Multiple sequence alignment - TraesCS1B01G130000

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1B01G130000 chr1B 100.000 5337 0 0 1 5337 160483243 160488579 0.000000e+00 9856.0
1 TraesCS1B01G130000 chr1B 92.344 418 31 1 2991 3408 534744350 534743934 1.280000e-165 593.0
2 TraesCS1B01G130000 chr1B 94.286 35 2 0 2069 2103 667639743 667639777 3.000000e-03 54.7
3 TraesCS1B01G130000 chrUn 99.673 1531 4 1 723 2252 391621563 391620033 0.000000e+00 2798.0
4 TraesCS1B01G130000 chrUn 99.596 1238 4 1 1 1238 378756100 378754864 0.000000e+00 2257.0
5 TraesCS1B01G130000 chrUn 99.417 1201 7 0 1730 2930 339538575 339537375 0.000000e+00 2180.0
6 TraesCS1B01G130000 chrUn 99.187 1107 0 4 1 1107 402799364 402800461 0.000000e+00 1986.0
7 TraesCS1B01G130000 chr1D 90.673 1619 89 29 491 2073 106374893 106373301 0.000000e+00 2097.0
8 TraesCS1B01G130000 chr1D 94.412 1199 53 12 3376 4570 106372049 106370861 0.000000e+00 1831.0
9 TraesCS1B01G130000 chr1D 93.521 818 52 1 2177 2993 441092039 441092856 0.000000e+00 1216.0
10 TraesCS1B01G130000 chr1D 94.751 381 18 2 2991 3370 441092909 441093288 4.600000e-165 592.0
11 TraesCS1B01G130000 chr1D 92.899 338 17 2 4581 4917 106369000 106368669 8.040000e-133 484.0
12 TraesCS1B01G130000 chr1D 92.893 197 13 1 4915 5110 106368557 106368361 8.750000e-73 285.0
13 TraesCS1B01G130000 chr1D 94.512 164 8 1 5133 5296 106328713 106328551 8.870000e-63 252.0
14 TraesCS1B01G130000 chr4D 93.925 823 47 3 2175 2996 71374510 71373690 0.000000e+00 1240.0
15 TraesCS1B01G130000 chr6D 93.773 819 50 1 2176 2993 45908859 45909677 0.000000e+00 1229.0
16 TraesCS1B01G130000 chr6D 93.187 822 53 3 2174 2993 380132544 380133364 0.000000e+00 1205.0
17 TraesCS1B01G130000 chr6D 94.933 375 19 0 2991 3365 380133417 380133791 5.950000e-164 588.0
18 TraesCS1B01G130000 chr7D 93.439 823 53 1 2175 2996 511332626 511331804 0.000000e+00 1219.0
19 TraesCS1B01G130000 chr7D 94.256 383 20 2 2991 3372 511331754 511331373 7.700000e-163 584.0
20 TraesCS1B01G130000 chr7D 94.256 383 19 3 2991 3372 24410263 24410643 2.770000e-162 582.0
21 TraesCS1B01G130000 chr3D 93.301 821 52 3 2177 2996 603129180 603128362 0.000000e+00 1208.0
22 TraesCS1B01G130000 chr3D 78.564 919 149 28 3430 4338 307836576 307835696 3.610000e-156 562.0
23 TraesCS1B01G130000 chr2A 93.116 828 52 4 2167 2993 651990436 651991259 0.000000e+00 1208.0
24 TraesCS1B01G130000 chr2A 94.180 378 20 2 2991 3367 767564657 767565033 4.640000e-160 575.0
25 TraesCS1B01G130000 chr2D 92.987 827 55 3 2169 2993 534389376 534390201 0.000000e+00 1203.0
26 TraesCS1B01G130000 chr2D 94.974 378 17 2 2991 3367 642419787 642420163 4.600000e-165 592.0
27 TraesCS1B01G130000 chr2D 94.503 382 21 0 2991 3372 619849117 619848736 1.660000e-164 590.0
28 TraesCS1B01G130000 chr2D 93.979 382 23 0 2991 3372 587300909 587300528 3.580000e-161 579.0
29 TraesCS1B01G130000 chr3B 78.478 920 148 33 3430 4338 413959567 413960447 1.680000e-154 556.0
30 TraesCS1B01G130000 chr3A 83.295 437 66 5 3904 4338 427102124 427101693 3.870000e-106 396.0
31 TraesCS1B01G130000 chr3A 79.849 397 66 9 3415 3805 427102583 427102195 1.460000e-70 278.0
32 TraesCS1B01G130000 chr5A 83.688 141 21 2 3613 3752 30414309 30414448 1.210000e-26 132.0
33 TraesCS1B01G130000 chr5B 100.000 40 0 0 767 806 118955930 118955969 2.060000e-09 75.0
34 TraesCS1B01G130000 chr7B 91.667 48 4 0 2068 2115 597185905 597185952 3.450000e-07 67.6
35 TraesCS1B01G130000 chr2B 95.122 41 2 0 2075 2115 790607388 790607348 1.240000e-06 65.8
36 TraesCS1B01G130000 chr1A 90.244 41 4 0 2075 2115 405005918 405005878 3.000000e-03 54.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1B01G130000 chr1B 160483243 160488579 5336 False 9856.00 9856 100.00000 1 5337 1 chr1B.!!$F1 5336
1 TraesCS1B01G130000 chrUn 391620033 391621563 1530 True 2798.00 2798 99.67300 723 2252 1 chrUn.!!$R3 1529
2 TraesCS1B01G130000 chrUn 378754864 378756100 1236 True 2257.00 2257 99.59600 1 1238 1 chrUn.!!$R2 1237
3 TraesCS1B01G130000 chrUn 339537375 339538575 1200 True 2180.00 2180 99.41700 1730 2930 1 chrUn.!!$R1 1200
4 TraesCS1B01G130000 chrUn 402799364 402800461 1097 False 1986.00 1986 99.18700 1 1107 1 chrUn.!!$F1 1106
5 TraesCS1B01G130000 chr1D 106368361 106374893 6532 True 1174.25 2097 92.71925 491 5110 4 chr1D.!!$R2 4619
6 TraesCS1B01G130000 chr1D 441092039 441093288 1249 False 904.00 1216 94.13600 2177 3370 2 chr1D.!!$F1 1193
7 TraesCS1B01G130000 chr4D 71373690 71374510 820 True 1240.00 1240 93.92500 2175 2996 1 chr4D.!!$R1 821
8 TraesCS1B01G130000 chr6D 45908859 45909677 818 False 1229.00 1229 93.77300 2176 2993 1 chr6D.!!$F1 817
9 TraesCS1B01G130000 chr6D 380132544 380133791 1247 False 896.50 1205 94.06000 2174 3365 2 chr6D.!!$F2 1191
10 TraesCS1B01G130000 chr7D 511331373 511332626 1253 True 901.50 1219 93.84750 2175 3372 2 chr7D.!!$R1 1197
11 TraesCS1B01G130000 chr3D 603128362 603129180 818 True 1208.00 1208 93.30100 2177 2996 1 chr3D.!!$R2 819
12 TraesCS1B01G130000 chr3D 307835696 307836576 880 True 562.00 562 78.56400 3430 4338 1 chr3D.!!$R1 908
13 TraesCS1B01G130000 chr2A 651990436 651991259 823 False 1208.00 1208 93.11600 2167 2993 1 chr2A.!!$F1 826
14 TraesCS1B01G130000 chr2D 534389376 534390201 825 False 1203.00 1203 92.98700 2169 2993 1 chr2D.!!$F1 824
15 TraesCS1B01G130000 chr3B 413959567 413960447 880 False 556.00 556 78.47800 3430 4338 1 chr3B.!!$F1 908
16 TraesCS1B01G130000 chr3A 427101693 427102583 890 True 337.00 396 81.57200 3415 4338 2 chr3A.!!$R1 923

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
579 582 3.317149 GGTAGCCTTTTTCCAAAGAACGT 59.683 43.478 0.0 0.0 41.97 3.99 F
2118 3322 1.663911 TTTGAATCCGAGGGAGGGAA 58.336 50.000 0.0 0.0 37.07 3.97 F
3381 4645 0.108019 GGGGGTCGGGCAGTTATTAG 59.892 60.000 0.0 0.0 0.00 1.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2458 3667 0.895530 GACCTGTGGAAGATGACGGA 59.104 55.0 0.00 0.0 0.00 4.69 R
3975 5246 0.179073 CCCGATCCGCATCTCTTTGT 60.179 55.0 0.00 0.0 0.00 2.83 R
5311 8549 0.253044 TGCTCCTAGGCATTTTCGCT 59.747 50.0 2.96 0.0 37.29 4.93 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
579 582 3.317149 GGTAGCCTTTTTCCAAAGAACGT 59.683 43.478 0.00 0.00 41.97 3.99
2118 3322 1.663911 TTTGAATCCGAGGGAGGGAA 58.336 50.000 0.00 0.00 37.07 3.97
2256 3464 7.928706 CCACTTTATTGATTATTCTCGAGGACT 59.071 37.037 13.56 0.00 0.00 3.85
2458 3667 2.140065 CACACTCACATGTGTCGTCT 57.860 50.000 24.63 8.97 46.90 4.18
2939 4148 2.955881 GCAACCCTACCTCCGCACT 61.956 63.158 0.00 0.00 0.00 4.40
3063 4327 1.092345 GCCAGATCTGAAACCTCGGC 61.092 60.000 24.62 12.30 0.00 5.54
3126 4390 1.826054 CCTGCGAGAGGACGAGGAT 60.826 63.158 0.00 0.00 46.33 3.24
3131 4395 2.835431 AGAGGACGAGGATGCCGG 60.835 66.667 0.00 0.00 0.00 6.13
3313 4577 3.372554 GACGTGCTGTAGAGGGGGC 62.373 68.421 0.00 0.00 0.00 5.80
3314 4578 4.514577 CGTGCTGTAGAGGGGGCG 62.515 72.222 0.00 0.00 0.00 6.13
3340 4604 0.974525 GGCGTACCTAGTGTTCCCCT 60.975 60.000 0.00 0.00 0.00 4.79
3378 4642 3.476419 CGGGGGTCGGGCAGTTAT 61.476 66.667 0.00 0.00 34.75 1.89
3379 4643 3.004090 GGGGGTCGGGCAGTTATT 58.996 61.111 0.00 0.00 0.00 1.40
3380 4644 1.688269 CGGGGGTCGGGCAGTTATTA 61.688 60.000 0.00 0.00 34.75 0.98
3381 4645 0.108019 GGGGGTCGGGCAGTTATTAG 59.892 60.000 0.00 0.00 0.00 1.73
3382 4646 0.835276 GGGGTCGGGCAGTTATTAGT 59.165 55.000 0.00 0.00 0.00 2.24
3383 4647 1.211212 GGGGTCGGGCAGTTATTAGTT 59.789 52.381 0.00 0.00 0.00 2.24
3384 4648 2.558378 GGGTCGGGCAGTTATTAGTTC 58.442 52.381 0.00 0.00 0.00 3.01
3406 4670 5.402398 TCCTATGAATAATGCGATCGAGTG 58.598 41.667 21.57 0.00 0.00 3.51
3418 4682 3.147629 CGATCGAGTGTACCCCTCTTAT 58.852 50.000 10.26 2.60 0.00 1.73
3501 4766 2.360852 TCGTGAGAGGGGTCGTCC 60.361 66.667 0.00 0.00 34.84 4.79
3535 4800 2.355986 CGATGGACAAGGACGGGGA 61.356 63.158 0.00 0.00 0.00 4.81
3824 5095 1.247567 CATCGTCCAAAGTTTGCCCT 58.752 50.000 10.25 0.00 0.00 5.19
3825 5096 1.200020 CATCGTCCAAAGTTTGCCCTC 59.800 52.381 10.25 0.00 0.00 4.30
3826 5097 0.181587 TCGTCCAAAGTTTGCCCTCA 59.818 50.000 10.25 0.00 0.00 3.86
3828 5099 1.407258 CGTCCAAAGTTTGCCCTCAAA 59.593 47.619 10.25 0.00 39.67 2.69
3861 5132 4.260661 CGATTGCTCTCGTTGCTAGTACTA 60.261 45.833 1.89 1.89 34.00 1.82
3863 5134 4.352600 TGCTCTCGTTGCTAGTACTAAC 57.647 45.455 3.76 0.00 0.00 2.34
3866 5137 5.645067 TGCTCTCGTTGCTAGTACTAACTAA 59.355 40.000 3.76 0.00 37.75 2.24
3867 5138 5.964751 GCTCTCGTTGCTAGTACTAACTAAC 59.035 44.000 3.76 8.37 37.75 2.34
3870 5141 8.417780 TCTCGTTGCTAGTACTAACTAACTAG 57.582 38.462 3.76 10.18 45.26 2.57
3881 5152 8.848182 AGTACTAACTAACTAGGATGATTTCGG 58.152 37.037 0.00 0.00 32.84 4.30
3891 5162 6.663523 ACTAGGATGATTTCGGTCCAATTTTT 59.336 34.615 0.00 0.00 34.42 1.94
3975 5246 4.218852 GGTCACCATGAACCGGAAAATAAA 59.781 41.667 9.46 0.00 0.00 1.40
3987 5258 4.793216 CCGGAAAATAAACAAAGAGATGCG 59.207 41.667 0.00 0.00 0.00 4.73
4015 5286 2.682494 GTCACCTACCCTGCCGGA 60.682 66.667 5.05 0.00 34.64 5.14
4030 5301 4.029472 GGAACGGTCCTGGAGCTA 57.971 61.111 22.29 0.00 41.24 3.32
4058 5329 3.321445 TGGTTCACCACAACCCGA 58.679 55.556 0.00 0.00 44.82 5.14
4330 5601 2.598439 CGCGCAAATCATACTCAAGAGC 60.598 50.000 8.75 0.00 0.00 4.09
4338 5609 6.497624 AATCATACTCAAGAGCCTCTGATT 57.502 37.500 0.00 0.00 0.00 2.57
4339 5610 5.946942 TCATACTCAAGAGCCTCTGATTT 57.053 39.130 0.00 0.00 0.00 2.17
4340 5611 7.609097 ATCATACTCAAGAGCCTCTGATTTA 57.391 36.000 0.00 0.00 0.00 1.40
4389 5662 7.759489 TTGTTAGCATGTCCTTACTTGAAAT 57.241 32.000 0.00 0.00 33.65 2.17
4393 5666 5.324409 AGCATGTCCTTACTTGAAATTCCA 58.676 37.500 0.00 0.00 33.65 3.53
4397 5670 7.276438 GCATGTCCTTACTTGAAATTCCAAATC 59.724 37.037 0.00 0.00 33.65 2.17
4441 5714 5.494390 TCCTTACACTTCCCCTAGAAAAC 57.506 43.478 0.00 0.00 32.88 2.43
4455 5728 6.209391 CCCCTAGAAAACATCACATTGAACTT 59.791 38.462 0.00 0.00 0.00 2.66
4481 5754 4.082245 CAGAATATGGTTGTGGGGTGAAAC 60.082 45.833 0.00 0.00 0.00 2.78
4493 5766 3.908737 GTGAAACCTACAGCGGAGT 57.091 52.632 0.00 0.00 0.00 3.85
4508 5781 1.875576 CGGAGTCTCATAGGGCAATGC 60.876 57.143 0.00 0.00 0.00 3.56
4515 5788 3.459598 TCTCATAGGGCAATGCTAGGTTT 59.540 43.478 4.82 0.00 0.00 3.27
4524 5797 2.489329 CAATGCTAGGTTTGACCCACTG 59.511 50.000 0.00 0.00 39.75 3.66
4562 5835 2.942804 TGTCACCTTTGCATCTTCCAA 58.057 42.857 0.00 0.00 0.00 3.53
4570 5843 8.980596 TCACCTTTGCATCTTCCAATTTAATAT 58.019 29.630 0.00 0.00 0.00 1.28
4571 5844 9.037737 CACCTTTGCATCTTCCAATTTAATATG 57.962 33.333 0.00 0.00 0.00 1.78
4572 5845 7.712205 ACCTTTGCATCTTCCAATTTAATATGC 59.288 33.333 11.10 11.10 37.11 3.14
4573 5846 7.929785 CCTTTGCATCTTCCAATTTAATATGCT 59.070 33.333 15.76 0.00 37.34 3.79
4574 5847 9.970395 CTTTGCATCTTCCAATTTAATATGCTA 57.030 29.630 15.76 9.58 37.34 3.49
4575 5848 9.748708 TTTGCATCTTCCAATTTAATATGCTAC 57.251 29.630 15.76 0.00 37.34 3.58
4576 5849 7.584108 TGCATCTTCCAATTTAATATGCTACG 58.416 34.615 15.76 0.00 37.34 3.51
4611 7734 7.148018 ACACCATCAATGAATCAACCATAAGTC 60.148 37.037 0.00 0.00 0.00 3.01
4625 7748 3.434167 CCATAAGTCCTCCATCCTTGTGG 60.434 52.174 0.00 0.00 39.86 4.17
4643 7766 1.002201 TGGAACTGCATTTTGGCATGG 59.998 47.619 0.00 0.00 43.97 3.66
4662 7785 6.127366 GGCATGGAAATCCTTCAAATGAGTAA 60.127 38.462 0.44 0.00 32.66 2.24
4692 7815 6.869913 ACAAATCACAACAAAGCATAGATTGG 59.130 34.615 0.00 0.00 0.00 3.16
4695 7818 5.263599 TCACAACAAAGCATAGATTGGGAT 58.736 37.500 0.00 0.00 27.89 3.85
4696 7819 5.357878 TCACAACAAAGCATAGATTGGGATC 59.642 40.000 0.00 0.00 27.89 3.36
4707 7830 6.318648 GCATAGATTGGGATCAACACAACTTA 59.681 38.462 0.00 0.00 45.12 2.24
4715 7838 5.462068 GGGATCAACACAACTTAGCAAAAAC 59.538 40.000 0.00 0.00 0.00 2.43
4716 7839 6.039616 GGATCAACACAACTTAGCAAAAACA 58.960 36.000 0.00 0.00 0.00 2.83
4717 7840 6.533367 GGATCAACACAACTTAGCAAAAACAA 59.467 34.615 0.00 0.00 0.00 2.83
4718 7841 7.064016 GGATCAACACAACTTAGCAAAAACAAA 59.936 33.333 0.00 0.00 0.00 2.83
4719 7842 7.715265 TCAACACAACTTAGCAAAAACAAAA 57.285 28.000 0.00 0.00 0.00 2.44
4720 7843 8.142994 TCAACACAACTTAGCAAAAACAAAAA 57.857 26.923 0.00 0.00 0.00 1.94
4772 7895 9.321562 CTCAAATATGGCAAGATTTTAAGCAAT 57.678 29.630 7.73 0.00 0.00 3.56
4791 7914 5.104360 AGCAATATTAGAAGGCTGGTTGAGA 60.104 40.000 0.00 0.00 32.76 3.27
4855 7978 5.236047 GCAGATATCACATCAAAGGAGACAC 59.764 44.000 5.32 0.00 0.00 3.67
4887 8010 6.068461 TGGTCAAACTATTACCCAGCATAA 57.932 37.500 0.00 0.00 31.97 1.90
4911 8034 3.623060 TGCAAAATGAGGATCTCGTAAGC 59.377 43.478 0.00 0.00 34.92 3.09
4917 8040 3.849911 TGAGGATCTCGTAAGCAAAGTG 58.150 45.455 0.00 0.00 34.92 3.16
4979 8216 8.499403 ACTTATTCTTTCACATTAGCTTCCTC 57.501 34.615 0.00 0.00 0.00 3.71
4992 8229 0.674895 CTTCCTCAAGTCGGGCAAGG 60.675 60.000 0.00 0.00 0.00 3.61
4995 8232 0.537371 CCTCAAGTCGGGCAAGGTTT 60.537 55.000 0.00 0.00 0.00 3.27
5003 8240 1.463553 CGGGCAAGGTTTGAGCCTTT 61.464 55.000 0.00 0.00 45.91 3.11
5007 8244 2.103094 GGCAAGGTTTGAGCCTTTTCTT 59.897 45.455 0.00 0.00 45.91 2.52
5072 8310 3.391506 TCACACACACAGAGAAGATGG 57.608 47.619 0.00 0.00 0.00 3.51
5107 8345 3.146104 ACAAGGCTATGAGCAAGTGTT 57.854 42.857 0.21 0.00 44.75 3.32
5110 8348 4.455877 ACAAGGCTATGAGCAAGTGTTTAC 59.544 41.667 0.21 0.00 44.75 2.01
5111 8349 4.559862 AGGCTATGAGCAAGTGTTTACT 57.440 40.909 0.21 0.00 44.75 2.24
5113 8351 4.938226 AGGCTATGAGCAAGTGTTTACTTC 59.062 41.667 0.21 0.00 45.12 3.01
5114 8352 4.938226 GGCTATGAGCAAGTGTTTACTTCT 59.062 41.667 0.21 0.00 45.12 2.85
5115 8353 5.064071 GGCTATGAGCAAGTGTTTACTTCTC 59.936 44.000 0.21 0.00 45.12 2.87
5116 8354 5.220303 GCTATGAGCAAGTGTTTACTTCTCG 60.220 44.000 0.00 0.00 45.12 4.04
5117 8355 3.390135 TGAGCAAGTGTTTACTTCTCGG 58.610 45.455 0.00 0.00 45.12 4.63
5118 8356 2.737252 GAGCAAGTGTTTACTTCTCGGG 59.263 50.000 0.00 0.00 45.12 5.14
5119 8357 2.104281 AGCAAGTGTTTACTTCTCGGGT 59.896 45.455 0.00 0.00 45.12 5.28
5120 8358 2.223377 GCAAGTGTTTACTTCTCGGGTG 59.777 50.000 0.00 0.00 45.12 4.61
5121 8359 2.806244 CAAGTGTTTACTTCTCGGGTGG 59.194 50.000 0.00 0.00 45.12 4.61
5122 8360 2.044758 AGTGTTTACTTCTCGGGTGGT 58.955 47.619 0.00 0.00 31.66 4.16
5123 8361 2.140717 GTGTTTACTTCTCGGGTGGTG 58.859 52.381 0.00 0.00 0.00 4.17
5124 8362 2.040939 TGTTTACTTCTCGGGTGGTGA 58.959 47.619 0.00 0.00 0.00 4.02
5125 8363 2.435069 TGTTTACTTCTCGGGTGGTGAA 59.565 45.455 0.00 0.00 0.00 3.18
5126 8364 3.118334 TGTTTACTTCTCGGGTGGTGAAA 60.118 43.478 0.00 0.00 0.00 2.69
5127 8365 3.842007 TTACTTCTCGGGTGGTGAAAA 57.158 42.857 0.00 0.00 0.00 2.29
5128 8366 2.721425 ACTTCTCGGGTGGTGAAAAA 57.279 45.000 0.00 0.00 0.00 1.94
5145 8383 3.564053 AAAAACCGTAGACCCAACTCA 57.436 42.857 0.00 0.00 0.00 3.41
5146 8384 3.782656 AAAACCGTAGACCCAACTCAT 57.217 42.857 0.00 0.00 0.00 2.90
5147 8385 3.782656 AAACCGTAGACCCAACTCATT 57.217 42.857 0.00 0.00 0.00 2.57
5148 8386 3.782656 AACCGTAGACCCAACTCATTT 57.217 42.857 0.00 0.00 0.00 2.32
5149 8387 3.782656 ACCGTAGACCCAACTCATTTT 57.217 42.857 0.00 0.00 0.00 1.82
5150 8388 4.094830 ACCGTAGACCCAACTCATTTTT 57.905 40.909 0.00 0.00 0.00 1.94
5151 8389 3.818773 ACCGTAGACCCAACTCATTTTTG 59.181 43.478 0.00 0.00 0.00 2.44
5152 8390 3.818773 CCGTAGACCCAACTCATTTTTGT 59.181 43.478 0.00 0.00 0.00 2.83
5153 8391 4.320202 CCGTAGACCCAACTCATTTTTGTG 60.320 45.833 0.00 0.00 0.00 3.33
5154 8392 4.513692 CGTAGACCCAACTCATTTTTGTGA 59.486 41.667 0.00 0.00 0.00 3.58
5155 8393 5.008217 CGTAGACCCAACTCATTTTTGTGAA 59.992 40.000 0.00 0.00 0.00 3.18
5156 8394 5.520376 AGACCCAACTCATTTTTGTGAAG 57.480 39.130 0.00 0.00 0.00 3.02
5157 8395 5.200483 AGACCCAACTCATTTTTGTGAAGA 58.800 37.500 0.00 0.00 0.00 2.87
5158 8396 5.656416 AGACCCAACTCATTTTTGTGAAGAA 59.344 36.000 0.00 0.00 0.00 2.52
5159 8397 6.154363 AGACCCAACTCATTTTTGTGAAGAAA 59.846 34.615 0.00 0.00 0.00 2.52
5160 8398 6.888105 ACCCAACTCATTTTTGTGAAGAAAT 58.112 32.000 0.00 0.00 0.00 2.17
5161 8399 7.337938 ACCCAACTCATTTTTGTGAAGAAATT 58.662 30.769 0.00 0.00 0.00 1.82
5162 8400 7.495606 ACCCAACTCATTTTTGTGAAGAAATTC 59.504 33.333 0.00 0.00 0.00 2.17
5163 8401 7.495279 CCCAACTCATTTTTGTGAAGAAATTCA 59.505 33.333 0.00 0.00 0.00 2.57
5164 8402 8.881743 CCAACTCATTTTTGTGAAGAAATTCAA 58.118 29.630 0.00 0.00 32.04 2.69
5192 8430 8.789762 TGTTATCTTTTAGAACTGGTTTAAGGC 58.210 33.333 0.00 0.00 30.37 4.35
5193 8431 9.011095 GTTATCTTTTAGAACTGGTTTAAGGCT 57.989 33.333 0.00 0.00 0.00 4.58
5194 8432 7.689446 ATCTTTTAGAACTGGTTTAAGGCTC 57.311 36.000 0.00 0.00 0.00 4.70
5195 8433 6.838382 TCTTTTAGAACTGGTTTAAGGCTCT 58.162 36.000 0.00 0.00 0.00 4.09
5196 8434 7.970102 TCTTTTAGAACTGGTTTAAGGCTCTA 58.030 34.615 0.00 0.00 0.00 2.43
5197 8435 8.434392 TCTTTTAGAACTGGTTTAAGGCTCTAA 58.566 33.333 0.00 0.00 30.19 2.10
5198 8436 9.232473 CTTTTAGAACTGGTTTAAGGCTCTAAT 57.768 33.333 0.00 0.00 31.33 1.73
5199 8437 9.582648 TTTTAGAACTGGTTTAAGGCTCTAATT 57.417 29.630 0.00 0.00 31.33 1.40
5200 8438 9.582648 TTTAGAACTGGTTTAAGGCTCTAATTT 57.417 29.630 0.00 0.00 31.33 1.82
5201 8439 7.454260 AGAACTGGTTTAAGGCTCTAATTTG 57.546 36.000 0.00 0.00 0.00 2.32
5202 8440 7.231467 AGAACTGGTTTAAGGCTCTAATTTGA 58.769 34.615 0.00 0.00 0.00 2.69
5203 8441 7.724061 AGAACTGGTTTAAGGCTCTAATTTGAA 59.276 33.333 0.00 0.00 0.00 2.69
5204 8442 7.454260 ACTGGTTTAAGGCTCTAATTTGAAG 57.546 36.000 0.00 0.00 0.00 3.02
5205 8443 7.231467 ACTGGTTTAAGGCTCTAATTTGAAGA 58.769 34.615 0.00 0.00 0.00 2.87
5206 8444 7.724061 ACTGGTTTAAGGCTCTAATTTGAAGAA 59.276 33.333 0.00 0.00 0.00 2.52
5207 8445 7.882179 TGGTTTAAGGCTCTAATTTGAAGAAC 58.118 34.615 0.00 0.00 0.00 3.01
5208 8446 7.504238 TGGTTTAAGGCTCTAATTTGAAGAACA 59.496 33.333 0.00 0.00 0.00 3.18
5209 8447 8.523658 GGTTTAAGGCTCTAATTTGAAGAACAT 58.476 33.333 0.00 0.00 0.00 2.71
5210 8448 9.914131 GTTTAAGGCTCTAATTTGAAGAACATT 57.086 29.630 0.00 0.00 0.00 2.71
5213 8451 7.326968 AGGCTCTAATTTGAAGAACATTAGC 57.673 36.000 0.00 0.00 0.00 3.09
5214 8452 6.886459 AGGCTCTAATTTGAAGAACATTAGCA 59.114 34.615 0.00 0.00 0.00 3.49
5215 8453 7.394359 AGGCTCTAATTTGAAGAACATTAGCAA 59.606 33.333 0.00 0.00 0.00 3.91
5216 8454 8.028938 GGCTCTAATTTGAAGAACATTAGCAAA 58.971 33.333 0.00 0.00 33.59 3.68
5217 8455 9.410556 GCTCTAATTTGAAGAACATTAGCAAAA 57.589 29.630 0.00 0.00 32.91 2.44
5247 8485 7.948278 AATCATGAGTATTAAGAGGTAACGC 57.052 36.000 0.09 0.00 46.39 4.84
5248 8486 5.839621 TCATGAGTATTAAGAGGTAACGCC 58.160 41.667 0.00 0.00 46.39 5.68
5249 8487 5.361571 TCATGAGTATTAAGAGGTAACGCCA 59.638 40.000 0.00 0.00 46.39 5.69
5250 8488 5.664294 TGAGTATTAAGAGGTAACGCCAA 57.336 39.130 0.00 0.00 46.39 4.52
5251 8489 6.040209 TGAGTATTAAGAGGTAACGCCAAA 57.960 37.500 0.00 0.00 46.39 3.28
5252 8490 6.103997 TGAGTATTAAGAGGTAACGCCAAAG 58.896 40.000 0.00 0.00 46.39 2.77
5253 8491 6.071221 TGAGTATTAAGAGGTAACGCCAAAGA 60.071 38.462 0.00 0.00 46.39 2.52
5254 8492 6.338937 AGTATTAAGAGGTAACGCCAAAGAG 58.661 40.000 0.00 0.00 46.39 2.85
5255 8493 4.612264 TTAAGAGGTAACGCCAAAGAGT 57.388 40.909 0.00 0.00 46.39 3.24
5256 8494 2.457366 AGAGGTAACGCCAAAGAGTG 57.543 50.000 0.00 0.00 46.39 3.51
5257 8495 1.968493 AGAGGTAACGCCAAAGAGTGA 59.032 47.619 0.00 0.00 46.39 3.41
5258 8496 2.028930 AGAGGTAACGCCAAAGAGTGAG 60.029 50.000 0.00 0.00 46.39 3.51
5259 8497 1.692519 AGGTAACGCCAAAGAGTGAGT 59.307 47.619 0.00 0.00 46.39 3.41
5260 8498 1.798813 GGTAACGCCAAAGAGTGAGTG 59.201 52.381 0.00 0.00 37.17 3.51
5261 8499 2.547218 GGTAACGCCAAAGAGTGAGTGA 60.547 50.000 0.00 0.00 37.17 3.41
5262 8500 2.550830 AACGCCAAAGAGTGAGTGAT 57.449 45.000 0.00 0.00 0.00 3.06
5263 8501 1.800805 ACGCCAAAGAGTGAGTGATG 58.199 50.000 0.00 0.00 0.00 3.07
5264 8502 0.445436 CGCCAAAGAGTGAGTGATGC 59.555 55.000 0.00 0.00 0.00 3.91
5265 8503 1.527034 GCCAAAGAGTGAGTGATGCA 58.473 50.000 0.00 0.00 0.00 3.96
5266 8504 1.881973 GCCAAAGAGTGAGTGATGCAA 59.118 47.619 0.00 0.00 0.00 4.08
5267 8505 2.294233 GCCAAAGAGTGAGTGATGCAAA 59.706 45.455 0.00 0.00 0.00 3.68
5268 8506 3.243501 GCCAAAGAGTGAGTGATGCAAAA 60.244 43.478 0.00 0.00 0.00 2.44
5269 8507 4.543692 CCAAAGAGTGAGTGATGCAAAAG 58.456 43.478 0.00 0.00 0.00 2.27
5270 8508 4.543692 CAAAGAGTGAGTGATGCAAAAGG 58.456 43.478 0.00 0.00 0.00 3.11
5271 8509 3.498774 AGAGTGAGTGATGCAAAAGGT 57.501 42.857 0.00 0.00 0.00 3.50
5272 8510 3.825328 AGAGTGAGTGATGCAAAAGGTT 58.175 40.909 0.00 0.00 0.00 3.50
5273 8511 3.567164 AGAGTGAGTGATGCAAAAGGTTG 59.433 43.478 0.00 0.00 37.83 3.77
5274 8512 3.554934 AGTGAGTGATGCAAAAGGTTGA 58.445 40.909 0.00 0.00 36.83 3.18
5275 8513 3.316308 AGTGAGTGATGCAAAAGGTTGAC 59.684 43.478 0.00 0.00 36.83 3.18
5276 8514 3.316308 GTGAGTGATGCAAAAGGTTGACT 59.684 43.478 0.00 0.00 36.83 3.41
5277 8515 4.515191 GTGAGTGATGCAAAAGGTTGACTA 59.485 41.667 0.00 0.00 36.83 2.59
5278 8516 4.515191 TGAGTGATGCAAAAGGTTGACTAC 59.485 41.667 0.00 0.00 36.83 2.73
5279 8517 4.460263 AGTGATGCAAAAGGTTGACTACA 58.540 39.130 0.00 0.00 36.83 2.74
5280 8518 5.072741 AGTGATGCAAAAGGTTGACTACAT 58.927 37.500 0.00 0.00 36.83 2.29
5281 8519 5.048504 AGTGATGCAAAAGGTTGACTACATG 60.049 40.000 0.00 0.00 36.83 3.21
5282 8520 5.048782 GTGATGCAAAAGGTTGACTACATGA 60.049 40.000 0.00 0.00 36.83 3.07
5283 8521 5.534278 TGATGCAAAAGGTTGACTACATGAA 59.466 36.000 0.00 0.00 36.83 2.57
5284 8522 5.181690 TGCAAAAGGTTGACTACATGAAC 57.818 39.130 0.00 0.00 36.83 3.18
5285 8523 4.887071 TGCAAAAGGTTGACTACATGAACT 59.113 37.500 0.00 0.00 36.83 3.01
5286 8524 6.058833 TGCAAAAGGTTGACTACATGAACTA 58.941 36.000 0.00 0.00 36.83 2.24
5287 8525 6.544197 TGCAAAAGGTTGACTACATGAACTAA 59.456 34.615 0.00 0.00 36.83 2.24
5288 8526 7.067615 TGCAAAAGGTTGACTACATGAACTAAA 59.932 33.333 0.00 0.00 36.83 1.85
5289 8527 7.591426 GCAAAAGGTTGACTACATGAACTAAAG 59.409 37.037 0.00 0.00 36.83 1.85
5290 8528 8.836413 CAAAAGGTTGACTACATGAACTAAAGA 58.164 33.333 0.00 0.00 36.83 2.52
5291 8529 9.574516 AAAAGGTTGACTACATGAACTAAAGAT 57.425 29.630 0.00 0.00 0.00 2.40
5293 8531 9.877178 AAGGTTGACTACATGAACTAAAGATAG 57.123 33.333 0.00 0.00 35.14 2.08
5294 8532 9.256228 AGGTTGACTACATGAACTAAAGATAGA 57.744 33.333 0.00 0.00 33.15 1.98
5295 8533 9.522804 GGTTGACTACATGAACTAAAGATAGAG 57.477 37.037 0.00 0.00 33.15 2.43
5314 8552 8.941977 AGATAGAGAATAGTCTGTACATAAGCG 58.058 37.037 0.00 0.00 32.77 4.68
5315 8553 8.850007 ATAGAGAATAGTCTGTACATAAGCGA 57.150 34.615 0.00 0.00 32.77 4.93
5316 8554 7.569639 AGAGAATAGTCTGTACATAAGCGAA 57.430 36.000 0.00 0.00 32.80 4.70
5317 8555 7.997482 AGAGAATAGTCTGTACATAAGCGAAA 58.003 34.615 0.00 0.00 32.80 3.46
5318 8556 8.467598 AGAGAATAGTCTGTACATAAGCGAAAA 58.532 33.333 0.00 0.00 32.80 2.29
5319 8557 9.250624 GAGAATAGTCTGTACATAAGCGAAAAT 57.749 33.333 0.00 0.00 32.80 1.82
5320 8558 9.035607 AGAATAGTCTGTACATAAGCGAAAATG 57.964 33.333 0.00 0.00 30.83 2.32
5321 8559 5.470845 AGTCTGTACATAAGCGAAAATGC 57.529 39.130 0.00 0.00 0.00 3.56
5322 8560 4.332819 AGTCTGTACATAAGCGAAAATGCC 59.667 41.667 0.00 0.00 34.65 4.40
5323 8561 4.332819 GTCTGTACATAAGCGAAAATGCCT 59.667 41.667 0.00 0.00 34.65 4.75
5324 8562 5.522460 GTCTGTACATAAGCGAAAATGCCTA 59.478 40.000 0.00 0.00 34.65 3.93
5325 8563 5.753438 TCTGTACATAAGCGAAAATGCCTAG 59.247 40.000 0.00 0.00 34.65 3.02
5326 8564 4.814234 TGTACATAAGCGAAAATGCCTAGG 59.186 41.667 3.67 3.67 34.65 3.02
5327 8565 4.150897 ACATAAGCGAAAATGCCTAGGA 57.849 40.909 14.75 0.00 34.65 2.94
5328 8566 4.130118 ACATAAGCGAAAATGCCTAGGAG 58.870 43.478 14.75 0.00 34.65 3.69
5329 8567 1.383523 AAGCGAAAATGCCTAGGAGC 58.616 50.000 14.75 5.48 34.65 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2458 3667 0.895530 GACCTGTGGAAGATGACGGA 59.104 55.000 0.00 0.00 0.00 4.69
2864 4073 4.421554 CTCTCCTCCTGGGGGCCA 62.422 72.222 8.08 0.00 34.93 5.36
2939 4148 1.657751 CCTCGTCCGACAGCATGAGA 61.658 60.000 0.00 0.00 39.69 3.27
2980 4189 0.323302 TGAGGTTGGTTCGCATGCTA 59.677 50.000 17.13 0.72 0.00 3.49
3293 4557 1.682684 CCCCTCTACAGCACGTCCT 60.683 63.158 0.00 0.00 0.00 3.85
3380 4644 6.025749 TCGATCGCATTATTCATAGGAACT 57.974 37.500 11.09 0.00 46.37 3.01
3381 4645 5.864474 ACTCGATCGCATTATTCATAGGAAC 59.136 40.000 11.09 0.00 35.46 3.62
3382 4646 5.863935 CACTCGATCGCATTATTCATAGGAA 59.136 40.000 11.09 0.00 37.45 3.36
3383 4647 5.048013 ACACTCGATCGCATTATTCATAGGA 60.048 40.000 11.09 0.00 0.00 2.94
3384 4648 5.164233 ACACTCGATCGCATTATTCATAGG 58.836 41.667 11.09 0.00 0.00 2.57
3406 4670 3.542648 GACCTGCAAATAAGAGGGGTAC 58.457 50.000 0.00 0.00 0.00 3.34
3418 4682 2.708861 TCAGTAGGAAAGGACCTGCAAA 59.291 45.455 0.00 0.00 43.39 3.68
3535 4800 0.961019 AAGCATGTCGTTGCCAATGT 59.039 45.000 0.00 0.00 43.83 2.71
3782 5053 3.185594 CACTTGCCGTTTTGAGTCGATTA 59.814 43.478 0.00 0.00 0.00 1.75
3824 5095 6.258230 AGAGCAATCGAATGTTTGATTTGA 57.742 33.333 1.83 0.00 38.84 2.69
3825 5096 5.226565 CGAGAGCAATCGAATGTTTGATTTG 59.773 40.000 1.83 0.00 45.56 2.32
3826 5097 5.106555 ACGAGAGCAATCGAATGTTTGATTT 60.107 36.000 16.27 0.00 45.56 2.17
3828 5099 3.935203 ACGAGAGCAATCGAATGTTTGAT 59.065 39.130 16.27 0.00 45.56 2.57
3861 5132 5.424252 TGGACCGAAATCATCCTAGTTAGTT 59.576 40.000 0.00 0.00 33.34 2.24
3863 5134 5.531122 TGGACCGAAATCATCCTAGTTAG 57.469 43.478 0.00 0.00 33.34 2.34
3866 5137 5.373812 AATTGGACCGAAATCATCCTAGT 57.626 39.130 0.00 0.00 33.34 2.57
3867 5138 6.699575 AAAATTGGACCGAAATCATCCTAG 57.300 37.500 0.00 0.00 33.34 3.02
3870 5141 5.965922 AGAAAAATTGGACCGAAATCATCC 58.034 37.500 0.00 0.00 0.00 3.51
3879 5150 9.893305 GGAAATATATGTAGAAAAATTGGACCG 57.107 33.333 0.00 0.00 0.00 4.79
3891 5162 9.243105 TCATCGTCATCTGGAAATATATGTAGA 57.757 33.333 0.00 0.00 0.00 2.59
3902 5173 6.016610 TCGTACATTATCATCGTCATCTGGAA 60.017 38.462 0.00 0.00 0.00 3.53
3920 5191 0.972983 AGCCTGAGCACCTCGTACAT 60.973 55.000 0.00 0.00 43.56 2.29
3975 5246 0.179073 CCCGATCCGCATCTCTTTGT 60.179 55.000 0.00 0.00 0.00 2.83
4015 5286 1.988406 GGGTAGCTCCAGGACCGTT 60.988 63.158 0.00 0.00 38.11 4.44
4030 5301 0.698818 GGTGAACCATGAGGAAGGGT 59.301 55.000 0.00 0.00 38.69 4.34
4318 5589 5.695816 GCTAAATCAGAGGCTCTTGAGTATG 59.304 44.000 15.90 11.59 0.00 2.39
4330 5601 1.202580 CCGGACTGGCTAAATCAGAGG 60.203 57.143 0.00 0.00 36.22 3.69
4389 5662 7.098477 CAGGCACATATCTTTTTGATTTGGAA 58.902 34.615 0.00 0.00 38.08 3.53
4393 5666 5.046448 TGCCAGGCACATATCTTTTTGATTT 60.046 36.000 11.22 0.00 33.26 2.17
4397 5670 3.872511 TGCCAGGCACATATCTTTTTG 57.127 42.857 11.22 0.00 31.71 2.44
4441 5714 7.913821 CCATATTCTGTGAAGTTCAATGTGATG 59.086 37.037 7.25 7.39 0.00 3.07
4455 5728 2.647299 ACCCCACAACCATATTCTGTGA 59.353 45.455 9.24 0.00 42.48 3.58
4481 5754 1.883275 CCTATGAGACTCCGCTGTAGG 59.117 57.143 0.00 1.14 0.00 3.18
4490 5763 2.926778 AGCATTGCCCTATGAGACTC 57.073 50.000 4.70 0.00 0.00 3.36
4493 5766 2.694397 ACCTAGCATTGCCCTATGAGA 58.306 47.619 4.70 0.00 0.00 3.27
4508 5781 3.833070 ACTCTACAGTGGGTCAAACCTAG 59.167 47.826 0.00 0.00 38.64 3.02
4515 5788 1.884579 GACGAACTCTACAGTGGGTCA 59.115 52.381 0.00 0.00 36.40 4.02
4524 5797 1.269166 CATGCACCGACGAACTCTAC 58.731 55.000 0.00 0.00 0.00 2.59
4570 5843 3.596310 TGGTGTAGCAAATACGTAGCA 57.404 42.857 0.08 0.00 37.17 3.49
4571 5844 4.116961 TGATGGTGTAGCAAATACGTAGC 58.883 43.478 0.08 0.00 37.17 3.58
4572 5845 6.478673 TCATTGATGGTGTAGCAAATACGTAG 59.521 38.462 0.08 0.00 38.32 3.51
4573 5846 6.342111 TCATTGATGGTGTAGCAAATACGTA 58.658 36.000 0.00 0.00 38.32 3.57
4574 5847 5.182487 TCATTGATGGTGTAGCAAATACGT 58.818 37.500 0.00 0.00 38.32 3.57
4575 5848 5.733226 TCATTGATGGTGTAGCAAATACG 57.267 39.130 0.00 0.00 38.32 3.06
4576 5849 7.706159 TGATTCATTGATGGTGTAGCAAATAC 58.294 34.615 0.00 0.00 38.32 1.89
4579 7702 6.389091 GTTGATTCATTGATGGTGTAGCAAA 58.611 36.000 0.00 0.00 38.32 3.68
4588 7711 6.548622 AGGACTTATGGTTGATTCATTGATGG 59.451 38.462 0.00 0.00 0.00 3.51
4625 7748 2.747396 TCCATGCCAAAATGCAGTTC 57.253 45.000 0.00 0.00 45.93 3.01
4643 7766 8.950210 TGTGATCTTACTCATTTGAAGGATTTC 58.050 33.333 0.00 0.00 0.00 2.17
4662 7785 5.518848 TGCTTTGTTGTGATTTGTGATCT 57.481 34.783 0.00 0.00 0.00 2.75
4692 7815 6.039616 TGTTTTTGCTAAGTTGTGTTGATCC 58.960 36.000 0.00 0.00 0.00 3.36
4695 7818 7.715265 TTTTGTTTTTGCTAAGTTGTGTTGA 57.285 28.000 0.00 0.00 0.00 3.18
4742 7865 9.643693 CTTAAAATCTTGCCATATTTGAGTTGT 57.356 29.630 0.00 0.00 0.00 3.32
4760 7883 8.633561 ACCAGCCTTCTAATATTGCTTAAAATC 58.366 33.333 0.00 0.00 0.00 2.17
4772 7895 6.560003 TTCATCTCAACCAGCCTTCTAATA 57.440 37.500 0.00 0.00 0.00 0.98
4791 7914 7.805163 TCAGTCAATTGGTAGGTGATATTCAT 58.195 34.615 5.42 0.00 0.00 2.57
4887 8010 3.340814 ACGAGATCCTCATTTTGCAGT 57.659 42.857 0.00 0.00 0.00 4.40
4967 8204 2.555199 CCCGACTTGAGGAAGCTAATG 58.445 52.381 0.00 0.00 31.68 1.90
4968 8205 1.134371 GCCCGACTTGAGGAAGCTAAT 60.134 52.381 0.00 0.00 31.68 1.73
4979 8216 0.593128 CTCAAACCTTGCCCGACTTG 59.407 55.000 0.00 0.00 0.00 3.16
4992 8229 2.154854 GCCCAAGAAAAGGCTCAAAC 57.845 50.000 0.00 0.00 46.14 2.93
5021 8258 5.608676 AGCTAACGTTTTAGAGAAAAGGC 57.391 39.130 5.91 0.00 41.85 4.35
5072 8310 5.794687 AGCCTTGTTTTGTTTTTAGTTGC 57.205 34.783 0.00 0.00 0.00 4.17
5107 8345 3.842007 TTTTCACCACCCGAGAAGTAA 57.158 42.857 0.00 0.00 0.00 2.24
5125 8363 3.564053 TGAGTTGGGTCTACGGTTTTT 57.436 42.857 0.00 0.00 0.00 1.94
5126 8364 3.782656 ATGAGTTGGGTCTACGGTTTT 57.217 42.857 0.00 0.00 0.00 2.43
5127 8365 3.782656 AATGAGTTGGGTCTACGGTTT 57.217 42.857 0.00 0.00 0.00 3.27
5128 8366 3.782656 AAATGAGTTGGGTCTACGGTT 57.217 42.857 0.00 0.00 0.00 4.44
5129 8367 3.782656 AAAATGAGTTGGGTCTACGGT 57.217 42.857 0.00 0.00 0.00 4.83
5130 8368 3.818773 ACAAAAATGAGTTGGGTCTACGG 59.181 43.478 0.00 0.00 0.00 4.02
5131 8369 4.513692 TCACAAAAATGAGTTGGGTCTACG 59.486 41.667 0.00 0.00 31.07 3.51
5132 8370 6.262273 TCTTCACAAAAATGAGTTGGGTCTAC 59.738 38.462 0.00 0.00 31.07 2.59
5133 8371 6.361433 TCTTCACAAAAATGAGTTGGGTCTA 58.639 36.000 0.00 0.00 31.07 2.59
5134 8372 5.200483 TCTTCACAAAAATGAGTTGGGTCT 58.800 37.500 0.00 0.00 31.07 3.85
5135 8373 5.514274 TCTTCACAAAAATGAGTTGGGTC 57.486 39.130 0.00 0.00 31.07 4.46
5136 8374 5.930837 TTCTTCACAAAAATGAGTTGGGT 57.069 34.783 0.00 0.00 31.07 4.51
5137 8375 7.495279 TGAATTTCTTCACAAAAATGAGTTGGG 59.505 33.333 0.00 0.00 36.46 4.12
5138 8376 8.422973 TGAATTTCTTCACAAAAATGAGTTGG 57.577 30.769 0.00 0.00 36.46 3.77
5166 8404 8.789762 GCCTTAAACCAGTTCTAAAAGATAACA 58.210 33.333 0.00 0.00 0.00 2.41
5167 8405 9.011095 AGCCTTAAACCAGTTCTAAAAGATAAC 57.989 33.333 0.00 0.00 0.00 1.89
5168 8406 9.227777 GAGCCTTAAACCAGTTCTAAAAGATAA 57.772 33.333 0.00 0.00 0.00 1.75
5169 8407 8.603304 AGAGCCTTAAACCAGTTCTAAAAGATA 58.397 33.333 0.00 0.00 0.00 1.98
5170 8408 7.462590 AGAGCCTTAAACCAGTTCTAAAAGAT 58.537 34.615 0.00 0.00 0.00 2.40
5171 8409 6.838382 AGAGCCTTAAACCAGTTCTAAAAGA 58.162 36.000 0.00 0.00 0.00 2.52
5172 8410 8.617290 TTAGAGCCTTAAACCAGTTCTAAAAG 57.383 34.615 0.00 0.00 0.00 2.27
5173 8411 9.582648 AATTAGAGCCTTAAACCAGTTCTAAAA 57.417 29.630 0.00 0.00 31.71 1.52
5174 8412 9.582648 AAATTAGAGCCTTAAACCAGTTCTAAA 57.417 29.630 0.00 0.00 31.71 1.85
5175 8413 9.010029 CAAATTAGAGCCTTAAACCAGTTCTAA 57.990 33.333 0.00 0.00 32.27 2.10
5176 8414 8.380099 TCAAATTAGAGCCTTAAACCAGTTCTA 58.620 33.333 0.00 0.00 0.00 2.10
5177 8415 7.231467 TCAAATTAGAGCCTTAAACCAGTTCT 58.769 34.615 0.00 0.00 0.00 3.01
5178 8416 7.448748 TCAAATTAGAGCCTTAAACCAGTTC 57.551 36.000 0.00 0.00 0.00 3.01
5179 8417 7.724061 TCTTCAAATTAGAGCCTTAAACCAGTT 59.276 33.333 0.00 0.00 0.00 3.16
5180 8418 7.231467 TCTTCAAATTAGAGCCTTAAACCAGT 58.769 34.615 0.00 0.00 0.00 4.00
5181 8419 7.687941 TCTTCAAATTAGAGCCTTAAACCAG 57.312 36.000 0.00 0.00 0.00 4.00
5182 8420 7.504238 TGTTCTTCAAATTAGAGCCTTAAACCA 59.496 33.333 0.00 0.00 0.00 3.67
5183 8421 7.882179 TGTTCTTCAAATTAGAGCCTTAAACC 58.118 34.615 0.00 0.00 0.00 3.27
5184 8422 9.914131 AATGTTCTTCAAATTAGAGCCTTAAAC 57.086 29.630 0.00 0.00 0.00 2.01
5187 8425 8.893727 GCTAATGTTCTTCAAATTAGAGCCTTA 58.106 33.333 5.97 0.00 36.43 2.69
5188 8426 7.394359 TGCTAATGTTCTTCAAATTAGAGCCTT 59.606 33.333 5.97 0.00 36.43 4.35
5189 8427 6.886459 TGCTAATGTTCTTCAAATTAGAGCCT 59.114 34.615 5.97 0.00 36.43 4.58
5190 8428 7.088589 TGCTAATGTTCTTCAAATTAGAGCC 57.911 36.000 5.97 0.00 36.43 4.70
5191 8429 8.970691 TTTGCTAATGTTCTTCAAATTAGAGC 57.029 30.769 5.97 0.00 36.43 4.09
5221 8459 8.913656 GCGTTACCTCTTAATACTCATGATTAC 58.086 37.037 0.00 0.00 0.00 1.89
5222 8460 8.086522 GGCGTTACCTCTTAATACTCATGATTA 58.913 37.037 0.00 0.00 34.51 1.75
5223 8461 6.929606 GGCGTTACCTCTTAATACTCATGATT 59.070 38.462 0.00 0.00 34.51 2.57
5224 8462 6.041637 TGGCGTTACCTCTTAATACTCATGAT 59.958 38.462 0.00 0.00 40.22 2.45
5225 8463 5.361571 TGGCGTTACCTCTTAATACTCATGA 59.638 40.000 0.00 0.00 40.22 3.07
5226 8464 5.597806 TGGCGTTACCTCTTAATACTCATG 58.402 41.667 0.00 0.00 40.22 3.07
5227 8465 5.864418 TGGCGTTACCTCTTAATACTCAT 57.136 39.130 0.00 0.00 40.22 2.90
5228 8466 5.664294 TTGGCGTTACCTCTTAATACTCA 57.336 39.130 0.00 0.00 40.22 3.41
5229 8467 6.335777 TCTTTGGCGTTACCTCTTAATACTC 58.664 40.000 0.00 0.00 40.22 2.59
5230 8468 6.070938 ACTCTTTGGCGTTACCTCTTAATACT 60.071 38.462 0.00 0.00 40.22 2.12
5231 8469 6.035758 CACTCTTTGGCGTTACCTCTTAATAC 59.964 42.308 0.00 0.00 40.22 1.89
5232 8470 6.071221 TCACTCTTTGGCGTTACCTCTTAATA 60.071 38.462 0.00 0.00 40.22 0.98
5233 8471 4.935808 CACTCTTTGGCGTTACCTCTTAAT 59.064 41.667 0.00 0.00 40.22 1.40
5234 8472 4.039488 TCACTCTTTGGCGTTACCTCTTAA 59.961 41.667 0.00 0.00 40.22 1.85
5235 8473 3.575256 TCACTCTTTGGCGTTACCTCTTA 59.425 43.478 0.00 0.00 40.22 2.10
5236 8474 2.367567 TCACTCTTTGGCGTTACCTCTT 59.632 45.455 0.00 0.00 40.22 2.85
5237 8475 1.968493 TCACTCTTTGGCGTTACCTCT 59.032 47.619 0.00 0.00 40.22 3.69
5238 8476 2.288886 ACTCACTCTTTGGCGTTACCTC 60.289 50.000 0.00 0.00 40.22 3.85
5239 8477 1.692519 ACTCACTCTTTGGCGTTACCT 59.307 47.619 0.00 0.00 40.22 3.08
5240 8478 1.798813 CACTCACTCTTTGGCGTTACC 59.201 52.381 0.00 0.00 39.84 2.85
5241 8479 2.750948 TCACTCACTCTTTGGCGTTAC 58.249 47.619 0.00 0.00 0.00 2.50
5242 8480 3.325870 CATCACTCACTCTTTGGCGTTA 58.674 45.455 0.00 0.00 0.00 3.18
5243 8481 2.146342 CATCACTCACTCTTTGGCGTT 58.854 47.619 0.00 0.00 0.00 4.84
5244 8482 1.800805 CATCACTCACTCTTTGGCGT 58.199 50.000 0.00 0.00 0.00 5.68
5245 8483 0.445436 GCATCACTCACTCTTTGGCG 59.555 55.000 0.00 0.00 0.00 5.69
5246 8484 1.527034 TGCATCACTCACTCTTTGGC 58.473 50.000 0.00 0.00 0.00 4.52
5247 8485 4.543692 CTTTTGCATCACTCACTCTTTGG 58.456 43.478 0.00 0.00 0.00 3.28
5248 8486 4.037208 ACCTTTTGCATCACTCACTCTTTG 59.963 41.667 0.00 0.00 0.00 2.77
5249 8487 4.210331 ACCTTTTGCATCACTCACTCTTT 58.790 39.130 0.00 0.00 0.00 2.52
5250 8488 3.825328 ACCTTTTGCATCACTCACTCTT 58.175 40.909 0.00 0.00 0.00 2.85
5251 8489 3.498774 ACCTTTTGCATCACTCACTCT 57.501 42.857 0.00 0.00 0.00 3.24
5252 8490 3.565482 TCAACCTTTTGCATCACTCACTC 59.435 43.478 0.00 0.00 32.17 3.51
5253 8491 3.316308 GTCAACCTTTTGCATCACTCACT 59.684 43.478 0.00 0.00 32.17 3.41
5254 8492 3.316308 AGTCAACCTTTTGCATCACTCAC 59.684 43.478 0.00 0.00 32.17 3.51
5255 8493 3.554934 AGTCAACCTTTTGCATCACTCA 58.445 40.909 0.00 0.00 32.17 3.41
5256 8494 4.515191 TGTAGTCAACCTTTTGCATCACTC 59.485 41.667 0.00 0.00 32.17 3.51
5257 8495 4.460263 TGTAGTCAACCTTTTGCATCACT 58.540 39.130 0.00 0.00 32.17 3.41
5258 8496 4.829064 TGTAGTCAACCTTTTGCATCAC 57.171 40.909 0.00 0.00 32.17 3.06
5259 8497 5.069318 TCATGTAGTCAACCTTTTGCATCA 58.931 37.500 0.00 0.00 32.17 3.07
5260 8498 5.627499 TCATGTAGTCAACCTTTTGCATC 57.373 39.130 0.00 0.00 32.17 3.91
5261 8499 5.536161 AGTTCATGTAGTCAACCTTTTGCAT 59.464 36.000 0.00 0.00 32.17 3.96
5262 8500 4.887071 AGTTCATGTAGTCAACCTTTTGCA 59.113 37.500 0.00 0.00 32.17 4.08
5263 8501 5.438761 AGTTCATGTAGTCAACCTTTTGC 57.561 39.130 0.00 0.00 32.17 3.68
5264 8502 8.836413 TCTTTAGTTCATGTAGTCAACCTTTTG 58.164 33.333 0.00 0.00 0.00 2.44
5265 8503 8.974060 TCTTTAGTTCATGTAGTCAACCTTTT 57.026 30.769 0.00 0.00 0.00 2.27
5267 8505 9.877178 CTATCTTTAGTTCATGTAGTCAACCTT 57.123 33.333 0.00 0.00 0.00 3.50
5268 8506 9.256228 TCTATCTTTAGTTCATGTAGTCAACCT 57.744 33.333 0.00 0.00 0.00 3.50
5269 8507 9.522804 CTCTATCTTTAGTTCATGTAGTCAACC 57.477 37.037 0.00 0.00 0.00 3.77
5288 8526 8.941977 CGCTTATGTACAGACTATTCTCTATCT 58.058 37.037 0.33 0.00 0.00 1.98
5289 8527 8.937884 TCGCTTATGTACAGACTATTCTCTATC 58.062 37.037 0.33 0.00 0.00 2.08
5290 8528 8.850007 TCGCTTATGTACAGACTATTCTCTAT 57.150 34.615 0.33 0.00 0.00 1.98
5291 8529 8.672823 TTCGCTTATGTACAGACTATTCTCTA 57.327 34.615 0.33 0.00 0.00 2.43
5292 8530 7.569639 TTCGCTTATGTACAGACTATTCTCT 57.430 36.000 0.33 0.00 0.00 3.10
5293 8531 8.630278 TTTTCGCTTATGTACAGACTATTCTC 57.370 34.615 0.33 0.00 0.00 2.87
5294 8532 9.035607 CATTTTCGCTTATGTACAGACTATTCT 57.964 33.333 0.33 0.00 0.00 2.40
5295 8533 7.794349 GCATTTTCGCTTATGTACAGACTATTC 59.206 37.037 0.33 0.00 0.00 1.75
5296 8534 7.254795 GGCATTTTCGCTTATGTACAGACTATT 60.255 37.037 0.33 0.00 0.00 1.73
5297 8535 6.202954 GGCATTTTCGCTTATGTACAGACTAT 59.797 38.462 0.33 0.00 0.00 2.12
5298 8536 5.522460 GGCATTTTCGCTTATGTACAGACTA 59.478 40.000 0.33 0.00 0.00 2.59
5299 8537 4.332819 GGCATTTTCGCTTATGTACAGACT 59.667 41.667 0.33 0.00 0.00 3.24
5300 8538 4.332819 AGGCATTTTCGCTTATGTACAGAC 59.667 41.667 0.33 0.00 0.00 3.51
5301 8539 4.513442 AGGCATTTTCGCTTATGTACAGA 58.487 39.130 0.33 0.00 0.00 3.41
5302 8540 4.882671 AGGCATTTTCGCTTATGTACAG 57.117 40.909 0.33 0.00 0.00 2.74
5303 8541 4.814234 CCTAGGCATTTTCGCTTATGTACA 59.186 41.667 0.00 0.00 0.00 2.90
5304 8542 5.054477 TCCTAGGCATTTTCGCTTATGTAC 58.946 41.667 2.96 0.00 0.00 2.90
5305 8543 5.284861 TCCTAGGCATTTTCGCTTATGTA 57.715 39.130 2.96 0.00 0.00 2.29
5306 8544 4.130118 CTCCTAGGCATTTTCGCTTATGT 58.870 43.478 2.96 0.00 0.00 2.29
5307 8545 3.058639 GCTCCTAGGCATTTTCGCTTATG 60.059 47.826 2.96 0.00 0.00 1.90
5308 8546 3.142174 GCTCCTAGGCATTTTCGCTTAT 58.858 45.455 2.96 0.00 0.00 1.73
5309 8547 2.093181 TGCTCCTAGGCATTTTCGCTTA 60.093 45.455 2.96 0.00 37.29 3.09
5310 8548 1.340017 TGCTCCTAGGCATTTTCGCTT 60.340 47.619 2.96 0.00 37.29 4.68
5311 8549 0.253044 TGCTCCTAGGCATTTTCGCT 59.747 50.000 2.96 0.00 37.29 4.93
5312 8550 0.378610 GTGCTCCTAGGCATTTTCGC 59.621 55.000 2.96 0.00 44.34 4.70
5313 8551 1.017387 GGTGCTCCTAGGCATTTTCG 58.983 55.000 2.96 0.00 44.34 3.46
5314 8552 2.019984 CAGGTGCTCCTAGGCATTTTC 58.980 52.381 7.08 0.00 43.07 2.29
5315 8553 1.957113 GCAGGTGCTCCTAGGCATTTT 60.957 52.381 7.08 0.00 43.07 1.82
5316 8554 0.394899 GCAGGTGCTCCTAGGCATTT 60.395 55.000 7.08 0.00 43.07 2.32
5317 8555 1.225704 GCAGGTGCTCCTAGGCATT 59.774 57.895 7.08 0.00 43.07 3.56
5318 8556 2.914289 GCAGGTGCTCCTAGGCAT 59.086 61.111 7.08 0.00 43.07 4.40
5319 8557 3.774528 CGCAGGTGCTCCTAGGCA 61.775 66.667 7.08 0.00 43.07 4.75


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

AutoCloner maintained by Alex Coulton.