Multiple sequence alignment - TraesCS4B01G337700

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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 TraesCS4B01G337700 chr4B 100.000 3825 0 0 1 3825 630016904 630013080 0.000000e+00 7064.0
1 TraesCS4B01G337700 chr4B 79.349 1414 212 49 1689 3072 630043735 630042372 0.000000e+00 920.0
2 TraesCS4B01G337700 chr4B 82.206 1124 141 31 979 2070 630099923 630098827 0.000000e+00 913.0
3 TraesCS4B01G337700 chr4B 85.597 611 69 7 1019 1629 630044654 630044063 1.170000e-174 623.0
4 TraesCS4B01G337700 chr4B 80.641 718 106 17 3116 3825 630042112 630041420 3.390000e-145 525.0
5 TraesCS4B01G337700 chr4B 100.000 28 0 0 864 891 13055508 13055535 7.000000e-03 52.8
6 TraesCS4B01G337700 chr4D 95.359 2887 109 11 943 3825 490405352 490402487 0.000000e+00 4566.0
7 TraesCS4B01G337700 chr4D 81.949 2022 289 48 1071 3072 490413394 490411429 0.000000e+00 1642.0
8 TraesCS4B01G337700 chr4D 81.073 634 94 16 3116 3742 490411253 490410639 2.070000e-132 483.0
9 TraesCS4B01G337700 chr4D 79.095 751 113 26 3081 3825 490377754 490378466 9.610000e-131 477.0
10 TraesCS4B01G337700 chr4D 82.752 516 62 15 150 660 490409025 490408532 5.870000e-118 435.0
11 TraesCS4B01G337700 chr4D 80.370 433 68 11 1696 2112 490375966 490376397 2.870000e-81 313.0
12 TraesCS4B01G337700 chr5A 91.814 2932 160 27 943 3825 671978839 671975939 0.000000e+00 4012.0
13 TraesCS4B01G337700 chr5A 80.619 1455 193 39 1608 3052 672028049 672026674 0.000000e+00 1042.0
14 TraesCS4B01G337700 chr5A 79.794 970 150 27 1263 2207 671954983 671955931 0.000000e+00 664.0
15 TraesCS4B01G337700 chr5A 86.371 587 62 5 1028 1611 671990616 671990045 3.240000e-175 625.0
16 TraesCS4B01G337700 chr5A 83.305 587 75 14 2491 3072 671988883 671988315 1.570000e-143 520.0
17 TraesCS4B01G337700 chr5A 81.388 634 92 15 3116 3742 671988135 671987521 9.550000e-136 494.0
18 TraesCS4B01G337700 chr5A 83.804 531 62 13 150 660 671985887 671985361 2.070000e-132 483.0
19 TraesCS4B01G337700 chr5A 79.095 751 114 21 3081 3825 671957212 671957925 9.610000e-131 477.0
20 TraesCS4B01G337700 chr5B 83.881 670 79 16 964 1629 505779528 505778884 2.530000e-171 612.0
21 TraesCS4B01G337700 chr6B 84.756 164 20 4 1079 1240 81668014 81667854 3.960000e-35 159.0
22 TraesCS4B01G337700 chrUn 84.375 160 19 3 1079 1238 27038674 27038827 6.620000e-33 152.0
23 TraesCS4B01G337700 chr2B 86.667 60 4 4 2737 2795 668033236 668033180 3.190000e-06 63.9


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 TraesCS4B01G337700 chr4B 630013080 630016904 3824 True 7064.000000 7064 100.000000 1 3825 1 chr4B.!!$R1 3824
1 TraesCS4B01G337700 chr4B 630098827 630099923 1096 True 913.000000 913 82.206000 979 2070 1 chr4B.!!$R2 1091
2 TraesCS4B01G337700 chr4B 630041420 630044654 3234 True 689.333333 920 81.862333 1019 3825 3 chr4B.!!$R3 2806
3 TraesCS4B01G337700 chr4D 490402487 490413394 10907 True 1781.500000 4566 85.283250 150 3825 4 chr4D.!!$R1 3675
4 TraesCS4B01G337700 chr4D 490375966 490378466 2500 False 395.000000 477 79.732500 1696 3825 2 chr4D.!!$F1 2129
5 TraesCS4B01G337700 chr5A 671975939 671978839 2900 True 4012.000000 4012 91.814000 943 3825 1 chr5A.!!$R1 2882
6 TraesCS4B01G337700 chr5A 672026674 672028049 1375 True 1042.000000 1042 80.619000 1608 3052 1 chr5A.!!$R2 1444
7 TraesCS4B01G337700 chr5A 671954983 671957925 2942 False 570.500000 664 79.444500 1263 3825 2 chr5A.!!$F1 2562
8 TraesCS4B01G337700 chr5A 671985361 671990616 5255 True 530.500000 625 83.717000 150 3742 4 chr5A.!!$R3 3592
9 TraesCS4B01G337700 chr5B 505778884 505779528 644 True 612.000000 612 83.881000 964 1629 1 chr5B.!!$R1 665

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
932 8077 0.035458 CACCCCTTCACTCCACACTC 59.965 60.0 0.0 0.0 0.0 3.51 F
935 8080 0.322975 CCCTTCACTCCACACTCCAG 59.677 60.0 0.0 0.0 0.0 3.86 F
936 8081 0.322975 CCTTCACTCCACACTCCAGG 59.677 60.0 0.0 0.0 0.0 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2783 10482 0.253044 CCACCATCTCGACCACCAAT 59.747 55.000 0.00 0.00 0.00 3.16 R
2812 10511 6.072649 TGGGACAATCATCTAATGCATTGAT 58.927 36.000 22.27 17.75 34.66 2.57 R
2851 10553 6.691754 TCACTTGTTCAAGAAACATAGCAA 57.308 33.333 17.75 0.00 46.94 3.91 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
22 23 4.412796 TGGTTGATGGCATTGTTTTTGA 57.587 36.364 0.00 0.00 0.00 2.69
23 24 4.774124 TGGTTGATGGCATTGTTTTTGAA 58.226 34.783 0.00 0.00 0.00 2.69
24 25 5.188434 TGGTTGATGGCATTGTTTTTGAAA 58.812 33.333 0.00 0.00 0.00 2.69
25 26 5.649395 TGGTTGATGGCATTGTTTTTGAAAA 59.351 32.000 0.00 0.00 0.00 2.29
26 27 6.151648 TGGTTGATGGCATTGTTTTTGAAAAA 59.848 30.769 0.00 0.00 0.00 1.94
66 67 2.692741 GCCCCAGGCCTACTTCCT 60.693 66.667 3.98 0.00 44.06 3.36
67 68 1.384082 GCCCCAGGCCTACTTCCTA 60.384 63.158 3.98 0.00 44.06 2.94
68 69 1.411651 GCCCCAGGCCTACTTCCTAG 61.412 65.000 3.98 0.00 44.06 3.02
71 72 0.755698 CCAGGCCTACTTCCTAGCGA 60.756 60.000 3.98 0.00 31.52 4.93
72 73 1.333177 CAGGCCTACTTCCTAGCGAT 58.667 55.000 3.98 0.00 31.52 4.58
74 75 1.133450 AGGCCTACTTCCTAGCGATCA 60.133 52.381 1.29 0.00 30.79 2.92
75 76 1.687123 GGCCTACTTCCTAGCGATCAA 59.313 52.381 0.00 0.00 0.00 2.57
76 77 2.102588 GGCCTACTTCCTAGCGATCAAA 59.897 50.000 0.00 0.00 0.00 2.69
77 78 3.244249 GGCCTACTTCCTAGCGATCAAAT 60.244 47.826 0.00 0.00 0.00 2.32
78 79 4.021368 GGCCTACTTCCTAGCGATCAAATA 60.021 45.833 0.00 0.00 0.00 1.40
79 80 5.164954 GCCTACTTCCTAGCGATCAAATAG 58.835 45.833 0.00 0.00 0.00 1.73
80 81 5.715070 CCTACTTCCTAGCGATCAAATAGG 58.285 45.833 8.07 8.07 37.93 2.57
82 83 3.325135 ACTTCCTAGCGATCAAATAGGGG 59.675 47.826 12.57 9.45 37.31 4.79
83 84 2.972348 TCCTAGCGATCAAATAGGGGT 58.028 47.619 12.57 0.00 37.31 4.95
84 85 2.632996 TCCTAGCGATCAAATAGGGGTG 59.367 50.000 12.57 0.00 37.31 4.61
85 86 2.289694 CCTAGCGATCAAATAGGGGTGG 60.290 54.545 6.89 0.00 33.75 4.61
88 89 1.597742 CGATCAAATAGGGGTGGCTG 58.402 55.000 0.00 0.00 0.00 4.85
89 90 1.140852 CGATCAAATAGGGGTGGCTGA 59.859 52.381 0.00 0.00 0.00 4.26
90 91 2.421388 CGATCAAATAGGGGTGGCTGAA 60.421 50.000 0.00 0.00 0.00 3.02
91 92 3.631250 GATCAAATAGGGGTGGCTGAAA 58.369 45.455 0.00 0.00 0.00 2.69
92 93 3.756082 TCAAATAGGGGTGGCTGAAAT 57.244 42.857 0.00 0.00 0.00 2.17
93 94 4.059773 TCAAATAGGGGTGGCTGAAATT 57.940 40.909 0.00 0.00 0.00 1.82
94 95 3.768757 TCAAATAGGGGTGGCTGAAATTG 59.231 43.478 0.00 0.00 0.00 2.32
95 96 3.473113 AATAGGGGTGGCTGAAATTGT 57.527 42.857 0.00 0.00 0.00 2.71
96 97 2.990740 TAGGGGTGGCTGAAATTGTT 57.009 45.000 0.00 0.00 0.00 2.83
97 98 1.341080 AGGGGTGGCTGAAATTGTTG 58.659 50.000 0.00 0.00 0.00 3.33
98 99 1.133199 AGGGGTGGCTGAAATTGTTGA 60.133 47.619 0.00 0.00 0.00 3.18
99 100 1.691434 GGGGTGGCTGAAATTGTTGAA 59.309 47.619 0.00 0.00 0.00 2.69
101 102 2.393764 GGTGGCTGAAATTGTTGAACG 58.606 47.619 0.00 0.00 0.00 3.95
102 103 2.393764 GTGGCTGAAATTGTTGAACGG 58.606 47.619 0.00 0.00 0.00 4.44
103 104 2.034053 GTGGCTGAAATTGTTGAACGGA 59.966 45.455 0.00 0.00 0.00 4.69
104 105 2.690497 TGGCTGAAATTGTTGAACGGAA 59.310 40.909 0.00 0.00 0.00 4.30
105 106 3.131223 TGGCTGAAATTGTTGAACGGAAA 59.869 39.130 0.00 0.00 0.00 3.13
107 108 4.359706 GCTGAAATTGTTGAACGGAAACT 58.640 39.130 0.00 0.00 0.00 2.66
108 109 4.803613 GCTGAAATTGTTGAACGGAAACTT 59.196 37.500 0.00 0.00 0.00 2.66
109 110 5.290885 GCTGAAATTGTTGAACGGAAACTTT 59.709 36.000 0.00 0.00 0.00 2.66
112 113 4.886247 ATTGTTGAACGGAAACTTTCGA 57.114 36.364 0.00 0.00 41.22 3.71
114 115 4.203950 TGTTGAACGGAAACTTTCGATG 57.796 40.909 0.00 0.00 41.22 3.84
115 116 3.002862 TGTTGAACGGAAACTTTCGATGG 59.997 43.478 0.00 0.00 41.22 3.51
116 117 2.147958 TGAACGGAAACTTTCGATGGG 58.852 47.619 0.00 0.00 41.22 4.00
117 118 2.224329 TGAACGGAAACTTTCGATGGGA 60.224 45.455 0.00 0.00 41.22 4.37
118 119 2.094762 ACGGAAACTTTCGATGGGAG 57.905 50.000 0.00 0.00 0.00 4.30
119 120 0.727398 CGGAAACTTTCGATGGGAGC 59.273 55.000 0.00 0.00 0.00 4.70
123 124 0.326264 AACTTTCGATGGGAGCAGCT 59.674 50.000 0.00 0.00 0.00 4.24
125 126 0.107993 CTTTCGATGGGAGCAGCTCA 60.108 55.000 24.09 5.43 31.08 4.26
126 127 0.391661 TTTCGATGGGAGCAGCTCAC 60.392 55.000 24.09 21.54 33.93 3.51
127 128 2.563050 TTCGATGGGAGCAGCTCACG 62.563 60.000 24.09 20.44 36.56 4.35
128 129 2.895680 GATGGGAGCAGCTCACGA 59.104 61.111 24.09 11.62 36.56 4.35
129 130 1.520342 GATGGGAGCAGCTCACGAC 60.520 63.158 24.09 14.15 36.56 4.34
133 134 4.057428 GAGCAGCTCACGACCCGT 62.057 66.667 18.17 0.00 42.36 5.28
134 135 3.575351 GAGCAGCTCACGACCCGTT 62.575 63.158 18.17 0.00 38.32 4.44
135 136 3.414700 GCAGCTCACGACCCGTTG 61.415 66.667 0.00 0.00 38.32 4.10
137 138 4.681978 AGCTCACGACCCGTTGCC 62.682 66.667 0.00 0.00 38.32 4.52
139 140 2.738521 CTCACGACCCGTTGCCAG 60.739 66.667 0.00 0.00 38.32 4.85
140 141 3.220999 CTCACGACCCGTTGCCAGA 62.221 63.158 0.00 0.00 38.32 3.86
141 142 2.047274 CACGACCCGTTGCCAGAT 60.047 61.111 0.00 0.00 38.32 2.90
143 144 0.179084 CACGACCCGTTGCCAGATAT 60.179 55.000 0.00 0.00 38.32 1.63
144 145 0.179084 ACGACCCGTTGCCAGATATG 60.179 55.000 0.00 0.00 36.35 1.78
146 147 0.535102 GACCCGTTGCCAGATATGGG 60.535 60.000 8.78 0.00 44.70 4.00
147 148 0.986019 ACCCGTTGCCAGATATGGGA 60.986 55.000 8.78 1.40 42.26 4.37
148 149 0.250467 CCCGTTGCCAGATATGGGAG 60.250 60.000 8.78 0.00 42.26 4.30
150 151 0.179048 CGTTGCCAGATATGGGAGCA 60.179 55.000 14.65 0.70 31.29 4.26
151 152 1.746861 CGTTGCCAGATATGGGAGCAA 60.747 52.381 14.65 6.93 40.89 3.91
154 155 1.565759 TGCCAGATATGGGAGCAACTT 59.434 47.619 8.78 0.00 0.00 2.66
155 156 2.025037 TGCCAGATATGGGAGCAACTTT 60.025 45.455 8.78 0.00 0.00 2.66
156 157 2.620585 GCCAGATATGGGAGCAACTTTC 59.379 50.000 8.78 0.00 0.00 2.62
157 158 2.874701 CCAGATATGGGAGCAACTTTCG 59.125 50.000 0.00 0.00 0.00 3.46
158 159 3.432186 CCAGATATGGGAGCAACTTTCGA 60.432 47.826 0.00 0.00 0.00 3.71
160 161 5.511373 CCAGATATGGGAGCAACTTTCGATA 60.511 44.000 0.00 0.00 0.00 2.92
162 163 6.312426 CAGATATGGGAGCAACTTTCGATATC 59.688 42.308 0.00 0.00 0.00 1.63
167 4389 4.271291 GGGAGCAACTTTCGATATCTTCAC 59.729 45.833 0.34 0.00 0.00 3.18
168 4390 5.112686 GGAGCAACTTTCGATATCTTCACT 58.887 41.667 0.34 0.00 0.00 3.41
174 4396 6.969828 ACTTTCGATATCTTCACTTTGTCC 57.030 37.500 0.34 0.00 0.00 4.02
187 4409 4.946772 TCACTTTGTCCAGTTCATTGACAA 59.053 37.500 0.00 0.00 44.70 3.18
202 4424 9.260002 GTTCATTGACAAATAAGACCAACAATT 57.740 29.630 0.00 0.00 0.00 2.32
220 4442 8.022550 CCAACAATTTGATTTGAAAATAAGGCC 58.977 33.333 2.79 0.00 34.24 5.19
221 4443 8.566260 CAACAATTTGATTTGAAAATAAGGCCA 58.434 29.630 5.01 0.00 34.24 5.36
274 4496 7.021196 CGTCCGAAATTAATTGTCACTCAAAT 58.979 34.615 0.39 0.00 39.62 2.32
279 4501 8.800972 CGAAATTAATTGTCACTCAAATGGATG 58.199 33.333 0.39 0.00 39.62 3.51
281 4503 8.991243 AATTAATTGTCACTCAAATGGATGTG 57.009 30.769 0.00 0.00 39.62 3.21
317 4539 7.807977 AATAGTGCTAGATACAACCATTTGG 57.192 36.000 0.00 0.00 37.00 3.28
330 4552 3.525268 CCATTTGGGTGGCAACTAATC 57.475 47.619 0.97 0.00 31.43 1.75
332 4554 2.685106 TTTGGGTGGCAACTAATCCA 57.315 45.000 0.97 0.00 37.61 3.41
333 4555 2.685106 TTGGGTGGCAACTAATCCAA 57.315 45.000 0.97 0.00 33.57 3.53
334 4556 2.685106 TGGGTGGCAACTAATCCAAA 57.315 45.000 0.97 0.00 33.57 3.28
335 4557 3.182887 TGGGTGGCAACTAATCCAAAT 57.817 42.857 0.97 0.00 33.57 2.32
338 4560 3.096092 GGTGGCAACTAATCCAAATGGA 58.904 45.455 4.30 4.30 43.71 3.41
339 4561 3.131046 GGTGGCAACTAATCCAAATGGAG 59.869 47.826 8.33 0.00 43.05 3.86
340 4562 4.016444 GTGGCAACTAATCCAAATGGAGA 58.984 43.478 8.33 0.00 43.05 3.71
341 4563 4.462483 GTGGCAACTAATCCAAATGGAGAA 59.538 41.667 8.33 0.00 43.05 2.87
342 4564 5.047377 GTGGCAACTAATCCAAATGGAGAAA 60.047 40.000 8.33 0.00 43.05 2.52
343 4565 5.185635 TGGCAACTAATCCAAATGGAGAAAG 59.814 40.000 8.33 7.45 43.05 2.62
379 4602 9.453830 AGAGATATTTTAGACTTATGTCCCCTT 57.546 33.333 5.19 0.00 43.91 3.95
397 4622 5.447624 CCCTTTATTTTAGCGGGGTATTG 57.552 43.478 0.00 0.00 0.00 1.90
399 4624 6.063404 CCCTTTATTTTAGCGGGGTATTGTA 58.937 40.000 0.00 0.00 0.00 2.41
404 4629 4.822685 TTTAGCGGGGTATTGTACTCAA 57.177 40.909 0.00 0.00 37.98 3.02
406 4631 3.706600 AGCGGGGTATTGTACTCAAAA 57.293 42.857 0.00 0.00 37.11 2.44
408 4633 2.681344 GCGGGGTATTGTACTCAAAAGG 59.319 50.000 0.00 0.00 37.11 3.11
409 4634 2.681344 CGGGGTATTGTACTCAAAAGGC 59.319 50.000 0.00 0.00 37.11 4.35
410 4635 3.621461 CGGGGTATTGTACTCAAAAGGCT 60.621 47.826 0.00 0.00 37.11 4.58
411 4636 3.945921 GGGGTATTGTACTCAAAAGGCTC 59.054 47.826 0.00 0.00 37.11 4.70
412 4637 4.566907 GGGGTATTGTACTCAAAAGGCTCA 60.567 45.833 0.00 0.00 37.11 4.26
416 4641 5.948992 ATTGTACTCAAAAGGCTCAGTTC 57.051 39.130 0.00 0.00 37.11 3.01
417 4642 4.415881 TGTACTCAAAAGGCTCAGTTCA 57.584 40.909 0.00 0.00 0.00 3.18
418 4643 4.380531 TGTACTCAAAAGGCTCAGTTCAG 58.619 43.478 0.00 0.00 0.00 3.02
420 4645 2.439507 ACTCAAAAGGCTCAGTTCAGGA 59.560 45.455 0.00 0.00 0.00 3.86
421 4646 3.073650 ACTCAAAAGGCTCAGTTCAGGAT 59.926 43.478 0.00 0.00 0.00 3.24
422 4647 4.287067 ACTCAAAAGGCTCAGTTCAGGATA 59.713 41.667 0.00 0.00 0.00 2.59
423 4648 4.579869 TCAAAAGGCTCAGTTCAGGATAC 58.420 43.478 0.00 0.00 0.00 2.24
424 4649 4.041567 TCAAAAGGCTCAGTTCAGGATACA 59.958 41.667 0.00 0.00 41.41 2.29
425 4650 4.851639 AAAGGCTCAGTTCAGGATACAT 57.148 40.909 0.00 0.00 41.41 2.29
426 4651 4.851639 AAGGCTCAGTTCAGGATACATT 57.148 40.909 0.00 0.00 41.41 2.71
427 4652 4.851639 AGGCTCAGTTCAGGATACATTT 57.148 40.909 0.00 0.00 41.41 2.32
428 4653 4.775236 AGGCTCAGTTCAGGATACATTTC 58.225 43.478 0.00 0.00 41.41 2.17
429 4654 4.472833 AGGCTCAGTTCAGGATACATTTCT 59.527 41.667 0.00 0.00 41.41 2.52
430 4655 5.663106 AGGCTCAGTTCAGGATACATTTCTA 59.337 40.000 0.00 0.00 41.41 2.10
431 4656 6.328672 AGGCTCAGTTCAGGATACATTTCTAT 59.671 38.462 0.00 0.00 41.41 1.98
432 4657 6.426328 GGCTCAGTTCAGGATACATTTCTATG 59.574 42.308 0.00 0.00 41.41 2.23
433 4658 6.989169 GCTCAGTTCAGGATACATTTCTATGT 59.011 38.462 0.00 0.00 46.49 2.29
460 4685 7.327214 ACAATGCCTAACAAAAAGAAGTCAAA 58.673 30.769 0.00 0.00 0.00 2.69
465 4690 6.034577 GCCTAACAAAAAGAAGTCAAACACAC 59.965 38.462 0.00 0.00 0.00 3.82
470 4695 4.859629 AAAGAAGTCAAACACACGAGTC 57.140 40.909 0.00 0.00 0.00 3.36
515 4740 4.568072 TGGCAAGGCTAAACTATTCTCA 57.432 40.909 0.00 0.00 0.00 3.27
518 4743 5.357878 TGGCAAGGCTAAACTATTCTCAATG 59.642 40.000 0.00 0.00 0.00 2.82
519 4744 5.277047 GCAAGGCTAAACTATTCTCAATGC 58.723 41.667 0.00 0.00 0.00 3.56
536 4761 6.938596 TCTCAATGCATATGAATAGGTTGAGG 59.061 38.462 18.58 6.47 40.81 3.86
542 4767 2.057137 TGAATAGGTTGAGGCCATGC 57.943 50.000 5.01 0.00 0.00 4.06
545 4770 1.767759 ATAGGTTGAGGCCATGCAAC 58.232 50.000 21.16 21.16 42.67 4.17
551 4776 0.038021 TGAGGCCATGCAACTTGCTA 59.962 50.000 14.78 2.27 45.31 3.49
570 4795 9.358406 ACTTGCTATCAATAATCATCCATTTCA 57.642 29.630 0.00 0.00 0.00 2.69
583 4808 7.765695 TCATCCATTTCATAAATTAGCCTCC 57.234 36.000 0.00 0.00 0.00 4.30
685 4929 8.458573 TGAAATAAACTAAAAGAGGTTGAGCA 57.541 30.769 0.00 0.00 35.21 4.26
696 4940 0.100146 GGTTGAGCATGCTTAGCTGC 59.900 55.000 23.61 16.73 43.58 5.25
699 4943 1.086067 TGAGCATGCTTAGCTGCGTC 61.086 55.000 23.61 6.24 43.58 5.19
702 4946 1.970917 GCATGCTTAGCTGCGTCGTT 61.971 55.000 11.37 0.00 35.36 3.85
703 4947 0.247419 CATGCTTAGCTGCGTCGTTG 60.247 55.000 5.60 0.00 35.36 4.10
714 4972 2.970609 CTGCGTCGTTGTTGTTATTTGG 59.029 45.455 0.00 0.00 0.00 3.28
715 4973 2.287069 TGCGTCGTTGTTGTTATTTGGG 60.287 45.455 0.00 0.00 0.00 4.12
718 4976 4.554330 GCGTCGTTGTTGTTATTTGGGTTA 60.554 41.667 0.00 0.00 0.00 2.85
724 4982 4.608951 TGTTGTTATTTGGGTTAACACGC 58.391 39.130 8.10 0.00 38.81 5.34
725 4983 4.097437 TGTTGTTATTTGGGTTAACACGCA 59.903 37.500 8.10 0.00 43.79 5.24
765 5023 7.032580 TGTTTATTTTTCTTATGATGCGGTGG 58.967 34.615 0.00 0.00 0.00 4.61
770 5028 3.342377 TCTTATGATGCGGTGGTTTGA 57.658 42.857 0.00 0.00 0.00 2.69
774 5032 1.902938 TGATGCGGTGGTTTGATTGA 58.097 45.000 0.00 0.00 0.00 2.57
778 5036 0.951558 GCGGTGGTTTGATTGACACT 59.048 50.000 0.00 0.00 34.42 3.55
779 5037 2.147958 GCGGTGGTTTGATTGACACTA 58.852 47.619 0.00 0.00 34.42 2.74
781 5039 3.936453 GCGGTGGTTTGATTGACACTATA 59.064 43.478 0.00 0.00 34.42 1.31
782 5040 4.201783 GCGGTGGTTTGATTGACACTATAC 60.202 45.833 0.00 0.00 34.42 1.47
797 5055 8.251750 TGACACTATACTTTTGTGTTATCTGC 57.748 34.615 0.00 0.00 43.81 4.26
800 5058 9.587772 ACACTATACTTTTGTGTTATCTGCTAG 57.412 33.333 0.00 0.00 41.45 3.42
801 5059 9.803315 CACTATACTTTTGTGTTATCTGCTAGA 57.197 33.333 0.00 0.00 0.00 2.43
829 5087 8.624701 TTTTATACTATCTCTGTTTCGAACCG 57.375 34.615 0.00 0.00 0.00 4.44
830 5088 7.558161 TTATACTATCTCTGTTTCGAACCGA 57.442 36.000 0.00 0.00 0.00 4.69
834 5092 4.778534 ATCTCTGTTTCGAACCGAGTTA 57.221 40.909 0.00 0.00 41.66 2.24
835 5093 3.893720 TCTCTGTTTCGAACCGAGTTAC 58.106 45.455 0.00 0.00 41.66 2.50
836 5094 2.985139 CTCTGTTTCGAACCGAGTTACC 59.015 50.000 0.00 0.00 37.78 2.85
838 5096 2.729882 CTGTTTCGAACCGAGTTACCTG 59.270 50.000 0.00 0.00 37.14 4.00
839 5097 2.101249 TGTTTCGAACCGAGTTACCTGT 59.899 45.455 0.00 0.00 37.14 4.00
840 5098 2.712057 TTCGAACCGAGTTACCTGTC 57.288 50.000 0.00 0.00 37.14 3.51
842 5100 1.267806 TCGAACCGAGTTACCTGTCAC 59.732 52.381 0.00 0.00 0.00 3.67
843 5101 1.001048 CGAACCGAGTTACCTGTCACA 60.001 52.381 0.00 0.00 0.00 3.58
844 5102 2.673833 GAACCGAGTTACCTGTCACAG 58.326 52.381 0.00 0.00 0.00 3.66
845 5103 1.991121 ACCGAGTTACCTGTCACAGA 58.009 50.000 6.30 0.00 32.44 3.41
847 5105 2.897969 ACCGAGTTACCTGTCACAGAAT 59.102 45.455 6.30 0.00 32.44 2.40
848 5106 3.323979 ACCGAGTTACCTGTCACAGAATT 59.676 43.478 6.30 0.00 32.44 2.17
849 5107 4.525487 ACCGAGTTACCTGTCACAGAATTA 59.475 41.667 6.30 0.00 32.44 1.40
850 5108 5.103000 CCGAGTTACCTGTCACAGAATTAG 58.897 45.833 6.30 0.00 32.44 1.73
852 5110 6.405953 CCGAGTTACCTGTCACAGAATTAGAT 60.406 42.308 6.30 0.00 32.44 1.98
853 5111 6.473778 CGAGTTACCTGTCACAGAATTAGATG 59.526 42.308 6.30 0.00 32.44 2.90
854 5112 7.246171 AGTTACCTGTCACAGAATTAGATGT 57.754 36.000 6.30 0.00 32.44 3.06
855 5113 8.362464 AGTTACCTGTCACAGAATTAGATGTA 57.638 34.615 6.30 0.00 32.44 2.29
856 5114 8.982723 AGTTACCTGTCACAGAATTAGATGTAT 58.017 33.333 6.30 0.00 32.44 2.29
899 5379 9.444600 TTCTAGACACATTCATTTTAGTTACCC 57.555 33.333 0.00 0.00 0.00 3.69
900 5380 8.598916 TCTAGACACATTCATTTTAGTTACCCA 58.401 33.333 0.00 0.00 0.00 4.51
901 5381 7.448748 AGACACATTCATTTTAGTTACCCAC 57.551 36.000 0.00 0.00 0.00 4.61
902 5382 7.231467 AGACACATTCATTTTAGTTACCCACT 58.769 34.615 0.00 0.00 39.87 4.00
903 5383 7.390718 AGACACATTCATTTTAGTTACCCACTC 59.609 37.037 0.00 0.00 36.88 3.51
904 5384 6.433093 ACACATTCATTTTAGTTACCCACTCC 59.567 38.462 0.00 0.00 36.88 3.85
906 5386 4.579647 TCATTTTAGTTACCCACTCCCC 57.420 45.455 0.00 0.00 36.88 4.81
907 5387 3.267551 TCATTTTAGTTACCCACTCCCCC 59.732 47.826 0.00 0.00 36.88 5.40
926 8071 2.531942 ACCCCACCCCTTCACTCC 60.532 66.667 0.00 0.00 0.00 3.85
927 8072 2.531685 CCCCACCCCTTCACTCCA 60.532 66.667 0.00 0.00 0.00 3.86
928 8073 2.757077 CCCACCCCTTCACTCCAC 59.243 66.667 0.00 0.00 0.00 4.02
929 8074 2.153401 CCCACCCCTTCACTCCACA 61.153 63.158 0.00 0.00 0.00 4.17
930 8075 1.073199 CCACCCCTTCACTCCACAC 59.927 63.158 0.00 0.00 0.00 3.82
931 8076 1.418908 CCACCCCTTCACTCCACACT 61.419 60.000 0.00 0.00 0.00 3.55
932 8077 0.035458 CACCCCTTCACTCCACACTC 59.965 60.000 0.00 0.00 0.00 3.51
933 8078 1.128188 ACCCCTTCACTCCACACTCC 61.128 60.000 0.00 0.00 0.00 3.85
934 8079 1.127567 CCCCTTCACTCCACACTCCA 61.128 60.000 0.00 0.00 0.00 3.86
935 8080 0.322975 CCCTTCACTCCACACTCCAG 59.677 60.000 0.00 0.00 0.00 3.86
936 8081 0.322975 CCTTCACTCCACACTCCAGG 59.677 60.000 0.00 0.00 0.00 4.45
937 8082 0.322975 CTTCACTCCACACTCCAGGG 59.677 60.000 0.00 0.00 0.00 4.45
938 8083 0.399949 TTCACTCCACACTCCAGGGT 60.400 55.000 0.00 0.00 0.00 4.34
939 8084 0.832135 TCACTCCACACTCCAGGGTC 60.832 60.000 0.00 0.00 0.00 4.46
940 8085 1.536662 ACTCCACACTCCAGGGTCC 60.537 63.158 0.00 0.00 0.00 4.46
941 8086 1.536418 CTCCACACTCCAGGGTCCA 60.536 63.158 0.00 0.00 0.00 4.02
953 8098 0.489567 AGGGTCCAGAGTCTCCACTT 59.510 55.000 0.00 0.00 30.63 3.16
954 8099 0.899019 GGGTCCAGAGTCTCCACTTC 59.101 60.000 0.00 0.00 30.63 3.01
957 8102 2.243810 GTCCAGAGTCTCCACTTCACT 58.756 52.381 0.00 0.00 30.63 3.41
958 8103 2.230266 GTCCAGAGTCTCCACTTCACTC 59.770 54.545 0.00 0.00 37.42 3.51
959 8104 1.201181 CCAGAGTCTCCACTTCACTCG 59.799 57.143 0.00 0.00 41.32 4.18
1098 8252 4.565850 ATCCTCCTCCGCCTCCCC 62.566 72.222 0.00 0.00 0.00 4.81
1539 8702 2.743752 CGAAGACGGGCATGTGCAG 61.744 63.158 7.36 2.98 44.36 4.41
1774 9280 3.426525 CGAGTTTGATTTTGAAAGCCAGC 59.573 43.478 0.00 0.00 0.00 4.85
1783 9289 2.203337 AAAGCCAGCGCCTTGTGA 60.203 55.556 2.29 0.00 34.57 3.58
2009 9558 1.378514 CATTTGGACTGACCGGGGG 60.379 63.158 6.32 0.00 42.61 5.40
2024 9573 1.976112 GGGGGCCAAATGCGTTTAA 59.024 52.632 4.39 0.00 42.61 1.52
2638 10325 7.033530 AGGTAAACGATGATTGTCTCTCTAG 57.966 40.000 0.00 0.00 0.00 2.43
2694 10384 3.449746 TTCCCCATTCCTACCTTTGTG 57.550 47.619 0.00 0.00 0.00 3.33
2719 10418 3.876309 AGGGTAGTTTTGCCTTCTCAA 57.124 42.857 0.00 0.00 0.00 3.02
2720 10419 4.388577 AGGGTAGTTTTGCCTTCTCAAT 57.611 40.909 0.00 0.00 0.00 2.57
2733 10432 6.957631 TGCCTTCTCAATGATTTACCTCTTA 58.042 36.000 0.00 0.00 0.00 2.10
2783 10482 0.536233 TTTGCTTGTAGGCAGCGGAA 60.536 50.000 0.00 0.00 43.39 4.30
2812 10511 3.031013 TCGAGATGGTGGAGCTGAAATA 58.969 45.455 0.00 0.00 0.00 1.40
2851 10553 7.526041 TGATTGTCCCATTAGGTATGCTAATT 58.474 34.615 0.00 0.00 36.75 1.40
3076 11178 5.177142 CAGCATAGATGAATGTGTGTCTAGC 59.823 44.000 0.00 0.00 0.00 3.42
3077 11179 5.070180 AGCATAGATGAATGTGTGTCTAGCT 59.930 40.000 0.00 0.00 0.00 3.32
3078 11180 6.266330 AGCATAGATGAATGTGTGTCTAGCTA 59.734 38.462 0.00 0.00 31.83 3.32
3079 11181 6.585702 GCATAGATGAATGTGTGTCTAGCTAG 59.414 42.308 15.01 15.01 0.00 3.42
3121 11223 7.923878 TGCAATATGATTCCAAACTCAATGATG 59.076 33.333 0.00 0.00 0.00 3.07
3127 11229 9.811995 ATGATTCCAAACTCAATGATGTTAATG 57.188 29.630 0.00 0.00 0.00 1.90
3140 11242 8.430063 CAATGATGTTAATGTGTTTCTTGAAGC 58.570 33.333 0.00 0.00 0.00 3.86
3198 11302 0.618458 TCCTTATTCCAGGCTTGCGT 59.382 50.000 0.00 0.00 33.35 5.24
3214 11318 4.792704 GCTTGCGTTTTGGAGATTTCAGAA 60.793 41.667 0.00 0.00 0.00 3.02
3252 11356 7.615365 TGACTTATGGAGGCATCTTATTGTTTT 59.385 33.333 0.00 0.00 38.93 2.43
3357 11461 7.782049 TGTATCTAAGCTGCATTAGTACTGTT 58.218 34.615 5.39 0.00 34.87 3.16
3374 11478 8.773404 AGTACTGTTCTGTTATTGTATGTTCC 57.227 34.615 0.00 0.00 0.00 3.62
3394 11498 6.539464 TGTTCCATTGTTTACTTCGTAGTGTT 59.461 34.615 4.78 0.00 35.78 3.32
3466 11571 2.626840 AGTAGGAACTCGACGACTACC 58.373 52.381 15.73 9.51 41.75 3.18
3560 11673 6.059787 ACTGCCTATCTCTTTCAGATTTGT 57.940 37.500 0.00 0.00 38.95 2.83
3564 11677 8.306313 TGCCTATCTCTTTCAGATTTGTACTA 57.694 34.615 0.00 0.00 38.95 1.82
3565 11678 8.417106 TGCCTATCTCTTTCAGATTTGTACTAG 58.583 37.037 0.00 0.00 38.95 2.57
3621 11737 9.932207 TGAAAATGATTAGAATTGATGTTGCTT 57.068 25.926 0.00 0.00 0.00 3.91
3752 11871 9.403110 AGAAAAGTTTACTGTGTACATAGTACG 57.597 33.333 26.50 3.80 35.26 3.67
3784 11903 5.923733 TCCTATCTGAAGAGTTTCTCCAC 57.076 43.478 0.00 0.00 34.31 4.02
3788 11907 4.500603 TCTGAAGAGTTTCTCCACGTAC 57.499 45.455 0.00 0.00 34.31 3.67
3811 12566 9.847706 GTACATACCAATCATCATACTAGTGAG 57.152 37.037 5.39 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.412796 TCAAAAACAATGCCATCAACCA 57.587 36.364 0.00 0.00 0.00 3.67
51 52 1.749334 CGCTAGGAAGTAGGCCTGGG 61.749 65.000 17.99 0.00 36.96 4.45
53 54 1.271102 GATCGCTAGGAAGTAGGCCTG 59.729 57.143 17.99 0.00 36.96 4.85
54 55 1.133450 TGATCGCTAGGAAGTAGGCCT 60.133 52.381 11.78 11.78 39.56 5.19
55 56 1.329256 TGATCGCTAGGAAGTAGGCC 58.671 55.000 0.00 0.00 0.00 5.19
56 57 3.454371 TTTGATCGCTAGGAAGTAGGC 57.546 47.619 0.00 0.00 0.00 3.93
59 60 4.527038 CCCCTATTTGATCGCTAGGAAGTA 59.473 45.833 13.78 0.00 35.07 2.24
60 61 3.325135 CCCCTATTTGATCGCTAGGAAGT 59.675 47.826 13.78 0.00 35.07 3.01
62 63 3.071023 CACCCCTATTTGATCGCTAGGAA 59.929 47.826 13.78 0.00 35.07 3.36
64 65 2.289694 CCACCCCTATTTGATCGCTAGG 60.290 54.545 7.68 7.68 33.25 3.02
65 66 2.872038 GCCACCCCTATTTGATCGCTAG 60.872 54.545 0.00 0.00 0.00 3.42
66 67 1.071699 GCCACCCCTATTTGATCGCTA 59.928 52.381 0.00 0.00 0.00 4.26
67 68 0.179018 GCCACCCCTATTTGATCGCT 60.179 55.000 0.00 0.00 0.00 4.93
68 69 0.179018 AGCCACCCCTATTTGATCGC 60.179 55.000 0.00 0.00 0.00 4.58
71 72 3.756082 TTTCAGCCACCCCTATTTGAT 57.244 42.857 0.00 0.00 0.00 2.57
72 73 3.756082 ATTTCAGCCACCCCTATTTGA 57.244 42.857 0.00 0.00 0.00 2.69
74 75 3.790126 ACAATTTCAGCCACCCCTATTT 58.210 40.909 0.00 0.00 0.00 1.40
75 76 3.473113 ACAATTTCAGCCACCCCTATT 57.527 42.857 0.00 0.00 0.00 1.73
76 77 3.099141 CAACAATTTCAGCCACCCCTAT 58.901 45.455 0.00 0.00 0.00 2.57
77 78 2.109128 TCAACAATTTCAGCCACCCCTA 59.891 45.455 0.00 0.00 0.00 3.53
78 79 1.133199 TCAACAATTTCAGCCACCCCT 60.133 47.619 0.00 0.00 0.00 4.79
79 80 1.337118 TCAACAATTTCAGCCACCCC 58.663 50.000 0.00 0.00 0.00 4.95
80 81 2.754472 GTTCAACAATTTCAGCCACCC 58.246 47.619 0.00 0.00 0.00 4.61
82 83 2.034053 TCCGTTCAACAATTTCAGCCAC 59.966 45.455 0.00 0.00 0.00 5.01
83 84 2.302260 TCCGTTCAACAATTTCAGCCA 58.698 42.857 0.00 0.00 0.00 4.75
84 85 3.363341 TTCCGTTCAACAATTTCAGCC 57.637 42.857 0.00 0.00 0.00 4.85
85 86 4.359706 AGTTTCCGTTCAACAATTTCAGC 58.640 39.130 0.00 0.00 0.00 4.26
88 89 5.740099 TCGAAAGTTTCCGTTCAACAATTTC 59.260 36.000 10.01 0.00 0.00 2.17
89 90 5.642686 TCGAAAGTTTCCGTTCAACAATTT 58.357 33.333 10.01 0.00 0.00 1.82
90 91 5.238006 TCGAAAGTTTCCGTTCAACAATT 57.762 34.783 10.01 0.00 0.00 2.32
91 92 4.886247 TCGAAAGTTTCCGTTCAACAAT 57.114 36.364 10.01 0.00 0.00 2.71
92 93 4.496673 CCATCGAAAGTTTCCGTTCAACAA 60.497 41.667 10.01 0.00 0.00 2.83
93 94 3.002862 CCATCGAAAGTTTCCGTTCAACA 59.997 43.478 10.01 0.00 0.00 3.33
94 95 3.551551 CCATCGAAAGTTTCCGTTCAAC 58.448 45.455 10.01 0.00 0.00 3.18
95 96 2.550606 CCCATCGAAAGTTTCCGTTCAA 59.449 45.455 10.01 0.00 0.00 2.69
96 97 2.147958 CCCATCGAAAGTTTCCGTTCA 58.852 47.619 10.01 0.00 0.00 3.18
97 98 2.415512 CTCCCATCGAAAGTTTCCGTTC 59.584 50.000 10.01 0.00 0.00 3.95
98 99 2.423577 CTCCCATCGAAAGTTTCCGTT 58.576 47.619 10.01 0.00 0.00 4.44
99 100 1.944430 GCTCCCATCGAAAGTTTCCGT 60.944 52.381 10.01 0.00 0.00 4.69
101 102 1.740025 CTGCTCCCATCGAAAGTTTCC 59.260 52.381 10.01 0.00 0.00 3.13
102 103 1.131315 GCTGCTCCCATCGAAAGTTTC 59.869 52.381 5.47 5.47 0.00 2.78
103 104 1.168714 GCTGCTCCCATCGAAAGTTT 58.831 50.000 0.00 0.00 0.00 2.66
104 105 0.326264 AGCTGCTCCCATCGAAAGTT 59.674 50.000 0.00 0.00 0.00 2.66
105 106 0.107945 GAGCTGCTCCCATCGAAAGT 60.108 55.000 18.80 0.00 0.00 2.66
107 108 0.391661 GTGAGCTGCTCCCATCGAAA 60.392 55.000 25.61 2.54 0.00 3.46
108 109 1.219124 GTGAGCTGCTCCCATCGAA 59.781 57.895 25.61 3.31 0.00 3.71
109 110 2.895680 GTGAGCTGCTCCCATCGA 59.104 61.111 25.61 4.07 0.00 3.59
112 113 2.581354 GTCGTGAGCTGCTCCCAT 59.419 61.111 25.61 0.00 0.00 4.00
114 115 4.459089 GGGTCGTGAGCTGCTCCC 62.459 72.222 25.61 18.59 0.00 4.30
115 116 4.803426 CGGGTCGTGAGCTGCTCC 62.803 72.222 25.61 15.91 0.00 4.70
116 117 3.575351 AACGGGTCGTGAGCTGCTC 62.575 63.158 22.38 22.38 39.99 4.26
117 118 3.616721 AACGGGTCGTGAGCTGCT 61.617 61.111 0.00 0.00 39.99 4.24
118 119 3.414700 CAACGGGTCGTGAGCTGC 61.415 66.667 7.76 0.00 39.99 5.25
119 120 3.414700 GCAACGGGTCGTGAGCTG 61.415 66.667 6.35 6.35 39.99 4.24
123 124 1.252215 TATCTGGCAACGGGTCGTGA 61.252 55.000 0.00 0.00 45.79 4.35
125 126 0.179084 CATATCTGGCAACGGGTCGT 60.179 55.000 0.00 0.00 45.79 4.34
126 127 0.880278 CCATATCTGGCAACGGGTCG 60.880 60.000 0.00 0.00 45.79 4.79
127 128 0.535102 CCCATATCTGGCAACGGGTC 60.535 60.000 0.00 0.00 45.79 4.46
128 129 0.986019 TCCCATATCTGGCAACGGGT 60.986 55.000 0.00 0.00 45.79 5.28
129 130 0.250467 CTCCCATATCTGGCAACGGG 60.250 60.000 0.00 0.00 45.79 5.28
133 134 1.565759 AGTTGCTCCCATATCTGGCAA 59.434 47.619 0.00 0.00 41.64 4.52
134 135 1.216064 AGTTGCTCCCATATCTGGCA 58.784 50.000 0.00 0.00 41.64 4.92
135 136 2.355010 AAGTTGCTCCCATATCTGGC 57.645 50.000 0.00 0.00 41.64 4.85
137 138 3.797039 TCGAAAGTTGCTCCCATATCTG 58.203 45.455 0.00 0.00 0.00 2.90
139 140 6.402222 AGATATCGAAAGTTGCTCCCATATC 58.598 40.000 0.00 0.00 0.00 1.63
140 141 6.365970 AGATATCGAAAGTTGCTCCCATAT 57.634 37.500 0.00 0.00 0.00 1.78
141 142 5.808366 AGATATCGAAAGTTGCTCCCATA 57.192 39.130 0.00 0.00 0.00 2.74
143 144 4.081142 TGAAGATATCGAAAGTTGCTCCCA 60.081 41.667 0.00 0.00 0.00 4.37
144 145 4.271291 GTGAAGATATCGAAAGTTGCTCCC 59.729 45.833 0.00 0.00 0.00 4.30
146 147 6.654793 AAGTGAAGATATCGAAAGTTGCTC 57.345 37.500 0.00 0.00 0.00 4.26
147 148 6.428159 ACAAAGTGAAGATATCGAAAGTTGCT 59.572 34.615 0.00 0.00 0.00 3.91
148 149 6.603095 ACAAAGTGAAGATATCGAAAGTTGC 58.397 36.000 0.00 0.00 0.00 4.17
150 151 6.934645 TGGACAAAGTGAAGATATCGAAAGTT 59.065 34.615 0.00 0.00 0.00 2.66
151 152 6.464222 TGGACAAAGTGAAGATATCGAAAGT 58.536 36.000 0.00 0.00 0.00 2.66
154 155 6.037786 ACTGGACAAAGTGAAGATATCGAA 57.962 37.500 0.00 0.00 0.00 3.71
155 156 5.661056 ACTGGACAAAGTGAAGATATCGA 57.339 39.130 0.00 0.00 0.00 3.59
156 157 5.869344 TGAACTGGACAAAGTGAAGATATCG 59.131 40.000 0.00 0.00 0.00 2.92
157 158 7.856145 ATGAACTGGACAAAGTGAAGATATC 57.144 36.000 0.00 0.00 0.00 1.63
158 159 7.884877 TCAATGAACTGGACAAAGTGAAGATAT 59.115 33.333 0.00 0.00 0.00 1.63
160 161 6.016777 GTCAATGAACTGGACAAAGTGAAGAT 60.017 38.462 0.00 0.00 0.00 2.40
162 163 5.066375 TGTCAATGAACTGGACAAAGTGAAG 59.934 40.000 0.00 0.00 38.50 3.02
174 4396 7.424803 TGTTGGTCTTATTTGTCAATGAACTG 58.575 34.615 0.00 0.00 0.00 3.16
242 4464 6.128391 TGACAATTAATTTCGGACGGAGAAAG 60.128 38.462 0.00 0.00 40.39 2.62
246 4468 4.630069 AGTGACAATTAATTTCGGACGGAG 59.370 41.667 0.00 0.00 0.00 4.63
247 4469 4.571919 AGTGACAATTAATTTCGGACGGA 58.428 39.130 0.00 0.00 0.00 4.69
249 4471 5.524511 TGAGTGACAATTAATTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
250 4472 7.273381 CCATTTGAGTGACAATTAATTTCGGAC 59.727 37.037 0.00 0.00 38.36 4.79
251 4473 7.175816 TCCATTTGAGTGACAATTAATTTCGGA 59.824 33.333 0.00 0.00 38.36 4.55
252 4474 7.312154 TCCATTTGAGTGACAATTAATTTCGG 58.688 34.615 0.00 0.00 38.36 4.30
291 4513 8.686334 CCAAATGGTTGTATCTAGCACTATTTT 58.314 33.333 0.00 0.00 32.40 1.82
311 4533 2.830923 TGGATTAGTTGCCACCCAAATG 59.169 45.455 0.00 0.00 34.68 2.32
317 4539 3.096092 TCCATTTGGATTAGTTGCCACC 58.904 45.455 0.00 0.00 39.78 4.61
321 4543 6.272822 ACTTTCTCCATTTGGATTAGTTGC 57.727 37.500 0.00 0.00 44.46 4.17
365 4588 6.956047 CGCTAAAATAAAGGGGACATAAGTC 58.044 40.000 0.00 0.00 44.21 3.01
379 4602 6.887013 TGAGTACAATACCCCGCTAAAATAA 58.113 36.000 0.00 0.00 0.00 1.40
380 4603 6.482898 TGAGTACAATACCCCGCTAAAATA 57.517 37.500 0.00 0.00 0.00 1.40
381 4604 5.362105 TGAGTACAATACCCCGCTAAAAT 57.638 39.130 0.00 0.00 0.00 1.82
387 4612 2.681344 CCTTTTGAGTACAATACCCCGC 59.319 50.000 0.00 0.00 35.85 6.13
396 4621 4.380531 CTGAACTGAGCCTTTTGAGTACA 58.619 43.478 0.00 0.00 0.00 2.90
397 4622 3.748568 CCTGAACTGAGCCTTTTGAGTAC 59.251 47.826 0.00 0.00 0.00 2.73
399 4624 2.439507 TCCTGAACTGAGCCTTTTGAGT 59.560 45.455 0.00 0.00 0.00 3.41
404 4629 4.851639 ATGTATCCTGAACTGAGCCTTT 57.148 40.909 0.00 0.00 0.00 3.11
406 4631 4.472833 AGAAATGTATCCTGAACTGAGCCT 59.527 41.667 0.00 0.00 0.00 4.58
408 4633 6.989169 ACATAGAAATGTATCCTGAACTGAGC 59.011 38.462 0.00 0.00 44.66 4.26
410 4635 9.817809 GTTACATAGAAATGTATCCTGAACTGA 57.182 33.333 0.00 0.00 45.67 3.41
411 4636 9.599866 TGTTACATAGAAATGTATCCTGAACTG 57.400 33.333 0.00 0.00 45.67 3.16
416 4641 8.292448 GGCATTGTTACATAGAAATGTATCCTG 58.708 37.037 0.00 2.26 45.67 3.86
417 4642 8.220559 AGGCATTGTTACATAGAAATGTATCCT 58.779 33.333 0.00 0.00 45.67 3.24
418 4643 8.396272 AGGCATTGTTACATAGAAATGTATCC 57.604 34.615 0.00 0.00 45.67 2.59
421 4646 9.674068 TGTTAGGCATTGTTACATAGAAATGTA 57.326 29.630 0.00 0.00 44.66 2.29
423 4648 9.853555 TTTGTTAGGCATTGTTACATAGAAATG 57.146 29.630 0.00 0.00 39.17 2.32
426 4651 9.906660 CTTTTTGTTAGGCATTGTTACATAGAA 57.093 29.630 0.00 0.00 0.00 2.10
427 4652 9.290988 TCTTTTTGTTAGGCATTGTTACATAGA 57.709 29.630 0.00 0.00 0.00 1.98
428 4653 9.906660 TTCTTTTTGTTAGGCATTGTTACATAG 57.093 29.630 0.00 0.00 0.00 2.23
429 4654 9.906660 CTTCTTTTTGTTAGGCATTGTTACATA 57.093 29.630 0.00 0.00 0.00 2.29
430 4655 8.421002 ACTTCTTTTTGTTAGGCATTGTTACAT 58.579 29.630 0.00 0.00 0.00 2.29
431 4656 7.777095 ACTTCTTTTTGTTAGGCATTGTTACA 58.223 30.769 0.00 0.00 0.00 2.41
432 4657 7.918562 TGACTTCTTTTTGTTAGGCATTGTTAC 59.081 33.333 0.00 0.00 0.00 2.50
433 4658 8.001881 TGACTTCTTTTTGTTAGGCATTGTTA 57.998 30.769 0.00 0.00 0.00 2.41
434 4659 6.872920 TGACTTCTTTTTGTTAGGCATTGTT 58.127 32.000 0.00 0.00 0.00 2.83
435 4660 6.463995 TGACTTCTTTTTGTTAGGCATTGT 57.536 33.333 0.00 0.00 0.00 2.71
436 4661 7.277539 TGTTTGACTTCTTTTTGTTAGGCATTG 59.722 33.333 0.00 0.00 0.00 2.82
437 4662 7.277760 GTGTTTGACTTCTTTTTGTTAGGCATT 59.722 33.333 0.00 0.00 0.00 3.56
438 4663 6.756542 GTGTTTGACTTCTTTTTGTTAGGCAT 59.243 34.615 0.00 0.00 0.00 4.40
439 4664 6.096695 GTGTTTGACTTCTTTTTGTTAGGCA 58.903 36.000 0.00 0.00 0.00 4.75
460 4685 0.461339 AACCGCTTTGACTCGTGTGT 60.461 50.000 0.00 0.00 0.00 3.72
465 4690 2.286833 TGAAGAAAACCGCTTTGACTCG 59.713 45.455 0.00 0.00 0.00 4.18
470 4695 3.426525 GCTTGATGAAGAAAACCGCTTTG 59.573 43.478 0.00 0.00 0.00 2.77
515 4740 4.768968 GGCCTCAACCTATTCATATGCATT 59.231 41.667 3.54 0.00 0.00 3.56
518 4743 3.754965 TGGCCTCAACCTATTCATATGC 58.245 45.455 3.32 0.00 0.00 3.14
519 4744 4.157289 GCATGGCCTCAACCTATTCATATG 59.843 45.833 3.32 0.00 0.00 1.78
542 4767 9.976511 AAATGGATGATTATTGATAGCAAGTTG 57.023 29.630 0.00 0.00 37.45 3.16
663 4906 7.177392 AGCATGCTCAACCTCTTTTAGTTTATT 59.823 33.333 16.30 0.00 0.00 1.40
670 4913 4.396166 GCTAAGCATGCTCAACCTCTTTTA 59.604 41.667 22.93 4.42 0.00 1.52
676 4920 1.747709 CAGCTAAGCATGCTCAACCT 58.252 50.000 22.93 12.11 38.92 3.50
677 4921 0.100146 GCAGCTAAGCATGCTCAACC 59.900 55.000 22.93 9.92 38.92 3.77
683 4927 1.970917 AACGACGCAGCTAAGCATGC 61.971 55.000 10.51 10.51 39.09 4.06
685 4929 0.670546 ACAACGACGCAGCTAAGCAT 60.671 50.000 0.00 0.00 0.00 3.79
696 4940 3.612472 ACCCAAATAACAACAACGACG 57.388 42.857 0.00 0.00 0.00 5.12
699 4943 5.171695 CGTGTTAACCCAAATAACAACAACG 59.828 40.000 2.48 0.00 42.92 4.10
702 4946 4.097437 TGCGTGTTAACCCAAATAACAACA 59.903 37.500 2.48 1.33 42.92 3.33
703 4947 4.608951 TGCGTGTTAACCCAAATAACAAC 58.391 39.130 2.48 0.00 42.92 3.32
741 4999 7.033185 ACCACCGCATCATAAGAAAAATAAAC 58.967 34.615 0.00 0.00 0.00 2.01
744 5002 6.767524 AACCACCGCATCATAAGAAAAATA 57.232 33.333 0.00 0.00 0.00 1.40
745 5003 5.659440 AACCACCGCATCATAAGAAAAAT 57.341 34.783 0.00 0.00 0.00 1.82
746 5004 5.010112 TCAAACCACCGCATCATAAGAAAAA 59.990 36.000 0.00 0.00 0.00 1.94
747 5005 4.520874 TCAAACCACCGCATCATAAGAAAA 59.479 37.500 0.00 0.00 0.00 2.29
748 5006 4.075682 TCAAACCACCGCATCATAAGAAA 58.924 39.130 0.00 0.00 0.00 2.52
749 5007 3.680490 TCAAACCACCGCATCATAAGAA 58.320 40.909 0.00 0.00 0.00 2.52
750 5008 3.342377 TCAAACCACCGCATCATAAGA 57.658 42.857 0.00 0.00 0.00 2.10
751 5009 4.096231 TCAATCAAACCACCGCATCATAAG 59.904 41.667 0.00 0.00 0.00 1.73
756 5014 1.539388 TGTCAATCAAACCACCGCATC 59.461 47.619 0.00 0.00 0.00 3.91
760 5018 5.175859 AGTATAGTGTCAATCAAACCACCG 58.824 41.667 0.00 0.00 0.00 4.94
761 5019 7.448748 AAAGTATAGTGTCAATCAAACCACC 57.551 36.000 0.00 0.00 0.00 4.61
765 5023 9.730420 AACACAAAAGTATAGTGTCAATCAAAC 57.270 29.630 0.00 0.00 44.99 2.93
803 5061 9.245962 CGGTTCGAAACAGAGATAGTATAAAAT 57.754 33.333 14.64 0.00 0.00 1.82
804 5062 8.461222 TCGGTTCGAAACAGAGATAGTATAAAA 58.539 33.333 14.64 0.00 31.92 1.52
806 5064 7.558161 TCGGTTCGAAACAGAGATAGTATAA 57.442 36.000 14.64 0.00 31.92 0.98
816 5074 3.017265 GGTAACTCGGTTCGAAACAGA 57.983 47.619 14.64 10.42 34.74 3.41
875 5355 8.665685 GTGGGTAACTAAAATGAATGTGTCTAG 58.334 37.037 0.00 0.00 0.00 2.43
876 5356 8.380099 AGTGGGTAACTAAAATGAATGTGTCTA 58.620 33.333 0.00 0.00 37.36 2.59
878 5358 7.361799 GGAGTGGGTAACTAAAATGAATGTGTC 60.362 40.741 0.00 0.00 40.07 3.67
880 5360 6.127730 GGGAGTGGGTAACTAAAATGAATGTG 60.128 42.308 0.00 0.00 40.07 3.21
882 5362 5.359860 GGGGAGTGGGTAACTAAAATGAATG 59.640 44.000 0.00 0.00 40.07 2.67
885 5365 3.267551 GGGGGAGTGGGTAACTAAAATGA 59.732 47.826 0.00 0.00 40.07 2.57
886 5366 3.628008 GGGGGAGTGGGTAACTAAAATG 58.372 50.000 0.00 0.00 40.07 2.32
906 5386 3.979497 GTGAAGGGGTGGGGTGGG 61.979 72.222 0.00 0.00 0.00 4.61
907 5387 2.858974 AGTGAAGGGGTGGGGTGG 60.859 66.667 0.00 0.00 0.00 4.61
909 8054 2.531942 GGAGTGAAGGGGTGGGGT 60.532 66.667 0.00 0.00 0.00 4.95
913 8058 0.035458 GAGTGTGGAGTGAAGGGGTG 59.965 60.000 0.00 0.00 0.00 4.61
926 8071 0.833834 ACTCTGGACCCTGGAGTGTG 60.834 60.000 9.96 0.00 38.65 3.82
927 8072 0.543174 GACTCTGGACCCTGGAGTGT 60.543 60.000 14.05 1.25 39.95 3.55
928 8073 0.252012 AGACTCTGGACCCTGGAGTG 60.252 60.000 14.05 0.00 39.95 3.51
929 8074 0.040499 GAGACTCTGGACCCTGGAGT 59.960 60.000 10.39 10.39 42.15 3.85
930 8075 0.686112 GGAGACTCTGGACCCTGGAG 60.686 65.000 1.74 0.00 0.00 3.86
931 8076 1.388531 GGAGACTCTGGACCCTGGA 59.611 63.158 1.74 0.00 0.00 3.86
932 8077 1.079256 TGGAGACTCTGGACCCTGG 59.921 63.158 1.74 0.00 0.00 4.45
933 8078 0.252012 AGTGGAGACTCTGGACCCTG 60.252 60.000 1.74 0.00 31.81 4.45
934 8079 0.489567 AAGTGGAGACTCTGGACCCT 59.510 55.000 1.74 0.00 33.70 4.34
935 8080 0.899019 GAAGTGGAGACTCTGGACCC 59.101 60.000 1.74 0.00 33.70 4.46
936 8081 1.273886 GTGAAGTGGAGACTCTGGACC 59.726 57.143 1.74 0.00 33.70 4.46
937 8082 2.230266 GAGTGAAGTGGAGACTCTGGAC 59.770 54.545 1.74 0.00 34.47 4.02
938 8083 2.520069 GAGTGAAGTGGAGACTCTGGA 58.480 52.381 1.74 0.00 34.47 3.86
939 8084 1.201181 CGAGTGAAGTGGAGACTCTGG 59.799 57.143 1.74 0.00 35.04 3.86
940 8085 1.201181 CCGAGTGAAGTGGAGACTCTG 59.799 57.143 1.74 0.00 35.04 3.35
941 8086 1.540267 CCGAGTGAAGTGGAGACTCT 58.460 55.000 1.74 0.00 35.04 3.24
953 8098 4.056125 CCGCAGTCTGCCGAGTGA 62.056 66.667 19.14 0.00 42.09 3.41
1539 8702 3.050275 GTGAAGCGGCAGTCACCC 61.050 66.667 20.13 3.06 38.57 4.61
1584 8759 0.943835 TGTGTGTGCCGTCAGAATCG 60.944 55.000 0.00 0.00 0.00 3.34
1774 9280 1.938577 CTTCTGGATCATCACAAGGCG 59.061 52.381 0.00 0.00 0.00 5.52
1783 9289 1.147824 CTGCCGGCTTCTGGATCAT 59.852 57.895 29.70 0.00 0.00 2.45
2009 9558 1.926510 GCATCTTAAACGCATTTGGCC 59.073 47.619 0.00 0.00 40.31 5.36
2024 9573 1.983691 CCTCATCATACCCCTGCATCT 59.016 52.381 0.00 0.00 0.00 2.90
2638 10325 2.174319 GCTAGGCGTGCAAGGTAGC 61.174 63.158 0.79 2.51 0.00 3.58
2694 10384 5.944007 TGAGAAGGCAAAACTACCCTTTATC 59.056 40.000 0.00 0.00 38.99 1.75
2733 10432 7.096551 CCCAATAAACCGAAGAAAATTCATGT 58.903 34.615 0.00 0.00 0.00 3.21
2783 10482 0.253044 CCACCATCTCGACCACCAAT 59.747 55.000 0.00 0.00 0.00 3.16
2812 10511 6.072649 TGGGACAATCATCTAATGCATTGAT 58.927 36.000 22.27 17.75 34.66 2.57
2851 10553 6.691754 TCACTTGTTCAAGAAACATAGCAA 57.308 33.333 17.75 0.00 46.94 3.91
2862 10567 8.517878 ACAATAAATCCAGATCACTTGTTCAAG 58.482 33.333 10.50 10.50 0.00 3.02
3047 10774 5.582269 ACACACATTCATCTATGCTGTACAC 59.418 40.000 0.00 0.00 0.00 2.90
3076 11178 4.401022 TGCATAGCCATTTGGGATTCTAG 58.599 43.478 0.00 0.00 40.01 2.43
3077 11179 4.451891 TGCATAGCCATTTGGGATTCTA 57.548 40.909 0.00 0.00 40.01 2.10
3078 11180 3.317455 TGCATAGCCATTTGGGATTCT 57.683 42.857 0.00 0.00 40.01 2.40
3079 11181 4.612264 ATTGCATAGCCATTTGGGATTC 57.388 40.909 0.00 0.00 40.01 2.52
3121 11223 5.115622 GCTTCGCTTCAAGAAACACATTAAC 59.884 40.000 0.00 0.00 0.00 2.01
3124 11226 3.632189 GCTTCGCTTCAAGAAACACATT 58.368 40.909 0.00 0.00 0.00 2.71
3127 11229 1.003866 ACGCTTCGCTTCAAGAAACAC 60.004 47.619 0.00 0.00 0.00 3.32
3140 11242 4.969816 AGGAAAATATGACAAACGCTTCG 58.030 39.130 0.00 0.00 0.00 3.79
3198 11302 4.322198 GCATGGCTTCTGAAATCTCCAAAA 60.322 41.667 0.00 0.00 0.00 2.44
3214 11318 2.022195 CATAAGTCAGCTTGCATGGCT 58.978 47.619 8.61 8.61 41.07 4.75
3270 11374 3.188254 CACTAATTCGAACATGTGGCACA 59.812 43.478 24.36 24.36 0.00 4.57
3374 11478 7.402811 TCTCAACACTACGAAGTAAACAATG 57.597 36.000 0.00 0.00 45.13 2.82
3394 11498 6.208988 AGCATATTTCAGTCTACGTTCTCA 57.791 37.500 0.00 0.00 0.00 3.27
3466 11571 4.778534 AACAATTGAAGCCATCTGACAG 57.221 40.909 13.59 0.00 0.00 3.51
3621 11737 1.231296 TGCATCACGCTTGCGGTTAA 61.231 50.000 19.19 2.08 43.10 2.01
3669 11785 8.375506 TCAGTTCCTTAATAGCATAACTATGGG 58.624 37.037 0.00 0.00 40.90 4.00
3726 11845 9.403110 CGTACTATGTACACAGTAAACTTTTCT 57.597 33.333 15.39 0.00 0.00 2.52
3784 11903 8.512138 TCACTAGTATGATGATTGGTATGTACG 58.488 37.037 0.00 0.00 0.00 3.67
3788 11907 7.330454 GCACTCACTAGTATGATGATTGGTATG 59.670 40.741 0.00 0.00 33.48 2.39


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

AutoCloner maintained by Alex Coulton.