Multiple sequence alignment - TraesCS3A01G321900

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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 TraesCS3A01G321900 chr3A 100.000 2490 0 0 1 2490 565463337 565465826 0.000000e+00 4599
1 TraesCS3A01G321900 chr3D 93.619 2241 110 16 257 2490 423390802 423388588 0.000000e+00 3315
2 TraesCS3A01G321900 chr3D 89.868 227 22 1 1 227 423832857 423832632 8.710000e-75 291
3 TraesCS3A01G321900 chr3B 93.851 2163 74 26 368 2490 553569939 553572082 0.000000e+00 3203
4 TraesCS3A01G321900 chr1D 84.058 345 33 18 1163 1491 419994500 419994838 1.860000e-81 313
5 TraesCS3A01G321900 chr1A 83.041 342 39 17 1163 1491 516586570 516586905 2.420000e-75 292
6 TraesCS3A01G321900 chr1B 82.659 346 40 16 1158 1491 566981228 566981565 3.130000e-74 289
7 TraesCS3A01G321900 chr6A 83.796 216 31 3 10 225 98892574 98892363 4.200000e-48 202
8 TraesCS3A01G321900 chr2B 82.589 224 30 5 1 219 545248408 545248189 3.270000e-44 189
9 TraesCS3A01G321900 chr2D 79.724 217 36 7 1 217 99215851 99216059 1.540000e-32 150


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 TraesCS3A01G321900 chr3A 565463337 565465826 2489 False 4599 4599 100.000 1 2490 1 chr3A.!!$F1 2489
1 TraesCS3A01G321900 chr3D 423388588 423390802 2214 True 3315 3315 93.619 257 2490 1 chr3D.!!$R1 2233
2 TraesCS3A01G321900 chr3B 553569939 553572082 2143 False 3203 3203 93.851 368 2490 1 chr3B.!!$F1 2122

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
286 287 0.248866 GTTTGGTTCAAGCCACACCG 60.249 55.0 0.0 0.0 38.42 4.94 F
1120 1159 0.318107 GTGTGTGTTCCATGTGCAGC 60.318 55.0 0.0 0.0 0.00 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1136 1175 2.018727 ATCGGCTCAGCTCAGCTCAG 62.019 60.0 10.24 0.00 36.40 3.35 R
2133 2179 2.557920 AAACCAGGTCAAGAGCTCAG 57.442 50.0 17.77 8.24 36.98 3.35 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
49 50 9.534565 TGTATTTTCTATCTCTCACATACAAGC 57.465 33.333 0.00 0.00 0.00 4.01
50 51 7.706281 ATTTTCTATCTCTCACATACAAGCG 57.294 36.000 0.00 0.00 0.00 4.68
51 52 4.230314 TCTATCTCTCACATACAAGCGC 57.770 45.455 0.00 0.00 0.00 5.92
52 53 2.967599 ATCTCTCACATACAAGCGCA 57.032 45.000 11.47 0.00 0.00 6.09
53 54 2.741759 TCTCTCACATACAAGCGCAA 57.258 45.000 11.47 0.00 0.00 4.85
54 55 3.038788 TCTCTCACATACAAGCGCAAA 57.961 42.857 11.47 0.00 0.00 3.68
55 56 3.599343 TCTCTCACATACAAGCGCAAAT 58.401 40.909 11.47 0.00 0.00 2.32
56 57 4.002982 TCTCTCACATACAAGCGCAAATT 58.997 39.130 11.47 0.00 0.00 1.82
57 58 4.455533 TCTCTCACATACAAGCGCAAATTT 59.544 37.500 11.47 0.00 0.00 1.82
58 59 5.048782 TCTCTCACATACAAGCGCAAATTTT 60.049 36.000 11.47 0.00 0.00 1.82
59 60 4.916831 TCTCACATACAAGCGCAAATTTTG 59.083 37.500 11.47 7.57 0.00 2.44
60 61 4.864633 TCACATACAAGCGCAAATTTTGA 58.135 34.783 11.47 0.28 0.00 2.69
61 62 5.468592 TCACATACAAGCGCAAATTTTGAT 58.531 33.333 11.47 0.00 0.00 2.57
62 63 5.345472 TCACATACAAGCGCAAATTTTGATG 59.655 36.000 11.47 12.29 0.00 3.07
63 64 5.345472 CACATACAAGCGCAAATTTTGATGA 59.655 36.000 11.47 0.00 0.00 2.92
64 65 5.925397 ACATACAAGCGCAAATTTTGATGAA 59.075 32.000 11.47 0.00 0.00 2.57
65 66 6.423302 ACATACAAGCGCAAATTTTGATGAAA 59.577 30.769 11.47 1.83 0.00 2.69
66 67 5.731599 ACAAGCGCAAATTTTGATGAAAA 57.268 30.435 11.47 0.00 35.52 2.29
67 68 6.303021 ACAAGCGCAAATTTTGATGAAAAT 57.697 29.167 11.47 0.00 42.49 1.82
69 70 6.852345 ACAAGCGCAAATTTTGATGAAAATTC 59.148 30.769 14.73 4.41 46.52 2.17
70 71 6.542574 AGCGCAAATTTTGATGAAAATTCA 57.457 29.167 14.73 0.00 46.52 2.57
71 72 6.365050 AGCGCAAATTTTGATGAAAATTCAC 58.635 32.000 14.73 9.66 46.52 3.18
72 73 6.018098 AGCGCAAATTTTGATGAAAATTCACA 60.018 30.769 14.73 0.00 46.52 3.58
73 74 6.085328 GCGCAAATTTTGATGAAAATTCACAC 59.915 34.615 14.73 5.65 46.52 3.82
74 75 7.124471 CGCAAATTTTGATGAAAATTCACACA 58.876 30.769 14.73 0.04 46.52 3.72
75 76 7.110490 CGCAAATTTTGATGAAAATTCACACAC 59.890 33.333 14.73 2.84 46.52 3.82
76 77 7.909121 GCAAATTTTGATGAAAATTCACACACA 59.091 29.630 14.73 0.00 46.52 3.72
77 78 9.938670 CAAATTTTGATGAAAATTCACACACAT 57.061 25.926 14.73 0.00 46.52 3.21
87 88 8.908903 TGAAAATTCACACACATATATTACCCC 58.091 33.333 0.00 0.00 31.01 4.95
88 89 9.131791 GAAAATTCACACACATATATTACCCCT 57.868 33.333 0.00 0.00 0.00 4.79
89 90 8.691661 AAATTCACACACATATATTACCCCTC 57.308 34.615 0.00 0.00 0.00 4.30
90 91 7.633018 ATTCACACACATATATTACCCCTCT 57.367 36.000 0.00 0.00 0.00 3.69
91 92 8.736097 ATTCACACACATATATTACCCCTCTA 57.264 34.615 0.00 0.00 0.00 2.43
92 93 8.736097 TTCACACACATATATTACCCCTCTAT 57.264 34.615 0.00 0.00 0.00 1.98
93 94 8.134202 TCACACACATATATTACCCCTCTATG 57.866 38.462 0.00 0.00 0.00 2.23
94 95 7.733047 TCACACACATATATTACCCCTCTATGT 59.267 37.037 0.00 0.00 34.28 2.29
98 99 6.818644 CACATATATTACCCCTCTATGTGTGC 59.181 42.308 11.11 0.00 42.07 4.57
99 100 6.500400 ACATATATTACCCCTCTATGTGTGCA 59.500 38.462 0.00 0.00 33.11 4.57
100 101 7.182749 ACATATATTACCCCTCTATGTGTGCAT 59.817 37.037 0.00 0.00 39.03 3.96
101 102 3.558931 TTACCCCTCTATGTGTGCATG 57.441 47.619 0.00 0.00 36.58 4.06
102 103 1.289160 ACCCCTCTATGTGTGCATGT 58.711 50.000 0.00 0.00 36.58 3.21
103 104 2.477245 ACCCCTCTATGTGTGCATGTA 58.523 47.619 0.00 0.00 36.58 2.29
104 105 2.170607 ACCCCTCTATGTGTGCATGTAC 59.829 50.000 7.03 7.03 36.58 2.90
105 106 2.473816 CCCTCTATGTGTGCATGTACG 58.526 52.381 9.48 0.00 36.58 3.67
106 107 2.100749 CCCTCTATGTGTGCATGTACGA 59.899 50.000 9.48 0.00 36.58 3.43
107 108 3.430236 CCCTCTATGTGTGCATGTACGAA 60.430 47.826 9.48 0.17 36.58 3.85
108 109 3.798878 CCTCTATGTGTGCATGTACGAAG 59.201 47.826 9.48 4.26 36.58 3.79
109 110 4.440112 CCTCTATGTGTGCATGTACGAAGA 60.440 45.833 9.48 7.98 36.58 2.87
110 111 5.066968 TCTATGTGTGCATGTACGAAGAA 57.933 39.130 9.48 0.00 36.58 2.52
111 112 5.660460 TCTATGTGTGCATGTACGAAGAAT 58.340 37.500 9.48 1.53 36.58 2.40
112 113 6.106003 TCTATGTGTGCATGTACGAAGAATT 58.894 36.000 9.48 0.00 36.58 2.17
113 114 5.627499 ATGTGTGCATGTACGAAGAATTT 57.373 34.783 9.48 0.00 33.37 1.82
114 115 5.029650 TGTGTGCATGTACGAAGAATTTC 57.970 39.130 9.48 0.00 0.00 2.17
115 116 4.513318 TGTGTGCATGTACGAAGAATTTCA 59.487 37.500 9.48 0.00 32.67 2.69
116 117 5.082059 GTGTGCATGTACGAAGAATTTCAG 58.918 41.667 9.48 0.00 32.67 3.02
117 118 4.994217 TGTGCATGTACGAAGAATTTCAGA 59.006 37.500 9.48 0.00 32.67 3.27
118 119 5.468409 TGTGCATGTACGAAGAATTTCAGAA 59.532 36.000 9.48 0.00 32.67 3.02
119 120 6.149308 TGTGCATGTACGAAGAATTTCAGAAT 59.851 34.615 9.48 0.00 32.67 2.40
120 121 7.023575 GTGCATGTACGAAGAATTTCAGAATT 58.976 34.615 0.00 0.00 38.16 2.17
121 122 7.538678 GTGCATGTACGAAGAATTTCAGAATTT 59.461 33.333 0.00 0.00 35.65 1.82
122 123 8.081633 TGCATGTACGAAGAATTTCAGAATTTT 58.918 29.630 0.00 0.00 35.65 1.82
123 124 8.915654 GCATGTACGAAGAATTTCAGAATTTTT 58.084 29.630 0.00 0.00 35.65 1.94
151 152 8.965986 AGCTATAAAAATCCGTTTCTTTGAAC 57.034 30.769 0.00 0.00 0.00 3.18
152 153 8.793592 AGCTATAAAAATCCGTTTCTTTGAACT 58.206 29.630 0.00 0.00 0.00 3.01
153 154 9.406828 GCTATAAAAATCCGTTTCTTTGAACTT 57.593 29.630 0.00 0.00 0.00 2.66
156 157 9.810545 ATAAAAATCCGTTTCTTTGAACTTTGA 57.189 25.926 0.00 0.00 0.00 2.69
157 158 8.541133 AAAAATCCGTTTCTTTGAACTTTGAA 57.459 26.923 0.00 0.00 0.00 2.69
158 159 8.541133 AAAATCCGTTTCTTTGAACTTTGAAA 57.459 26.923 0.00 0.00 0.00 2.69
159 160 8.541133 AAATCCGTTTCTTTGAACTTTGAAAA 57.459 26.923 0.00 0.00 31.47 2.29
160 161 8.541133 AATCCGTTTCTTTGAACTTTGAAAAA 57.459 26.923 0.00 0.00 31.47 1.94
183 184 3.845781 AAGGACACAGTATGCCTATGG 57.154 47.619 0.00 0.00 42.53 2.74
184 185 2.764269 AGGACACAGTATGCCTATGGT 58.236 47.619 0.00 0.00 42.53 3.55
185 186 2.700897 AGGACACAGTATGCCTATGGTC 59.299 50.000 0.00 0.00 42.53 4.02
186 187 2.224305 GGACACAGTATGCCTATGGTCC 60.224 54.545 0.00 0.00 42.53 4.46
187 188 2.434336 GACACAGTATGCCTATGGTCCA 59.566 50.000 0.00 0.00 42.53 4.02
188 189 2.843730 ACACAGTATGCCTATGGTCCAA 59.156 45.455 0.00 0.00 42.53 3.53
189 190 3.265737 ACACAGTATGCCTATGGTCCAAA 59.734 43.478 0.00 0.00 42.53 3.28
190 191 3.879295 CACAGTATGCCTATGGTCCAAAG 59.121 47.826 0.00 0.00 42.53 2.77
191 192 3.523564 ACAGTATGCCTATGGTCCAAAGT 59.476 43.478 0.00 0.00 42.53 2.66
192 193 4.018415 ACAGTATGCCTATGGTCCAAAGTT 60.018 41.667 0.00 0.00 42.53 2.66
193 194 5.190925 ACAGTATGCCTATGGTCCAAAGTTA 59.809 40.000 0.00 0.00 42.53 2.24
194 195 5.527582 CAGTATGCCTATGGTCCAAAGTTAC 59.472 44.000 0.00 0.00 0.00 2.50
195 196 4.862641 ATGCCTATGGTCCAAAGTTACT 57.137 40.909 0.00 0.00 0.00 2.24
196 197 4.650972 TGCCTATGGTCCAAAGTTACTT 57.349 40.909 0.00 0.00 0.00 2.24
197 198 4.993028 TGCCTATGGTCCAAAGTTACTTT 58.007 39.130 4.30 4.30 33.58 2.66
198 199 5.390387 TGCCTATGGTCCAAAGTTACTTTT 58.610 37.500 7.71 0.00 30.60 2.27
199 200 5.836358 TGCCTATGGTCCAAAGTTACTTTTT 59.164 36.000 7.71 0.00 30.60 1.94
200 201 6.156519 GCCTATGGTCCAAAGTTACTTTTTG 58.843 40.000 7.71 2.96 35.75 2.44
201 202 6.156519 CCTATGGTCCAAAGTTACTTTTTGC 58.843 40.000 7.71 1.30 34.88 3.68
202 203 5.606348 ATGGTCCAAAGTTACTTTTTGCA 57.394 34.783 7.71 0.00 34.88 4.08
203 204 5.606348 TGGTCCAAAGTTACTTTTTGCAT 57.394 34.783 7.71 0.00 34.88 3.96
204 205 6.716934 TGGTCCAAAGTTACTTTTTGCATA 57.283 33.333 7.71 0.00 34.88 3.14
205 206 7.296628 TGGTCCAAAGTTACTTTTTGCATAT 57.703 32.000 7.71 0.00 34.88 1.78
206 207 7.375053 TGGTCCAAAGTTACTTTTTGCATATC 58.625 34.615 7.71 0.00 34.88 1.63
207 208 7.014711 TGGTCCAAAGTTACTTTTTGCATATCA 59.985 33.333 7.71 0.00 34.88 2.15
208 209 7.870445 GGTCCAAAGTTACTTTTTGCATATCAA 59.130 33.333 7.71 0.00 34.88 2.57
209 210 9.423061 GTCCAAAGTTACTTTTTGCATATCAAT 57.577 29.630 7.71 0.00 34.88 2.57
210 211 9.421806 TCCAAAGTTACTTTTTGCATATCAATG 57.578 29.630 7.71 0.00 34.88 2.82
211 212 8.170553 CCAAAGTTACTTTTTGCATATCAATGC 58.829 33.333 7.71 3.42 43.94 3.56
230 231 7.361894 TCAATGCAATATATGGTGTTCATTCG 58.638 34.615 0.00 0.00 37.30 3.34
231 232 7.228308 TCAATGCAATATATGGTGTTCATTCGA 59.772 33.333 0.00 0.00 37.30 3.71
232 233 6.299023 TGCAATATATGGTGTTCATTCGAC 57.701 37.500 0.00 0.00 37.30 4.20
233 234 5.238432 TGCAATATATGGTGTTCATTCGACC 59.762 40.000 0.00 0.00 37.30 4.79
234 235 5.614668 GCAATATATGGTGTTCATTCGACCG 60.615 44.000 0.00 0.00 37.30 4.79
235 236 3.812156 ATATGGTGTTCATTCGACCGA 57.188 42.857 0.00 0.00 37.30 4.69
236 237 2.691409 ATGGTGTTCATTCGACCGAT 57.309 45.000 0.00 0.00 30.55 4.18
237 238 1.720805 TGGTGTTCATTCGACCGATG 58.279 50.000 0.00 0.00 31.87 3.84
238 239 1.001520 TGGTGTTCATTCGACCGATGT 59.998 47.619 0.00 0.00 31.87 3.06
239 240 2.073816 GGTGTTCATTCGACCGATGTT 58.926 47.619 0.00 0.00 0.00 2.71
240 241 3.255725 GGTGTTCATTCGACCGATGTTA 58.744 45.455 0.00 0.00 0.00 2.41
241 242 3.306166 GGTGTTCATTCGACCGATGTTAG 59.694 47.826 0.00 0.00 0.00 2.34
242 243 4.171005 GTGTTCATTCGACCGATGTTAGA 58.829 43.478 0.00 0.00 0.00 2.10
243 244 4.804139 GTGTTCATTCGACCGATGTTAGAT 59.196 41.667 0.00 0.00 0.00 1.98
244 245 5.975344 GTGTTCATTCGACCGATGTTAGATA 59.025 40.000 0.00 0.00 0.00 1.98
245 246 6.641314 GTGTTCATTCGACCGATGTTAGATAT 59.359 38.462 0.00 0.00 0.00 1.63
246 247 6.640907 TGTTCATTCGACCGATGTTAGATATG 59.359 38.462 0.00 0.00 0.00 1.78
247 248 6.327279 TCATTCGACCGATGTTAGATATGT 57.673 37.500 0.00 0.00 0.00 2.29
248 249 6.745116 TCATTCGACCGATGTTAGATATGTT 58.255 36.000 0.00 0.00 0.00 2.71
249 250 7.207383 TCATTCGACCGATGTTAGATATGTTT 58.793 34.615 0.00 0.00 0.00 2.83
250 251 6.822073 TTCGACCGATGTTAGATATGTTTG 57.178 37.500 0.00 0.00 0.00 2.93
251 252 6.139048 TCGACCGATGTTAGATATGTTTGA 57.861 37.500 0.00 0.00 0.00 2.69
252 253 6.745116 TCGACCGATGTTAGATATGTTTGAT 58.255 36.000 0.00 0.00 0.00 2.57
253 254 6.861572 TCGACCGATGTTAGATATGTTTGATC 59.138 38.462 0.00 0.00 0.00 2.92
254 255 6.640907 CGACCGATGTTAGATATGTTTGATCA 59.359 38.462 0.00 0.00 0.00 2.92
255 256 7.169140 CGACCGATGTTAGATATGTTTGATCAA 59.831 37.037 3.38 3.38 0.00 2.57
256 257 8.731275 ACCGATGTTAGATATGTTTGATCAAA 57.269 30.769 16.91 16.91 0.00 2.69
257 258 9.342308 ACCGATGTTAGATATGTTTGATCAAAT 57.658 29.630 23.05 11.38 32.36 2.32
265 266 8.279970 AGATATGTTTGATCAAATTGAACGGA 57.720 30.769 23.05 4.14 32.36 4.69
279 280 2.034053 TGAACGGATGTTTGGTTCAAGC 59.966 45.455 3.58 0.00 44.89 4.01
284 285 2.545742 GGATGTTTGGTTCAAGCCACAC 60.546 50.000 0.00 0.00 39.10 3.82
285 286 0.820871 TGTTTGGTTCAAGCCACACC 59.179 50.000 0.54 0.00 38.17 4.16
286 287 0.248866 GTTTGGTTCAAGCCACACCG 60.249 55.000 0.00 0.00 38.42 4.94
291 292 1.145803 GTTCAAGCCACACCGTAGAC 58.854 55.000 0.00 0.00 0.00 2.59
299 300 2.618053 CCACACCGTAGACAAGATTCC 58.382 52.381 0.00 0.00 0.00 3.01
307 308 4.994852 CCGTAGACAAGATTCCTTTTGTGA 59.005 41.667 0.00 0.00 37.63 3.58
346 347 2.303537 CCGTACGCACAAAAATGTGAC 58.696 47.619 10.49 1.86 42.02 3.67
366 367 8.579850 TGTGACAATATTTTCTTAGGCAATCT 57.420 30.769 3.41 0.00 0.00 2.40
374 375 6.959639 TTTTCTTAGGCAATCTGAAGTGTT 57.040 33.333 0.00 0.00 0.00 3.32
527 532 3.790089 GGGTAGCCCATAAGCTGTATT 57.210 47.619 0.00 0.00 44.65 1.89
528 533 4.903045 GGGTAGCCCATAAGCTGTATTA 57.097 45.455 0.00 0.00 44.65 0.98
529 534 5.437191 GGGTAGCCCATAAGCTGTATTAT 57.563 43.478 0.00 0.00 44.65 1.28
530 535 5.186198 GGGTAGCCCATAAGCTGTATTATG 58.814 45.833 0.00 0.00 44.65 1.90
540 568 5.892160 AAGCTGTATTATGGCATGCATAG 57.108 39.130 21.36 6.44 0.00 2.23
542 570 4.019051 AGCTGTATTATGGCATGCATAGGA 60.019 41.667 21.36 0.98 0.00 2.94
544 572 5.183713 GCTGTATTATGGCATGCATAGGAAA 59.816 40.000 21.36 4.88 0.00 3.13
552 580 4.338964 TGGCATGCATAGGAAAATACTGTG 59.661 41.667 21.36 0.00 0.00 3.66
638 666 3.742433 AGAGAATTAGCATCGGGACAG 57.258 47.619 0.00 0.00 0.00 3.51
717 745 3.532542 GAAATACCAGTACCACTCAGCC 58.467 50.000 0.00 0.00 0.00 4.85
755 783 2.415512 GCAGACGTCCACTTATTTCCAC 59.584 50.000 13.01 0.00 0.00 4.02
1119 1158 1.023502 TGTGTGTGTTCCATGTGCAG 58.976 50.000 0.00 0.00 0.00 4.41
1120 1159 0.318107 GTGTGTGTTCCATGTGCAGC 60.318 55.000 0.00 0.00 0.00 5.25
1127 1166 3.725459 CCATGTGCAGCGTTCGCA 61.725 61.111 18.95 0.00 36.94 5.10
1626 1668 1.796796 GCCGTCAGATGGTTTGCTC 59.203 57.895 10.58 0.00 0.00 4.26
1667 1713 3.444916 GTCTCGCGACTTGGATGAATAA 58.555 45.455 3.71 0.00 37.19 1.40
1668 1714 4.051922 GTCTCGCGACTTGGATGAATAAT 58.948 43.478 3.71 0.00 37.19 1.28
1669 1715 5.220381 GTCTCGCGACTTGGATGAATAATA 58.780 41.667 3.71 0.00 37.19 0.98
1670 1716 5.690409 GTCTCGCGACTTGGATGAATAATAA 59.310 40.000 3.71 0.00 37.19 1.40
1814 1860 9.846248 AACTTTACATCAGCTATTTGATCAAAC 57.154 29.630 22.71 10.72 35.67 2.93
1838 1884 8.375493 ACCCATATAACAGAACATATATCGGT 57.625 34.615 0.00 0.00 33.68 4.69
1856 1902 2.095853 CGGTTCGCTGCAACAGAATATT 59.904 45.455 13.95 0.00 32.44 1.28
1857 1903 3.308595 CGGTTCGCTGCAACAGAATATTA 59.691 43.478 13.95 0.00 32.44 0.98
1858 1904 4.201773 CGGTTCGCTGCAACAGAATATTAA 60.202 41.667 13.95 0.00 32.44 1.40
1913 1959 2.746362 GTTGATTCTCAAGGTGCTCCAG 59.254 50.000 7.70 0.00 37.00 3.86
1922 1968 0.473886 AGGTGCTCCAGGTTAGGTGT 60.474 55.000 7.70 0.00 35.89 4.16
1982 2028 8.932610 ACTATCTTCAATATGATTGTCCTGAGT 58.067 33.333 0.00 0.00 0.00 3.41
1984 2030 7.186570 TCTTCAATATGATTGTCCTGAGTCA 57.813 36.000 0.00 0.00 0.00 3.41
2133 2179 6.586082 CAGTTACCACAATATTTTCAAGGTGC 59.414 38.462 0.00 0.00 0.00 5.01
2208 2254 9.638239 GGATGAGAGATCAATATTACAGAACTC 57.362 37.037 0.00 4.35 33.09 3.01
2293 2339 0.924090 CTGCGTGTTATCCTCTTCGC 59.076 55.000 0.00 0.00 43.14 4.70
2359 2405 5.335976 GGACAAACTCCCTAGCAAAAAGATG 60.336 44.000 0.00 0.00 31.83 2.90
2383 2429 4.955925 TCGCAGTCAGAAAAGAAAAACA 57.044 36.364 0.00 0.00 0.00 2.83
2407 2453 4.095185 CACCTTCAACTTCAAACCAACGTA 59.905 41.667 0.00 0.00 0.00 3.57
2471 2517 5.410355 TGGTAAGTGTGGTATTCCTGTAC 57.590 43.478 0.00 0.00 34.23 2.90
2483 2529 5.007724 GGTATTCCTGTACAATAGCACAAGC 59.992 44.000 9.37 0.00 42.56 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 9.534565 GCTTGTATGTGAGAGATAGAAAATACA 57.465 33.333 0.00 0.00 0.00 2.29
24 25 8.695284 CGCTTGTATGTGAGAGATAGAAAATAC 58.305 37.037 0.00 0.00 0.00 1.89
25 26 7.382488 GCGCTTGTATGTGAGAGATAGAAAATA 59.618 37.037 0.00 0.00 0.00 1.40
26 27 6.201806 GCGCTTGTATGTGAGAGATAGAAAAT 59.798 38.462 0.00 0.00 0.00 1.82
27 28 5.520288 GCGCTTGTATGTGAGAGATAGAAAA 59.480 40.000 0.00 0.00 0.00 2.29
28 29 5.043903 GCGCTTGTATGTGAGAGATAGAAA 58.956 41.667 0.00 0.00 0.00 2.52
29 30 4.097892 TGCGCTTGTATGTGAGAGATAGAA 59.902 41.667 9.73 0.00 0.00 2.10
30 31 3.632145 TGCGCTTGTATGTGAGAGATAGA 59.368 43.478 9.73 0.00 0.00 1.98
31 32 3.969899 TGCGCTTGTATGTGAGAGATAG 58.030 45.455 9.73 0.00 0.00 2.08
32 33 4.385358 TTGCGCTTGTATGTGAGAGATA 57.615 40.909 9.73 0.00 0.00 1.98
33 34 2.967599 TGCGCTTGTATGTGAGAGAT 57.032 45.000 9.73 0.00 0.00 2.75
34 35 2.741759 TTGCGCTTGTATGTGAGAGA 57.258 45.000 9.73 0.00 0.00 3.10
35 36 4.346734 AATTTGCGCTTGTATGTGAGAG 57.653 40.909 9.73 0.00 0.00 3.20
36 37 4.764679 AAATTTGCGCTTGTATGTGAGA 57.235 36.364 9.73 0.00 0.00 3.27
37 38 4.916831 TCAAAATTTGCGCTTGTATGTGAG 59.083 37.500 9.73 0.00 0.00 3.51
38 39 4.864633 TCAAAATTTGCGCTTGTATGTGA 58.135 34.783 9.73 1.32 0.00 3.58
39 40 5.345472 TCATCAAAATTTGCGCTTGTATGTG 59.655 36.000 9.73 0.00 0.00 3.21
40 41 5.468592 TCATCAAAATTTGCGCTTGTATGT 58.531 33.333 9.73 0.00 0.00 2.29
41 42 6.392353 TTCATCAAAATTTGCGCTTGTATG 57.608 33.333 9.73 9.92 0.00 2.39
42 43 7.418840 TTTTCATCAAAATTTGCGCTTGTAT 57.581 28.000 9.73 0.00 0.00 2.29
43 44 6.834959 TTTTCATCAAAATTTGCGCTTGTA 57.165 29.167 9.73 0.00 0.00 2.41
44 45 5.731599 TTTTCATCAAAATTTGCGCTTGT 57.268 30.435 9.73 0.00 0.00 3.16
61 62 8.908903 GGGGTAATATATGTGTGTGAATTTTCA 58.091 33.333 0.00 0.00 34.20 2.69
62 63 9.131791 AGGGGTAATATATGTGTGTGAATTTTC 57.868 33.333 0.00 0.00 0.00 2.29
63 64 9.131791 GAGGGGTAATATATGTGTGTGAATTTT 57.868 33.333 0.00 0.00 0.00 1.82
64 65 8.502738 AGAGGGGTAATATATGTGTGTGAATTT 58.497 33.333 0.00 0.00 0.00 1.82
65 66 8.045720 AGAGGGGTAATATATGTGTGTGAATT 57.954 34.615 0.00 0.00 0.00 2.17
66 67 7.633018 AGAGGGGTAATATATGTGTGTGAAT 57.367 36.000 0.00 0.00 0.00 2.57
67 68 8.593679 CATAGAGGGGTAATATATGTGTGTGAA 58.406 37.037 0.00 0.00 0.00 3.18
68 69 7.733047 ACATAGAGGGGTAATATATGTGTGTGA 59.267 37.037 0.00 0.00 34.63 3.58
69 70 7.819415 CACATAGAGGGGTAATATATGTGTGTG 59.181 40.741 13.03 0.00 43.17 3.82
70 71 7.907389 CACATAGAGGGGTAATATATGTGTGT 58.093 38.462 13.03 0.00 43.17 3.72
74 75 6.500400 TGCACACATAGAGGGGTAATATATGT 59.500 38.462 0.00 0.00 35.91 2.29
75 76 6.946340 TGCACACATAGAGGGGTAATATATG 58.054 40.000 0.00 0.00 0.00 1.78
76 77 7.182749 ACATGCACACATAGAGGGGTAATATAT 59.817 37.037 0.00 0.00 33.67 0.86
77 78 6.500400 ACATGCACACATAGAGGGGTAATATA 59.500 38.462 0.00 0.00 33.67 0.86
78 79 5.310594 ACATGCACACATAGAGGGGTAATAT 59.689 40.000 0.00 0.00 33.67 1.28
79 80 4.658435 ACATGCACACATAGAGGGGTAATA 59.342 41.667 0.00 0.00 33.67 0.98
80 81 3.459598 ACATGCACACATAGAGGGGTAAT 59.540 43.478 0.00 0.00 33.67 1.89
81 82 2.843730 ACATGCACACATAGAGGGGTAA 59.156 45.455 0.00 0.00 33.67 2.85
82 83 2.477245 ACATGCACACATAGAGGGGTA 58.523 47.619 0.00 0.00 33.67 3.69
83 84 1.289160 ACATGCACACATAGAGGGGT 58.711 50.000 0.00 0.00 33.67 4.95
84 85 2.803133 CGTACATGCACACATAGAGGGG 60.803 54.545 0.00 0.00 33.67 4.79
85 86 2.100749 TCGTACATGCACACATAGAGGG 59.899 50.000 0.00 0.00 33.67 4.30
86 87 3.436700 TCGTACATGCACACATAGAGG 57.563 47.619 0.00 0.00 33.67 3.69
87 88 4.672409 TCTTCGTACATGCACACATAGAG 58.328 43.478 0.00 0.00 33.67 2.43
88 89 4.712122 TCTTCGTACATGCACACATAGA 57.288 40.909 0.00 0.00 33.67 1.98
89 90 5.973651 ATTCTTCGTACATGCACACATAG 57.026 39.130 0.00 0.00 33.67 2.23
90 91 6.370166 TGAAATTCTTCGTACATGCACACATA 59.630 34.615 0.00 0.00 32.54 2.29
91 92 5.181056 TGAAATTCTTCGTACATGCACACAT 59.819 36.000 0.00 0.00 33.48 3.21
92 93 4.513318 TGAAATTCTTCGTACATGCACACA 59.487 37.500 0.00 0.00 33.94 3.72
93 94 5.029650 TGAAATTCTTCGTACATGCACAC 57.970 39.130 0.00 0.00 33.94 3.82
94 95 4.994217 TCTGAAATTCTTCGTACATGCACA 59.006 37.500 0.00 0.00 33.94 4.57
95 96 5.530519 TCTGAAATTCTTCGTACATGCAC 57.469 39.130 0.00 0.00 33.94 4.57
96 97 6.741992 ATTCTGAAATTCTTCGTACATGCA 57.258 33.333 0.00 0.00 33.94 3.96
97 98 8.452989 AAAATTCTGAAATTCTTCGTACATGC 57.547 30.769 0.00 0.00 33.93 4.06
126 127 8.793592 AGTTCAAAGAAACGGATTTTTATAGCT 58.206 29.630 0.00 0.00 34.27 3.32
127 128 8.965986 AGTTCAAAGAAACGGATTTTTATAGC 57.034 30.769 0.00 0.00 34.27 2.97
130 131 9.810545 TCAAAGTTCAAAGAAACGGATTTTTAT 57.189 25.926 0.00 0.00 34.27 1.40
131 132 9.640963 TTCAAAGTTCAAAGAAACGGATTTTTA 57.359 25.926 0.00 0.00 34.27 1.52
132 133 8.541133 TTCAAAGTTCAAAGAAACGGATTTTT 57.459 26.923 0.00 0.00 34.27 1.94
133 134 8.541133 TTTCAAAGTTCAAAGAAACGGATTTT 57.459 26.923 0.00 0.00 34.27 1.82
134 135 8.541133 TTTTCAAAGTTCAAAGAAACGGATTT 57.459 26.923 0.00 0.00 34.27 2.17
135 136 8.541133 TTTTTCAAAGTTCAAAGAAACGGATT 57.459 26.923 0.00 0.00 34.27 3.01
160 161 4.949856 CCATAGGCATACTGTGTCCTTTTT 59.050 41.667 3.34 0.00 36.66 1.94
161 162 4.018415 ACCATAGGCATACTGTGTCCTTTT 60.018 41.667 3.34 0.00 36.66 2.27
162 163 3.523564 ACCATAGGCATACTGTGTCCTTT 59.476 43.478 3.34 0.00 36.66 3.11
163 164 3.115390 ACCATAGGCATACTGTGTCCTT 58.885 45.455 3.34 0.00 36.66 3.36
164 165 2.700897 GACCATAGGCATACTGTGTCCT 59.299 50.000 0.00 0.00 36.66 3.85
165 166 2.224305 GGACCATAGGCATACTGTGTCC 60.224 54.545 0.00 0.00 36.66 4.02
166 167 2.434336 TGGACCATAGGCATACTGTGTC 59.566 50.000 0.00 0.00 36.66 3.67
167 168 2.477245 TGGACCATAGGCATACTGTGT 58.523 47.619 0.00 0.00 36.66 3.72
168 169 3.558931 TTGGACCATAGGCATACTGTG 57.441 47.619 0.00 0.00 37.99 3.66
169 170 3.523564 ACTTTGGACCATAGGCATACTGT 59.476 43.478 15.41 0.00 0.00 3.55
170 171 4.156455 ACTTTGGACCATAGGCATACTG 57.844 45.455 15.41 0.00 0.00 2.74
171 172 4.862641 AACTTTGGACCATAGGCATACT 57.137 40.909 15.41 0.00 0.00 2.12
172 173 5.681639 AGTAACTTTGGACCATAGGCATAC 58.318 41.667 15.41 13.77 0.00 2.39
173 174 5.968676 AGTAACTTTGGACCATAGGCATA 57.031 39.130 15.41 4.20 0.00 3.14
174 175 4.862641 AGTAACTTTGGACCATAGGCAT 57.137 40.909 15.41 5.03 0.00 4.40
175 176 4.650972 AAGTAACTTTGGACCATAGGCA 57.349 40.909 15.41 1.07 0.00 4.75
176 177 5.977489 AAAAGTAACTTTGGACCATAGGC 57.023 39.130 15.41 6.21 33.64 3.93
177 178 6.156519 GCAAAAAGTAACTTTGGACCATAGG 58.843 40.000 15.41 2.67 33.64 2.57
178 179 6.744112 TGCAAAAAGTAACTTTGGACCATAG 58.256 36.000 10.14 10.14 33.64 2.23
179 180 6.716934 TGCAAAAAGTAACTTTGGACCATA 57.283 33.333 0.00 0.00 33.64 2.74
180 181 5.606348 TGCAAAAAGTAACTTTGGACCAT 57.394 34.783 0.00 0.00 33.64 3.55
181 182 5.606348 ATGCAAAAAGTAACTTTGGACCA 57.394 34.783 0.00 0.00 37.01 4.02
182 183 7.375053 TGATATGCAAAAAGTAACTTTGGACC 58.625 34.615 0.00 0.00 37.01 4.46
183 184 8.810652 TTGATATGCAAAAAGTAACTTTGGAC 57.189 30.769 0.00 0.00 37.01 4.02
184 185 9.421806 CATTGATATGCAAAAAGTAACTTTGGA 57.578 29.630 0.00 0.00 40.48 3.53
204 205 8.024865 CGAATGAACACCATATATTGCATTGAT 58.975 33.333 0.00 0.00 34.45 2.57
205 206 7.228308 TCGAATGAACACCATATATTGCATTGA 59.772 33.333 0.00 0.00 34.45 2.57
206 207 7.324375 GTCGAATGAACACCATATATTGCATTG 59.676 37.037 0.00 0.00 34.45 2.82
207 208 7.362662 GTCGAATGAACACCATATATTGCATT 58.637 34.615 0.00 0.00 34.45 3.56
208 209 6.072508 GGTCGAATGAACACCATATATTGCAT 60.073 38.462 0.00 0.00 34.45 3.96
209 210 5.238432 GGTCGAATGAACACCATATATTGCA 59.762 40.000 0.00 0.00 34.45 4.08
210 211 5.614668 CGGTCGAATGAACACCATATATTGC 60.615 44.000 0.00 0.00 34.45 3.56
211 212 5.694458 TCGGTCGAATGAACACCATATATTG 59.306 40.000 0.00 0.00 34.45 1.90
212 213 5.849510 TCGGTCGAATGAACACCATATATT 58.150 37.500 0.00 0.00 34.45 1.28
213 214 5.462530 TCGGTCGAATGAACACCATATAT 57.537 39.130 0.00 0.00 34.45 0.86
214 215 4.922471 TCGGTCGAATGAACACCATATA 57.078 40.909 0.00 0.00 34.45 0.86
215 216 3.812156 TCGGTCGAATGAACACCATAT 57.188 42.857 0.00 0.00 34.45 1.78
216 217 3.118920 ACATCGGTCGAATGAACACCATA 60.119 43.478 2.65 0.00 34.45 2.74
217 218 2.279741 CATCGGTCGAATGAACACCAT 58.720 47.619 0.00 0.00 36.99 3.55
218 219 1.001520 ACATCGGTCGAATGAACACCA 59.998 47.619 2.65 0.00 0.00 4.17
219 220 1.722011 ACATCGGTCGAATGAACACC 58.278 50.000 2.65 0.00 0.00 4.16
220 221 4.171005 TCTAACATCGGTCGAATGAACAC 58.829 43.478 2.65 0.00 0.00 3.32
221 222 4.443913 TCTAACATCGGTCGAATGAACA 57.556 40.909 2.65 0.00 0.00 3.18
222 223 6.641314 ACATATCTAACATCGGTCGAATGAAC 59.359 38.462 2.65 0.00 0.00 3.18
223 224 6.745116 ACATATCTAACATCGGTCGAATGAA 58.255 36.000 2.65 0.00 0.00 2.57
224 225 6.327279 ACATATCTAACATCGGTCGAATGA 57.673 37.500 2.65 0.00 0.00 2.57
225 226 7.169140 TCAAACATATCTAACATCGGTCGAATG 59.831 37.037 0.00 0.00 0.00 2.67
226 227 7.207383 TCAAACATATCTAACATCGGTCGAAT 58.793 34.615 0.00 0.00 0.00 3.34
227 228 6.566141 TCAAACATATCTAACATCGGTCGAA 58.434 36.000 0.00 0.00 0.00 3.71
228 229 6.139048 TCAAACATATCTAACATCGGTCGA 57.861 37.500 0.00 0.00 0.00 4.20
229 230 6.640907 TGATCAAACATATCTAACATCGGTCG 59.359 38.462 0.00 0.00 0.00 4.79
230 231 7.946655 TGATCAAACATATCTAACATCGGTC 57.053 36.000 0.00 0.00 0.00 4.79
231 232 8.731275 TTTGATCAAACATATCTAACATCGGT 57.269 30.769 16.91 0.00 0.00 4.69
239 240 9.389755 TCCGTTCAATTTGATCAAACATATCTA 57.610 29.630 22.71 0.00 32.51 1.98
240 241 8.279970 TCCGTTCAATTTGATCAAACATATCT 57.720 30.769 22.71 3.45 32.51 1.98
241 242 8.961092 CATCCGTTCAATTTGATCAAACATATC 58.039 33.333 22.71 12.27 32.51 1.63
242 243 8.469200 ACATCCGTTCAATTTGATCAAACATAT 58.531 29.630 22.71 4.59 32.51 1.78
243 244 7.825681 ACATCCGTTCAATTTGATCAAACATA 58.174 30.769 22.71 8.36 32.51 2.29
244 245 6.690530 ACATCCGTTCAATTTGATCAAACAT 58.309 32.000 22.71 12.18 32.51 2.71
245 246 6.083098 ACATCCGTTCAATTTGATCAAACA 57.917 33.333 22.71 7.54 32.51 2.83
246 247 7.282916 CAAACATCCGTTCAATTTGATCAAAC 58.717 34.615 22.71 9.85 32.91 2.93
247 248 6.423302 CCAAACATCCGTTCAATTTGATCAAA 59.577 34.615 22.52 22.52 32.91 2.69
248 249 5.925397 CCAAACATCCGTTCAATTTGATCAA 59.075 36.000 3.38 3.38 32.91 2.57
249 250 5.010516 ACCAAACATCCGTTCAATTTGATCA 59.989 36.000 0.00 0.00 32.91 2.92
250 251 5.469479 ACCAAACATCCGTTCAATTTGATC 58.531 37.500 0.00 0.00 32.91 2.92
251 252 5.467035 ACCAAACATCCGTTCAATTTGAT 57.533 34.783 0.00 0.00 32.91 2.57
252 253 4.927978 ACCAAACATCCGTTCAATTTGA 57.072 36.364 0.00 0.00 32.91 2.69
253 254 5.046529 TGAACCAAACATCCGTTCAATTTG 58.953 37.500 0.00 0.00 42.06 2.32
254 255 5.269505 TGAACCAAACATCCGTTCAATTT 57.730 34.783 0.00 0.00 42.06 1.82
255 256 4.927978 TGAACCAAACATCCGTTCAATT 57.072 36.364 0.00 0.00 42.06 2.32
256 257 4.927978 TTGAACCAAACATCCGTTCAAT 57.072 36.364 9.80 0.00 46.28 2.57
258 259 2.034053 GCTTGAACCAAACATCCGTTCA 59.966 45.455 0.00 0.00 43.00 3.18
259 260 2.607038 GGCTTGAACCAAACATCCGTTC 60.607 50.000 0.00 0.00 37.10 3.95
260 261 1.339929 GGCTTGAACCAAACATCCGTT 59.660 47.619 0.00 0.00 36.73 4.44
261 262 0.958822 GGCTTGAACCAAACATCCGT 59.041 50.000 0.00 0.00 0.00 4.69
262 263 0.958091 TGGCTTGAACCAAACATCCG 59.042 50.000 0.00 0.00 36.55 4.18
263 264 1.686052 TGTGGCTTGAACCAAACATCC 59.314 47.619 0.00 0.00 42.70 3.51
264 265 2.742774 GTGTGGCTTGAACCAAACATC 58.257 47.619 0.00 0.00 45.87 3.06
265 266 2.888834 GTGTGGCTTGAACCAAACAT 57.111 45.000 0.00 0.00 45.87 2.71
279 280 2.233922 AGGAATCTTGTCTACGGTGTGG 59.766 50.000 0.00 0.00 0.00 4.17
284 285 4.994852 TCACAAAAGGAATCTTGTCTACGG 59.005 41.667 0.00 0.00 33.51 4.02
285 286 6.539649 TTCACAAAAGGAATCTTGTCTACG 57.460 37.500 0.00 0.00 33.51 3.51
328 329 7.561237 AATATTGTCACATTTTTGTGCGTAC 57.439 32.000 0.00 0.00 39.49 3.67
331 332 7.786114 AGAAAATATTGTCACATTTTTGTGCG 58.214 30.769 8.36 0.00 39.49 5.34
341 342 8.461222 CAGATTGCCTAAGAAAATATTGTCACA 58.539 33.333 8.36 0.00 0.00 3.58
346 347 9.512435 CACTTCAGATTGCCTAAGAAAATATTG 57.488 33.333 0.00 0.00 0.00 1.90
366 367 5.182487 TCACAAACTCTTAGCAACACTTCA 58.818 37.500 0.00 0.00 0.00 3.02
374 375 6.354130 ACTTTAGGTTCACAAACTCTTAGCA 58.646 36.000 0.00 0.00 35.61 3.49
523 528 8.960591 AGTATTTTCCTATGCATGCCATAATAC 58.039 33.333 16.68 16.59 36.04 1.89
524 529 8.959548 CAGTATTTTCCTATGCATGCCATAATA 58.040 33.333 16.68 5.25 36.04 0.98
525 530 7.452501 ACAGTATTTTCCTATGCATGCCATAAT 59.547 33.333 16.68 4.18 36.04 1.28
527 532 6.207221 CACAGTATTTTCCTATGCATGCCATA 59.793 38.462 16.68 11.78 35.34 2.74
528 533 5.010314 CACAGTATTTTCCTATGCATGCCAT 59.990 40.000 16.68 11.24 37.97 4.40
529 534 4.338964 CACAGTATTTTCCTATGCATGCCA 59.661 41.667 16.68 3.52 0.00 4.92
530 535 4.339247 ACACAGTATTTTCCTATGCATGCC 59.661 41.667 16.68 0.00 0.00 4.40
531 536 5.505173 ACACAGTATTTTCCTATGCATGC 57.495 39.130 11.82 11.82 0.00 4.06
532 537 8.158169 ACATACACAGTATTTTCCTATGCATG 57.842 34.615 10.16 0.00 0.00 4.06
533 538 9.494271 CTACATACACAGTATTTTCCTATGCAT 57.506 33.333 3.79 3.79 0.00 3.96
534 539 7.931407 CCTACATACACAGTATTTTCCTATGCA 59.069 37.037 0.00 0.00 0.00 3.96
535 540 7.931948 ACCTACATACACAGTATTTTCCTATGC 59.068 37.037 0.00 0.00 0.00 3.14
536 541 9.832445 AACCTACATACACAGTATTTTCCTATG 57.168 33.333 0.00 0.00 0.00 2.23
638 666 7.488792 TGCCATATTGATTAATTAATCGCATGC 59.511 33.333 25.73 22.19 43.80 4.06
717 745 1.723542 CTGCACAGCGACTCTAGTTTG 59.276 52.381 0.00 0.00 0.00 2.93
755 783 2.107141 GACCCGCAGATTCTCCGG 59.893 66.667 9.17 9.17 41.60 5.14
857 885 5.901884 GTGTGAAAATATCGACAATAAGCGG 59.098 40.000 0.00 0.00 0.00 5.52
898 934 4.367023 GCTGGTCCGCACGGTGTA 62.367 66.667 10.24 0.00 36.47 2.90
992 1030 0.975887 GATGGTGGCCATTTGGTTGT 59.024 50.000 9.72 0.00 45.26 3.32
996 1034 1.518774 GCTGATGGTGGCCATTTGG 59.481 57.895 9.72 0.00 45.26 3.28
1136 1175 2.018727 ATCGGCTCAGCTCAGCTCAG 62.019 60.000 10.24 0.00 36.40 3.35
1321 1360 4.194720 ATCCGCTCGTCGACCAGC 62.195 66.667 23.28 23.28 41.67 4.85
1626 1668 4.394712 AGTCTTCAAGGCGGGGCG 62.395 66.667 0.00 0.00 0.00 6.13
1667 1713 8.987890 CGTGAAATTTTCCTTGGATGTTTTTAT 58.012 29.630 6.68 0.00 0.00 1.40
1668 1714 7.042389 GCGTGAAATTTTCCTTGGATGTTTTTA 60.042 33.333 6.68 0.00 0.00 1.52
1669 1715 6.238347 GCGTGAAATTTTCCTTGGATGTTTTT 60.238 34.615 6.68 0.00 0.00 1.94
1670 1716 5.236263 GCGTGAAATTTTCCTTGGATGTTTT 59.764 36.000 6.68 0.00 0.00 2.43
1814 1860 9.314321 GAACCGATATATGTTCTGTTATATGGG 57.686 37.037 8.13 8.54 40.10 4.00
1838 1884 6.494893 AAGTTAATATTCTGTTGCAGCGAA 57.505 33.333 9.39 9.39 0.00 4.70
1913 1959 3.005050 GGCACCAGTTTTTACACCTAACC 59.995 47.826 0.00 0.00 0.00 2.85
1922 1968 6.177610 CCATTAGAGTAGGCACCAGTTTTTA 58.822 40.000 0.00 0.00 0.00 1.52
1982 2028 5.474578 AGTTACTGCTGAAGAGATTGTGA 57.525 39.130 0.00 0.00 0.00 3.58
1984 2030 6.107901 AGAAGTTACTGCTGAAGAGATTGT 57.892 37.500 0.00 0.00 0.00 2.71
2133 2179 2.557920 AAACCAGGTCAAGAGCTCAG 57.442 50.000 17.77 8.24 36.98 3.35
2208 2254 3.251479 TCCAGTGTCCAGATTCAATCG 57.749 47.619 0.00 0.00 0.00 3.34
2293 2339 5.771666 AGAAACTTGGCATATCATACCATGG 59.228 40.000 11.19 11.19 33.96 3.66
2359 2405 6.357240 GTGTTTTTCTTTTCTGACTGCGATAC 59.643 38.462 0.00 0.00 0.00 2.24
2383 2429 3.119637 CGTTGGTTTGAAGTTGAAGGTGT 60.120 43.478 0.00 0.00 0.00 4.16


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

AutoCloner maintained by Alex Coulton.