Multiple sequence alignment - TraesCS7B01G382600

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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 TraesCS7B01G382600 chr7B 100.000 2713 0 0 1 2713 648430586 648427874 0.000000e+00 5011
1 TraesCS7B01G382600 chr7B 88.219 2190 179 50 551 2713 53112078 53109941 0.000000e+00 2542
2 TraesCS7B01G382600 chr2B 86.869 2536 212 58 240 2693 748926913 748924417 0.000000e+00 2726
3 TraesCS7B01G382600 chr2B 84.295 1057 99 28 222 1220 706692382 706691335 0.000000e+00 970
4 TraesCS7B01G382600 chr2B 88.416 423 37 7 2302 2713 706690357 706689936 1.450000e-137 499
5 TraesCS7B01G382600 chr2B 83.214 280 46 1 228 506 673856412 673856133 3.470000e-64 255
6 TraesCS7B01G382600 chr2B 85.463 227 31 2 223 447 706569112 706569338 4.520000e-58 235
7 TraesCS7B01G382600 chr5D 86.621 2063 182 45 225 2209 459925475 459923429 0.000000e+00 2194
8 TraesCS7B01G382600 chr5D 85.678 1948 209 35 223 2129 382518084 382520002 0.000000e+00 1988
9 TraesCS7B01G382600 chr5D 92.857 854 52 5 1435 2284 257416325 257415477 0.000000e+00 1230
10 TraesCS7B01G382600 chr5D 91.860 602 36 2 846 1442 257486109 257485516 0.000000e+00 828
11 TraesCS7B01G382600 chr5D 90.931 419 31 5 2301 2713 257415487 257415070 8.490000e-155 556
12 TraesCS7B01G382600 chr5D 83.654 208 33 1 222 428 114464973 114465180 7.660000e-46 195
13 TraesCS7B01G382600 chr1D 86.966 1757 144 36 551 2288 829297 830987 0.000000e+00 1897
14 TraesCS7B01G382600 chr5B 86.057 1750 158 40 554 2289 708181767 708180090 0.000000e+00 1801
15 TraesCS7B01G382600 chr5B 87.199 1039 102 21 1260 2288 498514945 498515962 0.000000e+00 1153
16 TraesCS7B01G382600 chr7D 83.020 1861 200 62 345 2129 46570491 46572311 0.000000e+00 1580
17 TraesCS7B01G382600 chr1B 89.896 1247 98 16 551 1772 168420444 168421687 0.000000e+00 1580
18 TraesCS7B01G382600 chr1B 85.575 1227 96 31 1496 2694 460136784 460135611 0.000000e+00 1210
19 TraesCS7B01G382600 chr1B 78.698 906 152 28 222 1110 557113655 557114536 1.410000e-157 566
20 TraesCS7B01G382600 chr1B 91.912 408 25 7 2301 2701 168422177 168422583 5.070000e-157 564
21 TraesCS7B01G382600 chr3B 86.577 1192 101 33 1541 2713 609965007 609966158 0.000000e+00 1260
22 TraesCS7B01G382600 chr4D 90.693 924 80 4 1173 2095 97480246 97479328 0.000000e+00 1225
23 TraesCS7B01G382600 chr3A 82.969 1098 124 31 243 1280 648266332 648267426 0.000000e+00 933
24 TraesCS7B01G382600 chr3A 86.864 236 30 1 222 456 648267836 648267601 2.070000e-66 263
25 TraesCS7B01G382600 chr4A 81.847 931 118 36 222 1110 630836260 630837181 0.000000e+00 736
26 TraesCS7B01G382600 chr2D 87.470 423 41 8 2301 2713 597794330 597793910 6.800000e-131 477
27 TraesCS7B01G382600 chr2A 86.480 429 41 9 2301 2713 732204025 732204452 3.180000e-124 455
28 TraesCS7B01G382600 chr6D 79.861 288 53 5 221 504 63805764 63806050 3.540000e-49 206
29 TraesCS7B01G382600 chrUn 79.530 298 50 9 220 512 97174530 97174821 4.580000e-48 202
30 TraesCS7B01G382600 chr6B 81.735 219 37 3 220 436 61190492 61190709 2.150000e-41 180


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 TraesCS7B01G382600 chr7B 648427874 648430586 2712 True 5011.0 5011 100.0000 1 2713 1 chr7B.!!$R2 2712
1 TraesCS7B01G382600 chr7B 53109941 53112078 2137 True 2542.0 2542 88.2190 551 2713 1 chr7B.!!$R1 2162
2 TraesCS7B01G382600 chr2B 748924417 748926913 2496 True 2726.0 2726 86.8690 240 2693 1 chr2B.!!$R2 2453
3 TraesCS7B01G382600 chr2B 706689936 706692382 2446 True 734.5 970 86.3555 222 2713 2 chr2B.!!$R3 2491
4 TraesCS7B01G382600 chr5D 459923429 459925475 2046 True 2194.0 2194 86.6210 225 2209 1 chr5D.!!$R2 1984
5 TraesCS7B01G382600 chr5D 382518084 382520002 1918 False 1988.0 1988 85.6780 223 2129 1 chr5D.!!$F2 1906
6 TraesCS7B01G382600 chr5D 257415070 257416325 1255 True 893.0 1230 91.8940 1435 2713 2 chr5D.!!$R3 1278
7 TraesCS7B01G382600 chr5D 257485516 257486109 593 True 828.0 828 91.8600 846 1442 1 chr5D.!!$R1 596
8 TraesCS7B01G382600 chr1D 829297 830987 1690 False 1897.0 1897 86.9660 551 2288 1 chr1D.!!$F1 1737
9 TraesCS7B01G382600 chr5B 708180090 708181767 1677 True 1801.0 1801 86.0570 554 2289 1 chr5B.!!$R1 1735
10 TraesCS7B01G382600 chr5B 498514945 498515962 1017 False 1153.0 1153 87.1990 1260 2288 1 chr5B.!!$F1 1028
11 TraesCS7B01G382600 chr7D 46570491 46572311 1820 False 1580.0 1580 83.0200 345 2129 1 chr7D.!!$F1 1784
12 TraesCS7B01G382600 chr1B 460135611 460136784 1173 True 1210.0 1210 85.5750 1496 2694 1 chr1B.!!$R1 1198
13 TraesCS7B01G382600 chr1B 168420444 168422583 2139 False 1072.0 1580 90.9040 551 2701 2 chr1B.!!$F2 2150
14 TraesCS7B01G382600 chr1B 557113655 557114536 881 False 566.0 566 78.6980 222 1110 1 chr1B.!!$F1 888
15 TraesCS7B01G382600 chr3B 609965007 609966158 1151 False 1260.0 1260 86.5770 1541 2713 1 chr3B.!!$F1 1172
16 TraesCS7B01G382600 chr4D 97479328 97480246 918 True 1225.0 1225 90.6930 1173 2095 1 chr4D.!!$R1 922
17 TraesCS7B01G382600 chr3A 648266332 648267426 1094 False 933.0 933 82.9690 243 1280 1 chr3A.!!$F1 1037
18 TraesCS7B01G382600 chr4A 630836260 630837181 921 False 736.0 736 81.8470 222 1110 1 chr4A.!!$F1 888

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
571 649 0.107703 CGCCATGCCTTCCTAGAACA 60.108 55.000 0.0 0.0 0.0 3.18 F
572 650 1.678728 CGCCATGCCTTCCTAGAACAA 60.679 52.381 0.0 0.0 0.0 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1492 1663 0.038166 CCTAAGCTTGGCCAACTCCA 59.962 55.0 16.05 7.87 0.0 3.86 R
2302 2605 0.695122 CGGGGTGGGGAGGGTTTATA 60.695 60.0 0.00 0.00 0.0 0.98 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
38 39 9.956720 AGCTTTATGAAAGAATGGATATTTTCG 57.043 29.630 3.15 0.00 41.02 3.46
39 40 9.185192 GCTTTATGAAAGAATGGATATTTTCGG 57.815 33.333 3.15 0.00 41.02 4.30
40 41 9.185192 CTTTATGAAAGAATGGATATTTTCGGC 57.815 33.333 0.00 0.00 41.02 5.54
41 42 5.514274 TGAAAGAATGGATATTTTCGGCC 57.486 39.130 0.00 0.00 0.00 6.13
42 43 4.952957 TGAAAGAATGGATATTTTCGGCCA 59.047 37.500 2.24 0.00 34.45 5.36
43 44 5.420421 TGAAAGAATGGATATTTTCGGCCAA 59.580 36.000 2.24 0.00 33.51 4.52
44 45 5.520376 AAGAATGGATATTTTCGGCCAAG 57.480 39.130 2.24 0.00 33.51 3.61
45 46 4.792068 AGAATGGATATTTTCGGCCAAGA 58.208 39.130 2.24 0.00 33.51 3.02
46 47 5.200483 AGAATGGATATTTTCGGCCAAGAA 58.800 37.500 2.24 0.00 33.51 2.52
47 48 4.918810 ATGGATATTTTCGGCCAAGAAC 57.081 40.909 2.24 0.00 33.51 3.01
48 49 3.691575 TGGATATTTTCGGCCAAGAACA 58.308 40.909 2.24 0.00 0.00 3.18
49 50 4.082845 TGGATATTTTCGGCCAAGAACAA 58.917 39.130 2.24 0.00 0.00 2.83
50 51 4.524714 TGGATATTTTCGGCCAAGAACAAA 59.475 37.500 2.24 0.00 0.00 2.83
51 52 5.186797 TGGATATTTTCGGCCAAGAACAAAT 59.813 36.000 2.24 0.00 0.00 2.32
52 53 5.519927 GGATATTTTCGGCCAAGAACAAATG 59.480 40.000 2.24 0.00 0.00 2.32
53 54 2.147436 TTTCGGCCAAGAACAAATGC 57.853 45.000 2.24 0.00 0.00 3.56
54 55 1.035923 TTCGGCCAAGAACAAATGCA 58.964 45.000 2.24 0.00 0.00 3.96
55 56 1.255882 TCGGCCAAGAACAAATGCAT 58.744 45.000 2.24 0.00 0.00 3.96
56 57 1.617850 TCGGCCAAGAACAAATGCATT 59.382 42.857 5.99 5.99 0.00 3.56
57 58 1.727880 CGGCCAAGAACAAATGCATTG 59.272 47.619 13.82 9.78 44.95 2.82
58 59 2.609984 CGGCCAAGAACAAATGCATTGA 60.610 45.455 13.82 0.00 41.85 2.57
59 60 3.602483 GGCCAAGAACAAATGCATTGAT 58.398 40.909 13.82 0.78 41.85 2.57
60 61 3.372822 GGCCAAGAACAAATGCATTGATG 59.627 43.478 13.82 11.11 41.85 3.07
72 73 2.684001 CATTGATGCCAGCACCATTT 57.316 45.000 0.00 0.00 0.00 2.32
73 74 2.980568 CATTGATGCCAGCACCATTTT 58.019 42.857 0.00 0.00 0.00 1.82
74 75 3.340034 CATTGATGCCAGCACCATTTTT 58.660 40.909 0.00 0.00 0.00 1.94
101 102 7.650834 TTTAAACAAGCCACAATGAATTAGC 57.349 32.000 0.00 0.00 0.00 3.09
102 103 4.870123 AACAAGCCACAATGAATTAGCA 57.130 36.364 0.00 0.00 0.00 3.49
103 104 5.410355 AACAAGCCACAATGAATTAGCAT 57.590 34.783 0.00 0.00 0.00 3.79
104 105 6.528537 AACAAGCCACAATGAATTAGCATA 57.471 33.333 0.00 0.00 0.00 3.14
105 106 6.528537 ACAAGCCACAATGAATTAGCATAA 57.471 33.333 0.00 0.00 0.00 1.90
106 107 6.934056 ACAAGCCACAATGAATTAGCATAAA 58.066 32.000 0.00 0.00 0.00 1.40
107 108 7.385267 ACAAGCCACAATGAATTAGCATAAAA 58.615 30.769 0.00 0.00 0.00 1.52
108 109 7.546667 ACAAGCCACAATGAATTAGCATAAAAG 59.453 33.333 0.00 0.00 0.00 2.27
109 110 6.576185 AGCCACAATGAATTAGCATAAAAGG 58.424 36.000 0.00 0.00 0.00 3.11
110 111 5.754890 GCCACAATGAATTAGCATAAAAGGG 59.245 40.000 0.00 0.00 0.00 3.95
111 112 6.282930 CCACAATGAATTAGCATAAAAGGGG 58.717 40.000 0.00 0.00 0.00 4.79
112 113 6.127083 CCACAATGAATTAGCATAAAAGGGGT 60.127 38.462 0.00 0.00 0.00 4.95
113 114 6.757947 CACAATGAATTAGCATAAAAGGGGTG 59.242 38.462 0.00 0.00 0.00 4.61
114 115 6.667414 ACAATGAATTAGCATAAAAGGGGTGA 59.333 34.615 0.00 0.00 0.00 4.02
115 116 6.715347 ATGAATTAGCATAAAAGGGGTGAC 57.285 37.500 0.00 0.00 0.00 3.67
116 117 4.638421 TGAATTAGCATAAAAGGGGTGACG 59.362 41.667 0.00 0.00 0.00 4.35
117 118 3.985019 TTAGCATAAAAGGGGTGACGA 57.015 42.857 0.00 0.00 0.00 4.20
118 119 4.497291 TTAGCATAAAAGGGGTGACGAT 57.503 40.909 0.00 0.00 0.00 3.73
119 120 2.643551 AGCATAAAAGGGGTGACGATG 58.356 47.619 0.00 0.00 0.00 3.84
120 121 2.026262 AGCATAAAAGGGGTGACGATGT 60.026 45.455 0.00 0.00 0.00 3.06
121 122 3.199071 AGCATAAAAGGGGTGACGATGTA 59.801 43.478 0.00 0.00 0.00 2.29
122 123 4.134563 GCATAAAAGGGGTGACGATGTAT 58.865 43.478 0.00 0.00 0.00 2.29
123 124 4.024048 GCATAAAAGGGGTGACGATGTATG 60.024 45.833 0.00 0.00 0.00 2.39
124 125 3.992943 AAAAGGGGTGACGATGTATGA 57.007 42.857 0.00 0.00 0.00 2.15
125 126 3.992943 AAAGGGGTGACGATGTATGAA 57.007 42.857 0.00 0.00 0.00 2.57
126 127 4.503714 AAAGGGGTGACGATGTATGAAT 57.496 40.909 0.00 0.00 0.00 2.57
127 128 3.475566 AGGGGTGACGATGTATGAATG 57.524 47.619 0.00 0.00 0.00 2.67
128 129 2.771943 AGGGGTGACGATGTATGAATGT 59.228 45.455 0.00 0.00 0.00 2.71
129 130 3.964688 AGGGGTGACGATGTATGAATGTA 59.035 43.478 0.00 0.00 0.00 2.29
130 131 4.407621 AGGGGTGACGATGTATGAATGTAA 59.592 41.667 0.00 0.00 0.00 2.41
131 132 5.071788 AGGGGTGACGATGTATGAATGTAAT 59.928 40.000 0.00 0.00 0.00 1.89
132 133 5.408604 GGGGTGACGATGTATGAATGTAATC 59.591 44.000 0.00 0.00 0.00 1.75
133 134 5.989168 GGGTGACGATGTATGAATGTAATCA 59.011 40.000 0.00 0.00 0.00 2.57
134 135 6.650807 GGGTGACGATGTATGAATGTAATCAT 59.349 38.462 0.00 0.00 42.52 2.45
135 136 7.173218 GGGTGACGATGTATGAATGTAATCATT 59.827 37.037 0.00 0.00 45.57 2.57
155 156 7.926674 TCATTCAAAGTATTTCAGCATCAGA 57.073 32.000 0.00 0.00 35.03 3.27
156 157 8.339344 TCATTCAAAGTATTTCAGCATCAGAA 57.661 30.769 0.00 0.00 35.03 3.02
157 158 8.795513 TCATTCAAAGTATTTCAGCATCAGAAA 58.204 29.630 0.00 0.00 35.03 2.52
158 159 9.414295 CATTCAAAGTATTTCAGCATCAGAAAA 57.586 29.630 0.00 0.00 35.03 2.29
170 171 8.213518 TCAGCATCAGAAAATAAATGTCTACC 57.786 34.615 0.00 0.00 0.00 3.18
171 172 7.828717 TCAGCATCAGAAAATAAATGTCTACCA 59.171 33.333 0.00 0.00 0.00 3.25
172 173 8.627403 CAGCATCAGAAAATAAATGTCTACCAT 58.373 33.333 0.00 0.00 34.36 3.55
173 174 9.851686 AGCATCAGAAAATAAATGTCTACCATA 57.148 29.630 0.00 0.00 31.97 2.74
188 189 9.995003 ATGTCTACCATAGAGAAAAATGATCTC 57.005 33.333 0.00 0.00 42.95 2.75
189 190 8.981659 TGTCTACCATAGAGAAAAATGATCTCA 58.018 33.333 6.35 0.00 44.64 3.27
190 191 9.255304 GTCTACCATAGAGAAAAATGATCTCAC 57.745 37.037 6.35 0.00 44.64 3.51
191 192 8.981659 TCTACCATAGAGAAAAATGATCTCACA 58.018 33.333 6.35 0.00 44.64 3.58
192 193 9.605275 CTACCATAGAGAAAAATGATCTCACAA 57.395 33.333 6.35 0.00 44.64 3.33
193 194 8.868522 ACCATAGAGAAAAATGATCTCACAAA 57.131 30.769 6.35 0.00 44.64 2.83
194 195 9.471702 ACCATAGAGAAAAATGATCTCACAAAT 57.528 29.630 6.35 0.00 44.64 2.32
209 210 9.442047 GATCTCACAAATTATACCATTAGGAGG 57.558 37.037 0.00 0.00 38.69 4.30
210 211 7.224297 TCTCACAAATTATACCATTAGGAGGC 58.776 38.462 0.00 0.00 38.69 4.70
211 212 6.905736 TCACAAATTATACCATTAGGAGGCA 58.094 36.000 0.00 0.00 38.69 4.75
212 213 7.350382 TCACAAATTATACCATTAGGAGGCAA 58.650 34.615 0.00 0.00 38.69 4.52
213 214 7.836685 TCACAAATTATACCATTAGGAGGCAAA 59.163 33.333 0.00 0.00 38.69 3.68
214 215 8.137437 CACAAATTATACCATTAGGAGGCAAAG 58.863 37.037 0.00 0.00 38.69 2.77
215 216 7.839200 ACAAATTATACCATTAGGAGGCAAAGT 59.161 33.333 0.00 0.00 38.69 2.66
216 217 8.695456 CAAATTATACCATTAGGAGGCAAAGTT 58.305 33.333 0.00 0.00 38.69 2.66
217 218 7.823745 ATTATACCATTAGGAGGCAAAGTTG 57.176 36.000 0.00 0.00 38.69 3.16
218 219 3.525800 ACCATTAGGAGGCAAAGTTGT 57.474 42.857 0.00 0.00 38.69 3.32
219 220 3.157087 ACCATTAGGAGGCAAAGTTGTG 58.843 45.455 0.00 0.00 38.69 3.33
220 221 3.181434 ACCATTAGGAGGCAAAGTTGTGA 60.181 43.478 0.00 0.00 38.69 3.58
235 236 8.119226 GCAAAGTTGTGAGAGTAAATAGCATAG 58.881 37.037 0.00 0.00 0.00 2.23
251 252 9.962783 AAATAGCATAGAACTACTAGTTTACGG 57.037 33.333 0.00 0.00 38.80 4.02
357 362 5.036117 ACCACATCCACTAGCGATTTAAT 57.964 39.130 0.00 0.00 0.00 1.40
358 363 5.437060 ACCACATCCACTAGCGATTTAATT 58.563 37.500 0.00 0.00 0.00 1.40
364 370 7.336931 ACATCCACTAGCGATTTAATTGTTTCT 59.663 33.333 0.00 0.00 0.00 2.52
367 373 7.174253 TCCACTAGCGATTTAATTGTTTCTTGT 59.826 33.333 0.00 0.00 0.00 3.16
431 437 0.680921 GGAGCAGCAGTTAATGGCCA 60.681 55.000 8.56 8.56 0.00 5.36
444 450 1.635817 ATGGCCATTAGCTGACCGGT 61.636 55.000 14.09 6.92 43.05 5.28
447 454 1.904771 CCATTAGCTGACCGGTCCA 59.095 57.895 31.19 17.90 0.00 4.02
449 456 0.824109 CATTAGCTGACCGGTCCAGA 59.176 55.000 31.19 12.59 33.65 3.86
547 607 1.081376 CGCTTGTCGTCTTCGAGGT 60.081 57.895 0.00 0.00 46.96 3.85
571 649 0.107703 CGCCATGCCTTCCTAGAACA 60.108 55.000 0.00 0.00 0.00 3.18
572 650 1.678728 CGCCATGCCTTCCTAGAACAA 60.679 52.381 0.00 0.00 0.00 2.83
573 651 1.745653 GCCATGCCTTCCTAGAACAAC 59.254 52.381 0.00 0.00 0.00 3.32
574 652 2.879756 GCCATGCCTTCCTAGAACAACA 60.880 50.000 0.00 0.00 0.00 3.33
575 653 3.420893 CCATGCCTTCCTAGAACAACAA 58.579 45.455 0.00 0.00 0.00 2.83
576 654 3.441572 CCATGCCTTCCTAGAACAACAAG 59.558 47.826 0.00 0.00 0.00 3.16
577 655 3.140325 TGCCTTCCTAGAACAACAAGG 57.860 47.619 0.00 0.00 37.31 3.61
578 656 2.708861 TGCCTTCCTAGAACAACAAGGA 59.291 45.455 0.05 0.00 36.48 3.36
579 657 3.137544 TGCCTTCCTAGAACAACAAGGAA 59.862 43.478 3.24 3.24 45.04 3.36
580 658 4.142038 GCCTTCCTAGAACAACAAGGAAA 58.858 43.478 4.72 0.00 46.13 3.13
581 659 4.023107 GCCTTCCTAGAACAACAAGGAAAC 60.023 45.833 4.72 0.00 46.13 2.78
582 660 5.130350 CCTTCCTAGAACAACAAGGAAACA 58.870 41.667 4.72 0.00 46.13 2.83
583 661 5.592688 CCTTCCTAGAACAACAAGGAAACAA 59.407 40.000 4.72 0.00 46.13 2.83
584 662 6.238759 CCTTCCTAGAACAACAAGGAAACAAG 60.239 42.308 4.72 0.00 46.13 3.16
585 663 4.578928 TCCTAGAACAACAAGGAAACAAGC 59.421 41.667 0.00 0.00 36.47 4.01
586 664 4.580580 CCTAGAACAACAAGGAAACAAGCT 59.419 41.667 0.00 0.00 31.64 3.74
587 665 4.639135 AGAACAACAAGGAAACAAGCTC 57.361 40.909 0.00 0.00 0.00 4.09
588 666 3.381590 AGAACAACAAGGAAACAAGCTCC 59.618 43.478 0.00 0.00 0.00 4.70
606 702 1.712018 CCGACGATGACTGCGAGGTA 61.712 60.000 0.00 0.00 0.00 3.08
632 728 2.233271 CATGGACATGGGACTTATGGC 58.767 52.381 4.39 0.00 35.24 4.40
633 729 3.421567 GGACATGGGACTTATGGCC 57.578 57.895 0.00 0.00 45.84 5.36
661 765 2.280308 TCCTTGCCACCTAGGGTTAT 57.720 50.000 14.81 0.00 38.09 1.89
672 782 2.709397 CCTAGGGTTATGGTTAGGGTGG 59.291 54.545 0.00 0.00 31.11 4.61
673 783 2.672703 AGGGTTATGGTTAGGGTGGA 57.327 50.000 0.00 0.00 0.00 4.02
710 829 7.293073 ACATCCATGGATCTTGCTTAGTTTAT 58.707 34.615 24.93 0.00 31.62 1.40
772 894 1.917568 GTGGGGGTTGGTTGTAGGATA 59.082 52.381 0.00 0.00 0.00 2.59
784 906 8.422566 GTTGGTTGTAGGATAGAGCTAACTTAT 58.577 37.037 0.00 0.00 34.74 1.73
789 911 9.650714 TTGTAGGATAGAGCTAACTTATGGTTA 57.349 33.333 0.00 0.00 39.17 2.85
1090 1219 5.066505 GTCCAGGTTAGATGCCAATTAAGTG 59.933 44.000 0.00 0.00 0.00 3.16
1199 1351 7.151308 TGTTACTTTGCAAACTTAATCATGGG 58.849 34.615 8.05 0.00 0.00 4.00
1291 1459 8.570488 CAGTGAAATAAGCTAATCATGGCATTA 58.430 33.333 0.00 0.00 35.08 1.90
1445 1613 3.394606 ACTGTGGAAGGGTACTTGACAAT 59.605 43.478 0.00 0.00 36.97 2.71
1467 1635 5.359194 TGAGAAGTTTGAGAAGGAGTTGT 57.641 39.130 0.00 0.00 0.00 3.32
1484 1655 4.962155 AGTTGTCCAAGGTTAAGACTGAG 58.038 43.478 0.00 0.00 0.00 3.35
1492 1663 7.824779 GTCCAAGGTTAAGACTGAGAATAACAT 59.175 37.037 0.00 0.00 31.46 2.71
1517 1688 0.615331 TGGCCAAGCTTAGGACTGAG 59.385 55.000 18.06 0.00 34.31 3.35
1530 1701 3.936564 AGGACTGAGAATGACAAGCTTC 58.063 45.455 0.00 0.00 0.00 3.86
1531 1702 3.326006 AGGACTGAGAATGACAAGCTTCA 59.674 43.478 0.00 0.00 0.00 3.02
1539 1710 4.458295 AGAATGACAAGCTTCACATTGAGG 59.542 41.667 23.53 3.36 33.92 3.86
1560 1731 3.319122 GGACACCAAGCTTGTTGAAGATT 59.681 43.478 28.30 7.35 38.36 2.40
1620 1792 5.258051 ACAAGAAGGTGTACCAGAAACAAA 58.742 37.500 3.56 0.00 38.89 2.83
1666 1874 4.685513 AGAAGGAGGTAGAGGAGAAAGT 57.314 45.455 0.00 0.00 0.00 2.66
1868 2080 2.846206 TGGGTATGACAGCAAGGAGAAT 59.154 45.455 0.00 0.00 0.00 2.40
1933 2154 6.009589 TGAAATGTTGGTGAAGTACATCCAT 58.990 36.000 0.00 0.00 31.63 3.41
1937 2158 1.915489 TGGTGAAGTACATCCATGGCT 59.085 47.619 6.96 0.00 0.00 4.75
1944 2167 8.100791 GGTGAAGTACATCCATGGCTTATATAA 58.899 37.037 6.96 0.00 30.98 0.98
2032 2256 2.008242 AGGGTTTGGCACTGCATTTA 57.992 45.000 2.82 0.00 0.00 1.40
2034 2258 2.299867 AGGGTTTGGCACTGCATTTAAG 59.700 45.455 2.82 0.00 0.00 1.85
2097 2321 4.402056 AGTATGTTGTAATGGACCTCCG 57.598 45.455 0.00 0.00 39.43 4.63
2236 2516 3.565482 GTCTCTGACCAAATGAAACTGCA 59.435 43.478 0.00 0.00 0.00 4.41
2256 2554 3.681874 GCACTAGGCCTACTAAAACCCAG 60.682 52.174 8.91 0.00 36.11 4.45
2284 2587 4.538490 TCCACCACTGTCAATATAAACCCT 59.462 41.667 0.00 0.00 0.00 4.34
2285 2588 4.881850 CCACCACTGTCAATATAAACCCTC 59.118 45.833 0.00 0.00 0.00 4.30
2286 2589 4.881850 CACCACTGTCAATATAAACCCTCC 59.118 45.833 0.00 0.00 0.00 4.30
2287 2590 4.079958 ACCACTGTCAATATAAACCCTCCC 60.080 45.833 0.00 0.00 0.00 4.30
2288 2591 4.166144 CCACTGTCAATATAAACCCTCCCT 59.834 45.833 0.00 0.00 0.00 4.20
2289 2592 5.340027 CCACTGTCAATATAAACCCTCCCTT 60.340 44.000 0.00 0.00 0.00 3.95
2290 2593 5.590259 CACTGTCAATATAAACCCTCCCTTG 59.410 44.000 0.00 0.00 0.00 3.61
2291 2594 5.253096 ACTGTCAATATAAACCCTCCCTTGT 59.747 40.000 0.00 0.00 0.00 3.16
2292 2595 5.751586 TGTCAATATAAACCCTCCCTTGTC 58.248 41.667 0.00 0.00 0.00 3.18
2293 2596 5.491078 TGTCAATATAAACCCTCCCTTGTCT 59.509 40.000 0.00 0.00 0.00 3.41
2294 2597 6.056236 GTCAATATAAACCCTCCCTTGTCTC 58.944 44.000 0.00 0.00 0.00 3.36
2295 2598 5.729229 TCAATATAAACCCTCCCTTGTCTCA 59.271 40.000 0.00 0.00 0.00 3.27
2296 2599 6.216662 TCAATATAAACCCTCCCTTGTCTCAA 59.783 38.462 0.00 0.00 0.00 3.02
2297 2600 6.652205 ATATAAACCCTCCCTTGTCTCAAA 57.348 37.500 0.00 0.00 0.00 2.69
2298 2601 3.680777 AAACCCTCCCTTGTCTCAAAA 57.319 42.857 0.00 0.00 0.00 2.44
2299 2602 3.680777 AACCCTCCCTTGTCTCAAAAA 57.319 42.857 0.00 0.00 0.00 1.94
2419 2734 2.623431 AGGAGGAGGGAGAGGCCT 60.623 66.667 3.86 3.86 36.66 5.19
2426 2741 3.093172 GGGAGAGGCCTTGGAGGG 61.093 72.222 6.77 0.00 35.37 4.30
2458 2773 2.583520 CACAGCAGAGGAGGAGGC 59.416 66.667 0.00 0.00 0.00 4.70
2572 2895 3.894257 GCTTGAGCTTGTTTTCCCC 57.106 52.632 0.00 0.00 38.21 4.81
2580 2903 1.381327 TTGTTTTCCCCGGTGGCAA 60.381 52.632 0.00 0.00 0.00 4.52
2702 3027 7.018826 GCGTTATGACTGATCTGTCTATCTAC 58.981 42.308 26.86 17.71 37.79 2.59
2703 3028 7.308049 GCGTTATGACTGATCTGTCTATCTACA 60.308 40.741 26.86 11.15 37.79 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 9.956720 CGAAAATATCCATTCTTTCATAAAGCT 57.043 29.630 0.00 0.00 38.39 3.74
13 14 9.185192 CCGAAAATATCCATTCTTTCATAAAGC 57.815 33.333 0.00 0.00 38.39 3.51
14 15 9.185192 GCCGAAAATATCCATTCTTTCATAAAG 57.815 33.333 0.00 0.00 39.88 1.85
15 16 8.141268 GGCCGAAAATATCCATTCTTTCATAAA 58.859 33.333 0.00 0.00 0.00 1.40
16 17 7.286546 TGGCCGAAAATATCCATTCTTTCATAA 59.713 33.333 0.00 0.00 0.00 1.90
17 18 6.775142 TGGCCGAAAATATCCATTCTTTCATA 59.225 34.615 0.00 0.00 0.00 2.15
18 19 5.598005 TGGCCGAAAATATCCATTCTTTCAT 59.402 36.000 0.00 0.00 0.00 2.57
19 20 4.952957 TGGCCGAAAATATCCATTCTTTCA 59.047 37.500 0.00 0.00 0.00 2.69
20 21 5.514274 TGGCCGAAAATATCCATTCTTTC 57.486 39.130 0.00 0.00 0.00 2.62
21 22 5.656416 TCTTGGCCGAAAATATCCATTCTTT 59.344 36.000 0.00 0.00 0.00 2.52
22 23 5.200483 TCTTGGCCGAAAATATCCATTCTT 58.800 37.500 0.00 0.00 0.00 2.52
23 24 4.792068 TCTTGGCCGAAAATATCCATTCT 58.208 39.130 0.00 0.00 0.00 2.40
24 25 5.163561 TGTTCTTGGCCGAAAATATCCATTC 60.164 40.000 0.00 0.00 0.00 2.67
25 26 4.709397 TGTTCTTGGCCGAAAATATCCATT 59.291 37.500 0.00 0.00 0.00 3.16
26 27 4.277476 TGTTCTTGGCCGAAAATATCCAT 58.723 39.130 0.00 0.00 0.00 3.41
27 28 3.691575 TGTTCTTGGCCGAAAATATCCA 58.308 40.909 0.00 0.00 0.00 3.41
28 29 4.712122 TTGTTCTTGGCCGAAAATATCC 57.288 40.909 0.00 0.00 0.00 2.59
29 30 5.005682 GCATTTGTTCTTGGCCGAAAATATC 59.994 40.000 0.00 0.00 0.00 1.63
30 31 4.869861 GCATTTGTTCTTGGCCGAAAATAT 59.130 37.500 0.00 0.00 0.00 1.28
31 32 4.241681 GCATTTGTTCTTGGCCGAAAATA 58.758 39.130 0.00 0.00 0.00 1.40
32 33 3.066380 GCATTTGTTCTTGGCCGAAAAT 58.934 40.909 0.00 0.00 0.00 1.82
33 34 2.159043 TGCATTTGTTCTTGGCCGAAAA 60.159 40.909 0.00 0.00 0.00 2.29
34 35 1.410517 TGCATTTGTTCTTGGCCGAAA 59.589 42.857 0.00 0.00 0.00 3.46
35 36 1.035923 TGCATTTGTTCTTGGCCGAA 58.964 45.000 0.00 0.00 0.00 4.30
36 37 1.255882 ATGCATTTGTTCTTGGCCGA 58.744 45.000 0.00 0.00 0.00 5.54
37 38 1.727880 CAATGCATTTGTTCTTGGCCG 59.272 47.619 9.83 0.00 0.00 6.13
38 39 3.042871 TCAATGCATTTGTTCTTGGCC 57.957 42.857 9.83 0.00 36.65 5.36
39 40 4.593597 CATCAATGCATTTGTTCTTGGC 57.406 40.909 9.83 0.00 36.65 4.52
53 54 2.684001 AAATGGTGCTGGCATCAATG 57.316 45.000 12.62 0.00 40.75 2.82
54 55 3.706600 AAAAATGGTGCTGGCATCAAT 57.293 38.095 12.62 1.34 40.75 2.57
75 76 9.364989 GCTAATTCATTGTGGCTTGTTTAAATA 57.635 29.630 0.00 0.00 0.00 1.40
76 77 7.877097 TGCTAATTCATTGTGGCTTGTTTAAAT 59.123 29.630 0.00 0.00 0.00 1.40
77 78 7.212976 TGCTAATTCATTGTGGCTTGTTTAAA 58.787 30.769 0.00 0.00 0.00 1.52
78 79 6.753180 TGCTAATTCATTGTGGCTTGTTTAA 58.247 32.000 0.00 0.00 0.00 1.52
79 80 6.338214 TGCTAATTCATTGTGGCTTGTTTA 57.662 33.333 0.00 0.00 0.00 2.01
80 81 5.212532 TGCTAATTCATTGTGGCTTGTTT 57.787 34.783 0.00 0.00 0.00 2.83
81 82 4.870123 TGCTAATTCATTGTGGCTTGTT 57.130 36.364 0.00 0.00 0.00 2.83
82 83 6.528537 TTATGCTAATTCATTGTGGCTTGT 57.471 33.333 0.00 0.00 0.00 3.16
83 84 7.010738 CCTTTTATGCTAATTCATTGTGGCTTG 59.989 37.037 0.00 0.00 0.00 4.01
84 85 7.043565 CCTTTTATGCTAATTCATTGTGGCTT 58.956 34.615 0.00 0.00 0.00 4.35
85 86 6.407299 CCCTTTTATGCTAATTCATTGTGGCT 60.407 38.462 0.00 0.00 0.00 4.75
86 87 5.754890 CCCTTTTATGCTAATTCATTGTGGC 59.245 40.000 0.00 0.00 0.00 5.01
87 88 6.127083 ACCCCTTTTATGCTAATTCATTGTGG 60.127 38.462 0.00 0.00 0.00 4.17
88 89 6.757947 CACCCCTTTTATGCTAATTCATTGTG 59.242 38.462 0.00 0.00 0.00 3.33
89 90 6.667414 TCACCCCTTTTATGCTAATTCATTGT 59.333 34.615 0.00 0.00 0.00 2.71
90 91 6.980397 GTCACCCCTTTTATGCTAATTCATTG 59.020 38.462 0.00 0.00 0.00 2.82
91 92 6.183360 CGTCACCCCTTTTATGCTAATTCATT 60.183 38.462 0.00 0.00 0.00 2.57
92 93 5.299279 CGTCACCCCTTTTATGCTAATTCAT 59.701 40.000 0.00 0.00 0.00 2.57
93 94 4.638421 CGTCACCCCTTTTATGCTAATTCA 59.362 41.667 0.00 0.00 0.00 2.57
94 95 4.879545 TCGTCACCCCTTTTATGCTAATTC 59.120 41.667 0.00 0.00 0.00 2.17
95 96 4.850680 TCGTCACCCCTTTTATGCTAATT 58.149 39.130 0.00 0.00 0.00 1.40
96 97 4.497291 TCGTCACCCCTTTTATGCTAAT 57.503 40.909 0.00 0.00 0.00 1.73
97 98 3.985019 TCGTCACCCCTTTTATGCTAA 57.015 42.857 0.00 0.00 0.00 3.09
98 99 3.199071 ACATCGTCACCCCTTTTATGCTA 59.801 43.478 0.00 0.00 0.00 3.49
99 100 2.026262 ACATCGTCACCCCTTTTATGCT 60.026 45.455 0.00 0.00 0.00 3.79
100 101 2.365582 ACATCGTCACCCCTTTTATGC 58.634 47.619 0.00 0.00 0.00 3.14
101 102 5.364778 TCATACATCGTCACCCCTTTTATG 58.635 41.667 0.00 0.00 0.00 1.90
102 103 5.623956 TCATACATCGTCACCCCTTTTAT 57.376 39.130 0.00 0.00 0.00 1.40
103 104 5.423704 TTCATACATCGTCACCCCTTTTA 57.576 39.130 0.00 0.00 0.00 1.52
104 105 3.992943 TCATACATCGTCACCCCTTTT 57.007 42.857 0.00 0.00 0.00 2.27
105 106 3.992943 TTCATACATCGTCACCCCTTT 57.007 42.857 0.00 0.00 0.00 3.11
106 107 3.199946 ACATTCATACATCGTCACCCCTT 59.800 43.478 0.00 0.00 0.00 3.95
107 108 2.771943 ACATTCATACATCGTCACCCCT 59.228 45.455 0.00 0.00 0.00 4.79
108 109 3.194005 ACATTCATACATCGTCACCCC 57.806 47.619 0.00 0.00 0.00 4.95
109 110 5.989168 TGATTACATTCATACATCGTCACCC 59.011 40.000 0.00 0.00 0.00 4.61
110 111 7.658179 ATGATTACATTCATACATCGTCACC 57.342 36.000 0.00 0.00 34.59 4.02
129 130 8.963725 TCTGATGCTGAAATACTTTGAATGATT 58.036 29.630 0.00 0.00 0.00 2.57
130 131 8.515695 TCTGATGCTGAAATACTTTGAATGAT 57.484 30.769 0.00 0.00 0.00 2.45
131 132 7.926674 TCTGATGCTGAAATACTTTGAATGA 57.073 32.000 0.00 0.00 0.00 2.57
132 133 8.975410 TTTCTGATGCTGAAATACTTTGAATG 57.025 30.769 0.00 0.00 0.00 2.67
144 145 8.677300 GGTAGACATTTATTTTCTGATGCTGAA 58.323 33.333 0.00 0.00 0.00 3.02
145 146 7.828717 TGGTAGACATTTATTTTCTGATGCTGA 59.171 33.333 0.00 0.00 0.00 4.26
146 147 7.988737 TGGTAGACATTTATTTTCTGATGCTG 58.011 34.615 0.00 0.00 0.00 4.41
147 148 8.757982 ATGGTAGACATTTATTTTCTGATGCT 57.242 30.769 0.00 0.00 35.97 3.79
162 163 9.995003 GAGATCATTTTTCTCTATGGTAGACAT 57.005 33.333 0.00 0.00 37.28 3.06
163 164 8.981659 TGAGATCATTTTTCTCTATGGTAGACA 58.018 33.333 0.00 0.00 40.26 3.41
164 165 9.255304 GTGAGATCATTTTTCTCTATGGTAGAC 57.745 37.037 0.00 0.00 40.26 2.59
165 166 8.981659 TGTGAGATCATTTTTCTCTATGGTAGA 58.018 33.333 0.00 0.00 40.26 2.59
166 167 9.605275 TTGTGAGATCATTTTTCTCTATGGTAG 57.395 33.333 0.00 0.00 40.26 3.18
167 168 9.958180 TTTGTGAGATCATTTTTCTCTATGGTA 57.042 29.630 0.00 0.00 40.26 3.25
168 169 8.868522 TTTGTGAGATCATTTTTCTCTATGGT 57.131 30.769 0.00 0.00 40.26 3.55
183 184 9.442047 CCTCCTAATGGTATAATTTGTGAGATC 57.558 37.037 0.00 0.00 34.23 2.75
184 185 7.885399 GCCTCCTAATGGTATAATTTGTGAGAT 59.115 37.037 0.00 0.00 34.23 2.75
185 186 7.147391 TGCCTCCTAATGGTATAATTTGTGAGA 60.147 37.037 0.00 0.00 34.23 3.27
186 187 6.998074 TGCCTCCTAATGGTATAATTTGTGAG 59.002 38.462 0.00 0.00 34.23 3.51
187 188 6.905736 TGCCTCCTAATGGTATAATTTGTGA 58.094 36.000 0.00 0.00 34.23 3.58
188 189 7.581213 TTGCCTCCTAATGGTATAATTTGTG 57.419 36.000 0.00 0.00 34.23 3.33
189 190 7.839200 ACTTTGCCTCCTAATGGTATAATTTGT 59.161 33.333 0.00 0.00 34.23 2.83
190 191 8.237811 ACTTTGCCTCCTAATGGTATAATTTG 57.762 34.615 0.00 0.00 34.23 2.32
191 192 8.695456 CAACTTTGCCTCCTAATGGTATAATTT 58.305 33.333 0.00 0.00 34.23 1.82
192 193 7.839200 ACAACTTTGCCTCCTAATGGTATAATT 59.161 33.333 0.00 0.00 34.23 1.40
193 194 7.285401 CACAACTTTGCCTCCTAATGGTATAAT 59.715 37.037 0.00 0.00 34.23 1.28
194 195 6.601613 CACAACTTTGCCTCCTAATGGTATAA 59.398 38.462 0.00 0.00 34.23 0.98
195 196 6.069905 TCACAACTTTGCCTCCTAATGGTATA 60.070 38.462 0.00 0.00 34.23 1.47
196 197 4.949856 CACAACTTTGCCTCCTAATGGTAT 59.050 41.667 0.00 0.00 34.23 2.73
197 198 4.042311 TCACAACTTTGCCTCCTAATGGTA 59.958 41.667 0.00 0.00 34.23 3.25
198 199 3.157087 CACAACTTTGCCTCCTAATGGT 58.843 45.455 0.00 0.00 34.23 3.55
199 200 3.420893 TCACAACTTTGCCTCCTAATGG 58.579 45.455 0.00 0.00 0.00 3.16
200 201 4.326826 TCTCACAACTTTGCCTCCTAATG 58.673 43.478 0.00 0.00 0.00 1.90
201 202 4.042187 ACTCTCACAACTTTGCCTCCTAAT 59.958 41.667 0.00 0.00 0.00 1.73
202 203 3.391296 ACTCTCACAACTTTGCCTCCTAA 59.609 43.478 0.00 0.00 0.00 2.69
203 204 2.972713 ACTCTCACAACTTTGCCTCCTA 59.027 45.455 0.00 0.00 0.00 2.94
204 205 1.771255 ACTCTCACAACTTTGCCTCCT 59.229 47.619 0.00 0.00 0.00 3.69
205 206 2.262423 ACTCTCACAACTTTGCCTCC 57.738 50.000 0.00 0.00 0.00 4.30
206 207 5.948992 ATTTACTCTCACAACTTTGCCTC 57.051 39.130 0.00 0.00 0.00 4.70
207 208 5.412904 GCTATTTACTCTCACAACTTTGCCT 59.587 40.000 0.00 0.00 0.00 4.75
208 209 5.181245 TGCTATTTACTCTCACAACTTTGCC 59.819 40.000 0.00 0.00 0.00 4.52
209 210 6.241207 TGCTATTTACTCTCACAACTTTGC 57.759 37.500 0.00 0.00 0.00 3.68
210 211 9.371136 TCTATGCTATTTACTCTCACAACTTTG 57.629 33.333 0.00 0.00 0.00 2.77
211 212 9.944376 TTCTATGCTATTTACTCTCACAACTTT 57.056 29.630 0.00 0.00 0.00 2.66
212 213 9.372369 GTTCTATGCTATTTACTCTCACAACTT 57.628 33.333 0.00 0.00 0.00 2.66
213 214 8.754080 AGTTCTATGCTATTTACTCTCACAACT 58.246 33.333 0.00 0.00 0.00 3.16
214 215 8.934507 AGTTCTATGCTATTTACTCTCACAAC 57.065 34.615 0.00 0.00 0.00 3.32
216 217 9.409918 AGTAGTTCTATGCTATTTACTCTCACA 57.590 33.333 0.00 0.00 0.00 3.58
235 236 4.037327 CCCTAGCCCGTAAACTAGTAGTTC 59.963 50.000 15.82 4.05 37.47 3.01
283 286 6.612306 GCGTCTGGTAGATTTTTGAGAAAAT 58.388 36.000 0.00 0.00 45.62 1.82
296 299 2.683859 CGACCACGCGTCTGGTAGA 61.684 63.158 20.10 0.00 45.15 2.59
332 335 2.851263 TCGCTAGTGGATGTGGTTTT 57.149 45.000 2.90 0.00 0.00 2.43
341 345 7.174253 ACAAGAAACAATTAAATCGCTAGTGGA 59.826 33.333 2.90 0.00 0.00 4.02
342 346 7.305474 ACAAGAAACAATTAAATCGCTAGTGG 58.695 34.615 2.90 0.00 0.00 4.00
357 362 3.161866 GGCCCAATAGGACAAGAAACAA 58.838 45.455 0.00 0.00 46.95 2.83
358 363 2.802719 GGCCCAATAGGACAAGAAACA 58.197 47.619 0.00 0.00 46.95 2.83
367 373 3.093835 CCGGTGGGCCCAATAGGA 61.094 66.667 30.64 0.00 38.24 2.94
414 420 1.856629 AATGGCCATTAACTGCTGCT 58.143 45.000 29.73 0.57 0.00 4.24
431 437 1.414181 CATCTGGACCGGTCAGCTAAT 59.586 52.381 34.40 17.22 32.63 1.73
533 574 2.974489 GCCGACCTCGAAGACGACA 61.974 63.158 7.46 0.00 43.81 4.35
535 576 3.437795 GGCCGACCTCGAAGACGA 61.438 66.667 7.46 0.00 46.56 4.20
571 649 1.947456 GTCGGAGCTTGTTTCCTTGTT 59.053 47.619 0.00 0.00 32.34 2.83
572 650 1.594331 GTCGGAGCTTGTTTCCTTGT 58.406 50.000 0.00 0.00 32.34 3.16
573 651 0.512952 CGTCGGAGCTTGTTTCCTTG 59.487 55.000 0.00 0.00 32.34 3.61
574 652 0.391597 TCGTCGGAGCTTGTTTCCTT 59.608 50.000 0.00 0.00 32.34 3.36
575 653 0.608640 ATCGTCGGAGCTTGTTTCCT 59.391 50.000 0.00 0.00 32.34 3.36
576 654 0.721718 CATCGTCGGAGCTTGTTTCC 59.278 55.000 0.00 0.00 0.00 3.13
577 655 1.390463 GTCATCGTCGGAGCTTGTTTC 59.610 52.381 0.00 0.00 0.00 2.78
578 656 1.000955 AGTCATCGTCGGAGCTTGTTT 59.999 47.619 0.00 0.00 0.00 2.83
579 657 0.603569 AGTCATCGTCGGAGCTTGTT 59.396 50.000 0.00 0.00 0.00 2.83
580 658 0.109086 CAGTCATCGTCGGAGCTTGT 60.109 55.000 0.00 0.00 0.00 3.16
581 659 1.416813 GCAGTCATCGTCGGAGCTTG 61.417 60.000 0.00 0.00 0.00 4.01
582 660 1.153745 GCAGTCATCGTCGGAGCTT 60.154 57.895 0.00 0.00 0.00 3.74
583 661 2.492090 GCAGTCATCGTCGGAGCT 59.508 61.111 0.00 0.00 0.00 4.09
584 662 2.951745 CGCAGTCATCGTCGGAGC 60.952 66.667 0.00 0.00 0.00 4.70
585 663 1.297967 CTCGCAGTCATCGTCGGAG 60.298 63.158 0.00 0.00 0.00 4.63
586 664 2.761195 CCTCGCAGTCATCGTCGGA 61.761 63.158 0.00 0.00 0.00 4.55
587 665 1.712018 TACCTCGCAGTCATCGTCGG 61.712 60.000 0.00 0.00 0.00 4.79
588 666 0.316278 CTACCTCGCAGTCATCGTCG 60.316 60.000 0.00 0.00 0.00 5.12
606 702 0.254178 GTCCCATGTCCATGCTGACT 59.746 55.000 15.31 0.00 36.74 3.41
632 728 3.165071 AGGTGGCAAGGAATAAACTTGG 58.835 45.455 7.22 0.00 44.16 3.61
633 729 4.399303 CCTAGGTGGCAAGGAATAAACTTG 59.601 45.833 0.00 0.00 46.15 3.16
661 765 2.916934 ACTAGCATTTCCACCCTAACCA 59.083 45.455 0.00 0.00 0.00 3.67
672 782 5.858381 TCCATGGATGTAGACTAGCATTTC 58.142 41.667 11.44 0.00 0.00 2.17
673 783 5.894298 TCCATGGATGTAGACTAGCATTT 57.106 39.130 11.44 0.00 0.00 2.32
710 829 6.823182 CCATATCACAGAGACAACAATAACCA 59.177 38.462 0.00 0.00 0.00 3.67
784 906 8.442374 ACCCTAAAACTGTAGAAAGATTAACCA 58.558 33.333 0.00 0.00 0.00 3.67
789 911 9.067986 CAAGAACCCTAAAACTGTAGAAAGATT 57.932 33.333 0.00 0.00 0.00 2.40
919 1048 2.571653 CAATGGTGTCTGGTTCCTCCTA 59.428 50.000 0.00 0.00 37.07 2.94
1090 1219 5.353956 TGTGCTGAACATCCATATGTAACAC 59.646 40.000 1.24 0.00 45.79 3.32
1445 1613 5.359194 ACAACTCCTTCTCAAACTTCTCA 57.641 39.130 0.00 0.00 0.00 3.27
1467 1635 7.311092 TGTTATTCTCAGTCTTAACCTTGGA 57.689 36.000 0.00 0.00 0.00 3.53
1484 1655 3.429410 GCTTGGCCAACTCCATGTTATTC 60.429 47.826 16.05 0.00 37.07 1.75
1492 1663 0.038166 CCTAAGCTTGGCCAACTCCA 59.962 55.000 16.05 7.87 0.00 3.86
1517 1688 4.456911 TCCTCAATGTGAAGCTTGTCATTC 59.543 41.667 17.43 0.00 0.00 2.67
1530 1701 1.901591 AGCTTGGTGTCCTCAATGTG 58.098 50.000 0.00 0.00 0.00 3.21
1531 1702 2.233271 CAAGCTTGGTGTCCTCAATGT 58.767 47.619 19.14 0.00 0.00 2.71
1539 1710 4.574599 AATCTTCAACAAGCTTGGTGTC 57.425 40.909 36.63 0.00 45.85 3.67
1560 1731 6.894654 TCCTGCCAATAAAACATCTTGGATAA 59.105 34.615 4.79 0.00 41.61 1.75
1620 1792 3.796111 TCTCAAAGTCTTCCTCCTCCAT 58.204 45.455 0.00 0.00 0.00 3.41
1666 1874 1.281867 CCATCTGCACCTCCAACCTAA 59.718 52.381 0.00 0.00 0.00 2.69
1730 1938 5.827797 GGTGTTCTTGATAATATCAGCCCAA 59.172 40.000 2.98 0.00 40.94 4.12
1731 1939 5.104151 TGGTGTTCTTGATAATATCAGCCCA 60.104 40.000 2.98 2.79 40.94 5.36
1732 1940 5.376625 TGGTGTTCTTGATAATATCAGCCC 58.623 41.667 2.98 0.54 40.94 5.19
1733 1941 6.767902 TCTTGGTGTTCTTGATAATATCAGCC 59.232 38.462 2.98 2.31 40.94 4.85
1868 2080 3.701040 GGATGGCCTTGATTTGCTCTAAA 59.299 43.478 3.32 0.00 0.00 1.85
1933 2154 5.076873 GGCCACATCCTTTTATATAAGCCA 58.923 41.667 0.00 0.00 35.58 4.75
1944 2167 4.721776 TGAGATAGTTAGGCCACATCCTTT 59.278 41.667 5.01 0.00 37.66 3.11
1980 2203 3.576118 CACATTCCCCCAAAATGTACACA 59.424 43.478 0.00 0.00 43.62 3.72
2032 2256 8.154856 TGGTTCTTACATAAGACACTAAAGCTT 58.845 33.333 0.00 0.00 41.64 3.74
2034 2258 7.900782 TGGTTCTTACATAAGACACTAAAGC 57.099 36.000 0.70 0.00 41.64 3.51
2092 2316 5.171476 CACTTAATACCATAGCATCGGAGG 58.829 45.833 0.00 0.00 0.00 4.30
2135 2366 2.848678 TAGAGACTAGTGGCCCACAT 57.151 50.000 17.80 0.07 36.74 3.21
2236 2516 2.504585 GCTGGGTTTTAGTAGGCCTAGT 59.495 50.000 23.57 23.57 32.99 2.57
2256 2554 2.142292 ATTGACAGTGGTGGAGGGGC 62.142 60.000 0.00 0.00 0.00 5.80
2297 2600 4.575483 GGGGTGGGGAGGGTTTATATTTTT 60.575 45.833 0.00 0.00 0.00 1.94
2298 2601 3.051650 GGGGTGGGGAGGGTTTATATTTT 60.052 47.826 0.00 0.00 0.00 1.82
2299 2602 2.520980 GGGGTGGGGAGGGTTTATATTT 59.479 50.000 0.00 0.00 0.00 1.40
2300 2603 2.149556 GGGGTGGGGAGGGTTTATATT 58.850 52.381 0.00 0.00 0.00 1.28
2301 2604 1.842699 GGGGTGGGGAGGGTTTATAT 58.157 55.000 0.00 0.00 0.00 0.86
2302 2605 0.695122 CGGGGTGGGGAGGGTTTATA 60.695 60.000 0.00 0.00 0.00 0.98
2303 2606 2.004693 CGGGGTGGGGAGGGTTTAT 61.005 63.158 0.00 0.00 0.00 1.40
2304 2607 2.611486 CGGGGTGGGGAGGGTTTA 60.611 66.667 0.00 0.00 0.00 2.01
2326 2635 1.360393 TTGGAGTGGCTGGGAAAGGT 61.360 55.000 0.00 0.00 0.00 3.50
2458 2773 2.433838 CCTGTGCCTCTGTCTGCG 60.434 66.667 0.00 0.00 0.00 5.18
2572 2895 2.045926 CTCCTTCCCTTGCCACCG 60.046 66.667 0.00 0.00 0.00 4.94
2580 2903 0.255318 CTGCATGAAGCTCCTTCCCT 59.745 55.000 0.00 0.00 45.94 4.20


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

AutoCloner maintained by Alex Coulton.