Multiple sequence alignment - TraesCS5B01G209200

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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 TraesCS5B01G209200 chr5B 100.000 4265 0 0 1 4265 378902327 378906591 0.000000e+00 7877.0
1 TraesCS5B01G209200 chr5B 94.100 1339 51 18 942 2267 378853391 378852068 0.000000e+00 2010.0
2 TraesCS5B01G209200 chr5B 97.889 995 12 5 3278 4265 471378616 471377624 0.000000e+00 1712.0
3 TraesCS5B01G209200 chr5B 97.482 993 18 3 3279 4265 327794970 327793979 0.000000e+00 1688.0
4 TraesCS5B01G209200 chr5B 88.876 854 87 6 2359 3205 378852022 378851170 0.000000e+00 1044.0
5 TraesCS5B01G209200 chr5B 84.574 940 130 12 1047 1977 375224965 375224032 0.000000e+00 918.0
6 TraesCS5B01G209200 chr5D 92.971 1437 68 20 610 2039 326402416 326403826 0.000000e+00 2063.0
7 TraesCS5B01G209200 chr5D 95.773 1041 37 6 942 1979 326384674 326383638 0.000000e+00 1672.0
8 TraesCS5B01G209200 chr5D 92.881 885 56 6 2394 3276 326404177 326405056 0.000000e+00 1279.0
9 TraesCS5B01G209200 chr5D 92.133 839 60 5 2372 3205 326383045 326382208 0.000000e+00 1179.0
10 TraesCS5B01G209200 chr5D 90.175 285 15 2 2042 2325 326383316 326383044 4.050000e-95 359.0
11 TraesCS5B01G209200 chr5D 87.619 315 29 5 2039 2346 326403866 326404177 1.460000e-94 357.0
12 TraesCS5B01G209200 chr5D 82.195 410 27 15 1 398 326401806 326402181 1.150000e-80 311.0
13 TraesCS5B01G209200 chr5A 95.223 1298 37 10 752 2039 429998473 429997191 0.000000e+00 2030.0
14 TraesCS5B01G209200 chr5A 91.240 1427 64 31 946 2346 430041485 430042876 0.000000e+00 1886.0
15 TraesCS5B01G209200 chr5A 93.001 1243 69 6 2042 3279 429997148 429995919 0.000000e+00 1797.0
16 TraesCS5B01G209200 chr5A 97.824 965 14 3 3279 4238 109291661 109292623 0.000000e+00 1659.0
17 TraesCS5B01G209200 chr5A 90.999 811 68 5 2394 3201 430042876 430043684 0.000000e+00 1088.0
18 TraesCS5B01G209200 chr5A 84.468 940 131 12 1047 1977 419830892 419829959 0.000000e+00 913.0
19 TraesCS5B01G209200 chr5A 81.741 471 32 17 1 456 430000221 429999790 1.140000e-90 344.0
20 TraesCS5B01G209200 chr5A 96.774 62 1 1 3202 3263 429996081 429996021 7.540000e-18 102.0
21 TraesCS5B01G209200 chr2B 98.191 995 11 4 3276 4265 615442541 615443533 0.000000e+00 1731.0
22 TraesCS5B01G209200 chr2B 97.883 992 12 5 3280 4265 154506223 154505235 0.000000e+00 1707.0
23 TraesCS5B01G209200 chr2B 97.784 993 15 3 3278 4265 483663325 483662335 0.000000e+00 1705.0
24 TraesCS5B01G209200 chr2B 97.681 992 13 3 3279 4265 744554773 744555759 0.000000e+00 1696.0
25 TraesCS5B01G209200 chr2B 83.067 939 143 13 1044 1978 641193378 641194304 0.000000e+00 839.0
26 TraesCS5B01G209200 chr3B 97.470 988 17 4 3283 4265 767687340 767686356 0.000000e+00 1679.0
27 TraesCS5B01G209200 chr7B 96.690 997 22 6 3276 4265 164740889 164741881 0.000000e+00 1648.0
28 TraesCS5B01G209200 chr2D 83.706 939 137 11 1044 1978 538597492 538598418 0.000000e+00 872.0
29 TraesCS5B01G209200 chr2D 93.182 44 1 2 569 611 485459683 485459725 3.560000e-06 63.9
30 TraesCS5B01G209200 chr2A 82.748 939 146 13 1044 1978 680548122 680549048 0.000000e+00 822.0
31 TraesCS5B01G209200 chr1B 84.010 838 116 11 1137 1974 52293653 52294472 0.000000e+00 789.0
32 TraesCS5B01G209200 chr7D 78.464 729 131 21 1134 1854 13698302 13697592 1.810000e-123 453.0
33 TraesCS5B01G209200 chr7D 94.737 38 1 1 569 605 603284304 603284341 1.660000e-04 58.4
34 TraesCS5B01G209200 chr6D 89.189 74 6 2 544 615 450851337 450851264 1.630000e-14 91.6
35 TraesCS5B01G209200 chr1D 93.182 44 1 2 569 611 349545622 349545580 3.560000e-06 63.9


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 TraesCS5B01G209200 chr5B 378902327 378906591 4264 False 7877.00 7877 100.000000 1 4265 1 chr5B.!!$F1 4264
1 TraesCS5B01G209200 chr5B 471377624 471378616 992 True 1712.00 1712 97.889000 3278 4265 1 chr5B.!!$R3 987
2 TraesCS5B01G209200 chr5B 327793979 327794970 991 True 1688.00 1688 97.482000 3279 4265 1 chr5B.!!$R1 986
3 TraesCS5B01G209200 chr5B 378851170 378853391 2221 True 1527.00 2010 91.488000 942 3205 2 chr5B.!!$R4 2263
4 TraesCS5B01G209200 chr5B 375224032 375224965 933 True 918.00 918 84.574000 1047 1977 1 chr5B.!!$R2 930
5 TraesCS5B01G209200 chr5D 326382208 326384674 2466 True 1070.00 1672 92.693667 942 3205 3 chr5D.!!$R1 2263
6 TraesCS5B01G209200 chr5D 326401806 326405056 3250 False 1002.50 2063 88.916500 1 3276 4 chr5D.!!$F1 3275
7 TraesCS5B01G209200 chr5A 109291661 109292623 962 False 1659.00 1659 97.824000 3279 4238 1 chr5A.!!$F1 959
8 TraesCS5B01G209200 chr5A 430041485 430043684 2199 False 1487.00 1886 91.119500 946 3201 2 chr5A.!!$F2 2255
9 TraesCS5B01G209200 chr5A 429995919 430000221 4302 True 1068.25 2030 91.684750 1 3279 4 chr5A.!!$R2 3278
10 TraesCS5B01G209200 chr5A 419829959 419830892 933 True 913.00 913 84.468000 1047 1977 1 chr5A.!!$R1 930
11 TraesCS5B01G209200 chr2B 615442541 615443533 992 False 1731.00 1731 98.191000 3276 4265 1 chr2B.!!$F1 989
12 TraesCS5B01G209200 chr2B 154505235 154506223 988 True 1707.00 1707 97.883000 3280 4265 1 chr2B.!!$R1 985
13 TraesCS5B01G209200 chr2B 483662335 483663325 990 True 1705.00 1705 97.784000 3278 4265 1 chr2B.!!$R2 987
14 TraesCS5B01G209200 chr2B 744554773 744555759 986 False 1696.00 1696 97.681000 3279 4265 1 chr2B.!!$F3 986
15 TraesCS5B01G209200 chr2B 641193378 641194304 926 False 839.00 839 83.067000 1044 1978 1 chr2B.!!$F2 934
16 TraesCS5B01G209200 chr3B 767686356 767687340 984 True 1679.00 1679 97.470000 3283 4265 1 chr3B.!!$R1 982
17 TraesCS5B01G209200 chr7B 164740889 164741881 992 False 1648.00 1648 96.690000 3276 4265 1 chr7B.!!$F1 989
18 TraesCS5B01G209200 chr2D 538597492 538598418 926 False 872.00 872 83.706000 1044 1978 1 chr2D.!!$F2 934
19 TraesCS5B01G209200 chr2A 680548122 680549048 926 False 822.00 822 82.748000 1044 1978 1 chr2A.!!$F1 934
20 TraesCS5B01G209200 chr1B 52293653 52294472 819 False 789.00 789 84.010000 1137 1974 1 chr1B.!!$F1 837
21 TraesCS5B01G209200 chr7D 13697592 13698302 710 True 453.00 453 78.464000 1134 1854 1 chr7D.!!$R1 720

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
739 2031 0.037882 CCGATGATCCTGCGCTGTAT 60.038 55.000 9.73 0.00 0.00 2.29 F
812 2104 0.181587 TCTCAGCACGTTTTCCCCAA 59.818 50.000 0.00 0.00 0.00 4.12 F
888 2183 1.373435 CTACTTTCCCACCACGCCA 59.627 57.895 0.00 0.00 0.00 5.69 F
1014 2309 1.450848 CACAGCCACCTGCATCGAT 60.451 57.895 0.00 0.00 43.02 3.59 F
1029 2334 2.029666 GATCTGATCACCCGGCCG 59.970 66.667 21.04 21.04 0.00 6.13 F
2645 4319 2.227194 GGTCACCGAAAAGGACATGTT 58.773 47.619 0.00 0.00 45.00 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2488 4162 0.251916 CCGGCAATGAGGTCCTACAA 59.748 55.000 0.00 0.00 0.00 2.41 R
2648 4322 1.922447 TGGCATCCACATAAGGAAGGT 59.078 47.619 0.00 0.00 41.92 3.50 R
2821 4495 2.047179 GAACTCCTCCGGCGCTTT 60.047 61.111 7.64 0.00 0.00 3.51 R
2916 4590 0.488220 TATACCCGGGGCACATCCTA 59.512 55.000 27.92 5.41 34.39 2.94 R
3039 4713 3.862063 CTTGCGTGGCGTTGACAGC 62.862 63.158 0.00 0.00 0.00 4.40 R
3621 5305 1.344114 GGCCTGTTCCAGCAAATTTGA 59.656 47.619 22.31 0.00 0.00 2.69 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
61 62 1.644786 GACGCATCTCCCCGGTTTTG 61.645 60.000 0.00 0.00 0.00 2.44
76 77 3.126858 CGGTTTTGCAGCTAGCTTAATCA 59.873 43.478 16.46 8.04 45.94 2.57
129 134 2.912967 GCGATTGTGCATTGAGAAACAG 59.087 45.455 0.00 0.00 34.15 3.16
158 163 1.748879 GCAAGAAGTGGCCGGCATA 60.749 57.895 30.85 14.39 0.00 3.14
170 175 1.065491 GCCGGCATATGGTATGATGGA 60.065 52.381 24.80 0.00 0.00 3.41
171 176 2.421952 GCCGGCATATGGTATGATGGAT 60.422 50.000 24.80 0.00 0.00 3.41
172 177 3.889815 CCGGCATATGGTATGATGGATT 58.110 45.455 4.56 0.00 0.00 3.01
173 178 3.628942 CCGGCATATGGTATGATGGATTG 59.371 47.826 4.56 0.00 0.00 2.67
174 179 4.264253 CGGCATATGGTATGATGGATTGT 58.736 43.478 4.56 0.00 0.00 2.71
175 180 5.427378 CGGCATATGGTATGATGGATTGTA 58.573 41.667 4.56 0.00 0.00 2.41
176 181 5.879777 CGGCATATGGTATGATGGATTGTAA 59.120 40.000 4.56 0.00 0.00 2.41
177 182 6.037500 CGGCATATGGTATGATGGATTGTAAG 59.962 42.308 4.56 0.00 0.00 2.34
178 183 6.183360 GGCATATGGTATGATGGATTGTAAGC 60.183 42.308 4.56 0.00 0.00 3.09
179 184 6.183360 GCATATGGTATGATGGATTGTAAGCC 60.183 42.308 4.56 0.00 34.32 4.35
180 185 5.589367 ATGGTATGATGGATTGTAAGCCT 57.411 39.130 0.23 0.00 34.95 4.58
183 188 5.104151 TGGTATGATGGATTGTAAGCCTTGA 60.104 40.000 0.23 0.00 34.95 3.02
184 189 5.827797 GGTATGATGGATTGTAAGCCTTGAA 59.172 40.000 0.23 0.00 34.95 2.69
185 190 5.841957 ATGATGGATTGTAAGCCTTGAAC 57.158 39.130 0.23 0.00 34.95 3.18
186 191 4.016444 TGATGGATTGTAAGCCTTGAACC 58.984 43.478 0.23 0.00 34.95 3.62
187 192 2.432444 TGGATTGTAAGCCTTGAACCG 58.568 47.619 0.23 0.00 34.95 4.44
188 193 1.743394 GGATTGTAAGCCTTGAACCGG 59.257 52.381 0.00 0.00 0.00 5.28
189 194 1.743394 GATTGTAAGCCTTGAACCGGG 59.257 52.381 6.32 0.00 0.00 5.73
190 195 0.766131 TTGTAAGCCTTGAACCGGGA 59.234 50.000 6.32 0.00 0.00 5.14
207 212 1.355210 GAAACGTGTGTGCAGTGGG 59.645 57.895 0.00 0.00 0.00 4.61
213 218 2.281761 GTGTGCAGTGGGGTCTGG 60.282 66.667 0.00 0.00 36.12 3.86
227 232 0.465097 GTCTGGACCATGATGGCCTG 60.465 60.000 20.41 19.51 42.67 4.85
228 233 0.621280 TCTGGACCATGATGGCCTGA 60.621 55.000 21.44 21.44 42.67 3.86
229 234 0.477204 CTGGACCATGATGGCCTGAT 59.523 55.000 20.41 0.00 42.67 2.90
230 235 0.184211 TGGACCATGATGGCCTGATG 59.816 55.000 20.41 3.15 42.67 3.07
231 236 0.184451 GGACCATGATGGCCTGATGT 59.816 55.000 12.25 0.00 42.67 3.06
232 237 1.421268 GGACCATGATGGCCTGATGTA 59.579 52.381 12.25 0.00 42.67 2.29
233 238 2.551721 GGACCATGATGGCCTGATGTAG 60.552 54.545 12.25 0.00 42.67 2.74
235 240 3.317406 ACCATGATGGCCTGATGTAGTA 58.683 45.455 12.25 0.00 42.67 1.82
236 241 3.912528 ACCATGATGGCCTGATGTAGTAT 59.087 43.478 12.25 0.00 42.67 2.12
237 242 4.019860 ACCATGATGGCCTGATGTAGTATC 60.020 45.833 12.25 0.00 42.67 2.24
238 243 3.942130 TGATGGCCTGATGTAGTATCG 57.058 47.619 3.32 0.00 0.00 2.92
239 244 3.230976 TGATGGCCTGATGTAGTATCGT 58.769 45.455 3.32 0.00 0.00 3.73
240 245 3.255888 TGATGGCCTGATGTAGTATCGTC 59.744 47.826 3.32 0.00 0.00 4.20
241 246 2.945456 TGGCCTGATGTAGTATCGTCT 58.055 47.619 3.32 0.00 0.00 4.18
242 247 2.623416 TGGCCTGATGTAGTATCGTCTG 59.377 50.000 3.32 0.00 0.00 3.51
243 248 2.608261 GGCCTGATGTAGTATCGTCTGC 60.608 54.545 0.00 0.00 0.00 4.26
244 249 2.034685 GCCTGATGTAGTATCGTCTGCA 59.965 50.000 0.00 0.00 34.88 4.41
245 250 3.633235 CCTGATGTAGTATCGTCTGCAC 58.367 50.000 0.00 0.00 33.40 4.57
246 251 3.551046 CCTGATGTAGTATCGTCTGCACC 60.551 52.174 0.00 0.00 33.40 5.01
247 252 3.020984 TGATGTAGTATCGTCTGCACCA 58.979 45.455 0.00 0.00 33.40 4.17
248 253 3.636764 TGATGTAGTATCGTCTGCACCAT 59.363 43.478 0.00 0.00 33.40 3.55
249 254 3.436700 TGTAGTATCGTCTGCACCATG 57.563 47.619 0.00 0.00 0.00 3.66
250 255 3.020984 TGTAGTATCGTCTGCACCATGA 58.979 45.455 0.00 0.00 0.00 3.07
251 256 2.879002 AGTATCGTCTGCACCATGAG 57.121 50.000 0.00 0.00 0.00 2.90
252 257 1.410517 AGTATCGTCTGCACCATGAGG 59.589 52.381 0.00 0.00 42.21 3.86
255 260 2.439156 GTCTGCACCATGAGGCCC 60.439 66.667 0.00 0.00 39.06 5.80
322 329 1.674322 CTTGTCGGATTTGCCCCGT 60.674 57.895 0.00 0.00 46.53 5.28
326 333 0.315886 GTCGGATTTGCCCCGTTTTT 59.684 50.000 0.00 0.00 46.53 1.94
339 346 2.752354 CCCGTTTTTATGCCTGATGTGA 59.248 45.455 0.00 0.00 0.00 3.58
351 358 2.159612 CCTGATGTGATGTGTTTGCTCG 60.160 50.000 0.00 0.00 0.00 5.03
398 412 4.036616 ACCACGTACAACAACCAAAATACC 59.963 41.667 0.00 0.00 0.00 2.73
406 523 6.418946 ACAACAACCAAAATACCACCAAATT 58.581 32.000 0.00 0.00 0.00 1.82
411 528 5.304778 ACCAAAATACCACCAAATTTCTGC 58.695 37.500 0.00 0.00 0.00 4.26
415 532 1.341080 ACCACCAAATTTCTGCCAGG 58.659 50.000 0.00 0.00 0.00 4.45
427 544 3.480133 GCCAGGGCGTCCATACCT 61.480 66.667 9.71 0.00 34.83 3.08
481 608 8.116026 AGGGTGAAATGGAAATAGTTGAATACT 58.884 33.333 0.00 0.00 41.04 2.12
482 609 8.749354 GGGTGAAATGGAAATAGTTGAATACTT 58.251 33.333 0.00 0.00 38.33 2.24
488 615 8.911247 ATGGAAATAGTTGAATACTTTTTCGC 57.089 30.769 11.79 7.77 46.81 4.70
489 616 8.106247 TGGAAATAGTTGAATACTTTTTCGCT 57.894 30.769 11.79 0.00 46.81 4.93
490 617 9.221933 TGGAAATAGTTGAATACTTTTTCGCTA 57.778 29.630 11.79 0.00 46.81 4.26
491 618 9.486857 GGAAATAGTTGAATACTTTTTCGCTAC 57.513 33.333 11.79 0.00 46.81 3.58
514 641 1.303317 AAGCGAAAACGGGCTGGAT 60.303 52.632 0.00 0.00 39.93 3.41
517 644 1.305930 GCGAAAACGGGCTGGATTCT 61.306 55.000 0.00 0.00 0.00 2.40
532 659 7.503902 GGGCTGGATTCTTAGAATAAACTGAAT 59.496 37.037 7.52 0.00 0.00 2.57
533 660 9.561069 GGCTGGATTCTTAGAATAAACTGAATA 57.439 33.333 7.52 0.00 0.00 1.75
543 670 7.631717 AGAATAAACTGAATACAGAAAGGGC 57.368 36.000 0.00 0.00 46.03 5.19
544 671 7.406104 AGAATAAACTGAATACAGAAAGGGCT 58.594 34.615 0.00 0.00 46.03 5.19
545 672 7.890655 AGAATAAACTGAATACAGAAAGGGCTT 59.109 33.333 0.00 0.00 46.03 4.35
546 673 8.422577 AATAAACTGAATACAGAAAGGGCTTT 57.577 30.769 0.00 0.00 46.03 3.51
547 674 6.731292 AAACTGAATACAGAAAGGGCTTTT 57.269 33.333 0.00 0.00 46.03 2.27
548 675 6.731292 AACTGAATACAGAAAGGGCTTTTT 57.269 33.333 0.00 0.00 46.03 1.94
574 701 2.936823 AGGATTACCCTGGCCTCTG 58.063 57.895 3.32 0.00 45.61 3.35
575 702 1.149401 GGATTACCCTGGCCTCTGC 59.851 63.158 3.32 0.00 0.00 4.26
576 703 1.635817 GGATTACCCTGGCCTCTGCA 61.636 60.000 3.32 0.00 40.13 4.41
577 704 0.475906 GATTACCCTGGCCTCTGCAT 59.524 55.000 3.32 0.00 40.13 3.96
578 705 0.475906 ATTACCCTGGCCTCTGCATC 59.524 55.000 3.32 0.00 40.13 3.91
579 706 0.621571 TTACCCTGGCCTCTGCATCT 60.622 55.000 3.32 0.00 40.13 2.90
580 707 0.264657 TACCCTGGCCTCTGCATCTA 59.735 55.000 3.32 0.00 40.13 1.98
581 708 0.621571 ACCCTGGCCTCTGCATCTAA 60.622 55.000 3.32 0.00 40.13 2.10
582 709 0.548031 CCCTGGCCTCTGCATCTAAA 59.452 55.000 3.32 0.00 40.13 1.85
583 710 1.144503 CCCTGGCCTCTGCATCTAAAT 59.855 52.381 3.32 0.00 40.13 1.40
584 711 2.228059 CCTGGCCTCTGCATCTAAATG 58.772 52.381 3.32 0.00 40.13 2.32
585 712 2.158711 CCTGGCCTCTGCATCTAAATGA 60.159 50.000 3.32 0.00 40.13 2.57
586 713 3.498121 CCTGGCCTCTGCATCTAAATGAT 60.498 47.826 3.32 0.00 40.13 2.45
595 722 2.592194 CATCTAAATGATGCATGCGGC 58.408 47.619 14.09 7.96 44.96 6.53
596 723 0.953727 TCTAAATGATGCATGCGGCC 59.046 50.000 14.09 5.01 43.89 6.13
597 724 0.669619 CTAAATGATGCATGCGGCCA 59.330 50.000 14.09 10.90 43.89 5.36
598 725 1.271379 CTAAATGATGCATGCGGCCAT 59.729 47.619 14.09 12.74 43.89 4.40
599 726 0.466543 AAATGATGCATGCGGCCATT 59.533 45.000 19.62 19.62 43.89 3.16
600 727 0.466543 AATGATGCATGCGGCCATTT 59.533 45.000 19.62 5.67 43.89 2.32
601 728 0.466543 ATGATGCATGCGGCCATTTT 59.533 45.000 14.09 0.00 43.89 1.82
602 729 1.109609 TGATGCATGCGGCCATTTTA 58.890 45.000 14.09 0.00 43.89 1.52
603 730 1.687660 TGATGCATGCGGCCATTTTAT 59.312 42.857 14.09 0.00 43.89 1.40
604 731 2.102757 TGATGCATGCGGCCATTTTATT 59.897 40.909 14.09 0.00 43.89 1.40
605 732 3.320256 TGATGCATGCGGCCATTTTATTA 59.680 39.130 14.09 0.00 43.89 0.98
606 733 3.367992 TGCATGCGGCCATTTTATTAG 57.632 42.857 14.09 0.00 43.89 1.73
607 734 2.954989 TGCATGCGGCCATTTTATTAGA 59.045 40.909 14.09 0.00 43.89 2.10
608 735 3.382865 TGCATGCGGCCATTTTATTAGAA 59.617 39.130 14.09 0.00 43.89 2.10
609 736 4.142071 TGCATGCGGCCATTTTATTAGAAA 60.142 37.500 14.09 0.00 43.89 2.52
610 737 4.808364 GCATGCGGCCATTTTATTAGAAAA 59.192 37.500 0.00 0.00 36.11 2.29
649 1937 6.126652 TGGATCTGCTTAAAGATAGCCTTTCT 60.127 38.462 0.00 0.00 43.61 2.52
650 1938 6.426633 GGATCTGCTTAAAGATAGCCTTTCTC 59.573 42.308 0.00 0.00 43.61 2.87
669 1957 5.689383 TCTCAGACAAAAACATAGCCAAC 57.311 39.130 0.00 0.00 0.00 3.77
673 1961 6.215121 TCAGACAAAAACATAGCCAACATTG 58.785 36.000 0.00 0.00 0.00 2.82
676 1964 7.224362 CAGACAAAAACATAGCCAACATTGAAA 59.776 33.333 0.00 0.00 0.00 2.69
677 1965 7.439056 AGACAAAAACATAGCCAACATTGAAAG 59.561 33.333 0.00 0.00 0.00 2.62
709 2001 6.183359 CGTGCATGTTTAGTTGCTAAATTCAC 60.183 38.462 0.00 8.80 38.07 3.18
712 2004 8.020819 TGCATGTTTAGTTGCTAAATTCACTAC 58.979 33.333 4.88 0.00 38.07 2.73
722 2014 5.985530 TGCTAAATTCACTACTCATGATCCG 59.014 40.000 0.00 0.00 0.00 4.18
730 2022 4.462132 CACTACTCATGATCCGATGATCCT 59.538 45.833 0.00 0.00 45.74 3.24
734 2026 0.390866 ATGATCCGATGATCCTGCGC 60.391 55.000 0.00 0.00 45.74 6.09
735 2027 1.291588 GATCCGATGATCCTGCGCT 59.708 57.895 9.73 0.00 41.37 5.92
736 2028 1.005275 ATCCGATGATCCTGCGCTG 60.005 57.895 9.73 8.47 0.00 5.18
737 2029 1.752358 ATCCGATGATCCTGCGCTGT 61.752 55.000 9.73 0.00 0.00 4.40
738 2030 1.106944 TCCGATGATCCTGCGCTGTA 61.107 55.000 9.73 0.00 0.00 2.74
739 2031 0.037882 CCGATGATCCTGCGCTGTAT 60.038 55.000 9.73 0.00 0.00 2.29
740 2032 1.066136 CGATGATCCTGCGCTGTATG 58.934 55.000 9.73 0.00 0.00 2.39
741 2033 0.795085 GATGATCCTGCGCTGTATGC 59.205 55.000 9.73 0.00 38.57 3.14
742 2034 0.604780 ATGATCCTGCGCTGTATGCC 60.605 55.000 9.73 0.00 38.78 4.40
769 2061 5.443185 TGTATACACCGCCTATAGTGAAC 57.557 43.478 0.08 0.00 37.43 3.18
777 2069 3.119101 CCGCCTATAGTGAACTCTGTTGT 60.119 47.826 0.00 0.00 0.00 3.32
798 2090 3.309961 TGAGCAGCAGTAAACTCTCAG 57.690 47.619 0.00 0.00 0.00 3.35
812 2104 0.181587 TCTCAGCACGTTTTCCCCAA 59.818 50.000 0.00 0.00 0.00 4.12
887 2182 1.376812 CCTACTTTCCCACCACGCC 60.377 63.158 0.00 0.00 0.00 5.68
888 2183 1.373435 CTACTTTCCCACCACGCCA 59.627 57.895 0.00 0.00 0.00 5.69
992 2287 3.563390 GCTCAAGCTTGAAGACTTCACTT 59.437 43.478 28.16 14.82 39.87 3.16
1014 2309 1.450848 CACAGCCACCTGCATCGAT 60.451 57.895 0.00 0.00 43.02 3.59
1029 2334 2.029666 GATCTGATCACCCGGCCG 59.970 66.667 21.04 21.04 0.00 6.13
1119 2428 2.697654 CTCTTCTTCAAGGCTGTCCTG 58.302 52.381 0.00 0.00 43.40 3.86
1995 3316 4.870426 GTGAGTGCTACTGCTATTGCTTTA 59.130 41.667 0.00 0.00 40.48 1.85
2026 3347 8.080417 CCTGCACTGAATCTGAATTAATTATGG 58.920 37.037 0.00 0.00 0.00 2.74
2102 3761 5.352284 ACAAGTATCATCGTTCTAAGCAGG 58.648 41.667 0.00 0.00 0.00 4.85
2143 3803 2.263077 GTCCTGTTGCTATCGTCTGTG 58.737 52.381 0.00 0.00 0.00 3.66
2175 3835 7.432838 GGTCTAAGCGAGTCAGACTTTAATAAG 59.567 40.741 4.05 0.00 38.95 1.73
2198 3859 5.072872 AGTCCATTATCTGAATTCTGGGGAG 59.927 44.000 11.89 0.00 0.00 4.30
2317 3985 5.106197 CCCTCAAATTCAATCGTGACATTGA 60.106 40.000 6.42 6.42 40.36 2.57
2321 3989 7.022979 TCAAATTCAATCGTGACATTGACATC 58.977 34.615 9.04 0.00 41.52 3.06
2348 4016 8.829612 CATGTAGATAATGCACACAGTTGATAA 58.170 33.333 0.00 0.00 0.00 1.75
2357 4025 9.577110 AATGCACACAGTTGATAAAAATAGATG 57.423 29.630 0.00 0.00 0.00 2.90
2441 4115 6.818644 AGTATCACTCATTTACACATCACCAC 59.181 38.462 0.00 0.00 0.00 4.16
2469 4143 2.848887 CGAGTTCTCACACTAATCAGCG 59.151 50.000 0.79 0.00 0.00 5.18
2482 4156 3.383620 AATCAGCGCCATTTTGAAACA 57.616 38.095 2.29 0.00 0.00 2.83
2488 4162 2.406130 CGCCATTTTGAAACATGCACT 58.594 42.857 0.00 0.00 0.00 4.40
2511 4185 4.778143 GACCTCATTGCCGGCGGT 62.778 66.667 28.82 22.39 0.00 5.68
2645 4319 2.227194 GGTCACCGAAAAGGACATGTT 58.773 47.619 0.00 0.00 45.00 2.71
2648 4322 3.314080 GTCACCGAAAAGGACATGTTGAA 59.686 43.478 0.00 0.00 45.00 2.69
2655 4329 3.884037 AAGGACATGTTGAACCTTCCT 57.116 42.857 10.08 2.14 34.70 3.36
2670 4344 3.052642 ACCTTCCTTATGTGGATGCCATT 60.053 43.478 0.00 0.00 35.28 3.16
2821 4495 2.741092 GCGACCCAGAGTTGTGGA 59.259 61.111 0.00 0.00 40.44 4.02
2967 4641 3.769844 TGAAGGTGATCCAGGTAAGTCTC 59.230 47.826 0.00 0.00 35.89 3.36
3039 4713 0.034616 GCATGGAGGAGATCTTCGGG 59.965 60.000 0.00 0.00 0.00 5.14
3122 4796 2.061773 CTACGCCGAGGCTTGAATATG 58.938 52.381 12.70 0.00 39.32 1.78
3230 4908 1.509463 CATGTGTGCCCTCATGTGC 59.491 57.895 3.41 0.00 37.64 4.57
3453 5137 3.479203 CTCCCCGCTGCCATGGTA 61.479 66.667 14.67 8.24 0.00 3.25
3512 5196 1.078918 CGTTCAGCAGATCTGGCCA 60.079 57.895 23.89 4.71 43.06 5.36
3679 5363 1.593196 TGACAGGAAAGCTTCAACCG 58.407 50.000 0.00 3.98 0.00 4.44
3892 5578 4.335416 CATAGAGGGGAAAAGCTTCAACA 58.665 43.478 0.00 0.00 32.75 3.33
3971 5658 0.677288 CATCCATTCATGCGGCCATT 59.323 50.000 2.24 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 62 6.259608 TCAAAAGATCTGATTAAGCTAGCTGC 59.740 38.462 20.16 9.00 43.29 5.25
76 77 3.813443 CCGGATGGTGATCAAAAGATCT 58.187 45.455 0.00 0.00 33.01 2.75
90 91 1.264020 CGCATACATTTCACCGGATGG 59.736 52.381 9.46 0.00 42.84 3.51
92 93 2.613026 TCGCATACATTTCACCGGAT 57.387 45.000 9.46 0.00 0.00 4.18
129 134 1.471684 CACTTCTTGCATCCAGCCTTC 59.528 52.381 0.00 0.00 44.83 3.46
158 163 5.589367 AGGCTTACAATCCATCATACCAT 57.411 39.130 0.00 0.00 0.00 3.55
170 175 1.353022 TCCCGGTTCAAGGCTTACAAT 59.647 47.619 0.00 0.00 0.00 2.71
171 176 0.766131 TCCCGGTTCAAGGCTTACAA 59.234 50.000 0.00 0.00 0.00 2.41
172 177 0.766131 TTCCCGGTTCAAGGCTTACA 59.234 50.000 0.00 0.00 0.00 2.41
173 178 1.538512 GTTTCCCGGTTCAAGGCTTAC 59.461 52.381 0.00 0.00 0.00 2.34
174 179 1.878948 CGTTTCCCGGTTCAAGGCTTA 60.879 52.381 0.00 0.00 0.00 3.09
175 180 1.170290 CGTTTCCCGGTTCAAGGCTT 61.170 55.000 0.00 0.00 0.00 4.35
176 181 1.599797 CGTTTCCCGGTTCAAGGCT 60.600 57.895 0.00 0.00 0.00 4.58
177 182 1.895231 ACGTTTCCCGGTTCAAGGC 60.895 57.895 0.00 0.00 42.24 4.35
178 183 0.816421 ACACGTTTCCCGGTTCAAGG 60.816 55.000 0.00 0.00 42.24 3.61
179 184 0.306533 CACACGTTTCCCGGTTCAAG 59.693 55.000 0.00 0.00 42.24 3.02
180 185 0.392729 ACACACGTTTCCCGGTTCAA 60.393 50.000 0.00 0.00 42.24 2.69
183 188 2.474612 GCACACACGTTTCCCGGTT 61.475 57.895 0.00 0.00 42.24 4.44
184 189 2.898343 GCACACACGTTTCCCGGT 60.898 61.111 0.00 0.00 42.24 5.28
185 190 2.892334 CTGCACACACGTTTCCCGG 61.892 63.158 0.00 0.00 42.24 5.73
186 191 2.177580 ACTGCACACACGTTTCCCG 61.178 57.895 0.00 0.00 44.03 5.14
187 192 1.355210 CACTGCACACACGTTTCCC 59.645 57.895 0.00 0.00 0.00 3.97
188 193 1.355210 CCACTGCACACACGTTTCC 59.645 57.895 0.00 0.00 0.00 3.13
189 194 1.355210 CCCACTGCACACACGTTTC 59.645 57.895 0.00 0.00 0.00 2.78
190 195 2.118404 CCCCACTGCACACACGTTT 61.118 57.895 0.00 0.00 0.00 3.60
207 212 1.639635 AGGCCATCATGGTCCAGACC 61.640 60.000 16.75 10.02 45.08 3.85
213 218 2.105477 ACTACATCAGGCCATCATGGTC 59.895 50.000 5.01 0.00 44.07 4.02
224 229 3.551046 GGTGCAGACGATACTACATCAGG 60.551 52.174 0.00 0.00 0.00 3.86
227 232 3.710326 TGGTGCAGACGATACTACATC 57.290 47.619 0.00 0.00 0.00 3.06
228 233 3.636764 TCATGGTGCAGACGATACTACAT 59.363 43.478 0.00 0.00 0.00 2.29
229 234 3.020984 TCATGGTGCAGACGATACTACA 58.979 45.455 0.00 0.00 0.00 2.74
230 235 3.551046 CCTCATGGTGCAGACGATACTAC 60.551 52.174 0.00 0.00 0.00 2.73
231 236 2.623416 CCTCATGGTGCAGACGATACTA 59.377 50.000 0.00 0.00 0.00 1.82
232 237 1.410517 CCTCATGGTGCAGACGATACT 59.589 52.381 0.00 0.00 0.00 2.12
233 238 1.858091 CCTCATGGTGCAGACGATAC 58.142 55.000 0.00 0.00 0.00 2.24
235 240 1.153289 GCCTCATGGTGCAGACGAT 60.153 57.895 0.00 0.00 35.27 3.73
236 241 2.265739 GCCTCATGGTGCAGACGA 59.734 61.111 0.00 0.00 35.27 4.20
237 242 2.821366 GGCCTCATGGTGCAGACG 60.821 66.667 0.00 0.00 35.27 4.18
238 243 2.439156 GGGCCTCATGGTGCAGAC 60.439 66.667 0.84 0.00 35.27 3.51
239 244 2.611800 AGGGCCTCATGGTGCAGA 60.612 61.111 0.00 0.00 35.27 4.26
240 245 2.124403 GAGGGCCTCATGGTGCAG 60.124 66.667 28.55 0.00 35.27 4.41
241 246 2.611800 AGAGGGCCTCATGGTGCA 60.612 61.111 33.86 0.00 35.27 4.57
242 247 2.191641 GAGAGGGCCTCATGGTGC 59.808 66.667 33.86 12.61 41.58 5.01
243 248 2.914289 GGAGAGGGCCTCATGGTG 59.086 66.667 33.86 0.00 43.76 4.17
244 249 2.765807 CGGAGAGGGCCTCATGGT 60.766 66.667 33.86 14.75 43.76 3.55
245 250 2.765807 ACGGAGAGGGCCTCATGG 60.766 66.667 33.86 23.00 43.76 3.66
246 251 2.362369 ACACGGAGAGGGCCTCATG 61.362 63.158 33.86 25.61 43.76 3.07
247 252 2.039624 ACACGGAGAGGGCCTCAT 59.960 61.111 33.86 19.46 43.76 2.90
248 253 2.997315 CACACGGAGAGGGCCTCA 60.997 66.667 33.86 0.00 43.76 3.86
249 254 3.775654 CCACACGGAGAGGGCCTC 61.776 72.222 26.42 26.42 41.22 4.70
255 260 1.153489 CTGATGGCCACACGGAGAG 60.153 63.158 8.16 0.00 0.00 3.20
321 328 5.713025 ACACATCACATCAGGCATAAAAAC 58.287 37.500 0.00 0.00 0.00 2.43
322 329 5.981088 ACACATCACATCAGGCATAAAAA 57.019 34.783 0.00 0.00 0.00 1.94
326 333 3.129113 GCAAACACATCACATCAGGCATA 59.871 43.478 0.00 0.00 0.00 3.14
339 346 2.005451 GCATCTCTCGAGCAAACACAT 58.995 47.619 7.81 0.00 0.00 3.21
372 386 3.540314 TTGGTTGTTGTACGTGGTACT 57.460 42.857 0.00 0.00 39.49 2.73
373 387 4.612932 TTTTGGTTGTTGTACGTGGTAC 57.387 40.909 0.00 0.00 39.24 3.34
374 388 5.238214 GGTATTTTGGTTGTTGTACGTGGTA 59.762 40.000 0.00 0.00 0.00 3.25
375 389 4.036616 GGTATTTTGGTTGTTGTACGTGGT 59.963 41.667 0.00 0.00 0.00 4.16
376 390 4.036498 TGGTATTTTGGTTGTTGTACGTGG 59.964 41.667 0.00 0.00 0.00 4.94
398 412 0.037046 GCCCTGGCAGAAATTTGGTG 60.037 55.000 17.94 0.00 41.49 4.17
406 523 1.992834 TATGGACGCCCTGGCAGAA 60.993 57.895 17.94 0.00 42.06 3.02
411 528 1.410850 ATGAGGTATGGACGCCCTGG 61.411 60.000 0.00 0.00 0.00 4.45
439 556 3.117926 TCACCCTGTATGGACATTCATGG 60.118 47.826 10.23 10.23 38.35 3.66
487 614 2.505866 CCGTTTTCGCTTGATTGTAGC 58.494 47.619 0.00 0.00 42.58 3.58
488 615 2.727916 GCCCGTTTTCGCTTGATTGTAG 60.728 50.000 0.00 0.00 42.58 2.74
489 616 1.198178 GCCCGTTTTCGCTTGATTGTA 59.802 47.619 0.00 0.00 42.58 2.41
490 617 0.039527 GCCCGTTTTCGCTTGATTGT 60.040 50.000 0.00 0.00 42.58 2.71
491 618 0.240945 AGCCCGTTTTCGCTTGATTG 59.759 50.000 0.00 0.00 42.58 2.67
500 627 3.606687 TCTAAGAATCCAGCCCGTTTTC 58.393 45.455 0.00 0.00 0.00 2.29
505 632 5.237344 CAGTTTATTCTAAGAATCCAGCCCG 59.763 44.000 0.00 0.00 0.00 6.13
506 633 6.357367 TCAGTTTATTCTAAGAATCCAGCCC 58.643 40.000 0.00 0.00 0.00 5.19
517 644 9.174166 GCCCTTTCTGTATTCAGTTTATTCTAA 57.826 33.333 0.00 0.00 41.91 2.10
545 672 6.780522 GGCCAGGGTAATCCTCATTATAAAAA 59.219 38.462 0.00 0.00 46.12 1.94
546 673 6.104094 AGGCCAGGGTAATCCTCATTATAAAA 59.896 38.462 5.01 0.00 46.12 1.52
547 674 5.615261 AGGCCAGGGTAATCCTCATTATAAA 59.385 40.000 5.01 0.00 46.12 1.40
548 675 5.170198 AGGCCAGGGTAATCCTCATTATAA 58.830 41.667 5.01 0.00 46.12 0.98
549 676 4.774779 AGGCCAGGGTAATCCTCATTATA 58.225 43.478 5.01 0.00 46.12 0.98
550 677 3.589288 GAGGCCAGGGTAATCCTCATTAT 59.411 47.826 5.01 0.00 46.12 1.28
551 678 2.979678 GAGGCCAGGGTAATCCTCATTA 59.020 50.000 5.01 0.00 46.12 1.90
552 679 1.777272 GAGGCCAGGGTAATCCTCATT 59.223 52.381 5.01 0.00 46.12 2.57
553 680 1.061033 AGAGGCCAGGGTAATCCTCAT 60.061 52.381 5.01 0.00 46.12 2.90
554 681 0.343372 AGAGGCCAGGGTAATCCTCA 59.657 55.000 5.01 0.00 46.12 3.86
555 682 0.761802 CAGAGGCCAGGGTAATCCTC 59.238 60.000 5.01 2.46 46.12 3.71
557 684 1.149401 GCAGAGGCCAGGGTAATCC 59.851 63.158 5.01 0.00 0.00 3.01
558 685 0.475906 ATGCAGAGGCCAGGGTAATC 59.524 55.000 5.01 0.00 40.13 1.75
559 686 0.475906 GATGCAGAGGCCAGGGTAAT 59.524 55.000 5.01 0.00 40.13 1.89
560 687 0.621571 AGATGCAGAGGCCAGGGTAA 60.622 55.000 5.01 0.00 40.13 2.85
561 688 0.264657 TAGATGCAGAGGCCAGGGTA 59.735 55.000 5.01 0.00 40.13 3.69
562 689 0.621571 TTAGATGCAGAGGCCAGGGT 60.622 55.000 5.01 0.00 40.13 4.34
563 690 0.548031 TTTAGATGCAGAGGCCAGGG 59.452 55.000 5.01 0.00 40.13 4.45
564 691 2.158711 TCATTTAGATGCAGAGGCCAGG 60.159 50.000 5.01 0.00 40.13 4.45
565 692 3.204306 TCATTTAGATGCAGAGGCCAG 57.796 47.619 5.01 0.00 40.13 4.85
566 693 3.483421 CATCATTTAGATGCAGAGGCCA 58.517 45.455 5.01 0.00 46.90 5.36
576 703 1.542915 GGCCGCATGCATCATTTAGAT 59.457 47.619 19.57 0.00 43.89 1.98
577 704 0.953727 GGCCGCATGCATCATTTAGA 59.046 50.000 19.57 0.00 43.89 2.10
578 705 0.669619 TGGCCGCATGCATCATTTAG 59.330 50.000 19.57 0.00 43.89 1.85
579 706 1.330234 ATGGCCGCATGCATCATTTA 58.670 45.000 19.57 0.00 43.89 1.40
580 707 0.466543 AATGGCCGCATGCATCATTT 59.533 45.000 19.57 2.37 43.89 2.32
581 708 0.466543 AAATGGCCGCATGCATCATT 59.533 45.000 19.57 18.87 43.89 2.57
582 709 0.466543 AAAATGGCCGCATGCATCAT 59.533 45.000 19.57 14.21 43.89 2.45
583 710 1.109609 TAAAATGGCCGCATGCATCA 58.890 45.000 19.57 12.47 43.89 3.07
584 711 2.443887 ATAAAATGGCCGCATGCATC 57.556 45.000 19.57 8.10 43.89 3.91
585 712 2.914695 AATAAAATGGCCGCATGCAT 57.085 40.000 19.57 0.00 43.89 3.96
586 713 2.954989 TCTAATAAAATGGCCGCATGCA 59.045 40.909 19.57 0.00 43.89 3.96
587 714 3.641437 TCTAATAAAATGGCCGCATGC 57.359 42.857 7.91 7.91 40.16 4.06
588 715 7.651304 TGTATTTTCTAATAAAATGGCCGCATG 59.349 33.333 0.00 0.00 32.64 4.06
589 716 7.721402 TGTATTTTCTAATAAAATGGCCGCAT 58.279 30.769 0.00 0.00 32.64 4.73
590 717 7.067615 TCTGTATTTTCTAATAAAATGGCCGCA 59.932 33.333 0.00 0.00 32.64 5.69
591 718 7.422399 TCTGTATTTTCTAATAAAATGGCCGC 58.578 34.615 0.00 0.00 32.64 6.53
592 719 9.796120 TTTCTGTATTTTCTAATAAAATGGCCG 57.204 29.630 0.00 0.00 32.64 6.13
600 727 8.912988 CCATGCCCTTTCTGTATTTTCTAATAA 58.087 33.333 0.00 0.00 0.00 1.40
601 728 8.278639 TCCATGCCCTTTCTGTATTTTCTAATA 58.721 33.333 0.00 0.00 0.00 0.98
602 729 7.125391 TCCATGCCCTTTCTGTATTTTCTAAT 58.875 34.615 0.00 0.00 0.00 1.73
603 730 6.489603 TCCATGCCCTTTCTGTATTTTCTAA 58.510 36.000 0.00 0.00 0.00 2.10
604 731 6.073447 TCCATGCCCTTTCTGTATTTTCTA 57.927 37.500 0.00 0.00 0.00 2.10
605 732 4.934356 TCCATGCCCTTTCTGTATTTTCT 58.066 39.130 0.00 0.00 0.00 2.52
606 733 5.595952 AGATCCATGCCCTTTCTGTATTTTC 59.404 40.000 0.00 0.00 0.00 2.29
607 734 5.361857 CAGATCCATGCCCTTTCTGTATTTT 59.638 40.000 0.00 0.00 31.36 1.82
608 735 4.891756 CAGATCCATGCCCTTTCTGTATTT 59.108 41.667 0.00 0.00 31.36 1.40
609 736 4.467769 CAGATCCATGCCCTTTCTGTATT 58.532 43.478 0.00 0.00 31.36 1.89
610 737 3.749954 GCAGATCCATGCCCTTTCTGTAT 60.750 47.826 0.00 0.00 40.43 2.29
649 1937 6.040278 TCAATGTTGGCTATGTTTTTGTCTGA 59.960 34.615 0.00 0.00 0.00 3.27
650 1938 6.215121 TCAATGTTGGCTATGTTTTTGTCTG 58.785 36.000 0.00 0.00 0.00 3.51
673 1961 9.632969 CAACTAAACATGCACGTATATACTTTC 57.367 33.333 11.05 0.00 0.00 2.62
676 1964 6.984474 AGCAACTAAACATGCACGTATATACT 59.016 34.615 11.05 0.00 0.00 2.12
677 1965 7.173863 AGCAACTAAACATGCACGTATATAC 57.826 36.000 2.53 2.53 0.00 1.47
682 1970 5.926214 TTTAGCAACTAAACATGCACGTA 57.074 34.783 0.00 0.00 31.94 3.57
683 1971 4.822036 TTTAGCAACTAAACATGCACGT 57.178 36.364 0.00 0.00 31.94 4.49
722 2014 0.795085 GCATACAGCGCAGGATCATC 59.205 55.000 11.47 0.00 0.00 2.92
730 2022 4.854405 GTATACATACAGGCATACAGCGCA 60.854 45.833 11.47 0.00 37.38 6.09
734 2026 5.161358 CGGTGTATACATACAGGCATACAG 58.839 45.833 9.18 0.00 43.32 2.74
735 2027 4.559906 GCGGTGTATACATACAGGCATACA 60.560 45.833 9.18 0.00 43.32 2.29
736 2028 3.924686 GCGGTGTATACATACAGGCATAC 59.075 47.826 9.18 0.00 43.32 2.39
737 2029 3.056393 GGCGGTGTATACATACAGGCATA 60.056 47.826 9.18 0.00 43.32 3.14
738 2030 2.289444 GGCGGTGTATACATACAGGCAT 60.289 50.000 9.18 0.00 43.32 4.40
739 2031 1.069513 GGCGGTGTATACATACAGGCA 59.930 52.381 9.18 0.00 43.32 4.75
740 2032 1.343465 AGGCGGTGTATACATACAGGC 59.657 52.381 9.18 10.05 43.32 4.85
741 2033 5.651139 ACTATAGGCGGTGTATACATACAGG 59.349 44.000 9.18 0.00 43.32 4.00
742 2034 6.373495 TCACTATAGGCGGTGTATACATACAG 59.627 42.308 9.18 0.00 43.32 2.74
769 2061 1.590932 ACTGCTGCTCAACAACAGAG 58.409 50.000 0.00 0.00 43.86 3.35
777 2069 3.657634 CTGAGAGTTTACTGCTGCTCAA 58.342 45.455 0.00 0.00 32.65 3.02
798 2090 2.403259 CATTTCTTGGGGAAAACGTGC 58.597 47.619 0.00 0.00 45.56 5.34
812 2104 2.027745 ACTGATGCTGACGTCCATTTCT 60.028 45.455 14.12 0.00 0.00 2.52
846 2138 1.000607 GGCGGGAAAAGACTTGGAAAC 60.001 52.381 0.00 0.00 0.00 2.78
887 2182 2.480555 GAATGGAAGGTGCGCGTG 59.519 61.111 8.43 0.00 0.00 5.34
888 2183 2.746277 GGAATGGAAGGTGCGCGT 60.746 61.111 8.43 0.00 0.00 6.01
986 2281 0.250727 GGTGGCTGTGGCTAAGTGAA 60.251 55.000 0.00 0.00 38.73 3.18
992 2287 2.541547 GATGCAGGTGGCTGTGGCTA 62.542 60.000 0.00 0.00 45.15 3.93
1034 2343 0.319383 CTCCATTGGATCGAGGCGAG 60.319 60.000 5.70 0.00 39.91 5.03
1035 2344 1.742146 CTCCATTGGATCGAGGCGA 59.258 57.895 5.70 0.00 41.13 5.54
1036 2345 1.958205 GCTCCATTGGATCGAGGCG 60.958 63.158 5.70 0.00 0.00 5.52
1037 2346 0.179034 AAGCTCCATTGGATCGAGGC 60.179 55.000 5.70 5.81 0.00 4.70
1038 2347 1.542108 GGAAGCTCCATTGGATCGAGG 60.542 57.143 5.70 0.00 36.28 4.63
1039 2348 1.415659 AGGAAGCTCCATTGGATCGAG 59.584 52.381 5.70 0.00 39.61 4.04
1040 2349 1.414181 GAGGAAGCTCCATTGGATCGA 59.586 52.381 5.70 0.00 39.61 3.59
1041 2350 1.139654 TGAGGAAGCTCCATTGGATCG 59.860 52.381 5.70 0.00 39.61 3.69
1042 2351 2.848691 CTGAGGAAGCTCCATTGGATC 58.151 52.381 5.70 1.55 39.61 3.36
1995 3316 1.980765 TCAGATTCAGTGCAGGGAAGT 59.019 47.619 6.20 0.00 0.00 3.01
2026 3347 0.540454 GTGTAGGAGCAGGGGGTAAC 59.460 60.000 0.00 0.00 0.00 2.50
2030 3351 0.625849 ATTTGTGTAGGAGCAGGGGG 59.374 55.000 0.00 0.00 0.00 5.40
2102 3761 6.261826 AGGACATAATATGCTTGCTGTCTTTC 59.738 38.462 0.00 0.00 34.77 2.62
2143 3803 1.602851 TGACTCGCTTAGACCGATAGC 59.397 52.381 0.00 0.00 33.83 2.97
2175 3835 5.072329 TCTCCCCAGAATTCAGATAATGGAC 59.928 44.000 8.44 0.00 0.00 4.02
2189 3850 2.871796 ACCCCATTATTCTCCCCAGAA 58.128 47.619 0.00 0.00 43.06 3.02
2198 3859 4.892934 TGCCTATCAACAACCCCATTATTC 59.107 41.667 0.00 0.00 0.00 1.75
2317 3985 5.683681 TGTGTGCATTATCTACATGGATGT 58.316 37.500 0.00 0.00 44.48 3.06
2321 3989 5.585844 TCAACTGTGTGCATTATCTACATGG 59.414 40.000 0.00 0.00 0.00 3.66
2352 4020 8.882736 CAAGTAATTAACTGTGTGCATCATCTA 58.117 33.333 0.00 0.00 38.88 1.98
2354 4022 6.968904 CCAAGTAATTAACTGTGTGCATCATC 59.031 38.462 0.00 0.00 38.88 2.92
2357 4025 6.072728 TGACCAAGTAATTAACTGTGTGCATC 60.073 38.462 0.00 0.00 38.88 3.91
2390 4058 7.228507 TGCACACAGTTTATAGAATCAGTTGTT 59.771 33.333 0.00 0.00 0.00 2.83
2441 4115 6.308041 TGATTAGTGTGAGAACTCGAAATTCG 59.692 38.462 9.38 9.38 42.10 3.34
2469 4143 3.560896 ACAAGTGCATGTTTCAAAATGGC 59.439 39.130 0.00 0.00 0.00 4.40
2482 4156 3.614092 CAATGAGGTCCTACAAGTGCAT 58.386 45.455 0.00 0.00 0.00 3.96
2488 4162 0.251916 CCGGCAATGAGGTCCTACAA 59.748 55.000 0.00 0.00 0.00 2.41
2645 4319 3.620488 GCATCCACATAAGGAAGGTTCA 58.380 45.455 0.00 0.00 41.92 3.18
2648 4322 1.922447 TGGCATCCACATAAGGAAGGT 59.078 47.619 0.00 0.00 41.92 3.50
2655 4329 5.015515 TCTTTGACAATGGCATCCACATAA 58.984 37.500 0.00 0.00 35.80 1.90
2670 4344 5.679981 GCAAGCGCATTGTCTCTTTGACA 62.680 47.826 11.47 0.00 45.25 3.58
2821 4495 2.047179 GAACTCCTCCGGCGCTTT 60.047 61.111 7.64 0.00 0.00 3.51
2916 4590 0.488220 TATACCCGGGGCACATCCTA 59.512 55.000 27.92 5.41 34.39 2.94
3039 4713 3.862063 CTTGCGTGGCGTTGACAGC 62.862 63.158 0.00 0.00 0.00 4.40
3122 4796 2.401583 TGAGGGCACACATGTATCAC 57.598 50.000 0.00 0.00 0.00 3.06
3269 4947 5.655090 CCCCAAACGTTTCCCTAAATCTAAT 59.345 40.000 11.37 0.00 0.00 1.73
3270 4948 5.011586 CCCCAAACGTTTCCCTAAATCTAA 58.988 41.667 11.37 0.00 0.00 2.10
3512 5196 3.148279 GCGGATCTGGTCGAGGGT 61.148 66.667 3.14 0.00 0.00 4.34
3621 5305 1.344114 GGCCTGTTCCAGCAAATTTGA 59.656 47.619 22.31 0.00 0.00 2.69
3679 5363 8.911247 ATACGGTTGAAGCATTTTTAATCTTC 57.089 30.769 0.00 0.00 36.42 2.87
3892 5578 8.732746 ATACGGTTGTAGCTTTTATCTCAATT 57.267 30.769 0.00 0.00 33.17 2.32


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

AutoCloner maintained by Alex Coulton.