Multiple sequence alignment - TraesCS2D01G513700

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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 TraesCS2D01G513700 chr2D 100.000 3503 0 0 680 4182 605828131 605831633 0.000000e+00 6469.0
1 TraesCS2D01G513700 chr2D 100.000 339 0 0 1 339 605827452 605827790 9.870000e-176 627.0
2 TraesCS2D01G513700 chr2A 97.165 3421 58 8 683 4081 737234560 737237963 0.000000e+00 5744.0
3 TraesCS2D01G513700 chr2A 96.296 108 4 0 4075 4182 737292018 737292125 1.190000e-40 178.0
4 TraesCS2D01G513700 chr2A 100.000 34 0 0 303 336 737234484 737234517 3.490000e-06 63.9
5 TraesCS2D01G513700 chr2B 94.810 2505 67 12 685 3164 736725463 736727929 0.000000e+00 3847.0
6 TraesCS2D01G513700 chr2B 87.551 980 67 16 3208 4182 736728045 736728974 0.000000e+00 1083.0
7 TraesCS2D01G513700 chr5A 79.555 1482 201 54 1760 3186 421825251 421826685 0.000000e+00 965.0
8 TraesCS2D01G513700 chr5A 82.899 614 76 11 843 1428 421823390 421824002 3.700000e-145 525.0
9 TraesCS2D01G513700 chr5A 89.005 191 18 1 2998 3185 421834243 421834433 2.510000e-57 233.0
10 TraesCS2D01G513700 chr5A 84.127 63 8 2 134 195 613162923 613162862 4.520000e-05 60.2
11 TraesCS2D01G513700 chr5A 85.455 55 8 0 175 229 343953802 343953856 1.620000e-04 58.4
12 TraesCS2D01G513700 chr5B 80.390 1127 137 43 2109 3186 375617357 375618448 0.000000e+00 780.0
13 TraesCS2D01G513700 chr5B 83.660 612 73 12 843 1428 375615990 375616600 6.110000e-153 551.0
14 TraesCS2D01G513700 chr5B 87.701 187 17 2 3005 3185 375644366 375644552 3.280000e-51 213.0
15 TraesCS2D01G513700 chr5D 80.986 852 108 36 1760 2585 323908210 323909033 9.870000e-176 627.0
16 TraesCS2D01G513700 chr5D 83.225 614 74 14 842 1428 323907260 323907871 1.710000e-148 536.0
17 TraesCS2D01G513700 chr5D 82.820 617 77 14 2585 3185 323909058 323909661 3.700000e-145 525.0
18 TraesCS2D01G513700 chr5D 86.911 191 22 1 2998 3185 323917031 323917221 1.180000e-50 211.0
19 TraesCS2D01G513700 chr5D 84.783 92 13 1 112 202 388619294 388619203 1.600000e-14 91.6
20 TraesCS2D01G513700 chr3D 80.000 175 31 4 57 229 2454552 2454724 4.390000e-25 126.0
21 TraesCS2D01G513700 chr6A 78.889 180 36 2 48 225 94217511 94217332 2.040000e-23 121.0
22 TraesCS2D01G513700 chr6A 77.619 210 33 12 12 210 609000145 608999939 9.500000e-22 115.0
23 TraesCS2D01G513700 chr6B 76.889 225 41 9 5 225 507676425 507676208 2.640000e-22 117.0
24 TraesCS2D01G513700 chr6B 83.838 99 12 4 117 214 56382294 56382389 1.600000e-14 91.6
25 TraesCS2D01G513700 chr3A 80.420 143 23 5 89 228 9328273 9328133 2.060000e-18 104.0
26 TraesCS2D01G513700 chr3A 84.112 107 17 0 116 222 19911247 19911353 2.060000e-18 104.0


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 TraesCS2D01G513700 chr2D 605827452 605831633 4181 False 3548.000000 6469 100.000000 1 4182 2 chr2D.!!$F1 4181
1 TraesCS2D01G513700 chr2A 737234484 737237963 3479 False 2903.950000 5744 98.582500 303 4081 2 chr2A.!!$F2 3778
2 TraesCS2D01G513700 chr2B 736725463 736728974 3511 False 2465.000000 3847 91.180500 685 4182 2 chr2B.!!$F1 3497
3 TraesCS2D01G513700 chr5A 421823390 421826685 3295 False 745.000000 965 81.227000 843 3186 2 chr5A.!!$F3 2343
4 TraesCS2D01G513700 chr5B 375615990 375618448 2458 False 665.500000 780 82.025000 843 3186 2 chr5B.!!$F2 2343
5 TraesCS2D01G513700 chr5D 323907260 323909661 2401 False 562.666667 627 82.343667 842 3185 3 chr5D.!!$F2 2343

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
179 180 0.034670 GCTCTCAGCCCACTCCAAAT 60.035 55.000 0.00 0.0 34.48 2.32 F
211 212 0.109504 GCTCTCGAAGAAGCACTCGT 60.110 55.000 8.73 0.0 39.32 4.18 F
213 214 1.197949 CTCTCGAAGAAGCACTCGTCA 59.802 52.381 0.00 0.0 34.09 4.35 F
2195 3260 1.344763 CATACAGGGCCAGCCTACTAC 59.655 57.143 6.18 0.0 36.10 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1474 1564 6.183360 GCAAATATGGCTTCAGTCACAATTTG 60.183 38.462 18.34 18.34 42.76 2.32 R
2195 3260 7.176865 TCAATACAGAGGATTAGAAGGTATCCG 59.823 40.741 0.00 0.00 44.10 4.18 R
2413 3490 3.971150 TGTTCAAATAACAAGTTGGCCG 58.029 40.909 7.96 0.00 0.00 6.13 R
3647 4844 0.882484 TTCGCGCTCATGTGAACCAA 60.882 50.000 5.56 0.00 33.69 3.67 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
30 31 7.766219 TTATCCGAAAACTAAGAAAGATCGG 57.234 36.000 5.01 5.01 43.91 4.18
31 32 5.143376 TCCGAAAACTAAGAAAGATCGGT 57.857 39.130 10.63 0.00 43.47 4.69
32 33 4.927425 TCCGAAAACTAAGAAAGATCGGTG 59.073 41.667 10.63 0.00 43.47 4.94
33 34 4.927425 CCGAAAACTAAGAAAGATCGGTGA 59.073 41.667 3.30 0.00 40.87 4.02
34 35 5.407387 CCGAAAACTAAGAAAGATCGGTGAA 59.593 40.000 3.30 0.00 40.87 3.18
35 36 6.073440 CCGAAAACTAAGAAAGATCGGTGAAA 60.073 38.462 3.30 0.00 40.87 2.69
36 37 7.349711 CGAAAACTAAGAAAGATCGGTGAAAA 58.650 34.615 0.00 0.00 0.00 2.29
37 38 8.015658 CGAAAACTAAGAAAGATCGGTGAAAAT 58.984 33.333 0.00 0.00 0.00 1.82
38 39 9.331106 GAAAACTAAGAAAGATCGGTGAAAATC 57.669 33.333 0.00 0.00 0.00 2.17
39 40 7.979444 AACTAAGAAAGATCGGTGAAAATCA 57.021 32.000 0.00 0.00 0.00 2.57
40 41 7.979444 ACTAAGAAAGATCGGTGAAAATCAA 57.021 32.000 0.00 0.00 0.00 2.57
41 42 8.391075 ACTAAGAAAGATCGGTGAAAATCAAA 57.609 30.769 0.00 0.00 0.00 2.69
42 43 8.846211 ACTAAGAAAGATCGGTGAAAATCAAAA 58.154 29.630 0.00 0.00 0.00 2.44
43 44 9.677567 CTAAGAAAGATCGGTGAAAATCAAAAA 57.322 29.630 0.00 0.00 0.00 1.94
44 45 8.579682 AAGAAAGATCGGTGAAAATCAAAAAG 57.420 30.769 0.00 0.00 0.00 2.27
45 46 7.716612 AGAAAGATCGGTGAAAATCAAAAAGT 58.283 30.769 0.00 0.00 0.00 2.66
46 47 8.846211 AGAAAGATCGGTGAAAATCAAAAAGTA 58.154 29.630 0.00 0.00 0.00 2.24
47 48 9.458374 GAAAGATCGGTGAAAATCAAAAAGTAA 57.542 29.630 0.00 0.00 0.00 2.24
48 49 9.810545 AAAGATCGGTGAAAATCAAAAAGTAAA 57.189 25.926 0.00 0.00 0.00 2.01
49 50 9.810545 AAGATCGGTGAAAATCAAAAAGTAAAA 57.189 25.926 0.00 0.00 0.00 1.52
50 51 9.810545 AGATCGGTGAAAATCAAAAAGTAAAAA 57.189 25.926 0.00 0.00 0.00 1.94
88 89 2.015736 AAAAACCGCAAACATGTGCA 57.984 40.000 0.00 0.00 45.19 4.57
89 90 2.015736 AAAACCGCAAACATGTGCAA 57.984 40.000 0.00 0.00 45.19 4.08
90 91 2.015736 AAACCGCAAACATGTGCAAA 57.984 40.000 0.00 0.00 45.19 3.68
91 92 2.015736 AACCGCAAACATGTGCAAAA 57.984 40.000 0.00 0.00 45.19 2.44
92 93 2.015736 ACCGCAAACATGTGCAAAAA 57.984 40.000 0.00 0.00 45.19 1.94
111 112 4.590850 AAAAACCAAATCCAGAGTCAGC 57.409 40.909 0.00 0.00 0.00 4.26
112 113 1.813513 AACCAAATCCAGAGTCAGCG 58.186 50.000 0.00 0.00 0.00 5.18
113 114 0.687354 ACCAAATCCAGAGTCAGCGT 59.313 50.000 0.00 0.00 0.00 5.07
114 115 1.338200 ACCAAATCCAGAGTCAGCGTC 60.338 52.381 0.00 0.00 0.00 5.19
115 116 1.363744 CAAATCCAGAGTCAGCGTCC 58.636 55.000 0.00 0.00 0.00 4.79
116 117 0.976641 AAATCCAGAGTCAGCGTCCA 59.023 50.000 0.00 0.00 0.00 4.02
117 118 0.534412 AATCCAGAGTCAGCGTCCAG 59.466 55.000 0.00 0.00 0.00 3.86
118 119 0.323816 ATCCAGAGTCAGCGTCCAGA 60.324 55.000 0.00 0.00 0.00 3.86
119 120 0.962855 TCCAGAGTCAGCGTCCAGAG 60.963 60.000 0.00 0.00 0.00 3.35
120 121 1.153862 CAGAGTCAGCGTCCAGAGC 60.154 63.158 0.00 0.00 0.00 4.09
121 122 2.202544 GAGTCAGCGTCCAGAGCG 60.203 66.667 0.00 0.00 40.04 5.03
129 130 4.664677 GTCCAGAGCGCCACACGT 62.665 66.667 2.29 0.00 46.11 4.49
130 131 4.662961 TCCAGAGCGCCACACGTG 62.663 66.667 15.48 15.48 46.11 4.49
131 132 4.662961 CCAGAGCGCCACACGTGA 62.663 66.667 25.01 0.00 46.11 4.35
132 133 3.406361 CAGAGCGCCACACGTGAC 61.406 66.667 25.01 10.19 46.11 3.67
133 134 3.911698 AGAGCGCCACACGTGACA 61.912 61.111 25.01 0.00 46.11 3.58
134 135 3.406361 GAGCGCCACACGTGACAG 61.406 66.667 25.01 11.12 46.11 3.51
139 140 4.969196 CCACACGTGACAGCGGCT 62.969 66.667 25.01 0.00 35.98 5.52
140 141 3.705638 CACACGTGACAGCGGCTG 61.706 66.667 27.43 27.43 37.52 4.85
141 142 3.911698 ACACGTGACAGCGGCTGA 61.912 61.111 34.70 12.27 35.18 4.26
142 143 3.108289 CACGTGACAGCGGCTGAG 61.108 66.667 34.70 22.72 35.18 3.35
143 144 3.295273 ACGTGACAGCGGCTGAGA 61.295 61.111 34.70 17.92 35.18 3.27
144 145 2.505777 CGTGACAGCGGCTGAGAG 60.506 66.667 34.70 18.42 35.18 3.20
145 146 2.813042 GTGACAGCGGCTGAGAGC 60.813 66.667 34.70 19.96 41.46 4.09
146 147 4.426112 TGACAGCGGCTGAGAGCG 62.426 66.667 34.70 9.13 43.62 5.03
155 156 3.485431 CTGAGAGCGCGCCAAGTG 61.485 66.667 30.33 12.20 0.00 3.16
156 157 3.921767 CTGAGAGCGCGCCAAGTGA 62.922 63.158 30.33 6.19 0.00 3.41
157 158 3.482783 GAGAGCGCGCCAAGTGAC 61.483 66.667 30.33 10.54 0.00 3.67
163 164 4.077188 GCGCCAAGTGACGTGCTC 62.077 66.667 0.00 0.00 32.74 4.26
164 165 2.356313 CGCCAAGTGACGTGCTCT 60.356 61.111 0.00 0.00 0.00 4.09
165 166 2.375766 CGCCAAGTGACGTGCTCTC 61.376 63.158 0.00 0.00 0.00 3.20
166 167 1.300931 GCCAAGTGACGTGCTCTCA 60.301 57.895 0.00 0.00 0.00 3.27
167 168 1.287730 GCCAAGTGACGTGCTCTCAG 61.288 60.000 0.00 0.00 0.00 3.35
168 169 1.287730 CCAAGTGACGTGCTCTCAGC 61.288 60.000 0.00 0.00 42.82 4.26
169 170 1.005630 AAGTGACGTGCTCTCAGCC 60.006 57.895 0.00 0.00 41.51 4.85
170 171 2.433318 GTGACGTGCTCTCAGCCC 60.433 66.667 0.00 0.00 41.51 5.19
171 172 2.917227 TGACGTGCTCTCAGCCCA 60.917 61.111 0.00 0.00 41.51 5.36
172 173 2.433318 GACGTGCTCTCAGCCCAC 60.433 66.667 0.00 0.00 41.51 4.61
173 174 2.919856 ACGTGCTCTCAGCCCACT 60.920 61.111 0.00 0.00 41.51 4.00
174 175 2.125753 CGTGCTCTCAGCCCACTC 60.126 66.667 0.00 0.00 41.51 3.51
175 176 2.267324 GTGCTCTCAGCCCACTCC 59.733 66.667 0.00 0.00 41.51 3.85
176 177 2.203832 TGCTCTCAGCCCACTCCA 60.204 61.111 0.00 0.00 41.51 3.86
177 178 1.842920 TGCTCTCAGCCCACTCCAA 60.843 57.895 0.00 0.00 41.51 3.53
178 179 1.376466 GCTCTCAGCCCACTCCAAA 59.624 57.895 0.00 0.00 34.48 3.28
179 180 0.034670 GCTCTCAGCCCACTCCAAAT 60.035 55.000 0.00 0.00 34.48 2.32
180 181 1.747709 CTCTCAGCCCACTCCAAATG 58.252 55.000 0.00 0.00 0.00 2.32
181 182 1.280133 CTCTCAGCCCACTCCAAATGA 59.720 52.381 0.00 0.00 0.00 2.57
182 183 1.918262 TCTCAGCCCACTCCAAATGAT 59.082 47.619 0.00 0.00 0.00 2.45
183 184 2.092753 TCTCAGCCCACTCCAAATGATC 60.093 50.000 0.00 0.00 0.00 2.92
184 185 1.019673 CAGCCCACTCCAAATGATCG 58.980 55.000 0.00 0.00 0.00 3.69
185 186 0.620556 AGCCCACTCCAAATGATCGT 59.379 50.000 0.00 0.00 0.00 3.73
186 187 1.004745 AGCCCACTCCAAATGATCGTT 59.995 47.619 0.00 0.00 0.00 3.85
187 188 1.133025 GCCCACTCCAAATGATCGTTG 59.867 52.381 0.00 1.43 0.00 4.10
188 189 1.745087 CCCACTCCAAATGATCGTTGG 59.255 52.381 17.88 17.88 45.89 3.77
189 190 1.745087 CCACTCCAAATGATCGTTGGG 59.255 52.381 21.68 18.54 44.82 4.12
190 191 2.617788 CCACTCCAAATGATCGTTGGGA 60.618 50.000 20.64 20.64 44.82 4.37
191 192 2.679837 CACTCCAAATGATCGTTGGGAG 59.320 50.000 35.46 35.46 44.82 4.30
192 193 2.292267 CTCCAAATGATCGTTGGGAGG 58.708 52.381 32.05 19.11 44.82 4.30
193 194 0.740737 CCAAATGATCGTTGGGAGGC 59.259 55.000 15.25 0.00 41.64 4.70
194 195 1.683011 CCAAATGATCGTTGGGAGGCT 60.683 52.381 15.25 0.00 41.64 4.58
195 196 1.672881 CAAATGATCGTTGGGAGGCTC 59.327 52.381 5.78 5.78 0.00 4.70
196 197 1.207791 AATGATCGTTGGGAGGCTCT 58.792 50.000 15.23 0.00 0.00 4.09
197 198 0.755686 ATGATCGTTGGGAGGCTCTC 59.244 55.000 15.23 11.70 0.00 3.20
198 199 1.066587 GATCGTTGGGAGGCTCTCG 59.933 63.158 15.23 13.61 0.00 4.04
199 200 1.379977 ATCGTTGGGAGGCTCTCGA 60.380 57.895 15.23 17.88 0.00 4.04
200 201 0.970937 ATCGTTGGGAGGCTCTCGAA 60.971 55.000 15.23 4.84 0.00 3.71
201 202 1.153745 CGTTGGGAGGCTCTCGAAG 60.154 63.158 15.23 8.96 0.00 3.79
202 203 1.595993 CGTTGGGAGGCTCTCGAAGA 61.596 60.000 15.23 0.00 0.00 2.87
203 204 0.608640 GTTGGGAGGCTCTCGAAGAA 59.391 55.000 15.23 0.00 34.09 2.52
204 205 0.898320 TTGGGAGGCTCTCGAAGAAG 59.102 55.000 15.23 0.00 34.09 2.85
205 206 1.142965 GGGAGGCTCTCGAAGAAGC 59.857 63.158 15.23 5.73 38.99 3.86
206 207 1.608717 GGGAGGCTCTCGAAGAAGCA 61.609 60.000 15.23 0.00 40.56 3.91
207 208 0.459411 GGAGGCTCTCGAAGAAGCAC 60.459 60.000 15.23 8.41 40.56 4.40
208 209 0.530288 GAGGCTCTCGAAGAAGCACT 59.470 55.000 7.40 9.43 40.56 4.40
209 210 0.530288 AGGCTCTCGAAGAAGCACTC 59.470 55.000 14.00 0.45 40.56 3.51
210 211 0.800300 GGCTCTCGAAGAAGCACTCG 60.800 60.000 14.00 0.00 40.56 4.18
211 212 0.109504 GCTCTCGAAGAAGCACTCGT 60.110 55.000 8.73 0.00 39.32 4.18
212 213 1.889891 CTCTCGAAGAAGCACTCGTC 58.110 55.000 0.00 0.00 34.09 4.20
213 214 1.197949 CTCTCGAAGAAGCACTCGTCA 59.802 52.381 0.00 0.00 34.09 4.35
214 215 1.813178 TCTCGAAGAAGCACTCGTCAT 59.187 47.619 0.00 0.00 34.09 3.06
215 216 2.159503 TCTCGAAGAAGCACTCGTCATC 60.160 50.000 0.00 0.00 34.09 2.92
216 217 1.813178 TCGAAGAAGCACTCGTCATCT 59.187 47.619 0.00 0.00 32.54 2.90
217 218 3.007635 TCGAAGAAGCACTCGTCATCTA 58.992 45.455 0.00 0.00 32.54 1.98
218 219 3.064134 TCGAAGAAGCACTCGTCATCTAG 59.936 47.826 0.00 0.00 32.54 2.43
219 220 3.181505 CGAAGAAGCACTCGTCATCTAGT 60.182 47.826 0.00 0.00 32.54 2.57
220 221 4.673061 CGAAGAAGCACTCGTCATCTAGTT 60.673 45.833 0.00 0.00 32.54 2.24
221 222 4.103365 AGAAGCACTCGTCATCTAGTTG 57.897 45.455 0.00 0.00 0.00 3.16
222 223 3.759086 AGAAGCACTCGTCATCTAGTTGA 59.241 43.478 0.00 0.00 0.00 3.18
223 224 4.400884 AGAAGCACTCGTCATCTAGTTGAT 59.599 41.667 6.77 0.00 35.40 2.57
224 225 4.300189 AGCACTCGTCATCTAGTTGATC 57.700 45.455 6.77 1.26 32.05 2.92
225 226 3.696548 AGCACTCGTCATCTAGTTGATCA 59.303 43.478 6.77 0.00 32.05 2.92
226 227 3.794028 GCACTCGTCATCTAGTTGATCAC 59.206 47.826 6.77 0.00 32.05 3.06
227 228 4.675408 GCACTCGTCATCTAGTTGATCACA 60.675 45.833 6.77 0.00 32.05 3.58
228 229 5.586339 CACTCGTCATCTAGTTGATCACAT 58.414 41.667 6.77 0.00 32.05 3.21
229 230 6.729187 CACTCGTCATCTAGTTGATCACATA 58.271 40.000 6.77 0.00 32.05 2.29
230 231 6.855403 CACTCGTCATCTAGTTGATCACATAG 59.145 42.308 6.77 0.69 32.05 2.23
231 232 5.763088 TCGTCATCTAGTTGATCACATAGC 58.237 41.667 6.77 0.00 32.05 2.97
232 233 5.299279 TCGTCATCTAGTTGATCACATAGCA 59.701 40.000 6.77 0.00 32.05 3.49
233 234 5.400782 CGTCATCTAGTTGATCACATAGCAC 59.599 44.000 6.77 0.00 32.05 4.40
234 235 5.694006 GTCATCTAGTTGATCACATAGCACC 59.306 44.000 6.77 0.00 32.05 5.01
235 236 4.672587 TCTAGTTGATCACATAGCACCC 57.327 45.455 0.00 0.00 0.00 4.61
236 237 4.290093 TCTAGTTGATCACATAGCACCCT 58.710 43.478 0.00 0.00 0.00 4.34
237 238 5.454966 TCTAGTTGATCACATAGCACCCTA 58.545 41.667 0.00 0.00 0.00 3.53
238 239 6.077993 TCTAGTTGATCACATAGCACCCTAT 58.922 40.000 0.00 0.00 34.60 2.57
239 240 5.220710 AGTTGATCACATAGCACCCTATC 57.779 43.478 0.00 0.00 31.92 2.08
240 241 4.904251 AGTTGATCACATAGCACCCTATCT 59.096 41.667 0.00 0.00 31.92 1.98
241 242 6.077993 AGTTGATCACATAGCACCCTATCTA 58.922 40.000 0.00 0.00 31.92 1.98
242 243 6.554982 AGTTGATCACATAGCACCCTATCTAA 59.445 38.462 0.00 0.00 31.92 2.10
243 244 6.994421 TGATCACATAGCACCCTATCTAAA 57.006 37.500 0.00 0.00 31.92 1.85
244 245 6.759272 TGATCACATAGCACCCTATCTAAAC 58.241 40.000 0.00 0.00 31.92 2.01
245 246 6.554982 TGATCACATAGCACCCTATCTAAACT 59.445 38.462 0.00 0.00 31.92 2.66
246 247 6.161855 TCACATAGCACCCTATCTAAACTG 57.838 41.667 0.00 0.00 31.92 3.16
247 248 5.070446 TCACATAGCACCCTATCTAAACTGG 59.930 44.000 0.00 0.00 31.92 4.00
248 249 4.969359 ACATAGCACCCTATCTAAACTGGT 59.031 41.667 0.00 0.00 31.92 4.00
249 250 6.041637 CACATAGCACCCTATCTAAACTGGTA 59.958 42.308 0.00 0.00 31.92 3.25
250 251 6.787957 ACATAGCACCCTATCTAAACTGGTAT 59.212 38.462 0.00 0.00 31.92 2.73
251 252 5.552870 AGCACCCTATCTAAACTGGTATG 57.447 43.478 0.00 0.00 0.00 2.39
252 253 4.969359 AGCACCCTATCTAAACTGGTATGT 59.031 41.667 0.00 0.00 0.00 2.29
253 254 5.057149 GCACCCTATCTAAACTGGTATGTG 58.943 45.833 0.00 0.00 0.00 3.21
254 255 5.163343 GCACCCTATCTAAACTGGTATGTGA 60.163 44.000 0.00 0.00 0.00 3.58
255 256 6.464465 GCACCCTATCTAAACTGGTATGTGAT 60.464 42.308 0.00 0.00 0.00 3.06
256 257 7.509546 CACCCTATCTAAACTGGTATGTGATT 58.490 38.462 0.00 0.00 0.00 2.57
257 258 8.647796 CACCCTATCTAAACTGGTATGTGATTA 58.352 37.037 0.00 0.00 0.00 1.75
258 259 9.220906 ACCCTATCTAAACTGGTATGTGATTAA 57.779 33.333 0.00 0.00 0.00 1.40
283 284 4.385478 TTTTTAGGGGAATGTTACGGGT 57.615 40.909 0.00 0.00 0.00 5.28
284 285 4.385478 TTTTAGGGGAATGTTACGGGTT 57.615 40.909 0.00 0.00 0.00 4.11
285 286 4.385478 TTTAGGGGAATGTTACGGGTTT 57.615 40.909 0.00 0.00 0.00 3.27
286 287 2.984435 AGGGGAATGTTACGGGTTTT 57.016 45.000 0.00 0.00 0.00 2.43
287 288 3.247948 AGGGGAATGTTACGGGTTTTT 57.752 42.857 0.00 0.00 0.00 1.94
338 339 6.428673 GTGATTAACGTAACAAACCTTTGC 57.571 37.500 0.00 0.00 41.79 3.68
1185 1194 4.552365 CCAGATGTGCCCGGCGAT 62.552 66.667 9.30 0.00 0.00 4.58
1474 1564 1.599542 AGTTCGTGCTGTTTTCTGCTC 59.400 47.619 0.00 0.00 43.59 4.26
1756 1862 6.282930 ACCTTTCATTTTGTCCTTTGTCATG 58.717 36.000 0.00 0.00 0.00 3.07
2087 3100 3.592059 ACCAAATGCATTGAATCTGTGC 58.408 40.909 13.82 4.03 41.85 4.57
2195 3260 1.344763 CATACAGGGCCAGCCTACTAC 59.655 57.143 6.18 0.00 36.10 2.73
2413 3490 6.979238 ACATCCTTTCTAGCAATAGTTCGTAC 59.021 38.462 0.00 0.00 0.00 3.67
2793 3905 2.302445 CAAATGAACCTTTCCATGGCCA 59.698 45.455 8.56 8.56 0.00 5.36
3188 4314 0.268869 TGTGAGGGCCTAGATCCCAT 59.731 55.000 5.73 2.51 46.36 4.00
3230 4425 9.949174 TTGTATGGATCACGAATATTTTCATTG 57.051 29.630 0.00 0.00 0.00 2.82
3573 4770 0.600057 TGCAGCAAAACACACACACA 59.400 45.000 0.00 0.00 0.00 3.72
3574 4771 0.991344 GCAGCAAAACACACACACAC 59.009 50.000 0.00 0.00 0.00 3.82
3578 4775 1.534028 CAAAACACACACACACGAGC 58.466 50.000 0.00 0.00 0.00 5.03
3663 4860 0.593128 AACTTGGTTCACATGAGCGC 59.407 50.000 0.00 0.00 0.00 5.92
3768 4965 2.832643 ATCCATGGCACCAAATCTCA 57.167 45.000 6.96 0.00 0.00 3.27
3972 5173 3.891977 CGAAAGGATGATAGTGGAGGAGA 59.108 47.826 0.00 0.00 0.00 3.71
3973 5174 4.342378 CGAAAGGATGATAGTGGAGGAGAA 59.658 45.833 0.00 0.00 0.00 2.87
3974 5175 5.508825 CGAAAGGATGATAGTGGAGGAGAAG 60.509 48.000 0.00 0.00 0.00 2.85
4040 5241 1.133513 GCTCATGAGGGGAGAGAGAGA 60.134 57.143 23.89 0.00 34.24 3.10
4053 5254 4.593206 GGAGAGAGAGAGAGAGATGGAGTA 59.407 50.000 0.00 0.00 0.00 2.59
4086 5287 2.097038 CAAAGGCGGAGTGAGCGAG 61.097 63.158 0.00 0.00 35.00 5.03
4096 5297 0.526662 AGTGAGCGAGTTTAGGGTCG 59.473 55.000 0.00 0.00 39.25 4.79
4153 5354 7.554118 AGTTACCTGGTTGATTGATTGTATCTG 59.446 37.037 3.84 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 8.662141 CCGATCTTTCTTAGTTTTCGGATAAAA 58.338 33.333 2.44 0.00 40.81 1.52
5 6 7.820872 ACCGATCTTTCTTAGTTTTCGGATAAA 59.179 33.333 14.62 0.00 40.81 1.40
6 7 7.277098 CACCGATCTTTCTTAGTTTTCGGATAA 59.723 37.037 14.62 0.00 40.81 1.75
7 8 6.755141 CACCGATCTTTCTTAGTTTTCGGATA 59.245 38.462 14.62 0.00 40.81 2.59
8 9 5.581085 CACCGATCTTTCTTAGTTTTCGGAT 59.419 40.000 14.62 0.00 40.81 4.18
9 10 4.927425 CACCGATCTTTCTTAGTTTTCGGA 59.073 41.667 14.62 0.00 40.81 4.55
10 11 4.927425 TCACCGATCTTTCTTAGTTTTCGG 59.073 41.667 6.89 6.89 42.36 4.30
11 12 6.462073 TTCACCGATCTTTCTTAGTTTTCG 57.538 37.500 0.00 0.00 0.00 3.46
12 13 9.331106 GATTTTCACCGATCTTTCTTAGTTTTC 57.669 33.333 0.00 0.00 0.00 2.29
13 14 8.846211 TGATTTTCACCGATCTTTCTTAGTTTT 58.154 29.630 0.00 0.00 0.00 2.43
14 15 8.391075 TGATTTTCACCGATCTTTCTTAGTTT 57.609 30.769 0.00 0.00 0.00 2.66
15 16 7.979444 TGATTTTCACCGATCTTTCTTAGTT 57.021 32.000 0.00 0.00 0.00 2.24
16 17 7.979444 TTGATTTTCACCGATCTTTCTTAGT 57.021 32.000 0.00 0.00 0.00 2.24
17 18 9.677567 TTTTTGATTTTCACCGATCTTTCTTAG 57.322 29.630 0.00 0.00 0.00 2.18
18 19 9.677567 CTTTTTGATTTTCACCGATCTTTCTTA 57.322 29.630 0.00 0.00 0.00 2.10
19 20 8.197439 ACTTTTTGATTTTCACCGATCTTTCTT 58.803 29.630 0.00 0.00 0.00 2.52
20 21 7.716612 ACTTTTTGATTTTCACCGATCTTTCT 58.283 30.769 0.00 0.00 0.00 2.52
21 22 7.930513 ACTTTTTGATTTTCACCGATCTTTC 57.069 32.000 0.00 0.00 0.00 2.62
22 23 9.810545 TTTACTTTTTGATTTTCACCGATCTTT 57.189 25.926 0.00 0.00 0.00 2.52
23 24 9.810545 TTTTACTTTTTGATTTTCACCGATCTT 57.189 25.926 0.00 0.00 0.00 2.40
24 25 9.810545 TTTTTACTTTTTGATTTTCACCGATCT 57.189 25.926 0.00 0.00 0.00 2.75
69 70 2.015736 TGCACATGTTTGCGGTTTTT 57.984 40.000 0.00 0.00 46.20 1.94
70 71 2.015736 TTGCACATGTTTGCGGTTTT 57.984 40.000 0.00 0.00 46.20 2.43
71 72 2.015736 TTTGCACATGTTTGCGGTTT 57.984 40.000 0.00 0.00 46.20 3.27
72 73 2.015736 TTTTGCACATGTTTGCGGTT 57.984 40.000 0.00 0.00 46.20 4.44
73 74 2.015736 TTTTTGCACATGTTTGCGGT 57.984 40.000 0.00 0.00 46.20 5.68
90 91 3.004734 CGCTGACTCTGGATTTGGTTTTT 59.995 43.478 0.00 0.00 0.00 1.94
91 92 2.554032 CGCTGACTCTGGATTTGGTTTT 59.446 45.455 0.00 0.00 0.00 2.43
92 93 2.154462 CGCTGACTCTGGATTTGGTTT 58.846 47.619 0.00 0.00 0.00 3.27
93 94 1.072331 ACGCTGACTCTGGATTTGGTT 59.928 47.619 0.00 0.00 0.00 3.67
94 95 0.687354 ACGCTGACTCTGGATTTGGT 59.313 50.000 0.00 0.00 0.00 3.67
95 96 1.363744 GACGCTGACTCTGGATTTGG 58.636 55.000 0.00 0.00 0.00 3.28
96 97 1.338105 TGGACGCTGACTCTGGATTTG 60.338 52.381 0.00 0.00 0.00 2.32
97 98 0.976641 TGGACGCTGACTCTGGATTT 59.023 50.000 0.00 0.00 0.00 2.17
98 99 0.534412 CTGGACGCTGACTCTGGATT 59.466 55.000 0.00 0.00 0.00 3.01
99 100 0.323816 TCTGGACGCTGACTCTGGAT 60.324 55.000 0.00 0.00 0.00 3.41
100 101 0.962855 CTCTGGACGCTGACTCTGGA 60.963 60.000 0.00 0.00 0.00 3.86
101 102 1.510383 CTCTGGACGCTGACTCTGG 59.490 63.158 0.00 0.00 0.00 3.86
102 103 1.153862 GCTCTGGACGCTGACTCTG 60.154 63.158 0.00 0.00 0.00 3.35
103 104 2.695759 CGCTCTGGACGCTGACTCT 61.696 63.158 0.00 0.00 0.00 3.24
104 105 2.202544 CGCTCTGGACGCTGACTC 60.203 66.667 0.00 0.00 0.00 3.36
112 113 4.664677 ACGTGTGGCGCTCTGGAC 62.665 66.667 7.64 0.00 46.11 4.02
113 114 4.662961 CACGTGTGGCGCTCTGGA 62.663 66.667 7.64 0.00 46.11 3.86
114 115 4.662961 TCACGTGTGGCGCTCTGG 62.663 66.667 16.51 0.00 46.11 3.86
115 116 3.406361 GTCACGTGTGGCGCTCTG 61.406 66.667 16.51 1.26 46.11 3.35
116 117 3.848347 CTGTCACGTGTGGCGCTCT 62.848 63.158 16.51 0.00 46.11 4.09
117 118 3.406361 CTGTCACGTGTGGCGCTC 61.406 66.667 16.51 1.21 46.11 5.03
122 123 4.969196 AGCCGCTGTCACGTGTGG 62.969 66.667 16.51 7.16 36.95 4.17
123 124 3.705638 CAGCCGCTGTCACGTGTG 61.706 66.667 16.51 8.39 0.00 3.82
124 125 3.848347 CTCAGCCGCTGTCACGTGT 62.848 63.158 19.77 0.00 32.61 4.49
125 126 3.108289 CTCAGCCGCTGTCACGTG 61.108 66.667 19.77 9.94 32.61 4.49
126 127 3.274455 CTCTCAGCCGCTGTCACGT 62.274 63.158 19.77 0.00 32.61 4.49
127 128 2.505777 CTCTCAGCCGCTGTCACG 60.506 66.667 19.77 7.64 32.61 4.35
128 129 2.813042 GCTCTCAGCCGCTGTCAC 60.813 66.667 19.77 5.17 34.48 3.67
129 130 4.426112 CGCTCTCAGCCGCTGTCA 62.426 66.667 19.77 7.02 38.18 3.58
138 139 3.485431 CACTTGGCGCGCTCTCAG 61.485 66.667 32.29 21.96 0.00 3.35
139 140 3.989787 TCACTTGGCGCGCTCTCA 61.990 61.111 32.29 18.24 0.00 3.27
140 141 3.482783 GTCACTTGGCGCGCTCTC 61.483 66.667 32.29 15.45 0.00 3.20
148 149 1.287730 CTGAGAGCACGTCACTTGGC 61.288 60.000 0.00 0.00 0.00 4.52
149 150 1.287730 GCTGAGAGCACGTCACTTGG 61.288 60.000 0.00 0.00 41.89 3.61
150 151 1.287730 GGCTGAGAGCACGTCACTTG 61.288 60.000 0.00 0.00 44.75 3.16
151 152 1.005630 GGCTGAGAGCACGTCACTT 60.006 57.895 0.00 0.00 44.75 3.16
152 153 2.653702 GGCTGAGAGCACGTCACT 59.346 61.111 0.00 0.00 44.75 3.41
153 154 2.433318 GGGCTGAGAGCACGTCAC 60.433 66.667 0.00 0.00 44.75 3.67
159 160 1.418097 TTTGGAGTGGGCTGAGAGCA 61.418 55.000 0.00 0.00 44.75 4.26
160 161 0.034670 ATTTGGAGTGGGCTGAGAGC 60.035 55.000 0.00 0.00 41.46 4.09
161 162 1.280133 TCATTTGGAGTGGGCTGAGAG 59.720 52.381 0.00 0.00 0.00 3.20
162 163 1.361204 TCATTTGGAGTGGGCTGAGA 58.639 50.000 0.00 0.00 0.00 3.27
163 164 2.295885 GATCATTTGGAGTGGGCTGAG 58.704 52.381 0.00 0.00 0.00 3.35
164 165 1.407299 CGATCATTTGGAGTGGGCTGA 60.407 52.381 0.00 0.00 0.00 4.26
165 166 1.019673 CGATCATTTGGAGTGGGCTG 58.980 55.000 0.00 0.00 0.00 4.85
166 167 0.620556 ACGATCATTTGGAGTGGGCT 59.379 50.000 0.00 0.00 0.00 5.19
167 168 1.133025 CAACGATCATTTGGAGTGGGC 59.867 52.381 0.00 0.00 0.00 5.36
168 169 1.745087 CCAACGATCATTTGGAGTGGG 59.255 52.381 15.29 0.00 45.69 4.61
169 170 1.745087 CCCAACGATCATTTGGAGTGG 59.255 52.381 20.16 4.36 45.69 4.00
170 171 2.679837 CTCCCAACGATCATTTGGAGTG 59.320 50.000 20.16 10.15 45.69 3.51
171 172 2.356125 CCTCCCAACGATCATTTGGAGT 60.356 50.000 17.50 0.00 45.69 3.85
172 173 2.292267 CCTCCCAACGATCATTTGGAG 58.708 52.381 20.16 16.92 45.69 3.86
173 174 1.681780 GCCTCCCAACGATCATTTGGA 60.682 52.381 20.16 9.05 45.69 3.53
174 175 0.740737 GCCTCCCAACGATCATTTGG 59.259 55.000 13.93 13.93 42.90 3.28
175 176 1.672881 GAGCCTCCCAACGATCATTTG 59.327 52.381 0.00 0.00 0.00 2.32
176 177 1.561542 AGAGCCTCCCAACGATCATTT 59.438 47.619 0.00 0.00 0.00 2.32
177 178 1.139853 GAGAGCCTCCCAACGATCATT 59.860 52.381 0.00 0.00 0.00 2.57
178 179 0.755686 GAGAGCCTCCCAACGATCAT 59.244 55.000 0.00 0.00 0.00 2.45
179 180 1.667154 CGAGAGCCTCCCAACGATCA 61.667 60.000 0.00 0.00 0.00 2.92
180 181 1.066587 CGAGAGCCTCCCAACGATC 59.933 63.158 0.00 0.00 0.00 3.69
181 182 0.970937 TTCGAGAGCCTCCCAACGAT 60.971 55.000 0.00 0.00 0.00 3.73
182 183 1.595993 CTTCGAGAGCCTCCCAACGA 61.596 60.000 0.00 0.00 0.00 3.85
183 184 1.153745 CTTCGAGAGCCTCCCAACG 60.154 63.158 0.00 0.00 0.00 4.10
184 185 0.608640 TTCTTCGAGAGCCTCCCAAC 59.391 55.000 0.00 0.00 0.00 3.77
185 186 0.898320 CTTCTTCGAGAGCCTCCCAA 59.102 55.000 0.00 0.00 0.00 4.12
186 187 1.608717 GCTTCTTCGAGAGCCTCCCA 61.609 60.000 6.32 0.00 0.00 4.37
187 188 1.142965 GCTTCTTCGAGAGCCTCCC 59.857 63.158 6.32 0.00 0.00 4.30
188 189 0.459411 GTGCTTCTTCGAGAGCCTCC 60.459 60.000 12.91 1.18 0.00 4.30
189 190 0.530288 AGTGCTTCTTCGAGAGCCTC 59.470 55.000 12.91 7.81 0.00 4.70
190 191 0.530288 GAGTGCTTCTTCGAGAGCCT 59.470 55.000 12.91 10.05 0.00 4.58
191 192 0.800300 CGAGTGCTTCTTCGAGAGCC 60.800 60.000 12.91 6.51 0.00 4.70
192 193 0.109504 ACGAGTGCTTCTTCGAGAGC 60.110 55.000 9.70 9.70 0.00 4.09
193 194 1.197949 TGACGAGTGCTTCTTCGAGAG 59.802 52.381 0.51 0.00 0.00 3.20
194 195 1.235724 TGACGAGTGCTTCTTCGAGA 58.764 50.000 0.51 0.00 0.00 4.04
195 196 2.159448 AGATGACGAGTGCTTCTTCGAG 60.159 50.000 0.51 0.00 0.00 4.04
196 197 1.813178 AGATGACGAGTGCTTCTTCGA 59.187 47.619 0.51 0.00 0.00 3.71
197 198 2.270275 AGATGACGAGTGCTTCTTCG 57.730 50.000 0.00 0.00 0.00 3.79
198 199 4.364415 ACTAGATGACGAGTGCTTCTTC 57.636 45.455 0.00 0.00 31.23 2.87
199 200 4.218635 TCAACTAGATGACGAGTGCTTCTT 59.781 41.667 0.00 0.00 32.67 2.52
200 201 3.759086 TCAACTAGATGACGAGTGCTTCT 59.241 43.478 0.00 0.00 32.67 2.85
201 202 4.098055 TCAACTAGATGACGAGTGCTTC 57.902 45.455 0.00 0.00 32.67 3.86
202 203 4.158579 TGATCAACTAGATGACGAGTGCTT 59.841 41.667 4.64 0.00 37.00 3.91
203 204 3.696548 TGATCAACTAGATGACGAGTGCT 59.303 43.478 4.64 0.00 37.00 4.40
204 205 3.794028 GTGATCAACTAGATGACGAGTGC 59.206 47.826 4.64 0.00 37.00 4.40
205 206 4.986622 TGTGATCAACTAGATGACGAGTG 58.013 43.478 4.64 0.00 42.92 3.51
206 207 5.843673 ATGTGATCAACTAGATGACGAGT 57.156 39.130 4.64 0.00 42.92 4.18
207 208 5.855925 GCTATGTGATCAACTAGATGACGAG 59.144 44.000 4.64 0.00 42.92 4.18
208 209 5.299279 TGCTATGTGATCAACTAGATGACGA 59.701 40.000 4.64 0.00 42.92 4.20
209 210 5.400782 GTGCTATGTGATCAACTAGATGACG 59.599 44.000 4.64 0.00 42.92 4.35
210 211 5.694006 GGTGCTATGTGATCAACTAGATGAC 59.306 44.000 4.64 0.91 40.74 3.06
211 212 5.221521 GGGTGCTATGTGATCAACTAGATGA 60.222 44.000 5.04 5.04 37.00 2.92
212 213 4.993584 GGGTGCTATGTGATCAACTAGATG 59.006 45.833 14.16 0.00 37.00 2.90
213 214 4.904251 AGGGTGCTATGTGATCAACTAGAT 59.096 41.667 14.16 0.00 40.48 1.98
214 215 4.290093 AGGGTGCTATGTGATCAACTAGA 58.710 43.478 14.16 0.00 0.00 2.43
215 216 4.679373 AGGGTGCTATGTGATCAACTAG 57.321 45.455 0.00 2.67 0.00 2.57
216 217 6.077993 AGATAGGGTGCTATGTGATCAACTA 58.922 40.000 0.00 0.00 0.00 2.24
217 218 4.904251 AGATAGGGTGCTATGTGATCAACT 59.096 41.667 0.00 0.00 0.00 3.16
218 219 5.220710 AGATAGGGTGCTATGTGATCAAC 57.779 43.478 0.00 0.00 0.00 3.18
219 220 6.994421 TTAGATAGGGTGCTATGTGATCAA 57.006 37.500 0.00 0.00 0.00 2.57
220 221 6.554982 AGTTTAGATAGGGTGCTATGTGATCA 59.445 38.462 0.00 0.00 0.00 2.92
221 222 6.870965 CAGTTTAGATAGGGTGCTATGTGATC 59.129 42.308 0.00 0.00 0.00 2.92
222 223 6.239714 CCAGTTTAGATAGGGTGCTATGTGAT 60.240 42.308 0.00 0.00 0.00 3.06
223 224 5.070446 CCAGTTTAGATAGGGTGCTATGTGA 59.930 44.000 0.00 0.00 0.00 3.58
224 225 5.163301 ACCAGTTTAGATAGGGTGCTATGTG 60.163 44.000 0.00 0.00 0.00 3.21
225 226 4.969359 ACCAGTTTAGATAGGGTGCTATGT 59.031 41.667 0.00 0.00 0.00 2.29
226 227 5.552870 ACCAGTTTAGATAGGGTGCTATG 57.447 43.478 0.00 0.00 0.00 2.23
227 228 6.787957 ACATACCAGTTTAGATAGGGTGCTAT 59.212 38.462 0.00 0.00 33.14 2.97
228 229 6.041637 CACATACCAGTTTAGATAGGGTGCTA 59.958 42.308 0.00 0.00 33.14 3.49
229 230 4.969359 ACATACCAGTTTAGATAGGGTGCT 59.031 41.667 0.00 0.00 33.14 4.40
230 231 5.057149 CACATACCAGTTTAGATAGGGTGC 58.943 45.833 0.00 0.00 33.14 5.01
231 232 6.479972 TCACATACCAGTTTAGATAGGGTG 57.520 41.667 0.00 0.00 33.14 4.61
232 233 7.691993 AATCACATACCAGTTTAGATAGGGT 57.308 36.000 0.00 0.00 35.66 4.34
262 263 4.385478 ACCCGTAACATTCCCCTAAAAA 57.615 40.909 0.00 0.00 0.00 1.94
263 264 4.385478 AACCCGTAACATTCCCCTAAAA 57.615 40.909 0.00 0.00 0.00 1.52
264 265 4.385478 AAACCCGTAACATTCCCCTAAA 57.615 40.909 0.00 0.00 0.00 1.85
265 266 4.385478 AAAACCCGTAACATTCCCCTAA 57.615 40.909 0.00 0.00 0.00 2.69
266 267 4.385478 AAAAACCCGTAACATTCCCCTA 57.615 40.909 0.00 0.00 0.00 3.53
267 268 2.984435 AAAACCCGTAACATTCCCCT 57.016 45.000 0.00 0.00 0.00 4.79
289 290 3.142028 ACATTCCCCTCTTCCCTCAAAAA 59.858 43.478 0.00 0.00 0.00 1.94
290 291 2.721906 ACATTCCCCTCTTCCCTCAAAA 59.278 45.455 0.00 0.00 0.00 2.44
291 292 2.358258 ACATTCCCCTCTTCCCTCAAA 58.642 47.619 0.00 0.00 0.00 2.69
292 293 2.059756 ACATTCCCCTCTTCCCTCAA 57.940 50.000 0.00 0.00 0.00 3.02
293 294 2.059756 AACATTCCCCTCTTCCCTCA 57.940 50.000 0.00 0.00 0.00 3.86
294 295 2.158943 CGTAACATTCCCCTCTTCCCTC 60.159 54.545 0.00 0.00 0.00 4.30
295 296 1.838077 CGTAACATTCCCCTCTTCCCT 59.162 52.381 0.00 0.00 0.00 4.20
296 297 1.558294 ACGTAACATTCCCCTCTTCCC 59.442 52.381 0.00 0.00 0.00 3.97
297 298 2.235402 TCACGTAACATTCCCCTCTTCC 59.765 50.000 0.00 0.00 0.00 3.46
298 299 3.604875 TCACGTAACATTCCCCTCTTC 57.395 47.619 0.00 0.00 0.00 2.87
299 300 4.569719 AATCACGTAACATTCCCCTCTT 57.430 40.909 0.00 0.00 0.00 2.85
300 301 5.425630 GTTAATCACGTAACATTCCCCTCT 58.574 41.667 0.00 0.00 34.66 3.69
301 302 4.269363 CGTTAATCACGTAACATTCCCCTC 59.731 45.833 0.00 0.00 44.49 4.30
699 700 4.278513 TGTTGGGGTTGGGCTCCG 62.279 66.667 0.00 0.00 42.03 4.63
799 800 5.930569 AGATTCCTTCTTACTTACGCGTTTT 59.069 36.000 20.78 4.37 0.00 2.43
1474 1564 6.183360 GCAAATATGGCTTCAGTCACAATTTG 60.183 38.462 18.34 18.34 42.76 2.32
2195 3260 7.176865 TCAATACAGAGGATTAGAAGGTATCCG 59.823 40.741 0.00 0.00 44.10 4.18
2413 3490 3.971150 TGTTCAAATAACAAGTTGGCCG 58.029 40.909 7.96 0.00 0.00 6.13
2793 3905 2.639839 GTCCCTAGTATCCATGCCACAT 59.360 50.000 0.00 0.00 0.00 3.21
2886 4009 3.279434 ACCTCAGACAAAAACCACTGAC 58.721 45.455 0.00 0.00 35.85 3.51
3504 4701 2.948979 CTGAAGGTTTGCCACACAAGTA 59.051 45.455 0.00 0.00 40.06 2.24
3507 4704 2.136298 TCTGAAGGTTTGCCACACAA 57.864 45.000 0.00 0.00 37.19 3.33
3647 4844 0.882484 TTCGCGCTCATGTGAACCAA 60.882 50.000 5.56 0.00 33.69 3.67
3663 4860 1.927174 GATCCAACGTCACCTGATTCG 59.073 52.381 0.00 0.00 0.00 3.34
3768 4965 3.454719 TGGATCAACCACATGTCCAAT 57.545 42.857 0.00 0.00 44.64 3.16
3972 5173 4.561254 TCCCTAGCTTTCTATCCTCCTT 57.439 45.455 0.00 0.00 0.00 3.36
3973 5174 4.171044 TCTTCCCTAGCTTTCTATCCTCCT 59.829 45.833 0.00 0.00 0.00 3.69
3974 5175 4.484912 TCTTCCCTAGCTTTCTATCCTCC 58.515 47.826 0.00 0.00 0.00 4.30
4040 5241 1.139256 TCGCGAGTACTCCATCTCTCT 59.861 52.381 17.23 0.00 0.00 3.10
4053 5254 1.067776 CCTTTGTCCTTACTCGCGAGT 60.068 52.381 40.17 40.17 45.02 4.18
4086 5287 4.096833 AGGAACACAAAAACGACCCTAAAC 59.903 41.667 0.00 0.00 0.00 2.01
4096 5297 1.754226 TGAGCCCAGGAACACAAAAAC 59.246 47.619 0.00 0.00 0.00 2.43
4153 5354 9.444600 TCTGGTTTACTAGACCAATAAAACATC 57.555 33.333 0.00 0.00 45.94 3.06


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

AutoCloner maintained by Alex Coulton.