Multiple sequence alignment - TraesCS5B01G486400

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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 TraesCS5B01G486400 chr5B 100.000 2804 0 0 1 2804 657723805 657721002 0.000000e+00 5179.0
1 TraesCS5B01G486400 chr5B 93.117 247 14 2 1 244 37076951 37076705 2.660000e-95 359.0
2 TraesCS5B01G486400 chr5B 93.117 247 14 1 1 244 546695747 546695501 2.660000e-95 359.0
3 TraesCS5B01G486400 chr5B 82.234 197 24 10 2609 2804 175294261 175294447 2.890000e-35 159.0
4 TraesCS5B01G486400 chr5D 94.801 1404 42 13 608 1990 521405196 521403803 0.000000e+00 2159.0
5 TraesCS5B01G486400 chr5D 90.014 711 44 13 1232 1921 35652495 35653199 0.000000e+00 894.0
6 TraesCS5B01G486400 chr5D 85.535 636 57 17 617 1238 35651848 35652462 1.420000e-177 632.0
7 TraesCS5B01G486400 chr5D 81.717 629 49 30 2162 2777 521403789 521403214 5.470000e-127 464.0
8 TraesCS5B01G486400 chr5D 86.628 344 30 6 257 586 521405523 521405182 1.590000e-97 366.0
9 TraesCS5B01G486400 chr5D 90.625 64 5 1 257 320 35650832 35650894 1.790000e-12 84.2
10 TraesCS5B01G486400 chr5A 90.646 1625 75 33 623 2188 649785572 649783966 0.000000e+00 2087.0
11 TraesCS5B01G486400 chr5A 86.806 955 58 37 905 1805 23907934 23906994 0.000000e+00 1003.0
12 TraesCS5B01G486400 chr5A 90.261 575 48 5 1232 1805 24198340 24198907 0.000000e+00 745.0
13 TraesCS5B01G486400 chr5A 84.438 649 57 19 614 1238 24197679 24198307 1.440000e-167 599.0
14 TraesCS5B01G486400 chr5A 80.794 630 49 27 2227 2798 649783849 649783234 7.180000e-116 427.0
15 TraesCS5B01G486400 chrUn 81.633 1813 183 75 312 2010 271013496 271015272 0.000000e+00 1365.0
16 TraesCS5B01G486400 chrUn 81.633 1813 183 75 312 2010 280884183 280885959 0.000000e+00 1365.0
17 TraesCS5B01G486400 chrUn 86.055 839 57 25 1232 2010 318996604 318997442 0.000000e+00 846.0
18 TraesCS5B01G486400 chrUn 86.055 839 57 25 1232 2010 397775662 397776500 0.000000e+00 846.0
19 TraesCS5B01G486400 chrUn 84.844 640 65 15 617 1244 318995958 318996577 1.430000e-172 616.0
20 TraesCS5B01G486400 chrUn 87.466 367 36 4 882 1244 397775275 397775635 5.590000e-112 414.0
21 TraesCS5B01G486400 chr6B 93.522 247 13 1 1 244 135991302 135991548 5.710000e-97 364.0
22 TraesCS5B01G486400 chr2D 92.308 247 16 1 1 244 636529664 636529910 5.750000e-92 348.0
23 TraesCS5B01G486400 chr1A 91.968 249 16 2 1 245 365186898 365187146 2.070000e-91 346.0
24 TraesCS5B01G486400 chr2B 92.245 245 16 1 1 242 58535985 58536229 7.440000e-91 344.0
25 TraesCS5B01G486400 chr1B 92.245 245 15 2 1 242 85405672 85405429 7.440000e-91 344.0
26 TraesCS5B01G486400 chr7A 91.903 247 17 1 1 244 580556618 580556864 2.670000e-90 342.0
27 TraesCS5B01G486400 chr1D 91.837 245 17 1 1 242 426753426 426753670 3.460000e-89 339.0
28 TraesCS5B01G486400 chr2A 83.590 195 23 5 2609 2803 439453520 439453705 1.030000e-39 174.0


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 TraesCS5B01G486400 chr5B 657721002 657723805 2803 True 5179.000000 5179 100.000000 1 2804 1 chr5B.!!$R3 2803
1 TraesCS5B01G486400 chr5D 521403214 521405523 2309 True 996.333333 2159 87.715333 257 2777 3 chr5D.!!$R1 2520
2 TraesCS5B01G486400 chr5D 35650832 35653199 2367 False 536.733333 894 88.724667 257 1921 3 chr5D.!!$F1 1664
3 TraesCS5B01G486400 chr5A 649783234 649785572 2338 True 1257.000000 2087 85.720000 623 2798 2 chr5A.!!$R2 2175
4 TraesCS5B01G486400 chr5A 23906994 23907934 940 True 1003.000000 1003 86.806000 905 1805 1 chr5A.!!$R1 900
5 TraesCS5B01G486400 chr5A 24197679 24198907 1228 False 672.000000 745 87.349500 614 1805 2 chr5A.!!$F1 1191
6 TraesCS5B01G486400 chrUn 271013496 271015272 1776 False 1365.000000 1365 81.633000 312 2010 1 chrUn.!!$F1 1698
7 TraesCS5B01G486400 chrUn 280884183 280885959 1776 False 1365.000000 1365 81.633000 312 2010 1 chrUn.!!$F2 1698
8 TraesCS5B01G486400 chrUn 318995958 318997442 1484 False 731.000000 846 85.449500 617 2010 2 chrUn.!!$F3 1393
9 TraesCS5B01G486400 chrUn 397775275 397776500 1225 False 630.000000 846 86.760500 882 2010 2 chrUn.!!$F4 1128

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
169 170 0.030101 CGCACATGTTTTTGACCCGT 59.97 50.0 0.0 0.0 0.0 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2123 3077 0.105194 TCCCCCTGCTCATATTCGGA 60.105 55.0 0.0 0.0 0.0 4.55 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
48 49 9.613428 AATATAGCTATGCTTGTAGTTTGTTGA 57.387 29.630 16.77 0.00 40.44 3.18
49 50 9.784531 ATATAGCTATGCTTGTAGTTTGTTGAT 57.215 29.630 16.77 0.00 40.44 2.57
50 51 6.428385 AGCTATGCTTGTAGTTTGTTGATC 57.572 37.500 0.00 0.00 33.89 2.92
51 52 5.939883 AGCTATGCTTGTAGTTTGTTGATCA 59.060 36.000 0.00 0.00 33.89 2.92
52 53 6.600822 AGCTATGCTTGTAGTTTGTTGATCAT 59.399 34.615 0.00 0.00 33.89 2.45
53 54 6.690098 GCTATGCTTGTAGTTTGTTGATCATG 59.310 38.462 0.00 0.00 0.00 3.07
54 55 6.579666 ATGCTTGTAGTTTGTTGATCATGT 57.420 33.333 0.00 0.00 0.00 3.21
55 56 5.761003 TGCTTGTAGTTTGTTGATCATGTG 58.239 37.500 0.00 0.00 0.00 3.21
56 57 5.530543 TGCTTGTAGTTTGTTGATCATGTGA 59.469 36.000 0.00 0.00 0.00 3.58
57 58 6.207221 TGCTTGTAGTTTGTTGATCATGTGAT 59.793 34.615 0.00 0.00 37.51 3.06
58 59 6.525628 GCTTGTAGTTTGTTGATCATGTGATG 59.474 38.462 0.00 0.00 34.37 3.07
59 60 7.573656 GCTTGTAGTTTGTTGATCATGTGATGA 60.574 37.037 0.00 0.00 44.55 2.92
60 61 7.742556 TGTAGTTTGTTGATCATGTGATGAA 57.257 32.000 0.00 0.00 43.50 2.57
61 62 7.584108 TGTAGTTTGTTGATCATGTGATGAAC 58.416 34.615 15.46 15.46 45.00 3.18
62 63 6.889301 AGTTTGTTGATCATGTGATGAACT 57.111 33.333 20.53 10.83 45.01 3.01
63 64 7.984422 AGTTTGTTGATCATGTGATGAACTA 57.016 32.000 20.53 13.50 45.01 2.24
64 65 8.571461 AGTTTGTTGATCATGTGATGAACTAT 57.429 30.769 20.53 6.61 45.01 2.12
65 66 8.456471 AGTTTGTTGATCATGTGATGAACTATG 58.544 33.333 20.53 0.00 45.01 2.23
66 67 7.926674 TTGTTGATCATGTGATGAACTATGT 57.073 32.000 20.53 0.00 45.01 2.29
67 68 9.447157 TTTGTTGATCATGTGATGAACTATGTA 57.553 29.630 20.53 3.54 45.01 2.29
68 69 8.652810 TGTTGATCATGTGATGAACTATGTAG 57.347 34.615 20.53 0.00 45.01 2.74
69 70 8.260114 TGTTGATCATGTGATGAACTATGTAGT 58.740 33.333 20.53 0.00 45.01 2.73
70 71 9.750125 GTTGATCATGTGATGAACTATGTAGTA 57.250 33.333 15.17 0.00 42.66 1.82
72 73 9.918630 TGATCATGTGATGAACTATGTAGTATG 57.081 33.333 0.00 0.00 43.50 2.39
73 74 9.920133 GATCATGTGATGAACTATGTAGTATGT 57.080 33.333 0.00 0.00 43.50 2.29
74 75 9.702494 ATCATGTGATGAACTATGTAGTATGTG 57.298 33.333 0.00 0.00 43.50 3.21
75 76 8.912988 TCATGTGATGAACTATGTAGTATGTGA 58.087 33.333 0.00 0.00 36.11 3.58
76 77 9.533253 CATGTGATGAACTATGTAGTATGTGAA 57.467 33.333 0.00 0.00 34.99 3.18
77 78 8.926715 TGTGATGAACTATGTAGTATGTGAAC 57.073 34.615 0.00 0.00 34.99 3.18
78 79 8.749354 TGTGATGAACTATGTAGTATGTGAACT 58.251 33.333 0.00 0.00 34.99 3.01
88 89 7.359262 TGTAGTATGTGAACTATGTTTGTGC 57.641 36.000 0.00 0.00 34.59 4.57
89 90 6.931840 TGTAGTATGTGAACTATGTTTGTGCA 59.068 34.615 0.00 0.00 34.59 4.57
90 91 6.486253 AGTATGTGAACTATGTTTGTGCAG 57.514 37.500 0.00 0.00 0.00 4.41
91 92 5.997746 AGTATGTGAACTATGTTTGTGCAGT 59.002 36.000 0.00 0.00 0.00 4.40
92 93 5.772825 ATGTGAACTATGTTTGTGCAGTT 57.227 34.783 0.00 0.00 34.03 3.16
93 94 5.574891 TGTGAACTATGTTTGTGCAGTTT 57.425 34.783 0.00 0.00 31.57 2.66
94 95 5.577835 TGTGAACTATGTTTGTGCAGTTTC 58.422 37.500 0.00 0.00 31.57 2.78
95 96 5.356751 TGTGAACTATGTTTGTGCAGTTTCT 59.643 36.000 0.00 0.00 31.57 2.52
96 97 5.909610 GTGAACTATGTTTGTGCAGTTTCTC 59.090 40.000 0.00 0.00 31.57 2.87
97 98 5.822519 TGAACTATGTTTGTGCAGTTTCTCT 59.177 36.000 0.00 0.00 31.57 3.10
98 99 5.931441 ACTATGTTTGTGCAGTTTCTCTC 57.069 39.130 0.00 0.00 0.00 3.20
99 100 3.885484 ATGTTTGTGCAGTTTCTCTCG 57.115 42.857 0.00 0.00 0.00 4.04
100 101 1.330521 TGTTTGTGCAGTTTCTCTCGC 59.669 47.619 0.00 0.00 0.00 5.03
101 102 0.581529 TTTGTGCAGTTTCTCTCGCG 59.418 50.000 0.00 0.00 0.00 5.87
102 103 0.249280 TTGTGCAGTTTCTCTCGCGA 60.249 50.000 9.26 9.26 0.00 5.87
103 104 0.249280 TGTGCAGTTTCTCTCGCGAA 60.249 50.000 11.33 0.02 0.00 4.70
104 105 0.859232 GTGCAGTTTCTCTCGCGAAA 59.141 50.000 11.33 0.00 0.00 3.46
105 106 1.461127 GTGCAGTTTCTCTCGCGAAAT 59.539 47.619 11.33 0.00 35.56 2.17
106 107 2.096218 GTGCAGTTTCTCTCGCGAAATT 60.096 45.455 11.33 0.00 35.56 1.82
107 108 3.122948 GTGCAGTTTCTCTCGCGAAATTA 59.877 43.478 11.33 0.00 35.56 1.40
108 109 3.932710 TGCAGTTTCTCTCGCGAAATTAT 59.067 39.130 11.33 0.00 35.56 1.28
109 110 4.391830 TGCAGTTTCTCTCGCGAAATTATT 59.608 37.500 11.33 0.00 35.56 1.40
110 111 5.106712 TGCAGTTTCTCTCGCGAAATTATTT 60.107 36.000 11.33 0.00 35.56 1.40
111 112 5.795441 GCAGTTTCTCTCGCGAAATTATTTT 59.205 36.000 11.33 0.00 35.56 1.82
112 113 6.305638 GCAGTTTCTCTCGCGAAATTATTTTT 59.694 34.615 11.33 0.00 35.56 1.94
136 137 9.658475 TTTTCAAAATATGCGGATTTAGATACG 57.342 29.630 0.00 0.00 42.66 3.06
137 138 7.359262 TCAAAATATGCGGATTTAGATACGG 57.641 36.000 0.00 0.00 40.06 4.02
138 139 6.370442 TCAAAATATGCGGATTTAGATACGGG 59.630 38.462 0.00 0.00 40.06 5.28
139 140 5.416271 AATATGCGGATTTAGATACGGGT 57.584 39.130 0.00 0.00 40.06 5.28
140 141 3.764237 ATGCGGATTTAGATACGGGTT 57.236 42.857 0.00 0.00 40.06 4.11
141 142 3.102052 TGCGGATTTAGATACGGGTTC 57.898 47.619 0.00 0.00 40.06 3.62
142 143 2.696707 TGCGGATTTAGATACGGGTTCT 59.303 45.455 0.00 0.00 40.06 3.01
143 144 3.057734 GCGGATTTAGATACGGGTTCTG 58.942 50.000 0.00 0.00 40.06 3.02
144 145 3.057734 CGGATTTAGATACGGGTTCTGC 58.942 50.000 0.00 0.00 35.92 4.26
145 146 3.243771 CGGATTTAGATACGGGTTCTGCT 60.244 47.826 0.00 0.00 35.92 4.24
146 147 4.308265 GGATTTAGATACGGGTTCTGCTC 58.692 47.826 0.00 0.00 0.00 4.26
156 157 4.393155 TTCTGCTCGGCCGCACAT 62.393 61.111 23.51 0.00 35.74 3.21
160 161 3.737172 GCTCGGCCGCACATGTTT 61.737 61.111 23.51 0.00 0.00 2.83
161 162 2.953821 CTCGGCCGCACATGTTTT 59.046 55.556 23.51 0.00 0.00 2.43
162 163 1.285641 CTCGGCCGCACATGTTTTT 59.714 52.632 23.51 0.00 0.00 1.94
163 164 1.003262 CTCGGCCGCACATGTTTTTG 61.003 55.000 23.51 0.00 0.00 2.44
164 165 1.007964 CGGCCGCACATGTTTTTGA 60.008 52.632 14.67 0.00 0.00 2.69
165 166 1.274798 CGGCCGCACATGTTTTTGAC 61.275 55.000 14.67 0.00 0.00 3.18
166 167 0.943835 GGCCGCACATGTTTTTGACC 60.944 55.000 0.00 0.00 0.00 4.02
167 168 0.943835 GCCGCACATGTTTTTGACCC 60.944 55.000 0.00 0.00 0.00 4.46
168 169 0.662970 CCGCACATGTTTTTGACCCG 60.663 55.000 0.00 0.00 0.00 5.28
169 170 0.030101 CGCACATGTTTTTGACCCGT 59.970 50.000 0.00 0.00 0.00 5.28
170 171 1.264557 CGCACATGTTTTTGACCCGTA 59.735 47.619 0.00 0.00 0.00 4.02
171 172 2.287069 CGCACATGTTTTTGACCCGTAA 60.287 45.455 0.00 0.00 0.00 3.18
172 173 3.707793 GCACATGTTTTTGACCCGTAAA 58.292 40.909 0.00 0.00 0.00 2.01
173 174 3.487942 GCACATGTTTTTGACCCGTAAAC 59.512 43.478 0.00 0.00 33.50 2.01
174 175 3.726730 CACATGTTTTTGACCCGTAAACG 59.273 43.478 0.00 0.00 35.16 3.60
175 176 2.471862 TGTTTTTGACCCGTAAACGC 57.528 45.000 0.00 0.00 35.16 4.84
176 177 1.267932 TGTTTTTGACCCGTAAACGCG 60.268 47.619 3.53 3.53 35.16 6.01
177 178 1.004079 GTTTTTGACCCGTAAACGCGA 60.004 47.619 15.93 0.00 38.18 5.87
178 179 0.581053 TTTTGACCCGTAAACGCGAC 59.419 50.000 15.93 0.00 38.18 5.19
179 180 1.220817 TTTGACCCGTAAACGCGACC 61.221 55.000 15.93 0.00 38.18 4.79
180 181 2.086251 TTGACCCGTAAACGCGACCT 62.086 55.000 15.93 0.00 38.18 3.85
181 182 1.373371 GACCCGTAAACGCGACCTT 60.373 57.895 15.93 5.53 38.18 3.50
182 183 1.347097 GACCCGTAAACGCGACCTTC 61.347 60.000 15.93 0.00 38.18 3.46
183 184 1.373246 CCCGTAAACGCGACCTTCA 60.373 57.895 15.93 0.00 38.18 3.02
184 185 0.738412 CCCGTAAACGCGACCTTCAT 60.738 55.000 15.93 0.00 38.18 2.57
185 186 0.643820 CCGTAAACGCGACCTTCATC 59.356 55.000 15.93 0.00 38.18 2.92
186 187 1.342555 CGTAAACGCGACCTTCATCA 58.657 50.000 15.93 0.00 0.00 3.07
187 188 1.722464 CGTAAACGCGACCTTCATCAA 59.278 47.619 15.93 0.00 0.00 2.57
188 189 2.347452 CGTAAACGCGACCTTCATCAAT 59.653 45.455 15.93 0.00 0.00 2.57
189 190 3.541516 CGTAAACGCGACCTTCATCAATC 60.542 47.826 15.93 0.00 0.00 2.67
190 191 1.369625 AACGCGACCTTCATCAATCC 58.630 50.000 15.93 0.00 0.00 3.01
191 192 0.806102 ACGCGACCTTCATCAATCCG 60.806 55.000 15.93 0.00 0.00 4.18
192 193 1.643832 GCGACCTTCATCAATCCGC 59.356 57.895 0.00 0.00 0.00 5.54
193 194 1.089481 GCGACCTTCATCAATCCGCA 61.089 55.000 0.00 0.00 40.69 5.69
194 195 1.368641 CGACCTTCATCAATCCGCAA 58.631 50.000 0.00 0.00 0.00 4.85
195 196 1.737236 CGACCTTCATCAATCCGCAAA 59.263 47.619 0.00 0.00 0.00 3.68
196 197 2.355756 CGACCTTCATCAATCCGCAAAT 59.644 45.455 0.00 0.00 0.00 2.32
197 198 3.699067 GACCTTCATCAATCCGCAAATG 58.301 45.455 0.00 0.00 0.00 2.32
198 199 3.091545 ACCTTCATCAATCCGCAAATGT 58.908 40.909 0.00 0.00 0.00 2.71
199 200 3.119388 ACCTTCATCAATCCGCAAATGTG 60.119 43.478 0.00 0.00 0.00 3.21
200 201 3.119388 CCTTCATCAATCCGCAAATGTGT 60.119 43.478 0.00 0.00 0.00 3.72
201 202 4.487948 CTTCATCAATCCGCAAATGTGTT 58.512 39.130 0.00 0.00 0.00 3.32
202 203 4.517952 TCATCAATCCGCAAATGTGTTT 57.482 36.364 0.00 0.00 0.00 2.83
203 204 4.880759 TCATCAATCCGCAAATGTGTTTT 58.119 34.783 0.00 0.00 0.00 2.43
204 205 4.685165 TCATCAATCCGCAAATGTGTTTTG 59.315 37.500 0.00 0.00 46.22 2.44
211 212 1.127701 CAAATGTGTTTTGCGGGTCG 58.872 50.000 0.00 0.00 38.42 4.79
212 213 0.741915 AAATGTGTTTTGCGGGTCGT 59.258 45.000 0.00 0.00 0.00 4.34
213 214 1.595466 AATGTGTTTTGCGGGTCGTA 58.405 45.000 0.00 0.00 0.00 3.43
214 215 1.816074 ATGTGTTTTGCGGGTCGTAT 58.184 45.000 0.00 0.00 0.00 3.06
215 216 1.595466 TGTGTTTTGCGGGTCGTATT 58.405 45.000 0.00 0.00 0.00 1.89
216 217 1.948145 TGTGTTTTGCGGGTCGTATTT 59.052 42.857 0.00 0.00 0.00 1.40
217 218 2.358267 TGTGTTTTGCGGGTCGTATTTT 59.642 40.909 0.00 0.00 0.00 1.82
218 219 3.181489 TGTGTTTTGCGGGTCGTATTTTT 60.181 39.130 0.00 0.00 0.00 1.94
219 220 3.180782 GTGTTTTGCGGGTCGTATTTTTG 59.819 43.478 0.00 0.00 0.00 2.44
220 221 2.053282 TTTGCGGGTCGTATTTTTGC 57.947 45.000 0.00 0.00 0.00 3.68
221 222 0.110147 TTGCGGGTCGTATTTTTGCG 60.110 50.000 0.00 0.00 0.00 4.85
222 223 1.226184 GCGGGTCGTATTTTTGCGG 60.226 57.895 0.00 0.00 0.00 5.69
223 224 1.426223 CGGGTCGTATTTTTGCGGG 59.574 57.895 0.00 0.00 0.00 6.13
224 225 1.804598 GGGTCGTATTTTTGCGGGG 59.195 57.895 0.00 0.00 0.00 5.73
225 226 0.961857 GGGTCGTATTTTTGCGGGGT 60.962 55.000 0.00 0.00 0.00 4.95
226 227 0.448990 GGTCGTATTTTTGCGGGGTC 59.551 55.000 0.00 0.00 0.00 4.46
227 228 1.445871 GTCGTATTTTTGCGGGGTCT 58.554 50.000 0.00 0.00 0.00 3.85
228 229 1.129811 GTCGTATTTTTGCGGGGTCTG 59.870 52.381 0.00 0.00 0.00 3.51
229 230 0.179174 CGTATTTTTGCGGGGTCTGC 60.179 55.000 0.00 0.00 0.00 4.26
230 231 1.173913 GTATTTTTGCGGGGTCTGCT 58.826 50.000 0.30 0.00 0.00 4.24
231 232 2.361789 GTATTTTTGCGGGGTCTGCTA 58.638 47.619 0.30 0.00 0.00 3.49
232 233 1.463674 ATTTTTGCGGGGTCTGCTAG 58.536 50.000 0.30 0.00 0.00 3.42
233 234 0.398696 TTTTTGCGGGGTCTGCTAGA 59.601 50.000 0.00 0.00 0.00 2.43
234 235 0.036388 TTTTGCGGGGTCTGCTAGAG 60.036 55.000 0.00 0.00 0.00 2.43
235 236 1.192146 TTTGCGGGGTCTGCTAGAGT 61.192 55.000 0.00 0.00 0.00 3.24
236 237 1.192146 TTGCGGGGTCTGCTAGAGTT 61.192 55.000 0.00 0.00 0.00 3.01
237 238 1.153549 GCGGGGTCTGCTAGAGTTG 60.154 63.158 0.00 0.00 0.00 3.16
238 239 1.153549 CGGGGTCTGCTAGAGTTGC 60.154 63.158 0.00 0.00 0.00 4.17
239 240 1.608717 CGGGGTCTGCTAGAGTTGCT 61.609 60.000 0.00 0.00 0.00 3.91
240 241 0.176910 GGGGTCTGCTAGAGTTGCTC 59.823 60.000 0.00 0.00 0.00 4.26
241 242 1.190643 GGGTCTGCTAGAGTTGCTCT 58.809 55.000 4.02 4.02 43.83 4.09
242 243 1.552792 GGGTCTGCTAGAGTTGCTCTT 59.447 52.381 3.87 0.00 41.50 2.85
243 244 2.761208 GGGTCTGCTAGAGTTGCTCTTA 59.239 50.000 3.87 0.00 41.50 2.10
244 245 3.181480 GGGTCTGCTAGAGTTGCTCTTAG 60.181 52.174 3.87 2.21 41.50 2.18
245 246 3.445805 GGTCTGCTAGAGTTGCTCTTAGT 59.554 47.826 3.87 0.00 41.50 2.24
246 247 4.641094 GGTCTGCTAGAGTTGCTCTTAGTA 59.359 45.833 3.87 0.34 41.50 1.82
247 248 5.449451 GGTCTGCTAGAGTTGCTCTTAGTAC 60.449 48.000 3.87 0.00 41.50 2.73
248 249 4.641094 TCTGCTAGAGTTGCTCTTAGTACC 59.359 45.833 3.87 0.00 41.50 3.34
249 250 3.377485 TGCTAGAGTTGCTCTTAGTACCG 59.623 47.826 3.87 0.00 41.50 4.02
250 251 3.626670 GCTAGAGTTGCTCTTAGTACCGA 59.373 47.826 3.87 0.00 41.50 4.69
251 252 4.260866 GCTAGAGTTGCTCTTAGTACCGAG 60.261 50.000 3.87 0.00 41.50 4.63
255 256 1.359475 GCTCTTAGTACCGAGCGGG 59.641 63.158 14.07 0.00 42.62 6.13
289 290 5.376625 TGGCATCAACTCTTCAACTAAACT 58.623 37.500 0.00 0.00 0.00 2.66
291 292 6.650807 TGGCATCAACTCTTCAACTAAACTAG 59.349 38.462 0.00 0.00 0.00 2.57
306 307 0.180406 ACTAGGGCATTACTTGGGCG 59.820 55.000 0.00 0.00 0.00 6.13
359 1022 3.151554 ACCCGGTCCTGAACAATTAAAC 58.848 45.455 0.00 0.00 0.00 2.01
451 1114 8.519799 AAACTCTGTTTTTGAGGTAATTCAGA 57.480 30.769 0.00 0.00 35.98 3.27
453 1117 6.486993 ACTCTGTTTTTGAGGTAATTCAGACC 59.513 38.462 0.00 0.00 35.98 3.85
487 1151 0.478942 TCGAGCCTATACCTGGAGCT 59.521 55.000 0.00 0.00 36.25 4.09
490 1154 2.711895 AGCCTATACCTGGAGCTCAT 57.288 50.000 17.19 2.12 0.00 2.90
530 1200 1.565759 TGCCCATGCTCAGGTTTATCT 59.434 47.619 0.00 0.00 38.71 1.98
531 1201 2.025037 TGCCCATGCTCAGGTTTATCTT 60.025 45.455 0.00 0.00 38.71 2.40
541 1211 7.066142 TGCTCAGGTTTATCTTAGAGAGATCT 58.934 38.462 0.00 0.00 44.04 2.75
542 1212 8.221251 TGCTCAGGTTTATCTTAGAGAGATCTA 58.779 37.037 0.00 0.00 44.04 1.98
543 1213 8.512138 GCTCAGGTTTATCTTAGAGAGATCTAC 58.488 40.741 0.00 0.00 44.04 2.59
544 1214 8.927675 TCAGGTTTATCTTAGAGAGATCTACC 57.072 38.462 0.00 0.00 44.04 3.18
545 1215 7.945664 TCAGGTTTATCTTAGAGAGATCTACCC 59.054 40.741 0.00 0.00 44.04 3.69
588 1265 6.017026 AGAGATCATGTGTCATCATGCATTTC 60.017 38.462 0.00 8.73 43.18 2.17
651 1357 8.294577 TGCATGCACATATCTCAGAATATTTTC 58.705 33.333 18.46 0.00 0.00 2.29
699 1407 6.471976 TTGCAGATATGAGAATAACATCGC 57.528 37.500 0.00 0.00 0.00 4.58
707 1416 6.946229 ATGAGAATAACATCGCGTATTACC 57.054 37.500 5.77 0.00 0.00 2.85
812 1540 6.380274 TGCCTATATATTGTACCTCTACTGGC 59.620 42.308 0.00 0.00 0.00 4.85
861 1611 1.545582 ACGTAGGCACTTTAAGCGGTA 59.454 47.619 0.00 0.00 41.75 4.02
865 1615 4.093850 CGTAGGCACTTTAAGCGGTAAAAT 59.906 41.667 0.00 0.00 41.75 1.82
874 1626 9.620660 CACTTTAAGCGGTAAAATAACAAATCT 57.379 29.630 0.00 0.00 31.22 2.40
1399 2247 0.951040 GGTGAGCGTGTTCTTGGAGG 60.951 60.000 0.00 0.00 0.00 4.30
1839 2748 3.992943 TGTTCCGTCCATCAGGTTTAT 57.007 42.857 0.00 0.00 35.89 1.40
1869 2782 3.961477 TTGACCATTGTTGAGTCGTTG 57.039 42.857 0.00 0.00 33.09 4.10
1926 2858 8.147058 TGCAAATTGGTGTAATGTTGAGTTAAT 58.853 29.630 0.00 0.00 0.00 1.40
1975 2911 5.358160 CCTGAAGATCCTATTTGTTGGGTTC 59.642 44.000 0.00 0.00 0.00 3.62
1990 2926 5.530915 TGTTGGGTTCAGATGTTAACAAGAG 59.469 40.000 13.23 5.36 0.00 2.85
2026 2971 3.677424 GCTCCTAACTTTGCGTCTCTGAT 60.677 47.826 0.00 0.00 0.00 2.90
2029 2974 5.305585 TCCTAACTTTGCGTCTCTGATTTT 58.694 37.500 0.00 0.00 0.00 1.82
2034 2979 0.250684 TGCGTCTCTGATTTTGGGCA 60.251 50.000 0.00 0.00 0.00 5.36
2056 3001 1.658994 TATCAACGGAACAATCGGGC 58.341 50.000 0.00 0.00 0.00 6.13
2060 3005 0.536460 AACGGAACAATCGGGCAACT 60.536 50.000 0.00 0.00 0.00 3.16
2087 3041 6.097915 ACGATCGGTGATACTTCCATTTAT 57.902 37.500 20.98 0.00 0.00 1.40
2088 3042 6.522054 ACGATCGGTGATACTTCCATTTATT 58.478 36.000 20.98 0.00 0.00 1.40
2089 3043 6.990349 ACGATCGGTGATACTTCCATTTATTT 59.010 34.615 20.98 0.00 0.00 1.40
2090 3044 8.145767 ACGATCGGTGATACTTCCATTTATTTA 58.854 33.333 20.98 0.00 0.00 1.40
2091 3045 8.433126 CGATCGGTGATACTTCCATTTATTTAC 58.567 37.037 7.38 0.00 0.00 2.01
2092 3046 9.268268 GATCGGTGATACTTCCATTTATTTACA 57.732 33.333 0.00 0.00 0.00 2.41
2093 3047 9.621629 ATCGGTGATACTTCCATTTATTTACAA 57.378 29.630 0.00 0.00 0.00 2.41
2094 3048 9.621629 TCGGTGATACTTCCATTTATTTACAAT 57.378 29.630 0.00 0.00 0.00 2.71
2115 3069 0.173255 ATAATGTGCCCGTGCTTTGC 59.827 50.000 0.00 0.00 38.71 3.68
2119 3073 0.035915 TGTGCCCGTGCTTTGCTATA 60.036 50.000 0.00 0.00 38.71 1.31
2120 3074 1.308998 GTGCCCGTGCTTTGCTATAT 58.691 50.000 0.00 0.00 38.71 0.86
2121 3075 2.158885 TGTGCCCGTGCTTTGCTATATA 60.159 45.455 0.00 0.00 38.71 0.86
2122 3076 2.223377 GTGCCCGTGCTTTGCTATATAC 59.777 50.000 0.00 0.00 38.71 1.47
2123 3077 2.104111 TGCCCGTGCTTTGCTATATACT 59.896 45.455 0.00 0.00 38.71 2.12
2124 3078 2.737252 GCCCGTGCTTTGCTATATACTC 59.263 50.000 0.00 0.00 33.53 2.59
2125 3079 3.326747 CCCGTGCTTTGCTATATACTCC 58.673 50.000 0.00 0.00 0.00 3.85
2126 3080 2.987149 CCGTGCTTTGCTATATACTCCG 59.013 50.000 0.00 0.00 0.00 4.63
2127 3081 3.305131 CCGTGCTTTGCTATATACTCCGA 60.305 47.826 0.00 0.00 0.00 4.55
2141 3095 0.322975 CTCCGAATATGAGCAGGGGG 59.677 60.000 0.00 0.00 0.00 5.40
2160 3114 2.280628 GGAAATGGTAAGCTCTCCACG 58.719 52.381 11.25 0.00 36.50 4.94
2190 3144 2.574824 GGGGGTAAGCTCTCCACTTAAA 59.425 50.000 8.88 0.00 31.68 1.52
2202 3156 7.772757 AGCTCTCCACTTAAAGAGGATTATTTG 59.227 37.037 4.49 0.00 39.54 2.32
2221 3254 2.143122 TGATCTCAACCGTCAAACTGC 58.857 47.619 0.00 0.00 0.00 4.40
2238 3271 1.750780 GCTCAAGGGTAAGCTGGGC 60.751 63.158 0.00 0.00 35.60 5.36
2241 3274 1.771255 CTCAAGGGTAAGCTGGGCTAT 59.229 52.381 0.00 0.00 38.25 2.97
2286 3320 1.081708 CCTTTCCGGCCGAAAAACG 60.082 57.895 30.73 15.78 39.98 3.60
2288 3322 0.519961 CTTTCCGGCCGAAAAACGAT 59.480 50.000 30.73 0.00 45.77 3.73
2292 3326 0.797542 CCGGCCGAAAAACGATAACA 59.202 50.000 30.73 0.00 45.77 2.41
2312 3346 8.801882 ATAACATAGAGGAAAAACGGAAATGA 57.198 30.769 0.00 0.00 0.00 2.57
2318 3352 4.364860 AGGAAAAACGGAAATGAAAACGG 58.635 39.130 0.00 0.00 0.00 4.44
2372 3426 2.356382 TGCAAACGGAACATCGTTTTCT 59.644 40.909 11.82 0.00 45.43 2.52
2383 3437 4.196193 ACATCGTTTTCTGGTGAAACAGA 58.804 39.130 0.00 0.00 45.22 3.41
2459 3520 6.720112 ATGAACATATGGCTATTTTGCAGT 57.280 33.333 7.80 0.00 34.04 4.40
2497 3563 6.747414 ATTAGTCCCTACACATAATGAGCA 57.253 37.500 0.00 0.00 0.00 4.26
2512 3585 7.551974 ACATAATGAGCAGAATGGACTATATGC 59.448 37.037 1.89 1.89 35.86 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 9.613428 TCAACAAACTACAAGCATAGCTATATT 57.387 29.630 5.77 1.71 38.25 1.28
23 24 9.784531 ATCAACAAACTACAAGCATAGCTATAT 57.215 29.630 5.77 0.00 38.25 0.86
24 25 9.261180 GATCAACAAACTACAAGCATAGCTATA 57.739 33.333 5.77 0.00 38.25 1.31
25 26 7.770433 TGATCAACAAACTACAAGCATAGCTAT 59.230 33.333 0.00 0.00 38.25 2.97
26 27 7.102993 TGATCAACAAACTACAAGCATAGCTA 58.897 34.615 0.00 0.00 38.25 3.32
27 28 5.939883 TGATCAACAAACTACAAGCATAGCT 59.060 36.000 0.00 0.00 42.56 3.32
28 29 6.182039 TGATCAACAAACTACAAGCATAGC 57.818 37.500 0.00 0.00 0.00 2.97
29 30 7.695201 CACATGATCAACAAACTACAAGCATAG 59.305 37.037 0.00 0.00 0.00 2.23
30 31 7.390162 TCACATGATCAACAAACTACAAGCATA 59.610 33.333 0.00 0.00 0.00 3.14
31 32 6.207221 TCACATGATCAACAAACTACAAGCAT 59.793 34.615 0.00 0.00 0.00 3.79
32 33 5.530543 TCACATGATCAACAAACTACAAGCA 59.469 36.000 0.00 0.00 0.00 3.91
33 34 6.000891 TCACATGATCAACAAACTACAAGC 57.999 37.500 0.00 0.00 0.00 4.01
34 35 7.809665 TCATCACATGATCAACAAACTACAAG 58.190 34.615 0.00 0.00 33.59 3.16
35 36 7.742556 TCATCACATGATCAACAAACTACAA 57.257 32.000 0.00 0.00 33.59 2.41
36 37 7.445096 AGTTCATCACATGATCAACAAACTACA 59.555 33.333 10.69 0.00 37.89 2.74
37 38 7.810658 AGTTCATCACATGATCAACAAACTAC 58.189 34.615 10.69 0.00 37.89 2.73
38 39 7.984422 AGTTCATCACATGATCAACAAACTA 57.016 32.000 10.69 0.00 37.89 2.24
39 40 6.889301 AGTTCATCACATGATCAACAAACT 57.111 33.333 10.69 0.75 37.89 2.66
40 41 8.239314 ACATAGTTCATCACATGATCAACAAAC 58.761 33.333 10.69 0.00 37.89 2.93
41 42 8.339344 ACATAGTTCATCACATGATCAACAAA 57.661 30.769 10.69 0.01 37.89 2.83
42 43 7.926674 ACATAGTTCATCACATGATCAACAA 57.073 32.000 10.69 0.00 37.89 2.83
43 44 8.260114 ACTACATAGTTCATCACATGATCAACA 58.740 33.333 10.69 0.00 37.89 3.33
44 45 8.654230 ACTACATAGTTCATCACATGATCAAC 57.346 34.615 0.00 0.72 39.39 3.18
46 47 9.918630 CATACTACATAGTTCATCACATGATCA 57.081 33.333 0.00 0.00 39.39 2.92
47 48 9.920133 ACATACTACATAGTTCATCACATGATC 57.080 33.333 0.00 0.00 39.39 2.92
48 49 9.702494 CACATACTACATAGTTCATCACATGAT 57.298 33.333 0.00 0.00 39.39 2.45
49 50 8.912988 TCACATACTACATAGTTCATCACATGA 58.087 33.333 0.00 0.00 37.73 3.07
50 51 9.533253 TTCACATACTACATAGTTCATCACATG 57.467 33.333 0.00 0.00 37.73 3.21
51 52 9.534565 GTTCACATACTACATAGTTCATCACAT 57.465 33.333 0.00 0.00 37.73 3.21
52 53 8.749354 AGTTCACATACTACATAGTTCATCACA 58.251 33.333 0.00 0.00 37.73 3.58
62 63 9.093970 GCACAAACATAGTTCACATACTACATA 57.906 33.333 0.00 0.00 33.69 2.29
63 64 7.606073 TGCACAAACATAGTTCACATACTACAT 59.394 33.333 0.00 0.00 33.69 2.29
64 65 6.931840 TGCACAAACATAGTTCACATACTACA 59.068 34.615 0.00 0.00 33.69 2.74
65 66 7.117812 ACTGCACAAACATAGTTCACATACTAC 59.882 37.037 0.00 0.00 33.69 2.73
66 67 7.158697 ACTGCACAAACATAGTTCACATACTA 58.841 34.615 0.00 0.00 35.25 1.82
67 68 5.997746 ACTGCACAAACATAGTTCACATACT 59.002 36.000 0.00 0.00 0.00 2.12
68 69 6.241207 ACTGCACAAACATAGTTCACATAC 57.759 37.500 0.00 0.00 0.00 2.39
69 70 6.875948 AACTGCACAAACATAGTTCACATA 57.124 33.333 0.00 0.00 0.00 2.29
70 71 5.772825 AACTGCACAAACATAGTTCACAT 57.227 34.783 0.00 0.00 0.00 3.21
71 72 5.356751 AGAAACTGCACAAACATAGTTCACA 59.643 36.000 0.00 0.00 32.61 3.58
72 73 5.821204 AGAAACTGCACAAACATAGTTCAC 58.179 37.500 0.00 0.00 32.61 3.18
73 74 5.822519 AGAGAAACTGCACAAACATAGTTCA 59.177 36.000 0.00 0.00 32.61 3.18
74 75 6.305693 AGAGAAACTGCACAAACATAGTTC 57.694 37.500 0.00 0.00 32.61 3.01
75 76 5.050091 CGAGAGAAACTGCACAAACATAGTT 60.050 40.000 0.00 0.00 35.06 2.24
76 77 4.449068 CGAGAGAAACTGCACAAACATAGT 59.551 41.667 0.00 0.00 0.00 2.12
77 78 4.667668 GCGAGAGAAACTGCACAAACATAG 60.668 45.833 0.00 0.00 0.00 2.23
78 79 3.186409 GCGAGAGAAACTGCACAAACATA 59.814 43.478 0.00 0.00 0.00 2.29
79 80 2.031682 GCGAGAGAAACTGCACAAACAT 60.032 45.455 0.00 0.00 0.00 2.71
80 81 1.330521 GCGAGAGAAACTGCACAAACA 59.669 47.619 0.00 0.00 0.00 2.83
81 82 1.657538 CGCGAGAGAAACTGCACAAAC 60.658 52.381 0.00 0.00 0.00 2.93
82 83 0.581529 CGCGAGAGAAACTGCACAAA 59.418 50.000 0.00 0.00 0.00 2.83
83 84 0.249280 TCGCGAGAGAAACTGCACAA 60.249 50.000 3.71 0.00 34.84 3.33
84 85 0.249280 TTCGCGAGAGAAACTGCACA 60.249 50.000 9.59 0.00 43.69 4.57
85 86 0.859232 TTTCGCGAGAGAAACTGCAC 59.141 50.000 9.59 0.00 43.69 4.57
86 87 1.795768 ATTTCGCGAGAGAAACTGCA 58.204 45.000 9.59 0.00 42.12 4.41
87 88 2.882742 AATTTCGCGAGAGAAACTGC 57.117 45.000 9.59 0.00 42.12 4.40
88 89 7.781763 AAAAATAATTTCGCGAGAGAAACTG 57.218 32.000 9.59 0.00 42.12 3.16
110 111 9.658475 CGTATCTAAATCCGCATATTTTGAAAA 57.342 29.630 8.28 0.00 35.34 2.29
111 112 8.286800 CCGTATCTAAATCCGCATATTTTGAAA 58.713 33.333 8.28 0.00 35.34 2.69
112 113 7.094975 CCCGTATCTAAATCCGCATATTTTGAA 60.095 37.037 8.28 0.00 35.34 2.69
113 114 6.370442 CCCGTATCTAAATCCGCATATTTTGA 59.630 38.462 7.14 7.14 35.87 2.69
114 115 6.148811 ACCCGTATCTAAATCCGCATATTTTG 59.851 38.462 0.00 0.00 31.63 2.44
115 116 6.235664 ACCCGTATCTAAATCCGCATATTTT 58.764 36.000 0.00 0.00 31.63 1.82
116 117 5.801380 ACCCGTATCTAAATCCGCATATTT 58.199 37.500 0.00 0.00 33.69 1.40
117 118 5.416271 ACCCGTATCTAAATCCGCATATT 57.584 39.130 0.00 0.00 0.00 1.28
118 119 5.187186 AGAACCCGTATCTAAATCCGCATAT 59.813 40.000 0.00 0.00 0.00 1.78
119 120 4.525487 AGAACCCGTATCTAAATCCGCATA 59.475 41.667 0.00 0.00 0.00 3.14
120 121 3.323979 AGAACCCGTATCTAAATCCGCAT 59.676 43.478 0.00 0.00 0.00 4.73
121 122 2.696707 AGAACCCGTATCTAAATCCGCA 59.303 45.455 0.00 0.00 0.00 5.69
122 123 3.057734 CAGAACCCGTATCTAAATCCGC 58.942 50.000 0.00 0.00 0.00 5.54
123 124 3.057734 GCAGAACCCGTATCTAAATCCG 58.942 50.000 0.00 0.00 0.00 4.18
124 125 4.308265 GAGCAGAACCCGTATCTAAATCC 58.692 47.826 0.00 0.00 0.00 3.01
125 126 3.982058 CGAGCAGAACCCGTATCTAAATC 59.018 47.826 0.00 0.00 0.00 2.17
126 127 3.243771 CCGAGCAGAACCCGTATCTAAAT 60.244 47.826 0.00 0.00 0.00 1.40
127 128 2.100252 CCGAGCAGAACCCGTATCTAAA 59.900 50.000 0.00 0.00 0.00 1.85
128 129 1.679680 CCGAGCAGAACCCGTATCTAA 59.320 52.381 0.00 0.00 0.00 2.10
129 130 1.315690 CCGAGCAGAACCCGTATCTA 58.684 55.000 0.00 0.00 0.00 1.98
130 131 2.017559 GCCGAGCAGAACCCGTATCT 62.018 60.000 0.00 0.00 0.00 1.98
131 132 1.591863 GCCGAGCAGAACCCGTATC 60.592 63.158 0.00 0.00 0.00 2.24
132 133 2.499685 GCCGAGCAGAACCCGTAT 59.500 61.111 0.00 0.00 0.00 3.06
133 134 3.766691 GGCCGAGCAGAACCCGTA 61.767 66.667 0.00 0.00 0.00 4.02
143 144 2.747507 AAAAACATGTGCGGCCGAGC 62.748 55.000 33.48 20.95 37.71 5.03
144 145 1.003262 CAAAAACATGTGCGGCCGAG 61.003 55.000 33.48 14.77 0.00 4.63
145 146 1.007964 CAAAAACATGTGCGGCCGA 60.008 52.632 33.48 8.89 0.00 5.54
146 147 1.007964 TCAAAAACATGTGCGGCCG 60.008 52.632 24.05 24.05 0.00 6.13
147 148 0.943835 GGTCAAAAACATGTGCGGCC 60.944 55.000 0.00 0.00 0.00 6.13
148 149 0.943835 GGGTCAAAAACATGTGCGGC 60.944 55.000 0.00 0.00 0.00 6.53
149 150 0.662970 CGGGTCAAAAACATGTGCGG 60.663 55.000 0.00 0.00 0.00 5.69
150 151 0.030101 ACGGGTCAAAAACATGTGCG 59.970 50.000 0.00 0.00 0.00 5.34
151 152 3.357166 TTACGGGTCAAAAACATGTGC 57.643 42.857 0.00 0.00 0.00 4.57
152 153 3.726730 CGTTTACGGGTCAAAAACATGTG 59.273 43.478 0.00 0.00 33.67 3.21
153 154 3.792794 GCGTTTACGGGTCAAAAACATGT 60.793 43.478 4.29 0.00 40.23 3.21
154 155 2.722116 GCGTTTACGGGTCAAAAACATG 59.278 45.455 4.29 0.00 40.23 3.21
155 156 2.602694 CGCGTTTACGGGTCAAAAACAT 60.603 45.455 10.70 0.00 45.50 2.71
156 157 1.267932 CGCGTTTACGGGTCAAAAACA 60.268 47.619 10.70 0.00 45.50 2.83
157 158 1.387924 CGCGTTTACGGGTCAAAAAC 58.612 50.000 10.70 0.00 45.50 2.43
158 159 3.821881 CGCGTTTACGGGTCAAAAA 57.178 47.368 10.70 0.00 45.50 1.94
166 167 0.643820 GATGAAGGTCGCGTTTACGG 59.356 55.000 5.77 0.00 40.23 4.02
167 168 1.342555 TGATGAAGGTCGCGTTTACG 58.657 50.000 5.77 0.00 43.27 3.18
168 169 3.242316 GGATTGATGAAGGTCGCGTTTAC 60.242 47.826 5.77 0.00 0.00 2.01
169 170 2.933906 GGATTGATGAAGGTCGCGTTTA 59.066 45.455 5.77 0.00 0.00 2.01
170 171 1.737793 GGATTGATGAAGGTCGCGTTT 59.262 47.619 5.77 0.00 0.00 3.60
171 172 1.369625 GGATTGATGAAGGTCGCGTT 58.630 50.000 5.77 0.00 0.00 4.84
172 173 0.806102 CGGATTGATGAAGGTCGCGT 60.806 55.000 5.77 0.00 0.00 6.01
173 174 1.927210 CGGATTGATGAAGGTCGCG 59.073 57.895 0.00 0.00 0.00 5.87
174 175 1.089481 TGCGGATTGATGAAGGTCGC 61.089 55.000 0.00 0.00 41.68 5.19
175 176 1.368641 TTGCGGATTGATGAAGGTCG 58.631 50.000 0.00 0.00 0.00 4.79
176 177 3.129287 ACATTTGCGGATTGATGAAGGTC 59.871 43.478 3.19 0.00 0.00 3.85
177 178 3.091545 ACATTTGCGGATTGATGAAGGT 58.908 40.909 3.19 0.00 0.00 3.50
178 179 3.119388 ACACATTTGCGGATTGATGAAGG 60.119 43.478 3.19 0.00 0.00 3.46
179 180 4.100707 ACACATTTGCGGATTGATGAAG 57.899 40.909 3.19 0.00 0.00 3.02
180 181 4.517952 AACACATTTGCGGATTGATGAA 57.482 36.364 3.19 0.00 0.00 2.57
181 182 4.517952 AAACACATTTGCGGATTGATGA 57.482 36.364 3.19 0.00 0.00 2.92
182 183 4.948588 CAAAACACATTTGCGGATTGATG 58.051 39.130 0.00 0.00 41.79 3.07
193 194 0.741915 ACGACCCGCAAAACACATTT 59.258 45.000 0.00 0.00 0.00 2.32
194 195 1.595466 TACGACCCGCAAAACACATT 58.405 45.000 0.00 0.00 0.00 2.71
195 196 1.816074 ATACGACCCGCAAAACACAT 58.184 45.000 0.00 0.00 0.00 3.21
196 197 1.595466 AATACGACCCGCAAAACACA 58.405 45.000 0.00 0.00 0.00 3.72
197 198 2.691984 AAATACGACCCGCAAAACAC 57.308 45.000 0.00 0.00 0.00 3.32
198 199 3.372954 CAAAAATACGACCCGCAAAACA 58.627 40.909 0.00 0.00 0.00 2.83
199 200 2.154198 GCAAAAATACGACCCGCAAAAC 59.846 45.455 0.00 0.00 0.00 2.43
200 201 2.395654 GCAAAAATACGACCCGCAAAA 58.604 42.857 0.00 0.00 0.00 2.44
201 202 1.663445 CGCAAAAATACGACCCGCAAA 60.663 47.619 0.00 0.00 0.00 3.68
202 203 0.110147 CGCAAAAATACGACCCGCAA 60.110 50.000 0.00 0.00 0.00 4.85
203 204 1.498166 CGCAAAAATACGACCCGCA 59.502 52.632 0.00 0.00 0.00 5.69
204 205 1.226184 CCGCAAAAATACGACCCGC 60.226 57.895 0.00 0.00 0.00 6.13
205 206 1.426223 CCCGCAAAAATACGACCCG 59.574 57.895 0.00 0.00 0.00 5.28
206 207 0.961857 ACCCCGCAAAAATACGACCC 60.962 55.000 0.00 0.00 0.00 4.46
207 208 0.448990 GACCCCGCAAAAATACGACC 59.551 55.000 0.00 0.00 0.00 4.79
208 209 1.129811 CAGACCCCGCAAAAATACGAC 59.870 52.381 0.00 0.00 0.00 4.34
209 210 1.444836 CAGACCCCGCAAAAATACGA 58.555 50.000 0.00 0.00 0.00 3.43
210 211 0.179174 GCAGACCCCGCAAAAATACG 60.179 55.000 0.00 0.00 0.00 3.06
211 212 1.173913 AGCAGACCCCGCAAAAATAC 58.826 50.000 0.00 0.00 0.00 1.89
212 213 2.237643 TCTAGCAGACCCCGCAAAAATA 59.762 45.455 0.00 0.00 0.00 1.40
213 214 1.004277 TCTAGCAGACCCCGCAAAAAT 59.996 47.619 0.00 0.00 0.00 1.82
214 215 0.398696 TCTAGCAGACCCCGCAAAAA 59.601 50.000 0.00 0.00 0.00 1.94
215 216 0.036388 CTCTAGCAGACCCCGCAAAA 60.036 55.000 0.00 0.00 0.00 2.44
216 217 1.192146 ACTCTAGCAGACCCCGCAAA 61.192 55.000 0.00 0.00 0.00 3.68
217 218 1.192146 AACTCTAGCAGACCCCGCAA 61.192 55.000 0.00 0.00 0.00 4.85
218 219 1.609501 AACTCTAGCAGACCCCGCA 60.610 57.895 0.00 0.00 0.00 5.69
219 220 1.153549 CAACTCTAGCAGACCCCGC 60.154 63.158 0.00 0.00 0.00 6.13
220 221 1.153549 GCAACTCTAGCAGACCCCG 60.154 63.158 0.00 0.00 0.00 5.73
221 222 0.176910 GAGCAACTCTAGCAGACCCC 59.823 60.000 0.00 0.00 0.00 4.95
222 223 1.190643 AGAGCAACTCTAGCAGACCC 58.809 55.000 0.00 0.00 39.28 4.46
223 224 3.445805 ACTAAGAGCAACTCTAGCAGACC 59.554 47.826 0.00 0.00 40.28 3.85
224 225 4.712122 ACTAAGAGCAACTCTAGCAGAC 57.288 45.455 0.00 0.00 40.28 3.51
225 226 4.641094 GGTACTAAGAGCAACTCTAGCAGA 59.359 45.833 0.00 0.00 40.28 4.26
226 227 4.496673 CGGTACTAAGAGCAACTCTAGCAG 60.497 50.000 0.00 0.00 40.28 4.24
227 228 3.377485 CGGTACTAAGAGCAACTCTAGCA 59.623 47.826 0.00 0.00 40.28 3.49
228 229 3.626670 TCGGTACTAAGAGCAACTCTAGC 59.373 47.826 0.00 0.00 40.28 3.42
229 230 5.412526 CTCGGTACTAAGAGCAACTCTAG 57.587 47.826 0.00 0.00 40.28 2.43
238 239 0.945813 CTCCCGCTCGGTACTAAGAG 59.054 60.000 7.59 8.49 37.54 2.85
239 240 0.543277 TCTCCCGCTCGGTACTAAGA 59.457 55.000 7.59 0.10 0.00 2.10
240 241 1.334243 CTTCTCCCGCTCGGTACTAAG 59.666 57.143 7.59 2.33 0.00 2.18
241 242 1.386533 CTTCTCCCGCTCGGTACTAA 58.613 55.000 7.59 0.00 0.00 2.24
242 243 0.465097 CCTTCTCCCGCTCGGTACTA 60.465 60.000 7.59 0.00 0.00 1.82
243 244 1.753463 CCTTCTCCCGCTCGGTACT 60.753 63.158 7.59 0.00 0.00 2.73
244 245 1.751927 TCCTTCTCCCGCTCGGTAC 60.752 63.158 7.59 0.00 0.00 3.34
245 246 1.751927 GTCCTTCTCCCGCTCGGTA 60.752 63.158 7.59 0.00 0.00 4.02
246 247 3.069318 GTCCTTCTCCCGCTCGGT 61.069 66.667 7.59 0.00 0.00 4.69
247 248 1.889530 AAAGTCCTTCTCCCGCTCGG 61.890 60.000 0.48 0.48 0.00 4.63
248 249 0.737715 CAAAGTCCTTCTCCCGCTCG 60.738 60.000 0.00 0.00 0.00 5.03
249 250 0.391793 CCAAAGTCCTTCTCCCGCTC 60.392 60.000 0.00 0.00 0.00 5.03
250 251 1.679898 CCAAAGTCCTTCTCCCGCT 59.320 57.895 0.00 0.00 0.00 5.52
251 252 2.041115 GCCAAAGTCCTTCTCCCGC 61.041 63.158 0.00 0.00 0.00 6.13
252 253 0.035056 ATGCCAAAGTCCTTCTCCCG 60.035 55.000 0.00 0.00 0.00 5.14
253 254 1.004745 TGATGCCAAAGTCCTTCTCCC 59.995 52.381 0.00 0.00 0.00 4.30
254 255 2.489722 GTTGATGCCAAAGTCCTTCTCC 59.510 50.000 0.00 0.00 33.49 3.71
255 256 3.416156 AGTTGATGCCAAAGTCCTTCTC 58.584 45.455 0.00 0.00 33.49 2.87
289 290 1.529796 CCGCCCAAGTAATGCCCTA 59.470 57.895 0.00 0.00 0.00 3.53
291 292 2.833121 CCCGCCCAAGTAATGCCC 60.833 66.667 0.00 0.00 0.00 5.36
306 307 2.691927 CGGTCGGGCTTTATATAACCC 58.308 52.381 10.04 10.04 39.12 4.11
345 1008 5.186996 AGTGCACAGTTTAATTGTTCAGG 57.813 39.130 21.04 0.00 0.00 3.86
348 1011 6.756542 AGGAAAAGTGCACAGTTTAATTGTTC 59.243 34.615 21.04 6.24 33.87 3.18
424 1087 9.884465 CTGAATTACCTCAAAAACAGAGTTTAG 57.116 33.333 0.00 0.00 0.00 1.85
479 1143 2.801631 GGTCGGGATGAGCTCCAGG 61.802 68.421 12.15 0.00 46.98 4.45
519 1189 7.945664 GGGTAGATCTCTCTAAGATAAACCTGA 59.054 40.741 0.00 0.00 45.06 3.86
599 1276 5.410132 CCATGCATGATGACACAATTGTTTT 59.590 36.000 28.31 0.00 35.47 2.43
601 1278 4.221041 TCCATGCATGATGACACAATTGTT 59.779 37.500 28.31 0.41 35.47 2.83
602 1279 3.764972 TCCATGCATGATGACACAATTGT 59.235 39.130 28.31 4.92 39.32 2.71
603 1280 4.379339 TCCATGCATGATGACACAATTG 57.621 40.909 28.31 3.24 33.31 2.32
604 1281 4.944048 CATCCATGCATGATGACACAATT 58.056 39.130 28.31 0.00 33.31 2.32
605 1282 4.584327 CATCCATGCATGATGACACAAT 57.416 40.909 28.31 5.34 33.31 2.71
620 1297 4.010349 CTGAGATATGTGCATGCATCCAT 58.990 43.478 25.64 23.88 0.00 3.41
621 1298 3.071892 TCTGAGATATGTGCATGCATCCA 59.928 43.478 25.64 18.55 0.00 3.41
699 1407 7.488322 ACAAAATTTCCATCCATGGTAATACG 58.512 34.615 12.58 5.66 44.09 3.06
707 1416 8.016801 GCTTTTACAACAAAATTTCCATCCATG 58.983 33.333 0.00 0.00 0.00 3.66
917 1690 9.859427 ATTTATACACACAATATATGCATTGCC 57.141 29.630 3.54 0.00 39.13 4.52
1399 2247 0.829602 TCATCCTCCATCTCCGCCTC 60.830 60.000 0.00 0.00 0.00 4.70
1590 2456 1.668151 GCTCACCTCCAACGTCACC 60.668 63.158 0.00 0.00 0.00 4.02
1805 2671 1.202211 CGGAACATGCATGTGTGATGG 60.202 52.381 31.98 14.58 41.61 3.51
1839 2748 5.499313 TCAACAATGGTCAATGCAGATCTA 58.501 37.500 0.00 0.00 0.00 1.98
1869 2782 2.749076 TGATAAGAGTGCCATGCAACAC 59.251 45.455 9.23 9.23 41.47 3.32
1942 2878 2.996631 AGGATCTTCAGGTGCAATCAC 58.003 47.619 0.00 0.00 42.40 3.06
1975 2911 6.763610 GGAATAGGTCCTCTTGTTAACATCTG 59.236 42.308 9.56 3.47 43.98 2.90
2026 2971 4.039245 TGTTCCGTTGATAATTGCCCAAAA 59.961 37.500 0.00 0.00 0.00 2.44
2029 2974 2.796557 TGTTCCGTTGATAATTGCCCA 58.203 42.857 0.00 0.00 0.00 5.36
2034 2979 3.066203 GCCCGATTGTTCCGTTGATAATT 59.934 43.478 0.00 0.00 0.00 1.40
2056 3001 2.010145 ATCACCGATCGTTGGAGTTG 57.990 50.000 13.00 0.00 0.00 3.16
2060 3005 2.100252 GGAAGTATCACCGATCGTTGGA 59.900 50.000 13.00 7.85 0.00 3.53
2087 3041 5.358442 AGCACGGGCACATTATTATTGTAAA 59.642 36.000 14.57 0.00 44.61 2.01
2088 3042 4.884744 AGCACGGGCACATTATTATTGTAA 59.115 37.500 14.57 0.00 44.61 2.41
2089 3043 4.456535 AGCACGGGCACATTATTATTGTA 58.543 39.130 14.57 0.00 44.61 2.41
2090 3044 3.287222 AGCACGGGCACATTATTATTGT 58.713 40.909 14.57 0.00 44.61 2.71
2091 3045 3.988379 AGCACGGGCACATTATTATTG 57.012 42.857 14.57 0.00 44.61 1.90
2092 3046 4.681744 CAAAGCACGGGCACATTATTATT 58.318 39.130 14.57 0.00 44.61 1.40
2093 3047 3.490761 GCAAAGCACGGGCACATTATTAT 60.491 43.478 14.57 0.00 44.61 1.28
2094 3048 2.159310 GCAAAGCACGGGCACATTATTA 60.159 45.455 14.57 0.00 44.61 0.98
2115 3069 6.015856 CCCCTGCTCATATTCGGAGTATATAG 60.016 46.154 0.00 0.00 34.83 1.31
2119 3073 2.834549 CCCCTGCTCATATTCGGAGTAT 59.165 50.000 0.00 0.00 34.83 2.12
2120 3074 2.248248 CCCCTGCTCATATTCGGAGTA 58.752 52.381 0.00 0.00 34.83 2.59
2121 3075 1.051812 CCCCTGCTCATATTCGGAGT 58.948 55.000 0.00 0.00 34.83 3.85
2122 3076 0.322975 CCCCCTGCTCATATTCGGAG 59.677 60.000 0.00 0.00 35.47 4.63
2123 3077 0.105194 TCCCCCTGCTCATATTCGGA 60.105 55.000 0.00 0.00 0.00 4.55
2124 3078 0.764890 TTCCCCCTGCTCATATTCGG 59.235 55.000 0.00 0.00 0.00 4.30
2125 3079 2.638480 TTTCCCCCTGCTCATATTCG 57.362 50.000 0.00 0.00 0.00 3.34
2126 3080 3.160269 CCATTTCCCCCTGCTCATATTC 58.840 50.000 0.00 0.00 0.00 1.75
2127 3081 2.519691 ACCATTTCCCCCTGCTCATATT 59.480 45.455 0.00 0.00 0.00 1.28
2141 3095 2.973945 ACGTGGAGAGCTTACCATTTC 58.026 47.619 14.27 3.53 38.48 2.17
2190 3144 6.127054 TGACGGTTGAGATCAAATAATCCTCT 60.127 38.462 0.00 0.00 37.63 3.69
2202 3156 2.413453 GAGCAGTTTGACGGTTGAGATC 59.587 50.000 0.00 0.00 0.00 2.75
2210 3164 0.535102 ACCCTTGAGCAGTTTGACGG 60.535 55.000 0.00 0.00 0.00 4.79
2221 3254 1.204146 TAGCCCAGCTTACCCTTGAG 58.796 55.000 0.00 0.00 40.44 3.02
2238 3271 5.297776 AGTTTCCGCTCATTTTCATCCATAG 59.702 40.000 0.00 0.00 0.00 2.23
2241 3274 3.420893 AGTTTCCGCTCATTTTCATCCA 58.579 40.909 0.00 0.00 0.00 3.41
2274 3308 2.817538 ATGTTATCGTTTTTCGGCCG 57.182 45.000 22.12 22.12 40.32 6.13
2278 3312 9.047871 GTTTTTCCTCTATGTTATCGTTTTTCG 57.952 33.333 0.00 0.00 41.41 3.46
2286 3320 8.889717 TCATTTCCGTTTTTCCTCTATGTTATC 58.110 33.333 0.00 0.00 0.00 1.75
2288 3322 8.624367 TTCATTTCCGTTTTTCCTCTATGTTA 57.376 30.769 0.00 0.00 0.00 2.41
2292 3326 7.081976 CGTTTTCATTTCCGTTTTTCCTCTAT 58.918 34.615 0.00 0.00 0.00 1.98
2331 3385 2.873133 TTTCCGTTTCCGCACAAAAT 57.127 40.000 0.00 0.00 0.00 1.82
2347 3401 2.928694 ACGATGTTCCGTTTGCATTTC 58.071 42.857 0.00 0.00 40.17 2.17
2358 3412 4.201970 TGTTTCACCAGAAAACGATGTTCC 60.202 41.667 0.00 0.00 44.75 3.62
2372 3426 1.606668 GTTTCCGCATCTGTTTCACCA 59.393 47.619 0.00 0.00 0.00 4.17
2422 3483 9.493206 GCCATATGTTCATTTTTAAAATGCAAG 57.507 29.630 21.57 11.10 0.00 4.01
2435 3496 7.116075 ACTGCAAAATAGCCATATGTTCATT 57.884 32.000 1.24 0.00 0.00 2.57
2456 3517 8.621286 GGGACTAATTATGTGTTTATTGGACTG 58.379 37.037 0.00 0.00 0.00 3.51
2459 3520 9.841295 GTAGGGACTAATTATGTGTTTATTGGA 57.159 33.333 0.00 0.00 45.48 3.53
2487 3553 7.012138 GGCATATAGTCCATTCTGCTCATTATG 59.988 40.741 0.00 0.00 0.00 1.90
2497 3563 3.983410 AGTTGGGGCATATAGTCCATTCT 59.017 43.478 0.00 0.00 46.80 2.40
2512 3585 4.618920 AGTAGTACAGTTGAAGTTGGGG 57.381 45.455 2.52 0.00 0.00 4.96


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

AutoCloner maintained by Alex Coulton.