Multiple sequence alignment - TraesCS7D01G526800

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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 TraesCS7D01G526800 chr7D 100.000 4018 0 0 1 4018 622001194 622005211 0.000000e+00 7420.0
1 TraesCS7D01G526800 chr7D 78.988 771 140 18 1733 2495 620985570 620984814 1.290000e-139 507.0
2 TraesCS7D01G526800 chr7D 83.274 281 41 5 1235 1512 620986046 620985769 1.850000e-63 254.0
3 TraesCS7D01G526800 chr7B 96.022 2413 71 14 1615 4018 719721150 719723546 0.000000e+00 3901.0
4 TraesCS7D01G526800 chr7B 90.182 2139 121 26 1615 3735 717749916 717747849 0.000000e+00 2704.0
5 TraesCS7D01G526800 chr7B 89.071 732 69 9 902 1627 719720475 719721201 0.000000e+00 898.0
6 TraesCS7D01G526800 chr7B 85.480 854 97 16 789 1627 717750707 717749866 0.000000e+00 865.0
7 TraesCS7D01G526800 chr7B 83.038 790 70 27 1 764 717751444 717750693 0.000000e+00 658.0
8 TraesCS7D01G526800 chr7B 78.340 771 145 20 1733 2495 719083058 719082302 2.810000e-131 479.0
9 TraesCS7D01G526800 chr7B 98.837 258 3 0 3761 4018 717747852 717747595 1.020000e-125 460.0
10 TraesCS7D01G526800 chr7B 83.688 282 38 7 1235 1512 719083540 719083263 3.980000e-65 259.0
11 TraesCS7D01G526800 chr7A 92.499 1773 93 9 1615 3373 717745047 717746793 0.000000e+00 2501.0
12 TraesCS7D01G526800 chr7A 90.528 739 56 10 902 1633 717744372 717745103 0.000000e+00 965.0
13 TraesCS7D01G526800 chr7A 91.908 655 32 10 3370 4018 717747049 717747688 0.000000e+00 896.0
14 TraesCS7D01G526800 chr7A 76.425 1281 235 49 1237 2474 716403231 716404487 7.330000e-177 630.0
15 TraesCS7D01G526800 chr7A 78.905 749 134 22 1736 2474 716246950 716247684 1.680000e-133 486.0
16 TraesCS7D01G526800 chr7A 88.500 400 30 11 28 422 717743564 717743952 1.690000e-128 470.0
17 TraesCS7D01G526800 chr7A 85.231 325 23 9 463 763 717743953 717744276 1.080000e-80 311.0
18 TraesCS7D01G526800 chr7A 83.214 280 41 5 1235 1511 716246525 716246801 6.670000e-63 252.0
19 TraesCS7D01G526800 chrUn 78.416 783 134 20 1722 2482 93057699 93056930 1.010000e-130 477.0
20 TraesCS7D01G526800 chrUn 78.195 798 139 20 1707 2482 310844772 310845556 1.010000e-130 477.0
21 TraesCS7D01G526800 chr6D 82.927 82 12 2 3772 3852 65304985 65304905 5.570000e-09 73.1


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 TraesCS7D01G526800 chr7D 622001194 622005211 4017 False 7420.00 7420 100.00000 1 4018 1 chr7D.!!$F1 4017
1 TraesCS7D01G526800 chr7D 620984814 620986046 1232 True 380.50 507 81.13100 1235 2495 2 chr7D.!!$R1 1260
2 TraesCS7D01G526800 chr7B 719720475 719723546 3071 False 2399.50 3901 92.54650 902 4018 2 chr7B.!!$F1 3116
3 TraesCS7D01G526800 chr7B 717747595 717751444 3849 True 1171.75 2704 89.38425 1 4018 4 chr7B.!!$R1 4017
4 TraesCS7D01G526800 chr7B 719082302 719083540 1238 True 369.00 479 81.01400 1235 2495 2 chr7B.!!$R2 1260
5 TraesCS7D01G526800 chr7A 717743564 717747688 4124 False 1028.60 2501 89.73320 28 4018 5 chr7A.!!$F3 3990
6 TraesCS7D01G526800 chr7A 716403231 716404487 1256 False 630.00 630 76.42500 1237 2474 1 chr7A.!!$F1 1237
7 TraesCS7D01G526800 chr7A 716246525 716247684 1159 False 369.00 486 81.05950 1235 2474 2 chr7A.!!$F2 1239
8 TraesCS7D01G526800 chrUn 93056930 93057699 769 True 477.00 477 78.41600 1722 2482 1 chrUn.!!$R1 760
9 TraesCS7D01G526800 chrUn 310844772 310845556 784 False 477.00 477 78.19500 1707 2482 1 chrUn.!!$F1 775

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
106 132 0.034756 TCATGTAGCGTGCCAACTGT 59.965 50.0 0.00 0.0 0.00 3.55 F
796 862 0.034863 TTTTGCGGGGTCATACCTCC 60.035 55.0 0.00 0.0 34.38 4.30 F
850 918 0.323725 AGCCCGTCATGCTTTTGGAT 60.324 50.0 0.00 0.0 34.87 3.41 F
851 919 0.532115 GCCCGTCATGCTTTTGGATT 59.468 50.0 0.00 0.0 0.00 3.01 F
870 938 0.607762 TGGCAGCGTTAAATGCAGGA 60.608 50.0 9.87 0.0 44.37 3.86 F
1122 1236 0.909610 AGCGGAAGATTGGTGGAGGA 60.910 55.0 0.00 0.0 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1265 1379 0.947244 AGTTTCTTCACCGCAAGCAG 59.053 50.000 0.00 0.00 0.00 4.24 R
2140 2422 0.392706 TTTGCAGTTCTGCTCTCCGA 59.607 50.000 22.44 1.82 35.49 4.55 R
2533 2826 9.868389 GTTCATTCTTTCCATTTTTGTGAAATC 57.132 29.630 0.00 0.00 0.00 2.17 R
2852 3158 4.000988 CGTTGGGTTGTATATATCCCTGC 58.999 47.826 14.71 7.97 40.48 4.85 R
2970 3276 4.640771 AACCCATCTTCTTGCTTACTGA 57.359 40.909 0.00 0.00 0.00 3.41 R
3176 3504 1.885887 CTTCGATTTCTTGTTGCCCCA 59.114 47.619 0.00 0.00 0.00 4.96 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
17 18 3.059982 CGCTCTTGGACCTCACCA 58.940 61.111 0.00 0.00 38.24 4.17
18 19 1.079543 CGCTCTTGGACCTCACCAG 60.080 63.158 0.00 0.00 41.19 4.00
24 30 1.407656 TTGGACCTCACCAGCGTCTT 61.408 55.000 0.00 0.00 41.19 3.01
26 32 1.536943 GGACCTCACCAGCGTCTTCT 61.537 60.000 0.00 0.00 0.00 2.85
40 46 3.056322 GCGTCTTCTCCCAAGGTTAGTTA 60.056 47.826 0.00 0.00 0.00 2.24
93 119 3.717707 GTTCTAAGCTCCGCATCATGTA 58.282 45.455 0.00 0.00 0.00 2.29
101 127 3.812203 GCATCATGTAGCGTGCCA 58.188 55.556 0.00 0.00 0.00 4.92
102 128 2.097444 GCATCATGTAGCGTGCCAA 58.903 52.632 0.00 0.00 0.00 4.52
103 129 0.248215 GCATCATGTAGCGTGCCAAC 60.248 55.000 0.00 0.00 0.00 3.77
104 130 1.372582 CATCATGTAGCGTGCCAACT 58.627 50.000 0.00 0.00 0.00 3.16
105 131 1.063027 CATCATGTAGCGTGCCAACTG 59.937 52.381 0.00 0.00 0.00 3.16
106 132 0.034756 TCATGTAGCGTGCCAACTGT 59.965 50.000 0.00 0.00 0.00 3.55
107 133 0.443869 CATGTAGCGTGCCAACTGTC 59.556 55.000 0.00 0.00 0.00 3.51
108 134 0.321671 ATGTAGCGTGCCAACTGTCT 59.678 50.000 0.00 0.00 0.00 3.41
109 135 0.963225 TGTAGCGTGCCAACTGTCTA 59.037 50.000 0.00 0.00 0.00 2.59
110 136 1.548719 TGTAGCGTGCCAACTGTCTAT 59.451 47.619 0.00 0.00 0.00 1.98
111 137 2.194271 GTAGCGTGCCAACTGTCTATC 58.806 52.381 0.00 0.00 0.00 2.08
112 138 0.898320 AGCGTGCCAACTGTCTATCT 59.102 50.000 0.00 0.00 0.00 1.98
113 139 1.002366 GCGTGCCAACTGTCTATCTG 58.998 55.000 0.00 0.00 0.00 2.90
114 140 1.673033 GCGTGCCAACTGTCTATCTGT 60.673 52.381 0.00 0.00 0.00 3.41
115 141 2.263077 CGTGCCAACTGTCTATCTGTC 58.737 52.381 0.00 0.00 0.00 3.51
116 142 2.263077 GTGCCAACTGTCTATCTGTCG 58.737 52.381 0.00 0.00 0.00 4.35
117 143 1.893137 TGCCAACTGTCTATCTGTCGT 59.107 47.619 0.00 0.00 0.00 4.34
118 144 2.263077 GCCAACTGTCTATCTGTCGTG 58.737 52.381 0.00 0.00 0.00 4.35
119 145 2.352814 GCCAACTGTCTATCTGTCGTGT 60.353 50.000 0.00 0.00 0.00 4.49
120 146 3.245797 CCAACTGTCTATCTGTCGTGTG 58.754 50.000 0.00 0.00 0.00 3.82
121 147 3.305403 CCAACTGTCTATCTGTCGTGTGT 60.305 47.826 0.00 0.00 0.00 3.72
122 148 3.833545 ACTGTCTATCTGTCGTGTGTC 57.166 47.619 0.00 0.00 0.00 3.67
123 149 2.159824 ACTGTCTATCTGTCGTGTGTCG 59.840 50.000 0.00 0.00 41.41 4.35
124 150 2.148768 TGTCTATCTGTCGTGTGTCGT 58.851 47.619 0.00 0.00 40.80 4.34
153 179 0.238289 AATGGAAAGTTGCAGCGTCG 59.762 50.000 0.00 0.00 30.13 5.12
161 187 3.741830 TTGCAGCGTCGGTCCACAA 62.742 57.895 0.00 0.00 0.00 3.33
162 188 2.742372 GCAGCGTCGGTCCACAAT 60.742 61.111 0.00 0.00 0.00 2.71
181 207 3.655810 CTGCGTCTGCTCAGTCCCC 62.656 68.421 0.00 0.00 43.34 4.81
193 219 0.250513 CAGTCCCCAGTTCACTAGCC 59.749 60.000 0.00 0.00 0.00 3.93
194 220 1.218316 GTCCCCAGTTCACTAGCCG 59.782 63.158 0.00 0.00 0.00 5.52
195 221 2.125106 CCCCAGTTCACTAGCCGC 60.125 66.667 0.00 0.00 0.00 6.53
196 222 2.660064 CCCCAGTTCACTAGCCGCT 61.660 63.158 0.00 0.00 0.00 5.52
197 223 1.448540 CCCAGTTCACTAGCCGCTG 60.449 63.158 2.16 0.00 0.00 5.18
248 278 2.776913 CGGAGAGAGGAACGGGAGC 61.777 68.421 0.00 0.00 0.00 4.70
277 307 0.461163 GCGGCTTTCCTCTTCCTCTC 60.461 60.000 0.00 0.00 0.00 3.20
285 318 3.603965 TCCTCTTCCTCTCTATGTCCC 57.396 52.381 0.00 0.00 0.00 4.46
313 346 4.314440 TTTGCAGGGTCGCTCGCT 62.314 61.111 10.89 0.00 40.00 4.93
410 443 3.965539 CTGGTCTTCCCTGCTGCCG 62.966 68.421 0.00 0.00 0.00 5.69
472 505 1.137825 CAGTCCGAAGCTCTCCGAC 59.862 63.158 4.93 6.89 33.79 4.79
477 510 0.457851 CCGAAGCTCTCCGACAATCT 59.542 55.000 4.93 0.00 0.00 2.40
508 541 2.203280 TGCAGTTTCCCCACACCG 60.203 61.111 0.00 0.00 0.00 4.94
590 625 3.412386 TGCCTTTTACTCTGCTTCTTCC 58.588 45.455 0.00 0.00 0.00 3.46
602 644 1.932511 GCTTCTTCCGATGCTCTTCAG 59.067 52.381 0.00 0.00 37.35 3.02
603 645 2.676463 GCTTCTTCCGATGCTCTTCAGT 60.676 50.000 0.00 0.00 37.35 3.41
604 646 2.949451 TCTTCCGATGCTCTTCAGTC 57.051 50.000 0.00 0.00 0.00 3.51
605 647 2.451490 TCTTCCGATGCTCTTCAGTCT 58.549 47.619 0.00 0.00 0.00 3.24
606 648 2.828520 TCTTCCGATGCTCTTCAGTCTT 59.171 45.455 0.00 0.00 0.00 3.01
607 649 2.949451 TCCGATGCTCTTCAGTCTTC 57.051 50.000 0.00 0.00 0.00 2.87
608 650 2.171003 TCCGATGCTCTTCAGTCTTCA 58.829 47.619 0.00 0.00 0.00 3.02
629 671 2.364324 ACGGTGTACTCTGCTTCTTTCA 59.636 45.455 3.66 0.00 0.00 2.69
638 680 0.597568 TGCTTCTTTCATTGCCGGTG 59.402 50.000 1.90 0.00 0.00 4.94
655 712 1.918293 TGGAAGATGGCCGTCCACT 60.918 57.895 21.73 6.43 46.24 4.00
669 726 1.110442 TCCACTGGCAAAACTGGTTG 58.890 50.000 0.00 0.00 0.00 3.77
706 772 1.450491 CTCATGCTGCTGCTGCTCT 60.450 57.895 27.67 15.06 40.48 4.09
754 820 4.189188 CTGCTACCGCGCCGTACT 62.189 66.667 0.00 0.00 39.65 2.73
758 824 3.746409 CTACCGCGCCGTACTGTCC 62.746 68.421 0.00 0.00 0.00 4.02
764 830 1.374252 CGCCGTACTGTCCAGCTTT 60.374 57.895 0.00 0.00 0.00 3.51
765 831 0.949105 CGCCGTACTGTCCAGCTTTT 60.949 55.000 0.00 0.00 0.00 2.27
766 832 1.235724 GCCGTACTGTCCAGCTTTTT 58.764 50.000 0.00 0.00 0.00 1.94
795 861 1.828979 TTTTTGCGGGGTCATACCTC 58.171 50.000 0.00 0.00 38.64 3.85
796 862 0.034863 TTTTGCGGGGTCATACCTCC 60.035 55.000 0.00 0.00 34.38 4.30
797 863 1.202099 TTTGCGGGGTCATACCTCCA 61.202 55.000 0.00 0.00 34.38 3.86
798 864 1.622607 TTGCGGGGTCATACCTCCAG 61.623 60.000 0.00 0.00 34.38 3.86
799 865 2.822399 CGGGGTCATACCTCCAGC 59.178 66.667 0.00 0.00 34.38 4.85
800 866 1.762460 CGGGGTCATACCTCCAGCT 60.762 63.158 0.00 0.00 34.38 4.24
801 867 1.338136 CGGGGTCATACCTCCAGCTT 61.338 60.000 0.00 0.00 34.38 3.74
812 878 0.519077 CTCCAGCTTTTGAACGCCTC 59.481 55.000 0.00 0.00 0.00 4.70
828 894 2.223735 CGCCTCGAGGTGTATTATGTGT 60.224 50.000 32.53 0.00 40.69 3.72
846 914 0.598065 GTTGAGCCCGTCATGCTTTT 59.402 50.000 0.00 0.00 39.69 2.27
850 918 0.323725 AGCCCGTCATGCTTTTGGAT 60.324 50.000 0.00 0.00 34.87 3.41
851 919 0.532115 GCCCGTCATGCTTTTGGATT 59.468 50.000 0.00 0.00 0.00 3.01
852 920 1.736696 GCCCGTCATGCTTTTGGATTG 60.737 52.381 0.00 0.00 0.00 2.67
853 921 1.135024 CCCGTCATGCTTTTGGATTGG 60.135 52.381 0.00 0.00 0.00 3.16
862 930 2.609244 GCTTTTGGATTGGCAGCGTTAA 60.609 45.455 0.00 0.00 0.00 2.01
864 932 3.951775 TTTGGATTGGCAGCGTTAAAT 57.048 38.095 0.00 0.00 0.00 1.40
870 938 0.607762 TGGCAGCGTTAAATGCAGGA 60.608 50.000 9.87 0.00 44.37 3.86
872 940 1.134946 GGCAGCGTTAAATGCAGGATT 59.865 47.619 9.87 0.00 44.37 3.01
892 960 7.805071 CAGGATTTGCAATTAATTCTCCGTATC 59.195 37.037 0.00 0.00 0.00 2.24
896 964 8.854979 TTTGCAATTAATTCTCCGTATCATTG 57.145 30.769 0.00 0.00 0.00 2.82
921 1011 4.525912 ATTGGTCCTCTGCAATGAAAAC 57.474 40.909 0.00 0.00 0.00 2.43
940 1049 1.656652 CGCAAGTAGGATCCTGTTGG 58.343 55.000 27.57 18.72 0.00 3.77
942 1051 2.354704 CGCAAGTAGGATCCTGTTGGAA 60.355 50.000 27.57 7.94 46.80 3.53
943 1052 3.686016 GCAAGTAGGATCCTGTTGGAAA 58.314 45.455 27.57 7.30 46.80 3.13
944 1053 3.691609 GCAAGTAGGATCCTGTTGGAAAG 59.308 47.826 27.57 11.99 46.80 2.62
945 1054 4.565652 GCAAGTAGGATCCTGTTGGAAAGA 60.566 45.833 27.57 6.01 46.80 2.52
946 1055 5.560724 CAAGTAGGATCCTGTTGGAAAGAA 58.439 41.667 25.28 0.00 46.80 2.52
947 1056 5.843019 AGTAGGATCCTGTTGGAAAGAAA 57.157 39.130 25.28 0.00 46.80 2.52
1062 1176 3.474806 CTACCGAAGCAACTGCCG 58.525 61.111 0.00 0.00 43.38 5.69
1122 1236 0.909610 AGCGGAAGATTGGTGGAGGA 60.910 55.000 0.00 0.00 0.00 3.71
1151 1265 6.316440 TGGAAACGTTTATAAGGTTTGACC 57.684 37.500 14.65 6.77 46.03 4.02
1152 1266 5.049543 TGGAAACGTTTATAAGGTTTGACCG 60.050 40.000 14.65 0.00 46.03 4.79
1155 1269 5.347012 ACGTTTATAAGGTTTGACCGTTG 57.653 39.130 0.00 0.00 44.90 4.10
1157 1271 5.296531 ACGTTTATAAGGTTTGACCGTTGTT 59.703 36.000 0.00 0.00 44.90 2.83
1158 1272 6.183360 ACGTTTATAAGGTTTGACCGTTGTTT 60.183 34.615 0.00 0.00 44.90 2.83
1160 1274 4.841443 ATAAGGTTTGACCGTTGTTTCC 57.159 40.909 0.00 0.00 44.90 3.13
1165 1279 4.891168 AGGTTTGACCGTTGTTTCCTTAAT 59.109 37.500 0.00 0.00 44.90 1.40
1167 1281 6.016860 AGGTTTGACCGTTGTTTCCTTAATAC 60.017 38.462 0.00 0.00 44.90 1.89
1173 1287 5.704053 ACCGTTGTTTCCTTAATACCTTCTG 59.296 40.000 0.00 0.00 0.00 3.02
1174 1288 5.391629 CCGTTGTTTCCTTAATACCTTCTGC 60.392 44.000 0.00 0.00 0.00 4.26
1183 1297 5.893824 CCTTAATACCTTCTGCCCTTTCAAT 59.106 40.000 0.00 0.00 0.00 2.57
1185 1299 1.826385 ACCTTCTGCCCTTTCAATCG 58.174 50.000 0.00 0.00 0.00 3.34
1188 1302 2.355108 CCTTCTGCCCTTTCAATCGAGA 60.355 50.000 0.00 0.00 0.00 4.04
1192 1306 2.357009 CTGCCCTTTCAATCGAGATTGG 59.643 50.000 21.37 9.54 46.08 3.16
1194 1308 2.098117 GCCCTTTCAATCGAGATTGGTG 59.902 50.000 21.37 13.20 46.08 4.17
1198 1312 5.121811 CCTTTCAATCGAGATTGGTGAGAT 58.878 41.667 21.37 0.00 46.08 2.75
1200 1314 6.423302 CCTTTCAATCGAGATTGGTGAGATAG 59.577 42.308 21.37 9.29 46.08 2.08
1206 1320 4.278669 TCGAGATTGGTGAGATAGGCTAAC 59.721 45.833 0.00 0.00 0.00 2.34
1209 1323 5.862845 AGATTGGTGAGATAGGCTAACATG 58.137 41.667 0.00 0.00 28.44 3.21
1211 1325 4.406648 TGGTGAGATAGGCTAACATGTG 57.593 45.455 0.00 0.00 28.44 3.21
1212 1326 3.134623 TGGTGAGATAGGCTAACATGTGG 59.865 47.826 0.00 0.00 28.44 4.17
1213 1327 3.134804 GGTGAGATAGGCTAACATGTGGT 59.865 47.826 0.00 0.00 28.44 4.16
1214 1328 4.344102 GGTGAGATAGGCTAACATGTGGTA 59.656 45.833 0.00 0.00 28.44 3.25
1215 1329 5.290386 GTGAGATAGGCTAACATGTGGTAC 58.710 45.833 0.00 0.00 0.00 3.34
1216 1330 5.069251 GTGAGATAGGCTAACATGTGGTACT 59.931 44.000 0.00 0.00 0.00 2.73
1217 1331 6.264744 GTGAGATAGGCTAACATGTGGTACTA 59.735 42.308 0.00 1.00 0.00 1.82
1224 1338 5.869888 GGCTAACATGTGGTACTATATCTGC 59.130 44.000 0.00 0.00 0.00 4.26
1230 1344 4.925836 TGTGGTACTATATCTGCGGGATA 58.074 43.478 0.00 0.00 40.69 2.59
1231 1345 5.326900 TGTGGTACTATATCTGCGGGATAA 58.673 41.667 0.00 0.00 39.94 1.75
1233 1347 6.098017 GTGGTACTATATCTGCGGGATAAAC 58.902 44.000 0.00 0.00 39.94 2.01
1348 1462 3.270027 CGAGGTTCAGAACATTATGGCA 58.730 45.455 15.36 0.00 0.00 4.92
1621 1802 8.658499 TTTATTTATCTTCGAGACCCTTTAGC 57.342 34.615 0.00 0.00 0.00 3.09
1730 1970 2.743183 GCTGAACCTGCTATCGATTGGT 60.743 50.000 1.71 4.77 0.00 3.67
2140 2422 7.613801 AGGCTTATTGATACTCGAGATCAGTAT 59.386 37.037 21.68 15.46 39.36 2.12
2533 2826 4.530875 AGGCTCTCTACCCAAATGATTTG 58.469 43.478 10.84 10.84 40.32 2.32
2852 3158 5.059833 GGATTTCCCAGAAGTGTAGCATAG 58.940 45.833 0.00 0.00 34.14 2.23
2970 3276 1.588239 TCAGGTCCCTCATGCATCTT 58.412 50.000 0.00 0.00 0.00 2.40
3038 3344 8.609478 AATAAAACGTTCGTTATTATTGCTGG 57.391 30.769 21.57 0.00 30.05 4.85
3039 3345 5.866335 AAACGTTCGTTATTATTGCTGGA 57.134 34.783 10.89 0.00 0.00 3.86
3040 3346 5.866335 AACGTTCGTTATTATTGCTGGAA 57.134 34.783 8.84 0.00 0.00 3.53
3041 3347 5.464965 ACGTTCGTTATTATTGCTGGAAG 57.535 39.130 0.00 0.00 0.00 3.46
3042 3348 5.172934 ACGTTCGTTATTATTGCTGGAAGA 58.827 37.500 0.00 0.00 34.07 2.87
3043 3349 5.291128 ACGTTCGTTATTATTGCTGGAAGAG 59.709 40.000 0.00 0.00 34.07 2.85
3044 3350 5.291128 CGTTCGTTATTATTGCTGGAAGAGT 59.709 40.000 0.00 0.00 34.07 3.24
3045 3351 6.478588 GTTCGTTATTATTGCTGGAAGAGTG 58.521 40.000 0.00 0.00 34.07 3.51
3046 3352 4.570772 TCGTTATTATTGCTGGAAGAGTGC 59.429 41.667 0.00 0.00 34.07 4.40
3047 3353 4.572389 CGTTATTATTGCTGGAAGAGTGCT 59.428 41.667 0.00 0.00 34.07 4.40
3048 3354 5.277058 CGTTATTATTGCTGGAAGAGTGCTC 60.277 44.000 0.00 0.00 34.07 4.26
3049 3355 3.988976 TTATTGCTGGAAGAGTGCTCT 57.011 42.857 0.00 0.00 42.75 4.09
3050 3356 5.620738 ATTATTGCTGGAAGAGTGCTCTA 57.379 39.130 1.77 0.00 39.39 2.43
3051 3357 5.620738 TTATTGCTGGAAGAGTGCTCTAT 57.379 39.130 1.77 0.00 39.39 1.98
3052 3358 3.988976 TTGCTGGAAGAGTGCTCTATT 57.011 42.857 1.77 0.00 39.39 1.73
3053 3359 5.620738 ATTGCTGGAAGAGTGCTCTATTA 57.379 39.130 1.77 0.00 39.39 0.98
3054 3360 5.620738 TTGCTGGAAGAGTGCTCTATTAT 57.379 39.130 1.77 0.00 39.39 1.28
3055 3361 5.620738 TGCTGGAAGAGTGCTCTATTATT 57.379 39.130 1.77 0.00 39.39 1.40
3056 3362 5.363101 TGCTGGAAGAGTGCTCTATTATTG 58.637 41.667 1.77 0.00 39.39 1.90
3057 3363 4.213059 GCTGGAAGAGTGCTCTATTATTGC 59.787 45.833 1.77 0.00 39.39 3.56
3058 3364 5.609423 CTGGAAGAGTGCTCTATTATTGCT 58.391 41.667 1.77 0.00 39.39 3.91
3059 3365 6.731292 TGGAAGAGTGCTCTATTATTGCTA 57.269 37.500 1.77 0.00 39.39 3.49
3093 3421 7.728847 AAATTTGCTTTGGAAATAAGACCAC 57.271 32.000 0.00 0.00 35.81 4.16
3131 3459 4.142881 GCCAGTCTGGAAACGTAGAATTTC 60.143 45.833 23.77 0.00 40.96 2.17
3179 3507 8.673711 TCTTTTTATTATTGATCAAGACGTGGG 58.326 33.333 14.54 0.21 0.00 4.61
3192 3520 0.958822 ACGTGGGGCAACAAGAAATC 59.041 50.000 0.00 0.00 39.74 2.17
3248 3576 6.653320 TGTCATTAAGATGGTACCACAAGAAC 59.347 38.462 19.09 8.87 33.93 3.01
3253 3581 0.831966 TGGTACCACAAGAACACGGT 59.168 50.000 11.60 0.00 35.46 4.83
3373 3701 6.530120 TCAAAAGGACATGTGTGTGTAGTAT 58.470 36.000 1.15 0.00 39.09 2.12
3386 3973 3.513912 TGTGTAGTATGAGACCACAAGGG 59.486 47.826 0.00 0.00 44.81 3.95
3400 3987 3.006430 CCACAAGGGTTTTATGACCAACC 59.994 47.826 0.00 0.00 41.65 3.77
3402 3989 4.283212 CACAAGGGTTTTATGACCAACCAT 59.717 41.667 3.60 0.00 43.89 3.55
3473 4065 4.690280 GGTTTTTGTCTGTAATTGCCATGG 59.310 41.667 7.63 7.63 0.00 3.66
3570 4162 2.287547 ACTGTTTGTTGCTTACATGGCG 60.288 45.455 0.00 0.00 36.44 5.69
3586 4178 1.280710 TGGCGACCAATGGTATCTGTT 59.719 47.619 4.23 0.00 35.25 3.16
3698 4290 2.930682 TGTTGAAACGTGACGACATGAA 59.069 40.909 13.70 0.00 36.88 2.57
3730 4352 4.161942 TGGAATACTCATGGGGCAAAATTG 59.838 41.667 0.00 0.00 0.00 2.32
3744 4366 3.504863 CAAAATTGCTCCATGAAGGACG 58.495 45.455 0.00 0.00 43.07 4.79
3745 4367 2.787473 AATTGCTCCATGAAGGACGA 57.213 45.000 0.00 0.00 43.07 4.20
3746 4368 2.787473 ATTGCTCCATGAAGGACGAA 57.213 45.000 0.00 0.00 43.07 3.85
3747 4369 2.787473 TTGCTCCATGAAGGACGAAT 57.213 45.000 0.00 0.00 43.07 3.34
3748 4370 2.787473 TGCTCCATGAAGGACGAATT 57.213 45.000 0.00 0.00 43.07 2.17
3749 4371 3.071874 TGCTCCATGAAGGACGAATTT 57.928 42.857 0.00 0.00 43.07 1.82
3750 4372 2.749076 TGCTCCATGAAGGACGAATTTG 59.251 45.455 0.00 0.00 43.07 2.32
3751 4373 2.098117 GCTCCATGAAGGACGAATTTGG 59.902 50.000 0.00 0.00 43.07 3.28
3752 4374 2.684881 CTCCATGAAGGACGAATTTGGG 59.315 50.000 0.00 0.00 43.07 4.12
3753 4375 1.134946 CCATGAAGGACGAATTTGGGC 59.865 52.381 0.00 0.00 41.22 5.36
3754 4376 1.818060 CATGAAGGACGAATTTGGGCA 59.182 47.619 0.00 0.00 0.00 5.36
3755 4377 1.988293 TGAAGGACGAATTTGGGCAA 58.012 45.000 0.00 0.00 0.00 4.52
3756 4378 2.524306 TGAAGGACGAATTTGGGCAAT 58.476 42.857 0.00 0.00 0.00 3.56
3757 4379 3.691575 TGAAGGACGAATTTGGGCAATA 58.308 40.909 0.00 0.00 0.00 1.90
3758 4380 4.082845 TGAAGGACGAATTTGGGCAATAA 58.917 39.130 0.00 0.00 0.00 1.40
3788 4410 4.499696 GGCAGCAAACTTGTTCTGTAACAT 60.500 41.667 0.00 0.00 44.85 2.71
3987 4612 7.219322 CAAGGAAAAGATTTCCCAACTCAATT 58.781 34.615 16.23 1.71 39.39 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.674057 CTTGGGAGAAGACGCTGGT 59.326 57.895 0.00 0.00 0.00 4.00
16 17 0.035458 AACCTTGGGAGAAGACGCTG 59.965 55.000 0.00 0.00 0.00 5.18
17 18 1.550976 CTAACCTTGGGAGAAGACGCT 59.449 52.381 0.00 0.00 0.00 5.07
18 19 1.275573 ACTAACCTTGGGAGAAGACGC 59.724 52.381 0.00 0.00 0.00 5.19
24 30 4.955335 TGGAGATAACTAACCTTGGGAGA 58.045 43.478 0.00 0.00 0.00 3.71
26 32 5.970640 AGAATGGAGATAACTAACCTTGGGA 59.029 40.000 0.00 0.00 0.00 4.37
40 46 2.842496 TGGAGCACTTGAGAATGGAGAT 59.158 45.455 0.00 0.00 0.00 2.75
93 119 0.898320 AGATAGACAGTTGGCACGCT 59.102 50.000 0.00 0.00 0.00 5.07
96 122 2.263077 CGACAGATAGACAGTTGGCAC 58.737 52.381 0.00 0.00 0.00 5.01
97 123 1.893137 ACGACAGATAGACAGTTGGCA 59.107 47.619 0.00 0.00 0.00 4.92
98 124 2.263077 CACGACAGATAGACAGTTGGC 58.737 52.381 0.00 0.00 0.00 4.52
99 125 3.245797 CACACGACAGATAGACAGTTGG 58.754 50.000 0.00 0.00 0.00 3.77
100 126 3.902150 ACACACGACAGATAGACAGTTG 58.098 45.455 0.00 0.00 0.00 3.16
101 127 3.365064 CGACACACGACAGATAGACAGTT 60.365 47.826 0.00 0.00 45.77 3.16
102 128 2.159824 CGACACACGACAGATAGACAGT 59.840 50.000 0.00 0.00 45.77 3.55
103 129 2.159824 ACGACACACGACAGATAGACAG 59.840 50.000 0.00 0.00 45.77 3.51
104 130 2.095919 CACGACACACGACAGATAGACA 60.096 50.000 0.00 0.00 45.77 3.41
105 131 2.095869 ACACGACACACGACAGATAGAC 60.096 50.000 0.00 0.00 45.77 2.59
106 132 2.148768 ACACGACACACGACAGATAGA 58.851 47.619 0.00 0.00 45.77 1.98
107 133 2.613730 ACACGACACACGACAGATAG 57.386 50.000 0.00 0.00 45.77 2.08
108 134 3.047093 CAAACACGACACACGACAGATA 58.953 45.455 0.00 0.00 45.77 1.98
109 135 1.858458 CAAACACGACACACGACAGAT 59.142 47.619 0.00 0.00 45.77 2.90
110 136 1.273688 CAAACACGACACACGACAGA 58.726 50.000 0.00 0.00 45.77 3.41
111 137 0.300491 CCAAACACGACACACGACAG 59.700 55.000 0.00 0.00 45.77 3.51
112 138 0.390078 ACCAAACACGACACACGACA 60.390 50.000 0.00 0.00 45.77 4.35
113 139 1.558741 TACCAAACACGACACACGAC 58.441 50.000 0.00 0.00 45.77 4.34
114 140 2.290531 TTACCAAACACGACACACGA 57.709 45.000 0.00 0.00 45.77 4.35
116 142 4.039032 CCATTTTACCAAACACGACACAC 58.961 43.478 0.00 0.00 0.00 3.82
117 143 3.945921 TCCATTTTACCAAACACGACACA 59.054 39.130 0.00 0.00 0.00 3.72
118 144 4.555348 TCCATTTTACCAAACACGACAC 57.445 40.909 0.00 0.00 0.00 3.67
119 145 5.125739 ACTTTCCATTTTACCAAACACGACA 59.874 36.000 0.00 0.00 0.00 4.35
120 146 5.584442 ACTTTCCATTTTACCAAACACGAC 58.416 37.500 0.00 0.00 0.00 4.34
121 147 5.838531 ACTTTCCATTTTACCAAACACGA 57.161 34.783 0.00 0.00 0.00 4.35
122 148 5.276631 GCAACTTTCCATTTTACCAAACACG 60.277 40.000 0.00 0.00 0.00 4.49
123 149 5.582665 TGCAACTTTCCATTTTACCAAACAC 59.417 36.000 0.00 0.00 0.00 3.32
124 150 5.734720 TGCAACTTTCCATTTTACCAAACA 58.265 33.333 0.00 0.00 0.00 2.83
153 179 1.639298 GCAGACGCAGATTGTGGACC 61.639 60.000 0.00 0.00 38.36 4.46
161 187 1.515020 GGACTGAGCAGACGCAGAT 59.485 57.895 4.21 0.00 45.67 2.90
162 188 2.640302 GGGACTGAGCAGACGCAGA 61.640 63.158 4.21 0.00 45.67 4.26
181 207 1.073216 CGACAGCGGCTAGTGAACTG 61.073 60.000 0.26 0.00 0.00 3.16
277 307 1.173444 AGCGGCTACTCGGGACATAG 61.173 60.000 0.00 0.00 0.00 2.23
285 318 2.456119 CCTGCAAAGCGGCTACTCG 61.456 63.158 1.35 0.00 32.89 4.18
436 469 3.151022 GCCAGCTCCTACGCTCCT 61.151 66.667 0.00 0.00 38.41 3.69
472 505 2.281517 CAGAGCAGAAGCAGGAGATTG 58.718 52.381 0.00 0.00 45.49 2.67
477 510 3.475192 TGCAGAGCAGAAGCAGGA 58.525 55.556 0.00 0.00 45.49 3.86
508 541 1.749258 GGGAGGAATGGCACGAACC 60.749 63.158 0.00 0.00 0.00 3.62
590 625 1.916651 CGTGAAGACTGAAGAGCATCG 59.083 52.381 0.00 0.00 42.67 3.84
602 644 1.269998 AGCAGAGTACACCGTGAAGAC 59.730 52.381 5.28 0.44 0.00 3.01
603 645 1.617322 AGCAGAGTACACCGTGAAGA 58.383 50.000 5.28 0.00 0.00 2.87
604 646 2.029828 AGAAGCAGAGTACACCGTGAAG 60.030 50.000 5.28 0.00 0.00 3.02
605 647 1.961394 AGAAGCAGAGTACACCGTGAA 59.039 47.619 5.28 0.00 0.00 3.18
606 648 1.617322 AGAAGCAGAGTACACCGTGA 58.383 50.000 5.28 0.00 0.00 4.35
607 649 2.440539 AAGAAGCAGAGTACACCGTG 57.559 50.000 0.00 0.00 0.00 4.94
608 650 2.364324 TGAAAGAAGCAGAGTACACCGT 59.636 45.455 0.00 0.00 0.00 4.83
629 671 1.754234 GCCATCTTCCACCGGCAAT 60.754 57.895 0.00 0.00 44.25 3.56
669 726 0.807496 GTGCCTCCTGAATCAACAGC 59.193 55.000 0.00 0.00 36.67 4.40
690 747 1.305930 TTCAGAGCAGCAGCAGCATG 61.306 55.000 12.92 10.27 45.49 4.06
691 748 1.002502 TTCAGAGCAGCAGCAGCAT 60.003 52.632 12.92 0.00 45.49 3.79
776 842 1.614850 GGAGGTATGACCCCGCAAAAA 60.615 52.381 0.00 0.00 39.75 1.94
777 843 0.034863 GGAGGTATGACCCCGCAAAA 60.035 55.000 0.00 0.00 39.75 2.44
778 844 1.202099 TGGAGGTATGACCCCGCAAA 61.202 55.000 0.00 0.00 39.75 3.68
779 845 1.613928 TGGAGGTATGACCCCGCAA 60.614 57.895 0.00 0.00 39.75 4.85
780 846 2.039787 TGGAGGTATGACCCCGCA 59.960 61.111 0.00 0.00 39.75 5.69
781 847 2.822399 CTGGAGGTATGACCCCGC 59.178 66.667 0.00 0.00 39.75 6.13
782 848 1.338136 AAGCTGGAGGTATGACCCCG 61.338 60.000 0.00 0.00 39.75 5.73
783 849 0.919710 AAAGCTGGAGGTATGACCCC 59.080 55.000 0.00 0.00 39.75 4.95
784 850 2.026262 TCAAAAGCTGGAGGTATGACCC 60.026 50.000 0.00 0.00 39.75 4.46
785 851 3.350219 TCAAAAGCTGGAGGTATGACC 57.650 47.619 0.00 0.00 38.99 4.02
786 852 3.125316 CGTTCAAAAGCTGGAGGTATGAC 59.875 47.826 0.00 0.00 0.00 3.06
787 853 3.334691 CGTTCAAAAGCTGGAGGTATGA 58.665 45.455 0.00 0.00 0.00 2.15
788 854 2.159517 GCGTTCAAAAGCTGGAGGTATG 60.160 50.000 0.00 0.00 0.00 2.39
789 855 2.084546 GCGTTCAAAAGCTGGAGGTAT 58.915 47.619 0.00 0.00 0.00 2.73
790 856 1.519408 GCGTTCAAAAGCTGGAGGTA 58.481 50.000 0.00 0.00 0.00 3.08
791 857 1.172812 GGCGTTCAAAAGCTGGAGGT 61.173 55.000 0.00 0.00 33.77 3.85
792 858 0.890996 AGGCGTTCAAAAGCTGGAGG 60.891 55.000 0.00 0.00 33.77 4.30
793 859 0.519077 GAGGCGTTCAAAAGCTGGAG 59.481 55.000 0.00 0.00 33.77 3.86
794 860 1.227999 CGAGGCGTTCAAAAGCTGGA 61.228 55.000 0.00 0.00 33.77 3.86
795 861 1.207593 CGAGGCGTTCAAAAGCTGG 59.792 57.895 0.00 0.00 33.77 4.85
796 862 0.164647 CTCGAGGCGTTCAAAAGCTG 59.835 55.000 3.91 0.00 33.77 4.24
797 863 0.951040 CCTCGAGGCGTTCAAAAGCT 60.951 55.000 20.67 0.00 33.77 3.74
798 864 1.228657 ACCTCGAGGCGTTCAAAAGC 61.229 55.000 31.56 0.00 39.32 3.51
799 865 0.512952 CACCTCGAGGCGTTCAAAAG 59.487 55.000 31.56 3.82 39.32 2.27
800 866 0.179067 ACACCTCGAGGCGTTCAAAA 60.179 50.000 31.56 0.00 39.32 2.44
801 867 0.675083 TACACCTCGAGGCGTTCAAA 59.325 50.000 28.84 9.52 39.32 2.69
812 878 3.555956 GGCTCAACACATAATACACCTCG 59.444 47.826 0.00 0.00 0.00 4.63
828 894 0.597568 CAAAAGCATGACGGGCTCAA 59.402 50.000 0.00 0.00 41.66 3.02
846 914 1.135141 GCATTTAACGCTGCCAATCCA 60.135 47.619 0.00 0.00 32.15 3.41
850 918 0.243365 CCTGCATTTAACGCTGCCAA 59.757 50.000 0.00 0.00 37.59 4.52
851 919 0.607762 TCCTGCATTTAACGCTGCCA 60.608 50.000 0.00 0.00 37.59 4.92
852 920 0.740737 ATCCTGCATTTAACGCTGCC 59.259 50.000 0.00 0.00 37.59 4.85
853 921 2.566952 AATCCTGCATTTAACGCTGC 57.433 45.000 0.00 0.00 38.87 5.25
870 938 9.467258 CAATGATACGGAGAATTAATTGCAAAT 57.533 29.630 1.71 0.00 0.00 2.32
872 940 8.219546 TCAATGATACGGAGAATTAATTGCAA 57.780 30.769 5.17 0.00 0.00 4.08
892 960 3.349927 TGCAGAGGACCAATTCTCAATG 58.650 45.455 0.00 0.00 32.76 2.82
896 964 3.614092 TCATTGCAGAGGACCAATTCTC 58.386 45.455 0.00 0.00 29.71 2.87
921 1011 1.207089 TCCAACAGGATCCTACTTGCG 59.793 52.381 15.67 12.18 0.00 4.85
932 1041 4.770010 ACAAGTGTTTTCTTTCCAACAGGA 59.230 37.500 0.00 0.00 33.55 3.86
933 1042 4.864247 CACAAGTGTTTTCTTTCCAACAGG 59.136 41.667 0.00 0.00 33.55 4.00
934 1043 4.864247 CCACAAGTGTTTTCTTTCCAACAG 59.136 41.667 0.00 0.00 33.55 3.16
935 1044 4.815269 CCACAAGTGTTTTCTTTCCAACA 58.185 39.130 0.00 0.00 0.00 3.33
936 1045 3.616821 GCCACAAGTGTTTTCTTTCCAAC 59.383 43.478 0.00 0.00 0.00 3.77
937 1046 3.259374 TGCCACAAGTGTTTTCTTTCCAA 59.741 39.130 0.00 0.00 0.00 3.53
938 1047 2.828520 TGCCACAAGTGTTTTCTTTCCA 59.171 40.909 0.00 0.00 0.00 3.53
939 1048 3.447742 CTGCCACAAGTGTTTTCTTTCC 58.552 45.455 0.00 0.00 0.00 3.13
940 1049 2.860136 GCTGCCACAAGTGTTTTCTTTC 59.140 45.455 0.00 0.00 0.00 2.62
941 1050 2.497273 AGCTGCCACAAGTGTTTTCTTT 59.503 40.909 0.00 0.00 0.00 2.52
942 1051 2.099756 GAGCTGCCACAAGTGTTTTCTT 59.900 45.455 0.00 0.00 0.00 2.52
943 1052 1.678101 GAGCTGCCACAAGTGTTTTCT 59.322 47.619 0.00 0.00 0.00 2.52
944 1053 1.405105 TGAGCTGCCACAAGTGTTTTC 59.595 47.619 0.00 0.00 0.00 2.29
945 1054 1.134946 GTGAGCTGCCACAAGTGTTTT 59.865 47.619 13.89 0.00 37.04 2.43
946 1055 0.740737 GTGAGCTGCCACAAGTGTTT 59.259 50.000 13.89 0.00 37.04 2.83
947 1056 0.107017 AGTGAGCTGCCACAAGTGTT 60.107 50.000 18.81 0.27 39.42 3.32
1062 1176 7.639162 TGTAATCTTCTTCAGAAAGTCGAAC 57.361 36.000 0.00 0.00 34.16 3.95
1122 1236 6.904463 ACCTTATAAACGTTTCCAAATGGT 57.096 33.333 18.42 15.39 36.34 3.55
1133 1247 4.815846 ACAACGGTCAAACCTTATAAACGT 59.184 37.500 0.00 0.00 35.66 3.99
1151 1265 5.391629 GGCAGAAGGTATTAAGGAAACAACG 60.392 44.000 0.00 0.00 0.00 4.10
1152 1266 5.105877 GGGCAGAAGGTATTAAGGAAACAAC 60.106 44.000 0.00 0.00 0.00 3.32
1155 1269 4.856509 AGGGCAGAAGGTATTAAGGAAAC 58.143 43.478 0.00 0.00 0.00 2.78
1157 1271 5.014755 TGAAAGGGCAGAAGGTATTAAGGAA 59.985 40.000 0.00 0.00 0.00 3.36
1158 1272 4.538490 TGAAAGGGCAGAAGGTATTAAGGA 59.462 41.667 0.00 0.00 0.00 3.36
1160 1274 6.238484 CGATTGAAAGGGCAGAAGGTATTAAG 60.238 42.308 0.00 0.00 0.00 1.85
1165 1279 2.569853 TCGATTGAAAGGGCAGAAGGTA 59.430 45.455 0.00 0.00 0.00 3.08
1167 1281 2.012673 CTCGATTGAAAGGGCAGAAGG 58.987 52.381 0.00 0.00 0.00 3.46
1183 1297 2.950781 AGCCTATCTCACCAATCTCGA 58.049 47.619 0.00 0.00 0.00 4.04
1185 1299 5.537300 TGTTAGCCTATCTCACCAATCTC 57.463 43.478 0.00 0.00 0.00 2.75
1188 1302 5.371526 CACATGTTAGCCTATCTCACCAAT 58.628 41.667 0.00 0.00 0.00 3.16
1192 1306 4.408182 ACCACATGTTAGCCTATCTCAC 57.592 45.455 0.00 0.00 0.00 3.51
1194 1308 5.793030 AGTACCACATGTTAGCCTATCTC 57.207 43.478 0.00 0.00 0.00 2.75
1198 1312 7.093902 GCAGATATAGTACCACATGTTAGCCTA 60.094 40.741 0.00 0.00 0.00 3.93
1200 1314 5.869888 GCAGATATAGTACCACATGTTAGCC 59.130 44.000 0.00 0.00 0.00 3.93
1206 1320 3.509967 TCCCGCAGATATAGTACCACATG 59.490 47.826 0.00 0.00 0.00 3.21
1209 1323 5.909621 TTATCCCGCAGATATAGTACCAC 57.090 43.478 0.00 0.00 37.31 4.16
1211 1325 6.527057 AGTTTATCCCGCAGATATAGTACC 57.473 41.667 0.00 0.00 37.31 3.34
1212 1326 9.351570 GTTTAGTTTATCCCGCAGATATAGTAC 57.648 37.037 0.00 0.00 37.31 2.73
1213 1327 9.081204 TGTTTAGTTTATCCCGCAGATATAGTA 57.919 33.333 0.00 0.00 37.31 1.82
1214 1328 7.959175 TGTTTAGTTTATCCCGCAGATATAGT 58.041 34.615 0.00 0.00 37.31 2.12
1215 1329 7.545965 CCTGTTTAGTTTATCCCGCAGATATAG 59.454 40.741 0.00 0.00 37.31 1.31
1216 1330 7.383687 CCTGTTTAGTTTATCCCGCAGATATA 58.616 38.462 0.00 0.00 37.31 0.86
1217 1331 6.231211 CCTGTTTAGTTTATCCCGCAGATAT 58.769 40.000 0.00 0.00 37.31 1.63
1224 1338 4.482952 ACTCCCTGTTTAGTTTATCCCG 57.517 45.455 0.00 0.00 0.00 5.14
1230 1344 2.956333 GGCACAACTCCCTGTTTAGTTT 59.044 45.455 0.00 0.00 36.63 2.66
1231 1345 2.092103 TGGCACAACTCCCTGTTTAGTT 60.092 45.455 0.00 0.00 36.63 2.24
1233 1347 2.154462 CTGGCACAACTCCCTGTTTAG 58.846 52.381 0.00 0.00 38.70 1.85
1265 1379 0.947244 AGTTTCTTCACCGCAAGCAG 59.053 50.000 0.00 0.00 0.00 4.24
1348 1462 5.045215 TCGACTACGTTTTCATGTTTGAGT 58.955 37.500 0.00 0.00 40.69 3.41
1564 1699 1.075374 AGCTAAAGGTGATGCCCAACA 59.925 47.619 0.00 0.00 38.26 3.33
1567 1702 2.603075 AAAGCTAAAGGTGATGCCCA 57.397 45.000 0.00 0.00 38.26 5.36
1703 1943 2.559440 GATAGCAGGTTCAGCTGAAGG 58.441 52.381 29.13 20.97 43.33 3.46
1730 1970 4.200838 TGATTATCTTGAAGCGTGTGGA 57.799 40.909 0.00 0.00 0.00 4.02
2140 2422 0.392706 TTTGCAGTTCTGCTCTCCGA 59.607 50.000 22.44 1.82 35.49 4.55
2533 2826 9.868389 GTTCATTCTTTCCATTTTTGTGAAATC 57.132 29.630 0.00 0.00 0.00 2.17
2852 3158 4.000988 CGTTGGGTTGTATATATCCCTGC 58.999 47.826 14.71 7.97 40.48 4.85
2970 3276 4.640771 AACCCATCTTCTTGCTTACTGA 57.359 40.909 0.00 0.00 0.00 3.41
3038 3344 8.356657 TCTTCTAGCAATAATAGAGCACTCTTC 58.643 37.037 5.33 0.00 40.93 2.87
3039 3345 8.141268 GTCTTCTAGCAATAATAGAGCACTCTT 58.859 37.037 5.33 0.00 40.93 2.85
3040 3346 7.505585 AGTCTTCTAGCAATAATAGAGCACTCT 59.494 37.037 5.36 5.36 43.40 3.24
3041 3347 7.657336 AGTCTTCTAGCAATAATAGAGCACTC 58.343 38.462 0.00 0.00 31.17 3.51
3042 3348 7.286546 TGAGTCTTCTAGCAATAATAGAGCACT 59.713 37.037 0.00 0.00 31.17 4.40
3043 3349 7.429633 TGAGTCTTCTAGCAATAATAGAGCAC 58.570 38.462 0.00 0.00 31.17 4.40
3044 3350 7.588497 TGAGTCTTCTAGCAATAATAGAGCA 57.412 36.000 0.00 0.00 31.17 4.26
3045 3351 8.879342 TTTGAGTCTTCTAGCAATAATAGAGC 57.121 34.615 0.00 0.00 31.17 4.09
3050 3356 9.578439 GCAAATTTTGAGTCTTCTAGCAATAAT 57.422 29.630 13.26 0.00 0.00 1.28
3051 3357 8.796475 AGCAAATTTTGAGTCTTCTAGCAATAA 58.204 29.630 13.26 0.00 0.00 1.40
3052 3358 8.340618 AGCAAATTTTGAGTCTTCTAGCAATA 57.659 30.769 13.26 0.00 0.00 1.90
3053 3359 7.224522 AGCAAATTTTGAGTCTTCTAGCAAT 57.775 32.000 13.26 0.00 0.00 3.56
3054 3360 6.639632 AGCAAATTTTGAGTCTTCTAGCAA 57.360 33.333 13.26 0.00 0.00 3.91
3055 3361 6.639632 AAGCAAATTTTGAGTCTTCTAGCA 57.360 33.333 13.26 0.00 0.00 3.49
3056 3362 6.364435 CCAAAGCAAATTTTGAGTCTTCTAGC 59.636 38.462 13.26 0.00 39.79 3.42
3057 3363 7.651808 TCCAAAGCAAATTTTGAGTCTTCTAG 58.348 34.615 13.26 0.00 39.79 2.43
3058 3364 7.581213 TCCAAAGCAAATTTTGAGTCTTCTA 57.419 32.000 13.26 0.00 39.79 2.10
3059 3365 6.469782 TCCAAAGCAAATTTTGAGTCTTCT 57.530 33.333 13.26 0.00 39.79 2.85
3093 3421 5.816258 CCAGACTGGCATATATAGCATCAAG 59.184 44.000 8.99 4.41 0.00 3.02
3176 3504 1.885887 CTTCGATTTCTTGTTGCCCCA 59.114 47.619 0.00 0.00 0.00 4.96
3179 3507 2.704725 TGCTTCGATTTCTTGTTGCC 57.295 45.000 0.00 0.00 0.00 4.52
3248 3576 3.961477 TGTGAGAAATTTGACACCGTG 57.039 42.857 16.49 0.00 33.08 4.94
3253 3581 8.956426 AGTCTAACTTTTGTGAGAAATTTGACA 58.044 29.630 0.00 0.00 41.38 3.58
3336 3664 4.100653 TGTCCTTTTGAAAATGATGGTGCA 59.899 37.500 0.00 0.00 0.00 4.57
3473 4065 8.703604 TCTAGAACATTATAAGCAAGTGACAC 57.296 34.615 0.00 0.00 0.00 3.67
3570 4162 4.218417 AGCAACAAACAGATACCATTGGTC 59.782 41.667 12.68 0.00 37.09 4.02
3586 4178 2.937519 TGGTTCACATACCAGCAACAA 58.062 42.857 0.00 0.00 43.14 2.83
3688 4280 2.414559 CCACTGCCATTTTCATGTCGTC 60.415 50.000 0.00 0.00 0.00 4.20
3698 4290 3.956199 CCATGAGTATTCCACTGCCATTT 59.044 43.478 0.00 0.00 37.72 2.32
3732 4354 2.722094 CCCAAATTCGTCCTTCATGGA 58.278 47.619 0.00 0.00 43.86 3.41
3733 4355 1.134946 GCCCAAATTCGTCCTTCATGG 59.865 52.381 0.00 0.00 37.10 3.66
3734 4356 1.818060 TGCCCAAATTCGTCCTTCATG 59.182 47.619 0.00 0.00 0.00 3.07
3735 4357 2.214376 TGCCCAAATTCGTCCTTCAT 57.786 45.000 0.00 0.00 0.00 2.57
3736 4358 1.988293 TTGCCCAAATTCGTCCTTCA 58.012 45.000 0.00 0.00 0.00 3.02
3737 4359 4.712122 TTATTGCCCAAATTCGTCCTTC 57.288 40.909 0.00 0.00 0.00 3.46
3738 4360 4.322424 GGTTTATTGCCCAAATTCGTCCTT 60.322 41.667 0.00 0.00 0.00 3.36
3739 4361 3.194755 GGTTTATTGCCCAAATTCGTCCT 59.805 43.478 0.00 0.00 0.00 3.85
3740 4362 3.517602 GGTTTATTGCCCAAATTCGTCC 58.482 45.455 0.00 0.00 0.00 4.79
3741 4363 3.517602 GGGTTTATTGCCCAAATTCGTC 58.482 45.455 0.00 0.00 45.40 4.20
3742 4364 3.603158 GGGTTTATTGCCCAAATTCGT 57.397 42.857 0.00 0.00 45.40 3.85
3750 4372 3.151710 GCCGGGGGTTTATTGCCC 61.152 66.667 2.18 0.00 45.35 5.36
3751 4373 2.363147 TGCCGGGGGTTTATTGCC 60.363 61.111 2.18 0.00 0.00 4.52
3752 4374 3.076258 GCTGCCGGGGGTTTATTGC 62.076 63.158 2.18 0.00 0.00 3.56
3753 4375 1.254284 TTGCTGCCGGGGGTTTATTG 61.254 55.000 2.18 0.00 0.00 1.90
3754 4376 0.543174 TTTGCTGCCGGGGGTTTATT 60.543 50.000 2.18 0.00 0.00 1.40
3755 4377 1.077625 TTTGCTGCCGGGGGTTTAT 59.922 52.632 2.18 0.00 0.00 1.40
3756 4378 1.904378 GTTTGCTGCCGGGGGTTTA 60.904 57.895 2.18 0.00 0.00 2.01
3757 4379 3.230990 GTTTGCTGCCGGGGGTTT 61.231 61.111 2.18 0.00 0.00 3.27
3758 4380 3.749284 AAGTTTGCTGCCGGGGGTT 62.749 57.895 2.18 0.00 0.00 4.11
3788 4410 2.005370 ACTCGACCACTTCAAGGGTA 57.995 50.000 0.00 0.00 37.57 3.69
3987 4612 4.083537 CCGATTCTTCACCAATTTCGTTCA 60.084 41.667 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.