Multiple sequence alignment - TraesCS6B01G305600

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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 TraesCS6B01G305600 chr6B 100.000 5004 0 0 1 5004 548631096 548626093 0.000000e+00 9241.0
1 TraesCS6B01G305600 chr6D 95.148 2576 90 18 181 2738 363874933 363872375 0.000000e+00 4032.0
2 TraesCS6B01G305600 chr6D 96.997 1099 28 2 3133 4228 363870332 363869236 0.000000e+00 1842.0
3 TraesCS6B01G305600 chr6D 92.568 296 12 7 2741 3036 363872300 363872015 2.790000e-112 416.0
4 TraesCS6B01G305600 chr6D 87.908 306 29 5 4466 4766 363841984 363841682 2.220000e-93 353.0
5 TraesCS6B01G305600 chr6D 89.773 176 16 1 4293 4468 363869034 363868861 1.810000e-54 224.0
6 TraesCS6B01G305600 chr6D 92.000 100 8 0 4905 5004 363827615 363827516 1.880000e-29 141.0
7 TraesCS6B01G305600 chr6D 84.211 114 16 1 215 328 218386375 218386486 5.300000e-20 110.0
8 TraesCS6B01G305600 chr6A 93.726 2056 89 18 709 2735 504894412 504892368 0.000000e+00 3046.0
9 TraesCS6B01G305600 chr6A 88.889 1773 90 47 2741 4507 504892304 504890633 0.000000e+00 2084.0
10 TraesCS6B01G305600 chr6A 88.122 362 34 1 4551 4903 504890625 504890264 5.990000e-114 422.0
11 TraesCS6B01G305600 chr6A 79.310 493 81 13 2 476 504895311 504894822 4.830000e-85 326.0
12 TraesCS6B01G305600 chr6A 93.000 100 5 1 4905 5004 504890190 504890093 1.450000e-30 145.0
13 TraesCS6B01G305600 chr5D 80.431 1298 203 34 1084 2365 370118077 370119339 0.000000e+00 942.0
14 TraesCS6B01G305600 chr5D 85.874 715 77 18 3130 3832 370120152 370120854 0.000000e+00 739.0
15 TraesCS6B01G305600 chr5D 74.060 266 62 6 3135 3395 98228719 98228982 8.860000e-18 102.0
16 TraesCS6B01G305600 chr5D 81.905 105 14 4 202 303 29171672 29171570 3.210000e-12 84.2
17 TraesCS6B01G305600 chr5B 79.520 1333 207 45 1066 2373 439276762 439278053 0.000000e+00 889.0
18 TraesCS6B01G305600 chr5B 85.594 715 79 17 3130 3832 439280220 439280922 0.000000e+00 728.0
19 TraesCS6B01G305600 chr5A 86.158 708 80 14 3131 3832 472493738 472494433 0.000000e+00 749.0
20 TraesCS6B01G305600 chr7D 83.779 561 83 4 1369 1922 90588211 90587652 4.440000e-145 525.0
21 TraesCS6B01G305600 chr7D 76.167 600 109 18 3240 3831 234345600 234346173 8.200000e-73 285.0
22 TraesCS6B01G305600 chr7D 77.224 281 44 12 2098 2359 219712911 219713190 4.040000e-31 147.0
23 TraesCS6B01G305600 chr7D 88.889 63 7 0 266 328 64244014 64243952 1.490000e-10 78.7
24 TraesCS6B01G305600 chr4A 80.172 580 102 8 1354 1922 16886067 16886644 5.990000e-114 422.0
25 TraesCS6B01G305600 chr3A 79.323 561 92 12 1369 1922 6765157 6764614 6.120000e-99 372.0
26 TraesCS6B01G305600 chr3A 79.144 561 93 11 1369 1922 6710586 6710043 2.850000e-97 366.0
27 TraesCS6B01G305600 chr1B 79.144 561 87 12 1368 1922 313398747 313398211 1.320000e-95 361.0
28 TraesCS6B01G305600 chr3D 76.333 600 108 17 3240 3831 456654974 456655547 1.760000e-74 291.0
29 TraesCS6B01G305600 chrUn 85.561 187 27 0 3240 3426 478826474 478826660 3.950000e-46 196.0
30 TraesCS6B01G305600 chr7B 77.692 260 38 11 2119 2359 180031180 180030922 1.880000e-29 141.0
31 TraesCS6B01G305600 chr7A 76.868 281 45 13 2098 2359 232281626 232281905 1.880000e-29 141.0


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 TraesCS6B01G305600 chr6B 548626093 548631096 5003 True 9241.0 9241 100.0000 1 5004 1 chr6B.!!$R1 5003
1 TraesCS6B01G305600 chr6D 363868861 363874933 6072 True 1628.5 4032 93.6215 181 4468 4 chr6D.!!$R3 4287
2 TraesCS6B01G305600 chr6A 504890093 504895311 5218 True 1204.6 3046 88.6094 2 5004 5 chr6A.!!$R1 5002
3 TraesCS6B01G305600 chr5D 370118077 370120854 2777 False 840.5 942 83.1525 1084 3832 2 chr5D.!!$F2 2748
4 TraesCS6B01G305600 chr5B 439276762 439280922 4160 False 808.5 889 82.5570 1066 3832 2 chr5B.!!$F1 2766
5 TraesCS6B01G305600 chr5A 472493738 472494433 695 False 749.0 749 86.1580 3131 3832 1 chr5A.!!$F1 701
6 TraesCS6B01G305600 chr7D 90587652 90588211 559 True 525.0 525 83.7790 1369 1922 1 chr7D.!!$R2 553
7 TraesCS6B01G305600 chr7D 234345600 234346173 573 False 285.0 285 76.1670 3240 3831 1 chr7D.!!$F2 591
8 TraesCS6B01G305600 chr4A 16886067 16886644 577 False 422.0 422 80.1720 1354 1922 1 chr4A.!!$F1 568
9 TraesCS6B01G305600 chr3A 6764614 6765157 543 True 372.0 372 79.3230 1369 1922 1 chr3A.!!$R2 553
10 TraesCS6B01G305600 chr3A 6710043 6710586 543 True 366.0 366 79.1440 1369 1922 1 chr3A.!!$R1 553
11 TraesCS6B01G305600 chr1B 313398211 313398747 536 True 361.0 361 79.1440 1368 1922 1 chr1B.!!$R1 554
12 TraesCS6B01G305600 chr3D 456654974 456655547 573 False 291.0 291 76.3330 3240 3831 1 chr3D.!!$F1 591

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
929 1147 0.034089 CCTCCATTTCTCCCCACCAC 60.034 60.0 0.0 0.0 0.00 4.16 F
933 1154 0.323725 CATTTCTCCCCACCACCTGG 60.324 60.0 0.0 0.0 40.26 4.45 F
2413 2663 0.028110 GATTTCCGTTCATCGCTGCC 59.972 55.0 0.0 0.0 38.35 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2408 2658 0.523519 GCACTCTAAAACAGGGCAGC 59.476 55.0 0.0 0.0 0.00 5.25 R
2739 4883 0.526662 AACTCCAACTAGAGCCGTCG 59.473 55.0 0.0 0.0 37.39 5.12 R
4389 8371 0.475906 AAAGCCAGCACAGAGAACCT 59.524 50.0 0.0 0.0 0.00 3.50 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
92 99 8.866093 AGTTTGGTATAATATTAATTGGGTGCC 58.134 33.333 0.00 0.00 0.00 5.01
108 115 0.457443 TGCCAAACATGTTGAACGCA 59.543 45.000 12.82 13.91 0.00 5.24
111 118 2.741612 CCAAACATGTTGAACGCACAT 58.258 42.857 12.82 0.00 0.00 3.21
116 123 3.567530 ACATGTTGAACGCACATCATTG 58.432 40.909 0.00 3.92 30.79 2.82
123 130 5.816449 TGAACGCACATCATTGTATCAAT 57.184 34.783 0.00 0.00 33.76 2.57
130 137 7.331934 ACGCACATCATTGTATCAATATAGGTC 59.668 37.037 0.00 0.00 33.76 3.85
131 138 7.331687 CGCACATCATTGTATCAATATAGGTCA 59.668 37.037 0.00 0.00 33.76 4.02
191 198 7.283127 TGAATCTGCCCATTTGAGTATTCTTAC 59.717 37.037 0.00 0.00 0.00 2.34
326 333 8.974060 TTATCAAATCCTACCTGTGATTTACC 57.026 34.615 0.00 0.00 38.73 2.85
331 338 7.931015 AATCCTACCTGTGATTTACCTATCA 57.069 36.000 0.00 0.00 32.29 2.15
405 422 7.378461 CCATGCATGGTACGTAAATTATGAAAC 59.622 37.037 33.68 0.00 43.05 2.78
409 426 7.850982 GCATGGTACGTAAATTATGAAACTGAG 59.149 37.037 0.00 0.00 0.00 3.35
493 561 4.499183 TGAAACAACGAACAAAAGGCATT 58.501 34.783 0.00 0.00 0.00 3.56
516 584 1.203758 GGAACAATAAAACCGGCTGGG 59.796 52.381 18.00 4.46 40.75 4.45
519 587 2.049767 AATAAAACCGGCTGGGCGG 61.050 57.895 29.16 29.16 40.62 6.13
556 624 0.676736 GCGTAATGAGAGGGGAGGAG 59.323 60.000 0.00 0.00 0.00 3.69
565 633 4.097361 GGGGAGGAGGCGGTTGAC 62.097 72.222 0.00 0.00 0.00 3.18
584 657 3.562141 TGACGAAGAATTCTGCCGAAAAA 59.438 39.130 26.96 12.70 44.75 1.94
589 662 5.560953 CGAAGAATTCTGCCGAAAAAGAACT 60.561 40.000 19.75 0.00 44.75 3.01
809 1019 4.186856 ACACCAACACAAGGAACAAAAG 57.813 40.909 0.00 0.00 0.00 2.27
882 1095 3.926058 ACCCGCAACCTCTATTTGTAT 57.074 42.857 0.00 0.00 0.00 2.29
896 1114 7.360691 CCTCTATTTGTATAGATGCATGCACAC 60.361 40.741 25.37 19.70 41.38 3.82
897 1115 4.898829 TTTGTATAGATGCATGCACACC 57.101 40.909 25.37 15.16 0.00 4.16
898 1116 3.557228 TGTATAGATGCATGCACACCA 57.443 42.857 25.37 9.92 0.00 4.17
899 1117 3.205338 TGTATAGATGCATGCACACCAC 58.795 45.455 25.37 17.04 0.00 4.16
900 1118 1.302366 ATAGATGCATGCACACCACG 58.698 50.000 25.37 0.00 0.00 4.94
925 1143 0.121197 ACTCCCTCCATTTCTCCCCA 59.879 55.000 0.00 0.00 0.00 4.96
926 1144 0.548510 CTCCCTCCATTTCTCCCCAC 59.451 60.000 0.00 0.00 0.00 4.61
928 1146 1.214305 CCCTCCATTTCTCCCCACCA 61.214 60.000 0.00 0.00 0.00 4.17
929 1147 0.034089 CCTCCATTTCTCCCCACCAC 60.034 60.000 0.00 0.00 0.00 4.16
933 1154 0.323725 CATTTCTCCCCACCACCTGG 60.324 60.000 0.00 0.00 40.26 4.45
1174 1401 3.540367 TTCCCCTCGTTCGGCAACC 62.540 63.158 0.00 0.00 0.00 3.77
1767 2009 0.398696 TGTACATGGCCAAGAACGGT 59.601 50.000 16.33 6.85 0.00 4.83
1832 2074 2.291043 GGGTCCTCCTCGGCAAGAA 61.291 63.158 0.00 0.00 0.00 2.52
1912 2154 2.244117 CTGGGACATGACGGTGGAGG 62.244 65.000 0.00 0.00 38.20 4.30
1925 2167 2.362120 GGAGGTTCTCCCCGACGA 60.362 66.667 0.00 0.00 44.36 4.20
1928 2170 2.210341 GAGGTTCTCCCCGACGACAC 62.210 65.000 0.00 0.00 0.00 3.67
1931 2173 1.608336 TTCTCCCCGACGACACCAT 60.608 57.895 0.00 0.00 0.00 3.55
2030 2272 2.813908 GTTCGCCGGCCTGTACAG 60.814 66.667 23.46 16.34 0.00 2.74
2037 2279 2.103042 CGGCCTGTACAGCAAGAGC 61.103 63.158 17.86 14.17 42.56 4.09
2052 2294 1.531840 GAGCAGGCGGAGGAGGATA 60.532 63.158 0.00 0.00 0.00 2.59
2136 2378 3.576648 CAAGGAGTTCGACTACAAGGAC 58.423 50.000 0.00 0.00 29.09 3.85
2408 2658 5.868257 TCAATCAAAGATTTCCGTTCATCG 58.132 37.500 0.00 0.00 39.52 3.84
2413 2663 0.028110 GATTTCCGTTCATCGCTGCC 59.972 55.000 0.00 0.00 38.35 4.85
2630 4694 1.052287 CGCGTGAAAAATGAGTTGCC 58.948 50.000 0.00 0.00 0.00 4.52
2704 4771 6.422400 GGGCATTTTCAGATTACGTTTCAAAA 59.578 34.615 0.00 0.00 0.00 2.44
2739 4883 6.292008 GCGAGATACTGACGGTTTAATTTACC 60.292 42.308 0.00 0.48 0.00 2.85
2748 4892 3.264947 GGTTTAATTTACCGACGGCTCT 58.735 45.455 15.39 0.00 0.00 4.09
2783 4927 4.130118 CACCCAAATATCAGTGACTAGCC 58.870 47.826 0.00 0.00 31.79 3.93
2839 4983 5.469579 TGGGATTTGGGATCATGATTGAAT 58.530 37.500 10.14 7.86 34.96 2.57
2967 5111 9.787435 ATAAACATTCTGAAGTACTGTTTGGTA 57.213 29.630 21.29 9.12 39.58 3.25
2979 5123 7.343614 GTACTGTTTGGTAGTACTACTTTGC 57.656 40.000 27.71 17.58 44.39 3.68
3022 5166 4.937193 GCAGCACTCATCTCTGCT 57.063 55.556 6.24 0.00 46.93 4.24
3023 5167 2.680429 GCAGCACTCATCTCTGCTC 58.320 57.895 6.24 0.00 46.93 4.26
3029 5173 2.094078 GCACTCATCTCTGCTCTGACTT 60.094 50.000 0.00 0.00 0.00 3.01
3031 5175 2.496871 ACTCATCTCTGCTCTGACTTGG 59.503 50.000 0.00 0.00 0.00 3.61
3035 5179 2.319844 TCTCTGCTCTGACTTGGACAA 58.680 47.619 0.00 0.00 0.00 3.18
3036 5180 2.036475 TCTCTGCTCTGACTTGGACAAC 59.964 50.000 0.00 0.00 0.00 3.32
3041 5185 1.417890 CTCTGACTTGGACAACCTGGT 59.582 52.381 0.00 0.00 37.04 4.00
3043 5187 0.105964 TGACTTGGACAACCTGGTCG 59.894 55.000 0.00 0.00 39.30 4.79
3044 5188 1.227853 ACTTGGACAACCTGGTCGC 60.228 57.895 0.00 0.00 38.70 5.19
3048 5192 0.541063 TGGACAACCTGGTCGCTAGA 60.541 55.000 0.00 0.00 38.70 2.43
3105 6861 9.559958 AACTGTTCACATTTCAATAAATCGATC 57.440 29.630 0.00 0.00 32.87 3.69
3106 6862 8.729756 ACTGTTCACATTTCAATAAATCGATCA 58.270 29.630 0.00 0.00 32.87 2.92
3107 6863 9.726232 CTGTTCACATTTCAATAAATCGATCAT 57.274 29.630 0.00 0.00 32.87 2.45
3113 6869 9.669353 ACATTTCAATAAATCGATCATAACAGC 57.331 29.630 0.00 0.00 32.87 4.40
3115 6871 6.466308 TCAATAAATCGATCATAACAGCGG 57.534 37.500 0.00 0.00 0.00 5.52
3116 6872 6.220201 TCAATAAATCGATCATAACAGCGGA 58.780 36.000 0.00 0.00 0.00 5.54
3118 6874 4.997905 AAATCGATCATAACAGCGGATG 57.002 40.909 0.00 0.00 0.00 3.51
3119 6875 2.438868 TCGATCATAACAGCGGATGG 57.561 50.000 0.00 0.00 0.00 3.51
3121 6877 2.061773 CGATCATAACAGCGGATGGTC 58.938 52.381 0.00 0.00 31.06 4.02
3122 6878 2.061773 GATCATAACAGCGGATGGTCG 58.938 52.381 0.00 0.00 0.00 4.79
3123 6879 0.104120 TCATAACAGCGGATGGTCGG 59.896 55.000 0.00 0.00 0.00 4.79
3124 6880 0.179084 CATAACAGCGGATGGTCGGT 60.179 55.000 0.00 0.00 41.81 4.69
3125 6881 0.104304 ATAACAGCGGATGGTCGGTC 59.896 55.000 0.00 0.00 38.91 4.79
3126 6882 1.252215 TAACAGCGGATGGTCGGTCA 61.252 55.000 0.00 0.00 38.91 4.02
3127 6883 2.107041 AACAGCGGATGGTCGGTCAA 62.107 55.000 0.00 0.00 38.91 3.18
3128 6884 2.100631 CAGCGGATGGTCGGTCAAC 61.101 63.158 0.00 0.00 38.91 3.18
3992 7801 1.671742 GTGACGGACAGGGACATGT 59.328 57.895 0.00 0.00 35.68 3.21
4066 7875 0.037326 GAGTGAGTCGGTCAATGGCA 60.037 55.000 0.00 0.00 36.74 4.92
4067 7876 0.320771 AGTGAGTCGGTCAATGGCAC 60.321 55.000 0.00 0.00 36.74 5.01
4088 7897 2.301787 GCGCGATCAATATCAACAAGC 58.698 47.619 12.10 0.00 31.93 4.01
4128 7937 2.065993 ACGATGGTGAGTTCTTGACG 57.934 50.000 0.00 0.00 0.00 4.35
4189 7998 3.138884 TGCCAAGTTGTGATCAAGCTA 57.861 42.857 0.00 0.00 33.97 3.32
4193 8002 4.082571 GCCAAGTTGTGATCAAGCTATGTT 60.083 41.667 0.00 0.00 33.97 2.71
4198 8007 5.769662 AGTTGTGATCAAGCTATGTTTGGAA 59.230 36.000 0.00 0.00 33.97 3.53
4199 8008 5.627499 TGTGATCAAGCTATGTTTGGAAC 57.373 39.130 0.00 0.00 0.00 3.62
4207 8016 0.988832 TATGTTTGGAACGGGGAGCT 59.011 50.000 0.00 0.00 0.00 4.09
4208 8017 0.988832 ATGTTTGGAACGGGGAGCTA 59.011 50.000 0.00 0.00 0.00 3.32
4231 8212 8.078596 GCTATATAGCTTTTCATTTCTGGGTTG 58.921 37.037 24.63 0.00 45.62 3.77
4235 8216 3.742882 GCTTTTCATTTCTGGGTTGAAGC 59.257 43.478 0.00 0.00 31.54 3.86
4241 8222 0.766131 TTCTGGGTTGAAGCGGGTAA 59.234 50.000 0.00 0.00 0.00 2.85
4243 8224 1.143277 TCTGGGTTGAAGCGGGTAAAA 59.857 47.619 0.00 0.00 0.00 1.52
4244 8225 1.539827 CTGGGTTGAAGCGGGTAAAAG 59.460 52.381 0.00 0.00 0.00 2.27
4245 8226 0.885879 GGGTTGAAGCGGGTAAAAGG 59.114 55.000 0.00 0.00 0.00 3.11
4246 8227 1.612676 GGTTGAAGCGGGTAAAAGGT 58.387 50.000 0.00 0.00 0.00 3.50
4247 8228 2.552809 GGGTTGAAGCGGGTAAAAGGTA 60.553 50.000 0.00 0.00 0.00 3.08
4260 8241 7.154656 CGGGTAAAAGGTAGTAGTACAACTTT 58.845 38.462 9.89 7.82 0.00 2.66
4261 8242 7.657354 CGGGTAAAAGGTAGTAGTACAACTTTT 59.343 37.037 21.49 21.49 35.98 2.27
4262 8243 9.996554 GGGTAAAAGGTAGTAGTACAACTTTTA 57.003 33.333 20.20 20.20 34.78 1.52
4288 8269 7.906327 TCTGATTTTATTTTCTTTTGGAGGGG 58.094 34.615 0.00 0.00 0.00 4.79
4289 8270 7.512402 TCTGATTTTATTTTCTTTTGGAGGGGT 59.488 33.333 0.00 0.00 0.00 4.95
4317 8299 9.187996 TCTGATCTTATTGTTGATTGCCATTTA 57.812 29.630 0.00 0.00 0.00 1.40
4329 8311 0.671163 GCCATTTACCGTCGTGTCCA 60.671 55.000 0.00 0.00 0.00 4.02
4330 8312 1.355971 CCATTTACCGTCGTGTCCAG 58.644 55.000 0.00 0.00 0.00 3.86
4389 8371 4.560716 CGGTGTTTCTAATGAGAGGTGACA 60.561 45.833 0.00 0.00 31.77 3.58
4397 8379 2.685106 TGAGAGGTGACAGGTTCTCT 57.315 50.000 10.45 0.00 39.07 3.10
4475 8457 8.591312 CAGTGGTTTTGTACAGTTAATTTGTTG 58.409 33.333 0.00 0.00 0.00 3.33
4504 8486 3.303395 GCAATTGCTATTCCTCGTGTAGC 60.303 47.826 23.21 0.00 40.85 3.58
4507 8489 1.409064 TGCTATTCCTCGTGTAGCTGG 59.591 52.381 0.00 0.00 41.01 4.85
4508 8490 1.269831 GCTATTCCTCGTGTAGCTGGG 60.270 57.143 0.00 0.00 38.20 4.45
4509 8491 1.341531 CTATTCCTCGTGTAGCTGGGG 59.658 57.143 0.00 0.00 0.00 4.96
4510 8492 0.325296 ATTCCTCGTGTAGCTGGGGA 60.325 55.000 0.00 0.00 0.00 4.81
4513 8495 0.323629 CCTCGTGTAGCTGGGGAAAA 59.676 55.000 0.00 0.00 0.00 2.29
4514 8496 1.271163 CCTCGTGTAGCTGGGGAAAAA 60.271 52.381 0.00 0.00 0.00 1.94
4533 8515 2.256117 AAAACTCACCCTTCCAGTCG 57.744 50.000 0.00 0.00 0.00 4.18
4534 8516 1.420430 AAACTCACCCTTCCAGTCGA 58.580 50.000 0.00 0.00 0.00 4.20
4535 8517 1.645710 AACTCACCCTTCCAGTCGAT 58.354 50.000 0.00 0.00 0.00 3.59
4536 8518 1.645710 ACTCACCCTTCCAGTCGATT 58.354 50.000 0.00 0.00 0.00 3.34
4537 8519 1.978580 ACTCACCCTTCCAGTCGATTT 59.021 47.619 0.00 0.00 0.00 2.17
4538 8520 2.028020 ACTCACCCTTCCAGTCGATTTC 60.028 50.000 0.00 0.00 0.00 2.17
4539 8521 1.278127 TCACCCTTCCAGTCGATTTCC 59.722 52.381 0.00 0.00 0.00 3.13
4540 8522 1.003118 CACCCTTCCAGTCGATTTCCA 59.997 52.381 0.00 0.00 0.00 3.53
4541 8523 1.916181 ACCCTTCCAGTCGATTTCCAT 59.084 47.619 0.00 0.00 0.00 3.41
4542 8524 2.292267 CCCTTCCAGTCGATTTCCATG 58.708 52.381 0.00 0.00 0.00 3.66
4543 8525 2.292267 CCTTCCAGTCGATTTCCATGG 58.708 52.381 4.97 4.97 0.00 3.66
4544 8526 2.356125 CCTTCCAGTCGATTTCCATGGT 60.356 50.000 12.58 0.00 32.68 3.55
4545 8527 2.691409 TCCAGTCGATTTCCATGGTC 57.309 50.000 12.58 0.63 32.68 4.02
4546 8528 1.209504 TCCAGTCGATTTCCATGGTCC 59.790 52.381 12.58 0.00 32.68 4.46
4547 8529 1.290203 CAGTCGATTTCCATGGTCCG 58.710 55.000 12.58 11.02 0.00 4.79
4548 8530 1.134818 CAGTCGATTTCCATGGTCCGA 60.135 52.381 12.58 13.09 0.00 4.55
4549 8531 1.134788 AGTCGATTTCCATGGTCCGAC 60.135 52.381 26.89 26.89 44.40 4.79
4550 8532 0.179121 TCGATTTCCATGGTCCGACG 60.179 55.000 12.58 12.27 0.00 5.12
4551 8533 0.179121 CGATTTCCATGGTCCGACGA 60.179 55.000 12.58 0.00 0.00 4.20
4552 8534 1.737696 CGATTTCCATGGTCCGACGAA 60.738 52.381 12.58 0.00 0.00 3.85
4553 8535 1.933853 GATTTCCATGGTCCGACGAAG 59.066 52.381 12.58 0.00 0.00 3.79
4554 8536 0.672401 TTTCCATGGTCCGACGAAGC 60.672 55.000 12.58 0.00 0.00 3.86
4581 8563 0.882042 CGAGCCGGAAATGGAGATGG 60.882 60.000 5.05 0.00 0.00 3.51
4647 8638 1.543208 GGGACATCATAGCATCGCCAA 60.543 52.381 0.00 0.00 0.00 4.52
4669 8660 3.644966 AAAGGTGAGTCTTGGTTGACA 57.355 42.857 0.00 0.00 39.27 3.58
4682 8673 2.076863 GGTTGACAGTGAGGTGCATAC 58.923 52.381 0.00 0.00 0.00 2.39
4684 8675 0.246360 TGACAGTGAGGTGCATACGG 59.754 55.000 0.00 0.00 0.00 4.02
4691 8682 2.112190 TGAGGTGCATACGGTGGATTA 58.888 47.619 0.00 0.00 0.00 1.75
4697 8688 3.059868 GTGCATACGGTGGATTATTGTCG 60.060 47.826 0.00 0.00 0.00 4.35
4702 8693 1.275657 GTGGATTATTGTCGGCGCG 59.724 57.895 0.00 0.00 0.00 6.86
4740 8731 3.102942 ATGGCCAGGGCATGAAGT 58.897 55.556 27.45 3.67 46.89 3.01
4742 8733 2.757099 GGCCAGGGCATGAAGTGG 60.757 66.667 13.10 0.00 44.11 4.00
4750 8741 2.952714 GCATGAAGTGGCAAGGAGT 58.047 52.632 0.00 0.00 0.00 3.85
4755 8746 2.069165 GAAGTGGCAAGGAGTGGGGT 62.069 60.000 0.00 0.00 0.00 4.95
4793 8784 1.152652 GGATCGAGAGGGGAGAGCA 60.153 63.158 0.00 0.00 0.00 4.26
4803 8794 0.179234 GGGGAGAGCAGTAGGAAAGC 59.821 60.000 0.00 0.00 0.00 3.51
4809 8800 2.625790 AGAGCAGTAGGAAAGCGGATAG 59.374 50.000 0.00 0.00 0.00 2.08
4847 8838 9.273016 CTTGACTAAAGTTTAGAAACCTCATCA 57.727 33.333 25.87 14.55 39.71 3.07
4883 8874 2.612493 GCCAAAGCAGGACCCCCTA 61.612 63.158 0.00 0.00 42.02 3.53
4890 8881 1.716503 AGCAGGACCCCCTACAAAAAT 59.283 47.619 0.00 0.00 42.02 1.82
4900 8891 9.423964 GGACCCCCTACAAAAATATGTAAAATA 57.576 33.333 0.00 0.00 35.48 1.40
4961 9024 8.375465 GTTTGTATTGATATTTTGAAGCTGTGC 58.625 33.333 0.00 0.00 0.00 4.57
4975 9038 4.654091 AGCTGTGCTTTTTACACATTGT 57.346 36.364 0.00 0.00 46.32 2.71
4976 9039 5.766150 AGCTGTGCTTTTTACACATTGTA 57.234 34.783 0.00 0.00 46.32 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 8.803235 TGTGCAAATATATCTTACCTCGTATCT 58.197 33.333 0.00 0.00 0.00 1.98
66 68 8.866093 GGCACCCAATTAATATTATACCAAACT 58.134 33.333 0.00 0.00 0.00 2.66
67 69 8.643324 TGGCACCCAATTAATATTATACCAAAC 58.357 33.333 0.00 0.00 0.00 2.93
87 94 1.486439 CGTTCAACATGTTTGGCACC 58.514 50.000 8.77 0.00 0.00 5.01
88 95 0.852136 GCGTTCAACATGTTTGGCAC 59.148 50.000 8.77 2.49 0.00 5.01
92 99 3.370276 TGATGTGCGTTCAACATGTTTG 58.630 40.909 8.77 5.07 0.00 2.93
130 137 5.981315 GCCATCAATGTAGGTCAATTCAATG 59.019 40.000 0.00 0.00 0.00 2.82
131 138 5.895534 AGCCATCAATGTAGGTCAATTCAAT 59.104 36.000 0.00 0.00 0.00 2.57
142 149 6.988580 TCAACTAATCTCAGCCATCAATGTAG 59.011 38.462 0.00 0.00 0.00 2.74
144 151 5.748402 TCAACTAATCTCAGCCATCAATGT 58.252 37.500 0.00 0.00 0.00 2.71
145 152 6.688637 TTCAACTAATCTCAGCCATCAATG 57.311 37.500 0.00 0.00 0.00 2.82
146 153 7.507733 GATTCAACTAATCTCAGCCATCAAT 57.492 36.000 0.00 0.00 40.82 2.57
313 320 8.877864 TGATTTTTGATAGGTAAATCACAGGT 57.122 30.769 0.00 0.00 41.07 4.00
326 333 9.654417 CAAAGCCAAACTTTTGATTTTTGATAG 57.346 29.630 3.17 0.00 46.73 2.08
331 338 5.649557 GCCAAAGCCAAACTTTTGATTTTT 58.350 33.333 3.17 0.00 46.73 1.94
405 422 7.273381 CCGCAATTTATTTACCTTTTGTCTCAG 59.727 37.037 0.00 0.00 0.00 3.35
409 426 6.864165 TCACCGCAATTTATTTACCTTTTGTC 59.136 34.615 0.00 0.00 0.00 3.18
469 487 3.862267 TGCCTTTTGTTCGTTGTTTCATG 59.138 39.130 0.00 0.00 0.00 3.07
481 549 3.902881 TGTTCCACAATGCCTTTTGTT 57.097 38.095 0.00 0.00 37.73 2.83
493 561 2.294791 CAGCCGGTTTTATTGTTCCACA 59.705 45.455 1.90 0.00 0.00 4.17
525 593 2.295602 ATTACGCCCCTCCACCGTT 61.296 57.895 0.00 0.00 36.51 4.44
526 594 2.686106 ATTACGCCCCTCCACCGT 60.686 61.111 0.00 0.00 38.84 4.83
529 597 0.105039 CTCTCATTACGCCCCTCCAC 59.895 60.000 0.00 0.00 0.00 4.02
556 624 1.128692 CAGAATTCTTCGTCAACCGCC 59.871 52.381 4.86 0.00 36.19 6.13
565 633 4.404507 TCTTTTTCGGCAGAATTCTTCG 57.595 40.909 17.25 17.25 36.09 3.79
584 657 9.987272 ACCTACTTAAAACATACGTAAAGTTCT 57.013 29.630 14.63 6.36 30.08 3.01
698 772 2.037901 TGAAGCATGGTTTCTTTGGCA 58.962 42.857 12.13 0.12 0.00 4.92
882 1095 1.368345 GCGTGGTGTGCATGCATCTA 61.368 55.000 25.64 15.05 34.89 1.98
896 1114 4.436998 GAGGGAGTCGTGGCGTGG 62.437 72.222 0.00 0.00 0.00 4.94
897 1115 4.436998 GGAGGGAGTCGTGGCGTG 62.437 72.222 0.00 0.00 0.00 5.34
898 1116 4.988716 TGGAGGGAGTCGTGGCGT 62.989 66.667 0.00 0.00 0.00 5.68
899 1117 2.521958 AAATGGAGGGAGTCGTGGCG 62.522 60.000 0.00 0.00 0.00 5.69
900 1118 0.744771 GAAATGGAGGGAGTCGTGGC 60.745 60.000 0.00 0.00 0.00 5.01
933 1154 2.503382 GGAGGAGAGATGGCCGGAC 61.503 68.421 5.05 0.56 0.00 4.79
946 1167 4.144727 GAGCCGGAGAGGGGAGGA 62.145 72.222 5.05 0.00 41.48 3.71
1236 1463 3.068064 TCCGGCGTGATCTGCAGA 61.068 61.111 20.79 20.79 0.00 4.26
1912 2154 1.885163 ATGGTGTCGTCGGGGAGAAC 61.885 60.000 0.00 0.00 0.00 3.01
1925 2167 4.740822 GCTTGCCGGGGATGGTGT 62.741 66.667 2.18 0.00 0.00 4.16
2030 2272 4.087892 TCCTCCGCCTGCTCTTGC 62.088 66.667 0.00 0.00 40.20 4.01
2037 2279 1.910772 CCCTATCCTCCTCCGCCTG 60.911 68.421 0.00 0.00 0.00 4.85
2052 2294 2.438795 GAGCTCGAGTCGTCCCCT 60.439 66.667 15.13 0.00 0.00 4.79
2136 2378 2.990479 CCCGTCCCTTTCCTCAGG 59.010 66.667 0.00 0.00 0.00 3.86
2371 2621 1.685517 TGATTGAGAGATGAGCGGAGG 59.314 52.381 0.00 0.00 0.00 4.30
2375 2625 5.987777 AATCTTTGATTGAGAGATGAGCG 57.012 39.130 0.00 0.00 30.91 5.03
2408 2658 0.523519 GCACTCTAAAACAGGGCAGC 59.476 55.000 0.00 0.00 0.00 5.25
2413 2663 5.702670 TCTGAATCAAGCACTCTAAAACAGG 59.297 40.000 0.00 0.00 0.00 4.00
2519 4571 6.985188 TTTAGCCTACTTTTATCAGCACTG 57.015 37.500 0.00 0.00 0.00 3.66
2537 4589 5.504010 GCCCTTTTTGCAACTTCTTTTTAGC 60.504 40.000 0.00 0.00 0.00 3.09
2630 4694 5.390613 GTTTGACATTTCCGACTTACATGG 58.609 41.667 0.00 0.00 0.00 3.66
2704 4771 4.377533 CGTCAGTATCTCGCATCGTTATCT 60.378 45.833 0.00 0.00 0.00 1.98
2739 4883 0.526662 AACTCCAACTAGAGCCGTCG 59.473 55.000 0.00 0.00 37.39 5.12
2748 4892 0.847373 TTGGGTGCCAACTCCAACTA 59.153 50.000 0.00 0.00 38.75 2.24
2783 4927 3.988379 TTAGCAAGCAAACCTTCACTG 57.012 42.857 0.00 0.00 0.00 3.66
2863 5007 2.059786 CAAATTGGCATCCCGGGCT 61.060 57.895 18.49 1.75 0.00 5.19
3021 5165 1.417890 ACCAGGTTGTCCAAGTCAGAG 59.582 52.381 0.00 0.00 35.89 3.35
3022 5166 1.416401 GACCAGGTTGTCCAAGTCAGA 59.584 52.381 0.00 0.00 37.70 3.27
3023 5167 1.873903 CGACCAGGTTGTCCAAGTCAG 60.874 57.143 0.00 0.00 37.66 3.51
3029 5173 0.541063 TCTAGCGACCAGGTTGTCCA 60.541 55.000 8.77 0.00 35.89 4.02
3031 5175 1.000506 TGTTCTAGCGACCAGGTTGTC 59.999 52.381 8.77 1.21 0.00 3.18
3035 5179 2.367567 TCTTTTGTTCTAGCGACCAGGT 59.632 45.455 0.00 0.00 0.00 4.00
3036 5180 3.040147 TCTTTTGTTCTAGCGACCAGG 57.960 47.619 0.00 0.00 0.00 4.45
3041 5185 6.268825 AGACTGTATCTTTTGTTCTAGCGA 57.731 37.500 0.00 0.00 31.62 4.93
3095 6851 5.582269 CCATCCGCTGTTATGATCGATTTAT 59.418 40.000 0.00 0.10 0.00 1.40
3099 6855 2.300152 ACCATCCGCTGTTATGATCGAT 59.700 45.455 0.00 0.00 0.00 3.59
3100 6856 1.686587 ACCATCCGCTGTTATGATCGA 59.313 47.619 0.00 0.00 0.00 3.59
3101 6857 2.061773 GACCATCCGCTGTTATGATCG 58.938 52.381 0.00 0.00 0.00 3.69
3102 6858 2.061773 CGACCATCCGCTGTTATGATC 58.938 52.381 0.00 0.00 0.00 2.92
3103 6859 1.270305 CCGACCATCCGCTGTTATGAT 60.270 52.381 0.00 0.00 0.00 2.45
3104 6860 0.104120 CCGACCATCCGCTGTTATGA 59.896 55.000 0.00 0.00 0.00 2.15
3105 6861 0.179084 ACCGACCATCCGCTGTTATG 60.179 55.000 0.00 0.00 0.00 1.90
3106 6862 0.104304 GACCGACCATCCGCTGTTAT 59.896 55.000 0.00 0.00 0.00 1.89
3107 6863 1.252215 TGACCGACCATCCGCTGTTA 61.252 55.000 0.00 0.00 0.00 2.41
3110 6866 2.100631 GTTGACCGACCATCCGCTG 61.101 63.158 0.00 0.00 0.00 5.18
3111 6867 1.827399 AAGTTGACCGACCATCCGCT 61.827 55.000 0.00 0.00 0.00 5.52
3112 6868 1.375523 AAGTTGACCGACCATCCGC 60.376 57.895 0.00 0.00 0.00 5.54
3113 6869 1.635663 GCAAGTTGACCGACCATCCG 61.636 60.000 7.16 0.00 0.00 4.18
3115 6871 0.798776 CTGCAAGTTGACCGACCATC 59.201 55.000 7.16 0.00 0.00 3.51
3116 6872 0.606401 CCTGCAAGTTGACCGACCAT 60.606 55.000 7.16 0.00 0.00 3.55
3118 6874 2.617274 GCCTGCAAGTTGACCGACC 61.617 63.158 7.16 0.00 0.00 4.79
3119 6875 1.598130 AGCCTGCAAGTTGACCGAC 60.598 57.895 7.16 0.00 0.00 4.79
3121 6877 2.620112 CCAGCCTGCAAGTTGACCG 61.620 63.158 7.16 0.00 0.00 4.79
3122 6878 1.529244 ACCAGCCTGCAAGTTGACC 60.529 57.895 7.16 0.00 0.00 4.02
3123 6879 1.656441 CACCAGCCTGCAAGTTGAC 59.344 57.895 7.16 0.00 0.00 3.18
3124 6880 2.195567 GCACCAGCCTGCAAGTTGA 61.196 57.895 7.16 0.00 37.11 3.18
3125 6881 2.337532 GCACCAGCCTGCAAGTTG 59.662 61.111 0.00 0.00 37.11 3.16
3992 7801 4.357947 GTCAGCTCACGCCGTGGA 62.358 66.667 18.32 3.42 36.60 4.02
4062 7871 1.556591 GATATTGATCGCGCGTGCCA 61.557 55.000 30.98 21.68 38.08 4.92
4066 7875 1.566404 TGTTGATATTGATCGCGCGT 58.434 45.000 30.98 17.41 34.49 6.01
4067 7876 2.553752 CTTGTTGATATTGATCGCGCG 58.446 47.619 26.76 26.76 34.49 6.86
4071 7880 6.722301 ACTGATTGCTTGTTGATATTGATCG 58.278 36.000 0.00 0.00 34.49 3.69
4088 7897 1.455786 GAACACACGACCGACTGATTG 59.544 52.381 0.00 0.00 0.00 2.67
4189 7998 0.988832 TAGCTCCCCGTTCCAAACAT 59.011 50.000 0.00 0.00 0.00 2.71
4193 8002 2.565834 GCTATATAGCTCCCCGTTCCAA 59.434 50.000 24.63 0.00 45.62 3.53
4207 8016 9.693739 TTCAACCCAGAAATGAAAAGCTATATA 57.306 29.630 0.00 0.00 30.60 0.86
4208 8017 8.593945 TTCAACCCAGAAATGAAAAGCTATAT 57.406 30.769 0.00 0.00 30.60 0.86
4219 8200 0.527565 CCCGCTTCAACCCAGAAATG 59.472 55.000 0.00 0.00 0.00 2.32
4231 8212 4.462508 ACTACTACCTTTTACCCGCTTC 57.537 45.455 0.00 0.00 0.00 3.86
4235 8216 6.272822 AGTTGTACTACTACCTTTTACCCG 57.727 41.667 8.27 0.00 0.00 5.28
4262 8243 8.542926 CCCCTCCAAAAGAAAATAAAATCAGAT 58.457 33.333 0.00 0.00 0.00 2.90
4263 8244 7.512402 ACCCCTCCAAAAGAAAATAAAATCAGA 59.488 33.333 0.00 0.00 0.00 3.27
4264 8245 7.679783 ACCCCTCCAAAAGAAAATAAAATCAG 58.320 34.615 0.00 0.00 0.00 2.90
4265 8246 7.625498 ACCCCTCCAAAAGAAAATAAAATCA 57.375 32.000 0.00 0.00 0.00 2.57
4266 8247 9.817809 GATACCCCTCCAAAAGAAAATAAAATC 57.182 33.333 0.00 0.00 0.00 2.17
4267 8248 9.560860 AGATACCCCTCCAAAAGAAAATAAAAT 57.439 29.630 0.00 0.00 0.00 1.82
4268 8249 8.811994 CAGATACCCCTCCAAAAGAAAATAAAA 58.188 33.333 0.00 0.00 0.00 1.52
4269 8250 8.174085 TCAGATACCCCTCCAAAAGAAAATAAA 58.826 33.333 0.00 0.00 0.00 1.40
4270 8251 7.704727 TCAGATACCCCTCCAAAAGAAAATAA 58.295 34.615 0.00 0.00 0.00 1.40
4271 8252 7.278724 TCAGATACCCCTCCAAAAGAAAATA 57.721 36.000 0.00 0.00 0.00 1.40
4272 8253 6.152638 TCAGATACCCCTCCAAAAGAAAAT 57.847 37.500 0.00 0.00 0.00 1.82
4273 8254 5.592587 TCAGATACCCCTCCAAAAGAAAA 57.407 39.130 0.00 0.00 0.00 2.29
4274 8255 5.492524 AGATCAGATACCCCTCCAAAAGAAA 59.507 40.000 0.00 0.00 0.00 2.52
4275 8256 5.039645 AGATCAGATACCCCTCCAAAAGAA 58.960 41.667 0.00 0.00 0.00 2.52
4276 8257 4.635473 AGATCAGATACCCCTCCAAAAGA 58.365 43.478 0.00 0.00 0.00 2.52
4277 8258 5.379706 AAGATCAGATACCCCTCCAAAAG 57.620 43.478 0.00 0.00 0.00 2.27
4278 8259 7.091993 ACAATAAGATCAGATACCCCTCCAAAA 60.092 37.037 0.00 0.00 0.00 2.44
4279 8260 6.389869 ACAATAAGATCAGATACCCCTCCAAA 59.610 38.462 0.00 0.00 0.00 3.28
4280 8261 5.911178 ACAATAAGATCAGATACCCCTCCAA 59.089 40.000 0.00 0.00 0.00 3.53
4281 8262 5.476983 ACAATAAGATCAGATACCCCTCCA 58.523 41.667 0.00 0.00 0.00 3.86
4282 8263 6.043243 TCAACAATAAGATCAGATACCCCTCC 59.957 42.308 0.00 0.00 0.00 4.30
4283 8264 7.067496 TCAACAATAAGATCAGATACCCCTC 57.933 40.000 0.00 0.00 0.00 4.30
4284 8265 7.639062 ATCAACAATAAGATCAGATACCCCT 57.361 36.000 0.00 0.00 0.00 4.79
4285 8266 7.308830 GCAATCAACAATAAGATCAGATACCCC 60.309 40.741 0.00 0.00 0.00 4.95
4286 8267 7.308830 GGCAATCAACAATAAGATCAGATACCC 60.309 40.741 0.00 0.00 0.00 3.69
4287 8268 7.229306 TGGCAATCAACAATAAGATCAGATACC 59.771 37.037 0.00 0.00 0.00 2.73
4288 8269 8.158169 TGGCAATCAACAATAAGATCAGATAC 57.842 34.615 0.00 0.00 0.00 2.24
4289 8270 8.929260 ATGGCAATCAACAATAAGATCAGATA 57.071 30.769 0.00 0.00 0.00 1.98
4317 8299 2.279918 GCAACTGGACACGACGGT 60.280 61.111 0.00 0.00 0.00 4.83
4329 8311 5.661458 AGCTATTTATACACAGTCGCAACT 58.339 37.500 0.00 0.00 35.60 3.16
4330 8312 5.968387 AGCTATTTATACACAGTCGCAAC 57.032 39.130 0.00 0.00 0.00 4.17
4389 8371 0.475906 AAAGCCAGCACAGAGAACCT 59.524 50.000 0.00 0.00 0.00 3.50
4397 8379 1.412079 ACCAATTGAAAGCCAGCACA 58.588 45.000 7.12 0.00 0.00 4.57
4513 8495 2.171870 TCGACTGGAAGGGTGAGTTTTT 59.828 45.455 0.00 0.00 39.30 1.94
4514 8496 1.766496 TCGACTGGAAGGGTGAGTTTT 59.234 47.619 0.00 0.00 39.30 2.43
4517 8499 1.645710 AATCGACTGGAAGGGTGAGT 58.354 50.000 0.00 0.00 39.30 3.41
4518 8500 2.622436 GAAATCGACTGGAAGGGTGAG 58.378 52.381 0.00 0.00 39.30 3.51
4519 8501 1.278127 GGAAATCGACTGGAAGGGTGA 59.722 52.381 0.00 0.00 39.30 4.02
4520 8502 1.003118 TGGAAATCGACTGGAAGGGTG 59.997 52.381 0.00 0.00 39.30 4.61
4521 8503 1.358152 TGGAAATCGACTGGAAGGGT 58.642 50.000 0.00 0.00 39.30 4.34
4522 8504 2.292267 CATGGAAATCGACTGGAAGGG 58.708 52.381 0.00 0.00 39.30 3.95
4523 8505 2.292267 CCATGGAAATCGACTGGAAGG 58.708 52.381 5.56 0.00 39.30 3.46
4524 8506 2.939103 GACCATGGAAATCGACTGGAAG 59.061 50.000 21.47 0.00 42.29 3.46
4525 8507 2.355716 GGACCATGGAAATCGACTGGAA 60.356 50.000 21.47 0.00 0.00 3.53
4526 8508 1.209504 GGACCATGGAAATCGACTGGA 59.790 52.381 21.47 0.00 0.00 3.86
4527 8509 1.668419 GGACCATGGAAATCGACTGG 58.332 55.000 21.47 0.00 0.00 4.00
4528 8510 1.134818 TCGGACCATGGAAATCGACTG 60.135 52.381 21.47 5.74 0.00 3.51
4529 8511 1.134788 GTCGGACCATGGAAATCGACT 60.135 52.381 28.16 6.77 42.20 4.18
4530 8512 1.287425 GTCGGACCATGGAAATCGAC 58.713 55.000 21.47 23.76 39.73 4.20
4531 8513 0.179121 CGTCGGACCATGGAAATCGA 60.179 55.000 21.47 17.47 0.00 3.59
4532 8514 0.179121 TCGTCGGACCATGGAAATCG 60.179 55.000 21.47 15.48 0.00 3.34
4533 8515 1.933853 CTTCGTCGGACCATGGAAATC 59.066 52.381 21.47 5.38 0.00 2.17
4534 8516 2.012051 GCTTCGTCGGACCATGGAAAT 61.012 52.381 21.47 0.00 0.00 2.17
4535 8517 0.672401 GCTTCGTCGGACCATGGAAA 60.672 55.000 21.47 0.00 0.00 3.13
4536 8518 1.079405 GCTTCGTCGGACCATGGAA 60.079 57.895 21.47 0.00 0.00 3.53
4537 8519 2.577059 GCTTCGTCGGACCATGGA 59.423 61.111 21.47 0.00 0.00 3.41
4538 8520 2.885644 CGCTTCGTCGGACCATGG 60.886 66.667 11.19 11.19 0.00 3.66
4539 8521 3.554692 GCGCTTCGTCGGACCATG 61.555 66.667 0.00 0.00 0.00 3.66
4540 8522 3.583276 TTGCGCTTCGTCGGACCAT 62.583 57.895 9.73 0.00 0.00 3.55
4541 8523 4.287781 TTGCGCTTCGTCGGACCA 62.288 61.111 9.73 0.00 0.00 4.02
4542 8524 3.774702 GTTGCGCTTCGTCGGACC 61.775 66.667 9.73 0.00 0.00 4.46
4543 8525 3.774702 GGTTGCGCTTCGTCGGAC 61.775 66.667 9.73 0.00 0.00 4.79
4566 8548 1.668419 GACACCATCTCCATTTCCGG 58.332 55.000 0.00 0.00 0.00 5.14
4628 8619 1.882912 TTGGCGATGCTATGATGTCC 58.117 50.000 0.00 0.00 0.00 4.02
4647 8638 4.340617 TGTCAACCAAGACTCACCTTTTT 58.659 39.130 0.00 0.00 39.27 1.94
4654 8645 2.103094 CCTCACTGTCAACCAAGACTCA 59.897 50.000 0.00 0.00 39.27 3.41
4655 8646 2.103263 ACCTCACTGTCAACCAAGACTC 59.897 50.000 0.00 0.00 39.27 3.36
4661 8652 0.473755 ATGCACCTCACTGTCAACCA 59.526 50.000 0.00 0.00 0.00 3.67
4669 8660 0.902984 TCCACCGTATGCACCTCACT 60.903 55.000 0.00 0.00 0.00 3.41
4682 8673 1.931551 CGCCGACAATAATCCACCG 59.068 57.895 0.00 0.00 0.00 4.94
4684 8675 1.275657 CGCGCCGACAATAATCCAC 59.724 57.895 0.00 0.00 0.00 4.02
4691 8682 1.151777 CCTTCATACGCGCCGACAAT 61.152 55.000 5.73 0.00 0.00 2.71
4697 8688 0.743345 AAACCTCCTTCATACGCGCC 60.743 55.000 5.73 0.00 0.00 6.53
4702 8693 5.221742 CCATCCCTCTAAACCTCCTTCATAC 60.222 48.000 0.00 0.00 0.00 2.39
4740 8731 2.843545 GAACCCCACTCCTTGCCA 59.156 61.111 0.00 0.00 0.00 4.92
4742 8733 2.359975 CCGAACCCCACTCCTTGC 60.360 66.667 0.00 0.00 0.00 4.01
4750 8741 3.319198 GGCAGAGACCGAACCCCA 61.319 66.667 0.00 0.00 0.00 4.96
4771 8762 1.149627 CTCCCCTCTCGATCCGACT 59.850 63.158 0.00 0.00 0.00 4.18
4774 8765 2.265182 GCTCTCCCCTCTCGATCCG 61.265 68.421 0.00 0.00 0.00 4.18
4780 8771 0.553819 TCCTACTGCTCTCCCCTCTC 59.446 60.000 0.00 0.00 0.00 3.20
4793 8784 2.300437 GCCATCTATCCGCTTTCCTACT 59.700 50.000 0.00 0.00 0.00 2.57
4803 8794 2.016704 GTGTCGCGCCATCTATCCG 61.017 63.158 0.00 0.00 0.00 4.18
4809 8800 0.457853 TAGTCAAGTGTCGCGCCATC 60.458 55.000 0.00 0.00 0.00 3.51
4847 8838 9.092338 TGCTTTGGCATAAAAGATCCATAATAT 57.908 29.630 9.27 0.00 44.28 1.28
4975 9038 9.647918 TTATTGGGATGCCAAAGTTTACATATA 57.352 29.630 23.50 3.70 33.20 0.86
4976 9039 8.421002 GTTATTGGGATGCCAAAGTTTACATAT 58.579 33.333 23.50 4.72 33.20 1.78


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

AutoCloner maintained by Alex Coulton.