00 37.34 1.94
408 415 4.805719 GCCTTTCCAGACAACTTGAAAAAG 59.194 41.667 0.00 0.00 37.34 2.27
442 450 3.851845 TTGGAACGGTCGCCACGAG 62.852 63.158 0.00 0.00 36.23 4.18
456 465 2.320781 CCACGAGGAGGGTCTATCAAT 58.679 52.381 0.00 0.00 36.89 2.57
459 471 4.384208 CCACGAGGAGGGTCTATCAATTTT 60.384 45.833 0.00 0.00 36.89 1.82
517 532 2.278857 CTCCCTGATCGTTCGGCG 60.279 66.667 0.00 0.00 43.01 6.46
549 564 2.275380 GGCAAACCCGCAATGGTCT 61.275 57.895 0.00 0.00 37.76 3.85
550 565 1.080569 GCAAACCCGCAATGGTCTG 60.081 57.895 0.00 0.00 37.76 3.51
556 571 2.270205 CGCAATGGTCTGGAGGCT 59.730 61.111 0.00 0.00 0.00 4.58
567 582 3.261137 GGTCTGGAGGCTTAGTTTACTGT 59.739 47.826 0.00 0.00 0.00 3.55
694 719 7.384660 TGCTACTTTATGAAAAATGCCAAGTTG 59.615 33.333 0.00 0.00 0.00 3.16
724 749 4.989279 AATGGCCATGCTACTTTACAAG 57.011 40.909 21.63 0.00 0.00 3.16
730 755 4.734695 GCCATGCTACTTTACAAGAATGCC 60.735 45.833 0.00 0.00 0.00 4.40
760 785 3.641159 ATGCGTGCGACGGTGATGA 62.641 57.895 10.02 0.00 42.82 2.92
763 788 1.443702 CGTGCGACGGTGATGAGAA 60.444 57.895 0.00 0.00 38.08 2.87
767 792 1.674611 GCGACGGTGATGAGAACGTG 61.675 60.000 0.00 0.00 39.95 4.49
769 794 0.666274 GACGGTGATGAGAACGTGCA 60.666 55.000 0.00 0.00 39.95 4.57
833 876 4.254492 GTGAGCGGAAGGATAGAAAACTT 58.746 43.478 0.00 0.00 0.00 2.66
834 877 4.330347 GTGAGCGGAAGGATAGAAAACTTC 59.670 45.833 0.00 0.00 39.80 3.01
875 920 1.668751 TCCTTTGCGTTGACACAGTTC 59.331 47.619 0.00 0.00 0.00 3.01
930 991 2.413351 GATGCTACGCCGAGCTCA 59.587 61.111 15.40 0.00 43.27 4.26
935 996 2.675423 TACGCCGAGCTCACAGGT 60.675 61.111 15.40 8.13 0.00 4.00
972 1034 4.335647 CACCTTCCCGCCACAGCT 62.336 66.667 0.00 0.00 36.60 4.24
980 1042 2.571757 CGCCACAGCTAACCTCGA 59.428 61.111 0.00 0.00 36.60 4.04
1006 1068 3.074281 CCTACCCGGGCTTTCACA 58.926 61.111 24.08 0.00 0.00 3.58
1007 1069 1.607612 CCTACCCGGGCTTTCACAT 59.392 57.895 24.08 0.00 0.00 3.21
1008 1070 0.834612 CCTACCCGGGCTTTCACATA 59.165 55.000 24.08 0.93 0.00 2.29
1009 1071 1.202651 CCTACCCGGGCTTTCACATAG 60.203 57.143 24.08 12.06 0.00 2.23
1011 1073 1.077787 CCCGGGCTTTCACATAGCA 60.078 57.895 8.08 0.00 40.42 3.49
1351 1437 4.166011 GCGACGCCATGGTTCTGC 62.166 66.667 14.67 13.36 0.00 4.26
1454 1540 4.424711 GGACCTTGGGATGGCGCA 62.425 66.667 10.83 0.00 34.89 6.09
1494 1587 2.697761 GCGCCTCGACACTGACCTA 61.698 63.158 0.00 0.00 0.00 3.08
1525 1618 3.592898 ATGCTCTCGTTGACATGTACA 57.407 42.857 0.00 0.00 0.00 2.90
1743 1855 0.371645 CTCGCGCAGATGGTCTTTTC 59.628 55.000 8.75 0.00 0.00 2.29
1800 1912 1.390123 CTTGGTTATGACGACACTGCG 59.610 52.381 0.00 0.00 37.29 5.18
1854 3689 9.247861 ACATTTTATTCAGAGCTTGGATTTACT 57.752 29.630 0.00 0.00 0.00 2.24
1864 3701 3.535561 CTTGGATTTACTGAGGACGCAT 58.464 45.455 0.00 0.00 0.00 4.73
1935 3775 4.508047 GCTATGATCAAGGGATTGGTGGAT 60.508 45.833 0.00 0.00 32.67 3.41
2037 3877 3.485394 TGTAATTTCTGGCTGTGCTGAA 58.515 40.909 0.00 0.00 0.00 3.02
2063 3903 3.591023 GACTACTCTGTGAAGGGAAAGC 58.409 50.000 0.00 0.00 0.00 3.51
2103 3948 3.010472 TCAGAAATGGCCTTCTCCATGAA 59.990 43.478 3.32 0.00 45.64 2.57
2104 3949 3.958798 CAGAAATGGCCTTCTCCATGAAT 59.041 43.478 3.32 0.00 45.64 2.57
2105 3950 4.037684 CAGAAATGGCCTTCTCCATGAATC 59.962 45.833 3.32 0.00 45.64 2.52
2106 3951 3.967467 AATGGCCTTCTCCATGAATCT 57.033 42.857 3.32 0.00 45.64 2.40
2118 3963 5.365025 TCTCCATGAATCTTCTTCTGTAGGG 59.635 44.000 0.00 0.00 0.00 3.53
2133 3978 2.976882 TGTAGGGAACAGCTTACTTGGT 59.023 45.455 0.00 0.00 33.01 3.67
2136 3981 3.910989 AGGGAACAGCTTACTTGGTTTT 58.089 40.909 0.00 0.00 0.00 2.43
2155 4000 9.868277 TTGGTTTTTATATGAAATGTGATGACC 57.132 29.630 0.00 0.00 0.00 4.02
2190 4035 2.553904 CCTTCTGTTCAGGACAATGCCT 60.554 50.000 0.00 0.00 37.93 4.75
2240 4085 4.689612 TGCTTTCTGGTTACTCAAGAGT 57.310 40.909 7.96 7.96 45.02 3.24
2261 4112 1.006043 TGTCTCACTGGGAGTAGAGGG 59.994 57.143 6.84 0.00 44.40 4.30
2454 4385 3.816523 TGATGCACATGTACATATGCTGG 59.183 43.478 32.59 12.81 41.52 4.85
2949 4885 3.004862 CAGTATCATCTGTGCTTGCACA 58.995 45.455 24.24 24.24 0.00 4.57
3049 4993 4.322009 CAGCATCGCTAGTTGATATGTACG 59.678 45.833 0.00 0.00 36.40 3.67
3163 6714 1.832998 GATTTCATGGGCATGGGTTGT 59.167 47.619 0.00 0.00 39.24 3.32
3343 6894 2.287769 CCGAACACCATGTATGCATCA 58.712 47.619 0.19 1.39 31.99 3.07
3359 6910 3.208594 GCATCATAGACATGCTTGGACA 58.791 45.455 4.44 0.00 42.95 4.02
3668 7570 0.190815 AGGGTGGCAAAGGAACCATT 59.809 50.000 0.00 0.00 38.46 3.16
3761 7686 1.372251 CAGACTCGCTCAAGCACGT 60.372 57.895 2.50 0.00 42.21 4.49
3790 7715 7.579723 CAGGTATCTGACTAGTTGGCTTAACTT 60.580 40.741 0.00 0.00 43.96 2.66
3815 7742 5.946972 TCCAGTTACACACTTTTCCTTGAAA 59.053 36.000 0.00 0.00 30.92 2.69
3817 7744 7.123547 TCCAGTTACACACTTTTCCTTGAAAAT 59.876 33.333 2.76 0.00 40.14 1.82
3818 7745 7.435192 CCAGTTACACACTTTTCCTTGAAAATC 59.565 37.037 2.76 0.00 40.14 2.17
4103 9525 7.543947 TGAGCTCAAGTGTTTATATGTCATG 57.456 36.000 15.67 0.00 0.00 3.07
4178 9603 8.736244 AGTGTTACGGCACTTTATTATGAAATT 58.264 29.630 4.14 0.00 46.45 1.82
4197 9622 8.498054 TGAAATTCATCTAGTCATTGAAGTCC 57.502 34.615 0.00 0.00 33.26 3.85
4198 9623 8.324306 TGAAATTCATCTAGTCATTGAAGTCCT 58.676 33.333 0.00 0.00 33.26 3.85
4199 9624 8.729805 AAATTCATCTAGTCATTGAAGTCCTC 57.270 34.615 0.00 0.00 33.26 3.71
4200 9625 5.860941 TCATCTAGTCATTGAAGTCCTCC 57.139 43.478 0.00 0.00 0.00 4.30
4201 9626 4.651503 TCATCTAGTCATTGAAGTCCTCCC 59.348 45.833 0.00 0.00 0.00 4.30
4202 9627 3.375699 TCTAGTCATTGAAGTCCTCCCC 58.624 50.000 0.00 0.00 0.00 4.81
4203 9628 2.044793 AGTCATTGAAGTCCTCCCCA 57.955 50.000 0.00 0.00 0.00 4.96
4204 9629 1.630878 AGTCATTGAAGTCCTCCCCAC 59.369 52.381 0.00 0.00 0.00 4.61
4205 9630 1.630878 GTCATTGAAGTCCTCCCCACT 59.369 52.381 0.00 0.00 0.00 4.00
4206 9631 2.040412 GTCATTGAAGTCCTCCCCACTT 59.960 50.000 0.00 0.00 36.77 3.16
4207 9632 2.040278 TCATTGAAGTCCTCCCCACTTG 59.960 50.000 0.00 0.00 34.10 3.16
4208 9633 1.518367 TTGAAGTCCTCCCCACTTGT 58.482 50.000 0.00 0.00 34.10 3.16
4209 9634 0.764890 TGAAGTCCTCCCCACTTGTG 59.235 55.000 0.00 0.00 34.10 3.33
4210 9635 0.606673 GAAGTCCTCCCCACTTGTGC 60.607 60.000 0.00 0.00 34.10 4.57
4211 9636 2.034221 GTCCTCCCCACTTGTGCC 59.966 66.667 0.00 0.00 0.00 5.01
4212 9637 2.449518 TCCTCCCCACTTGTGCCA 60.450 61.111 0.00 0.00 0.00 4.92
4213 9638 2.081787 TCCTCCCCACTTGTGCCAA 61.082 57.895 0.00 0.00 0.00 4.52
4214 9639 1.604593 CCTCCCCACTTGTGCCAAG 60.605 63.158 11.87 11.87 0.00 3.61
4215 9640 1.455849 CTCCCCACTTGTGCCAAGA 59.544 57.895 18.22 0.00 0.00 3.02
4216 9641 0.607489 CTCCCCACTTGTGCCAAGAG 60.607 60.000 18.22 11.85 0.00 2.85
4217 9642 1.604593 CCCCACTTGTGCCAAGAGG 60.605 63.158 18.22 18.17 38.23 3.69
4218 9643 1.151450 CCCACTTGTGCCAAGAGGT 59.849 57.895 21.11 2.99 37.19 3.85
4219 9644 0.890996 CCCACTTGTGCCAAGAGGTC 60.891 60.000 21.11 0.00 37.19 3.85
4220 9645 0.890996 CCACTTGTGCCAAGAGGTCC 60.891 60.000 18.22 0.00 37.19 4.46
4221 9646 0.109342 CACTTGTGCCAAGAGGTCCT 59.891 55.000 18.22 0.00 37.19 3.85
4222 9647 0.109342 ACTTGTGCCAAGAGGTCCTG 59.891 55.000 18.22 0.00 37.19 3.86
4223 9648 0.607489 CTTGTGCCAAGAGGTCCTGG 60.607 60.000 0.00 0.00 37.19 4.45
4224 9649 2.067932 TTGTGCCAAGAGGTCCTGGG 62.068 60.000 0.00 0.00 39.14 4.45
4225 9650 2.121963 TGCCAAGAGGTCCTGGGT 60.122 61.111 0.00 0.00 38.32 4.51
4226 9651 1.774217 TGCCAAGAGGTCCTGGGTT 60.774 57.895 0.00 0.00 38.32 4.11
4227 9652 1.002011 GCCAAGAGGTCCTGGGTTC 60.002 63.158 0.00 0.00 38.32 3.62
4228 9653 1.296715 CCAAGAGGTCCTGGGTTCG 59.703 63.158 0.00 0.00 30.82 3.95
4229 9654 1.192146 CCAAGAGGTCCTGGGTTCGA 61.192 60.000 0.00 0.00 30.82 3.71
4230 9655 0.685097 CAAGAGGTCCTGGGTTCGAA 59.315 55.000 0.00 0.00 0.00 3.71
4231 9656 0.685660 AAGAGGTCCTGGGTTCGAAC 59.314 55.000 20.14 20.14 0.00 3.95
4242 9667 3.129792 GTTCGAACCAGCCTCTCTG 57.870 57.895 17.68 0.00 42.49 3.35
4243 9668 1.016653 GTTCGAACCAGCCTCTCTGC 61.017 60.000 17.68 0.00 41.50 4.26
4244 9669 1.471829 TTCGAACCAGCCTCTCTGCA 61.472 55.000 0.00 0.00 41.50 4.41
4245 9670 1.220206 CGAACCAGCCTCTCTGCAT 59.780 57.895 0.00 0.00 41.50 3.96
4246 9671 0.392193 CGAACCAGCCTCTCTGCATT 60.392 55.000 0.00 0.00 41.50 3.56
4247 9672 1.093159 GAACCAGCCTCTCTGCATTG 58.907 55.000 0.00 0.00 41.50 2.82
4248 9673 0.964358 AACCAGCCTCTCTGCATTGC 60.964 55.000 0.46 0.46 41.50 3.56
4249 9674 1.378119 CCAGCCTCTCTGCATTGCA 60.378 57.895 11.50 11.50 41.50 4.08
4250 9675 1.654954 CCAGCCTCTCTGCATTGCAC 61.655 60.000 7.38 0.00 41.50 4.57
4251 9676 0.677098 CAGCCTCTCTGCATTGCACT 60.677 55.000 7.38 0.00 35.78 4.40
4252 9677 0.037877 AGCCTCTCTGCATTGCACTT 59.962 50.000 7.38 0.00 33.79 3.16
4253 9678 0.886563 GCCTCTCTGCATTGCACTTT 59.113 50.000 7.38 0.00 33.79 2.66
4254 9679 1.402456 GCCTCTCTGCATTGCACTTTG 60.402 52.381 7.38 0.00 33.79 2.77
4255 9680 1.402456 CCTCTCTGCATTGCACTTTGC 60.402 52.381 7.38 8.20 45.29 3.68
4265 9690 3.339547 GCACTTTGCAGGGGTAAGA 57.660 52.632 2.16 0.00 44.26 2.10
4266 9691 0.881796 GCACTTTGCAGGGGTAAGAC 59.118 55.000 2.16 0.00 44.26 3.01
4267 9692 1.545651 GCACTTTGCAGGGGTAAGACT 60.546 52.381 2.16 0.00 44.26 3.24
4268 9693 2.290071 GCACTTTGCAGGGGTAAGACTA 60.290 50.000 2.16 0.00 44.26 2.59
4269 9694 3.600388 CACTTTGCAGGGGTAAGACTAG 58.400 50.000 2.16 0.00 0.00 2.57
4270 9695 2.572104 ACTTTGCAGGGGTAAGACTAGG 59.428 50.000 2.16 0.00 0.00 3.02
4271 9696 2.337359 TTGCAGGGGTAAGACTAGGT 57.663 50.000 0.00 0.00 0.00 3.08
4272 9697 2.337359 TGCAGGGGTAAGACTAGGTT 57.663 50.000 0.00 0.00 0.00 3.50
4273 9698 2.185387 TGCAGGGGTAAGACTAGGTTC 58.815 52.381 0.00 0.00 0.00 3.62
4274 9699 1.485480 GCAGGGGTAAGACTAGGTTCC 59.515 57.143 0.00 0.00 0.00 3.62
4275 9700 2.893153 GCAGGGGTAAGACTAGGTTCCT 60.893 54.545 0.00 0.00 0.00 3.36
4276 9701 3.629282 GCAGGGGTAAGACTAGGTTCCTA 60.629 52.174 0.00 0.00 0.00 2.94
4277 9702 4.817286 CAGGGGTAAGACTAGGTTCCTAT 58.183 47.826 0.00 0.00 0.00 2.57
4278 9703 5.694949 GCAGGGGTAAGACTAGGTTCCTATA 60.695 48.000 0.00 0.00 0.00 1.31
4279 9704 6.379579 CAGGGGTAAGACTAGGTTCCTATAA 58.620 44.000 0.00 0.00 0.00 0.98
4280 9705 7.017531 CAGGGGTAAGACTAGGTTCCTATAAT 58.982 42.308 0.00 0.00 0.00 1.28
4281 9706 7.178805 CAGGGGTAAGACTAGGTTCCTATAATC 59.821 44.444 0.00 0.00 0.00 1.75
4282 9707 6.440010 GGGGTAAGACTAGGTTCCTATAATCC 59.560 46.154 0.00 0.00 0.00 3.01
4283 9708 6.440010 GGGTAAGACTAGGTTCCTATAATCCC 59.560 46.154 0.00 4.36 0.00 3.85
4284 9709 7.247500 GGTAAGACTAGGTTCCTATAATCCCT 58.753 42.308 0.00 0.00 0.00 4.20
4285 9710 7.396907 GGTAAGACTAGGTTCCTATAATCCCTC 59.603 44.444 0.00 0.00 0.00 4.30
4286 9711 5.906254 AGACTAGGTTCCTATAATCCCTCC 58.094 45.833 0.00 0.00 0.00 4.30
4287 9712 5.024785 GACTAGGTTCCTATAATCCCTCCC 58.975 50.000 0.00 0.00 0.00 4.30
4288 9713 3.293215 AGGTTCCTATAATCCCTCCCC 57.707 52.381 0.00 0.00 0.00 4.81
4289 9714 2.531463 AGGTTCCTATAATCCCTCCCCA 59.469 50.000 0.00 0.00 0.00 4.96
4290 9715 2.913617 GGTTCCTATAATCCCTCCCCAG 59.086 54.545 0.00 0.00 0.00 4.45
4291 9716 3.441054 GGTTCCTATAATCCCTCCCCAGA 60.441 52.174 0.00 0.00 0.00 3.86
4292 9717 3.562108 TCCTATAATCCCTCCCCAGAC 57.438 52.381 0.00 0.00 0.00 3.51
4293 9718 2.113777 TCCTATAATCCCTCCCCAGACC 59.886 54.545 0.00 0.00 0.00 3.85
4294 9719 2.552367 CTATAATCCCTCCCCAGACCC 58.448 57.143 0.00 0.00 0.00 4.46
4295 9720 0.103876 ATAATCCCTCCCCAGACCCC 60.104 60.000 0.00 0.00 0.00 4.95
4296 9721 1.542093 TAATCCCTCCCCAGACCCCA 61.542 60.000 0.00 0.00 0.00 4.96
4297 9722 3.660092 ATCCCTCCCCAGACCCCAC 62.660 68.421 0.00 0.00 0.00 4.61
4299 9724 4.354943 CCTCCCCAGACCCCACCT 62.355 72.222 0.00 0.00 0.00 4.00
4300 9725 2.204151 CTCCCCAGACCCCACCTT 60.204 66.667 0.00 0.00 0.00 3.50
4301 9726 2.531685 TCCCCAGACCCCACCTTG 60.532 66.667 0.00 0.00 0.00 3.61
4302 9727 2.858974 CCCCAGACCCCACCTTGT 60.859 66.667 0.00 0.00 0.00 3.16
4303 9728 2.436109 CCCAGACCCCACCTTGTG 59.564 66.667 0.00 0.00 0.00 3.33
4304 9729 2.460853 CCCAGACCCCACCTTGTGT 61.461 63.158 0.00 0.00 0.00 3.72
4305 9730 1.228245 CCAGACCCCACCTTGTGTG 60.228 63.158 0.00 0.00 45.01 3.82
4312 9737 4.907457 CACCTTGTGTGGGAGCTT 57.093 55.556 0.00 0.00 41.52 3.74
4313 9738 2.633860 CACCTTGTGTGGGAGCTTC 58.366 57.895 0.00 0.00 41.52 3.86
4314 9739 0.109342 CACCTTGTGTGGGAGCTTCT 59.891 55.000 0.00 0.00 41.52 2.85
4315 9740 1.347707 CACCTTGTGTGGGAGCTTCTA 59.652 52.381 0.00 0.00 41.52 2.10
4316 9741 2.026822 CACCTTGTGTGGGAGCTTCTAT 60.027 50.000 0.00 0.00 41.52 1.98
4317 9742 2.026822 ACCTTGTGTGGGAGCTTCTATG 60.027 50.000 0.00 0.00 0.00 2.23
4318 9743 2.012673 CTTGTGTGGGAGCTTCTATGC 58.987 52.381 0.00 0.00 0.00 3.14
4319 9744 0.983467 TGTGTGGGAGCTTCTATGCA 59.017 50.000 0.00 0.00 34.99 3.96
4320 9745 1.339055 TGTGTGGGAGCTTCTATGCAC 60.339 52.381 0.00 0.00 34.99 4.57
4321 9746 1.065854 GTGTGGGAGCTTCTATGCACT 60.066 52.381 0.00 0.00 34.99 4.40
4322 9747 1.065926 TGTGGGAGCTTCTATGCACTG 60.066 52.381 0.00 0.00 34.99 3.66
4323 9748 0.543277 TGGGAGCTTCTATGCACTGG 59.457 55.000 0.00 0.00 34.99 4.00
4324 9749 0.179034 GGGAGCTTCTATGCACTGGG 60.179 60.000 0.00 0.00 34.99 4.45
4325 9750 0.543749 GGAGCTTCTATGCACTGGGT 59.456 55.000 0.00 0.00 34.99 4.51
4326 9751 1.474143 GGAGCTTCTATGCACTGGGTC 60.474 57.143 0.00 0.00 34.99 4.46
4327 9752 1.484240 GAGCTTCTATGCACTGGGTCT 59.516 52.381 0.00 0.00 34.99 3.85
4328 9753 1.209019 AGCTTCTATGCACTGGGTCTG 59.791 52.381 0.00 0.00 34.99 3.51
4329 9754 1.065854 GCTTCTATGCACTGGGTCTGT 60.066 52.381 0.00 0.00 0.00 3.41
4330 9755 2.898705 CTTCTATGCACTGGGTCTGTC 58.101 52.381 0.00 0.00 0.00 3.51
4331 9756 1.195115 TCTATGCACTGGGTCTGTCC 58.805 55.000 0.00 0.00 0.00 4.02
4332 9757 1.198713 CTATGCACTGGGTCTGTCCT 58.801 55.000 0.00 0.00 36.25 3.85
4333 9758 1.556911 CTATGCACTGGGTCTGTCCTT 59.443 52.381 0.00 0.00 36.25 3.36
4334 9759 0.773644 ATGCACTGGGTCTGTCCTTT 59.226 50.000 0.00 0.00 36.25 3.11
4335 9760 1.429930 TGCACTGGGTCTGTCCTTTA 58.570 50.000 0.00 0.00 36.25 1.85
4336 9761 1.985159 TGCACTGGGTCTGTCCTTTAT 59.015 47.619 0.00 0.00 36.25 1.40
4337 9762 2.375174 TGCACTGGGTCTGTCCTTTATT 59.625 45.455 0.00 0.00 36.25 1.40
4378 9803 5.772393 TTCATGTAGGTGGTCCTGTTAAT 57.228 39.130 0.00 0.00 44.81 1.40
4439 9865 2.627699 TGACATCGCTATCCAGTATGCA 59.372 45.455 0.00 0.00 31.97 3.96
4441 9867 3.854666 ACATCGCTATCCAGTATGCATC 58.145 45.455 0.19 0.00 31.97 3.91
4445 9871 2.095008 CGCTATCCAGTATGCATCGAGT 60.095 50.000 0.19 0.00 31.97 4.18
4472 9898 4.340666 TCTTGTGATAAGCCAACTTTGCAA 59.659 37.500 0.00 0.00 37.33 4.08
4510 9936 4.261489 CCATACAGCTGCAATTCTGAATCC 60.261 45.833 15.27 0.00 34.57 3.01
4517 9943 2.496871 TGCAATTCTGAATCCGGCATTT 59.503 40.909 15.74 0.00 0.00 2.32
4531 9957 0.310543 GCATTTCGGCACTTGACACA 59.689 50.000 0.00 0.00 0.00 3.72
4555 10008 1.951209 TCCAGGTTGATGCTGGTCTA 58.049 50.000 0.00 0.00 39.18 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 9.740710 AGTACTGAATGGAAAATAGCTTTTACT 57.259 29.630 0.00 0.00 36.34 2.24
15 16 9.515226 TGTAGTACTGAATGGAAAATAGCTTTT 57.485 29.630 5.39 0.00 37.28 2.27
16 17 9.686683 ATGTAGTACTGAATGGAAAATAGCTTT 57.313 29.630 5.39 0.00 0.00 3.51
37 38 5.858381 ACACCATTATGCACCTCTATGTAG 58.142 41.667 0.00 0.00 0.00 2.74
41 42 5.116084 ACAACACCATTATGCACCTCTAT 57.884 39.130 0.00 0.00 0.00 1.98
42 43 4.568072 ACAACACCATTATGCACCTCTA 57.432 40.909 0.00 0.00 0.00 2.43
43 44 3.439857 ACAACACCATTATGCACCTCT 57.560 42.857 0.00 0.00 0.00 3.69
45 46 4.082245 GCTTAACAACACCATTATGCACCT 60.082 41.667 0.00 0.00 33.73 4.00
86 90 5.643348 CCATAACTTCTGTAACATGTGCAGA 59.357 40.000 22.10 22.10 37.47 4.26
87 91 5.412594 ACCATAACTTCTGTAACATGTGCAG 59.587 40.000 19.09 19.09 0.00 4.41
88 92 5.312895 ACCATAACTTCTGTAACATGTGCA 58.687 37.500 0.00 0.70 0.00 4.57
89 93 5.880054 ACCATAACTTCTGTAACATGTGC 57.120 39.130 0.00 0.00 0.00 4.57
90 94 7.591057 CACAAACCATAACTTCTGTAACATGTG 59.409 37.037 0.00 0.00 0.00 3.21
91 95 7.648142 CACAAACCATAACTTCTGTAACATGT 58.352 34.615 0.00 0.00 0.00 3.21
92 96 6.582295 GCACAAACCATAACTTCTGTAACATG 59.418 38.462 0.00 0.00 0.00 3.21
93 97 6.294508 GGCACAAACCATAACTTCTGTAACAT 60.295 38.462 0.00 0.00 0.00 2.71
99 103 3.820467 TCAGGCACAAACCATAACTTCTG 59.180 43.478 0.00 0.00 0.00 3.02
101 105 4.846779 TTCAGGCACAAACCATAACTTC 57.153 40.909 0.00 0.00 0.00 3.01
118 122 1.333308 TCACACACGGTTTGCATTCAG 59.667 47.619 0.00 0.00 0.00 3.02
141 145 3.182182 CGATCATGAGCGACAAGAAAGA 58.818 45.455 28.37 0.00 43.75 2.52
150 154 1.308998 TCTGTAGCGATCATGAGCGA 58.691 50.000 35.26 14.20 43.75 4.93
155 159 2.931969 TGCTTGTTCTGTAGCGATCATG 59.068 45.455 0.00 0.00 40.26 3.07
158 162 2.286067 GCATGCTTGTTCTGTAGCGATC 60.286 50.000 11.37 0.00 40.26 3.69
162 166 1.464687 CGTGCATGCTTGTTCTGTAGC 60.465 52.381 20.33 0.00 37.89 3.58
174 178 3.994729 TGCAGTTTATCGTGCATGC 57.005 47.368 11.82 11.82 44.70 4.06
190 194 4.494690 CGATTTATCCATGCGACCATATGC 60.495 45.833 0.00 0.00 0.00 3.14
198 202 3.172229 TCACACGATTTATCCATGCGA 57.828 42.857 0.00 0.00 0.00 5.10
199 203 3.942539 TTCACACGATTTATCCATGCG 57.057 42.857 0.00 0.00 0.00 4.73
227 231 3.865164 TCTCGTATCATGTGTGATTGTGC 59.135 43.478 0.00 0.00 42.37 4.57
235 239 1.781786 AGCCCTCTCGTATCATGTGT 58.218 50.000 0.00 0.00 0.00 3.72
241 245 4.924462 GCAAATAGTTAGCCCTCTCGTATC 59.076 45.833 0.00 0.00 0.00 2.24
245 249 2.128035 CGCAAATAGTTAGCCCTCTCG 58.872 52.381 0.00 0.00 0.00 4.04
246 250 3.454371 TCGCAAATAGTTAGCCCTCTC 57.546 47.619 0.00 0.00 0.00 3.20
248 252 4.448060 GTGTATCGCAAATAGTTAGCCCTC 59.552 45.833 0.00 0.00 0.00 4.30
261 265 4.520874 TCCCAATTGAAAAGTGTATCGCAA 59.479 37.500 7.12 0.00 40.94 4.85
280 284 2.316108 TCAGCGCTATGTAATCTCCCA 58.684 47.619 10.99 0.00 0.00 4.37
281 285 3.386768 TTCAGCGCTATGTAATCTCCC 57.613 47.619 10.99 0.00 0.00 4.30
282 286 4.372656 AGTTTCAGCGCTATGTAATCTCC 58.627 43.478 10.99 0.00 0.00 3.71
286 290 6.150396 AGAGTAGTTTCAGCGCTATGTAAT 57.850 37.500 10.99 0.00 0.00 1.89
287 291 5.578005 AGAGTAGTTTCAGCGCTATGTAA 57.422 39.130 10.99 0.00 0.00 2.41
294 299 3.680458 AGCTTTTAGAGTAGTTTCAGCGC 59.320 43.478 0.00 0.00 0.00 5.92
305 310 8.417273 AACTTCTCTTCTCTAGCTTTTAGAGT 57.583 34.615 10.99 0.00 41.26 3.24
345 350 9.706529 ATGAAGGCTTTAATCCTTTCTCTAAAT 57.293 29.630 0.00 0.00 43.54 1.40
375 380 5.200368 TGTCTGGAAAGGCTTCATTTTTC 57.800 39.130 0.00 0.00 32.75 2.29
392 399 6.459710 GGGGTTAGTCTTTTTCAAGTTGTCTG 60.460 42.308 2.11 0.00 0.00 3.51
475 489 2.172483 ATTCGTTCGCTGGGAGCAGT 62.172 55.000 9.08 0.00 42.58 4.40
517 532 0.634465 TTTGCCTTATCCCTTCCCCC 59.366 55.000 0.00 0.00 0.00 5.40
528 543 0.540830 ACCATTGCGGGTTTGCCTTA 60.541 50.000 0.00 0.00 38.19 2.69
661 686 8.749499 GCATTTTTCATAAAGTAGCATGACATC 58.251 33.333 0.00 0.00 31.04 3.06
671 696 9.995003 AATCAACTTGGCATTTTTCATAAAGTA 57.005 25.926 0.00 0.00 0.00 2.24
724 749 1.027357 ATCTTGACGCCATGGCATTC 58.973 50.000 34.93 28.39 42.06 2.67
730 755 1.061411 CACGCATCTTGACGCCATG 59.939 57.895 0.00 0.00 0.00 3.66
760 785 1.525995 CAACCCCAGTGCACGTTCT 60.526 57.895 12.01 0.00 0.00 3.01
833 876 5.280215 GGAAGGAGAGAAAGAATGAGTTGGA 60.280 44.000 0.00 0.00 0.00 3.53
834 877 4.940654 GGAAGGAGAGAAAGAATGAGTTGG 59.059 45.833 0.00 0.00 0.00 3.77
903 964 2.585247 GTAGCATCCACCGGCGTC 60.585 66.667 6.01 0.00 34.54 5.19
904 965 4.508128 CGTAGCATCCACCGGCGT 62.508 66.667 6.01 0.00 34.54 5.68
935 996 0.108520 AGATTTACGGCGGCGAGAAA 60.109 50.000 38.93 32.01 0.00 2.52
972 1034 0.974010 AGGGAATGCGGTCGAGGTTA 60.974 55.000 0.00 0.00 0.00 2.85
980 1042 3.476419 CCGGGTAGGGAATGCGGT 61.476 66.667 0.00 0.00 35.97 5.68
1000 1062 7.012327 GTGGAATAGTGCTATTGCTATGTGAAA 59.988 37.037 19.21 0.45 42.19 2.69
1006 1068 5.567037 TGGTGGAATAGTGCTATTGCTAT 57.433 39.130 19.21 0.00 42.19 2.97
1007 1069 5.308014 CATGGTGGAATAGTGCTATTGCTA 58.692 41.667 19.21 9.87 42.19 3.49
1008 1070 3.931907 TGGTGGAATAGTGCTATTGCT 57.068 42.857 19.21 0.00 42.19 3.91
1009 1071 3.304928 GCATGGTGGAATAGTGCTATTGC 60.305 47.826 14.03 14.03 42.08 3.56
1011 1073 3.141398 CGCATGGTGGAATAGTGCTATT 58.859 45.455 4.30 4.30 38.38 1.73
1422 1508 2.755876 TCCATCTCTCTGGCGCGT 60.756 61.111 8.43 0.00 36.16 6.01
1476 1562 2.209064 TTAGGTCAGTGTCGAGGCGC 62.209 60.000 0.00 0.00 0.00 6.53
1494 1587 3.409026 ACGAGAGCATTCTGAAGGTTT 57.591 42.857 3.85 0.00 32.53 3.27
1525 1618 1.145377 AGAAACGCCCACACTTCGT 59.855 52.632 0.00 0.00 38.15 3.85
1549 1654 0.535102 CTCCAAAACACAGCCTCCGT 60.535 55.000 0.00 0.00 0.00 4.69
1676 1788 0.615331 GACCTCATCTGCCTGAACCA 59.385 55.000 0.00 0.00 0.00 3.67
1758 1870 0.177836 TGACCACATAGCCATGGACG 59.822 55.000 18.40 1.93 39.46 4.79
1800 1912 1.298859 AATTCGCCACCGAGCAAGAC 61.299 55.000 0.00 0.00 45.35 3.01
1854 3689 0.904649 AGACATTCCATGCGTCCTCA 59.095 50.000 0.00 0.00 0.00 3.86
1864 3701 1.927487 ATGCCTGCAAAGACATTCCA 58.073 45.000 0.00 0.00 0.00 3.53
1935 3775 2.747446 GGCTTCGCTGACCTTTTCATTA 59.253 45.455 0.00 0.00 32.17 1.90
2037 3877 2.900546 CCCTTCACAGAGTAGTCCTTGT 59.099 50.000 0.00 0.00 0.00 3.16
2063 3903 8.727910 CATTTCTGACTATGTATCCATGGATTG 58.272 37.037 31.70 14.68 36.17 2.67
2088 3932 2.848694 AGAAGATTCATGGAGAAGGCCA 59.151 45.455 5.01 0.00 40.15 5.36
2149 3994 4.781934 AGGTTAGCAGTAAATGGGTCATC 58.218 43.478 0.00 0.00 0.00 2.92
2155 4000 5.705441 TGAACAGAAGGTTAGCAGTAAATGG 59.295 40.000 0.00 0.00 40.63 3.16
2240 4085 2.557676 CCCTCTACTCCCAGTGAGACAA 60.558 54.545 0.00 0.00 44.42 3.18
2261 4112 4.671250 GCAGCTCTTTGAACATAGCTTGAC 60.671 45.833 0.00 0.00 42.52 3.18
2949 4885 6.875469 TCCATATCTAAGATCCCCTAGTTGT 58.125 40.000 0.00 0.00 0.00 3.32
3022 4966 5.817296 ACATATCAACTAGCGATGCTGAAAA 59.183 36.000 0.70 0.00 40.10 2.29
3049 4993 2.667724 CGTCGAGTCTTCCACACTTACC 60.668 54.545 0.00 0.00 0.00 2.85
3163 6714 7.984422 TCTTGCAGAAAAGTTCTATTGATCA 57.016 32.000 0.00 0.00 38.11 2.92
3343 6894 3.211865 CAGCATGTCCAAGCATGTCTAT 58.788 45.455 7.71 0.00 45.75 1.98
3359 6910 4.790962 CCTGCAGCCGACCAGCAT 62.791 66.667 8.66 0.00 37.68 3.79
3668 7570 3.701205 TTCTTGGACAGCATAGCTTCA 57.299 42.857 0.00 0.00 36.40 3.02
3738 7663 1.714414 CTTGAGCGAGTCTGCATGC 59.286 57.895 11.82 11.82 37.31 4.06
3761 7686 3.369471 GCCAACTAGTCAGATACCTGCAA 60.369 47.826 0.00 0.00 40.20 4.08
3790 7715 5.502079 TCAAGGAAAAGTGTGTAACTGGAA 58.498 37.500 0.00 0.00 39.81 3.53
3792 7717 5.828299 TTCAAGGAAAAGTGTGTAACTGG 57.172 39.130 0.00 0.00 39.81 4.00
3793 7718 7.973388 TGATTTTCAAGGAAAAGTGTGTAACTG 59.027 33.333 9.64 0.00 43.33 3.16
3794 7719 8.062065 TGATTTTCAAGGAAAAGTGTGTAACT 57.938 30.769 9.64 0.00 43.33 2.24
3817 7744 9.513906 TGTAAATAGGTTCAATCACTTCATTGA 57.486 29.630 0.00 0.00 40.36 2.57
4178 9603 4.651503 GGGAGGACTTCAATGACTAGATGA 59.348 45.833 0.00 0.00 0.00 2.92
4191 9616 0.606673 GCACAAGTGGGGAGGACTTC 60.607 60.000 2.00 0.00 31.05 3.01
4192 9617 1.456287 GCACAAGTGGGGAGGACTT 59.544 57.895 2.00 0.00 33.82 3.01
4193 9618 2.529744 GGCACAAGTGGGGAGGACT 61.530 63.158 2.00 0.00 0.00 3.85
4194 9619 2.034221 GGCACAAGTGGGGAGGAC 59.966 66.667 2.00 0.00 0.00 3.85
4195 9620 2.449518 TGGCACAAGTGGGGAGGA 60.450 61.111 2.00 0.00 31.92 3.71
4206 9631 2.528818 CCCAGGACCTCTTGGCACA 61.529 63.158 0.00 0.00 41.31 4.57
4207 9632 2.069165 AACCCAGGACCTCTTGGCAC 62.069 60.000 0.00 0.00 41.31 5.01
4208 9633 1.774217 AACCCAGGACCTCTTGGCA 60.774 57.895 0.00 0.00 41.31 4.92
4209 9634 1.002011 GAACCCAGGACCTCTTGGC 60.002 63.158 0.00 0.00 41.31 4.52
4210 9635 1.192146 TCGAACCCAGGACCTCTTGG 61.192 60.000 0.00 0.00 42.20 3.61
4211 9636 0.685097 TTCGAACCCAGGACCTCTTG 59.315 55.000 0.00 0.00 0.00 3.02
4212 9637 0.685660 GTTCGAACCCAGGACCTCTT 59.314 55.000 17.68 0.00 0.00 2.85
4213 9638 1.192803 GGTTCGAACCCAGGACCTCT 61.193 60.000 33.02 0.00 43.43 3.69
4214 9639 1.295746 GGTTCGAACCCAGGACCTC 59.704 63.158 33.02 7.79 43.43 3.85
4215 9640 3.479979 GGTTCGAACCCAGGACCT 58.520 61.111 33.02 0.00 43.43 3.85
4224 9649 1.016653 GCAGAGAGGCTGGTTCGAAC 61.017 60.000 20.14 20.14 45.03 3.95
4225 9650 1.293498 GCAGAGAGGCTGGTTCGAA 59.707 57.895 0.00 0.00 45.03 3.71
4226 9651 1.260538 ATGCAGAGAGGCTGGTTCGA 61.261 55.000 0.00 0.00 45.03 3.71
4227 9652 0.392193 AATGCAGAGAGGCTGGTTCG 60.392 55.000 0.00 0.00 45.03 3.95
4228 9653 1.093159 CAATGCAGAGAGGCTGGTTC 58.907 55.000 0.00 0.00 45.03 3.62
4229 9654 0.964358 GCAATGCAGAGAGGCTGGTT 60.964 55.000 0.00 0.00 45.03 3.67
4230 9655 1.378250 GCAATGCAGAGAGGCTGGT 60.378 57.895 0.00 0.00 45.03 4.00
4231 9656 1.378119 TGCAATGCAGAGAGGCTGG 60.378 57.895 2.72 0.00 45.03 4.85
4233 9658 0.037877 AAGTGCAATGCAGAGAGGCT 59.962 50.000 8.73 0.00 40.08 4.58
4234 9659 0.886563 AAAGTGCAATGCAGAGAGGC 59.113 50.000 8.73 0.00 40.08 4.70
4235 9660 1.402456 GCAAAGTGCAATGCAGAGAGG 60.402 52.381 8.73 0.00 44.26 3.69
4236 9661 1.978542 GCAAAGTGCAATGCAGAGAG 58.021 50.000 8.73 0.33 44.26 3.20
4247 9672 0.881796 GTCTTACCCCTGCAAAGTGC 59.118 55.000 0.00 0.00 45.29 4.40
4248 9673 2.568623 AGTCTTACCCCTGCAAAGTG 57.431 50.000 0.00 0.00 0.00 3.16
4249 9674 2.572104 CCTAGTCTTACCCCTGCAAAGT 59.428 50.000 0.00 0.00 0.00 2.66
4250 9675 2.572104 ACCTAGTCTTACCCCTGCAAAG 59.428 50.000 0.00 0.00 0.00 2.77
4251 9676 2.627933 ACCTAGTCTTACCCCTGCAAA 58.372 47.619 0.00 0.00 0.00 3.68
4252 9677 2.337359 ACCTAGTCTTACCCCTGCAA 57.663 50.000 0.00 0.00 0.00 4.08
4253 9678 2.185387 GAACCTAGTCTTACCCCTGCA 58.815 52.381 0.00 0.00 0.00 4.41
4254 9679 1.485480 GGAACCTAGTCTTACCCCTGC 59.515 57.143 0.00 0.00 0.00 4.85
4255 9680 3.117552 AGGAACCTAGTCTTACCCCTG 57.882 52.381 0.00 0.00 0.00 4.45
4256 9681 6.618836 TTATAGGAACCTAGTCTTACCCCT 57.381 41.667 6.72 0.00 31.45 4.79
4257 9682 6.440010 GGATTATAGGAACCTAGTCTTACCCC 59.560 46.154 6.72 0.00 31.45 4.95
4258 9683 6.440010 GGGATTATAGGAACCTAGTCTTACCC 59.560 46.154 6.72 9.62 31.45 3.69
4259 9684 7.247500 AGGGATTATAGGAACCTAGTCTTACC 58.753 42.308 6.72 4.95 31.45 2.85
4260 9685 7.396907 GGAGGGATTATAGGAACCTAGTCTTAC 59.603 44.444 6.72 0.00 31.45 2.34
4261 9686 7.477008 GGAGGGATTATAGGAACCTAGTCTTA 58.523 42.308 6.72 0.00 31.45 2.10
4262 9687 6.324544 GGAGGGATTATAGGAACCTAGTCTT 58.675 44.000 6.72 0.00 31.45 3.01
4263 9688 5.222589 GGGAGGGATTATAGGAACCTAGTCT 60.223 48.000 6.72 0.00 31.45 3.24
4264 9689 5.024785 GGGAGGGATTATAGGAACCTAGTC 58.975 50.000 6.72 4.93 31.45 2.59
4265 9690 4.202912 GGGGAGGGATTATAGGAACCTAGT 60.203 50.000 6.72 0.00 31.45 2.57
4266 9691 4.202901 TGGGGAGGGATTATAGGAACCTAG 60.203 50.000 6.72 0.00 31.45 3.02
4267 9692 3.741438 TGGGGAGGGATTATAGGAACCTA 59.259 47.826 2.93 2.93 0.00 3.08
4268 9693 2.531463 TGGGGAGGGATTATAGGAACCT 59.469 50.000 0.00 0.00 0.00 3.50
4269 9694 2.913617 CTGGGGAGGGATTATAGGAACC 59.086 54.545 0.00 0.00 0.00 3.62
4270 9695 3.583526 GTCTGGGGAGGGATTATAGGAAC 59.416 52.174 0.00 0.00 0.00 3.62
4271 9696 3.441054 GGTCTGGGGAGGGATTATAGGAA 60.441 52.174 0.00 0.00 0.00 3.36
4272 9697 2.113777 GGTCTGGGGAGGGATTATAGGA 59.886 54.545 0.00 0.00 0.00 2.94
4273 9698 2.552367 GGTCTGGGGAGGGATTATAGG 58.448 57.143 0.00 0.00 0.00 2.57
4274 9699 2.552367 GGGTCTGGGGAGGGATTATAG 58.448 57.143 0.00 0.00 0.00 1.31
4275 9700 1.153565 GGGGTCTGGGGAGGGATTATA 59.846 57.143 0.00 0.00 0.00 0.98
4276 9701 0.103876 GGGGTCTGGGGAGGGATTAT 60.104 60.000 0.00 0.00 0.00 1.28
4277 9702 1.320512 GGGGTCTGGGGAGGGATTA 59.679 63.158 0.00 0.00 0.00 1.75
4278 9703 2.044620 GGGGTCTGGGGAGGGATT 59.955 66.667 0.00 0.00 0.00 3.01
4279 9704 3.300962 TGGGGTCTGGGGAGGGAT 61.301 66.667 0.00 0.00 0.00 3.85
4280 9705 4.348495 GTGGGGTCTGGGGAGGGA 62.348 72.222 0.00 0.00 0.00 4.20
4282 9707 3.891432 AAGGTGGGGTCTGGGGAGG 62.891 68.421 0.00 0.00 0.00 4.30
4283 9708 2.204151 AAGGTGGGGTCTGGGGAG 60.204 66.667 0.00 0.00 0.00 4.30
4284 9709 2.531685 CAAGGTGGGGTCTGGGGA 60.532 66.667 0.00 0.00 0.00 4.81
4285 9710 2.858974 ACAAGGTGGGGTCTGGGG 60.859 66.667 0.00 0.00 0.00 4.96
4286 9711 2.436109 CACAAGGTGGGGTCTGGG 59.564 66.667 0.00 0.00 0.00 4.45
4287 9712 1.228245 CACACAAGGTGGGGTCTGG 60.228 63.158 1.07 0.00 44.04 3.86
4288 9713 4.481195 CACACAAGGTGGGGTCTG 57.519 61.111 1.07 0.00 44.04 3.51
4296 9721 1.729586 TAGAAGCTCCCACACAAGGT 58.270 50.000 0.00 0.00 0.00 3.50
4297 9722 2.636830 CATAGAAGCTCCCACACAAGG 58.363 52.381 0.00 0.00 0.00 3.61
4298 9723 2.012673 GCATAGAAGCTCCCACACAAG 58.987 52.381 0.00 0.00 0.00 3.16
4299 9724 1.350684 TGCATAGAAGCTCCCACACAA 59.649 47.619 0.00 0.00 34.99 3.33
4300 9725 0.983467 TGCATAGAAGCTCCCACACA 59.017 50.000 0.00 0.00 34.99 3.72
4301 9726 1.065854 AGTGCATAGAAGCTCCCACAC 60.066 52.381 0.00 0.00 34.99 3.82
4302 9727 1.065926 CAGTGCATAGAAGCTCCCACA 60.066 52.381 0.00 0.00 34.99 4.17
4303 9728 1.661341 CAGTGCATAGAAGCTCCCAC 58.339 55.000 0.00 0.00 34.99 4.61
4304 9729 0.543277 CCAGTGCATAGAAGCTCCCA 59.457 55.000 0.00 0.00 34.99 4.37
4305 9730 0.179034 CCCAGTGCATAGAAGCTCCC 60.179 60.000 0.00 0.00 34.99 4.30
4306 9731 0.543749 ACCCAGTGCATAGAAGCTCC 59.456 55.000 0.00 0.00 34.99 4.70
4307 9732 1.484240 AGACCCAGTGCATAGAAGCTC 59.516 52.381 0.00 0.00 34.99 4.09
4308 9733 1.209019 CAGACCCAGTGCATAGAAGCT 59.791 52.381 0.00 0.00 34.99 3.74
4309 9734 1.065854 ACAGACCCAGTGCATAGAAGC 60.066 52.381 0.00 0.00 0.00 3.86
4310 9735 2.419297 GGACAGACCCAGTGCATAGAAG 60.419 54.545 0.00 0.00 0.00 2.85
4311 9736 1.555075 GGACAGACCCAGTGCATAGAA 59.445 52.381 0.00 0.00 0.00 2.10
4312 9737 1.195115 GGACAGACCCAGTGCATAGA 58.805 55.000 0.00 0.00 0.00 1.98
4313 9738 1.198713 AGGACAGACCCAGTGCATAG 58.801 55.000 0.00 0.00 40.05 2.23
4314 9739 1.656587 AAGGACAGACCCAGTGCATA 58.343 50.000 0.00 0.00 40.05 3.14
4315 9740 0.773644 AAAGGACAGACCCAGTGCAT 59.226 50.000 0.00 0.00 40.05 3.96
4316 9741 1.429930 TAAAGGACAGACCCAGTGCA 58.570 50.000 0.00 0.00 40.05 4.57
4317 9742 2.789409 ATAAAGGACAGACCCAGTGC 57.211 50.000 0.00 0.00 40.05 4.40
4318 9743 4.911390 AGAAATAAAGGACAGACCCAGTG 58.089 43.478 0.00 0.00 40.05 3.66
4319 9744 5.584551 AAGAAATAAAGGACAGACCCAGT 57.415 39.130 0.00 0.00 40.05 4.00
4320 9745 7.447238 TGTTTAAGAAATAAAGGACAGACCCAG 59.553 37.037 0.00 0.00 40.05 4.45
4321 9746 7.291566 TGTTTAAGAAATAAAGGACAGACCCA 58.708 34.615 0.00 0.00 40.05 4.51
4322 9747 7.754851 TGTTTAAGAAATAAAGGACAGACCC 57.245 36.000 0.00 0.00 40.05 4.46
4323 9748 8.847196 AGTTGTTTAAGAAATAAAGGACAGACC 58.153 33.333 0.00 0.00 34.21 3.85
4324 9749 9.665264 CAGTTGTTTAAGAAATAAAGGACAGAC 57.335 33.333 0.00 0.00 34.21 3.51
4325 9750 9.403583 ACAGTTGTTTAAGAAATAAAGGACAGA 57.596 29.630 0.00 0.00 34.21 3.41
4378 9803 9.935241 GAATATGAGATAAGATTAAGTGGCTGA 57.065 33.333 0.00 0.00 0.00 4.26
4439 9865 5.053145 GGCTTATCACAAGATTGACTCGAT 58.947 41.667 0.00 0.00 35.67 3.59
4441 9867 4.183865 TGGCTTATCACAAGATTGACTCG 58.816 43.478 0.00 0.00 35.67 4.18
4445 9871 6.680810 CAAAGTTGGCTTATCACAAGATTGA 58.319 36.000 0.00 0.00 35.67 2.57
4472 9898 2.290008 TGTATGGTCGTTGGCAGAATGT 60.290 45.455 0.00 0.00 39.31 2.71
4510 9936 1.154225 GTCAAGTGCCGAAATGCCG 60.154 57.895 0.00 0.00 0.00 5.69
4517 9943 1.668751 GAAAACTGTGTCAAGTGCCGA 59.331 47.619 0.00 0.00 0.00 5.54
4555 10008 4.408821 ATGATGGCGCCACGGTGT 62.409 61.111 35.50 16.95 0.00 4.16


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

AutoCloner maintained by Alex Coulton.