Multiple sequence alignment - TraesCS5A01G488400

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 TraesCS5A01G488400 chr5A 100.000 2987 0 0 1 2987 658334355 658337341 0.000000e+00 5517
1 TraesCS5A01G488400 chr5D 90.740 2419 172 29 1 2406 530159556 530161935 0.000000e+00 3179
2 TraesCS5A01G488400 chr5D 99.458 553 2 1 2436 2987 530161934 530162486 0.000000e+00 1003
3 TraesCS5A01G488400 chrUn 100.000 310 0 0 2678 2987 477987535 477987844 9.290000e-160 573
4 TraesCS5A01G488400 chr2A 86.538 104 13 1 2866 2969 12337526 12337628 2.430000e-21 113
5 TraesCS5A01G488400 chr2D 85.577 104 14 1 2866 2969 11851897 11851999 1.130000e-19 108


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 TraesCS5A01G488400 chr5A 658334355 658337341 2986 False 5517 5517 100.000 1 2987 1 chr5A.!!$F1 2986
1 TraesCS5A01G488400 chr5D 530159556 530162486 2930 False 2091 3179 95.099 1 2987 2 chr5D.!!$F1 2986

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
270 291 0.030908 GTTATCCTCCTCCAGCGTCG 59.969 60.0 0.00 0.00 0.0 5.12 F
1271 1297 0.035056 ATCTTTGGAGTTCTGGCCGG 60.035 55.0 4.71 4.71 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1656 1682 0.033366 AGCCGCAAACATTTTGGACC 59.967 50.000 0.0 0.0 0.0 4.46 R
2228 2258 4.162096 ACTACGTGTGACTGAGCTTAAG 57.838 45.455 0.0 0.0 0.0 1.85 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
45 46 2.076863 GTTCCAAGATGACGTTCCCAG 58.923 52.381 0.00 0.00 0.00 4.45
52 53 2.093447 AGATGACGTTCCCAGAATCCAC 60.093 50.000 0.00 0.00 0.00 4.02
58 59 2.648059 GTTCCCAGAATCCACCATCAG 58.352 52.381 0.00 0.00 0.00 2.90
60 61 0.549950 CCCAGAATCCACCATCAGCT 59.450 55.000 0.00 0.00 0.00 4.24
80 81 3.057946 GCTCCTCACATTGTTCAAAGACC 60.058 47.826 0.00 0.00 0.00 3.85
102 103 3.569690 CCGCCGCCGTGGAATAAC 61.570 66.667 0.88 0.00 42.83 1.89
103 104 3.569690 CGCCGCCGTGGAATAACC 61.570 66.667 0.88 0.00 42.00 2.85
105 106 2.469516 GCCGCCGTGGAATAACCTG 61.470 63.158 0.88 0.00 42.00 4.00
106 107 1.219664 CCGCCGTGGAATAACCTGA 59.780 57.895 0.00 0.00 42.00 3.86
107 108 0.810031 CCGCCGTGGAATAACCTGAG 60.810 60.000 0.00 0.00 42.00 3.35
108 109 0.108329 CGCCGTGGAATAACCTGAGT 60.108 55.000 0.00 0.00 39.86 3.41
109 110 1.653151 GCCGTGGAATAACCTGAGTC 58.347 55.000 0.00 0.00 39.86 3.36
110 111 1.742750 GCCGTGGAATAACCTGAGTCC 60.743 57.143 0.00 0.00 39.86 3.85
111 112 1.553248 CCGTGGAATAACCTGAGTCCA 59.447 52.381 0.00 0.00 41.15 4.02
112 113 2.170607 CCGTGGAATAACCTGAGTCCAT 59.829 50.000 0.00 0.00 44.80 3.41
113 114 3.386726 CCGTGGAATAACCTGAGTCCATA 59.613 47.826 0.00 0.00 44.80 2.74
114 115 4.040461 CCGTGGAATAACCTGAGTCCATAT 59.960 45.833 0.00 0.00 44.80 1.78
115 116 5.454755 CCGTGGAATAACCTGAGTCCATATT 60.455 44.000 0.00 0.00 44.80 1.28
116 117 5.696724 CGTGGAATAACCTGAGTCCATATTC 59.303 44.000 0.00 0.00 44.80 1.75
117 118 6.591935 GTGGAATAACCTGAGTCCATATTCA 58.408 40.000 12.46 0.00 44.80 2.57
118 119 7.227156 GTGGAATAACCTGAGTCCATATTCAT 58.773 38.462 12.46 0.00 44.80 2.57
119 120 7.389053 GTGGAATAACCTGAGTCCATATTCATC 59.611 40.741 12.46 5.39 44.80 2.92
120 121 7.072328 TGGAATAACCTGAGTCCATATTCATCA 59.928 37.037 12.46 0.00 38.62 3.07
121 122 7.389053 GGAATAACCTGAGTCCATATTCATCAC 59.611 40.741 12.46 0.00 35.61 3.06
122 123 5.698741 AACCTGAGTCCATATTCATCACA 57.301 39.130 0.00 0.00 0.00 3.58
134 135 6.596497 CCATATTCATCACATGGATCGAATCA 59.404 38.462 15.97 0.00 41.53 2.57
145 146 2.945668 GGATCGAATCACCAAAGAAGGG 59.054 50.000 0.00 0.00 0.00 3.95
150 151 3.619979 CGAATCACCAAAGAAGGGTAGCT 60.620 47.826 0.00 0.00 36.72 3.32
160 161 0.995024 AAGGGTAGCTCAACCTGCAT 59.005 50.000 5.65 0.00 39.65 3.96
161 162 1.879575 AGGGTAGCTCAACCTGCATA 58.120 50.000 5.65 0.00 39.65 3.14
162 163 1.486726 AGGGTAGCTCAACCTGCATAC 59.513 52.381 5.65 0.00 39.65 2.39
163 164 1.571919 GGTAGCTCAACCTGCATACG 58.428 55.000 0.00 0.00 36.53 3.06
164 165 1.136305 GGTAGCTCAACCTGCATACGA 59.864 52.381 0.00 0.00 36.53 3.43
165 166 2.418197 GGTAGCTCAACCTGCATACGAA 60.418 50.000 0.00 0.00 36.53 3.85
166 167 2.015736 AGCTCAACCTGCATACGAAG 57.984 50.000 0.00 0.00 0.00 3.79
167 168 1.550524 AGCTCAACCTGCATACGAAGA 59.449 47.619 0.00 0.00 0.00 2.87
168 169 1.661112 GCTCAACCTGCATACGAAGAC 59.339 52.381 0.00 0.00 0.00 3.01
169 170 2.271800 CTCAACCTGCATACGAAGACC 58.728 52.381 0.00 0.00 0.00 3.85
170 171 1.621317 TCAACCTGCATACGAAGACCA 59.379 47.619 0.00 0.00 0.00 4.02
171 172 2.002586 CAACCTGCATACGAAGACCAG 58.997 52.381 0.00 0.00 0.00 4.00
172 173 1.557099 ACCTGCATACGAAGACCAGA 58.443 50.000 0.00 0.00 0.00 3.86
173 174 1.899814 ACCTGCATACGAAGACCAGAA 59.100 47.619 0.00 0.00 0.00 3.02
174 175 2.271800 CCTGCATACGAAGACCAGAAC 58.728 52.381 0.00 0.00 0.00 3.01
175 176 2.271800 CTGCATACGAAGACCAGAACC 58.728 52.381 0.00 0.00 0.00 3.62
176 177 1.899814 TGCATACGAAGACCAGAACCT 59.100 47.619 0.00 0.00 0.00 3.50
177 178 2.301870 TGCATACGAAGACCAGAACCTT 59.698 45.455 0.00 0.00 0.00 3.50
178 179 2.930682 GCATACGAAGACCAGAACCTTC 59.069 50.000 0.00 0.00 36.38 3.46
179 180 3.616560 GCATACGAAGACCAGAACCTTCA 60.617 47.826 0.00 0.00 38.86 3.02
180 181 2.528041 ACGAAGACCAGAACCTTCAC 57.472 50.000 0.00 0.00 38.86 3.18
181 182 1.760613 ACGAAGACCAGAACCTTCACA 59.239 47.619 0.00 0.00 38.86 3.58
182 183 2.169769 ACGAAGACCAGAACCTTCACAA 59.830 45.455 0.00 0.00 38.86 3.33
183 184 3.202906 CGAAGACCAGAACCTTCACAAA 58.797 45.455 0.00 0.00 38.86 2.83
184 185 3.248602 CGAAGACCAGAACCTTCACAAAG 59.751 47.826 0.00 0.00 38.86 2.77
185 186 4.451900 GAAGACCAGAACCTTCACAAAGA 58.548 43.478 0.00 0.00 38.80 2.52
186 187 4.078639 AGACCAGAACCTTCACAAAGAG 57.921 45.455 0.00 0.00 34.14 2.85
187 188 2.550180 GACCAGAACCTTCACAAAGAGC 59.450 50.000 0.00 0.00 34.14 4.09
188 189 2.092429 ACCAGAACCTTCACAAAGAGCA 60.092 45.455 0.00 0.00 34.14 4.26
189 190 2.551459 CCAGAACCTTCACAAAGAGCAG 59.449 50.000 0.00 0.00 34.14 4.24
206 207 0.517316 CAGTTGCTTCTGCCGTAACC 59.483 55.000 0.00 0.00 38.71 2.85
207 208 0.396811 AGTTGCTTCTGCCGTAACCT 59.603 50.000 0.00 0.00 38.71 3.50
209 210 0.394938 TTGCTTCTGCCGTAACCTCA 59.605 50.000 0.00 0.00 38.71 3.86
211 212 1.291132 GCTTCTGCCGTAACCTCATC 58.709 55.000 0.00 0.00 0.00 2.92
217 218 1.831106 TGCCGTAACCTCATCAGTCAT 59.169 47.619 0.00 0.00 0.00 3.06
221 222 2.474816 GTAACCTCATCAGTCATCCGC 58.525 52.381 0.00 0.00 0.00 5.54
244 265 0.110056 CACAAAGTCGCTCCACATGC 60.110 55.000 0.00 0.00 0.00 4.06
270 291 0.030908 GTTATCCTCCTCCAGCGTCG 59.969 60.000 0.00 0.00 0.00 5.12
272 293 0.818445 TATCCTCCTCCAGCGTCGAC 60.818 60.000 5.18 5.18 0.00 4.20
286 307 3.120782 AGCGTCGACGTTAAGAATTTGAC 59.879 43.478 35.48 16.18 42.22 3.18
294 315 3.364565 CGTTAAGAATTTGACACCCCGTG 60.365 47.826 0.00 0.00 39.75 4.94
319 340 2.486727 GGTTTCTTCCAAGAGTTCCGGT 60.487 50.000 0.00 0.00 36.22 5.28
331 352 3.266686 TTCCGGTGTGGGGCATGAG 62.267 63.158 0.00 0.00 38.76 2.90
334 355 2.756400 GGTGTGGGGCATGAGACA 59.244 61.111 0.00 0.00 0.00 3.41
340 361 0.036732 TGGGGCATGAGACAAGTCAC 59.963 55.000 0.00 0.00 0.00 3.67
344 365 1.271597 GGCATGAGACAAGTCACCCTT 60.272 52.381 0.00 0.00 0.00 3.95
348 369 3.407424 TGAGACAAGTCACCCTTCATG 57.593 47.619 2.72 0.00 0.00 3.07
359 380 5.940470 AGTCACCCTTCATGTTGAGTTATTC 59.060 40.000 0.00 0.00 0.00 1.75
365 386 3.517602 TCATGTTGAGTTATTCGGTCCG 58.482 45.455 4.39 4.39 0.00 4.79
405 428 3.624707 GCAGTTTGGGTGGATATCCTGAA 60.625 47.826 22.35 7.18 36.82 3.02
408 431 4.292306 AGTTTGGGTGGATATCCTGAAAGT 59.708 41.667 22.35 14.05 36.82 2.66
409 432 3.931907 TGGGTGGATATCCTGAAAGTG 57.068 47.619 22.35 0.00 36.82 3.16
410 433 2.092429 TGGGTGGATATCCTGAAAGTGC 60.092 50.000 22.35 3.22 36.82 4.40
411 434 2.092429 GGGTGGATATCCTGAAAGTGCA 60.092 50.000 22.35 0.00 36.82 4.57
414 437 4.265073 GTGGATATCCTGAAAGTGCACTT 58.735 43.478 26.36 26.36 35.73 3.16
430 453 2.358898 GCACTTCACAGAGCTTTTCCAA 59.641 45.455 0.00 0.00 34.02 3.53
435 458 3.275143 TCACAGAGCTTTTCCAACGAAA 58.725 40.909 0.00 0.00 36.18 3.46
446 469 6.581166 GCTTTTCCAACGAAATAGTAAACCTG 59.419 38.462 0.00 0.00 37.81 4.00
451 474 6.073657 TCCAACGAAATAGTAAACCTGAAACG 60.074 38.462 0.00 0.00 0.00 3.60
460 483 6.295719 AGTAAACCTGAAACGACTCCATAT 57.704 37.500 0.00 0.00 0.00 1.78
463 486 2.236146 ACCTGAAACGACTCCATATGCA 59.764 45.455 0.00 0.00 0.00 3.96
473 496 6.524734 ACGACTCCATATGCATTTCATCTTA 58.475 36.000 3.54 0.00 36.63 2.10
474 497 6.648310 ACGACTCCATATGCATTTCATCTTAG 59.352 38.462 3.54 0.00 36.63 2.18
476 499 7.548427 CGACTCCATATGCATTTCATCTTAGAT 59.452 37.037 3.54 0.00 36.63 1.98
477 500 9.228949 GACTCCATATGCATTTCATCTTAGATT 57.771 33.333 3.54 0.00 36.63 2.40
506 529 4.616835 GCCCTAGCTTTGTTCAAATGTGAG 60.617 45.833 0.00 0.00 33.28 3.51
508 531 4.217118 CCTAGCTTTGTTCAAATGTGAGCT 59.783 41.667 11.58 11.58 36.06 4.09
509 532 3.973657 AGCTTTGTTCAAATGTGAGCTG 58.026 40.909 0.00 0.00 36.06 4.24
510 533 3.054878 GCTTTGTTCAAATGTGAGCTGG 58.945 45.455 0.00 0.00 36.06 4.85
513 536 2.929641 TGTTCAAATGTGAGCTGGACA 58.070 42.857 0.00 0.00 36.06 4.02
538 561 7.330900 AGAAAATCACATCTGACCATCATTC 57.669 36.000 0.00 0.00 0.00 2.67
544 567 5.416639 TCACATCTGACCATCATTCCTTTTG 59.583 40.000 0.00 0.00 0.00 2.44
596 619 4.009675 GCACTTTCAGGATAATGTGGACA 58.990 43.478 0.00 0.00 35.90 4.02
602 625 8.768397 ACTTTCAGGATAATGTGGACATAAGTA 58.232 33.333 0.00 0.00 35.10 2.24
604 627 9.967451 TTTCAGGATAATGTGGACATAAGTAAA 57.033 29.630 0.00 0.00 35.10 2.01
634 657 7.676683 ATGACACAAGTTATATCCCTACTGT 57.323 36.000 0.00 0.00 0.00 3.55
638 661 7.328737 ACACAAGTTATATCCCTACTGTGTTC 58.671 38.462 0.00 0.00 34.03 3.18
639 662 7.038587 ACACAAGTTATATCCCTACTGTGTTCA 60.039 37.037 0.00 0.00 34.03 3.18
640 663 7.277981 CACAAGTTATATCCCTACTGTGTTCAC 59.722 40.741 0.00 0.00 0.00 3.18
641 664 7.180408 ACAAGTTATATCCCTACTGTGTTCACT 59.820 37.037 4.59 0.00 0.00 3.41
643 666 8.147244 AGTTATATCCCTACTGTGTTCACTTT 57.853 34.615 4.59 0.00 0.00 2.66
644 667 8.603304 AGTTATATCCCTACTGTGTTCACTTTT 58.397 33.333 4.59 0.00 0.00 2.27
645 668 9.880157 GTTATATCCCTACTGTGTTCACTTTTA 57.120 33.333 4.59 0.00 0.00 1.52
658 681 7.593273 TGTGTTCACTTTTAGTGTTCTGTTTTG 59.407 33.333 6.71 0.00 46.03 2.44
659 682 7.593644 GTGTTCACTTTTAGTGTTCTGTTTTGT 59.406 33.333 6.71 0.00 46.03 2.83
661 684 9.058424 GTTCACTTTTAGTGTTCTGTTTTGTAC 57.942 33.333 6.71 0.00 46.03 2.90
686 709 6.971527 TTTACCACCTCACATTGTTATACG 57.028 37.500 0.00 0.00 0.00 3.06
695 718 6.397831 TCACATTGTTATACGTGTGCTTAC 57.602 37.500 0.00 0.00 37.30 2.34
778 802 5.975693 ACTTCAACTTCTTGACCACAAAA 57.024 34.783 0.00 0.00 36.06 2.44
780 804 6.935167 ACTTCAACTTCTTGACCACAAAATT 58.065 32.000 0.00 0.00 36.06 1.82
790 814 8.870160 TCTTGACCACAAAATTGTTTGATTAG 57.130 30.769 6.21 0.00 45.99 1.73
881 907 9.918630 CAAACTCAATGGAATTTGATTTAGAGT 57.081 29.630 0.00 0.00 41.49 3.24
919 945 6.923508 CCAGTTAATTTGGAGTGAAGGAAAAC 59.076 38.462 3.51 0.00 37.96 2.43
921 947 7.978975 CAGTTAATTTGGAGTGAAGGAAAACAA 59.021 33.333 0.00 0.00 0.00 2.83
933 959 8.314021 AGTGAAGGAAAACAAAAGTCTTGATTT 58.686 29.630 0.00 0.00 0.00 2.17
984 1010 1.134175 CTTGGCAGGTTGAACACGTTT 59.866 47.619 0.00 0.00 0.00 3.60
998 1024 0.375803 ACGTTTGTGAAAGCGTGGAC 59.624 50.000 0.00 0.00 36.16 4.02
1005 1031 1.126846 GTGAAAGCGTGGACGATGAAG 59.873 52.381 2.73 0.00 43.02 3.02
1008 1034 0.603569 AAGCGTGGACGATGAAGTCT 59.396 50.000 2.73 0.00 43.02 3.24
1024 1050 3.636231 CTGTGGGAGGCGGGACAA 61.636 66.667 0.00 0.00 0.00 3.18
1054 1080 2.418197 CCATTCATGGCTTCCTTGCTTG 60.418 50.000 0.00 0.00 41.75 4.01
1056 1082 0.112995 TCATGGCTTCCTTGCTTGGT 59.887 50.000 0.00 0.00 0.00 3.67
1060 1086 0.521735 GGCTTCCTTGCTTGGTTACG 59.478 55.000 0.00 0.00 0.00 3.18
1103 1129 3.033184 TGATGGAAAATGGATGGAAGGC 58.967 45.455 0.00 0.00 0.00 4.35
1131 1157 2.047179 GTCTGGCTCAACGGGTCC 60.047 66.667 0.00 0.00 0.00 4.46
1140 1166 3.308705 AACGGGTCCGGGACTGTC 61.309 66.667 25.39 14.49 44.69 3.51
1147 1173 0.957395 GTCCGGGACTGTCGTCTACA 60.957 60.000 19.92 0.00 40.10 2.74
1159 1185 4.921547 TGTCGTCTACATTGTCTATCTGC 58.078 43.478 0.00 0.00 31.43 4.26
1170 1196 6.538021 ACATTGTCTATCTGCTGATGTTTCTC 59.462 38.462 15.71 2.38 34.32 2.87
1173 1199 5.049167 GTCTATCTGCTGATGTTTCTCTGG 58.951 45.833 15.71 0.00 34.32 3.86
1178 1204 4.223700 TCTGCTGATGTTTCTCTGGTACAT 59.776 41.667 0.00 0.00 38.20 2.29
1184 1210 2.000447 GTTTCTCTGGTACATGGACGC 59.000 52.381 0.92 0.00 38.20 5.19
1189 1215 2.267642 GGTACATGGACGCAGCCA 59.732 61.111 0.92 0.00 43.23 4.75
1210 1236 4.611943 CAATCGATGGATTACAGTCGAGT 58.388 43.478 0.00 0.00 40.90 4.18
1224 1250 4.717313 GAGTGGTGGGTTCCCGGC 62.717 72.222 0.00 0.00 0.00 6.13
1241 1267 2.950172 GCGCCGTGTTGTACCTGTG 61.950 63.158 0.00 0.00 0.00 3.66
1243 1269 1.827315 CGCCGTGTTGTACCTGTGTG 61.827 60.000 0.00 0.00 0.00 3.82
1244 1270 1.938861 CCGTGTTGTACCTGTGTGC 59.061 57.895 0.00 0.00 0.00 4.57
1246 1272 1.827315 CGTGTTGTACCTGTGTGCCG 61.827 60.000 0.00 0.00 0.00 5.69
1247 1273 1.890041 TGTTGTACCTGTGTGCCGC 60.890 57.895 0.00 0.00 0.00 6.53
1271 1297 0.035056 ATCTTTGGAGTTCTGGCCGG 60.035 55.000 4.71 4.71 0.00 6.13
1272 1298 1.073199 CTTTGGAGTTCTGGCCGGT 59.927 57.895 12.43 0.00 0.00 5.28
1280 1306 3.190738 TTCTGGCCGGTTGGACCTG 62.191 63.158 12.43 0.00 46.01 4.00
1285 1311 2.928396 CCGGTTGGACCTGGGTCT 60.928 66.667 17.82 0.00 44.04 3.85
1342 1368 2.125952 CCGCATCACTCGTGCTGA 60.126 61.111 5.18 0.00 40.37 4.26
1349 1375 0.459899 TCACTCGTGCTGACTGTGTT 59.540 50.000 0.00 0.00 0.00 3.32
1360 1386 3.248602 GCTGACTGTGTTTGTGGTAAGAG 59.751 47.826 0.00 0.00 0.00 2.85
1363 1389 5.979993 TGACTGTGTTTGTGGTAAGAGTTA 58.020 37.500 0.00 0.00 0.00 2.24
1383 1409 1.182667 TATGCCTCACTGCACTACGT 58.817 50.000 0.00 0.00 45.48 3.57
1387 1413 1.725164 GCCTCACTGCACTACGTAAAC 59.275 52.381 0.00 0.00 0.00 2.01
1391 1417 4.451096 CCTCACTGCACTACGTAAACAATT 59.549 41.667 0.00 0.00 0.00 2.32
1392 1418 5.049680 CCTCACTGCACTACGTAAACAATTT 60.050 40.000 0.00 0.00 0.00 1.82
1394 1420 5.756347 TCACTGCACTACGTAAACAATTTCT 59.244 36.000 0.00 0.00 0.00 2.52
1470 1496 0.388659 CATCCAGCTCGAGAGGAAGG 59.611 60.000 24.89 17.89 34.62 3.46
1477 1503 1.551452 CTCGAGAGGAAGGTGGAGTT 58.449 55.000 6.58 0.00 0.00 3.01
1478 1504 1.896465 CTCGAGAGGAAGGTGGAGTTT 59.104 52.381 6.58 0.00 0.00 2.66
1533 1559 1.921243 TCACTATTGCGTGTGGATCG 58.079 50.000 0.00 0.00 36.33 3.69
1639 1665 8.877864 TTCTGTCCCAAATATGAAAACTATGT 57.122 30.769 0.00 0.00 0.00 2.29
1652 1678 2.806608 ACTATGTGACAAACGGACGT 57.193 45.000 0.00 0.00 0.00 4.34
1656 1682 1.275657 GTGACAAACGGACGTGCAG 59.724 57.895 8.11 2.47 0.00 4.41
1699 1725 0.467844 TTGCTGCTTGGCTTTCCTCA 60.468 50.000 0.00 0.00 0.00 3.86
1799 1825 1.127343 AGGCCACTTATCTCTCTGCC 58.873 55.000 5.01 0.00 37.68 4.85
1836 1862 3.200593 CTGCATCAGCCGCTGACC 61.201 66.667 25.18 18.39 43.63 4.02
1855 1881 3.803082 CCGTCAACCCGCATGCTG 61.803 66.667 17.13 9.44 0.00 4.41
1856 1882 2.741985 CGTCAACCCGCATGCTGA 60.742 61.111 17.13 9.77 0.00 4.26
2001 2031 8.255206 ACACCGAATTAGTAAGTTGATGATACA 58.745 33.333 0.00 0.00 0.00 2.29
2200 2230 6.638096 TTCAAGAATTTTGCAGAGATGACA 57.362 33.333 0.00 0.00 0.00 3.58
2228 2258 4.340894 TCATGTTTCAGCGATTTGTAGC 57.659 40.909 0.00 0.00 0.00 3.58
2310 2340 7.441157 TGTTGCTACCATATAACTATGCAGAAC 59.559 37.037 0.00 0.00 34.54 3.01
2311 2341 7.061566 TGCTACCATATAACTATGCAGAACA 57.938 36.000 0.00 0.00 34.54 3.18
2312 2342 7.679783 TGCTACCATATAACTATGCAGAACAT 58.320 34.615 0.00 0.00 43.18 2.71
2406 2436 8.405531 CCTGTATATAATTTGTCAACCACAAGG 58.594 37.037 0.00 0.00 45.98 3.61
2407 2437 8.287439 TGTATATAATTTGTCAACCACAAGGG 57.713 34.615 0.00 0.00 45.98 3.95
2408 2438 2.908688 AATTTGTCAACCACAAGGGC 57.091 45.000 0.00 0.00 45.98 5.19
2409 2439 2.086610 ATTTGTCAACCACAAGGGCT 57.913 45.000 0.00 0.00 45.98 5.19
2410 2440 1.110442 TTTGTCAACCACAAGGGCTG 58.890 50.000 0.00 0.00 45.98 4.85
2411 2441 0.033601 TTGTCAACCACAAGGGCTGT 60.034 50.000 0.00 0.00 40.29 4.40
2412 2442 0.033601 TGTCAACCACAAGGGCTGTT 60.034 50.000 0.00 0.00 42.05 3.16
2413 2443 1.111277 GTCAACCACAAGGGCTGTTT 58.889 50.000 0.00 0.00 42.05 2.83
2414 2444 1.067060 GTCAACCACAAGGGCTGTTTC 59.933 52.381 0.00 0.00 42.05 2.78
2415 2445 0.030638 CAACCACAAGGGCTGTTTCG 59.969 55.000 0.00 0.00 42.05 3.46
2416 2446 1.106944 AACCACAAGGGCTGTTTCGG 61.107 55.000 0.00 0.00 42.05 4.30
2417 2447 1.528309 CCACAAGGGCTGTTTCGGT 60.528 57.895 0.00 0.00 35.47 4.69
2418 2448 1.106944 CCACAAGGGCTGTTTCGGTT 61.107 55.000 0.00 0.00 35.47 4.44
2419 2449 1.600023 CACAAGGGCTGTTTCGGTTA 58.400 50.000 0.00 0.00 35.47 2.85
2420 2450 1.950909 CACAAGGGCTGTTTCGGTTAA 59.049 47.619 0.00 0.00 35.47 2.01
2421 2451 2.359531 CACAAGGGCTGTTTCGGTTAAA 59.640 45.455 0.00 0.00 35.47 1.52
2422 2452 3.025262 ACAAGGGCTGTTTCGGTTAAAA 58.975 40.909 0.00 0.00 32.99 1.52
2423 2453 3.447944 ACAAGGGCTGTTTCGGTTAAAAA 59.552 39.130 0.00 0.00 32.99 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 5.766670 ACATTGTAATCATGAATCCGATGCT 59.233 36.000 0.00 0.00 0.00 3.79
7 8 6.375945 TGGAACATTGTAATCATGAATCCG 57.624 37.500 0.00 0.00 32.04 4.18
11 12 8.461222 GTCATCTTGGAACATTGTAATCATGAA 58.539 33.333 0.00 0.00 39.30 2.57
15 16 5.937540 ACGTCATCTTGGAACATTGTAATCA 59.062 36.000 0.00 0.00 39.30 2.57
16 17 6.422776 ACGTCATCTTGGAACATTGTAATC 57.577 37.500 0.00 0.00 39.30 1.75
45 46 1.487976 TGAGGAGCTGATGGTGGATTC 59.512 52.381 0.00 0.00 0.00 2.52
52 53 2.414994 ACAATGTGAGGAGCTGATGG 57.585 50.000 0.00 0.00 0.00 3.51
58 59 3.057946 GGTCTTTGAACAATGTGAGGAGC 60.058 47.826 0.00 0.00 0.00 4.70
60 61 4.136796 CTGGTCTTTGAACAATGTGAGGA 58.863 43.478 0.00 0.00 0.00 3.71
91 92 1.553248 TGGACTCAGGTTATTCCACGG 59.447 52.381 0.00 0.00 39.02 4.94
93 94 6.591935 TGAATATGGACTCAGGTTATTCCAC 58.408 40.000 0.00 0.00 40.96 4.02
94 95 6.823286 TGAATATGGACTCAGGTTATTCCA 57.177 37.500 0.00 0.00 42.34 3.53
96 97 7.933577 TGTGATGAATATGGACTCAGGTTATTC 59.066 37.037 0.00 0.00 32.46 1.75
98 99 7.379059 TGTGATGAATATGGACTCAGGTTAT 57.621 36.000 0.00 0.00 0.00 1.89
100 101 5.698741 TGTGATGAATATGGACTCAGGTT 57.301 39.130 0.00 0.00 0.00 3.50
102 103 5.221783 TCCATGTGATGAATATGGACTCAGG 60.222 44.000 0.00 0.00 46.45 3.86
103 104 5.861727 TCCATGTGATGAATATGGACTCAG 58.138 41.667 0.00 0.00 46.45 3.35
109 110 6.596497 TGATTCGATCCATGTGATGAATATGG 59.404 38.462 14.32 0.00 46.38 2.74
110 111 7.413767 GGTGATTCGATCCATGTGATGAATATG 60.414 40.741 14.32 0.00 34.35 1.78
111 112 6.596888 GGTGATTCGATCCATGTGATGAATAT 59.403 38.462 14.32 0.00 34.35 1.28
112 113 5.934043 GGTGATTCGATCCATGTGATGAATA 59.066 40.000 14.32 7.33 34.35 1.75
113 114 4.758674 GGTGATTCGATCCATGTGATGAAT 59.241 41.667 14.28 14.28 35.63 2.57
114 115 4.129380 GGTGATTCGATCCATGTGATGAA 58.871 43.478 1.91 6.51 32.41 2.57
115 116 3.134442 TGGTGATTCGATCCATGTGATGA 59.866 43.478 1.91 0.00 32.41 2.92
116 117 3.469739 TGGTGATTCGATCCATGTGATG 58.530 45.455 1.91 0.00 32.41 3.07
117 118 3.843893 TGGTGATTCGATCCATGTGAT 57.156 42.857 0.00 0.00 36.01 3.06
118 119 3.625649 TTGGTGATTCGATCCATGTGA 57.374 42.857 0.00 0.00 0.00 3.58
119 120 3.940852 TCTTTGGTGATTCGATCCATGTG 59.059 43.478 0.00 0.00 0.00 3.21
120 121 4.220693 TCTTTGGTGATTCGATCCATGT 57.779 40.909 0.00 0.00 0.00 3.21
121 122 4.036027 CCTTCTTTGGTGATTCGATCCATG 59.964 45.833 0.00 0.00 0.00 3.66
122 123 4.202441 CCTTCTTTGGTGATTCGATCCAT 58.798 43.478 0.00 0.00 0.00 3.41
128 129 2.678336 GCTACCCTTCTTTGGTGATTCG 59.322 50.000 0.00 0.00 36.57 3.34
134 135 2.224793 GGTTGAGCTACCCTTCTTTGGT 60.225 50.000 0.00 0.00 39.97 3.67
145 146 2.579207 TCGTATGCAGGTTGAGCTAC 57.421 50.000 0.00 0.00 0.00 3.58
150 151 1.621317 TGGTCTTCGTATGCAGGTTGA 59.379 47.619 0.00 0.00 0.00 3.18
160 161 2.960384 TGTGAAGGTTCTGGTCTTCGTA 59.040 45.455 0.00 0.00 41.48 3.43
161 162 1.760613 TGTGAAGGTTCTGGTCTTCGT 59.239 47.619 0.00 0.00 41.48 3.85
162 163 2.526304 TGTGAAGGTTCTGGTCTTCG 57.474 50.000 0.00 0.00 41.48 3.79
163 164 4.451900 TCTTTGTGAAGGTTCTGGTCTTC 58.548 43.478 0.00 0.00 39.66 2.87
164 165 4.455606 CTCTTTGTGAAGGTTCTGGTCTT 58.544 43.478 0.00 0.00 33.56 3.01
165 166 3.745797 GCTCTTTGTGAAGGTTCTGGTCT 60.746 47.826 0.00 0.00 33.56 3.85
166 167 2.550180 GCTCTTTGTGAAGGTTCTGGTC 59.450 50.000 0.00 0.00 33.56 4.02
167 168 2.092429 TGCTCTTTGTGAAGGTTCTGGT 60.092 45.455 0.00 0.00 33.56 4.00
168 169 2.551459 CTGCTCTTTGTGAAGGTTCTGG 59.449 50.000 0.00 0.00 33.56 3.86
169 170 3.209410 ACTGCTCTTTGTGAAGGTTCTG 58.791 45.455 0.00 0.00 33.56 3.02
170 171 3.567478 ACTGCTCTTTGTGAAGGTTCT 57.433 42.857 0.00 0.00 33.56 3.01
171 172 3.793465 GCAACTGCTCTTTGTGAAGGTTC 60.793 47.826 0.00 0.00 38.21 3.62
172 173 2.099756 GCAACTGCTCTTTGTGAAGGTT 59.900 45.455 0.00 0.00 38.21 3.50
173 174 1.678101 GCAACTGCTCTTTGTGAAGGT 59.322 47.619 0.00 0.00 38.21 3.50
174 175 2.412421 GCAACTGCTCTTTGTGAAGG 57.588 50.000 0.00 0.00 38.21 3.46
187 188 0.517316 GGTTACGGCAGAAGCAACTG 59.483 55.000 5.91 5.91 44.61 3.16
188 189 0.396811 AGGTTACGGCAGAAGCAACT 59.603 50.000 0.00 0.00 44.61 3.16
189 190 0.796927 GAGGTTACGGCAGAAGCAAC 59.203 55.000 0.00 0.00 44.61 4.17
198 199 2.474816 GATGACTGATGAGGTTACGGC 58.525 52.381 0.00 0.00 0.00 5.68
201 202 2.474816 GCGGATGACTGATGAGGTTAC 58.525 52.381 0.00 0.00 0.00 2.50
203 204 0.179100 CGCGGATGACTGATGAGGTT 60.179 55.000 0.00 0.00 0.00 3.50
206 207 1.953138 GGCGCGGATGACTGATGAG 60.953 63.158 8.83 0.00 0.00 2.90
207 208 2.106938 GGCGCGGATGACTGATGA 59.893 61.111 8.83 0.00 0.00 2.92
209 210 3.469970 TGGGCGCGGATGACTGAT 61.470 61.111 8.83 0.00 0.00 2.90
211 212 4.758251 TGTGGGCGCGGATGACTG 62.758 66.667 8.83 0.00 0.00 3.51
221 222 3.423154 GGAGCGACTTTGTGGGCG 61.423 66.667 0.00 0.00 0.00 6.13
244 265 2.105477 CTGGAGGAGGATAACATGGGTG 59.895 54.545 0.00 0.00 0.00 4.61
257 278 1.642037 TAACGTCGACGCTGGAGGAG 61.642 60.000 35.92 8.80 44.43 3.69
270 291 3.120442 CGGGGTGTCAAATTCTTAACGTC 60.120 47.826 0.00 0.00 0.00 4.34
272 293 2.809696 ACGGGGTGTCAAATTCTTAACG 59.190 45.455 0.00 0.00 0.00 3.18
294 315 2.658807 ACTCTTGGAAGAAACCACCC 57.341 50.000 0.00 0.00 39.85 4.61
319 340 0.036732 GACTTGTCTCATGCCCCACA 59.963 55.000 0.00 0.00 0.00 4.17
331 352 3.476552 TCAACATGAAGGGTGACTTGTC 58.523 45.455 0.00 0.00 40.21 3.18
334 355 3.864789 ACTCAACATGAAGGGTGACTT 57.135 42.857 0.00 0.00 43.65 3.01
340 361 4.261801 ACCGAATAACTCAACATGAAGGG 58.738 43.478 0.00 0.00 0.00 3.95
344 365 3.056393 ACGGACCGAATAACTCAACATGA 60.056 43.478 23.38 0.00 0.00 3.07
348 369 2.265683 GGACGGACCGAATAACTCAAC 58.734 52.381 23.38 0.00 0.00 3.18
359 380 0.245539 ATGTAGTTGTGGACGGACCG 59.754 55.000 13.61 13.61 42.61 4.79
365 386 4.346734 CTGCATTGATGTAGTTGTGGAC 57.653 45.455 1.47 0.00 36.03 4.02
408 431 1.949525 GGAAAAGCTCTGTGAAGTGCA 59.050 47.619 0.00 0.00 0.00 4.57
409 432 1.949525 TGGAAAAGCTCTGTGAAGTGC 59.050 47.619 0.00 0.00 0.00 4.40
410 433 3.546815 CGTTGGAAAAGCTCTGTGAAGTG 60.547 47.826 0.00 0.00 0.00 3.16
411 434 2.614057 CGTTGGAAAAGCTCTGTGAAGT 59.386 45.455 0.00 0.00 0.00 3.01
414 437 2.613026 TCGTTGGAAAAGCTCTGTGA 57.387 45.000 0.00 0.00 0.00 3.58
430 453 6.218746 AGTCGTTTCAGGTTTACTATTTCGT 58.781 36.000 0.00 0.00 0.00 3.85
435 458 5.733620 TGGAGTCGTTTCAGGTTTACTAT 57.266 39.130 0.00 0.00 0.00 2.12
446 469 5.484173 TGAAATGCATATGGAGTCGTTTC 57.516 39.130 0.00 11.83 35.89 2.78
451 474 8.789825 ATCTAAGATGAAATGCATATGGAGTC 57.210 34.615 0.00 4.42 37.34 3.36
460 483 7.927629 GGGCATAAAAATCTAAGATGAAATGCA 59.072 33.333 12.45 0.00 38.14 3.96
473 496 6.437162 TGAACAAAGCTAGGGCATAAAAATCT 59.563 34.615 0.00 0.00 41.70 2.40
474 497 6.630071 TGAACAAAGCTAGGGCATAAAAATC 58.370 36.000 0.00 0.00 41.70 2.17
476 499 6.412362 TTGAACAAAGCTAGGGCATAAAAA 57.588 33.333 0.00 0.00 41.70 1.94
477 500 6.412362 TTTGAACAAAGCTAGGGCATAAAA 57.588 33.333 0.00 0.00 41.70 1.52
481 504 3.834231 ACATTTGAACAAAGCTAGGGCAT 59.166 39.130 6.18 0.00 41.70 4.40
506 529 4.456911 TCAGATGTGATTTTCTTGTCCAGC 59.543 41.667 0.00 0.00 0.00 4.85
508 531 4.761739 GGTCAGATGTGATTTTCTTGTCCA 59.238 41.667 0.00 0.00 34.36 4.02
509 532 4.761739 TGGTCAGATGTGATTTTCTTGTCC 59.238 41.667 0.00 0.00 34.36 4.02
510 533 5.947228 TGGTCAGATGTGATTTTCTTGTC 57.053 39.130 0.00 0.00 34.36 3.18
513 536 7.147949 GGAATGATGGTCAGATGTGATTTTCTT 60.148 37.037 0.00 0.00 34.36 2.52
544 567 5.626543 CACACAACAATAAGAGTGAATGCAC 59.373 40.000 0.00 0.00 45.49 4.57
609 632 8.638873 CACAGTAGGGATATAACTTGTGTCATA 58.361 37.037 0.00 0.00 0.00 2.15
616 639 7.556844 AGTGAACACAGTAGGGATATAACTTG 58.443 38.462 7.68 0.00 0.00 3.16
617 640 7.735326 AGTGAACACAGTAGGGATATAACTT 57.265 36.000 7.68 0.00 0.00 2.66
643 666 9.228949 TGGTAAAAGTACAAAACAGAACACTAA 57.771 29.630 0.00 0.00 31.21 2.24
644 667 8.667463 GTGGTAAAAGTACAAAACAGAACACTA 58.333 33.333 0.00 0.00 31.21 2.74
645 668 7.362315 GGTGGTAAAAGTACAAAACAGAACACT 60.362 37.037 0.00 0.00 31.21 3.55
658 681 6.628919 AACAATGTGAGGTGGTAAAAGTAC 57.371 37.500 0.00 0.00 0.00 2.73
659 682 9.439500 GTATAACAATGTGAGGTGGTAAAAGTA 57.561 33.333 0.00 0.00 0.00 2.24
661 684 7.118680 ACGTATAACAATGTGAGGTGGTAAAAG 59.881 37.037 0.00 0.00 0.00 2.27
666 689 4.250464 CACGTATAACAATGTGAGGTGGT 58.750 43.478 0.00 0.00 38.42 4.16
757 780 6.813152 ACAATTTTGTGGTCAAGAAGTTGAAG 59.187 34.615 0.00 0.00 41.21 3.02
758 781 6.696411 ACAATTTTGTGGTCAAGAAGTTGAA 58.304 32.000 0.00 0.00 41.21 2.69
771 794 9.541143 AGTAAACCTAATCAAACAATTTTGTGG 57.459 29.630 0.00 0.00 42.51 4.17
906 932 6.852664 TCAAGACTTTTGTTTTCCTTCACTC 58.147 36.000 0.00 0.00 0.00 3.51
919 945 9.720769 TTAGGTACTAGGAAATCAAGACTTTTG 57.279 33.333 0.00 0.00 44.25 2.44
933 959 9.529823 AACGATCAATATGATTAGGTACTAGGA 57.470 33.333 0.00 0.00 44.25 2.94
956 982 1.403679 TCAACCTGCCAAGAACAAACG 59.596 47.619 0.00 0.00 0.00 3.60
960 986 1.748493 GTGTTCAACCTGCCAAGAACA 59.252 47.619 0.00 0.00 45.57 3.18
984 1010 0.032815 TCATCGTCCACGCTTTCACA 59.967 50.000 0.00 0.00 39.60 3.58
998 1024 0.460987 GCCTCCCACAGACTTCATCG 60.461 60.000 0.00 0.00 0.00 3.84
1005 1031 4.083862 GTCCCGCCTCCCACAGAC 62.084 72.222 0.00 0.00 0.00 3.51
1008 1034 3.636231 CTTGTCCCGCCTCCCACA 61.636 66.667 0.00 0.00 0.00 4.17
1024 1050 3.091318 CCATGAATGGCTCGCTTCT 57.909 52.632 0.00 0.00 41.75 2.85
1047 1073 2.384382 CAACAAGCGTAACCAAGCAAG 58.616 47.619 0.00 0.00 35.48 4.01
1054 1080 2.502213 AAAAGCCAACAAGCGTAACC 57.498 45.000 0.00 0.00 38.01 2.85
1080 1106 4.442472 GCCTTCCATCCATTTTCCATCAAG 60.442 45.833 0.00 0.00 0.00 3.02
1089 1115 1.185315 CGTTGGCCTTCCATCCATTT 58.815 50.000 3.32 0.00 43.05 2.32
1107 1133 1.444553 GTTGAGCCAGACGGACTCG 60.445 63.158 0.00 0.00 37.92 4.18
1140 1166 5.175090 TCAGCAGATAGACAATGTAGACG 57.825 43.478 0.00 0.00 0.00 4.18
1141 1167 6.511416 ACATCAGCAGATAGACAATGTAGAC 58.489 40.000 0.00 0.00 31.88 2.59
1147 1173 6.762187 CAGAGAAACATCAGCAGATAGACAAT 59.238 38.462 0.00 0.00 31.88 2.71
1159 1185 4.872691 GTCCATGTACCAGAGAAACATCAG 59.127 45.833 0.00 0.00 31.60 2.90
1170 1196 1.815421 GGCTGCGTCCATGTACCAG 60.815 63.158 0.00 0.00 0.00 4.00
1173 1199 0.657840 GATTGGCTGCGTCCATGTAC 59.342 55.000 0.00 0.00 35.77 2.90
1178 1204 1.815003 CATCGATTGGCTGCGTCCA 60.815 57.895 0.00 0.00 0.00 4.02
1184 1210 3.470709 ACTGTAATCCATCGATTGGCTG 58.529 45.455 0.00 0.00 46.01 4.85
1189 1215 4.499865 CCACTCGACTGTAATCCATCGATT 60.500 45.833 0.00 0.00 42.26 3.34
1200 1226 0.963962 GAACCCACCACTCGACTGTA 59.036 55.000 0.00 0.00 0.00 2.74
1224 1250 1.593209 ACACAGGTACAACACGGCG 60.593 57.895 4.80 4.80 0.00 6.46
1227 1253 1.827315 CGGCACACAGGTACAACACG 61.827 60.000 0.00 0.00 0.00 4.49
1233 1259 3.423154 GCTGCGGCACACAGGTAC 61.423 66.667 14.08 0.00 39.19 3.34
1243 1269 1.138247 CTCCAAAGATTGCTGCGGC 59.862 57.895 11.65 11.65 39.26 6.53
1244 1270 0.883833 AACTCCAAAGATTGCTGCGG 59.116 50.000 0.00 0.00 0.00 5.69
1246 1272 2.094854 CCAGAACTCCAAAGATTGCTGC 60.095 50.000 0.00 0.00 0.00 5.25
1247 1273 2.094854 GCCAGAACTCCAAAGATTGCTG 60.095 50.000 0.00 0.00 0.00 4.41
1271 1297 1.545651 CCTTGAAGACCCAGGTCCAAC 60.546 57.143 13.27 5.98 45.59 3.77
1272 1298 0.771127 CCTTGAAGACCCAGGTCCAA 59.229 55.000 13.27 10.14 45.59 3.53
1280 1306 1.168714 GCACATCACCTTGAAGACCC 58.831 55.000 0.00 0.00 0.00 4.46
1285 1311 0.534877 AGCGTGCACATCACCTTGAA 60.535 50.000 18.64 0.00 42.69 2.69
1322 1348 3.545481 GCACGAGTGATGCGGACG 61.545 66.667 7.50 0.00 32.45 4.79
1327 1353 0.668706 ACAGTCAGCACGAGTGATGC 60.669 55.000 15.70 11.10 46.53 3.91
1342 1368 7.119262 GCATATAACTCTTACCACAAACACAGT 59.881 37.037 0.00 0.00 0.00 3.55
1349 1375 6.156256 AGTGAGGCATATAACTCTTACCACAA 59.844 38.462 7.20 0.00 34.84 3.33
1360 1386 3.736252 CGTAGTGCAGTGAGGCATATAAC 59.264 47.826 3.69 0.00 46.92 1.89
1363 1389 1.757118 ACGTAGTGCAGTGAGGCATAT 59.243 47.619 3.69 0.00 46.92 1.78
1383 1409 9.920133 TGCAGCAATAACATTAGAAATTGTTTA 57.080 25.926 0.00 0.00 37.29 2.01
1392 1418 9.869757 ACGTATATATGCAGCAATAACATTAGA 57.130 29.630 0.00 0.00 0.00 2.10
1417 1443 7.384387 AGACAAAAGTTATTCGTTCTGGAGTAC 59.616 37.037 0.00 0.00 0.00 2.73
1470 1496 3.181476 ACACAATCAGGCAAAAACTCCAC 60.181 43.478 0.00 0.00 0.00 4.02
1477 1503 2.100584 GTGGACACACAATCAGGCAAAA 59.899 45.455 0.00 0.00 46.90 2.44
1478 1504 1.680735 GTGGACACACAATCAGGCAAA 59.319 47.619 0.00 0.00 46.90 3.68
1533 1559 1.654743 GGTCGATAGCGTCACGAGC 60.655 63.158 0.00 0.00 44.46 5.03
1636 1662 0.812014 TGCACGTCCGTTTGTCACAT 60.812 50.000 0.00 0.00 0.00 3.21
1639 1665 1.885388 CCTGCACGTCCGTTTGTCA 60.885 57.895 0.00 0.00 0.00 3.58
1652 1678 1.537776 CGCAAACATTTTGGACCTGCA 60.538 47.619 0.00 0.00 0.00 4.41
1656 1682 0.033366 AGCCGCAAACATTTTGGACC 59.967 50.000 0.00 0.00 0.00 4.46
1855 1881 1.086634 GGCAGGTTGACGAGCTCATC 61.087 60.000 15.40 9.02 32.70 2.92
1856 1882 1.078848 GGCAGGTTGACGAGCTCAT 60.079 57.895 15.40 0.00 32.70 2.90
2001 2031 0.403271 AAGGAAGCCAGCATCTGTGT 59.597 50.000 0.00 0.00 0.00 3.72
2200 2230 6.479660 ACAAATCGCTGAAACATGAACATTTT 59.520 30.769 0.00 0.00 0.00 1.82
2228 2258 4.162096 ACTACGTGTGACTGAGCTTAAG 57.838 45.455 0.00 0.00 0.00 1.85
2310 2340 6.603599 AGCCATGGATGATTGAGAATATGATG 59.396 38.462 18.40 0.00 0.00 3.07
2311 2341 6.732487 AGCCATGGATGATTGAGAATATGAT 58.268 36.000 18.40 0.00 0.00 2.45
2312 2342 6.135819 AGCCATGGATGATTGAGAATATGA 57.864 37.500 18.40 0.00 0.00 2.15
2430 2460 9.733556 ACACAAAAATATGGTAGATACTGAACA 57.266 29.630 0.00 0.00 0.00 3.18
2478 2508 8.754991 TTTAGAAGACTAAATTGTGGACCAAA 57.245 30.769 0.00 0.00 41.71 3.28
2676 2707 6.340962 AGTTAAAACCCAATCTTTAGGTGC 57.659 37.500 0.00 0.00 33.05 5.01


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

AutoCloner maintained by Alex Coulton.