Multiple sequence alignment - TraesCS4A01G444600

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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 TraesCS4A01G444600 chr4A 100.000 2881 0 0 1 2881 712953682 712956562 0.000000e+00 5321.0
1 TraesCS4A01G444600 chr4A 91.166 1630 121 11 1270 2881 712915598 712917222 0.000000e+00 2191.0
2 TraesCS4A01G444600 chr4A 93.137 510 32 1 754 1260 712915043 712915552 0.000000e+00 745.0
3 TraesCS4A01G444600 chr4A 93.361 241 15 1 1 241 672126564 672126803 3.530000e-94 355.0
4 TraesCS4A01G444600 chr4A 81.081 481 52 17 223 672 712914522 712914994 5.910000e-92 348.0
5 TraesCS4A01G444600 chr7D 90.657 1445 110 8 1442 2881 20239059 20240483 0.000000e+00 1897.0
6 TraesCS4A01G444600 chr7D 86.441 1062 99 19 223 1260 20237719 20238759 0.000000e+00 1122.0
7 TraesCS4A01G444600 chr7D 93.750 176 11 0 1266 1441 20238801 20238976 6.120000e-67 265.0
8 TraesCS4A01G444600 chr7A 91.733 1125 73 7 1442 2561 20293355 20294464 0.000000e+00 1544.0
9 TraesCS4A01G444600 chr7A 84.944 1076 110 22 223 1260 20291994 20293055 0.000000e+00 1042.0
10 TraesCS4A01G444600 chr7A 88.519 270 27 2 2601 2866 20294458 20294727 9.960000e-85 324.0
11 TraesCS4A01G444600 chr7A 93.064 173 12 0 1269 1441 20293100 20293272 1.320000e-63 254.0
12 TraesCS4A01G444600 chr7A 83.761 234 28 9 1 224 20292150 20292383 2.250000e-51 213.0
13 TraesCS4A01G444600 chr7B 91.701 241 19 1 1 241 126627595 126627356 1.650000e-87 333.0
14 TraesCS4A01G444600 chr2D 86.379 301 24 9 320 616 140190505 140190218 2.160000e-81 313.0
15 TraesCS4A01G444600 chr1B 75.806 186 27 10 2116 2294 143638185 143638359 8.560000e-11 78.7
16 TraesCS4A01G444600 chr6A 83.133 83 8 4 2113 2190 391866935 391866854 1.430000e-08 71.3
17 TraesCS4A01G444600 chr2A 81.928 83 9 3 2113 2190 726586973 726586892 6.660000e-07 65.8
18 TraesCS4A01G444600 chr5B 94.444 36 2 0 2114 2149 81178346 81178381 4.010000e-04 56.5


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 TraesCS4A01G444600 chr4A 712953682 712956562 2880 False 5321.000000 5321 100.000000 1 2881 1 chr4A.!!$F2 2880
1 TraesCS4A01G444600 chr4A 712914522 712917222 2700 False 1094.666667 2191 88.461333 223 2881 3 chr4A.!!$F3 2658
2 TraesCS4A01G444600 chr7D 20237719 20240483 2764 False 1094.666667 1897 90.282667 223 2881 3 chr7D.!!$F1 2658
3 TraesCS4A01G444600 chr7A 20291994 20294727 2733 False 675.400000 1544 88.404200 1 2866 5 chr7A.!!$F1 2865

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
633 665 0.10412 TACGTTGATGGAGGGCATCG 59.896 55.0 0.0 0.0 34.43 3.84 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2219 2412 0.602638 GGTGTGTCCAGAATCACGCA 60.603 55.0 10.21 0.0 43.89 5.24 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 9.638176 AAATAAGATATCTGTTTCTCATTGCCT 57.362 29.630 5.86 0.00 0.00 4.75
34 35 9.638176 AATAAGATATCTGTTTCTCATTGCCTT 57.362 29.630 5.86 0.00 0.00 4.35
35 36 7.565323 AAGATATCTGTTTCTCATTGCCTTC 57.435 36.000 5.86 0.00 0.00 3.46
36 37 6.656902 AGATATCTGTTTCTCATTGCCTTCA 58.343 36.000 3.89 0.00 0.00 3.02
37 38 7.288560 AGATATCTGTTTCTCATTGCCTTCAT 58.711 34.615 3.89 0.00 0.00 2.57
38 39 7.778853 AGATATCTGTTTCTCATTGCCTTCATT 59.221 33.333 3.89 0.00 0.00 2.57
39 40 5.381174 TCTGTTTCTCATTGCCTTCATTG 57.619 39.130 0.00 0.00 0.00 2.82
40 41 5.072055 TCTGTTTCTCATTGCCTTCATTGA 58.928 37.500 0.00 0.00 33.21 2.57
41 42 5.535783 TCTGTTTCTCATTGCCTTCATTGAA 59.464 36.000 0.00 0.00 33.68 2.69
42 43 6.209986 TCTGTTTCTCATTGCCTTCATTGAAT 59.790 34.615 0.00 0.00 33.68 2.57
43 44 7.394077 TCTGTTTCTCATTGCCTTCATTGAATA 59.606 33.333 0.00 0.00 33.68 1.75
44 45 8.070034 TGTTTCTCATTGCCTTCATTGAATAT 57.930 30.769 0.00 0.00 33.68 1.28
45 46 7.977293 TGTTTCTCATTGCCTTCATTGAATATG 59.023 33.333 0.00 2.91 33.68 1.78
46 47 7.885009 TTCTCATTGCCTTCATTGAATATGA 57.115 32.000 0.00 6.53 33.68 2.15
47 48 8.473358 TTCTCATTGCCTTCATTGAATATGAT 57.527 30.769 0.00 0.00 33.68 2.45
48 49 8.473358 TCTCATTGCCTTCATTGAATATGATT 57.527 30.769 0.00 0.00 33.68 2.57
49 50 8.920174 TCTCATTGCCTTCATTGAATATGATTT 58.080 29.630 0.00 0.00 33.68 2.17
50 51 9.193133 CTCATTGCCTTCATTGAATATGATTTC 57.807 33.333 0.00 0.00 33.68 2.17
51 52 8.920174 TCATTGCCTTCATTGAATATGATTTCT 58.080 29.630 0.00 0.00 31.79 2.52
52 53 9.542462 CATTGCCTTCATTGAATATGATTTCTT 57.458 29.630 0.00 0.00 0.00 2.52
53 54 8.936070 TTGCCTTCATTGAATATGATTTCTTG 57.064 30.769 0.00 0.00 0.00 3.02
54 55 6.982141 TGCCTTCATTGAATATGATTTCTTGC 59.018 34.615 0.00 0.00 0.00 4.01
55 56 7.147794 TGCCTTCATTGAATATGATTTCTTGCT 60.148 33.333 0.00 0.00 0.00 3.91
56 57 7.709613 GCCTTCATTGAATATGATTTCTTGCTT 59.290 33.333 0.00 0.00 0.00 3.91
85 86 7.928307 TCAGAATGACATCCCTAAAAGAAAG 57.072 36.000 0.00 0.00 42.56 2.62
86 87 7.461749 TCAGAATGACATCCCTAAAAGAAAGT 58.538 34.615 0.00 0.00 42.56 2.66
87 88 7.607991 TCAGAATGACATCCCTAAAAGAAAGTC 59.392 37.037 0.00 0.00 42.56 3.01
88 89 7.391554 CAGAATGACATCCCTAAAAGAAAGTCA 59.608 37.037 0.00 0.00 39.69 3.41
89 90 7.944554 AGAATGACATCCCTAAAAGAAAGTCAA 59.055 33.333 0.00 0.00 36.54 3.18
90 91 6.877611 TGACATCCCTAAAAGAAAGTCAAC 57.122 37.500 0.00 0.00 32.69 3.18
91 92 5.768164 TGACATCCCTAAAAGAAAGTCAACC 59.232 40.000 0.00 0.00 32.69 3.77
92 93 5.701224 ACATCCCTAAAAGAAAGTCAACCA 58.299 37.500 0.00 0.00 0.00 3.67
93 94 6.133356 ACATCCCTAAAAGAAAGTCAACCAA 58.867 36.000 0.00 0.00 0.00 3.67
94 95 6.782494 ACATCCCTAAAAGAAAGTCAACCAAT 59.218 34.615 0.00 0.00 0.00 3.16
95 96 7.290014 ACATCCCTAAAAGAAAGTCAACCAATT 59.710 33.333 0.00 0.00 0.00 2.32
96 97 7.284919 TCCCTAAAAGAAAGTCAACCAATTC 57.715 36.000 0.00 0.00 0.00 2.17
97 98 7.066781 TCCCTAAAAGAAAGTCAACCAATTCT 58.933 34.615 0.00 0.00 33.73 2.40
98 99 7.563556 TCCCTAAAAGAAAGTCAACCAATTCTT 59.436 33.333 0.00 0.00 42.30 2.52
100 101 9.249457 CCTAAAAGAAAGTCAACCAATTCTTTC 57.751 33.333 11.43 6.86 46.07 2.62
101 102 7.755582 AAAAGAAAGTCAACCAATTCTTTCG 57.244 32.000 11.43 0.00 46.07 3.46
102 103 4.860072 AGAAAGTCAACCAATTCTTTCGC 58.140 39.130 8.55 0.00 45.63 4.70
103 104 4.580580 AGAAAGTCAACCAATTCTTTCGCT 59.419 37.500 8.55 0.00 45.63 4.93
104 105 5.763204 AGAAAGTCAACCAATTCTTTCGCTA 59.237 36.000 8.55 0.00 45.63 4.26
105 106 6.262273 AGAAAGTCAACCAATTCTTTCGCTAA 59.738 34.615 8.55 0.00 45.63 3.09
106 107 6.575162 AAGTCAACCAATTCTTTCGCTAAT 57.425 33.333 0.00 0.00 0.00 1.73
107 108 6.575162 AGTCAACCAATTCTTTCGCTAATT 57.425 33.333 0.00 0.00 0.00 1.40
108 109 6.381801 AGTCAACCAATTCTTTCGCTAATTG 58.618 36.000 0.00 0.00 40.94 2.32
109 110 6.016276 AGTCAACCAATTCTTTCGCTAATTGT 60.016 34.615 0.00 0.00 40.08 2.71
110 111 6.640907 GTCAACCAATTCTTTCGCTAATTGTT 59.359 34.615 0.00 0.00 40.08 2.83
111 112 7.806014 GTCAACCAATTCTTTCGCTAATTGTTA 59.194 33.333 0.00 0.00 40.08 2.41
112 113 8.519526 TCAACCAATTCTTTCGCTAATTGTTAT 58.480 29.630 0.00 0.00 40.08 1.89
113 114 9.781834 CAACCAATTCTTTCGCTAATTGTTATA 57.218 29.630 0.00 0.00 40.08 0.98
142 143 9.922305 CTTTAATTTTCTATCATGTTCGTCTCC 57.078 33.333 0.00 0.00 0.00 3.71
143 144 6.927294 AATTTTCTATCATGTTCGTCTCCC 57.073 37.500 0.00 0.00 0.00 4.30
144 145 4.402056 TTTCTATCATGTTCGTCTCCCC 57.598 45.455 0.00 0.00 0.00 4.81
145 146 3.314307 TCTATCATGTTCGTCTCCCCT 57.686 47.619 0.00 0.00 0.00 4.79
146 147 2.959030 TCTATCATGTTCGTCTCCCCTG 59.041 50.000 0.00 0.00 0.00 4.45
147 148 1.573108 ATCATGTTCGTCTCCCCTGT 58.427 50.000 0.00 0.00 0.00 4.00
148 149 1.348064 TCATGTTCGTCTCCCCTGTT 58.652 50.000 0.00 0.00 0.00 3.16
149 150 1.697432 TCATGTTCGTCTCCCCTGTTT 59.303 47.619 0.00 0.00 0.00 2.83
150 151 2.901192 TCATGTTCGTCTCCCCTGTTTA 59.099 45.455 0.00 0.00 0.00 2.01
151 152 3.325425 TCATGTTCGTCTCCCCTGTTTAA 59.675 43.478 0.00 0.00 0.00 1.52
152 153 3.116079 TGTTCGTCTCCCCTGTTTAAC 57.884 47.619 0.00 0.00 0.00 2.01
153 154 2.435069 TGTTCGTCTCCCCTGTTTAACA 59.565 45.455 0.00 0.00 0.00 2.41
154 155 3.071892 TGTTCGTCTCCCCTGTTTAACAT 59.928 43.478 0.00 0.00 0.00 2.71
155 156 4.070009 GTTCGTCTCCCCTGTTTAACATT 58.930 43.478 0.00 0.00 0.00 2.71
156 157 4.360951 TCGTCTCCCCTGTTTAACATTT 57.639 40.909 0.00 0.00 0.00 2.32
157 158 4.320870 TCGTCTCCCCTGTTTAACATTTC 58.679 43.478 0.00 0.00 0.00 2.17
158 159 3.439129 CGTCTCCCCTGTTTAACATTTCC 59.561 47.826 0.00 0.00 0.00 3.13
159 160 3.762288 GTCTCCCCTGTTTAACATTTCCC 59.238 47.826 0.00 0.00 0.00 3.97
160 161 3.399644 TCTCCCCTGTTTAACATTTCCCA 59.600 43.478 0.00 0.00 0.00 4.37
161 162 4.045334 TCTCCCCTGTTTAACATTTCCCAT 59.955 41.667 0.00 0.00 0.00 4.00
162 163 4.093011 TCCCCTGTTTAACATTTCCCATG 58.907 43.478 0.00 0.00 0.00 3.66
163 164 3.369366 CCCCTGTTTAACATTTCCCATGC 60.369 47.826 0.00 0.00 0.00 4.06
164 165 3.515104 CCCTGTTTAACATTTCCCATGCT 59.485 43.478 0.00 0.00 0.00 3.79
165 166 4.381932 CCCTGTTTAACATTTCCCATGCTC 60.382 45.833 0.00 0.00 0.00 4.26
166 167 4.463891 CCTGTTTAACATTTCCCATGCTCT 59.536 41.667 0.00 0.00 0.00 4.09
167 168 5.652014 CCTGTTTAACATTTCCCATGCTCTA 59.348 40.000 0.00 0.00 0.00 2.43
168 169 6.183360 CCTGTTTAACATTTCCCATGCTCTAG 60.183 42.308 0.00 0.00 0.00 2.43
169 170 6.245408 TGTTTAACATTTCCCATGCTCTAGT 58.755 36.000 0.00 0.00 0.00 2.57
170 171 6.719370 TGTTTAACATTTCCCATGCTCTAGTT 59.281 34.615 0.00 0.00 0.00 2.24
171 172 7.232534 TGTTTAACATTTCCCATGCTCTAGTTT 59.767 33.333 0.00 0.00 0.00 2.66
172 173 7.775053 TTAACATTTCCCATGCTCTAGTTTT 57.225 32.000 0.00 0.00 0.00 2.43
173 174 5.649782 ACATTTCCCATGCTCTAGTTTTG 57.350 39.130 0.00 0.00 0.00 2.44
174 175 5.079643 ACATTTCCCATGCTCTAGTTTTGT 58.920 37.500 0.00 0.00 0.00 2.83
175 176 5.047802 ACATTTCCCATGCTCTAGTTTTGTG 60.048 40.000 0.00 0.00 0.00 3.33
176 177 4.365514 TTCCCATGCTCTAGTTTTGTGA 57.634 40.909 0.00 0.00 0.00 3.58
177 178 3.674997 TCCCATGCTCTAGTTTTGTGAC 58.325 45.455 0.00 0.00 0.00 3.67
178 179 3.072330 TCCCATGCTCTAGTTTTGTGACA 59.928 43.478 0.00 0.00 0.00 3.58
179 180 3.820467 CCCATGCTCTAGTTTTGTGACAA 59.180 43.478 0.00 0.00 0.00 3.18
180 181 4.460382 CCCATGCTCTAGTTTTGTGACAAT 59.540 41.667 0.00 0.00 0.00 2.71
181 182 5.647658 CCCATGCTCTAGTTTTGTGACAATA 59.352 40.000 0.00 0.00 0.00 1.90
182 183 6.319658 CCCATGCTCTAGTTTTGTGACAATAT 59.680 38.462 0.00 0.00 0.00 1.28
183 184 7.498900 CCCATGCTCTAGTTTTGTGACAATATA 59.501 37.037 0.00 0.00 0.00 0.86
184 185 9.060347 CCATGCTCTAGTTTTGTGACAATATAT 57.940 33.333 0.00 0.00 0.00 0.86
209 210 2.872925 GCTGATGCTTGTTGCGCG 60.873 61.111 0.00 0.00 46.63 6.86
210 211 2.862436 CTGATGCTTGTTGCGCGA 59.138 55.556 12.10 0.00 46.63 5.87
211 212 1.225936 CTGATGCTTGTTGCGCGAG 60.226 57.895 12.10 0.00 46.63 5.03
212 213 1.629345 CTGATGCTTGTTGCGCGAGA 61.629 55.000 12.10 0.00 46.63 4.04
213 214 1.059994 GATGCTTGTTGCGCGAGAG 59.940 57.895 12.10 3.03 46.63 3.20
214 215 2.301902 GATGCTTGTTGCGCGAGAGG 62.302 60.000 12.10 0.00 46.63 3.69
215 216 2.738521 GCTTGTTGCGCGAGAGGA 60.739 61.111 12.10 0.00 0.00 3.71
216 217 2.734673 GCTTGTTGCGCGAGAGGAG 61.735 63.158 12.10 2.16 0.00 3.69
217 218 2.048222 TTGTTGCGCGAGAGGAGG 60.048 61.111 12.10 0.00 0.00 4.30
218 219 2.492449 CTTGTTGCGCGAGAGGAGGA 62.492 60.000 12.10 0.00 0.00 3.71
219 220 1.888436 TTGTTGCGCGAGAGGAGGAT 61.888 55.000 12.10 0.00 0.00 3.24
220 221 1.035385 TGTTGCGCGAGAGGAGGATA 61.035 55.000 12.10 0.00 0.00 2.59
221 222 0.315568 GTTGCGCGAGAGGAGGATAT 59.684 55.000 12.10 0.00 0.00 1.63
241 242 2.832838 TGTCACCACTCACCAGGATAT 58.167 47.619 0.00 0.00 0.00 1.63
242 243 3.989056 TGTCACCACTCACCAGGATATA 58.011 45.455 0.00 0.00 0.00 0.86
243 244 4.556697 TGTCACCACTCACCAGGATATAT 58.443 43.478 0.00 0.00 0.00 0.86
244 245 5.711698 TGTCACCACTCACCAGGATATATA 58.288 41.667 0.00 0.00 0.00 0.86
253 254 6.894654 ACTCACCAGGATATATAGATCCACAG 59.105 42.308 24.75 15.87 46.94 3.66
269 270 2.798283 CCACAGCTTTGCATTGTTCTTG 59.202 45.455 0.00 0.00 0.00 3.02
299 303 6.434028 AGCTAGCAGATAAATTTTTGTGGTCA 59.566 34.615 18.83 2.15 0.00 4.02
340 359 8.354711 TCCTATATAAGATACCTGTGCAGAAG 57.645 38.462 0.02 0.00 0.00 2.85
380 400 1.140852 AGCCTGTGCAACTTGTGTAGA 59.859 47.619 0.00 0.00 41.13 2.59
385 407 4.449068 CCTGTGCAACTTGTGTAGACTAAG 59.551 45.833 0.00 0.00 38.04 2.18
386 408 3.807622 TGTGCAACTTGTGTAGACTAAGC 59.192 43.478 0.00 0.00 38.04 3.09
420 442 4.908601 TCTTGCACCCTTCTCTGAATAA 57.091 40.909 0.00 0.00 0.00 1.40
421 443 5.441718 TCTTGCACCCTTCTCTGAATAAT 57.558 39.130 0.00 0.00 0.00 1.28
439 461 7.699566 TGAATAATATTTGTTGCTTACCGTCC 58.300 34.615 0.00 0.00 0.00 4.79
450 472 2.676342 GCTTACCGTCCGAATGATGTTT 59.324 45.455 0.00 0.00 0.00 2.83
543 568 7.753580 CGTTCTCCCCTGTTTAACATTTTTATC 59.246 37.037 0.00 0.00 0.00 1.75
633 665 0.104120 TACGTTGATGGAGGGCATCG 59.896 55.000 0.00 0.00 34.43 3.84
673 705 4.582701 TTTTGCGTGATCCATGTCTTTT 57.417 36.364 0.00 0.00 0.00 2.27
676 708 2.226200 TGCGTGATCCATGTCTTTTGTG 59.774 45.455 0.00 0.00 0.00 3.33
677 709 2.483877 GCGTGATCCATGTCTTTTGTGA 59.516 45.455 0.00 0.00 0.00 3.58
678 710 3.667960 GCGTGATCCATGTCTTTTGTGAC 60.668 47.826 0.00 0.00 37.47 3.67
896 959 0.249868 TTCCACAGTTGTCTCAGCCG 60.250 55.000 0.00 0.00 0.00 5.52
926 990 2.262423 AGCTTTCCCACAGTTCTCAC 57.738 50.000 0.00 0.00 0.00 3.51
933 997 1.140852 CCCACAGTTCTCACCTCACAA 59.859 52.381 0.00 0.00 0.00 3.33
1149 1223 2.504032 GCGTATGGTGGGCTGCTA 59.496 61.111 0.00 0.00 0.00 3.49
1224 1298 4.603946 GCCCTCGGCCGTCCATAC 62.604 72.222 27.15 7.47 44.06 2.39
1240 1314 0.398098 ATACGGTTCGGACATCCCCT 60.398 55.000 0.00 0.00 0.00 4.79
1250 1324 2.026636 CGGACATCCCCTAGAAAAACCA 60.027 50.000 0.00 0.00 0.00 3.67
1251 1325 3.621558 GGACATCCCCTAGAAAAACCAG 58.378 50.000 0.00 0.00 0.00 4.00
1260 1334 5.396324 CCCCTAGAAAAACCAGCTTTGTTTT 60.396 40.000 14.99 14.99 45.23 2.43
1262 1336 6.406961 CCCTAGAAAAACCAGCTTTGTTTTCT 60.407 38.462 22.19 22.19 43.19 2.52
1264 1338 6.036577 AGAAAAACCAGCTTTGTTTTCTCA 57.963 33.333 19.05 0.00 43.19 3.27
1265 1339 6.643388 AGAAAAACCAGCTTTGTTTTCTCAT 58.357 32.000 19.05 8.08 43.19 2.90
1275 1385 5.507985 GCTTTGTTTTCTCATGTGCTAAGGT 60.508 40.000 0.00 0.00 0.00 3.50
1283 1393 0.391661 ATGTGCTAAGGTCCTGTGCG 60.392 55.000 10.59 0.00 0.00 5.34
1288 1398 0.320374 CTAAGGTCCTGTGCGGTTCA 59.680 55.000 0.00 0.00 0.00 3.18
1309 1419 1.337260 CCGTTCTTCTCCAGGTGTGAG 60.337 57.143 0.00 0.00 0.00 3.51
1313 1423 2.689658 TCTTCTCCAGGTGTGAGGAAA 58.310 47.619 0.00 0.00 32.57 3.13
1314 1424 2.368875 TCTTCTCCAGGTGTGAGGAAAC 59.631 50.000 0.00 0.00 32.57 2.78
1346 1456 0.911769 TCATGGAGGGATTCAAGCGT 59.088 50.000 0.00 0.00 0.00 5.07
1385 1495 0.320374 CCAAGACGCTCAGGTACCAA 59.680 55.000 15.94 0.13 0.00 3.67
1571 1764 2.536803 GCAACTGACTGCACAAACAATG 59.463 45.455 0.00 0.00 42.17 2.82
1633 1826 2.889512 TGTTTCCTCTGGACTCTGCTA 58.110 47.619 0.00 0.00 0.00 3.49
1639 1832 2.094286 CCTCTGGACTCTGCTACTTGTG 60.094 54.545 0.00 0.00 0.00 3.33
1646 1839 4.627467 GGACTCTGCTACTTGTGTAATGTG 59.373 45.833 0.00 0.00 0.00 3.21
1742 1935 5.885881 ACAGAACACTGCGTGATTTAAAAA 58.114 33.333 14.18 0.00 36.96 1.94
1834 2027 7.500559 TGAAGTTGTTTTTAAAATCCCCATTGG 59.499 33.333 0.55 0.00 0.00 3.16
2058 2251 0.747644 TGTGAGTAATGGCCATGCGG 60.748 55.000 21.63 0.00 0.00 5.69
2174 2367 9.120538 GCATTAGGTATTCCAGAGTTTAATTCA 57.879 33.333 0.00 0.00 35.89 2.57
2436 2637 2.418197 GGTGCTAACGCTATTGGACTCA 60.418 50.000 0.00 0.00 36.97 3.41
2460 2661 5.473039 AGTGCTGGTATGCAATTTTCTTTC 58.527 37.500 0.00 0.00 45.12 2.62
2461 2662 5.010922 AGTGCTGGTATGCAATTTTCTTTCA 59.989 36.000 0.00 0.00 45.12 2.69
2539 2748 8.844441 TTATTAATTTATCGGGACAAAAAGCG 57.156 30.769 0.00 0.00 0.00 4.68
2582 2792 2.185310 ATCTGGTTCGGTGGCTGACC 62.185 60.000 0.00 0.00 42.07 4.02
2599 2809 0.392998 ACCGGCTGGCTAACTGATTG 60.393 55.000 12.89 0.00 39.70 2.67
2610 2820 6.237901 TGGCTAACTGATTGTTACTGATGTT 58.762 36.000 0.00 0.00 39.89 2.71
2612 2822 6.149474 GGCTAACTGATTGTTACTGATGTTGT 59.851 38.462 0.00 0.00 39.89 3.32
2645 2855 2.568956 CTGTGGGGAGAAGATGTGAAGA 59.431 50.000 0.00 0.00 0.00 2.87
2667 2877 6.240894 AGAAATTTTCTGAGATACAGCACCA 58.759 36.000 10.82 0.00 45.38 4.17
2694 2904 1.160137 GCAAAAGGCTCACGATGAGT 58.840 50.000 13.91 0.00 45.94 3.41
2703 2917 1.672030 CACGATGAGTGCAGGGCAA 60.672 57.895 0.00 0.00 44.72 4.52
2723 2937 4.560108 GCAATGTCTCTGTTTGCCTGATTT 60.560 41.667 0.00 0.00 39.80 2.17
2738 2952 4.691685 GCCTGATTTGTTCATTTGATTGCA 59.308 37.500 0.00 0.00 32.72 4.08
2742 2956 7.041644 CCTGATTTGTTCATTTGATTGCAAAGT 60.042 33.333 1.71 0.00 46.27 2.66
2754 2968 4.774726 TGATTGCAAAGTGGCCCTAATAAA 59.225 37.500 1.71 0.00 0.00 1.40
2866 3080 1.801771 CACGTGCAAATACTTTCCGGA 59.198 47.619 0.00 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 9.638176 AGGCAATGAGAAACAGATATCTTATTT 57.362 29.630 1.33 6.95 31.72 1.40
8 9 9.638176 AAGGCAATGAGAAACAGATATCTTATT 57.362 29.630 1.33 0.79 33.61 1.40
9 10 9.282569 GAAGGCAATGAGAAACAGATATCTTAT 57.717 33.333 1.33 0.00 0.00 1.73
10 11 8.267183 TGAAGGCAATGAGAAACAGATATCTTA 58.733 33.333 1.33 0.00 0.00 2.10
11 12 7.114754 TGAAGGCAATGAGAAACAGATATCTT 58.885 34.615 1.33 0.00 0.00 2.40
12 13 6.656902 TGAAGGCAATGAGAAACAGATATCT 58.343 36.000 0.00 0.00 0.00 1.98
13 14 6.932356 TGAAGGCAATGAGAAACAGATATC 57.068 37.500 0.00 0.00 0.00 1.63
14 15 7.558807 TCAATGAAGGCAATGAGAAACAGATAT 59.441 33.333 0.00 0.00 30.70 1.63
15 16 6.885918 TCAATGAAGGCAATGAGAAACAGATA 59.114 34.615 0.00 0.00 30.70 1.98
16 17 5.713389 TCAATGAAGGCAATGAGAAACAGAT 59.287 36.000 0.00 0.00 30.70 2.90
17 18 5.072055 TCAATGAAGGCAATGAGAAACAGA 58.928 37.500 0.00 0.00 30.70 3.41
18 19 5.381174 TCAATGAAGGCAATGAGAAACAG 57.619 39.130 0.00 0.00 30.70 3.16
19 20 5.787953 TTCAATGAAGGCAATGAGAAACA 57.212 34.783 0.00 0.00 35.50 2.83
20 21 8.192774 TCATATTCAATGAAGGCAATGAGAAAC 58.807 33.333 1.10 0.00 35.50 2.78
21 22 8.296211 TCATATTCAATGAAGGCAATGAGAAA 57.704 30.769 1.10 0.00 35.50 2.52
22 23 7.885009 TCATATTCAATGAAGGCAATGAGAA 57.115 32.000 1.10 0.00 35.50 2.87
23 24 8.473358 AATCATATTCAATGAAGGCAATGAGA 57.527 30.769 1.10 0.00 35.50 3.27
24 25 9.193133 GAAATCATATTCAATGAAGGCAATGAG 57.807 33.333 1.10 0.00 35.50 2.90
25 26 8.920174 AGAAATCATATTCAATGAAGGCAATGA 58.080 29.630 1.10 8.32 32.29 2.57
26 27 9.542462 AAGAAATCATATTCAATGAAGGCAATG 57.458 29.630 1.10 3.47 0.00 2.82
27 28 9.542462 CAAGAAATCATATTCAATGAAGGCAAT 57.458 29.630 1.10 0.00 0.00 3.56
28 29 7.493320 GCAAGAAATCATATTCAATGAAGGCAA 59.507 33.333 1.10 0.00 0.00 4.52
29 30 6.982141 GCAAGAAATCATATTCAATGAAGGCA 59.018 34.615 1.10 0.00 0.00 4.75
30 31 7.208080 AGCAAGAAATCATATTCAATGAAGGC 58.792 34.615 1.10 0.00 0.00 4.35
43 44 9.842775 TCATTCTGACTATAAGCAAGAAATCAT 57.157 29.630 0.00 0.00 0.00 2.45
44 45 9.102757 GTCATTCTGACTATAAGCAAGAAATCA 57.897 33.333 0.07 0.00 43.73 2.57
61 62 7.461749 ACTTTCTTTTAGGGATGTCATTCTGA 58.538 34.615 0.00 0.00 0.00 3.27
62 63 7.391554 TGACTTTCTTTTAGGGATGTCATTCTG 59.608 37.037 0.00 0.00 0.00 3.02
63 64 7.461749 TGACTTTCTTTTAGGGATGTCATTCT 58.538 34.615 0.00 0.00 0.00 2.40
64 65 7.687941 TGACTTTCTTTTAGGGATGTCATTC 57.312 36.000 0.00 0.00 0.00 2.67
65 66 7.039714 GGTTGACTTTCTTTTAGGGATGTCATT 60.040 37.037 0.00 0.00 33.98 2.57
66 67 6.434340 GGTTGACTTTCTTTTAGGGATGTCAT 59.566 38.462 0.00 0.00 33.98 3.06
67 68 5.768164 GGTTGACTTTCTTTTAGGGATGTCA 59.232 40.000 0.00 0.00 0.00 3.58
68 69 5.768164 TGGTTGACTTTCTTTTAGGGATGTC 59.232 40.000 0.00 0.00 0.00 3.06
69 70 5.701224 TGGTTGACTTTCTTTTAGGGATGT 58.299 37.500 0.00 0.00 0.00 3.06
70 71 6.648879 TTGGTTGACTTTCTTTTAGGGATG 57.351 37.500 0.00 0.00 0.00 3.51
71 72 7.730332 AGAATTGGTTGACTTTCTTTTAGGGAT 59.270 33.333 0.00 0.00 0.00 3.85
72 73 7.066781 AGAATTGGTTGACTTTCTTTTAGGGA 58.933 34.615 0.00 0.00 0.00 4.20
73 74 7.290110 AGAATTGGTTGACTTTCTTTTAGGG 57.710 36.000 0.00 0.00 0.00 3.53
74 75 9.249457 GAAAGAATTGGTTGACTTTCTTTTAGG 57.751 33.333 9.95 0.00 44.29 2.69
75 76 8.958043 CGAAAGAATTGGTTGACTTTCTTTTAG 58.042 33.333 0.15 5.49 44.29 1.85
76 77 7.434013 GCGAAAGAATTGGTTGACTTTCTTTTA 59.566 33.333 0.15 0.00 44.29 1.52
77 78 6.255670 GCGAAAGAATTGGTTGACTTTCTTTT 59.744 34.615 0.15 0.00 44.29 2.27
78 79 5.748630 GCGAAAGAATTGGTTGACTTTCTTT 59.251 36.000 0.15 8.72 45.93 2.52
79 80 5.067805 AGCGAAAGAATTGGTTGACTTTCTT 59.932 36.000 0.15 0.00 43.08 2.52
80 81 4.580580 AGCGAAAGAATTGGTTGACTTTCT 59.419 37.500 0.15 0.00 43.08 2.52
81 82 4.860072 AGCGAAAGAATTGGTTGACTTTC 58.140 39.130 0.00 0.00 42.35 2.62
82 83 4.918810 AGCGAAAGAATTGGTTGACTTT 57.081 36.364 0.00 0.00 35.68 2.66
83 84 6.575162 ATTAGCGAAAGAATTGGTTGACTT 57.425 33.333 0.00 0.00 0.00 3.01
84 85 6.016276 ACAATTAGCGAAAGAATTGGTTGACT 60.016 34.615 10.98 0.00 44.03 3.41
85 86 6.149633 ACAATTAGCGAAAGAATTGGTTGAC 58.850 36.000 10.98 0.00 44.03 3.18
86 87 6.325919 ACAATTAGCGAAAGAATTGGTTGA 57.674 33.333 10.98 0.00 44.03 3.18
87 88 8.687824 ATAACAATTAGCGAAAGAATTGGTTG 57.312 30.769 10.98 1.68 39.39 3.77
116 117 9.922305 GGAGACGAACATGATAGAAAATTAAAG 57.078 33.333 0.00 0.00 0.00 1.85
117 118 8.889717 GGGAGACGAACATGATAGAAAATTAAA 58.110 33.333 0.00 0.00 0.00 1.52
118 119 7.497909 GGGGAGACGAACATGATAGAAAATTAA 59.502 37.037 0.00 0.00 0.00 1.40
119 120 6.990349 GGGGAGACGAACATGATAGAAAATTA 59.010 38.462 0.00 0.00 0.00 1.40
120 121 5.823045 GGGGAGACGAACATGATAGAAAATT 59.177 40.000 0.00 0.00 0.00 1.82
121 122 5.131142 AGGGGAGACGAACATGATAGAAAAT 59.869 40.000 0.00 0.00 0.00 1.82
122 123 4.469945 AGGGGAGACGAACATGATAGAAAA 59.530 41.667 0.00 0.00 0.00 2.29
123 124 4.030913 AGGGGAGACGAACATGATAGAAA 58.969 43.478 0.00 0.00 0.00 2.52
124 125 3.384789 CAGGGGAGACGAACATGATAGAA 59.615 47.826 0.00 0.00 0.00 2.10
125 126 2.959030 CAGGGGAGACGAACATGATAGA 59.041 50.000 0.00 0.00 0.00 1.98
126 127 2.695666 ACAGGGGAGACGAACATGATAG 59.304 50.000 0.00 0.00 0.00 2.08
127 128 2.747177 ACAGGGGAGACGAACATGATA 58.253 47.619 0.00 0.00 0.00 2.15
128 129 1.573108 ACAGGGGAGACGAACATGAT 58.427 50.000 0.00 0.00 0.00 2.45
129 130 1.348064 AACAGGGGAGACGAACATGA 58.652 50.000 0.00 0.00 0.00 3.07
130 131 2.185004 AAACAGGGGAGACGAACATG 57.815 50.000 0.00 0.00 0.00 3.21
131 132 3.071892 TGTTAAACAGGGGAGACGAACAT 59.928 43.478 0.00 0.00 0.00 2.71
132 133 2.435069 TGTTAAACAGGGGAGACGAACA 59.565 45.455 0.00 0.00 0.00 3.18
133 134 3.116079 TGTTAAACAGGGGAGACGAAC 57.884 47.619 0.00 0.00 0.00 3.95
134 135 4.360951 AATGTTAAACAGGGGAGACGAA 57.639 40.909 0.00 0.00 0.00 3.85
135 136 4.320870 GAAATGTTAAACAGGGGAGACGA 58.679 43.478 0.00 0.00 0.00 4.20
136 137 3.439129 GGAAATGTTAAACAGGGGAGACG 59.561 47.826 0.00 0.00 0.00 4.18
137 138 3.762288 GGGAAATGTTAAACAGGGGAGAC 59.238 47.826 0.00 0.00 0.00 3.36
138 139 3.399644 TGGGAAATGTTAAACAGGGGAGA 59.600 43.478 0.00 0.00 0.00 3.71
139 140 3.773560 TGGGAAATGTTAAACAGGGGAG 58.226 45.455 0.00 0.00 0.00 4.30
140 141 3.905493 TGGGAAATGTTAAACAGGGGA 57.095 42.857 0.00 0.00 0.00 4.81
141 142 3.369366 GCATGGGAAATGTTAAACAGGGG 60.369 47.826 0.00 0.00 0.00 4.79
142 143 3.515104 AGCATGGGAAATGTTAAACAGGG 59.485 43.478 0.00 0.00 0.00 4.45
143 144 4.463891 AGAGCATGGGAAATGTTAAACAGG 59.536 41.667 0.00 0.00 0.00 4.00
144 145 5.649782 AGAGCATGGGAAATGTTAAACAG 57.350 39.130 0.00 0.00 0.00 3.16
145 146 6.245408 ACTAGAGCATGGGAAATGTTAAACA 58.755 36.000 0.00 0.00 0.00 2.83
146 147 6.759497 ACTAGAGCATGGGAAATGTTAAAC 57.241 37.500 0.00 0.00 0.00 2.01
147 148 7.775053 AAACTAGAGCATGGGAAATGTTAAA 57.225 32.000 0.00 0.00 0.00 1.52
148 149 7.232534 ACAAAACTAGAGCATGGGAAATGTTAA 59.767 33.333 0.00 0.00 0.00 2.01
149 150 6.719370 ACAAAACTAGAGCATGGGAAATGTTA 59.281 34.615 0.00 0.00 0.00 2.41
150 151 5.539955 ACAAAACTAGAGCATGGGAAATGTT 59.460 36.000 0.00 0.00 0.00 2.71
151 152 5.047802 CACAAAACTAGAGCATGGGAAATGT 60.048 40.000 0.00 0.00 0.00 2.71
152 153 5.183713 TCACAAAACTAGAGCATGGGAAATG 59.816 40.000 0.00 0.00 0.00 2.32
153 154 5.183904 GTCACAAAACTAGAGCATGGGAAAT 59.816 40.000 0.00 0.00 0.00 2.17
154 155 4.518970 GTCACAAAACTAGAGCATGGGAAA 59.481 41.667 0.00 0.00 0.00 3.13
155 156 4.072131 GTCACAAAACTAGAGCATGGGAA 58.928 43.478 0.00 0.00 0.00 3.97
156 157 3.072330 TGTCACAAAACTAGAGCATGGGA 59.928 43.478 0.00 0.00 0.00 4.37
157 158 3.411446 TGTCACAAAACTAGAGCATGGG 58.589 45.455 0.00 0.00 0.00 4.00
158 159 5.633830 ATTGTCACAAAACTAGAGCATGG 57.366 39.130 0.00 0.00 0.00 3.66
192 193 2.872925 CGCGCAACAAGCATCAGC 60.873 61.111 8.75 0.00 46.13 4.26
193 194 1.225936 CTCGCGCAACAAGCATCAG 60.226 57.895 8.75 0.00 46.13 2.90
194 195 1.629345 CTCTCGCGCAACAAGCATCA 61.629 55.000 8.75 0.00 46.13 3.07
195 196 1.059994 CTCTCGCGCAACAAGCATC 59.940 57.895 8.75 0.00 46.13 3.91
196 197 2.393768 CCTCTCGCGCAACAAGCAT 61.394 57.895 8.75 0.00 46.13 3.79
197 198 3.043713 CCTCTCGCGCAACAAGCA 61.044 61.111 8.75 0.00 46.13 3.91
198 199 2.734673 CTCCTCTCGCGCAACAAGC 61.735 63.158 8.75 0.00 40.87 4.01
199 200 2.097038 CCTCCTCTCGCGCAACAAG 61.097 63.158 8.75 0.00 0.00 3.16
200 201 1.888436 ATCCTCCTCTCGCGCAACAA 61.888 55.000 8.75 0.00 0.00 2.83
201 202 1.035385 TATCCTCCTCTCGCGCAACA 61.035 55.000 8.75 0.00 0.00 3.33
202 203 0.315568 ATATCCTCCTCTCGCGCAAC 59.684 55.000 8.75 0.00 0.00 4.17
203 204 0.315251 CATATCCTCCTCTCGCGCAA 59.685 55.000 8.75 0.00 0.00 4.85
204 205 0.823769 ACATATCCTCCTCTCGCGCA 60.824 55.000 8.75 0.00 0.00 6.09
205 206 0.109504 GACATATCCTCCTCTCGCGC 60.110 60.000 0.00 0.00 0.00 6.86
206 207 1.068885 GTGACATATCCTCCTCTCGCG 60.069 57.143 0.00 0.00 0.00 5.87
207 208 1.271102 GGTGACATATCCTCCTCTCGC 59.729 57.143 0.00 0.00 0.00 5.03
208 209 2.294791 GTGGTGACATATCCTCCTCTCG 59.705 54.545 0.00 0.00 46.14 4.04
209 210 3.571590 AGTGGTGACATATCCTCCTCTC 58.428 50.000 0.00 0.00 46.14 3.20
210 211 3.052566 TGAGTGGTGACATATCCTCCTCT 60.053 47.826 0.00 0.00 46.14 3.69
211 212 3.068873 GTGAGTGGTGACATATCCTCCTC 59.931 52.174 0.00 0.00 46.14 3.71
212 213 3.034635 GTGAGTGGTGACATATCCTCCT 58.965 50.000 0.00 0.00 46.14 3.69
213 214 2.103263 GGTGAGTGGTGACATATCCTCC 59.897 54.545 0.00 0.00 46.14 4.30
214 215 2.766263 TGGTGAGTGGTGACATATCCTC 59.234 50.000 0.00 0.00 46.14 3.71
215 216 2.768527 CTGGTGAGTGGTGACATATCCT 59.231 50.000 0.00 0.00 46.14 3.24
216 217 2.158900 CCTGGTGAGTGGTGACATATCC 60.159 54.545 0.00 0.00 46.14 2.59
217 218 2.766263 TCCTGGTGAGTGGTGACATATC 59.234 50.000 0.00 0.00 46.14 1.63
218 219 2.832838 TCCTGGTGAGTGGTGACATAT 58.167 47.619 0.00 0.00 46.14 1.78
219 220 2.319025 TCCTGGTGAGTGGTGACATA 57.681 50.000 0.00 0.00 46.14 2.29
220 221 1.661463 ATCCTGGTGAGTGGTGACAT 58.339 50.000 0.00 0.00 46.14 3.06
221 222 2.319025 TATCCTGGTGAGTGGTGACA 57.681 50.000 0.00 0.00 38.70 3.58
241 242 5.439721 ACAATGCAAAGCTGTGGATCTATA 58.560 37.500 11.79 0.00 0.00 1.31
242 243 4.275810 ACAATGCAAAGCTGTGGATCTAT 58.724 39.130 11.79 0.00 0.00 1.98
243 244 3.689347 ACAATGCAAAGCTGTGGATCTA 58.311 40.909 11.79 0.00 0.00 1.98
244 245 2.522185 ACAATGCAAAGCTGTGGATCT 58.478 42.857 11.79 0.00 0.00 2.75
253 254 1.193874 GCAGCAAGAACAATGCAAAGC 59.806 47.619 0.00 0.00 46.22 3.51
285 289 6.150396 TCCGTGTAATGACCACAAAAATTT 57.850 33.333 0.00 0.00 33.00 1.82
288 292 4.822350 TCATCCGTGTAATGACCACAAAAA 59.178 37.500 0.00 0.00 33.00 1.94
299 303 6.798427 ATATAGGAGCATCATCCGTGTAAT 57.202 37.500 0.00 0.00 44.65 1.89
340 359 4.792702 GGCTTGTTCAAATTTTGTTGTTGC 59.207 37.500 8.89 9.01 0.00 4.17
344 363 5.561993 CACAGGCTTGTTCAAATTTTGTTG 58.438 37.500 0.00 0.00 34.62 3.33
403 425 7.573968 ACAAATATTATTCAGAGAAGGGTGC 57.426 36.000 0.00 0.00 0.00 5.01
406 428 8.230472 AGCAACAAATATTATTCAGAGAAGGG 57.770 34.615 0.00 0.00 0.00 3.95
420 442 3.864243 TCGGACGGTAAGCAACAAATAT 58.136 40.909 0.00 0.00 0.00 1.28
421 443 3.316071 TCGGACGGTAAGCAACAAATA 57.684 42.857 0.00 0.00 0.00 1.40
434 456 1.086696 AGCAAACATCATTCGGACGG 58.913 50.000 0.00 0.00 0.00 4.79
439 461 5.916883 ACTTTCTTTCAGCAAACATCATTCG 59.083 36.000 0.00 0.00 0.00 3.34
450 472 3.275143 TCGGTTGAACTTTCTTTCAGCA 58.725 40.909 0.00 0.00 38.19 4.41
504 526 4.658901 AGGGGAGAACGAACATGGTAATAT 59.341 41.667 0.00 0.00 0.00 1.28
510 534 0.324943 ACAGGGGAGAACGAACATGG 59.675 55.000 0.00 0.00 0.00 3.66
519 543 7.953493 AGGATAAAAATGTTAAACAGGGGAGAA 59.047 33.333 0.00 0.00 0.00 2.87
543 568 9.823647 ATACATTATCACTCACAAAACTAGAGG 57.176 33.333 0.00 0.00 33.76 3.69
580 605 2.099062 CTCGCGCAACAAGCATCC 59.901 61.111 8.75 0.00 46.13 3.51
592 617 3.057876 AGCTAACATATCTTCCTCTCGCG 60.058 47.826 0.00 0.00 0.00 5.87
633 665 6.414694 CGCAAAATACATATGGTTCACATGAC 59.585 38.462 7.80 0.00 40.82 3.06
879 942 0.249868 TTCGGCTGAGACAACTGTGG 60.250 55.000 0.00 0.00 0.00 4.17
896 959 4.134563 TGTGGGAAAGCTAGAAGTTGTTC 58.865 43.478 0.00 0.00 0.00 3.18
926 990 5.972107 ATTCCAAGAAATCTGTTGTGAGG 57.028 39.130 0.00 0.00 0.00 3.86
933 997 5.075493 AGCTGTGAATTCCAAGAAATCTGT 58.925 37.500 2.27 0.00 0.00 3.41
998 1069 1.002257 ATCAACGTGGCAGGCATCA 60.002 52.632 7.17 0.00 0.00 3.07
1049 1120 4.988716 AGTGTCGGAGGGCGGTCA 62.989 66.667 0.00 0.00 0.00 4.02
1195 1269 0.107456 CCGAGGGCTGCATATGTCTT 59.893 55.000 4.29 0.00 0.00 3.01
1224 1298 0.754217 TCTAGGGGATGTCCGAACCG 60.754 60.000 0.00 0.00 36.71 4.44
1240 1314 7.164230 TGAGAAAACAAAGCTGGTTTTTCTA 57.836 32.000 22.84 13.34 42.67 2.10
1250 1324 5.278660 CCTTAGCACATGAGAAAACAAAGCT 60.279 40.000 0.00 0.00 32.92 3.74
1251 1325 4.919754 CCTTAGCACATGAGAAAACAAAGC 59.080 41.667 0.00 0.00 0.00 3.51
1260 1334 2.234661 CACAGGACCTTAGCACATGAGA 59.765 50.000 0.00 0.00 0.00 3.27
1262 1336 1.339055 GCACAGGACCTTAGCACATGA 60.339 52.381 0.00 0.00 0.00 3.07
1264 1338 0.391661 CGCACAGGACCTTAGCACAT 60.392 55.000 13.74 0.00 0.00 3.21
1265 1339 1.005037 CGCACAGGACCTTAGCACA 60.005 57.895 13.74 0.00 0.00 4.57
1283 1393 1.608283 CCTGGAGAAGAACGGTGAACC 60.608 57.143 0.00 0.00 0.00 3.62
1288 1398 0.393077 CACACCTGGAGAAGAACGGT 59.607 55.000 0.00 0.00 0.00 4.83
1309 1419 4.142469 CCATGATGTACTTTTCGGGTTTCC 60.142 45.833 0.00 0.00 0.00 3.13
1313 1423 3.370527 CCTCCATGATGTACTTTTCGGGT 60.371 47.826 0.00 0.00 0.00 5.28
1314 1424 3.206150 CCTCCATGATGTACTTTTCGGG 58.794 50.000 0.00 0.00 0.00 5.14
1346 1456 3.126879 CATGGCGCCGAGAAAGCA 61.127 61.111 23.90 0.49 0.00 3.91
1440 1550 2.131972 CACAGTTGCGCAGTGTACTAA 58.868 47.619 22.62 0.00 36.87 2.24
1446 1639 2.837883 AAGCCACAGTTGCGCAGTG 61.838 57.895 18.47 18.47 34.80 3.66
1633 1826 5.767665 TCATTGTTAGCCACATTACACAAGT 59.232 36.000 0.00 0.00 34.43 3.16
1705 1898 2.906389 TGTTCTGTAAGCTCCATCAGGT 59.094 45.455 0.00 0.00 35.89 4.00
1744 1937 6.996262 ACATGGGATGTATGACCTCCAGGT 62.996 50.000 0.00 0.00 46.92 4.00
1745 1938 1.806496 TGGGATGTATGACCTCCAGG 58.194 55.000 3.75 0.00 34.99 4.45
1805 1998 7.569240 TGGGGATTTTAAAAACAACTTCATGT 58.431 30.769 4.44 0.00 34.24 3.21
1807 2000 9.065798 CAATGGGGATTTTAAAAACAACTTCAT 57.934 29.630 4.44 1.26 0.00 2.57
1809 2002 7.870826 CCAATGGGGATTTTAAAAACAACTTC 58.129 34.615 4.44 0.00 40.01 3.01
1834 2027 6.742559 TTAATTAGGGTCATACAGGAGTCC 57.257 41.667 0.00 0.00 0.00 3.85
1840 2033 9.698309 CTGTACAGATTAATTAGGGTCATACAG 57.302 37.037 18.45 15.20 31.88 2.74
2058 2251 3.674997 TGGACAGCTCAAGGTCATTTAC 58.325 45.455 4.51 0.00 35.74 2.01
2160 2353 8.734386 ACTTAGCTTGAATGAATTAAACTCTGG 58.266 33.333 0.00 0.00 0.00 3.86
2219 2412 0.602638 GGTGTGTCCAGAATCACGCA 60.603 55.000 10.21 0.00 43.89 5.24
2351 2552 1.001181 CTGGCTTCCACACCAATTTGG 59.999 52.381 14.02 14.02 45.02 3.28
2436 2637 5.473066 AAGAAAATTGCATACCAGCACTT 57.527 34.783 0.00 0.00 45.61 3.16
2460 2661 3.128589 CGGGGAAGAAACCACAATGTATG 59.871 47.826 0.00 0.00 31.94 2.39
2461 2662 3.245122 ACGGGGAAGAAACCACAATGTAT 60.245 43.478 0.00 0.00 31.94 2.29
2552 2761 6.568462 GCCACCGAACCAGATATTCAATAATG 60.568 42.308 0.00 0.00 0.00 1.90
2582 2792 1.453155 AACAATCAGTTAGCCAGCCG 58.547 50.000 0.00 0.00 39.09 5.52
2591 2801 6.061441 TGGACAACATCAGTAACAATCAGTT 58.939 36.000 0.00 0.00 44.27 3.16
2599 2809 6.806739 GCCTAAAAATGGACAACATCAGTAAC 59.193 38.462 0.00 0.00 39.40 2.50
2610 2820 2.524306 CCCACAGCCTAAAAATGGACA 58.476 47.619 0.00 0.00 31.69 4.02
2612 2822 1.713647 TCCCCACAGCCTAAAAATGGA 59.286 47.619 0.00 0.00 31.69 3.41
2645 2855 6.240894 TCTGGTGCTGTATCTCAGAAAATTT 58.759 36.000 0.00 0.00 46.27 1.82
2694 2904 0.111061 AACAGAGACATTGCCCTGCA 59.889 50.000 0.00 0.00 36.47 4.41
2703 2917 4.147321 ACAAATCAGGCAAACAGAGACAT 58.853 39.130 0.00 0.00 0.00 3.06
2723 2937 3.808726 GCCACTTTGCAATCAAATGAACA 59.191 39.130 0.00 0.00 40.97 3.18
2738 2952 5.836358 TCACAACTTTTATTAGGGCCACTTT 59.164 36.000 6.18 0.00 0.00 2.66
2742 2956 6.926630 AAATCACAACTTTTATTAGGGCCA 57.073 33.333 6.18 0.00 0.00 5.36
2754 2968 9.590451 CAGATATATTTGGCAAAATCACAACTT 57.410 29.630 17.70 0.00 37.23 2.66


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

AutoCloner maintained by Alex Coulton.