Multiple sequence alignment - TraesCS6D01G034600

Loading Multiple Alignment...

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 TraesCS6D01G034600 chr6D 100.000 2525 0 0 1 2525 14437336 14439860 0.000000e+00 4663
1 TraesCS6D01G034600 chr6D 89.845 2196 184 23 355 2525 14483700 14485881 0.000000e+00 2784
2 TraesCS6D01G034600 chr6D 82.429 1400 200 34 355 1735 14503362 14504734 0.000000e+00 1181
3 TraesCS6D01G034600 chr6D 83.333 1272 179 19 328 1579 14727348 14726090 0.000000e+00 1144
4 TraesCS6D01G034600 chr6D 83.212 1239 170 20 326 1546 14941176 14939958 0.000000e+00 1101
5 TraesCS6D01G034600 chr6D 85.904 979 76 24 1549 2525 16376579 16377497 0.000000e+00 987
6 TraesCS6D01G034600 chr6D 78.346 1076 212 13 422 1485 16775671 16774605 0.000000e+00 676
7 TraesCS6D01G034600 chr6D 98.777 327 4 0 1 327 14505539 14505865 1.300000e-162 582
8 TraesCS6D01G034600 chr6D 75.792 1231 252 31 319 1528 7477189 7475984 4.680000e-162 580
9 TraesCS6D01G034600 chr6D 95.107 327 16 0 1 327 14725070 14724744 1.340000e-142 516
10 TraesCS6D01G034600 chr6D 93.884 327 20 0 1 327 14444233 14444559 6.270000e-136 494
11 TraesCS6D01G034600 chr6D 78.025 314 43 14 1 289 14938285 14937973 9.280000e-40 174
12 TraesCS6D01G034600 chr6A 92.732 2229 123 22 326 2525 15684835 15687053 0.000000e+00 3182
13 TraesCS6D01G034600 chr6A 84.304 1185 158 15 328 1509 15906942 15905783 0.000000e+00 1133
14 TraesCS6D01G034600 chr6A 83.893 1192 158 17 326 1500 15925255 15924081 0.000000e+00 1107
15 TraesCS6D01G034600 chr6A 86.701 970 94 20 1539 2498 15924013 15923069 0.000000e+00 1044
16 TraesCS6D01G034600 chr6A 78.644 1180 222 25 317 1485 17540098 17541258 0.000000e+00 756
17 TraesCS6D01G034600 chr6A 85.340 573 51 13 1710 2261 15688331 15688891 1.700000e-156 562
18 TraesCS6D01G034600 chr6A 86.574 432 40 7 326 745 15934658 15934233 6.360000e-126 460
19 TraesCS6D01G034600 chr6A 95.259 232 11 0 1 232 15702943 15703174 3.970000e-98 368
20 TraesCS6D01G034600 chr6A 90.638 235 21 1 2291 2525 16652588 16652821 6.780000e-81 311
21 TraesCS6D01G034600 chr6A 83.384 331 42 10 6 325 15897750 15897422 6.830000e-76 294
22 TraesCS6D01G034600 chr6A 97.938 97 2 0 231 327 15703298 15703394 4.320000e-38 169
23 TraesCS6D01G034600 chr6B 88.535 1945 179 28 326 2240 26488581 26490511 0.000000e+00 2316
24 TraesCS6D01G034600 chr6B 85.773 2186 252 25 355 2525 26500530 26502671 0.000000e+00 2259
25 TraesCS6D01G034600 chr6B 82.747 2104 272 43 451 2523 28730901 28728858 0.000000e+00 1790
26 TraesCS6D01G034600 chr6B 83.067 1252 187 18 327 1567 26512137 26513374 0.000000e+00 1114
27 TraesCS6D01G034600 chr6B 80.841 1451 214 44 325 1739 26688255 26686833 0.000000e+00 1081
28 TraesCS6D01G034600 chr6B 84.577 402 32 12 1746 2147 28502197 28502568 3.070000e-99 372
29 TraesCS6D01G034600 chr6B 83.636 330 43 8 6 325 26514394 26514722 1.470000e-77 300
30 TraesCS6D01G034600 chr6B 81.341 343 40 13 6 325 26792177 26791836 8.960000e-65 257
31 TraesCS6D01G034600 chr6B 80.405 296 42 7 414 698 52574072 52573782 7.080000e-51 211
32 TraesCS6D01G034600 chr6B 86.755 151 19 1 1 150 26391366 26391516 1.550000e-37 167
33 TraesCS6D01G034600 chr5D 86.622 2093 242 16 326 2405 27985502 27983435 0.000000e+00 2279
34 TraesCS6D01G034600 chr1A 83.919 541 66 8 326 853 61152627 61153159 4.850000e-137 497


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 TraesCS6D01G034600 chr6D 14437336 14439860 2524 False 4663.0 4663 100.0000 1 2525 1 chr6D.!!$F1 2524
1 TraesCS6D01G034600 chr6D 14483700 14485881 2181 False 2784.0 2784 89.8450 355 2525 1 chr6D.!!$F3 2170
2 TraesCS6D01G034600 chr6D 16376579 16377497 918 False 987.0 987 85.9040 1549 2525 1 chr6D.!!$F4 976
3 TraesCS6D01G034600 chr6D 14503362 14505865 2503 False 881.5 1181 90.6030 1 1735 2 chr6D.!!$F5 1734
4 TraesCS6D01G034600 chr6D 14724744 14727348 2604 True 830.0 1144 89.2200 1 1579 2 chr6D.!!$R3 1578
5 TraesCS6D01G034600 chr6D 16774605 16775671 1066 True 676.0 676 78.3460 422 1485 1 chr6D.!!$R2 1063
6 TraesCS6D01G034600 chr6D 14937973 14941176 3203 True 637.5 1101 80.6185 1 1546 2 chr6D.!!$R4 1545
7 TraesCS6D01G034600 chr6D 7475984 7477189 1205 True 580.0 580 75.7920 319 1528 1 chr6D.!!$R1 1209
8 TraesCS6D01G034600 chr6A 15684835 15688891 4056 False 1872.0 3182 89.0360 326 2525 2 chr6A.!!$F3 2199
9 TraesCS6D01G034600 chr6A 15905783 15906942 1159 True 1133.0 1133 84.3040 328 1509 1 chr6A.!!$R2 1181
10 TraesCS6D01G034600 chr6A 15923069 15925255 2186 True 1075.5 1107 85.2970 326 2498 2 chr6A.!!$R4 2172
11 TraesCS6D01G034600 chr6A 17540098 17541258 1160 False 756.0 756 78.6440 317 1485 1 chr6A.!!$F2 1168
12 TraesCS6D01G034600 chr6B 26488581 26490511 1930 False 2316.0 2316 88.5350 326 2240 1 chr6B.!!$F2 1914
13 TraesCS6D01G034600 chr6B 26500530 26502671 2141 False 2259.0 2259 85.7730 355 2525 1 chr6B.!!$F3 2170
14 TraesCS6D01G034600 chr6B 28728858 28730901 2043 True 1790.0 1790 82.7470 451 2523 1 chr6B.!!$R3 2072
15 TraesCS6D01G034600 chr6B 26686833 26688255 1422 True 1081.0 1081 80.8410 325 1739 1 chr6B.!!$R1 1414
16 TraesCS6D01G034600 chr6B 26512137 26514722 2585 False 707.0 1114 83.3515 6 1567 2 chr6B.!!$F5 1561
17 TraesCS6D01G034600 chr5D 27983435 27985502 2067 True 2279.0 2279 86.6220 326 2405 1 chr5D.!!$R1 2079
18 TraesCS6D01G034600 chr1A 61152627 61153159 532 False 497.0 497 83.9190 326 853 1 chr1A.!!$F1 527

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
71 72 0.179215 GAAATGACCGACGCTGCAAG 60.179 55.0 0.0 0.0 0.0 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1629 1727 3.128589 ACTGGCAAGTAACAAACACACTG 59.871 43.478 0.0 0.0 33.79 3.66 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
35 36 8.969260 TCTGAATTATCACATTAAGCATGAGT 57.031 30.769 0.00 0.00 36.24 3.41
52 53 9.630098 AAGCATGAGTATATTTTTGTGACTTTG 57.370 29.630 0.00 0.00 0.00 2.77
53 54 9.013229 AGCATGAGTATATTTTTGTGACTTTGA 57.987 29.630 0.00 0.00 0.00 2.69
54 55 9.624697 GCATGAGTATATTTTTGTGACTTTGAA 57.375 29.630 0.00 0.00 0.00 2.69
61 62 6.826893 ATTTTTGTGACTTTGAAATGACCG 57.173 33.333 0.00 0.00 0.00 4.79
62 63 5.568685 TTTTGTGACTTTGAAATGACCGA 57.431 34.783 0.00 0.00 0.00 4.69
63 64 4.545823 TTGTGACTTTGAAATGACCGAC 57.454 40.909 0.00 0.00 0.00 4.79
64 65 2.542178 TGTGACTTTGAAATGACCGACG 59.458 45.455 0.00 0.00 0.00 5.12
65 66 1.529438 TGACTTTGAAATGACCGACGC 59.471 47.619 0.00 0.00 0.00 5.19
66 67 1.798813 GACTTTGAAATGACCGACGCT 59.201 47.619 0.00 0.00 0.00 5.07
67 68 1.531149 ACTTTGAAATGACCGACGCTG 59.469 47.619 0.00 0.00 0.00 5.18
68 69 0.237235 TTTGAAATGACCGACGCTGC 59.763 50.000 0.00 0.00 0.00 5.25
69 70 0.882484 TTGAAATGACCGACGCTGCA 60.882 50.000 0.00 0.00 0.00 4.41
70 71 0.882484 TGAAATGACCGACGCTGCAA 60.882 50.000 0.00 0.00 0.00 4.08
71 72 0.179215 GAAATGACCGACGCTGCAAG 60.179 55.000 0.00 0.00 0.00 4.01
72 73 0.884704 AAATGACCGACGCTGCAAGT 60.885 50.000 0.00 0.00 35.30 3.16
80 81 4.929198 CGCTGCAAGTGGTTTGAG 57.071 55.556 0.00 0.00 41.82 3.02
81 82 1.283793 CGCTGCAAGTGGTTTGAGG 59.716 57.895 0.00 0.00 41.82 3.86
82 83 1.447317 CGCTGCAAGTGGTTTGAGGT 61.447 55.000 0.00 0.00 41.82 3.85
83 84 0.746659 GCTGCAAGTGGTTTGAGGTT 59.253 50.000 0.00 0.00 39.21 3.50
84 85 1.136891 GCTGCAAGTGGTTTGAGGTTT 59.863 47.619 0.00 0.00 39.21 3.27
85 86 2.799562 GCTGCAAGTGGTTTGAGGTTTC 60.800 50.000 0.00 0.00 39.21 2.78
86 87 2.689983 CTGCAAGTGGTTTGAGGTTTCT 59.310 45.455 0.00 0.00 39.21 2.52
87 88 3.882888 CTGCAAGTGGTTTGAGGTTTCTA 59.117 43.478 0.00 0.00 39.21 2.10
88 89 4.274147 TGCAAGTGGTTTGAGGTTTCTAA 58.726 39.130 0.00 0.00 39.21 2.10
89 90 4.892934 TGCAAGTGGTTTGAGGTTTCTAAT 59.107 37.500 0.00 0.00 39.21 1.73
90 91 5.221224 TGCAAGTGGTTTGAGGTTTCTAATG 60.221 40.000 0.00 0.00 39.21 1.90
91 92 5.009610 GCAAGTGGTTTGAGGTTTCTAATGA 59.990 40.000 0.00 0.00 39.21 2.57
92 93 6.294731 GCAAGTGGTTTGAGGTTTCTAATGAT 60.295 38.462 0.00 0.00 39.21 2.45
93 94 7.308435 CAAGTGGTTTGAGGTTTCTAATGATC 58.692 38.462 0.00 0.00 39.21 2.92
94 95 6.542821 AGTGGTTTGAGGTTTCTAATGATCA 58.457 36.000 0.00 0.00 0.00 2.92
95 96 6.656693 AGTGGTTTGAGGTTTCTAATGATCAG 59.343 38.462 0.09 0.00 0.00 2.90
96 97 6.431234 GTGGTTTGAGGTTTCTAATGATCAGT 59.569 38.462 0.09 0.00 0.00 3.41
97 98 7.004086 TGGTTTGAGGTTTCTAATGATCAGTT 58.996 34.615 0.00 0.00 0.00 3.16
98 99 8.160765 TGGTTTGAGGTTTCTAATGATCAGTTA 58.839 33.333 0.00 0.00 0.00 2.24
99 100 9.010029 GGTTTGAGGTTTCTAATGATCAGTTAA 57.990 33.333 0.00 0.00 0.00 2.01
102 103 9.436957 TTGAGGTTTCTAATGATCAGTTAAGAC 57.563 33.333 0.00 0.00 0.00 3.01
103 104 8.816894 TGAGGTTTCTAATGATCAGTTAAGACT 58.183 33.333 0.00 0.00 36.25 3.24
134 135 9.533253 AACATTAATTTTTGTCTGAAGAAGTGG 57.467 29.630 0.00 0.00 0.00 4.00
135 136 8.143835 ACATTAATTTTTGTCTGAAGAAGTGGG 58.856 33.333 0.00 0.00 0.00 4.61
136 137 7.654022 TTAATTTTTGTCTGAAGAAGTGGGT 57.346 32.000 0.00 0.00 0.00 4.51
137 138 4.981806 TTTTTGTCTGAAGAAGTGGGTG 57.018 40.909 0.00 0.00 0.00 4.61
138 139 3.644966 TTTGTCTGAAGAAGTGGGTGT 57.355 42.857 0.00 0.00 0.00 4.16
139 140 3.644966 TTGTCTGAAGAAGTGGGTGTT 57.355 42.857 0.00 0.00 0.00 3.32
140 141 3.644966 TGTCTGAAGAAGTGGGTGTTT 57.355 42.857 0.00 0.00 0.00 2.83
141 142 3.541632 TGTCTGAAGAAGTGGGTGTTTC 58.458 45.455 0.00 0.00 0.00 2.78
142 143 2.544267 GTCTGAAGAAGTGGGTGTTTCG 59.456 50.000 0.00 0.00 0.00 3.46
143 144 2.432874 TCTGAAGAAGTGGGTGTTTCGA 59.567 45.455 0.00 0.00 0.00 3.71
144 145 3.071023 TCTGAAGAAGTGGGTGTTTCGAT 59.929 43.478 0.00 0.00 0.00 3.59
145 146 3.815401 CTGAAGAAGTGGGTGTTTCGATT 59.185 43.478 0.00 0.00 0.00 3.34
146 147 3.563808 TGAAGAAGTGGGTGTTTCGATTG 59.436 43.478 0.00 0.00 0.00 2.67
147 148 3.485463 AGAAGTGGGTGTTTCGATTGA 57.515 42.857 0.00 0.00 0.00 2.57
148 149 4.021102 AGAAGTGGGTGTTTCGATTGAT 57.979 40.909 0.00 0.00 0.00 2.57
149 150 3.753272 AGAAGTGGGTGTTTCGATTGATG 59.247 43.478 0.00 0.00 0.00 3.07
150 151 1.812571 AGTGGGTGTTTCGATTGATGC 59.187 47.619 0.00 0.00 0.00 3.91
151 152 1.539388 GTGGGTGTTTCGATTGATGCA 59.461 47.619 0.00 0.00 0.00 3.96
152 153 2.164219 GTGGGTGTTTCGATTGATGCAT 59.836 45.455 0.00 0.00 0.00 3.96
153 154 2.423185 TGGGTGTTTCGATTGATGCATC 59.577 45.455 20.14 20.14 0.00 3.91
154 155 2.539547 GGGTGTTTCGATTGATGCATCG 60.540 50.000 21.34 11.56 41.24 3.84
155 156 2.539547 GGTGTTTCGATTGATGCATCGG 60.540 50.000 21.34 10.75 40.38 4.18
156 157 1.670295 TGTTTCGATTGATGCATCGGG 59.330 47.619 21.34 10.41 40.38 5.14
157 158 1.670811 GTTTCGATTGATGCATCGGGT 59.329 47.619 21.34 9.86 40.38 5.28
158 159 1.581934 TTCGATTGATGCATCGGGTC 58.418 50.000 21.34 16.55 40.38 4.46
159 160 0.463620 TCGATTGATGCATCGGGTCA 59.536 50.000 21.34 2.20 40.38 4.02
160 161 1.134551 TCGATTGATGCATCGGGTCAA 60.135 47.619 21.34 11.88 40.38 3.18
161 162 1.670295 CGATTGATGCATCGGGTCAAA 59.330 47.619 21.34 9.55 35.70 2.69
162 163 2.097304 CGATTGATGCATCGGGTCAAAA 59.903 45.455 21.34 8.84 35.70 2.44
163 164 3.243168 CGATTGATGCATCGGGTCAAAAT 60.243 43.478 21.34 13.11 35.70 1.82
164 165 4.685924 GATTGATGCATCGGGTCAAAATT 58.314 39.130 21.34 0.00 35.70 1.82
165 166 3.507103 TGATGCATCGGGTCAAAATTG 57.493 42.857 21.34 0.00 0.00 2.32
166 167 2.824936 TGATGCATCGGGTCAAAATTGT 59.175 40.909 21.34 0.00 0.00 2.71
167 168 4.013050 TGATGCATCGGGTCAAAATTGTA 58.987 39.130 21.34 0.00 0.00 2.41
168 169 4.644234 TGATGCATCGGGTCAAAATTGTAT 59.356 37.500 21.34 0.00 0.00 2.29
169 170 5.825151 TGATGCATCGGGTCAAAATTGTATA 59.175 36.000 21.34 0.00 0.00 1.47
170 171 6.489700 TGATGCATCGGGTCAAAATTGTATAT 59.510 34.615 21.34 0.00 0.00 0.86
171 172 6.070897 TGCATCGGGTCAAAATTGTATATG 57.929 37.500 0.00 0.00 0.00 1.78
172 173 5.592282 TGCATCGGGTCAAAATTGTATATGT 59.408 36.000 0.00 0.00 0.00 2.29
173 174 5.914635 GCATCGGGTCAAAATTGTATATGTG 59.085 40.000 0.00 0.00 0.00 3.21
174 175 6.238621 GCATCGGGTCAAAATTGTATATGTGA 60.239 38.462 0.00 0.00 0.00 3.58
175 176 7.522073 GCATCGGGTCAAAATTGTATATGTGAT 60.522 37.037 0.00 0.00 0.00 3.06
176 177 7.873719 TCGGGTCAAAATTGTATATGTGATT 57.126 32.000 0.00 0.00 0.00 2.57
177 178 8.287439 TCGGGTCAAAATTGTATATGTGATTT 57.713 30.769 0.00 0.00 0.00 2.17
178 179 9.397280 TCGGGTCAAAATTGTATATGTGATTTA 57.603 29.630 0.00 0.00 0.00 1.40
179 180 9.663904 CGGGTCAAAATTGTATATGTGATTTAG 57.336 33.333 0.00 0.00 0.00 1.85
180 181 9.965824 GGGTCAAAATTGTATATGTGATTTAGG 57.034 33.333 0.00 0.00 0.00 2.69
194 195 8.706492 ATGTGATTTAGGTTAACATTGCAATG 57.294 30.769 32.74 32.74 42.10 2.82
195 196 7.890515 TGTGATTTAGGTTAACATTGCAATGA 58.109 30.769 38.99 19.92 39.67 2.57
196 197 7.812191 TGTGATTTAGGTTAACATTGCAATGAC 59.188 33.333 38.99 27.53 39.67 3.06
197 198 7.275560 GTGATTTAGGTTAACATTGCAATGACC 59.724 37.037 38.99 33.30 39.67 4.02
198 199 6.656632 TTTAGGTTAACATTGCAATGACCA 57.343 33.333 38.99 23.67 39.67 4.02
199 200 4.519540 AGGTTAACATTGCAATGACCAC 57.480 40.909 38.99 28.81 39.67 4.16
200 201 4.151883 AGGTTAACATTGCAATGACCACT 58.848 39.130 38.99 26.25 39.67 4.00
201 202 4.588528 AGGTTAACATTGCAATGACCACTT 59.411 37.500 38.99 25.92 39.67 3.16
202 203 5.070313 AGGTTAACATTGCAATGACCACTTT 59.930 36.000 38.99 25.31 39.67 2.66
203 204 5.757808 GGTTAACATTGCAATGACCACTTTT 59.242 36.000 38.99 24.69 39.67 2.27
204 205 6.073819 GGTTAACATTGCAATGACCACTTTTC 60.074 38.462 38.99 19.60 39.67 2.29
205 206 4.942761 ACATTGCAATGACCACTTTTCT 57.057 36.364 38.99 15.02 39.67 2.52
206 207 5.280654 ACATTGCAATGACCACTTTTCTT 57.719 34.783 38.99 14.53 39.67 2.52
207 208 5.051816 ACATTGCAATGACCACTTTTCTTG 58.948 37.500 38.99 14.82 39.67 3.02
208 209 3.731652 TGCAATGACCACTTTTCTTGG 57.268 42.857 0.00 0.00 40.32 3.61
209 210 3.295093 TGCAATGACCACTTTTCTTGGA 58.705 40.909 0.00 0.00 37.58 3.53
210 211 3.703556 TGCAATGACCACTTTTCTTGGAA 59.296 39.130 0.00 0.00 37.58 3.53
211 212 4.051237 GCAATGACCACTTTTCTTGGAAC 58.949 43.478 0.00 0.00 37.58 3.62
212 213 4.441356 GCAATGACCACTTTTCTTGGAACA 60.441 41.667 0.00 0.00 37.58 3.18
213 214 4.918810 ATGACCACTTTTCTTGGAACAC 57.081 40.909 0.00 0.00 39.29 3.32
214 215 3.691575 TGACCACTTTTCTTGGAACACA 58.308 40.909 0.00 0.00 39.29 3.72
215 216 4.082845 TGACCACTTTTCTTGGAACACAA 58.917 39.130 0.00 0.00 39.29 3.33
216 217 4.524714 TGACCACTTTTCTTGGAACACAAA 59.475 37.500 0.00 0.00 39.29 2.83
217 218 5.011125 TGACCACTTTTCTTGGAACACAAAA 59.989 36.000 0.00 0.00 39.29 2.44
218 219 5.234752 ACCACTTTTCTTGGAACACAAAAC 58.765 37.500 0.00 0.00 39.29 2.43
219 220 5.011635 ACCACTTTTCTTGGAACACAAAACT 59.988 36.000 0.00 0.00 39.29 2.66
220 221 6.209788 ACCACTTTTCTTGGAACACAAAACTA 59.790 34.615 0.00 0.00 39.29 2.24
221 222 7.093992 CCACTTTTCTTGGAACACAAAACTAA 58.906 34.615 0.00 0.00 39.29 2.24
222 223 7.275560 CCACTTTTCTTGGAACACAAAACTAAG 59.724 37.037 0.00 0.00 39.29 2.18
223 224 7.812669 CACTTTTCTTGGAACACAAAACTAAGT 59.187 33.333 0.00 0.00 39.29 2.24
224 225 8.364894 ACTTTTCTTGGAACACAAAACTAAGTT 58.635 29.630 0.00 0.00 39.29 2.66
225 226 9.849166 CTTTTCTTGGAACACAAAACTAAGTTA 57.151 29.630 0.00 0.00 39.29 2.24
266 267 8.884124 CCCCCATGATTCTGTTGTATATAAAT 57.116 34.615 0.00 0.00 0.00 1.40
267 268 9.312904 CCCCCATGATTCTGTTGTATATAAATT 57.687 33.333 0.00 0.00 0.00 1.82
284 285 8.986477 ATATAAATTCAGTTTTGTGTTCTGGC 57.014 30.769 0.00 0.00 0.00 4.85
285 286 5.343307 AAATTCAGTTTTGTGTTCTGGCT 57.657 34.783 0.00 0.00 0.00 4.75
286 287 6.463995 AAATTCAGTTTTGTGTTCTGGCTA 57.536 33.333 0.00 0.00 0.00 3.93
287 288 4.893424 TTCAGTTTTGTGTTCTGGCTAC 57.107 40.909 0.00 0.00 0.00 3.58
288 289 3.879998 TCAGTTTTGTGTTCTGGCTACA 58.120 40.909 0.00 0.00 0.00 2.74
289 290 3.625764 TCAGTTTTGTGTTCTGGCTACAC 59.374 43.478 9.96 9.96 44.73 2.90
296 297 4.568152 GTGTTCTGGCTACACATTTGTT 57.432 40.909 11.41 0.00 44.08 2.83
297 298 4.932146 GTGTTCTGGCTACACATTTGTTT 58.068 39.130 11.41 0.00 44.08 2.83
298 299 6.067263 GTGTTCTGGCTACACATTTGTTTA 57.933 37.500 11.41 0.00 44.08 2.01
299 300 6.142817 GTGTTCTGGCTACACATTTGTTTAG 58.857 40.000 11.41 0.52 44.08 1.85
300 301 5.240623 TGTTCTGGCTACACATTTGTTTAGG 59.759 40.000 6.14 0.00 37.15 2.69
301 302 4.980573 TCTGGCTACACATTTGTTTAGGT 58.019 39.130 6.14 0.00 37.15 3.08
302 303 4.759693 TCTGGCTACACATTTGTTTAGGTG 59.240 41.667 6.14 0.00 37.15 4.00
303 304 3.254657 TGGCTACACATTTGTTTAGGTGC 59.745 43.478 6.14 0.00 37.15 5.01
304 305 3.254657 GGCTACACATTTGTTTAGGTGCA 59.745 43.478 6.14 0.00 37.15 4.57
305 306 4.475944 GCTACACATTTGTTTAGGTGCAG 58.524 43.478 6.14 0.00 37.15 4.41
306 307 4.215399 GCTACACATTTGTTTAGGTGCAGA 59.785 41.667 6.14 0.00 37.15 4.26
307 308 4.568152 ACACATTTGTTTAGGTGCAGAC 57.432 40.909 0.00 0.00 34.69 3.51
308 309 3.317993 ACACATTTGTTTAGGTGCAGACC 59.682 43.478 0.00 0.00 35.81 3.85
309 310 4.931425 ACACATTTGTTTAGGTGCAGACCT 60.931 41.667 0.97 0.97 44.35 3.85
310 311 6.948477 ACACATTTGTTTAGGTGCAGACCTG 61.948 44.000 6.13 0.00 42.80 4.00
311 312 9.956885 TACACATTTGTTTAGGTGCAGACCTGT 62.957 40.741 6.13 0.00 44.05 4.00
316 317 2.665603 GGTGCAGACCTGTCCCTC 59.334 66.667 0.00 0.00 39.47 4.30
317 318 1.915769 GGTGCAGACCTGTCCCTCT 60.916 63.158 0.00 0.00 39.47 3.69
318 319 1.294780 GTGCAGACCTGTCCCTCTG 59.705 63.158 0.00 0.00 37.55 3.35
320 321 2.985456 CAGACCTGTCCCTCTGCC 59.015 66.667 0.00 0.00 0.00 4.85
321 322 1.611851 CAGACCTGTCCCTCTGCCT 60.612 63.158 0.00 0.00 0.00 4.75
322 323 1.611851 AGACCTGTCCCTCTGCCTG 60.612 63.158 0.00 0.00 0.00 4.85
323 324 2.608988 ACCTGTCCCTCTGCCTGG 60.609 66.667 0.00 0.00 0.00 4.45
324 325 2.608988 CCTGTCCCTCTGCCTGGT 60.609 66.667 0.00 0.00 0.00 4.00
446 473 3.465403 CCTCCTCTCCGCCACAGG 61.465 72.222 0.00 0.00 0.00 4.00
470 497 1.283905 CCCCGTTTTCCTGAACCCTAT 59.716 52.381 0.00 0.00 0.00 2.57
570 604 1.847968 CCACCTCAAGTCCCCCACT 60.848 63.158 0.00 0.00 36.64 4.00
591 625 4.052229 CCCGACAACGTCCTCGCT 62.052 66.667 8.87 0.00 41.18 4.93
676 728 1.101049 CAGCGTGGACAAAACCCTGT 61.101 55.000 0.00 0.00 0.00 4.00
746 798 4.052229 CCGCCTTGTCTCGGTCGT 62.052 66.667 0.00 0.00 40.72 4.34
762 814 1.595794 GTCGTCCACAAACAATGTCGT 59.404 47.619 0.00 0.00 41.46 4.34
829 881 0.397941 CTCCTGCCACAACTTCCTCA 59.602 55.000 0.00 0.00 0.00 3.86
851 903 3.518998 GCTCCAGCGCTCGTCCTA 61.519 66.667 7.13 0.00 0.00 2.94
852 904 2.409651 CTCCAGCGCTCGTCCTAC 59.590 66.667 7.13 0.00 0.00 3.18
1055 1111 0.543749 GGCTCTGGTATGTTCAGGCT 59.456 55.000 0.00 0.00 32.73 4.58
1629 1727 7.281100 CCTAACTGGATGTTCACTATCTTTTCC 59.719 40.741 0.00 0.00 39.89 3.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 9.399797 ACTCATGCTTAATGTGATAATTCAGAA 57.600 29.630 0.00 0.00 37.56 3.02
10 11 8.969260 ACTCATGCTTAATGTGATAATTCAGA 57.031 30.769 0.00 0.00 37.56 3.27
26 27 9.630098 CAAAGTCACAAAAATATACTCATGCTT 57.370 29.630 0.00 0.00 0.00 3.91
27 28 9.013229 TCAAAGTCACAAAAATATACTCATGCT 57.987 29.630 0.00 0.00 0.00 3.79
28 29 9.624697 TTCAAAGTCACAAAAATATACTCATGC 57.375 29.630 0.00 0.00 0.00 4.06
35 36 9.619316 CGGTCATTTCAAAGTCACAAAAATATA 57.381 29.630 0.00 0.00 0.00 0.86
36 37 8.356657 TCGGTCATTTCAAAGTCACAAAAATAT 58.643 29.630 0.00 0.00 0.00 1.28
37 38 7.646130 GTCGGTCATTTCAAAGTCACAAAAATA 59.354 33.333 0.00 0.00 0.00 1.40
38 39 6.475402 GTCGGTCATTTCAAAGTCACAAAAAT 59.525 34.615 0.00 0.00 0.00 1.82
39 40 5.802956 GTCGGTCATTTCAAAGTCACAAAAA 59.197 36.000 0.00 0.00 0.00 1.94
40 41 5.336744 GTCGGTCATTTCAAAGTCACAAAA 58.663 37.500 0.00 0.00 0.00 2.44
41 42 4.495019 CGTCGGTCATTTCAAAGTCACAAA 60.495 41.667 0.00 0.00 0.00 2.83
42 43 3.001838 CGTCGGTCATTTCAAAGTCACAA 59.998 43.478 0.00 0.00 0.00 3.33
43 44 2.542178 CGTCGGTCATTTCAAAGTCACA 59.458 45.455 0.00 0.00 0.00 3.58
44 45 2.661979 GCGTCGGTCATTTCAAAGTCAC 60.662 50.000 0.00 0.00 0.00 3.67
45 46 1.529438 GCGTCGGTCATTTCAAAGTCA 59.471 47.619 0.00 0.00 0.00 3.41
46 47 1.798813 AGCGTCGGTCATTTCAAAGTC 59.201 47.619 0.00 0.00 0.00 3.01
47 48 1.531149 CAGCGTCGGTCATTTCAAAGT 59.469 47.619 0.00 0.00 0.00 2.66
48 49 1.725931 GCAGCGTCGGTCATTTCAAAG 60.726 52.381 0.00 0.00 0.00 2.77
49 50 0.237235 GCAGCGTCGGTCATTTCAAA 59.763 50.000 0.00 0.00 0.00 2.69
50 51 0.882484 TGCAGCGTCGGTCATTTCAA 60.882 50.000 0.00 0.00 0.00 2.69
51 52 0.882484 TTGCAGCGTCGGTCATTTCA 60.882 50.000 0.00 0.00 0.00 2.69
52 53 0.179215 CTTGCAGCGTCGGTCATTTC 60.179 55.000 0.00 0.00 0.00 2.17
53 54 0.884704 ACTTGCAGCGTCGGTCATTT 60.885 50.000 0.00 0.00 0.00 2.32
54 55 1.301716 ACTTGCAGCGTCGGTCATT 60.302 52.632 0.00 0.00 0.00 2.57
55 56 2.029288 CACTTGCAGCGTCGGTCAT 61.029 57.895 0.00 0.00 0.00 3.06
56 57 2.661537 CACTTGCAGCGTCGGTCA 60.662 61.111 0.00 0.00 0.00 4.02
57 58 3.414700 CCACTTGCAGCGTCGGTC 61.415 66.667 0.00 0.00 0.00 4.79
58 59 3.750373 AACCACTTGCAGCGTCGGT 62.750 57.895 0.00 0.00 0.00 4.69
59 60 2.542907 AAACCACTTGCAGCGTCGG 61.543 57.895 0.00 0.00 0.00 4.79
60 61 1.369209 CAAACCACTTGCAGCGTCG 60.369 57.895 0.00 0.00 0.00 5.12
61 62 0.040958 CTCAAACCACTTGCAGCGTC 60.041 55.000 0.00 0.00 34.76 5.19
62 63 1.447317 CCTCAAACCACTTGCAGCGT 61.447 55.000 0.00 0.00 34.76 5.07
63 64 1.283793 CCTCAAACCACTTGCAGCG 59.716 57.895 0.00 0.00 34.76 5.18
64 65 0.746659 AACCTCAAACCACTTGCAGC 59.253 50.000 0.00 0.00 34.76 5.25
65 66 2.689983 AGAAACCTCAAACCACTTGCAG 59.310 45.455 0.00 0.00 34.76 4.41
66 67 2.733956 AGAAACCTCAAACCACTTGCA 58.266 42.857 0.00 0.00 34.76 4.08
67 68 4.911514 TTAGAAACCTCAAACCACTTGC 57.088 40.909 0.00 0.00 34.76 4.01
68 69 6.633500 TCATTAGAAACCTCAAACCACTTG 57.367 37.500 0.00 0.00 36.25 3.16
69 70 7.004086 TGATCATTAGAAACCTCAAACCACTT 58.996 34.615 0.00 0.00 0.00 3.16
70 71 6.542821 TGATCATTAGAAACCTCAAACCACT 58.457 36.000 0.00 0.00 0.00 4.00
71 72 6.431234 ACTGATCATTAGAAACCTCAAACCAC 59.569 38.462 0.00 0.00 0.00 4.16
72 73 6.542821 ACTGATCATTAGAAACCTCAAACCA 58.457 36.000 0.00 0.00 0.00 3.67
73 74 7.454260 AACTGATCATTAGAAACCTCAAACC 57.546 36.000 0.00 0.00 0.00 3.27
76 77 9.436957 GTCTTAACTGATCATTAGAAACCTCAA 57.563 33.333 0.00 0.00 0.00 3.02
77 78 8.816894 AGTCTTAACTGATCATTAGAAACCTCA 58.183 33.333 0.00 0.00 33.32 3.86
108 109 9.533253 CCACTTCTTCAGACAAAAATTAATGTT 57.467 29.630 0.00 0.00 0.00 2.71
109 110 8.143835 CCCACTTCTTCAGACAAAAATTAATGT 58.856 33.333 0.00 0.00 0.00 2.71
110 111 8.143835 ACCCACTTCTTCAGACAAAAATTAATG 58.856 33.333 0.00 0.00 0.00 1.90
111 112 8.143835 CACCCACTTCTTCAGACAAAAATTAAT 58.856 33.333 0.00 0.00 0.00 1.40
112 113 7.123547 ACACCCACTTCTTCAGACAAAAATTAA 59.876 33.333 0.00 0.00 0.00 1.40
113 114 6.605594 ACACCCACTTCTTCAGACAAAAATTA 59.394 34.615 0.00 0.00 0.00 1.40
114 115 5.422012 ACACCCACTTCTTCAGACAAAAATT 59.578 36.000 0.00 0.00 0.00 1.82
115 116 4.956075 ACACCCACTTCTTCAGACAAAAAT 59.044 37.500 0.00 0.00 0.00 1.82
116 117 4.340617 ACACCCACTTCTTCAGACAAAAA 58.659 39.130 0.00 0.00 0.00 1.94
117 118 3.963129 ACACCCACTTCTTCAGACAAAA 58.037 40.909 0.00 0.00 0.00 2.44
118 119 3.644966 ACACCCACTTCTTCAGACAAA 57.355 42.857 0.00 0.00 0.00 2.83
119 120 3.644966 AACACCCACTTCTTCAGACAA 57.355 42.857 0.00 0.00 0.00 3.18
120 121 3.541632 GAAACACCCACTTCTTCAGACA 58.458 45.455 0.00 0.00 0.00 3.41
121 122 2.544267 CGAAACACCCACTTCTTCAGAC 59.456 50.000 0.00 0.00 0.00 3.51
122 123 2.432874 TCGAAACACCCACTTCTTCAGA 59.567 45.455 0.00 0.00 0.00 3.27
123 124 2.833794 TCGAAACACCCACTTCTTCAG 58.166 47.619 0.00 0.00 0.00 3.02
124 125 2.992124 TCGAAACACCCACTTCTTCA 57.008 45.000 0.00 0.00 0.00 3.02
125 126 3.813166 TCAATCGAAACACCCACTTCTTC 59.187 43.478 0.00 0.00 0.00 2.87
126 127 3.815809 TCAATCGAAACACCCACTTCTT 58.184 40.909 0.00 0.00 0.00 2.52
127 128 3.485463 TCAATCGAAACACCCACTTCT 57.515 42.857 0.00 0.00 0.00 2.85
128 129 3.670627 GCATCAATCGAAACACCCACTTC 60.671 47.826 0.00 0.00 0.00 3.01
129 130 2.228822 GCATCAATCGAAACACCCACTT 59.771 45.455 0.00 0.00 0.00 3.16
130 131 1.812571 GCATCAATCGAAACACCCACT 59.187 47.619 0.00 0.00 0.00 4.00
131 132 1.539388 TGCATCAATCGAAACACCCAC 59.461 47.619 0.00 0.00 0.00 4.61
132 133 1.902938 TGCATCAATCGAAACACCCA 58.097 45.000 0.00 0.00 0.00 4.51
133 134 3.070429 GATGCATCAATCGAAACACCC 57.930 47.619 21.92 0.00 0.00 4.61
142 143 3.781079 TTTTGACCCGATGCATCAATC 57.219 42.857 25.70 18.45 32.61 2.67
143 144 4.081531 ACAATTTTGACCCGATGCATCAAT 60.082 37.500 25.70 12.94 32.61 2.57
144 145 3.257873 ACAATTTTGACCCGATGCATCAA 59.742 39.130 25.70 11.35 0.00 2.57
145 146 2.824936 ACAATTTTGACCCGATGCATCA 59.175 40.909 25.70 5.09 0.00 3.07
146 147 3.508744 ACAATTTTGACCCGATGCATC 57.491 42.857 17.10 17.10 0.00 3.91
147 148 6.265196 ACATATACAATTTTGACCCGATGCAT 59.735 34.615 0.00 0.00 0.00 3.96
148 149 5.592282 ACATATACAATTTTGACCCGATGCA 59.408 36.000 0.00 0.00 0.00 3.96
149 150 5.914635 CACATATACAATTTTGACCCGATGC 59.085 40.000 0.00 0.00 0.00 3.91
150 151 7.258022 TCACATATACAATTTTGACCCGATG 57.742 36.000 0.00 0.00 0.00 3.84
151 152 8.463930 AATCACATATACAATTTTGACCCGAT 57.536 30.769 0.00 0.00 0.00 4.18
152 153 7.873719 AATCACATATACAATTTTGACCCGA 57.126 32.000 0.00 0.00 0.00 5.14
153 154 9.663904 CTAAATCACATATACAATTTTGACCCG 57.336 33.333 0.00 0.00 0.00 5.28
154 155 9.965824 CCTAAATCACATATACAATTTTGACCC 57.034 33.333 0.00 0.00 0.00 4.46
168 169 9.800433 CATTGCAATGTTAACCTAAATCACATA 57.200 29.630 27.81 0.00 0.00 2.29
169 170 8.530311 TCATTGCAATGTTAACCTAAATCACAT 58.470 29.630 32.67 0.00 37.65 3.21
170 171 7.812191 GTCATTGCAATGTTAACCTAAATCACA 59.188 33.333 32.67 10.18 37.65 3.58
171 172 7.275560 GGTCATTGCAATGTTAACCTAAATCAC 59.724 37.037 32.67 20.35 37.65 3.06
172 173 7.039434 TGGTCATTGCAATGTTAACCTAAATCA 60.039 33.333 32.37 19.54 37.65 2.57
173 174 7.275560 GTGGTCATTGCAATGTTAACCTAAATC 59.724 37.037 32.37 17.73 37.65 2.17
174 175 7.039082 AGTGGTCATTGCAATGTTAACCTAAAT 60.039 33.333 32.37 19.37 37.65 1.40
175 176 6.266558 AGTGGTCATTGCAATGTTAACCTAAA 59.733 34.615 32.37 19.51 37.65 1.85
176 177 5.772672 AGTGGTCATTGCAATGTTAACCTAA 59.227 36.000 32.37 20.02 37.65 2.69
177 178 5.321102 AGTGGTCATTGCAATGTTAACCTA 58.679 37.500 32.37 22.48 37.65 3.08
178 179 4.151883 AGTGGTCATTGCAATGTTAACCT 58.848 39.130 32.37 22.73 37.65 3.50
179 180 4.519540 AGTGGTCATTGCAATGTTAACC 57.480 40.909 32.67 30.65 37.65 2.85
180 181 6.701400 AGAAAAGTGGTCATTGCAATGTTAAC 59.299 34.615 32.67 26.71 37.65 2.01
181 182 6.815089 AGAAAAGTGGTCATTGCAATGTTAA 58.185 32.000 32.67 19.17 37.65 2.01
182 183 6.403866 AGAAAAGTGGTCATTGCAATGTTA 57.596 33.333 32.67 19.88 37.65 2.41
183 184 5.280654 AGAAAAGTGGTCATTGCAATGTT 57.719 34.783 32.67 20.59 37.65 2.71
184 185 4.942761 AGAAAAGTGGTCATTGCAATGT 57.057 36.364 32.67 15.56 37.65 2.71
185 186 4.449743 CCAAGAAAAGTGGTCATTGCAATG 59.550 41.667 29.75 29.75 37.75 2.82
186 187 4.344679 TCCAAGAAAAGTGGTCATTGCAAT 59.655 37.500 5.99 5.99 37.43 3.56
187 188 3.703556 TCCAAGAAAAGTGGTCATTGCAA 59.296 39.130 0.00 0.00 37.43 4.08
188 189 3.295093 TCCAAGAAAAGTGGTCATTGCA 58.705 40.909 0.00 0.00 37.43 4.08
189 190 4.051237 GTTCCAAGAAAAGTGGTCATTGC 58.949 43.478 0.00 0.00 37.43 3.56
190 191 5.043248 GTGTTCCAAGAAAAGTGGTCATTG 58.957 41.667 0.00 0.00 37.43 2.82
191 192 4.709397 TGTGTTCCAAGAAAAGTGGTCATT 59.291 37.500 0.00 0.00 37.43 2.57
192 193 4.277476 TGTGTTCCAAGAAAAGTGGTCAT 58.723 39.130 0.00 0.00 37.43 3.06
193 194 3.691575 TGTGTTCCAAGAAAAGTGGTCA 58.308 40.909 0.00 0.00 37.43 4.02
194 195 4.712122 TTGTGTTCCAAGAAAAGTGGTC 57.288 40.909 0.00 0.00 37.43 4.02
195 196 5.011635 AGTTTTGTGTTCCAAGAAAAGTGGT 59.988 36.000 0.00 0.00 37.43 4.16
196 197 5.478407 AGTTTTGTGTTCCAAGAAAAGTGG 58.522 37.500 0.00 0.00 37.51 4.00
197 198 7.812669 ACTTAGTTTTGTGTTCCAAGAAAAGTG 59.187 33.333 0.00 0.00 33.75 3.16
198 199 7.892609 ACTTAGTTTTGTGTTCCAAGAAAAGT 58.107 30.769 0.00 0.00 33.75 2.66
199 200 8.757164 AACTTAGTTTTGTGTTCCAAGAAAAG 57.243 30.769 0.00 0.00 33.75 2.27
241 242 8.884124 ATTTATATACAACAGAATCATGGGGG 57.116 34.615 0.00 0.00 0.00 5.40
259 260 8.806146 AGCCAGAACACAAAACTGAATTTATAT 58.194 29.630 0.00 0.00 34.07 0.86
260 261 8.177119 AGCCAGAACACAAAACTGAATTTATA 57.823 30.769 0.00 0.00 34.07 0.98
261 262 7.054491 AGCCAGAACACAAAACTGAATTTAT 57.946 32.000 0.00 0.00 34.07 1.40
262 263 6.463995 AGCCAGAACACAAAACTGAATTTA 57.536 33.333 0.00 0.00 34.07 1.40
263 264 5.343307 AGCCAGAACACAAAACTGAATTT 57.657 34.783 0.00 0.00 34.07 1.82
264 265 5.359576 TGTAGCCAGAACACAAAACTGAATT 59.640 36.000 0.00 0.00 34.07 2.17
265 266 4.887071 TGTAGCCAGAACACAAAACTGAAT 59.113 37.500 0.00 0.00 34.07 2.57
266 267 4.095782 GTGTAGCCAGAACACAAAACTGAA 59.904 41.667 0.00 0.00 45.26 3.02
267 268 3.625764 GTGTAGCCAGAACACAAAACTGA 59.374 43.478 0.00 0.00 45.26 3.41
268 269 3.952535 GTGTAGCCAGAACACAAAACTG 58.047 45.455 1.66 0.00 45.26 3.16
275 276 4.568152 AACAAATGTGTAGCCAGAACAC 57.432 40.909 0.00 0.00 45.96 3.32
276 277 5.240623 CCTAAACAAATGTGTAGCCAGAACA 59.759 40.000 5.39 0.00 36.80 3.18
277 278 5.240844 ACCTAAACAAATGTGTAGCCAGAAC 59.759 40.000 5.39 0.00 36.80 3.01
278 279 5.240623 CACCTAAACAAATGTGTAGCCAGAA 59.759 40.000 5.39 0.00 36.80 3.02
279 280 4.759693 CACCTAAACAAATGTGTAGCCAGA 59.240 41.667 5.39 0.00 36.80 3.86
280 281 4.615912 GCACCTAAACAAATGTGTAGCCAG 60.616 45.833 5.39 0.00 36.80 4.85
281 282 3.254657 GCACCTAAACAAATGTGTAGCCA 59.745 43.478 5.39 0.00 36.80 4.75
282 283 3.254657 TGCACCTAAACAAATGTGTAGCC 59.745 43.478 5.39 0.00 36.80 3.93
283 284 4.215399 TCTGCACCTAAACAAATGTGTAGC 59.785 41.667 5.39 0.00 40.05 3.58
284 285 5.334879 GGTCTGCACCTAAACAAATGTGTAG 60.335 44.000 4.10 4.10 41.11 2.74
285 286 4.517453 GGTCTGCACCTAAACAAATGTGTA 59.483 41.667 0.00 0.00 40.00 2.90
286 287 3.317993 GGTCTGCACCTAAACAAATGTGT 59.682 43.478 0.00 0.00 40.00 3.72
287 288 3.900941 GGTCTGCACCTAAACAAATGTG 58.099 45.455 0.00 0.00 40.00 3.21
299 300 1.915769 AGAGGGACAGGTCTGCACC 60.916 63.158 0.00 1.09 44.19 5.01
300 301 1.294780 CAGAGGGACAGGTCTGCAC 59.705 63.158 0.00 0.00 34.15 4.57
301 302 3.797331 CAGAGGGACAGGTCTGCA 58.203 61.111 0.00 0.00 34.15 4.41
303 304 1.611851 AGGCAGAGGGACAGGTCTG 60.612 63.158 0.00 0.00 42.72 3.51
304 305 1.611851 CAGGCAGAGGGACAGGTCT 60.612 63.158 0.00 0.00 0.00 3.85
305 306 2.664081 CCAGGCAGAGGGACAGGTC 61.664 68.421 0.00 0.00 0.00 3.85
306 307 2.608988 CCAGGCAGAGGGACAGGT 60.609 66.667 0.00 0.00 0.00 4.00
307 308 2.608988 ACCAGGCAGAGGGACAGG 60.609 66.667 0.00 0.00 0.00 4.00
308 309 2.667418 CACCAGGCAGAGGGACAG 59.333 66.667 0.00 0.00 0.00 3.51
309 310 3.640407 GCACCAGGCAGAGGGACA 61.640 66.667 0.00 0.00 43.97 4.02
446 473 3.516949 TTCAGGAAAACGGGGGCCC 62.517 63.158 15.76 15.76 0.00 5.80
530 564 0.742635 GAGCTTCTTCGAGGCCTTGG 60.743 60.000 20.46 9.32 35.17 3.61
540 574 1.270907 TGAGGTGGGAGAGCTTCTTC 58.729 55.000 0.00 0.00 30.42 2.87
570 604 0.452987 CGAGGACGTTGTCGGGATTA 59.547 55.000 11.52 0.00 41.85 1.75
625 668 2.125673 CGGGTCTTTGGCGACGAT 60.126 61.111 0.00 0.00 34.75 3.73
700 752 3.127352 GACTAGACAGGCCGAGGCG 62.127 68.421 8.14 0.00 43.06 5.52
742 794 1.595794 ACGACATTGTTTGTGGACGAC 59.404 47.619 0.00 0.00 39.18 4.34
746 798 4.443621 TCTGTAACGACATTGTTTGTGGA 58.556 39.130 0.00 0.00 39.18 4.02
847 899 3.113824 ACGAGAGAAGGTAGGAGTAGGA 58.886 50.000 0.00 0.00 0.00 2.94
848 900 3.469739 GACGAGAGAAGGTAGGAGTAGG 58.530 54.545 0.00 0.00 0.00 3.18
849 901 3.125316 CGACGAGAGAAGGTAGGAGTAG 58.875 54.545 0.00 0.00 0.00 2.57
850 902 2.158986 CCGACGAGAGAAGGTAGGAGTA 60.159 54.545 0.00 0.00 31.41 2.59
851 903 1.407162 CCGACGAGAGAAGGTAGGAGT 60.407 57.143 0.00 0.00 31.41 3.85
852 904 1.134461 TCCGACGAGAGAAGGTAGGAG 60.134 57.143 0.00 0.00 33.75 3.69
1629 1727 3.128589 ACTGGCAAGTAACAAACACACTG 59.871 43.478 0.00 0.00 33.79 3.66
2392 2771 7.821846 ACTCTGAAATCTTAGTCCTTGCTAAAG 59.178 37.037 0.00 0.00 31.43 1.85


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

AutoCloner maintained by Alex Coulton.