Multiple sequence alignment - TraesCS3D01G103100

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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 TraesCS3D01G103100 chr3D 100.000 2375 0 0 1 2375 55531956 55534330 0.000000e+00 4386
1 TraesCS3D01G103100 chr3D 91.006 934 73 10 598 1526 55776835 55777762 0.000000e+00 1249
2 TraesCS3D01G103100 chr3D 90.100 697 63 5 746 1438 55941350 55942044 0.000000e+00 900
3 TraesCS3D01G103100 chr3D 91.737 593 40 7 598 1187 55768729 55769315 0.000000e+00 815
4 TraesCS3D01G103100 chr3D 90.593 489 30 8 257 731 55918213 55918699 3.330000e-178 634
5 TraesCS3D01G103100 chr3D 86.318 497 47 10 1534 2013 55778001 55778493 2.710000e-144 521
6 TraesCS3D01G103100 chr3D 83.430 519 65 10 533 1031 56570089 56570606 1.660000e-126 462
7 TraesCS3D01G103100 chr3D 86.411 287 34 3 1731 2015 55352701 55352418 2.290000e-80 309
8 TraesCS3D01G103100 chr3D 93.548 155 8 2 1 155 450884474 450884626 1.840000e-56 230
9 TraesCS3D01G103100 chr3D 94.000 150 9 0 1 150 22383452 22383601 6.600000e-56 228
10 TraesCS3D01G103100 chr3D 87.435 191 17 3 2 186 297396481 297396292 1.850000e-51 213
11 TraesCS3D01G103100 chr3D 84.404 218 22 5 2044 2261 55352291 55352086 1.110000e-48 204
12 TraesCS3D01G103100 chr3D 85.859 198 19 5 2 193 404142983 404142789 4.000000e-48 202
13 TraesCS3D01G103100 chr3D 91.667 108 8 1 2269 2375 55942998 55943105 5.290000e-32 148
14 TraesCS3D01G103100 chr3D 91.071 112 6 4 149 258 568484664 568484773 5.290000e-32 148
15 TraesCS3D01G103100 chr3D 89.381 113 7 3 2267 2375 55778891 55779002 1.140000e-28 137
16 TraesCS3D01G103100 chr3B 83.981 1673 187 37 356 2014 85356831 85355226 0.000000e+00 1530
17 TraesCS3D01G103100 chr3B 87.797 590 65 7 884 1469 86130012 86129426 0.000000e+00 684
18 TraesCS3D01G103100 chr3B 85.575 513 63 7 390 894 86130553 86130044 5.810000e-146 527
19 TraesCS3D01G103100 chr3B 85.473 296 37 4 1720 2014 86121922 86121632 1.070000e-78 303
20 TraesCS3D01G103100 chr3B 89.205 176 16 3 1 176 46103195 46103023 1.430000e-52 217
21 TraesCS3D01G103100 chr3B 82.273 220 25 5 2044 2261 85243091 85242884 6.750000e-41 178
22 TraesCS3D01G103100 chr3B 77.273 286 41 13 533 809 88985870 88986140 1.900000e-31 147
23 TraesCS3D01G103100 chr3A 89.929 1122 96 12 390 1497 65737015 65735897 0.000000e+00 1430
24 TraesCS3D01G103100 chr3A 89.121 239 20 5 1523 1759 65704249 65704015 2.310000e-75 292
25 TraesCS3D01G103100 chr3A 84.556 259 34 4 1762 2018 65703773 65703519 3.920000e-63 252
26 TraesCS3D01G103100 chr3A 87.097 217 16 4 2044 2260 65763296 65763500 3.950000e-58 235
27 TraesCS3D01G103100 chr3A 94.631 149 7 1 255 402 65737571 65737423 1.840000e-56 230
28 TraesCS3D01G103100 chr3A 94.040 151 9 0 1 151 477708315 477708165 1.840000e-56 230
29 TraesCS3D01G103100 chr3A 89.744 156 16 0 1860 2015 65763014 65763169 1.440000e-47 200
30 TraesCS3D01G103100 chr3A 82.949 217 25 5 2045 2261 65703394 65703190 4.030000e-43 185
31 TraesCS3D01G103100 chr4B 85.433 254 28 4 1 249 203081299 203081548 3.030000e-64 255
32 TraesCS3D01G103100 chr6A 94.702 151 8 0 1 151 458217859 458217709 3.950000e-58 235
33 TraesCS3D01G103100 chr7D 94.631 149 8 0 2 150 89521138 89521286 5.110000e-57 231
34 TraesCS3D01G103100 chr5D 95.238 105 5 0 154 258 562076240 562076136 1.460000e-37 167
35 TraesCS3D01G103100 chr5D 89.831 118 12 0 532 649 510128596 510128479 4.090000e-33 152
36 TraesCS3D01G103100 chr1B 94.286 105 6 0 154 258 392255044 392255148 6.790000e-36 161
37 TraesCS3D01G103100 chr7A 92.727 110 8 0 149 258 433363181 433363072 2.440000e-35 159
38 TraesCS3D01G103100 chr7A 92.727 110 4 4 154 261 643186950 643187057 3.160000e-34 156
39 TraesCS3D01G103100 chr1D 93.396 106 7 0 154 259 220154238 220154133 8.790000e-35 158
40 TraesCS3D01G103100 chr1D 92.661 109 8 0 154 262 445057324 445057432 8.790000e-35 158
41 TraesCS3D01G103100 chr1D 89.683 126 10 2 138 261 459839341 459839217 8.790000e-35 158
42 TraesCS3D01G103100 chr1A 91.892 111 9 0 149 259 295312772 295312882 3.160000e-34 156
43 TraesCS3D01G103100 chr5B 91.818 110 9 0 149 258 606238859 606238750 1.140000e-33 154
44 TraesCS3D01G103100 chr2D 90.909 110 10 0 149 258 635889280 635889389 5.290000e-32 148
45 TraesCS3D01G103100 chr2D 90.909 110 10 0 149 258 649222908 649222799 5.290000e-32 148
46 TraesCS3D01G103100 chr5A 88.889 117 13 0 532 648 638604221 638604105 6.840000e-31 145
47 TraesCS3D01G103100 chr7B 88.430 121 10 2 143 259 440148066 440148186 2.460000e-30 143


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 TraesCS3D01G103100 chr3D 55531956 55534330 2374 False 4386.000000 4386 100.000000 1 2375 1 chr3D.!!$F2 2374
1 TraesCS3D01G103100 chr3D 55768729 55769315 586 False 815.000000 815 91.737000 598 1187 1 chr3D.!!$F3 589
2 TraesCS3D01G103100 chr3D 55776835 55779002 2167 False 635.666667 1249 88.901667 598 2375 3 chr3D.!!$F8 1777
3 TraesCS3D01G103100 chr3D 55941350 55943105 1755 False 524.000000 900 90.883500 746 2375 2 chr3D.!!$F9 1629
4 TraesCS3D01G103100 chr3D 56570089 56570606 517 False 462.000000 462 83.430000 533 1031 1 chr3D.!!$F5 498
5 TraesCS3D01G103100 chr3D 55352086 55352701 615 True 256.500000 309 85.407500 1731 2261 2 chr3D.!!$R3 530
6 TraesCS3D01G103100 chr3B 85355226 85356831 1605 True 1530.000000 1530 83.981000 356 2014 1 chr3B.!!$R3 1658
7 TraesCS3D01G103100 chr3B 86129426 86130553 1127 True 605.500000 684 86.686000 390 1469 2 chr3B.!!$R5 1079
8 TraesCS3D01G103100 chr3A 65735897 65737571 1674 True 830.000000 1430 92.280000 255 1497 2 chr3A.!!$R3 1242
9 TraesCS3D01G103100 chr3A 65703190 65704249 1059 True 243.000000 292 85.542000 1523 2261 3 chr3A.!!$R2 738

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
809 1254 0.179086 GCTCTAGCAACTGGAGGAGC 60.179 60.0 9.61 0.0 39.1 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1794 2765 0.529773 GTTGATGGCCATGCATGCTG 60.53 55.0 26.56 13.98 0.0 4.41 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
33 34 9.750125 AAGTCTTTTTAGACATTTCAAATGGAC 57.250 29.630 14.70 8.92 41.02 4.02
34 35 9.136323 AGTCTTTTTAGACATTTCAAATGGACT 57.864 29.630 14.70 14.18 41.02 3.85
39 40 9.959749 TTTTAGACATTTCAAATGGACTACAAC 57.040 29.630 14.70 0.00 0.00 3.32
40 41 8.684386 TTAGACATTTCAAATGGACTACAACA 57.316 30.769 14.70 1.25 0.00 3.33
41 42 7.765695 AGACATTTCAAATGGACTACAACAT 57.234 32.000 14.70 0.00 0.00 2.71
42 43 8.862325 AGACATTTCAAATGGACTACAACATA 57.138 30.769 14.70 0.00 0.00 2.29
43 44 8.730680 AGACATTTCAAATGGACTACAACATAC 58.269 33.333 14.70 0.00 0.00 2.39
44 45 8.402798 ACATTTCAAATGGACTACAACATACA 57.597 30.769 14.70 0.00 0.00 2.29
45 46 8.514594 ACATTTCAAATGGACTACAACATACAG 58.485 33.333 14.70 0.00 0.00 2.74
46 47 8.729756 CATTTCAAATGGACTACAACATACAGA 58.270 33.333 1.73 0.00 0.00 3.41
47 48 8.862325 TTTCAAATGGACTACAACATACAGAT 57.138 30.769 0.00 0.00 0.00 2.90
48 49 7.848223 TCAAATGGACTACAACATACAGATG 57.152 36.000 0.00 0.00 39.16 2.90
50 51 8.536175 TCAAATGGACTACAACATACAGATGTA 58.464 33.333 0.00 0.00 45.93 2.29
51 52 9.330063 CAAATGGACTACAACATACAGATGTAT 57.670 33.333 0.00 0.00 45.93 2.29
91 92 6.166982 AGTGTAGATTCACTTAGTTTGCTCC 58.833 40.000 0.00 0.00 44.92 4.70
92 93 5.062308 GTGTAGATTCACTTAGTTTGCTCCG 59.938 44.000 0.00 0.00 35.68 4.63
93 94 4.273148 AGATTCACTTAGTTTGCTCCGT 57.727 40.909 0.00 0.00 0.00 4.69
94 95 5.401531 AGATTCACTTAGTTTGCTCCGTA 57.598 39.130 0.00 0.00 0.00 4.02
95 96 5.978814 AGATTCACTTAGTTTGCTCCGTAT 58.021 37.500 0.00 0.00 0.00 3.06
96 97 5.812642 AGATTCACTTAGTTTGCTCCGTATG 59.187 40.000 0.00 0.00 0.00 2.39
97 98 3.259064 TCACTTAGTTTGCTCCGTATGC 58.741 45.455 0.00 0.00 0.00 3.14
98 99 3.000041 CACTTAGTTTGCTCCGTATGCA 59.000 45.455 0.00 0.00 38.80 3.96
99 100 3.062639 CACTTAGTTTGCTCCGTATGCAG 59.937 47.826 0.00 0.00 41.71 4.41
100 101 3.262420 CTTAGTTTGCTCCGTATGCAGT 58.738 45.455 0.00 0.00 41.71 4.40
101 102 1.726853 AGTTTGCTCCGTATGCAGTC 58.273 50.000 0.00 0.00 41.71 3.51
102 103 1.001974 AGTTTGCTCCGTATGCAGTCA 59.998 47.619 0.00 0.00 41.71 3.41
103 104 1.128692 GTTTGCTCCGTATGCAGTCAC 59.871 52.381 0.00 0.00 41.71 3.67
104 105 0.608130 TTGCTCCGTATGCAGTCACT 59.392 50.000 0.00 0.00 41.71 3.41
105 106 0.608130 TGCTCCGTATGCAGTCACTT 59.392 50.000 0.00 0.00 35.31 3.16
106 107 1.002366 GCTCCGTATGCAGTCACTTG 58.998 55.000 0.00 0.00 0.00 3.16
107 108 1.673033 GCTCCGTATGCAGTCACTTGT 60.673 52.381 0.00 0.00 0.00 3.16
108 109 2.688507 CTCCGTATGCAGTCACTTGTT 58.311 47.619 0.00 0.00 0.00 2.83
109 110 2.412870 TCCGTATGCAGTCACTTGTTG 58.587 47.619 0.00 0.00 0.00 3.33
110 111 2.036604 TCCGTATGCAGTCACTTGTTGA 59.963 45.455 0.00 0.00 0.00 3.18
111 112 2.805671 CCGTATGCAGTCACTTGTTGAA 59.194 45.455 0.00 0.00 35.39 2.69
112 113 3.249799 CCGTATGCAGTCACTTGTTGAAA 59.750 43.478 0.00 0.00 35.39 2.69
113 114 4.083324 CCGTATGCAGTCACTTGTTGAAAT 60.083 41.667 0.00 0.00 35.39 2.17
114 115 5.082059 CGTATGCAGTCACTTGTTGAAATC 58.918 41.667 0.00 0.00 35.39 2.17
115 116 5.106948 CGTATGCAGTCACTTGTTGAAATCT 60.107 40.000 0.00 0.00 35.39 2.40
116 117 4.818534 TGCAGTCACTTGTTGAAATCTC 57.181 40.909 0.00 0.00 35.39 2.75
117 118 4.454678 TGCAGTCACTTGTTGAAATCTCT 58.545 39.130 0.00 0.00 35.39 3.10
118 119 4.274214 TGCAGTCACTTGTTGAAATCTCTG 59.726 41.667 0.00 0.00 35.39 3.35
119 120 4.512944 GCAGTCACTTGTTGAAATCTCTGA 59.487 41.667 0.00 0.00 35.39 3.27
120 121 5.008019 GCAGTCACTTGTTGAAATCTCTGAA 59.992 40.000 0.00 0.00 35.39 3.02
121 122 6.458751 GCAGTCACTTGTTGAAATCTCTGAAA 60.459 38.462 0.00 0.00 35.39 2.69
122 123 7.475015 CAGTCACTTGTTGAAATCTCTGAAAA 58.525 34.615 0.00 0.00 35.39 2.29
123 124 7.642978 CAGTCACTTGTTGAAATCTCTGAAAAG 59.357 37.037 0.00 0.00 35.39 2.27
124 125 7.554118 AGTCACTTGTTGAAATCTCTGAAAAGA 59.446 33.333 0.00 0.00 35.39 2.52
125 126 7.641802 GTCACTTGTTGAAATCTCTGAAAAGAC 59.358 37.037 0.00 0.00 35.39 3.01
126 127 7.554118 TCACTTGTTGAAATCTCTGAAAAGACT 59.446 33.333 0.00 0.00 0.00 3.24
127 128 8.186821 CACTTGTTGAAATCTCTGAAAAGACTT 58.813 33.333 0.00 0.00 0.00 3.01
128 129 9.396022 ACTTGTTGAAATCTCTGAAAAGACTTA 57.604 29.630 0.00 0.00 0.00 2.24
139 140 9.449719 TCTCTGAAAAGACTTATATTTGGGAAC 57.550 33.333 0.00 0.00 0.00 3.62
140 141 9.231297 CTCTGAAAAGACTTATATTTGGGAACA 57.769 33.333 0.00 0.00 39.83 3.18
141 142 9.231297 TCTGAAAAGACTTATATTTGGGAACAG 57.769 33.333 0.00 0.00 44.54 3.16
142 143 9.231297 CTGAAAAGACTTATATTTGGGAACAGA 57.769 33.333 0.00 0.00 44.54 3.41
143 144 9.231297 TGAAAAGACTTATATTTGGGAACAGAG 57.769 33.333 0.00 0.00 44.54 3.35
144 145 8.581253 AAAAGACTTATATTTGGGAACAGAGG 57.419 34.615 0.00 0.00 44.54 3.69
145 146 6.253946 AGACTTATATTTGGGAACAGAGGG 57.746 41.667 0.00 0.00 44.54 4.30
146 147 5.970640 AGACTTATATTTGGGAACAGAGGGA 59.029 40.000 0.00 0.00 44.54 4.20
147 148 6.100424 AGACTTATATTTGGGAACAGAGGGAG 59.900 42.308 0.00 0.00 44.54 4.30
148 149 5.731678 ACTTATATTTGGGAACAGAGGGAGT 59.268 40.000 0.00 0.00 44.54 3.85
149 150 6.906901 ACTTATATTTGGGAACAGAGGGAGTA 59.093 38.462 0.00 0.00 44.54 2.59
150 151 5.632034 ATATTTGGGAACAGAGGGAGTAC 57.368 43.478 0.00 0.00 44.54 2.73
151 152 2.409064 TTGGGAACAGAGGGAGTACA 57.591 50.000 0.00 0.00 44.54 2.90
152 153 2.642171 TGGGAACAGAGGGAGTACAT 57.358 50.000 0.00 0.00 35.01 2.29
153 154 3.769189 TGGGAACAGAGGGAGTACATA 57.231 47.619 0.00 0.00 35.01 2.29
154 155 3.643237 TGGGAACAGAGGGAGTACATAG 58.357 50.000 0.00 0.00 35.01 2.23
155 156 2.365941 GGGAACAGAGGGAGTACATAGC 59.634 54.545 0.00 0.00 0.00 2.97
156 157 3.031736 GGAACAGAGGGAGTACATAGCA 58.968 50.000 0.00 0.00 0.00 3.49
157 158 3.451178 GGAACAGAGGGAGTACATAGCAA 59.549 47.826 0.00 0.00 0.00 3.91
158 159 4.081087 GGAACAGAGGGAGTACATAGCAAA 60.081 45.833 0.00 0.00 0.00 3.68
159 160 5.488341 GAACAGAGGGAGTACATAGCAAAA 58.512 41.667 0.00 0.00 0.00 2.44
160 161 5.700402 ACAGAGGGAGTACATAGCAAAAT 57.300 39.130 0.00 0.00 0.00 1.82
161 162 5.431765 ACAGAGGGAGTACATAGCAAAATG 58.568 41.667 0.00 0.00 0.00 2.32
162 163 5.189736 ACAGAGGGAGTACATAGCAAAATGA 59.810 40.000 0.00 0.00 0.00 2.57
163 164 5.757320 CAGAGGGAGTACATAGCAAAATGAG 59.243 44.000 0.00 0.00 0.00 2.90
164 165 5.426833 AGAGGGAGTACATAGCAAAATGAGT 59.573 40.000 0.00 0.00 0.00 3.41
165 166 5.431765 AGGGAGTACATAGCAAAATGAGTG 58.568 41.667 0.00 0.00 0.00 3.51
166 167 5.189736 AGGGAGTACATAGCAAAATGAGTGA 59.810 40.000 0.00 0.00 0.00 3.41
167 168 5.880332 GGGAGTACATAGCAAAATGAGTGAA 59.120 40.000 0.00 0.00 0.00 3.18
168 169 6.543831 GGGAGTACATAGCAAAATGAGTGAAT 59.456 38.462 0.00 0.00 0.00 2.57
169 170 7.254932 GGGAGTACATAGCAAAATGAGTGAATC 60.255 40.741 0.00 0.00 0.00 2.52
170 171 7.497249 GGAGTACATAGCAAAATGAGTGAATCT 59.503 37.037 0.00 0.00 0.00 2.40
171 172 9.534565 GAGTACATAGCAAAATGAGTGAATCTA 57.465 33.333 0.00 0.00 0.00 1.98
172 173 9.319143 AGTACATAGCAAAATGAGTGAATCTAC 57.681 33.333 0.00 0.00 0.00 2.59
173 174 9.098355 GTACATAGCAAAATGAGTGAATCTACA 57.902 33.333 1.26 0.00 0.00 2.74
174 175 8.743085 ACATAGCAAAATGAGTGAATCTACAT 57.257 30.769 1.26 0.00 0.00 2.29
175 176 9.182214 ACATAGCAAAATGAGTGAATCTACATT 57.818 29.630 1.26 0.00 34.99 2.71
176 177 9.661187 CATAGCAAAATGAGTGAATCTACATTC 57.339 33.333 0.00 0.00 39.24 2.67
177 178 7.934855 AGCAAAATGAGTGAATCTACATTCT 57.065 32.000 0.00 0.00 39.49 2.40
179 180 9.453572 AGCAAAATGAGTGAATCTACATTCTAA 57.546 29.630 0.00 0.00 39.49 2.10
186 187 9.725019 TGAGTGAATCTACATTCTAAAACATGT 57.275 29.630 0.00 0.00 39.49 3.21
188 189 9.950496 AGTGAATCTACATTCTAAAACATGTCT 57.050 29.630 0.00 0.00 39.49 3.41
217 218 7.615582 ACATCTGTATGTTGTAGTCCATTTG 57.384 36.000 0.00 0.00 44.07 2.32
218 219 7.394016 ACATCTGTATGTTGTAGTCCATTTGA 58.606 34.615 0.00 0.00 44.07 2.69
219 220 7.882791 ACATCTGTATGTTGTAGTCCATTTGAA 59.117 33.333 0.00 0.00 44.07 2.69
220 221 8.729756 CATCTGTATGTTGTAGTCCATTTGAAA 58.270 33.333 0.00 0.00 0.00 2.69
221 222 8.094798 TCTGTATGTTGTAGTCCATTTGAAAC 57.905 34.615 0.00 0.00 0.00 2.78
222 223 7.717436 TCTGTATGTTGTAGTCCATTTGAAACA 59.283 33.333 0.00 0.00 0.00 2.83
223 224 8.402798 TGTATGTTGTAGTCCATTTGAAACAT 57.597 30.769 0.00 0.00 39.41 2.71
224 225 8.855110 TGTATGTTGTAGTCCATTTGAAACATT 58.145 29.630 3.74 0.00 37.75 2.71
225 226 9.691362 GTATGTTGTAGTCCATTTGAAACATTT 57.309 29.630 3.74 0.00 37.75 2.32
231 232 9.757227 TGTAGTCCATTTGAAACATTTAAAAGG 57.243 29.630 0.00 0.00 0.00 3.11
232 233 9.974980 GTAGTCCATTTGAAACATTTAAAAGGA 57.025 29.630 1.26 1.64 26.51 3.36
233 234 8.887036 AGTCCATTTGAAACATTTAAAAGGAC 57.113 30.769 18.92 18.92 38.06 3.85
234 235 8.704668 AGTCCATTTGAAACATTTAAAAGGACT 58.295 29.630 21.50 21.50 40.13 3.85
235 236 9.325198 GTCCATTTGAAACATTTAAAAGGACTT 57.675 29.630 19.12 0.00 36.76 3.01
251 252 8.959705 AAAAGGACTTATATTTAGGAACGGAG 57.040 34.615 0.00 0.00 0.00 4.63
252 253 7.909485 AAGGACTTATATTTAGGAACGGAGA 57.091 36.000 0.00 0.00 0.00 3.71
253 254 7.527568 AGGACTTATATTTAGGAACGGAGAG 57.472 40.000 0.00 0.00 0.00 3.20
259 260 9.504708 CTTATATTTAGGAACGGAGAGAGTAGA 57.495 37.037 0.00 0.00 0.00 2.59
263 264 2.242708 AGGAACGGAGAGAGTAGATGGT 59.757 50.000 0.00 0.00 0.00 3.55
340 341 4.156008 GCCGTGTTATTCTGATCCTTTTGT 59.844 41.667 0.00 0.00 0.00 2.83
365 367 4.502645 GTGTTGTTTTTCTACACCACATGC 59.497 41.667 0.00 0.00 43.34 4.06
382 384 5.756347 CCACATGCAAAATATCCAATCCAAG 59.244 40.000 0.00 0.00 0.00 3.61
383 385 5.756347 CACATGCAAAATATCCAATCCAAGG 59.244 40.000 0.00 0.00 0.00 3.61
384 386 5.426185 ACATGCAAAATATCCAATCCAAGGT 59.574 36.000 0.00 0.00 0.00 3.50
385 387 5.341872 TGCAAAATATCCAATCCAAGGTG 57.658 39.130 0.00 0.00 0.00 4.00
386 388 4.161942 TGCAAAATATCCAATCCAAGGTGG 59.838 41.667 0.00 0.00 39.43 4.61
404 831 6.749036 AGGTGGGGTATATTTCTAGTTGAG 57.251 41.667 0.00 0.00 0.00 3.02
478 905 2.696187 AGTGGGCGGTTACATTTGTTTT 59.304 40.909 0.00 0.00 0.00 2.43
522 951 6.144402 GTGTTGCTATGCCATAATGTTATTGC 59.856 38.462 2.77 2.77 33.70 3.56
587 1017 1.139256 TGGCTCGAACCAAGTGTACAA 59.861 47.619 4.72 0.00 36.55 2.41
591 1021 3.713288 CTCGAACCAAGTGTACAACTCA 58.287 45.455 0.00 0.00 38.56 3.41
794 1239 1.014564 GCCGCTCGTAAAACAGCTCT 61.015 55.000 0.00 0.00 33.09 4.09
809 1254 0.179086 GCTCTAGCAACTGGAGGAGC 60.179 60.000 9.61 0.00 39.10 4.70
835 1280 1.248785 GCCCCGCAGATATCGTCCTA 61.249 60.000 0.00 0.00 0.00 2.94
897 1385 9.908152 TCAGAGGACATGTATTATTATTACACG 57.092 33.333 0.00 0.00 0.00 4.49
939 1427 6.480524 TCATACACATGCTTTTGTAGTGAC 57.519 37.500 5.07 0.00 31.83 3.67
1000 1489 5.309806 AGGAAACTACCTTTTTAGAGGCTCA 59.690 40.000 18.26 0.00 40.65 4.26
1005 1494 5.721960 ACTACCTTTTTAGAGGCTCATGAGA 59.278 40.000 27.04 1.45 40.65 3.27
1014 1503 1.417145 AGGCTCATGAGAGAGATTGCC 59.583 52.381 27.04 17.60 44.98 4.52
1050 1539 2.301346 CTTTTATGGGGCTCGCTTGAT 58.699 47.619 0.00 0.00 0.00 2.57
1082 1572 3.744940 TCCAGCTCAATCCCTTTCAAT 57.255 42.857 0.00 0.00 0.00 2.57
1189 1681 3.642848 TGATGCTTTCCTTTGGCTTTCTT 59.357 39.130 0.00 0.00 0.00 2.52
1200 1692 4.771590 TTGGCTTTCTTTGCTACATCTG 57.228 40.909 0.00 0.00 0.00 2.90
1201 1693 3.754965 TGGCTTTCTTTGCTACATCTGT 58.245 40.909 0.00 0.00 0.00 3.41
1342 1834 7.396907 TGACCATAATGTCCAAAGATGTTCATT 59.603 33.333 0.00 0.00 34.25 2.57
1378 1870 2.633488 GTGGTGAGAGGCTGTAATTCC 58.367 52.381 0.00 0.00 0.00 3.01
1406 1898 3.019564 CAGATGGATCAACCCCAACTTC 58.980 50.000 0.00 0.00 35.04 3.01
1407 1899 2.649312 AGATGGATCAACCCCAACTTCA 59.351 45.455 0.00 0.00 33.71 3.02
1408 1900 3.270433 AGATGGATCAACCCCAACTTCAT 59.730 43.478 0.00 0.00 33.71 2.57
1409 1901 2.806434 TGGATCAACCCCAACTTCATG 58.194 47.619 0.00 0.00 38.00 3.07
1456 1949 4.658063 TCCGGGTTTATGAAGAACAACAT 58.342 39.130 0.00 0.00 0.00 2.71
1461 1954 7.362574 CCGGGTTTATGAAGAACAACATACAAT 60.363 37.037 0.00 0.00 0.00 2.71
1622 2352 7.508687 ACTTCATATTGTAGCATATGGTGTGA 58.491 34.615 17.58 8.69 32.98 3.58
1640 2370 5.775701 GGTGTGATGGTACTATCTCTATGGT 59.224 44.000 18.72 0.00 0.00 3.55
1652 2382 8.668510 ACTATCTCTATGGTTGCACTATTTTG 57.331 34.615 0.00 0.00 0.00 2.44
1664 2394 9.483916 GGTTGCACTATTTTGTTTTTATACCTT 57.516 29.630 0.00 0.00 0.00 3.50
1673 2403 8.850007 TTTTGTTTTTATACCTTATTTGGCCC 57.150 30.769 0.00 0.00 0.00 5.80
1675 2405 7.412853 TGTTTTTATACCTTATTTGGCCCTC 57.587 36.000 0.00 0.00 0.00 4.30
1701 2433 4.808895 TGAACTATGCATGGTTACTTAGCG 59.191 41.667 26.11 0.00 31.29 4.26
1725 2457 1.339055 TGGAGGAGATCAACCTTTGCG 60.339 52.381 11.77 0.00 37.93 4.85
1743 2475 1.133025 GCGTGCATGTTTAAGAGGCAT 59.867 47.619 4.55 0.00 36.79 4.40
1789 2760 3.208747 ACATGTTCCCGGGCTAATTAG 57.791 47.619 18.49 8.20 0.00 1.73
1794 2765 3.181448 TGTTCCCGGGCTAATTAGAATCC 60.181 47.826 18.49 12.08 0.00 3.01
1799 2770 3.560025 CCGGGCTAATTAGAATCCAGCAT 60.560 47.826 16.85 0.00 33.86 3.79
1829 2806 0.798776 CAACATGCTCCAAGGACGTC 59.201 55.000 7.13 7.13 0.00 4.34
1830 2807 0.687354 AACATGCTCCAAGGACGTCT 59.313 50.000 16.46 0.00 0.00 4.18
1831 2808 1.557099 ACATGCTCCAAGGACGTCTA 58.443 50.000 16.46 0.00 0.00 2.59
1845 2822 2.123425 TCTACTAGGGCCGGCCAG 60.123 66.667 44.46 35.25 37.98 4.85
2068 3159 4.625800 CCAGGTTGGTCTAGCTGC 57.374 61.111 0.00 0.00 41.20 5.25
2074 3165 2.171448 AGGTTGGTCTAGCTGCTATTGG 59.829 50.000 10.23 0.00 0.00 3.16
2159 3250 8.001881 TCCATGTTCTTGATCTCTACTAAGAC 57.998 38.462 0.00 0.00 0.00 3.01
2169 3260 7.119387 TGATCTCTACTAAGACCAATGACAGA 58.881 38.462 0.00 0.00 0.00 3.41
2182 3274 4.176271 CAATGACAGACATAGCTTCGACA 58.824 43.478 0.00 0.00 38.38 4.35
2184 3276 4.033990 TGACAGACATAGCTTCGACATC 57.966 45.455 0.00 0.00 0.00 3.06
2187 3279 4.677584 ACAGACATAGCTTCGACATCTTC 58.322 43.478 0.00 0.00 0.00 2.87
2239 3331 6.931840 TGTGTTGAGCTGTATACATGTGTTAA 59.068 34.615 9.11 0.00 0.00 2.01
2298 3441 0.839946 GAGGACCATGCACCACCTAT 59.160 55.000 8.66 0.00 0.00 2.57
2372 3518 8.382875 GGCTAGTTGCACATTTCATTTTAATTC 58.617 33.333 0.00 0.00 45.15 2.17
2373 3519 8.924691 GCTAGTTGCACATTTCATTTTAATTCA 58.075 29.630 0.00 0.00 42.31 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 9.750125 GTCCATTTGAAATGTCTAAAAAGACTT 57.250 29.630 15.93 0.00 39.41 3.01
8 9 9.136323 AGTCCATTTGAAATGTCTAAAAAGACT 57.864 29.630 15.93 14.21 39.41 3.24
13 14 9.959749 GTTGTAGTCCATTTGAAATGTCTAAAA 57.040 29.630 15.93 14.59 0.00 1.52
14 15 9.126151 TGTTGTAGTCCATTTGAAATGTCTAAA 57.874 29.630 15.93 10.39 0.00 1.85
15 16 8.684386 TGTTGTAGTCCATTTGAAATGTCTAA 57.316 30.769 15.93 4.89 0.00 2.10
16 17 8.862325 ATGTTGTAGTCCATTTGAAATGTCTA 57.138 30.769 15.93 13.97 0.00 2.59
17 18 7.765695 ATGTTGTAGTCCATTTGAAATGTCT 57.234 32.000 15.93 14.81 0.00 3.41
18 19 8.511321 TGTATGTTGTAGTCCATTTGAAATGTC 58.489 33.333 15.93 9.10 0.00 3.06
19 20 8.402798 TGTATGTTGTAGTCCATTTGAAATGT 57.597 30.769 15.93 1.43 0.00 2.71
20 21 8.729756 TCTGTATGTTGTAGTCCATTTGAAATG 58.270 33.333 10.84 10.84 0.00 2.32
21 22 8.862325 TCTGTATGTTGTAGTCCATTTGAAAT 57.138 30.769 0.00 0.00 0.00 2.17
22 23 8.729756 CATCTGTATGTTGTAGTCCATTTGAAA 58.270 33.333 0.00 0.00 0.00 2.69
23 24 7.882791 ACATCTGTATGTTGTAGTCCATTTGAA 59.117 33.333 0.00 0.00 44.07 2.69
24 25 7.394016 ACATCTGTATGTTGTAGTCCATTTGA 58.606 34.615 0.00 0.00 44.07 2.69
25 26 7.615582 ACATCTGTATGTTGTAGTCCATTTG 57.384 36.000 0.00 0.00 44.07 2.32
68 69 5.062308 CGGAGCAAACTAAGTGAATCTACAC 59.938 44.000 0.00 0.00 40.60 2.90
69 70 5.168569 CGGAGCAAACTAAGTGAATCTACA 58.831 41.667 0.00 0.00 0.00 2.74
70 71 5.169295 ACGGAGCAAACTAAGTGAATCTAC 58.831 41.667 0.00 0.00 0.00 2.59
71 72 5.401531 ACGGAGCAAACTAAGTGAATCTA 57.598 39.130 0.00 0.00 0.00 1.98
72 73 4.273148 ACGGAGCAAACTAAGTGAATCT 57.727 40.909 0.00 0.00 0.00 2.40
73 74 5.502544 GCATACGGAGCAAACTAAGTGAATC 60.503 44.000 0.00 0.00 0.00 2.52
74 75 4.332819 GCATACGGAGCAAACTAAGTGAAT 59.667 41.667 0.00 0.00 0.00 2.57
75 76 3.682858 GCATACGGAGCAAACTAAGTGAA 59.317 43.478 0.00 0.00 0.00 3.18
76 77 3.259064 GCATACGGAGCAAACTAAGTGA 58.741 45.455 0.00 0.00 0.00 3.41
77 78 3.000041 TGCATACGGAGCAAACTAAGTG 59.000 45.455 0.00 0.00 39.39 3.16
78 79 3.262420 CTGCATACGGAGCAAACTAAGT 58.738 45.455 0.00 0.00 42.17 2.24
79 80 3.262420 ACTGCATACGGAGCAAACTAAG 58.738 45.455 0.00 0.00 42.17 2.18
80 81 3.259064 GACTGCATACGGAGCAAACTAA 58.741 45.455 0.00 0.00 42.17 2.24
81 82 2.232696 TGACTGCATACGGAGCAAACTA 59.767 45.455 0.00 0.00 42.17 2.24
82 83 1.001974 TGACTGCATACGGAGCAAACT 59.998 47.619 0.00 0.00 42.17 2.66
83 84 1.128692 GTGACTGCATACGGAGCAAAC 59.871 52.381 0.00 0.00 42.17 2.93
84 85 1.001974 AGTGACTGCATACGGAGCAAA 59.998 47.619 0.00 0.00 42.17 3.68
85 86 0.608130 AGTGACTGCATACGGAGCAA 59.392 50.000 0.00 0.00 42.17 3.91
86 87 0.608130 AAGTGACTGCATACGGAGCA 59.392 50.000 0.00 0.00 40.19 4.26
87 88 1.002366 CAAGTGACTGCATACGGAGC 58.998 55.000 0.00 0.00 32.91 4.70
88 89 2.370281 ACAAGTGACTGCATACGGAG 57.630 50.000 0.00 0.00 36.48 4.63
89 90 2.036604 TCAACAAGTGACTGCATACGGA 59.963 45.455 0.00 0.00 0.00 4.69
90 91 2.412870 TCAACAAGTGACTGCATACGG 58.587 47.619 0.00 0.00 0.00 4.02
91 92 4.466567 TTTCAACAAGTGACTGCATACG 57.533 40.909 0.00 0.00 35.39 3.06
92 93 6.148480 AGAGATTTCAACAAGTGACTGCATAC 59.852 38.462 0.00 0.00 35.39 2.39
93 94 6.148315 CAGAGATTTCAACAAGTGACTGCATA 59.852 38.462 0.00 0.00 35.39 3.14
94 95 5.048921 CAGAGATTTCAACAAGTGACTGCAT 60.049 40.000 0.00 0.00 35.39 3.96
95 96 4.274214 CAGAGATTTCAACAAGTGACTGCA 59.726 41.667 0.00 0.00 35.39 4.41
96 97 4.512944 TCAGAGATTTCAACAAGTGACTGC 59.487 41.667 0.00 0.00 35.39 4.40
97 98 6.609237 TTCAGAGATTTCAACAAGTGACTG 57.391 37.500 0.00 0.00 35.39 3.51
98 99 7.554118 TCTTTTCAGAGATTTCAACAAGTGACT 59.446 33.333 0.00 0.00 35.39 3.41
99 100 7.641802 GTCTTTTCAGAGATTTCAACAAGTGAC 59.358 37.037 0.00 0.00 35.39 3.67
100 101 7.554118 AGTCTTTTCAGAGATTTCAACAAGTGA 59.446 33.333 0.00 0.00 0.00 3.41
101 102 7.701445 AGTCTTTTCAGAGATTTCAACAAGTG 58.299 34.615 0.00 0.00 0.00 3.16
102 103 7.872113 AGTCTTTTCAGAGATTTCAACAAGT 57.128 32.000 0.00 0.00 0.00 3.16
113 114 9.449719 GTTCCCAAATATAAGTCTTTTCAGAGA 57.550 33.333 0.00 0.00 0.00 3.10
114 115 9.231297 TGTTCCCAAATATAAGTCTTTTCAGAG 57.769 33.333 0.00 0.00 0.00 3.35
115 116 9.231297 CTGTTCCCAAATATAAGTCTTTTCAGA 57.769 33.333 0.00 0.00 0.00 3.27
116 117 9.231297 TCTGTTCCCAAATATAAGTCTTTTCAG 57.769 33.333 0.00 0.00 0.00 3.02
117 118 9.231297 CTCTGTTCCCAAATATAAGTCTTTTCA 57.769 33.333 0.00 0.00 0.00 2.69
118 119 8.678199 CCTCTGTTCCCAAATATAAGTCTTTTC 58.322 37.037 0.00 0.00 0.00 2.29
119 120 7.615757 CCCTCTGTTCCCAAATATAAGTCTTTT 59.384 37.037 0.00 0.00 0.00 2.27
120 121 7.036863 TCCCTCTGTTCCCAAATATAAGTCTTT 60.037 37.037 0.00 0.00 0.00 2.52
121 122 6.447084 TCCCTCTGTTCCCAAATATAAGTCTT 59.553 38.462 0.00 0.00 0.00 3.01
122 123 5.970640 TCCCTCTGTTCCCAAATATAAGTCT 59.029 40.000 0.00 0.00 0.00 3.24
123 124 6.126739 ACTCCCTCTGTTCCCAAATATAAGTC 60.127 42.308 0.00 0.00 0.00 3.01
124 125 5.731678 ACTCCCTCTGTTCCCAAATATAAGT 59.268 40.000 0.00 0.00 0.00 2.24
125 126 6.253946 ACTCCCTCTGTTCCCAAATATAAG 57.746 41.667 0.00 0.00 0.00 1.73
126 127 6.674861 TGTACTCCCTCTGTTCCCAAATATAA 59.325 38.462 0.00 0.00 0.00 0.98
127 128 6.206787 TGTACTCCCTCTGTTCCCAAATATA 58.793 40.000 0.00 0.00 0.00 0.86
128 129 5.036916 TGTACTCCCTCTGTTCCCAAATAT 58.963 41.667 0.00 0.00 0.00 1.28
129 130 4.431378 TGTACTCCCTCTGTTCCCAAATA 58.569 43.478 0.00 0.00 0.00 1.40
130 131 3.256704 TGTACTCCCTCTGTTCCCAAAT 58.743 45.455 0.00 0.00 0.00 2.32
131 132 2.696775 TGTACTCCCTCTGTTCCCAAA 58.303 47.619 0.00 0.00 0.00 3.28
132 133 2.409064 TGTACTCCCTCTGTTCCCAA 57.591 50.000 0.00 0.00 0.00 4.12
133 134 2.642171 ATGTACTCCCTCTGTTCCCA 57.358 50.000 0.00 0.00 0.00 4.37
134 135 2.365941 GCTATGTACTCCCTCTGTTCCC 59.634 54.545 0.00 0.00 0.00 3.97
135 136 3.031736 TGCTATGTACTCCCTCTGTTCC 58.968 50.000 0.00 0.00 0.00 3.62
136 137 4.737855 TTGCTATGTACTCCCTCTGTTC 57.262 45.455 0.00 0.00 0.00 3.18
137 138 5.499004 TTTTGCTATGTACTCCCTCTGTT 57.501 39.130 0.00 0.00 0.00 3.16
138 139 5.189736 TCATTTTGCTATGTACTCCCTCTGT 59.810 40.000 0.00 0.00 0.00 3.41
139 140 5.674525 TCATTTTGCTATGTACTCCCTCTG 58.325 41.667 0.00 0.00 0.00 3.35
140 141 5.426833 ACTCATTTTGCTATGTACTCCCTCT 59.573 40.000 0.00 0.00 0.00 3.69
141 142 5.525378 CACTCATTTTGCTATGTACTCCCTC 59.475 44.000 0.00 0.00 0.00 4.30
142 143 5.189736 TCACTCATTTTGCTATGTACTCCCT 59.810 40.000 0.00 0.00 0.00 4.20
143 144 5.428253 TCACTCATTTTGCTATGTACTCCC 58.572 41.667 0.00 0.00 0.00 4.30
144 145 6.985188 TTCACTCATTTTGCTATGTACTCC 57.015 37.500 0.00 0.00 0.00 3.85
145 146 8.430801 AGATTCACTCATTTTGCTATGTACTC 57.569 34.615 0.00 0.00 0.00 2.59
146 147 9.319143 GTAGATTCACTCATTTTGCTATGTACT 57.681 33.333 0.00 0.00 0.00 2.73
147 148 9.098355 TGTAGATTCACTCATTTTGCTATGTAC 57.902 33.333 0.00 0.00 0.00 2.90
148 149 9.836864 ATGTAGATTCACTCATTTTGCTATGTA 57.163 29.630 0.00 0.00 0.00 2.29
149 150 8.743085 ATGTAGATTCACTCATTTTGCTATGT 57.257 30.769 0.00 0.00 0.00 2.29
150 151 9.661187 GAATGTAGATTCACTCATTTTGCTATG 57.339 33.333 7.69 0.00 38.33 2.23
151 152 9.624373 AGAATGTAGATTCACTCATTTTGCTAT 57.376 29.630 14.46 0.00 40.59 2.97
153 154 7.934855 AGAATGTAGATTCACTCATTTTGCT 57.065 32.000 14.46 0.00 40.59 3.91
160 161 9.725019 ACATGTTTTAGAATGTAGATTCACTCA 57.275 29.630 14.46 6.83 40.59 3.41
162 163 9.950496 AGACATGTTTTAGAATGTAGATTCACT 57.050 29.630 14.46 0.00 40.59 3.41
191 192 9.330063 CAAATGGACTACAACATACAGATGTAT 57.670 33.333 0.00 0.00 45.93 2.29
192 193 8.536175 TCAAATGGACTACAACATACAGATGTA 58.464 33.333 0.00 0.00 45.93 2.29
194 195 7.848223 TCAAATGGACTACAACATACAGATG 57.152 36.000 0.00 0.00 39.16 2.90
195 196 8.730680 GTTTCAAATGGACTACAACATACAGAT 58.269 33.333 0.00 0.00 0.00 2.90
196 197 7.717436 TGTTTCAAATGGACTACAACATACAGA 59.283 33.333 0.00 0.00 0.00 3.41
197 198 7.870826 TGTTTCAAATGGACTACAACATACAG 58.129 34.615 0.00 0.00 0.00 2.74
198 199 7.809546 TGTTTCAAATGGACTACAACATACA 57.190 32.000 0.00 0.00 0.00 2.29
199 200 9.691362 AAATGTTTCAAATGGACTACAACATAC 57.309 29.630 0.00 0.00 33.99 2.39
205 206 9.757227 CCTTTTAAATGTTTCAAATGGACTACA 57.243 29.630 0.00 0.00 31.44 2.74
206 207 9.974980 TCCTTTTAAATGTTTCAAATGGACTAC 57.025 29.630 0.00 0.00 33.17 2.73
207 208 9.974980 GTCCTTTTAAATGTTTCAAATGGACTA 57.025 29.630 17.41 0.00 44.76 2.59
208 209 8.887036 GTCCTTTTAAATGTTTCAAATGGACT 57.113 30.769 17.41 0.00 44.76 3.85
209 210 8.887036 AGTCCTTTTAAATGTTTCAAATGGAC 57.113 30.769 17.16 17.16 46.54 4.02
226 227 8.765517 TCTCCGTTCCTAAATATAAGTCCTTTT 58.234 33.333 0.00 0.00 0.00 2.27
227 228 8.315220 TCTCCGTTCCTAAATATAAGTCCTTT 57.685 34.615 0.00 0.00 0.00 3.11
228 229 7.783596 TCTCTCCGTTCCTAAATATAAGTCCTT 59.216 37.037 0.00 0.00 0.00 3.36
229 230 7.296098 TCTCTCCGTTCCTAAATATAAGTCCT 58.704 38.462 0.00 0.00 0.00 3.85
230 231 7.231115 ACTCTCTCCGTTCCTAAATATAAGTCC 59.769 40.741 0.00 0.00 0.00 3.85
231 232 8.168790 ACTCTCTCCGTTCCTAAATATAAGTC 57.831 38.462 0.00 0.00 0.00 3.01
232 233 9.287373 CTACTCTCTCCGTTCCTAAATATAAGT 57.713 37.037 0.00 0.00 0.00 2.24
233 234 9.504708 TCTACTCTCTCCGTTCCTAAATATAAG 57.495 37.037 0.00 0.00 0.00 1.73
235 236 9.451002 CATCTACTCTCTCCGTTCCTAAATATA 57.549 37.037 0.00 0.00 0.00 0.86
236 237 7.394923 CCATCTACTCTCTCCGTTCCTAAATAT 59.605 40.741 0.00 0.00 0.00 1.28
237 238 6.715718 CCATCTACTCTCTCCGTTCCTAAATA 59.284 42.308 0.00 0.00 0.00 1.40
238 239 5.536916 CCATCTACTCTCTCCGTTCCTAAAT 59.463 44.000 0.00 0.00 0.00 1.40
239 240 4.888239 CCATCTACTCTCTCCGTTCCTAAA 59.112 45.833 0.00 0.00 0.00 1.85
240 241 4.079901 ACCATCTACTCTCTCCGTTCCTAA 60.080 45.833 0.00 0.00 0.00 2.69
241 242 3.458857 ACCATCTACTCTCTCCGTTCCTA 59.541 47.826 0.00 0.00 0.00 2.94
242 243 2.242708 ACCATCTACTCTCTCCGTTCCT 59.757 50.000 0.00 0.00 0.00 3.36
243 244 2.657143 ACCATCTACTCTCTCCGTTCC 58.343 52.381 0.00 0.00 0.00 3.62
244 245 4.722361 AAACCATCTACTCTCTCCGTTC 57.278 45.455 0.00 0.00 0.00 3.95
245 246 5.357596 GTCTAAACCATCTACTCTCTCCGTT 59.642 44.000 0.00 0.00 0.00 4.44
246 247 4.883006 GTCTAAACCATCTACTCTCTCCGT 59.117 45.833 0.00 0.00 0.00 4.69
247 248 4.276431 GGTCTAAACCATCTACTCTCTCCG 59.724 50.000 0.00 0.00 45.68 4.63
248 249 4.276431 CGGTCTAAACCATCTACTCTCTCC 59.724 50.000 0.00 0.00 46.86 3.71
249 250 4.883006 ACGGTCTAAACCATCTACTCTCTC 59.117 45.833 0.00 0.00 46.86 3.20
250 251 4.641094 CACGGTCTAAACCATCTACTCTCT 59.359 45.833 0.00 0.00 46.86 3.10
251 252 4.639310 TCACGGTCTAAACCATCTACTCTC 59.361 45.833 0.00 0.00 46.86 3.20
252 253 4.597004 TCACGGTCTAAACCATCTACTCT 58.403 43.478 0.00 0.00 46.86 3.24
253 254 4.978083 TCACGGTCTAAACCATCTACTC 57.022 45.455 0.00 0.00 46.86 2.59
259 260 5.888982 AATAGGATCACGGTCTAAACCAT 57.111 39.130 0.00 0.00 46.86 3.55
263 264 6.379133 ACACAGTAATAGGATCACGGTCTAAA 59.621 38.462 0.00 0.00 0.00 1.85
365 367 4.101430 CCCCACCTTGGATTGGATATTTTG 59.899 45.833 0.00 0.00 40.96 2.44
382 384 5.368816 ACCTCAACTAGAAATATACCCCACC 59.631 44.000 0.00 0.00 0.00 4.61
383 385 6.326843 AGACCTCAACTAGAAATATACCCCAC 59.673 42.308 0.00 0.00 0.00 4.61
384 386 6.449956 AGACCTCAACTAGAAATATACCCCA 58.550 40.000 0.00 0.00 0.00 4.96
385 387 6.997942 AGACCTCAACTAGAAATATACCCC 57.002 41.667 0.00 0.00 0.00 4.95
404 831 6.036470 GTGCAGAAGCCAAAATATTTAGACC 58.964 40.000 0.01 0.00 41.13 3.85
587 1017 1.006758 TCCTCCGGTGGACTTATGAGT 59.993 52.381 21.30 0.00 39.32 3.41
591 1021 1.838077 CCTTTCCTCCGGTGGACTTAT 59.162 52.381 24.67 0.00 35.58 1.73
794 1239 0.532573 CTTCGCTCCTCCAGTTGCTA 59.467 55.000 0.00 0.00 0.00 3.49
809 1254 0.034059 ATATCTGCGGGGCTTCTTCG 59.966 55.000 0.00 0.00 0.00 3.79
835 1280 5.352284 CACATACCGAAGAGCAATAGTTCT 58.648 41.667 0.00 0.00 36.84 3.01
924 1412 3.501828 TGCGAATGTCACTACAAAAGCAT 59.498 39.130 0.00 0.00 39.58 3.79
939 1427 3.535561 ACCCTTCTGATACTTGCGAATG 58.464 45.455 0.00 0.00 0.00 2.67
967 1455 9.178758 CTAAAAAGGTAGTTTCCTTATCAGCAT 57.821 33.333 0.00 0.00 45.79 3.79
1000 1489 4.313020 AAACTTGGGCAATCTCTCTCAT 57.687 40.909 0.00 0.00 0.00 2.90
1005 1494 3.575687 CCTTGAAAACTTGGGCAATCTCT 59.424 43.478 0.00 0.00 0.00 3.10
1014 1503 7.151976 CCCATAAAAGTACCTTGAAAACTTGG 58.848 38.462 0.00 0.00 33.85 3.61
1050 1539 5.279006 GGATTGAGCTGGATTCGAGTGTATA 60.279 44.000 0.00 0.00 0.00 1.47
1163 1655 5.743636 AAGCCAAAGGAAAGCATCATAAA 57.256 34.783 0.00 0.00 0.00 1.40
1176 1668 4.219288 AGATGTAGCAAAGAAAGCCAAAGG 59.781 41.667 0.00 0.00 0.00 3.11
1201 1693 4.022762 GCTCTGGAAGCGTAGATCAATCTA 60.023 45.833 0.00 0.00 42.21 1.98
1342 1834 0.830648 CCACGGATCCTTCTAGCCAA 59.169 55.000 10.75 0.00 0.00 4.52
1378 1870 3.495806 GGGGTTGATCCATCTGCTTAGAG 60.496 52.174 0.00 0.00 38.11 2.43
1456 1949 7.894753 TCCATGGCAAATCAAAGATATTGTA 57.105 32.000 6.96 0.00 0.00 2.41
1461 1954 6.795144 AACATCCATGGCAAATCAAAGATA 57.205 33.333 6.96 0.00 0.00 1.98
1529 2023 4.310675 CGCAAGCCAATTTGTTATGTTG 57.689 40.909 0.00 0.00 0.00 3.33
1606 2336 4.653801 AGTACCATCACACCATATGCTACA 59.346 41.667 0.00 0.00 0.00 2.74
1622 2352 5.841237 AGTGCAACCATAGAGATAGTACCAT 59.159 40.000 0.00 0.00 37.80 3.55
1652 2382 7.412853 TGAGGGCCAAATAAGGTATAAAAAC 57.587 36.000 6.18 0.00 0.00 2.43
1664 2394 4.584325 GCATAGTTCAATGAGGGCCAAATA 59.416 41.667 6.18 0.00 0.00 1.40
1667 2397 2.291475 TGCATAGTTCAATGAGGGCCAA 60.291 45.455 6.18 0.00 0.00 4.52
1670 2400 2.295349 CCATGCATAGTTCAATGAGGGC 59.705 50.000 0.00 0.00 0.00 5.19
1672 2402 5.824624 AGTAACCATGCATAGTTCAATGAGG 59.175 40.000 13.95 2.35 0.00 3.86
1673 2403 6.932356 AGTAACCATGCATAGTTCAATGAG 57.068 37.500 13.95 0.00 0.00 2.90
1675 2405 7.134815 GCTAAGTAACCATGCATAGTTCAATG 58.865 38.462 13.95 4.19 0.00 2.82
1701 2433 3.990959 AAGGTTGATCTCCTCCAAGAC 57.009 47.619 9.73 0.00 33.76 3.01
1725 2457 3.728864 CGACATGCCTCTTAAACATGCAC 60.729 47.826 0.00 0.00 43.96 4.57
1743 2475 0.795698 CGCATGTTGATGGAACGACA 59.204 50.000 0.00 0.00 37.38 4.35
1777 2748 2.224523 TGCTGGATTCTAATTAGCCCGG 60.225 50.000 7.67 13.26 33.60 5.73
1789 2760 1.366366 GGCCATGCATGCTGGATTC 59.634 57.895 29.21 17.91 35.70 2.52
1794 2765 0.529773 GTTGATGGCCATGCATGCTG 60.530 55.000 26.56 13.98 0.00 4.41
1829 2806 3.234730 CCTGGCCGGCCCTAGTAG 61.235 72.222 41.75 30.29 34.56 2.57
1853 2830 6.349300 ACTAAACATGTATAAGGAGTGCCAG 58.651 40.000 0.00 0.00 36.29 4.85
1867 2844 9.533253 CTTGAATTCTTCCAAAACTAAACATGT 57.467 29.630 7.05 0.00 0.00 3.21
1892 2869 3.907260 CTGTCACCGCACATGGGCT 62.907 63.158 19.64 0.00 0.00 5.19
1967 2945 8.190784 CCCACTGAAGGTTTTTGATACATAATC 58.809 37.037 0.00 0.00 34.93 1.75
1970 2948 5.417580 GCCCACTGAAGGTTTTTGATACATA 59.582 40.000 0.00 0.00 0.00 2.29
2015 3006 1.003464 CACCAGGTCATGACATCACCA 59.997 52.381 26.47 0.00 31.99 4.17
2068 3159 1.284785 TCCCAAAGACTGCCCCAATAG 59.715 52.381 0.00 0.00 0.00 1.73
2074 3165 1.002011 GTCCTCCCAAAGACTGCCC 60.002 63.158 0.00 0.00 0.00 5.36
2159 3250 3.553511 GTCGAAGCTATGTCTGTCATTGG 59.446 47.826 0.00 0.00 37.91 3.16
2169 3260 6.868622 AGTTAAGAAGATGTCGAAGCTATGT 58.131 36.000 0.00 0.00 0.00 2.29
2261 3353 8.882415 TGGTCCTCGATATAATGTTTTTCTAC 57.118 34.615 0.00 0.00 0.00 2.59
2262 3354 9.489084 CATGGTCCTCGATATAATGTTTTTCTA 57.511 33.333 0.00 0.00 0.00 2.10
2264 3356 7.078228 GCATGGTCCTCGATATAATGTTTTTC 58.922 38.462 0.00 0.00 0.00 2.29
2265 3357 6.545666 TGCATGGTCCTCGATATAATGTTTTT 59.454 34.615 0.00 0.00 0.00 1.94


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

AutoCloner maintained by Alex Coulton.