Multiple sequence alignment - TraesCS2A01G506600

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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 TraesCS2A01G506600 chr2A 100.000 3608 0 0 1 3608 734503895 734507502 0.000000e+00 6663.0
1 TraesCS2A01G506600 chr2A 89.541 392 16 10 3235 3608 734562231 734562615 1.170000e-129 473.0
2 TraesCS2A01G506600 chr2D 92.285 2346 123 19 1203 3500 601051570 601053905 0.000000e+00 3277.0
3 TraesCS2A01G506600 chr2D 82.250 1200 136 44 1 1162 601050408 601051568 0.000000e+00 965.0
4 TraesCS2A01G506600 chr2D 87.546 273 11 10 3349 3605 601106686 601106951 9.800000e-76 294.0
5 TraesCS2A01G506600 chr2B 93.015 1446 73 8 1670 3110 731218924 731220346 0.000000e+00 2085.0
6 TraesCS2A01G506600 chr2B 85.677 775 80 21 1 752 731215865 731216631 0.000000e+00 787.0
7 TraesCS2A01G506600 chr2B 91.753 485 23 8 1199 1668 731218363 731218845 0.000000e+00 658.0
8 TraesCS2A01G506600 chr2B 91.611 298 18 3 864 1156 731217797 731218092 4.340000e-109 405.0
9 TraesCS2A01G506600 chr3A 84.337 83 11 2 183 264 70948323 70948242 2.990000e-11 80.5
10 TraesCS2A01G506600 chr5B 73.958 192 31 15 1 186 372245261 372245439 3.890000e-05 60.2


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 TraesCS2A01G506600 chr2A 734503895 734507502 3607 False 6663.00 6663 100.0000 1 3608 1 chr2A.!!$F1 3607
1 TraesCS2A01G506600 chr2D 601050408 601053905 3497 False 2121.00 3277 87.2675 1 3500 2 chr2D.!!$F2 3499
2 TraesCS2A01G506600 chr2B 731215865 731220346 4481 False 983.75 2085 90.5140 1 3110 4 chr2B.!!$F1 3109

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
963 2105 0.318445 GCAGCAATTCCATCGGATGC 60.318 55.0 12.54 1.61 37.82 3.91 F
1382 2763 0.034059 CCAGCTCAACTCAAGTCGGT 59.966 55.0 0.00 0.00 0.00 4.69 F
1668 3151 0.317020 GTTGAACACGACTGGCTTGC 60.317 55.0 0.00 0.00 0.00 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1780 3263 1.027792 GGGCGAGGCGGAAAACATAA 61.028 55.0 0.0 0.0 0.00 1.90 R
2258 3741 2.990740 ACCCAACCAGGCTTCAATTA 57.009 45.0 0.0 0.0 35.39 1.40 R
3523 5039 0.033366 AACGCCCTCACCAAAAATGC 59.967 50.0 0.0 0.0 0.00 3.56 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
39 40 9.748708 TCAAGAACATTTCCTTTAGTTTGAATG 57.251 29.630 0.00 0.00 0.00 2.67
89 90 7.454260 ACCCTTCTCAAATTCTCAAACATAC 57.546 36.000 0.00 0.00 0.00 2.39
91 92 7.175641 ACCCTTCTCAAATTCTCAAACATACTG 59.824 37.037 0.00 0.00 0.00 2.74
126 127 3.947626 ACACTTTCAAAATCCACGAACG 58.052 40.909 0.00 0.00 0.00 3.95
127 128 2.719046 CACTTTCAAAATCCACGAACGC 59.281 45.455 0.00 0.00 0.00 4.84
136 138 4.795970 AATCCACGAACGCTAATGAATC 57.204 40.909 0.00 0.00 0.00 2.52
143 147 3.541516 CGAACGCTAATGAATCGGTGAAC 60.542 47.826 0.00 0.00 0.00 3.18
221 227 9.434420 TGAACATCTTTTGAATTTGTGAAGTTT 57.566 25.926 0.00 0.00 0.00 2.66
281 306 9.722056 ATCTATTTTCAATACGTGAGCATTTTC 57.278 29.630 0.00 0.00 37.61 2.29
313 376 9.787532 ATTCGTGAACATTTAGTAAAATCCATG 57.212 29.630 0.00 0.00 32.87 3.66
316 381 9.061610 CGTGAACATTTAGTAAAATCCATGAAC 57.938 33.333 0.00 0.00 32.87 3.18
328 393 9.780413 GTAAAATCCATGAACTTCTCTGAATTC 57.220 33.333 0.00 0.00 0.00 2.17
329 394 8.647256 AAAATCCATGAACTTCTCTGAATTCT 57.353 30.769 7.05 0.00 0.00 2.40
334 399 6.538021 CCATGAACTTCTCTGAATTCTCGAAT 59.462 38.462 7.05 0.00 0.00 3.34
495 570 6.089417 CCATGAAAAGTTTTCTAAATCCGTGC 59.911 38.462 24.81 0.11 0.00 5.34
590 666 8.895932 AATGATTTGAAAGTAATTCGCTGTAC 57.104 30.769 0.00 0.00 41.18 2.90
595 671 2.184385 AGTAATTCGCTGTACGGTCG 57.816 50.000 3.10 7.78 43.89 4.79
600 676 1.985447 TTCGCTGTACGGTCGCTAGG 61.985 60.000 11.98 0.00 43.89 3.02
601 677 2.412112 GCTGTACGGTCGCTAGGG 59.588 66.667 3.10 0.00 0.00 3.53
602 678 3.117372 CTGTACGGTCGCTAGGGG 58.883 66.667 6.99 0.00 0.00 4.79
659 747 3.465403 CCCACCTCTCCTCTGGCG 61.465 72.222 0.00 0.00 0.00 5.69
738 1837 2.720758 CGCGGCAAGAGTGTTCGAG 61.721 63.158 0.00 0.00 0.00 4.04
756 1855 9.229784 GTGTTCGAGTCTCGTTGATTTATATAA 57.770 33.333 21.15 1.66 41.35 0.98
768 1867 2.736144 TTATATAAGGGTCTGGCGCG 57.264 50.000 0.00 0.00 34.93 6.86
798 1904 6.411376 TCTTGGAAAGGCTCGTTTATTATGA 58.589 36.000 0.00 0.00 46.24 2.15
802 1908 6.882140 TGGAAAGGCTCGTTTATTATGAAAGA 59.118 34.615 0.00 0.00 0.00 2.52
856 1962 6.097412 AGCTTTTCCTGAACTTCACTCATTTT 59.903 34.615 0.00 0.00 0.00 1.82
901 2043 2.027561 ACGCAGGCTAAACACTCCATTA 60.028 45.455 0.00 0.00 0.00 1.90
921 2063 9.029368 TCCATTATGATTACAACATGTTCCAAA 57.971 29.630 8.48 3.74 0.00 3.28
944 2086 1.415659 CCTCTATCTGTTGAGGCCCAG 59.584 57.143 0.00 0.00 42.62 4.45
963 2105 0.318445 GCAGCAATTCCATCGGATGC 60.318 55.000 12.54 1.61 37.82 3.91
1033 2175 2.754012 TTCTTATGGGGCCAGGAATG 57.246 50.000 4.39 0.00 0.00 2.67
1081 2229 5.376625 TGCACTGATGGGAAATAATACTCC 58.623 41.667 0.00 0.00 0.00 3.85
1082 2230 5.104151 TGCACTGATGGGAAATAATACTCCA 60.104 40.000 0.00 0.00 32.95 3.86
1083 2231 5.239525 GCACTGATGGGAAATAATACTCCAC 59.760 44.000 0.00 0.00 32.95 4.02
1095 2243 0.404040 TACTCCACCTGCCCCTTTTG 59.596 55.000 0.00 0.00 0.00 2.44
1124 2272 6.183361 GGATCTGGAAATCTTGTTATCTCCCT 60.183 42.308 0.00 0.00 0.00 4.20
1125 2273 7.016661 GGATCTGGAAATCTTGTTATCTCCCTA 59.983 40.741 0.00 0.00 0.00 3.53
1174 2322 5.590530 TTTTAGGCAAGTTTTTGAGCTGA 57.409 34.783 0.00 0.00 36.36 4.26
1175 2323 4.568152 TTAGGCAAGTTTTTGAGCTGAC 57.432 40.909 0.00 0.00 36.36 3.51
1177 2325 2.360165 AGGCAAGTTTTTGAGCTGACTG 59.640 45.455 0.00 0.00 36.36 3.51
1178 2326 2.358898 GGCAAGTTTTTGAGCTGACTGA 59.641 45.455 0.00 0.00 36.36 3.41
1180 2328 3.979495 GCAAGTTTTTGAGCTGACTGATG 59.021 43.478 0.00 0.00 36.36 3.07
1182 2330 5.585390 CAAGTTTTTGAGCTGACTGATGTT 58.415 37.500 0.00 0.00 36.36 2.71
1184 2332 6.942532 AGTTTTTGAGCTGACTGATGTTAA 57.057 33.333 0.00 0.00 0.00 2.01
1186 2334 7.945134 AGTTTTTGAGCTGACTGATGTTAAAT 58.055 30.769 0.00 0.00 0.00 1.40
1187 2335 9.066892 AGTTTTTGAGCTGACTGATGTTAAATA 57.933 29.630 0.00 0.00 0.00 1.40
1188 2336 9.677567 GTTTTTGAGCTGACTGATGTTAAATAA 57.322 29.630 0.00 0.00 0.00 1.40
1191 2339 9.844790 TTTGAGCTGACTGATGTTAAATAAATG 57.155 29.630 0.00 0.00 0.00 2.32
1192 2340 8.791327 TGAGCTGACTGATGTTAAATAAATGA 57.209 30.769 0.00 0.00 0.00 2.57
1196 2344 9.162793 GCTGACTGATGTTAAATAAATGATTCG 57.837 33.333 0.00 0.00 0.00 3.34
1280 2658 3.316573 GACCCGGCCCAAGTCTCAG 62.317 68.421 0.00 0.00 0.00 3.35
1283 2661 1.218316 CCGGCCCAAGTCTCAGTAC 59.782 63.158 0.00 0.00 0.00 2.73
1316 2697 4.244066 CCTCCGAATCAGATCATCATCAC 58.756 47.826 0.00 0.00 0.00 3.06
1382 2763 0.034059 CCAGCTCAACTCAAGTCGGT 59.966 55.000 0.00 0.00 0.00 4.69
1487 2868 4.833390 CCGAGATGGTACTTTTCTTCCTT 58.167 43.478 0.00 0.00 0.00 3.36
1488 2869 4.870991 CCGAGATGGTACTTTTCTTCCTTC 59.129 45.833 0.00 0.00 0.00 3.46
1500 2881 0.621082 CTTCCTTCCCCCAACTCTCC 59.379 60.000 0.00 0.00 0.00 3.71
1505 2886 3.083997 CCCCCAACTCTCCCCGAG 61.084 72.222 0.00 0.00 45.56 4.63
1507 2888 4.148825 CCCAACTCTCCCCGAGCG 62.149 72.222 0.00 0.00 43.85 5.03
1530 2911 1.352056 GCGCGTTCTTGGATAAGCC 59.648 57.895 8.43 0.00 33.82 4.35
1635 3041 1.816224 GTGGTCAAATGCGGTATGGTT 59.184 47.619 0.00 0.00 0.00 3.67
1637 3043 1.134175 GGTCAAATGCGGTATGGTTGG 59.866 52.381 0.00 0.00 0.00 3.77
1651 3057 3.237268 TGGTTGGCCAGTAGAAATGTT 57.763 42.857 5.11 0.00 40.46 2.71
1668 3151 0.317020 GTTGAACACGACTGGCTTGC 60.317 55.000 0.00 0.00 0.00 4.01
1684 3167 3.198872 GCTTGCAGGTCCTATCTGTAAC 58.801 50.000 0.00 0.00 34.21 2.50
1726 3209 3.614092 CAGCTGGTCAGTATTCACCAAT 58.386 45.455 5.57 0.00 42.28 3.16
1730 3213 5.130975 AGCTGGTCAGTATTCACCAATCATA 59.869 40.000 0.00 0.00 42.28 2.15
1735 3218 7.833682 TGGTCAGTATTCACCAATCATACAATT 59.166 33.333 0.00 0.00 39.85 2.32
1742 3225 4.402155 TCACCAATCATACAATTTGGGAGC 59.598 41.667 0.78 0.00 43.39 4.70
1780 3263 1.915078 CTCCGGTTTGCCTGGAGGAT 61.915 60.000 0.00 0.00 44.43 3.24
1785 3268 2.683742 CGGTTTGCCTGGAGGATTATGT 60.684 50.000 0.00 0.00 37.39 2.29
1792 3275 2.618709 CCTGGAGGATTATGTTTTCCGC 59.381 50.000 0.00 0.00 37.10 5.54
1828 3311 7.093322 AGTTTCAGCTTAAAATGGCAGATAG 57.907 36.000 0.00 0.00 0.00 2.08
1853 3336 8.972127 AGTAGTTTGTAGCATAGAAATGAGAGA 58.028 33.333 0.00 0.00 36.18 3.10
1985 3468 8.943594 TTAATGGTAGTGTTATGGTCCTTTTT 57.056 30.769 0.00 0.00 0.00 1.94
2080 3563 2.552315 AGGTTTGGCGTTATGTGAAGTG 59.448 45.455 0.00 0.00 0.00 3.16
2203 3686 1.681264 TCTGCAGTCGAGTGAGTTGAA 59.319 47.619 24.34 0.00 0.00 2.69
2207 3690 3.059884 GCAGTCGAGTGAGTTGAATTGA 58.940 45.455 24.34 0.00 0.00 2.57
2258 3741 8.361139 CCGATATAGTAAAGGAGTGATTCTTGT 58.639 37.037 0.00 0.00 0.00 3.16
2286 3769 1.407025 GCCTGGTTGGGTAGCTCTTAC 60.407 57.143 0.00 0.00 36.00 2.34
2303 3786 7.588512 AGCTCTTACTTTGCTTAAAATGACAG 58.411 34.615 0.00 0.00 32.61 3.51
2603 4092 9.170734 TCAGCTTCTAATGCATATTTGGATATC 57.829 33.333 0.00 0.00 31.96 1.63
2696 4185 3.860605 TGCGGTGTGGTGTGCTCT 61.861 61.111 0.00 0.00 0.00 4.09
2697 4186 2.591715 GCGGTGTGGTGTGCTCTT 60.592 61.111 0.00 0.00 0.00 2.85
2698 4187 2.186826 GCGGTGTGGTGTGCTCTTT 61.187 57.895 0.00 0.00 0.00 2.52
2701 4190 0.465460 GGTGTGGTGTGCTCTTTCCA 60.465 55.000 0.00 0.00 0.00 3.53
2703 4192 3.403936 GTGGTGTGCTCTTTCCACT 57.596 52.632 15.49 0.00 44.57 4.00
2704 4193 0.947244 GTGGTGTGCTCTTTCCACTG 59.053 55.000 15.49 0.00 44.57 3.66
2706 4195 0.108585 GGTGTGCTCTTTCCACTGGA 59.891 55.000 0.00 0.00 34.38 3.86
2707 4196 1.476833 GGTGTGCTCTTTCCACTGGAA 60.477 52.381 6.39 6.39 40.27 3.53
2708 4197 2.508526 GTGTGCTCTTTCCACTGGAAT 58.491 47.619 11.47 0.00 41.71 3.01
2709 4198 3.559171 GGTGTGCTCTTTCCACTGGAATA 60.559 47.826 11.47 2.69 41.71 1.75
2710 4199 4.265073 GTGTGCTCTTTCCACTGGAATAT 58.735 43.478 11.47 0.00 41.71 1.28
2711 4200 4.333926 GTGTGCTCTTTCCACTGGAATATC 59.666 45.833 11.47 2.84 41.71 1.63
2712 4201 4.019411 TGTGCTCTTTCCACTGGAATATCA 60.019 41.667 11.47 5.19 41.71 2.15
2715 4204 5.425217 TGCTCTTTCCACTGGAATATCAGTA 59.575 40.000 11.47 2.72 45.24 2.74
2716 4205 6.100279 TGCTCTTTCCACTGGAATATCAGTAT 59.900 38.462 11.47 0.00 45.24 2.12
2872 4365 5.643379 TTACATTTGAAGGATGAACTGCC 57.357 39.130 0.00 0.00 0.00 4.85
2873 4366 2.489329 ACATTTGAAGGATGAACTGCCG 59.511 45.455 0.00 0.00 0.00 5.69
2934 4427 6.899393 ATACATTTCTCTTTGCAGTTGGAA 57.101 33.333 0.00 0.00 0.00 3.53
2979 4472 2.161609 CGCACCTTGGAACTAATGGAAC 59.838 50.000 0.00 0.00 0.00 3.62
3005 4499 4.021368 ACAGGTGTTGACATAGTAGGTGTC 60.021 45.833 0.00 0.00 44.77 3.67
3110 4604 7.132694 ACCATGTGATGTAATGCATTATACG 57.867 36.000 21.52 9.13 38.06 3.06
3136 4630 1.523758 AGTCCCTTTGAATGACGTGC 58.476 50.000 0.00 0.00 34.24 5.34
3158 4652 3.134458 GTGTTCCACTCAAGACCAGAAG 58.866 50.000 0.00 0.00 0.00 2.85
3216 4710 7.222417 CAGCACTATGATTCTTACTGAAGAGTG 59.778 40.741 0.00 0.00 42.66 3.51
3218 4712 7.631594 GCACTATGATTCTTACTGAAGAGTGGA 60.632 40.741 0.00 0.00 42.66 4.02
3314 4830 8.156820 TCCATGTATAAATCACCTGGTCAATAG 58.843 37.037 0.00 0.00 34.41 1.73
3336 4852 4.159135 AGCTAAAATTGCCAGGTCAAGATG 59.841 41.667 0.00 0.00 0.00 2.90
3445 4961 2.629137 TGCCATGAGTGACAAAAGCAAT 59.371 40.909 0.00 0.00 32.04 3.56
3469 4985 8.682936 ATGAAGGGAGATTGTCAACATAATAC 57.317 34.615 0.00 0.00 0.00 1.89
3470 4986 7.629157 TGAAGGGAGATTGTCAACATAATACA 58.371 34.615 0.00 0.00 0.00 2.29
3471 4987 7.770433 TGAAGGGAGATTGTCAACATAATACAG 59.230 37.037 0.00 0.00 0.00 2.74
3472 4988 7.200434 AGGGAGATTGTCAACATAATACAGT 57.800 36.000 0.00 0.00 0.00 3.55
3473 4989 8.319057 AGGGAGATTGTCAACATAATACAGTA 57.681 34.615 0.00 0.00 0.00 2.74
3504 5020 9.583765 AGGAGTATATAAGAAACAGAAAACGAC 57.416 33.333 0.00 0.00 0.00 4.34
3505 5021 9.362539 GGAGTATATAAGAAACAGAAAACGACA 57.637 33.333 0.00 0.00 0.00 4.35
3507 5023 9.924650 AGTATATAAGAAACAGAAAACGACAGT 57.075 29.630 0.00 0.00 0.00 3.55
3513 5029 8.443898 AAGAAACAGAAAACGACAGTAAAAAC 57.556 30.769 0.00 0.00 0.00 2.43
3514 5030 7.586747 AGAAACAGAAAACGACAGTAAAAACA 58.413 30.769 0.00 0.00 0.00 2.83
3515 5031 7.749126 AGAAACAGAAAACGACAGTAAAAACAG 59.251 33.333 0.00 0.00 0.00 3.16
3516 5032 6.730960 ACAGAAAACGACAGTAAAAACAGA 57.269 33.333 0.00 0.00 0.00 3.41
3517 5033 6.772078 ACAGAAAACGACAGTAAAAACAGAG 58.228 36.000 0.00 0.00 0.00 3.35
3518 5034 6.592607 ACAGAAAACGACAGTAAAAACAGAGA 59.407 34.615 0.00 0.00 0.00 3.10
3519 5035 7.119997 CAGAAAACGACAGTAAAAACAGAGAG 58.880 38.462 0.00 0.00 0.00 3.20
3520 5036 5.986004 AAACGACAGTAAAAACAGAGAGG 57.014 39.130 0.00 0.00 0.00 3.69
3521 5037 3.991367 ACGACAGTAAAAACAGAGAGGG 58.009 45.455 0.00 0.00 0.00 4.30
3522 5038 3.387050 ACGACAGTAAAAACAGAGAGGGT 59.613 43.478 0.00 0.00 0.00 4.34
3523 5039 3.741344 CGACAGTAAAAACAGAGAGGGTG 59.259 47.826 0.00 0.00 0.00 4.61
3524 5040 3.477530 ACAGTAAAAACAGAGAGGGTGC 58.522 45.455 0.00 0.00 0.00 5.01
3525 5041 3.118038 ACAGTAAAAACAGAGAGGGTGCA 60.118 43.478 0.00 0.00 0.00 4.57
3526 5042 4.074970 CAGTAAAAACAGAGAGGGTGCAT 58.925 43.478 0.00 0.00 0.00 3.96
3527 5043 4.520492 CAGTAAAAACAGAGAGGGTGCATT 59.480 41.667 0.00 0.00 0.00 3.56
3528 5044 5.010012 CAGTAAAAACAGAGAGGGTGCATTT 59.990 40.000 0.00 0.00 0.00 2.32
3529 5045 5.598417 AGTAAAAACAGAGAGGGTGCATTTT 59.402 36.000 0.00 0.00 0.00 1.82
3530 5046 5.357742 AAAAACAGAGAGGGTGCATTTTT 57.642 34.783 0.00 0.00 0.00 1.94
3531 5047 4.326504 AAACAGAGAGGGTGCATTTTTG 57.673 40.909 0.00 0.00 0.00 2.44
3532 5048 2.242043 ACAGAGAGGGTGCATTTTTGG 58.758 47.619 0.00 0.00 0.00 3.28
3533 5049 2.242043 CAGAGAGGGTGCATTTTTGGT 58.758 47.619 0.00 0.00 0.00 3.67
3534 5050 2.029649 CAGAGAGGGTGCATTTTTGGTG 60.030 50.000 0.00 0.00 0.00 4.17
3535 5051 2.158475 AGAGAGGGTGCATTTTTGGTGA 60.158 45.455 0.00 0.00 0.00 4.02
3536 5052 2.229784 GAGAGGGTGCATTTTTGGTGAG 59.770 50.000 0.00 0.00 0.00 3.51
3537 5053 1.273327 GAGGGTGCATTTTTGGTGAGG 59.727 52.381 0.00 0.00 0.00 3.86
3538 5054 0.321346 GGGTGCATTTTTGGTGAGGG 59.679 55.000 0.00 0.00 0.00 4.30
3539 5055 0.320683 GGTGCATTTTTGGTGAGGGC 60.321 55.000 0.00 0.00 0.00 5.19
3540 5056 0.667184 GTGCATTTTTGGTGAGGGCG 60.667 55.000 0.00 0.00 0.00 6.13
3541 5057 1.112315 TGCATTTTTGGTGAGGGCGT 61.112 50.000 0.00 0.00 0.00 5.68
3542 5058 0.033366 GCATTTTTGGTGAGGGCGTT 59.967 50.000 0.00 0.00 0.00 4.84
3543 5059 1.782044 CATTTTTGGTGAGGGCGTTG 58.218 50.000 0.00 0.00 0.00 4.10
3544 5060 1.339610 CATTTTTGGTGAGGGCGTTGA 59.660 47.619 0.00 0.00 0.00 3.18
3545 5061 0.741915 TTTTTGGTGAGGGCGTTGAC 59.258 50.000 0.00 0.00 0.00 3.18
3546 5062 0.394488 TTTTGGTGAGGGCGTTGACA 60.394 50.000 0.00 0.00 0.00 3.58
3547 5063 0.817634 TTTGGTGAGGGCGTTGACAG 60.818 55.000 0.00 0.00 0.00 3.51
3548 5064 3.050275 GGTGAGGGCGTTGACAGC 61.050 66.667 0.00 0.00 0.00 4.40
3549 5065 2.280797 GTGAGGGCGTTGACAGCA 60.281 61.111 0.00 0.00 36.08 4.41
3550 5066 1.891919 GTGAGGGCGTTGACAGCAA 60.892 57.895 0.00 0.00 36.08 3.91
3560 5076 2.576615 GTTGACAGCAACCTCCTTTCT 58.423 47.619 0.00 0.00 46.80 2.52
3561 5077 2.550180 GTTGACAGCAACCTCCTTTCTC 59.450 50.000 0.00 0.00 46.80 2.87
3562 5078 2.050144 TGACAGCAACCTCCTTTCTCT 58.950 47.619 0.00 0.00 0.00 3.10
3563 5079 2.037772 TGACAGCAACCTCCTTTCTCTC 59.962 50.000 0.00 0.00 0.00 3.20
3564 5080 2.301583 GACAGCAACCTCCTTTCTCTCT 59.698 50.000 0.00 0.00 0.00 3.10
3565 5081 2.301583 ACAGCAACCTCCTTTCTCTCTC 59.698 50.000 0.00 0.00 0.00 3.20
3566 5082 2.301296 CAGCAACCTCCTTTCTCTCTCA 59.699 50.000 0.00 0.00 0.00 3.27
3567 5083 3.055240 CAGCAACCTCCTTTCTCTCTCAT 60.055 47.826 0.00 0.00 0.00 2.90
3568 5084 3.055240 AGCAACCTCCTTTCTCTCTCATG 60.055 47.826 0.00 0.00 0.00 3.07
3569 5085 3.307339 GCAACCTCCTTTCTCTCTCATGT 60.307 47.826 0.00 0.00 0.00 3.21
3570 5086 4.502962 CAACCTCCTTTCTCTCTCATGTC 58.497 47.826 0.00 0.00 0.00 3.06
3571 5087 4.059773 ACCTCCTTTCTCTCTCATGTCT 57.940 45.455 0.00 0.00 0.00 3.41
3572 5088 5.199982 ACCTCCTTTCTCTCTCATGTCTA 57.800 43.478 0.00 0.00 0.00 2.59
3573 5089 5.776358 ACCTCCTTTCTCTCTCATGTCTAT 58.224 41.667 0.00 0.00 0.00 1.98
3574 5090 6.916909 ACCTCCTTTCTCTCTCATGTCTATA 58.083 40.000 0.00 0.00 0.00 1.31
3575 5091 7.358263 ACCTCCTTTCTCTCTCATGTCTATAA 58.642 38.462 0.00 0.00 0.00 0.98
3576 5092 7.841729 ACCTCCTTTCTCTCTCATGTCTATAAA 59.158 37.037 0.00 0.00 0.00 1.40
3577 5093 8.700051 CCTCCTTTCTCTCTCATGTCTATAAAA 58.300 37.037 0.00 0.00 0.00 1.52
3588 5104 9.716531 TCTCATGTCTATAAAATCATCATCACC 57.283 33.333 0.00 0.00 0.00 4.02
3589 5105 9.498176 CTCATGTCTATAAAATCATCATCACCA 57.502 33.333 0.00 0.00 0.00 4.17
3590 5106 9.850198 TCATGTCTATAAAATCATCATCACCAA 57.150 29.630 0.00 0.00 0.00 3.67
3595 5111 9.453572 TCTATAAAATCATCATCACCAATAGCC 57.546 33.333 0.00 0.00 0.00 3.93
3596 5112 5.796424 AAAATCATCATCACCAATAGCCC 57.204 39.130 0.00 0.00 0.00 5.19
3597 5113 2.957402 TCATCATCACCAATAGCCCC 57.043 50.000 0.00 0.00 0.00 5.80
3598 5114 2.134354 TCATCATCACCAATAGCCCCA 58.866 47.619 0.00 0.00 0.00 4.96
3599 5115 2.158623 TCATCATCACCAATAGCCCCAC 60.159 50.000 0.00 0.00 0.00 4.61
3600 5116 1.294041 TCATCACCAATAGCCCCACA 58.706 50.000 0.00 0.00 0.00 4.17
3601 5117 1.638070 TCATCACCAATAGCCCCACAA 59.362 47.619 0.00 0.00 0.00 3.33
3602 5118 2.244510 TCATCACCAATAGCCCCACAAT 59.755 45.455 0.00 0.00 0.00 2.71
3603 5119 2.917713 TCACCAATAGCCCCACAATT 57.082 45.000 0.00 0.00 0.00 2.32
3604 5120 2.733956 TCACCAATAGCCCCACAATTC 58.266 47.619 0.00 0.00 0.00 2.17
3605 5121 1.756538 CACCAATAGCCCCACAATTCC 59.243 52.381 0.00 0.00 0.00 3.01
3606 5122 1.645919 ACCAATAGCCCCACAATTCCT 59.354 47.619 0.00 0.00 0.00 3.36
3607 5123 2.856231 ACCAATAGCCCCACAATTCCTA 59.144 45.455 0.00 0.00 0.00 2.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 9.804547 TTCAAAAATTTTAAATAATGCGAGTGC 57.195 25.926 3.34 0.00 43.20 4.40
61 62 6.379703 TGTTTGAGAATTTGAGAAGGGTTCAA 59.620 34.615 0.00 0.00 33.00 2.69
263 269 7.441890 TTTAAGGAAAATGCTCACGTATTGA 57.558 32.000 0.00 0.00 0.00 2.57
274 280 7.581011 ATGTTCACGAATTTAAGGAAAATGC 57.419 32.000 0.00 0.00 37.85 3.56
308 371 5.185828 TCGAGAATTCAGAGAAGTTCATGGA 59.814 40.000 8.44 0.00 0.00 3.41
311 374 9.829507 AATATTCGAGAATTCAGAGAAGTTCAT 57.170 29.630 8.44 0.00 32.50 2.57
430 505 7.609960 TGCAGTTCAAAAATGCCTGAATATTA 58.390 30.769 9.31 0.00 39.22 0.98
433 508 5.465532 TGCAGTTCAAAAATGCCTGAATA 57.534 34.783 9.31 0.00 39.22 1.75
434 509 4.339872 TGCAGTTCAAAAATGCCTGAAT 57.660 36.364 9.31 0.00 39.22 2.57
435 510 3.815856 TGCAGTTCAAAAATGCCTGAA 57.184 38.095 9.31 0.00 39.22 3.02
467 542 9.238368 ACGGATTTAGAAAACTTTTCATGGATA 57.762 29.630 15.17 0.00 0.00 2.59
470 545 6.089417 GCACGGATTTAGAAAACTTTTCATGG 59.911 38.462 15.17 2.06 0.00 3.66
578 654 0.452987 AGCGACCGTACAGCGAATTA 59.547 50.000 3.56 0.00 44.77 1.40
584 660 2.412112 CCCTAGCGACCGTACAGC 59.588 66.667 0.00 0.00 0.00 4.40
586 662 2.440796 CCCCCTAGCGACCGTACA 60.441 66.667 0.00 0.00 0.00 2.90
659 747 1.001406 CCATGGATCGCCTTAGAGGTC 59.999 57.143 5.56 0.00 37.80 3.85
719 807 3.777925 CGAACACTCTTGCCGCGG 61.778 66.667 24.05 24.05 0.00 6.46
738 1837 7.599245 CCAGACCCTTATATAAATCAACGAGAC 59.401 40.741 0.00 0.00 0.00 3.36
775 1875 6.677781 TCATAATAAACGAGCCTTTCCAAG 57.322 37.500 0.00 0.00 0.00 3.61
798 1904 7.754091 AATATCCCCATTCCAAATGTTCTTT 57.246 32.000 0.00 0.00 0.00 2.52
827 1933 4.949856 AGTGAAGTTCAGGAAAAGCTTTCA 59.050 37.500 13.10 0.00 0.00 2.69
830 1936 4.526970 TGAGTGAAGTTCAGGAAAAGCTT 58.473 39.130 5.62 0.00 0.00 3.74
856 1962 9.196552 CGTAATGCAGATGTTATCTTCATAAGA 57.803 33.333 4.77 0.00 41.35 2.10
875 2017 1.737793 AGTGTTTAGCCTGCGTAATGC 59.262 47.619 0.00 0.00 46.70 3.56
881 2023 1.453155 AATGGAGTGTTTAGCCTGCG 58.547 50.000 0.00 0.00 0.00 5.18
901 2043 6.070653 AGGCATTTGGAACATGTTGTAATCAT 60.071 34.615 17.58 0.00 39.30 2.45
944 2086 0.318445 GCATCCGATGGAATTGCTGC 60.318 55.000 10.41 0.00 35.53 5.25
963 2105 5.105554 AGCTCGCATTATCCAGAAGTATAGG 60.106 44.000 0.00 0.00 0.00 2.57
1081 2229 0.609662 CCATTCAAAAGGGGCAGGTG 59.390 55.000 0.00 0.00 0.00 4.00
1082 2230 0.486879 TCCATTCAAAAGGGGCAGGT 59.513 50.000 0.00 0.00 0.00 4.00
1083 2231 1.758862 GATCCATTCAAAAGGGGCAGG 59.241 52.381 0.00 0.00 0.00 4.85
1095 2243 8.688747 AGATAACAAGATTTCCAGATCCATTC 57.311 34.615 0.00 0.00 0.00 2.67
1124 2272 8.165239 AGTCAGCTGAAAAACATGTGTTTATA 57.835 30.769 20.19 5.96 46.47 0.98
1125 2273 7.042797 AGTCAGCTGAAAAACATGTGTTTAT 57.957 32.000 20.19 0.00 46.47 1.40
1162 2310 9.677567 TTATTTAACATCAGTCAGCTCAAAAAC 57.322 29.630 0.00 0.00 0.00 2.43
1165 2313 9.844790 CATTTATTTAACATCAGTCAGCTCAAA 57.155 29.630 0.00 0.00 0.00 2.69
1166 2314 9.230122 TCATTTATTTAACATCAGTCAGCTCAA 57.770 29.630 0.00 0.00 0.00 3.02
1167 2315 8.791327 TCATTTATTTAACATCAGTCAGCTCA 57.209 30.769 0.00 0.00 0.00 4.26
1170 2318 9.162793 CGAATCATTTATTTAACATCAGTCAGC 57.837 33.333 0.00 0.00 0.00 4.26
1173 2321 9.358123 CGTCGAATCATTTATTTAACATCAGTC 57.642 33.333 0.00 0.00 0.00 3.51
1174 2322 7.850982 GCGTCGAATCATTTATTTAACATCAGT 59.149 33.333 0.00 0.00 0.00 3.41
1175 2323 8.064222 AGCGTCGAATCATTTATTTAACATCAG 58.936 33.333 0.00 0.00 0.00 2.90
1177 2325 8.061857 TGAGCGTCGAATCATTTATTTAACATC 58.938 33.333 0.00 0.00 0.00 3.06
1178 2326 7.915508 TGAGCGTCGAATCATTTATTTAACAT 58.084 30.769 0.00 0.00 0.00 2.71
1180 2328 7.149288 GCATGAGCGTCGAATCATTTATTTAAC 60.149 37.037 9.83 0.00 33.91 2.01
1182 2330 6.362686 GCATGAGCGTCGAATCATTTATTTA 58.637 36.000 9.83 0.00 33.91 1.40
1184 2332 4.776743 GCATGAGCGTCGAATCATTTATT 58.223 39.130 9.83 0.00 33.91 1.40
1186 2334 3.859745 GCATGAGCGTCGAATCATTTA 57.140 42.857 9.83 0.00 33.91 1.40
1187 2335 2.744787 GCATGAGCGTCGAATCATTT 57.255 45.000 9.83 0.00 33.91 2.32
1191 2339 3.545202 GCACAGCATGAGCGTCGAATC 62.545 57.143 0.00 0.00 44.00 2.52
1192 2340 1.699656 GCACAGCATGAGCGTCGAAT 61.700 55.000 0.00 0.00 44.00 3.34
1194 2342 2.810887 GCACAGCATGAGCGTCGA 60.811 61.111 0.00 0.00 44.00 4.20
1280 2658 1.325476 CGGAGGGTGGTGGGTAGTAC 61.325 65.000 0.00 0.00 0.00 2.73
1283 2661 0.981277 ATTCGGAGGGTGGTGGGTAG 60.981 60.000 0.00 0.00 0.00 3.18
1316 2697 1.088306 ACTACGGCAGAGTTCGAGAG 58.912 55.000 0.00 0.00 0.00 3.20
1382 2763 3.224324 GGCGGCTGGACGGATCTA 61.224 66.667 0.00 0.00 0.00 1.98
1487 2868 3.607299 TCGGGGAGAGTTGGGGGA 61.607 66.667 0.00 0.00 0.00 4.81
1488 2869 3.083997 CTCGGGGAGAGTTGGGGG 61.084 72.222 0.00 0.00 41.99 5.40
1530 2911 2.480426 GAAGAGACGCGGCGTGTTTG 62.480 60.000 34.44 0.00 41.37 2.93
1579 2966 6.575162 ACACTAATCTCGCCAAAAGAAAAT 57.425 33.333 0.00 0.00 0.00 1.82
1635 3041 3.568007 GTGTTCAACATTTCTACTGGCCA 59.432 43.478 4.71 4.71 0.00 5.36
1637 3043 3.496884 TCGTGTTCAACATTTCTACTGGC 59.503 43.478 0.00 0.00 0.00 4.85
1651 3057 1.153269 TGCAAGCCAGTCGTGTTCA 60.153 52.632 0.00 0.00 0.00 3.18
1668 3151 6.037610 GCAAATTCAGTTACAGATAGGACCTG 59.962 42.308 3.53 0.00 37.64 4.00
1684 3167 2.223340 GCCGTCCACATAGCAAATTCAG 60.223 50.000 0.00 0.00 0.00 3.02
1726 3209 6.351202 CCAAATCTTGCTCCCAAATTGTATGA 60.351 38.462 0.00 0.00 0.00 2.15
1730 3213 3.647590 ACCAAATCTTGCTCCCAAATTGT 59.352 39.130 0.00 0.00 0.00 2.71
1735 3218 2.673775 TCACCAAATCTTGCTCCCAA 57.326 45.000 0.00 0.00 0.00 4.12
1742 3225 5.215160 CGGAGAAAACTTCACCAAATCTTG 58.785 41.667 4.16 0.00 40.00 3.02
1780 3263 1.027792 GGGCGAGGCGGAAAACATAA 61.028 55.000 0.00 0.00 0.00 1.90
1792 3275 2.186125 GAAACTACCCGGGCGAGG 59.814 66.667 24.08 10.85 0.00 4.63
1828 3311 9.757227 ATCTCTCATTTCTATGCTACAAACTAC 57.243 33.333 0.00 0.00 0.00 2.73
1850 3333 8.524870 ACAAAGCAAACATGTGAAATTATCTC 57.475 30.769 0.00 0.00 0.00 2.75
1865 3348 3.705604 TGCAGCTCTAAACAAAGCAAAC 58.294 40.909 0.00 0.00 41.06 2.93
1916 3399 9.681692 GCAAATTACATGATAAATATGCTGTGA 57.318 29.630 0.00 0.00 0.00 3.58
1985 3468 6.098982 CCTTCTTTCTTGGCTTCTCTATCCTA 59.901 42.308 0.00 0.00 0.00 2.94
2080 3563 5.744490 ACCGCAATTTACAAAGATATACGC 58.256 37.500 0.00 0.00 0.00 4.42
2109 3592 9.988815 CATAAGAAGTAGACATAATTAGCCAGT 57.011 33.333 0.00 0.00 0.00 4.00
2207 3690 8.567104 GGTCAAGAAAATAAACATGCCAAAATT 58.433 29.630 0.00 0.00 0.00 1.82
2225 3708 7.558807 TCACTCCTTTACTATATCGGTCAAGAA 59.441 37.037 5.00 0.00 0.00 2.52
2258 3741 2.990740 ACCCAACCAGGCTTCAATTA 57.009 45.000 0.00 0.00 35.39 1.40
2303 3786 3.057876 TCGACCCACACACATTATTTTGC 60.058 43.478 0.00 0.00 0.00 3.68
2505 3988 4.981806 TGGCATTAGGAGTATTTTGCAC 57.018 40.909 0.00 0.00 0.00 4.57
2624 4113 8.904099 AATGTTAGCTATGTGGAATAGTTACC 57.096 34.615 0.00 0.00 0.00 2.85
2683 4172 3.094386 TGGAAAGAGCACACCACAC 57.906 52.632 0.00 0.00 0.00 3.82
2696 4185 7.861629 ACTGAATACTGATATTCCAGTGGAAA 58.138 34.615 27.93 17.06 45.41 3.13
2697 4186 7.437713 ACTGAATACTGATATTCCAGTGGAA 57.562 36.000 26.54 26.54 46.00 3.53
2698 4187 7.563556 TGTACTGAATACTGATATTCCAGTGGA 59.436 37.037 8.12 8.12 46.00 4.02
2701 4190 7.928706 GCTTGTACTGAATACTGATATTCCAGT 59.071 37.037 0.00 0.00 44.26 4.00
2703 4192 7.928167 CAGCTTGTACTGAATACTGATATTCCA 59.072 37.037 4.94 0.00 44.26 3.53
2704 4193 7.095439 GCAGCTTGTACTGAATACTGATATTCC 60.095 40.741 4.94 0.00 44.26 3.01
2706 4195 7.504403 AGCAGCTTGTACTGAATACTGATATT 58.496 34.615 0.00 0.00 40.25 1.28
2707 4196 7.060383 AGCAGCTTGTACTGAATACTGATAT 57.940 36.000 0.00 0.00 40.25 1.63
2708 4197 6.471233 AGCAGCTTGTACTGAATACTGATA 57.529 37.500 0.00 0.00 40.25 2.15
2709 4198 5.350504 AGCAGCTTGTACTGAATACTGAT 57.649 39.130 0.00 0.00 40.25 2.90
2710 4199 4.808414 AGCAGCTTGTACTGAATACTGA 57.192 40.909 0.00 0.00 40.25 3.41
2711 4200 5.869753 AAAGCAGCTTGTACTGAATACTG 57.130 39.130 8.88 0.00 40.25 2.74
2712 4201 6.702329 AGTAAAGCAGCTTGTACTGAATACT 58.298 36.000 20.34 14.08 40.25 2.12
2714 4203 7.364522 CAAGTAAAGCAGCTTGTACTGAATA 57.635 36.000 21.13 3.67 40.25 1.75
2715 4204 6.246420 CAAGTAAAGCAGCTTGTACTGAAT 57.754 37.500 21.13 10.27 40.25 2.57
2716 4205 5.673337 CAAGTAAAGCAGCTTGTACTGAA 57.327 39.130 21.13 0.00 40.25 3.02
2872 4365 5.065218 CCAATTTCTAACAAGACCATCTCCG 59.935 44.000 0.00 0.00 0.00 4.63
2873 4366 6.094186 GTCCAATTTCTAACAAGACCATCTCC 59.906 42.308 0.00 0.00 0.00 3.71
2934 4427 7.412020 GCGTCGATCTTCAAATTCTTAAGTTCT 60.412 37.037 1.63 0.00 0.00 3.01
3005 4499 7.175467 TGAAGAGGCATATATATTTGCTTGGTG 59.825 37.037 22.29 0.00 38.88 4.17
3110 4604 3.942115 GTCATTCAAAGGGACTAAGGAGC 59.058 47.826 0.00 0.00 38.49 4.70
3204 4698 5.306937 TGGAGTTGATTCCACTCTTCAGTAA 59.693 40.000 15.29 0.00 42.24 2.24
3232 4726 8.562892 GCACTGCTCTACAACATCAAATATTAT 58.437 33.333 0.00 0.00 0.00 1.28
3233 4727 7.770433 AGCACTGCTCTACAACATCAAATATTA 59.230 33.333 0.00 0.00 30.62 0.98
3234 4728 6.600822 AGCACTGCTCTACAACATCAAATATT 59.399 34.615 0.00 0.00 30.62 1.28
3235 4729 6.118170 AGCACTGCTCTACAACATCAAATAT 58.882 36.000 0.00 0.00 30.62 1.28
3236 4730 5.491070 AGCACTGCTCTACAACATCAAATA 58.509 37.500 0.00 0.00 30.62 1.40
3238 4732 3.743521 AGCACTGCTCTACAACATCAAA 58.256 40.909 0.00 0.00 30.62 2.69
3241 4735 3.862267 CAGTAGCACTGCTCTACAACATC 59.138 47.826 6.86 0.00 39.62 3.06
3242 4736 3.854666 CAGTAGCACTGCTCTACAACAT 58.145 45.455 6.86 0.00 39.62 2.71
3243 4737 3.303881 CAGTAGCACTGCTCTACAACA 57.696 47.619 6.86 0.00 39.62 3.33
3255 4771 5.224562 TGTTACAACACAAACAGTAGCAC 57.775 39.130 0.00 0.00 33.17 4.40
3304 4820 5.450965 CCTGGCAATTTTAGCTATTGACCAG 60.451 44.000 25.45 25.45 45.04 4.00
3314 4830 4.082026 ACATCTTGACCTGGCAATTTTAGC 60.082 41.667 0.00 0.00 0.00 3.09
3445 4961 7.629157 TGTATTATGTTGACAATCTCCCTTCA 58.371 34.615 0.00 0.00 0.00 3.02
3500 5016 3.387050 ACCCTCTCTGTTTTTACTGTCGT 59.613 43.478 0.00 0.00 0.00 4.34
3501 5017 3.741344 CACCCTCTCTGTTTTTACTGTCG 59.259 47.826 0.00 0.00 0.00 4.35
3502 5018 3.498777 GCACCCTCTCTGTTTTTACTGTC 59.501 47.826 0.00 0.00 0.00 3.51
3503 5019 3.118038 TGCACCCTCTCTGTTTTTACTGT 60.118 43.478 0.00 0.00 0.00 3.55
3504 5020 3.476552 TGCACCCTCTCTGTTTTTACTG 58.523 45.455 0.00 0.00 0.00 2.74
3505 5021 3.857157 TGCACCCTCTCTGTTTTTACT 57.143 42.857 0.00 0.00 0.00 2.24
3506 5022 5.453567 AAATGCACCCTCTCTGTTTTTAC 57.546 39.130 0.00 0.00 0.00 2.01
3507 5023 6.279882 CAAAAATGCACCCTCTCTGTTTTTA 58.720 36.000 0.00 0.00 0.00 1.52
3508 5024 5.118286 CAAAAATGCACCCTCTCTGTTTTT 58.882 37.500 0.00 0.00 0.00 1.94
3509 5025 4.443315 CCAAAAATGCACCCTCTCTGTTTT 60.443 41.667 0.00 0.00 0.00 2.43
3510 5026 3.070015 CCAAAAATGCACCCTCTCTGTTT 59.930 43.478 0.00 0.00 0.00 2.83
3511 5027 2.629617 CCAAAAATGCACCCTCTCTGTT 59.370 45.455 0.00 0.00 0.00 3.16
3512 5028 2.242043 CCAAAAATGCACCCTCTCTGT 58.758 47.619 0.00 0.00 0.00 3.41
3513 5029 2.029649 CACCAAAAATGCACCCTCTCTG 60.030 50.000 0.00 0.00 0.00 3.35
3514 5030 2.158475 TCACCAAAAATGCACCCTCTCT 60.158 45.455 0.00 0.00 0.00 3.10
3515 5031 2.229784 CTCACCAAAAATGCACCCTCTC 59.770 50.000 0.00 0.00 0.00 3.20
3516 5032 2.242043 CTCACCAAAAATGCACCCTCT 58.758 47.619 0.00 0.00 0.00 3.69
3517 5033 1.273327 CCTCACCAAAAATGCACCCTC 59.727 52.381 0.00 0.00 0.00 4.30
3518 5034 1.341080 CCTCACCAAAAATGCACCCT 58.659 50.000 0.00 0.00 0.00 4.34
3519 5035 0.321346 CCCTCACCAAAAATGCACCC 59.679 55.000 0.00 0.00 0.00 4.61
3520 5036 0.320683 GCCCTCACCAAAAATGCACC 60.321 55.000 0.00 0.00 0.00 5.01
3521 5037 0.667184 CGCCCTCACCAAAAATGCAC 60.667 55.000 0.00 0.00 0.00 4.57
3522 5038 1.112315 ACGCCCTCACCAAAAATGCA 61.112 50.000 0.00 0.00 0.00 3.96
3523 5039 0.033366 AACGCCCTCACCAAAAATGC 59.967 50.000 0.00 0.00 0.00 3.56
3524 5040 1.339610 TCAACGCCCTCACCAAAAATG 59.660 47.619 0.00 0.00 0.00 2.32
3525 5041 1.339929 GTCAACGCCCTCACCAAAAAT 59.660 47.619 0.00 0.00 0.00 1.82
3526 5042 0.741915 GTCAACGCCCTCACCAAAAA 59.258 50.000 0.00 0.00 0.00 1.94
3527 5043 0.394488 TGTCAACGCCCTCACCAAAA 60.394 50.000 0.00 0.00 0.00 2.44
3528 5044 0.817634 CTGTCAACGCCCTCACCAAA 60.818 55.000 0.00 0.00 0.00 3.28
3529 5045 1.227823 CTGTCAACGCCCTCACCAA 60.228 57.895 0.00 0.00 0.00 3.67
3530 5046 2.425592 CTGTCAACGCCCTCACCA 59.574 61.111 0.00 0.00 0.00 4.17
3531 5047 3.050275 GCTGTCAACGCCCTCACC 61.050 66.667 0.00 0.00 0.00 4.02
3532 5048 1.891919 TTGCTGTCAACGCCCTCAC 60.892 57.895 0.00 0.00 0.00 3.51
3533 5049 1.891919 GTTGCTGTCAACGCCCTCA 60.892 57.895 0.00 0.00 42.55 3.86
3534 5050 2.946762 GTTGCTGTCAACGCCCTC 59.053 61.111 0.00 0.00 42.55 4.30
3541 5057 2.439507 AGAGAAAGGAGGTTGCTGTCAA 59.560 45.455 0.00 0.00 0.00 3.18
3542 5058 2.037772 GAGAGAAAGGAGGTTGCTGTCA 59.962 50.000 0.00 0.00 0.00 3.58
3543 5059 2.301583 AGAGAGAAAGGAGGTTGCTGTC 59.698 50.000 0.00 0.00 0.00 3.51
3544 5060 2.301583 GAGAGAGAAAGGAGGTTGCTGT 59.698 50.000 0.00 0.00 0.00 4.40
3545 5061 2.301296 TGAGAGAGAAAGGAGGTTGCTG 59.699 50.000 0.00 0.00 0.00 4.41
3546 5062 2.614259 TGAGAGAGAAAGGAGGTTGCT 58.386 47.619 0.00 0.00 0.00 3.91
3547 5063 3.269178 CATGAGAGAGAAAGGAGGTTGC 58.731 50.000 0.00 0.00 0.00 4.17
3548 5064 4.222588 AGACATGAGAGAGAAAGGAGGTTG 59.777 45.833 0.00 0.00 0.00 3.77
3549 5065 4.424842 AGACATGAGAGAGAAAGGAGGTT 58.575 43.478 0.00 0.00 0.00 3.50
3550 5066 4.059773 AGACATGAGAGAGAAAGGAGGT 57.940 45.455 0.00 0.00 0.00 3.85
3551 5067 7.831691 TTATAGACATGAGAGAGAAAGGAGG 57.168 40.000 0.00 0.00 0.00 4.30
3562 5078 9.716531 GGTGATGATGATTTTATAGACATGAGA 57.283 33.333 0.00 0.00 0.00 3.27
3563 5079 9.498176 TGGTGATGATGATTTTATAGACATGAG 57.502 33.333 0.00 0.00 0.00 2.90
3564 5080 9.850198 TTGGTGATGATGATTTTATAGACATGA 57.150 29.630 0.00 0.00 0.00 3.07
3569 5085 9.453572 GGCTATTGGTGATGATGATTTTATAGA 57.546 33.333 0.00 0.00 0.00 1.98
3570 5086 8.680903 GGGCTATTGGTGATGATGATTTTATAG 58.319 37.037 0.00 0.00 0.00 1.31
3571 5087 7.615365 GGGGCTATTGGTGATGATGATTTTATA 59.385 37.037 0.00 0.00 0.00 0.98
3572 5088 6.438425 GGGGCTATTGGTGATGATGATTTTAT 59.562 38.462 0.00 0.00 0.00 1.40
3573 5089 5.774690 GGGGCTATTGGTGATGATGATTTTA 59.225 40.000 0.00 0.00 0.00 1.52
3574 5090 4.590222 GGGGCTATTGGTGATGATGATTTT 59.410 41.667 0.00 0.00 0.00 1.82
3575 5091 4.154942 GGGGCTATTGGTGATGATGATTT 58.845 43.478 0.00 0.00 0.00 2.17
3576 5092 3.140707 TGGGGCTATTGGTGATGATGATT 59.859 43.478 0.00 0.00 0.00 2.57
3577 5093 2.718062 TGGGGCTATTGGTGATGATGAT 59.282 45.455 0.00 0.00 0.00 2.45
3578 5094 2.134354 TGGGGCTATTGGTGATGATGA 58.866 47.619 0.00 0.00 0.00 2.92
3579 5095 2.233271 GTGGGGCTATTGGTGATGATG 58.767 52.381 0.00 0.00 0.00 3.07
3580 5096 1.852309 TGTGGGGCTATTGGTGATGAT 59.148 47.619 0.00 0.00 0.00 2.45
3581 5097 1.294041 TGTGGGGCTATTGGTGATGA 58.706 50.000 0.00 0.00 0.00 2.92
3582 5098 2.142356 TTGTGGGGCTATTGGTGATG 57.858 50.000 0.00 0.00 0.00 3.07
3583 5099 3.299503 GAATTGTGGGGCTATTGGTGAT 58.700 45.455 0.00 0.00 0.00 3.06
3584 5100 2.622977 GGAATTGTGGGGCTATTGGTGA 60.623 50.000 0.00 0.00 0.00 4.02
3585 5101 1.756538 GGAATTGTGGGGCTATTGGTG 59.243 52.381 0.00 0.00 0.00 4.17
3586 5102 1.645919 AGGAATTGTGGGGCTATTGGT 59.354 47.619 0.00 0.00 0.00 3.67
3587 5103 2.459555 AGGAATTGTGGGGCTATTGG 57.540 50.000 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.