Multiple sequence alignment - TraesCS5A01G416900

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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 TraesCS5A01G416900 chr5A 100.000 2724 0 0 1 2724 605233906 605231183 0.000000e+00 5031
1 TraesCS5A01G416900 chr5A 79.563 641 94 27 956 1576 557356566 557355943 9.020000e-115 424
2 TraesCS5A01G416900 chr5B 89.082 2125 134 43 9 2107 594923183 594921131 0.000000e+00 2549
3 TraesCS5A01G416900 chr5B 85.924 476 43 8 2150 2604 594921132 594920660 1.130000e-133 486
4 TraesCS5A01G416900 chr5D 86.603 2202 189 48 459 2604 483717852 483715701 0.000000e+00 2335
5 TraesCS5A01G416900 chr5D 82.398 392 38 11 62 445 483718295 483717927 2.040000e-81 313
6 TraesCS5A01G416900 chr4D 78.446 798 123 28 953 1729 201184888 201184119 2.450000e-130 475
7 TraesCS5A01G416900 chr4D 94.531 128 7 0 2596 2723 326382616 326382489 5.950000e-47 198
8 TraesCS5A01G416900 chr7D 81.724 580 75 23 963 1527 289882463 289881900 3.200000e-124 455
9 TraesCS5A01G416900 chr1A 78.999 719 107 29 882 1576 67134036 67133338 4.140000e-123 451
10 TraesCS5A01G416900 chr2A 83.755 277 29 9 1333 1604 34883152 34883417 5.820000e-62 248
11 TraesCS5A01G416900 chr3B 96.825 126 4 0 2599 2724 154663209 154663084 7.640000e-51 211
12 TraesCS5A01G416900 chr3D 96.825 126 3 1 2599 2724 104026070 104025946 2.750000e-50 209
13 TraesCS5A01G416900 chr3D 96.000 125 5 0 2600 2724 449740446 449740322 1.280000e-48 204
14 TraesCS5A01G416900 chr4A 95.968 124 5 0 2600 2723 37306863 37306986 4.600000e-48 202
15 TraesCS5A01G416900 chr1D 95.312 128 4 2 2598 2724 30100417 30100543 4.600000e-48 202
16 TraesCS5A01G416900 chr7B 93.233 133 9 0 2590 2722 176002818 176002950 2.140000e-46 196
17 TraesCS5A01G416900 chr7B 94.444 126 7 0 2599 2724 712529804 712529679 7.700000e-46 195
18 TraesCS5A01G416900 chr2B 90.411 146 9 5 2580 2723 797329781 797329923 1.290000e-43 187
19 TraesCS5A01G416900 chr4B 87.786 131 11 4 1448 1576 536481928 536481801 6.080000e-32 148


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 TraesCS5A01G416900 chr5A 605231183 605233906 2723 True 5031.0 5031 100.0000 1 2724 1 chr5A.!!$R2 2723
1 TraesCS5A01G416900 chr5A 557355943 557356566 623 True 424.0 424 79.5630 956 1576 1 chr5A.!!$R1 620
2 TraesCS5A01G416900 chr5B 594920660 594923183 2523 True 1517.5 2549 87.5030 9 2604 2 chr5B.!!$R1 2595
3 TraesCS5A01G416900 chr5D 483715701 483718295 2594 True 1324.0 2335 84.5005 62 2604 2 chr5D.!!$R1 2542
4 TraesCS5A01G416900 chr4D 201184119 201184888 769 True 475.0 475 78.4460 953 1729 1 chr4D.!!$R1 776
5 TraesCS5A01G416900 chr7D 289881900 289882463 563 True 455.0 455 81.7240 963 1527 1 chr7D.!!$R1 564
6 TraesCS5A01G416900 chr1A 67133338 67134036 698 True 451.0 451 78.9990 882 1576 1 chr1A.!!$R1 694

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
850 950 0.319641 GGTTCAGACGAGGTCACCAC 60.32 60.0 0.0 0.0 34.6 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1846 1995 0.38539 CAGCTGGTGTTTTGGTCCAC 59.615 55.0 5.57 0.0 0.0 4.02 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
26 27 8.171840 TGCTTCAAAAACAAACGAATAAAAAGG 58.828 29.630 0.00 0.00 0.00 3.11
50 51 2.559998 AGACCACAAAGCAAACAACG 57.440 45.000 0.00 0.00 0.00 4.10
52 53 0.800300 ACCACAAAGCAAACAACGCG 60.800 50.000 3.53 3.53 0.00 6.01
57 58 1.122323 CAAAGCAAACAACGCGTATGC 59.878 47.619 23.30 23.30 37.28 3.14
214 215 1.607801 GCAGAGCAACCATTTCCCCC 61.608 60.000 0.00 0.00 0.00 5.40
225 226 1.373590 ATTTCCCCCGCATTTCGACG 61.374 55.000 0.00 0.00 41.67 5.12
251 252 0.613260 TCTATTGCGAGTTGGCTGGT 59.387 50.000 0.00 0.00 0.00 4.00
253 254 0.323302 TATTGCGAGTTGGCTGGTGA 59.677 50.000 0.00 0.00 0.00 4.02
366 383 7.147655 CCCCTACGGATGTATGAATATGATCTT 60.148 40.741 0.00 0.00 0.00 2.40
418 435 5.046448 AGCACTCTGAAGAATCTGAATCACT 60.046 40.000 0.00 0.00 33.72 3.41
451 482 2.047002 TGGTCATGTGATGGCATCTG 57.953 50.000 26.49 17.19 36.36 2.90
509 590 4.795268 TCTACGCTTTCACTGTTCACTAG 58.205 43.478 0.00 0.00 0.00 2.57
850 950 0.319641 GGTTCAGACGAGGTCACCAC 60.320 60.000 0.00 0.00 34.60 4.16
851 951 0.319641 GTTCAGACGAGGTCACCACC 60.320 60.000 0.00 0.00 44.19 4.61
912 1015 2.433145 GCGTACTGCTGCTGCTGA 60.433 61.111 25.33 9.30 41.73 4.26
990 1099 3.636764 GGAAAGCTAGAGGAGAGGAGAAG 59.363 52.174 0.00 0.00 0.00 2.85
992 1101 1.499007 AGCTAGAGGAGAGGAGAAGGG 59.501 57.143 0.00 0.00 0.00 3.95
993 1102 1.497286 GCTAGAGGAGAGGAGAAGGGA 59.503 57.143 0.00 0.00 0.00 4.20
994 1103 2.489073 GCTAGAGGAGAGGAGAAGGGAG 60.489 59.091 0.00 0.00 0.00 4.30
1051 1160 4.899239 CCATCTGCCGTCTCGCCC 62.899 72.222 0.00 0.00 0.00 6.13
1080 1189 2.049156 CAGTCGCAGCTGTTCGGA 60.049 61.111 16.64 5.23 0.00 4.55
1111 1220 2.036098 TCCGCCGTCTGGTTCCTA 59.964 61.111 0.00 0.00 37.67 2.94
1128 1237 3.207547 TACGGCGAGCCATCCATCG 62.208 63.158 16.62 0.66 41.79 3.84
1142 1251 2.047844 ATCGTTCTGCAGCAGCGT 60.048 55.556 18.43 4.87 46.23 5.07
1203 1313 3.756963 GCCCTTCTTTACTTTACCCACAG 59.243 47.826 0.00 0.00 0.00 3.66
1224 1340 4.050037 AGATTTCTCCCAGGAATGGATGA 58.950 43.478 0.00 0.00 0.00 2.92
1252 1369 1.534595 GTCTCTTCCTGCAACTTGCTG 59.465 52.381 14.78 13.56 45.31 4.41
1269 1386 1.470979 GCTGATGGGCAAAGCAATGAG 60.471 52.381 0.00 0.00 36.91 2.90
1394 1532 4.849383 CCCAGCGTTTTATTTACAGTTTCG 59.151 41.667 0.00 0.00 0.00 3.46
1413 1551 1.264557 CGAATCGAGCGATGAGGTAGT 59.735 52.381 6.11 0.00 34.70 2.73
1421 1559 4.626042 GAGCGATGAGGTAGTCATGAAAT 58.374 43.478 0.00 0.00 46.64 2.17
1442 1581 7.668052 TGAAATAAAACCTAACCTGTGCATACT 59.332 33.333 0.00 0.00 0.00 2.12
1449 1588 5.221843 ACCTAACCTGTGCATACTTCTGAAA 60.222 40.000 0.00 0.00 0.00 2.69
1540 1686 4.402155 TCCATTTATCGATGCCTTTTGCTT 59.598 37.500 8.54 0.00 42.00 3.91
1645 1791 2.407846 ATAGGATGCTGGACGCGACG 62.408 60.000 15.93 0.00 43.27 5.12
1697 1843 2.538333 CGCGAGAAGCTTCCAAATGATG 60.538 50.000 22.81 5.35 45.59 3.07
1825 1974 4.560108 GCCAAACTTGAGCATGTGAGATTT 60.560 41.667 0.00 0.00 0.00 2.17
1859 2008 6.144078 AGTTCTAATTGTGGACCAAAACAC 57.856 37.500 0.00 0.00 36.44 3.32
1861 2010 4.537751 TCTAATTGTGGACCAAAACACCA 58.462 39.130 0.00 0.00 36.44 4.17
1869 2018 2.229792 GACCAAAACACCAGCTGATGA 58.770 47.619 17.16 0.00 0.00 2.92
1870 2019 2.622942 GACCAAAACACCAGCTGATGAA 59.377 45.455 17.16 0.00 0.00 2.57
1873 2022 4.101430 ACCAAAACACCAGCTGATGAAAAT 59.899 37.500 17.16 0.00 0.00 1.82
1874 2023 5.304101 ACCAAAACACCAGCTGATGAAAATA 59.696 36.000 17.16 0.00 0.00 1.40
1875 2024 6.014327 ACCAAAACACCAGCTGATGAAAATAT 60.014 34.615 17.16 0.00 0.00 1.28
1876 2025 7.178274 ACCAAAACACCAGCTGATGAAAATATA 59.822 33.333 17.16 0.00 0.00 0.86
1879 2028 9.590451 AAAACACCAGCTGATGAAAATATATTG 57.410 29.630 17.16 0.00 0.00 1.90
1880 2029 7.886629 ACACCAGCTGATGAAAATATATTGT 57.113 32.000 17.16 0.00 0.00 2.71
1881 2030 7.709947 ACACCAGCTGATGAAAATATATTGTG 58.290 34.615 17.16 11.42 0.00 3.33
1882 2031 6.639686 CACCAGCTGATGAAAATATATTGTGC 59.360 38.462 17.39 0.00 0.00 4.57
1883 2032 6.321945 ACCAGCTGATGAAAATATATTGTGCA 59.678 34.615 17.39 0.00 0.00 4.57
1884 2033 7.014905 ACCAGCTGATGAAAATATATTGTGCAT 59.985 33.333 17.39 3.56 0.00 3.96
1903 2052 5.284660 GTGCATTTTGAGTTATTTCTCTGCG 59.715 40.000 0.00 0.00 35.85 5.18
1913 2062 5.289675 AGTTATTTCTCTGCGACTGATTTCG 59.710 40.000 0.00 0.00 42.15 3.46
1959 2115 9.950496 ACTATAGAGGAAACAAATATATGGCTG 57.050 33.333 6.78 0.00 0.00 4.85
1960 2116 9.388506 CTATAGAGGAAACAAATATATGGCTGG 57.611 37.037 0.00 0.00 0.00 4.85
1992 2148 7.834881 ACTACTATTCCATATTCTGTTCCGA 57.165 36.000 0.00 0.00 0.00 4.55
2022 2178 7.143340 TCTGAAGAGCAAATGTGAATTTTCAG 58.857 34.615 12.23 12.23 37.98 3.02
2023 2179 5.693104 TGAAGAGCAAATGTGAATTTTCAGC 59.307 36.000 0.00 0.00 37.98 4.26
2024 2180 5.204409 AGAGCAAATGTGAATTTTCAGCA 57.796 34.783 0.00 0.00 37.98 4.41
2025 2181 5.603596 AGAGCAAATGTGAATTTTCAGCAA 58.396 33.333 0.00 0.00 37.98 3.91
2027 2183 5.362263 AGCAAATGTGAATTTTCAGCAAGT 58.638 33.333 0.00 0.00 37.98 3.16
2031 2187 7.953710 GCAAATGTGAATTTTCAGCAAGTTATC 59.046 33.333 0.00 0.00 37.98 1.75
2032 2188 8.980610 CAAATGTGAATTTTCAGCAAGTTATCA 58.019 29.630 0.00 0.00 37.98 2.15
2033 2189 9.715121 AAATGTGAATTTTCAGCAAGTTATCAT 57.285 25.926 0.00 0.00 37.98 2.45
2034 2190 9.715121 AATGTGAATTTTCAGCAAGTTATCATT 57.285 25.926 0.00 0.00 37.98 2.57
2035 2191 9.715121 ATGTGAATTTTCAGCAAGTTATCATTT 57.285 25.926 0.00 0.00 37.98 2.32
2045 2201 7.538334 TCAGCAAGTTATCATTTTCATCAAACG 59.462 33.333 0.00 0.00 0.00 3.60
2080 2236 8.593679 TCTTGTCAAGATTTGAACAGACCTATA 58.406 33.333 11.36 0.00 42.15 1.31
2082 2238 8.134202 TGTCAAGATTTGAACAGACCTATAGA 57.866 34.615 0.00 0.00 42.15 1.98
2105 2261 0.844661 ACTCCAAGCCATACCACCCA 60.845 55.000 0.00 0.00 0.00 4.51
2106 2262 0.107017 CTCCAAGCCATACCACCCAG 60.107 60.000 0.00 0.00 0.00 4.45
2107 2263 1.076777 CCAAGCCATACCACCCAGG 60.077 63.158 0.00 0.00 45.67 4.45
2108 2264 1.076777 CAAGCCATACCACCCAGGG 60.077 63.158 2.85 2.85 43.89 4.45
2109 2265 2.316586 AAGCCATACCACCCAGGGG 61.317 63.158 11.37 6.87 43.89 4.79
2119 2275 3.404773 CCCAGGGGTCCTCTGTTC 58.595 66.667 17.89 0.00 0.00 3.18
2120 2276 1.229658 CCCAGGGGTCCTCTGTTCT 60.230 63.158 17.89 0.00 0.00 3.01
2121 2277 0.042731 CCCAGGGGTCCTCTGTTCTA 59.957 60.000 17.89 0.00 0.00 2.10
2122 2278 1.490574 CCAGGGGTCCTCTGTTCTAG 58.509 60.000 17.89 0.00 0.00 2.43
2123 2279 1.007238 CCAGGGGTCCTCTGTTCTAGA 59.993 57.143 17.89 0.00 0.00 2.43
2124 2280 2.359781 CCAGGGGTCCTCTGTTCTAGAT 60.360 54.545 17.89 0.00 34.21 1.98
2125 2281 2.962421 CAGGGGTCCTCTGTTCTAGATC 59.038 54.545 11.02 0.00 34.21 2.75
2126 2282 2.090999 AGGGGTCCTCTGTTCTAGATCC 60.091 54.545 0.00 0.00 34.21 3.36
2127 2283 2.359355 GGGGTCCTCTGTTCTAGATCCA 60.359 54.545 0.00 0.00 34.21 3.41
2128 2284 3.375699 GGGTCCTCTGTTCTAGATCCAA 58.624 50.000 0.00 0.00 34.21 3.53
2129 2285 3.775316 GGGTCCTCTGTTCTAGATCCAAA 59.225 47.826 0.00 0.00 34.21 3.28
2130 2286 4.141824 GGGTCCTCTGTTCTAGATCCAAAG 60.142 50.000 0.00 0.00 34.21 2.77
2131 2287 4.712337 GGTCCTCTGTTCTAGATCCAAAGA 59.288 45.833 0.00 0.00 34.21 2.52
2132 2288 5.394773 GGTCCTCTGTTCTAGATCCAAAGAC 60.395 48.000 0.00 0.00 34.21 3.01
2133 2289 4.712337 TCCTCTGTTCTAGATCCAAAGACC 59.288 45.833 0.00 0.00 34.21 3.85
2134 2290 4.714308 CCTCTGTTCTAGATCCAAAGACCT 59.286 45.833 0.00 0.00 34.21 3.85
2135 2291 5.395103 CCTCTGTTCTAGATCCAAAGACCTG 60.395 48.000 0.00 0.00 34.21 4.00
2136 2292 5.087323 TCTGTTCTAGATCCAAAGACCTGT 58.913 41.667 0.00 0.00 0.00 4.00
2137 2293 5.047021 TCTGTTCTAGATCCAAAGACCTGTG 60.047 44.000 0.00 0.00 0.00 3.66
2138 2294 4.838423 TGTTCTAGATCCAAAGACCTGTGA 59.162 41.667 0.00 0.00 0.00 3.58
2139 2295 5.172205 GTTCTAGATCCAAAGACCTGTGAC 58.828 45.833 0.00 0.00 0.00 3.67
2140 2296 4.416516 TCTAGATCCAAAGACCTGTGACA 58.583 43.478 0.00 0.00 0.00 3.58
2141 2297 3.409026 AGATCCAAAGACCTGTGACAC 57.591 47.619 0.00 0.00 0.00 3.67
2142 2298 2.069273 GATCCAAAGACCTGTGACACG 58.931 52.381 0.22 0.00 0.00 4.49
2143 2299 1.116308 TCCAAAGACCTGTGACACGA 58.884 50.000 0.22 0.00 0.00 4.35
2144 2300 1.483004 TCCAAAGACCTGTGACACGAA 59.517 47.619 0.22 0.00 0.00 3.85
2145 2301 2.104111 TCCAAAGACCTGTGACACGAAT 59.896 45.455 0.22 0.00 0.00 3.34
2146 2302 2.878406 CCAAAGACCTGTGACACGAATT 59.122 45.455 0.22 0.00 0.00 2.17
2147 2303 3.058914 CCAAAGACCTGTGACACGAATTC 60.059 47.826 0.22 0.00 0.00 2.17
2148 2304 3.469008 AAGACCTGTGACACGAATTCA 57.531 42.857 6.22 0.00 0.00 2.57
2171 2371 5.808042 AGCATATATGGCGATCAATTCAC 57.192 39.130 14.51 0.00 36.08 3.18
2190 2390 8.344831 CAATTCACTGATACAAGACTTGTTTGA 58.655 33.333 25.10 16.01 42.22 2.69
2198 2398 5.059404 ACAAGACTTGTTTGAAAGGTGTG 57.941 39.130 15.23 0.00 42.22 3.82
2220 2420 3.369471 GCACATAGCAGTAGGGAGAAACA 60.369 47.826 0.00 0.00 44.79 2.83
2270 2470 0.591659 TCGACTGACTCAACAGGTCG 59.408 55.000 10.73 10.73 41.59 4.79
2272 2472 0.315568 GACTGACTCAACAGGTCGCT 59.684 55.000 0.00 0.00 41.59 4.93
2301 2501 4.633175 TCATCGTTAACCTTGTTGTGCTA 58.367 39.130 0.00 0.00 0.00 3.49
2325 2525 5.068987 ACACAACCTTGTTTCATAAGCATGT 59.931 36.000 0.00 0.00 39.91 3.21
2327 2527 4.685169 ACCTTGTTTCATAAGCATGTCG 57.315 40.909 0.00 0.00 33.57 4.35
2333 2533 2.967599 TCATAAGCATGTCGAGCTGT 57.032 45.000 0.00 0.00 42.53 4.40
2381 2588 1.544724 TATGGTTTTCACAGGCCTGC 58.455 50.000 33.06 14.88 0.00 4.85
2397 2604 2.292267 CCTGCCAACCTGCATAACTAG 58.708 52.381 0.00 0.00 41.16 2.57
2405 2612 3.028850 ACCTGCATAACTAGGCTTACGA 58.971 45.455 0.00 0.00 37.61 3.43
2436 2643 3.857157 AAACTGTGTAGAGGGCAGAAA 57.143 42.857 0.00 0.00 34.60 2.52
2441 2648 1.000506 GTGTAGAGGGCAGAAACACGA 59.999 52.381 0.00 0.00 32.05 4.35
2466 2673 9.436957 GAAACTCAGAACCAACAGAATTAGATA 57.563 33.333 0.00 0.00 0.00 1.98
2470 2689 9.829507 CTCAGAACCAACAGAATTAGATATTCT 57.170 33.333 0.00 0.00 38.78 2.40
2540 2759 5.153950 AGCTTAGATTTATCCATCCGGAC 57.846 43.478 6.12 0.00 46.79 4.79
2565 2784 7.432252 ACAGCACTTTTAGATTTTCTTTTCACG 59.568 33.333 0.00 0.00 0.00 4.35
2571 2791 7.519032 TTTAGATTTTCTTTTCACGGGACAT 57.481 32.000 0.00 0.00 0.00 3.06
2604 2824 8.398665 CCAAGAAATTACACCAATAGCTTCTAC 58.601 37.037 0.00 0.00 0.00 2.59
2605 2825 9.167311 CAAGAAATTACACCAATAGCTTCTACT 57.833 33.333 0.00 0.00 0.00 2.57
2606 2826 8.950208 AGAAATTACACCAATAGCTTCTACTC 57.050 34.615 0.00 0.00 0.00 2.59
2607 2827 7.988028 AGAAATTACACCAATAGCTTCTACTCC 59.012 37.037 0.00 0.00 0.00 3.85
2608 2828 5.609533 TTACACCAATAGCTTCTACTCCC 57.390 43.478 0.00 0.00 0.00 4.30
2609 2829 3.725634 ACACCAATAGCTTCTACTCCCT 58.274 45.455 0.00 0.00 0.00 4.20
2610 2830 3.707102 ACACCAATAGCTTCTACTCCCTC 59.293 47.826 0.00 0.00 0.00 4.30
2611 2831 3.070302 CACCAATAGCTTCTACTCCCTCC 59.930 52.174 0.00 0.00 0.00 4.30
2612 2832 2.297597 CCAATAGCTTCTACTCCCTCCG 59.702 54.545 0.00 0.00 0.00 4.63
2613 2833 2.959707 CAATAGCTTCTACTCCCTCCGT 59.040 50.000 0.00 0.00 0.00 4.69
2614 2834 2.822707 TAGCTTCTACTCCCTCCGTT 57.177 50.000 0.00 0.00 0.00 4.44
2615 2835 1.476477 AGCTTCTACTCCCTCCGTTC 58.524 55.000 0.00 0.00 0.00 3.95
2616 2836 0.460722 GCTTCTACTCCCTCCGTTCC 59.539 60.000 0.00 0.00 0.00 3.62
2617 2837 1.960953 GCTTCTACTCCCTCCGTTCCT 60.961 57.143 0.00 0.00 0.00 3.36
2618 2838 2.686118 GCTTCTACTCCCTCCGTTCCTA 60.686 54.545 0.00 0.00 0.00 2.94
2619 2839 3.629087 CTTCTACTCCCTCCGTTCCTAA 58.371 50.000 0.00 0.00 0.00 2.69
2620 2840 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
2621 2841 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
2622 2842 5.393068 TCTACTCCCTCCGTTCCTAAATA 57.607 43.478 0.00 0.00 0.00 1.40
2623 2843 5.961897 TCTACTCCCTCCGTTCCTAAATAT 58.038 41.667 0.00 0.00 0.00 1.28
2624 2844 7.095183 TCTACTCCCTCCGTTCCTAAATATA 57.905 40.000 0.00 0.00 0.00 0.86
2625 2845 7.529555 TCTACTCCCTCCGTTCCTAAATATAA 58.470 38.462 0.00 0.00 0.00 0.98
2626 2846 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
2627 2847 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
2628 2848 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
2629 2849 6.379579 TCCCTCCGTTCCTAAATATAAGTCT 58.620 40.000 0.00 0.00 0.00 3.24
2630 2850 6.842807 TCCCTCCGTTCCTAAATATAAGTCTT 59.157 38.462 0.00 0.00 0.00 3.01
2631 2851 7.346436 TCCCTCCGTTCCTAAATATAAGTCTTT 59.654 37.037 0.00 0.00 0.00 2.52
2632 2852 7.991460 CCCTCCGTTCCTAAATATAAGTCTTTT 59.009 37.037 0.00 0.00 0.00 2.27
2633 2853 9.392259 CCTCCGTTCCTAAATATAAGTCTTTTT 57.608 33.333 0.00 0.00 0.00 1.94
2660 2880 9.179909 AGAGATTCTAATATGGACTACATACGG 57.820 37.037 0.00 0.00 44.41 4.02
2661 2881 9.175312 GAGATTCTAATATGGACTACATACGGA 57.825 37.037 0.00 0.00 44.41 4.69
2662 2882 9.179909 AGATTCTAATATGGACTACATACGGAG 57.820 37.037 0.00 0.00 44.41 4.63
2663 2883 6.754702 TCTAATATGGACTACATACGGAGC 57.245 41.667 0.00 0.00 44.41 4.70
2664 2884 6.243148 TCTAATATGGACTACATACGGAGCA 58.757 40.000 0.00 0.00 44.41 4.26
2665 2885 5.801531 AATATGGACTACATACGGAGCAA 57.198 39.130 0.00 0.00 44.41 3.91
2666 2886 5.801531 ATATGGACTACATACGGAGCAAA 57.198 39.130 0.00 0.00 44.41 3.68
2667 2887 3.965379 TGGACTACATACGGAGCAAAA 57.035 42.857 0.00 0.00 0.00 2.44
2668 2888 4.481368 TGGACTACATACGGAGCAAAAT 57.519 40.909 0.00 0.00 0.00 1.82
2669 2889 4.188462 TGGACTACATACGGAGCAAAATG 58.812 43.478 0.00 0.00 0.00 2.32
2670 2890 4.081365 TGGACTACATACGGAGCAAAATGA 60.081 41.667 0.00 0.00 0.00 2.57
2671 2891 4.508124 GGACTACATACGGAGCAAAATGAG 59.492 45.833 0.00 0.00 0.00 2.90
2672 2892 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
2673 2893 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
2674 2894 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
2675 2895 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
2676 2896 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
2677 2897 5.415701 ACATACGGAGCAAAATGAGTGAATT 59.584 36.000 0.00 0.00 0.00 2.17
2678 2898 4.853924 ACGGAGCAAAATGAGTGAATTT 57.146 36.364 0.00 0.00 0.00 1.82
2679 2899 5.957842 ACGGAGCAAAATGAGTGAATTTA 57.042 34.783 0.00 0.00 0.00 1.40
2680 2900 5.699839 ACGGAGCAAAATGAGTGAATTTAC 58.300 37.500 0.00 0.00 0.00 2.01
2681 2901 5.240623 ACGGAGCAAAATGAGTGAATTTACA 59.759 36.000 2.93 0.00 0.00 2.41
2682 2902 5.569059 CGGAGCAAAATGAGTGAATTTACAC 59.431 40.000 2.93 0.00 40.60 2.90
2696 2916 9.924650 AGTGAATTTACACTCTAAAATACGTCT 57.075 29.630 2.93 0.00 46.36 4.18
2715 2935 7.918536 ACGTCTATATTCATCCGTATGTAGT 57.081 36.000 0.00 0.00 34.50 2.73
2716 2936 8.332996 ACGTCTATATTCATCCGTATGTAGTT 57.667 34.615 0.00 0.00 34.50 2.24
2717 2937 8.449397 ACGTCTATATTCATCCGTATGTAGTTC 58.551 37.037 0.00 0.00 34.50 3.01
2718 2938 8.448615 CGTCTATATTCATCCGTATGTAGTTCA 58.551 37.037 0.00 0.00 34.50 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.171840 CCTTTTTATTCGTTTGTTTTTGAAGCA 58.828 29.630 0.00 0.00 0.00 3.91
1 2 8.172484 ACCTTTTTATTCGTTTGTTTTTGAAGC 58.828 29.630 0.00 0.00 0.00 3.86
26 27 5.623673 CGTTGTTTGCTTTGTGGTCTAATAC 59.376 40.000 0.00 0.00 0.00 1.89
170 171 9.065871 GCAACTCAATTGTAGATTTATGTGTTC 57.934 33.333 5.13 0.00 40.77 3.18
214 215 0.577269 GATTCTCCCGTCGAAATGCG 59.423 55.000 0.00 0.00 42.69 4.73
225 226 3.134458 CCAACTCGCAATAGATTCTCCC 58.866 50.000 0.00 0.00 0.00 4.30
366 383 3.956848 AGTCAGTAGCTGCACATATCTGA 59.043 43.478 4.12 3.72 0.00 3.27
372 389 2.669300 CAGAGTCAGTAGCTGCACAT 57.331 50.000 4.12 0.00 0.00 3.21
476 554 2.011540 AAGCGTAGAGGTTTAGCTGC 57.988 50.000 0.00 0.00 37.23 5.25
509 590 3.369835 GCAATACGCAACTCACAGTAC 57.630 47.619 0.00 0.00 41.79 2.73
602 683 2.109480 GGGTTCCAAGTTTAAGTCCCCT 59.891 50.000 0.00 0.00 0.00 4.79
654 739 5.835819 AGTTAGCCTCTGAGCTGTGATATAA 59.164 40.000 0.00 0.00 44.67 0.98
656 741 4.222336 AGTTAGCCTCTGAGCTGTGATAT 58.778 43.478 0.00 0.00 44.67 1.63
661 746 2.167487 GCTTAGTTAGCCTCTGAGCTGT 59.833 50.000 0.00 0.00 44.67 4.40
837 937 4.736896 GCCGGTGGTGACCTCGTC 62.737 72.222 1.90 0.00 40.58 4.20
866 966 2.954684 ATCTTGGCTGGTCGCGGAA 61.955 57.895 6.13 0.00 40.44 4.30
912 1015 2.631545 GCCGTCCAGGGTGTATTAGTAT 59.368 50.000 0.00 0.00 41.48 2.12
1064 1173 2.049063 GTCCGAACAGCTGCGACT 60.049 61.111 15.27 0.00 0.00 4.18
1111 1220 4.592192 CGATGGATGGCTCGCCGT 62.592 66.667 1.53 1.53 39.42 5.68
1128 1237 2.250485 CACACGCTGCTGCAGAAC 59.750 61.111 32.30 14.88 39.64 3.01
1203 1313 4.443978 TCATCCATTCCTGGGAGAAATC 57.556 45.455 0.00 0.00 43.34 2.17
1252 1369 2.288961 CACTCATTGCTTTGCCCATC 57.711 50.000 0.00 0.00 0.00 3.51
1269 1386 1.682344 GAAATGGGTCCAGGGGCAC 60.682 63.158 0.00 0.00 0.00 5.01
1273 1390 0.034089 GTGGAGAAATGGGTCCAGGG 60.034 60.000 0.00 0.00 43.69 4.45
1275 1392 0.698238 TGGTGGAGAAATGGGTCCAG 59.302 55.000 0.00 0.00 43.69 3.86
1310 1448 9.891828 CTTCAGCCGTTATGCATAAAATAAATA 57.108 29.630 20.46 4.64 0.00 1.40
1311 1449 7.867403 CCTTCAGCCGTTATGCATAAAATAAAT 59.133 33.333 20.46 2.97 0.00 1.40
1312 1450 7.147983 ACCTTCAGCCGTTATGCATAAAATAAA 60.148 33.333 20.46 9.57 0.00 1.40
1313 1451 6.320164 ACCTTCAGCCGTTATGCATAAAATAA 59.680 34.615 20.46 8.66 0.00 1.40
1314 1452 5.825679 ACCTTCAGCCGTTATGCATAAAATA 59.174 36.000 20.46 0.00 0.00 1.40
1315 1453 4.644685 ACCTTCAGCCGTTATGCATAAAAT 59.355 37.500 20.46 4.66 0.00 1.82
1316 1454 4.013728 ACCTTCAGCCGTTATGCATAAAA 58.986 39.130 20.46 9.38 0.00 1.52
1317 1455 3.616219 ACCTTCAGCCGTTATGCATAAA 58.384 40.909 20.46 1.40 0.00 1.40
1318 1456 3.275617 ACCTTCAGCCGTTATGCATAA 57.724 42.857 15.21 15.21 0.00 1.90
1319 1457 3.275617 AACCTTCAGCCGTTATGCATA 57.724 42.857 1.16 1.16 0.00 3.14
1320 1458 2.128771 AACCTTCAGCCGTTATGCAT 57.871 45.000 3.79 3.79 0.00 3.96
1321 1459 1.904287 AAACCTTCAGCCGTTATGCA 58.096 45.000 0.00 0.00 0.00 3.96
1322 1460 2.488153 AGAAAACCTTCAGCCGTTATGC 59.512 45.455 0.00 0.00 33.64 3.14
1323 1461 4.475944 CAAGAAAACCTTCAGCCGTTATG 58.524 43.478 0.00 0.00 33.64 1.90
1394 1532 2.290916 TGACTACCTCATCGCTCGATTC 59.709 50.000 1.55 0.00 31.62 2.52
1413 1551 6.491745 TGCACAGGTTAGGTTTTATTTCATGA 59.508 34.615 0.00 0.00 0.00 3.07
1421 1559 6.653320 CAGAAGTATGCACAGGTTAGGTTTTA 59.347 38.462 0.00 0.00 0.00 1.52
1449 1588 8.929487 TCCTCCAAAAATACCACTGTTTATTTT 58.071 29.630 9.54 9.54 38.81 1.82
1460 1599 6.147437 ACTAACCATCCTCCAAAAATACCA 57.853 37.500 0.00 0.00 0.00 3.25
1540 1686 3.998913 TCTTGATCCTGCACCATTACA 57.001 42.857 0.00 0.00 0.00 2.41
1645 1791 2.637947 GCAAGACTCTGGGGATTTCTC 58.362 52.381 0.00 0.00 0.00 2.87
1831 1980 7.595819 TTTGGTCCACAATTAGAACTTGAAT 57.404 32.000 0.00 0.00 39.21 2.57
1846 1995 0.385390 CAGCTGGTGTTTTGGTCCAC 59.615 55.000 5.57 0.00 0.00 4.02
1859 2008 6.741109 TGCACAATATATTTTCATCAGCTGG 58.259 36.000 15.13 0.00 0.00 4.85
1861 2010 9.826574 AAAATGCACAATATATTTTCATCAGCT 57.173 25.926 0.00 0.00 30.52 4.24
1875 2024 9.844790 CAGAGAAATAACTCAAAATGCACAATA 57.155 29.630 0.00 0.00 39.14 1.90
1876 2025 7.330208 GCAGAGAAATAACTCAAAATGCACAAT 59.670 33.333 0.00 0.00 39.14 2.71
1879 2028 5.284660 CGCAGAGAAATAACTCAAAATGCAC 59.715 40.000 0.00 0.00 39.14 4.57
1880 2029 5.181056 TCGCAGAGAAATAACTCAAAATGCA 59.819 36.000 0.00 0.00 39.14 3.96
1881 2030 5.509622 GTCGCAGAGAAATAACTCAAAATGC 59.490 40.000 0.00 0.00 36.95 3.56
1882 2031 6.740002 CAGTCGCAGAGAAATAACTCAAAATG 59.260 38.462 0.00 0.00 36.95 2.32
1883 2032 6.650807 TCAGTCGCAGAGAAATAACTCAAAAT 59.349 34.615 0.00 0.00 36.95 1.82
1884 2033 5.989168 TCAGTCGCAGAGAAATAACTCAAAA 59.011 36.000 0.00 0.00 36.95 2.44
1897 2046 3.695816 TGATACGAAATCAGTCGCAGAG 58.304 45.455 0.00 0.00 45.00 3.35
1903 2052 8.581057 ACTTCATACATGATACGAAATCAGTC 57.419 34.615 0.00 0.00 36.56 3.51
1936 2085 6.660949 GCCAGCCATATATTTGTTTCCTCTAT 59.339 38.462 0.00 0.00 0.00 1.98
1937 2086 6.003950 GCCAGCCATATATTTGTTTCCTCTA 58.996 40.000 0.00 0.00 0.00 2.43
1939 2088 4.021981 GGCCAGCCATATATTTGTTTCCTC 60.022 45.833 3.12 0.00 35.81 3.71
1941 2090 3.640967 TGGCCAGCCATATATTTGTTTCC 59.359 43.478 7.43 0.00 41.89 3.13
1942 2091 4.935352 TGGCCAGCCATATATTTGTTTC 57.065 40.909 7.43 0.00 41.89 2.78
1958 2114 9.515226 GAATATGGAATAGTAGTTAATTGGCCA 57.485 33.333 0.00 0.00 28.50 5.36
1959 2115 9.740710 AGAATATGGAATAGTAGTTAATTGGCC 57.259 33.333 0.00 0.00 28.50 5.36
1990 2146 4.849926 CACATTTGCTCTTCAGATGTTTCG 59.150 41.667 0.00 0.00 45.04 3.46
1992 2148 6.395426 TTCACATTTGCTCTTCAGATGTTT 57.605 33.333 0.00 0.00 45.04 2.83
2022 2178 7.795431 TCGTTTGATGAAAATGATAACTTGC 57.205 32.000 0.00 0.00 38.58 4.01
2080 2236 4.385310 GGTGGTATGGCTTGGAGTTATTCT 60.385 45.833 0.00 0.00 0.00 2.40
2082 2238 3.372675 GGGTGGTATGGCTTGGAGTTATT 60.373 47.826 0.00 0.00 0.00 1.40
2086 2242 0.844661 TGGGTGGTATGGCTTGGAGT 60.845 55.000 0.00 0.00 0.00 3.85
2105 2261 2.090999 GGATCTAGAACAGAGGACCCCT 60.091 54.545 0.00 0.00 36.48 4.79
2106 2262 2.321719 GGATCTAGAACAGAGGACCCC 58.678 57.143 0.00 0.00 36.48 4.95
2107 2263 3.033659 TGGATCTAGAACAGAGGACCC 57.966 52.381 0.00 0.00 36.48 4.46
2108 2264 4.712337 TCTTTGGATCTAGAACAGAGGACC 59.288 45.833 14.42 0.00 36.48 4.46
2109 2265 5.394773 GGTCTTTGGATCTAGAACAGAGGAC 60.395 48.000 14.42 14.28 36.48 3.85
2110 2266 4.712337 GGTCTTTGGATCTAGAACAGAGGA 59.288 45.833 14.42 6.81 36.48 3.71
2111 2267 4.714308 AGGTCTTTGGATCTAGAACAGAGG 59.286 45.833 14.42 5.21 36.48 3.69
2112 2268 5.186797 ACAGGTCTTTGGATCTAGAACAGAG 59.813 44.000 0.00 4.37 36.48 3.35
2113 2269 5.047021 CACAGGTCTTTGGATCTAGAACAGA 60.047 44.000 0.00 0.00 37.79 3.41
2114 2270 5.047021 TCACAGGTCTTTGGATCTAGAACAG 60.047 44.000 0.00 5.39 30.69 3.16
2115 2271 4.838423 TCACAGGTCTTTGGATCTAGAACA 59.162 41.667 0.00 0.00 30.69 3.18
2116 2272 5.172205 GTCACAGGTCTTTGGATCTAGAAC 58.828 45.833 0.00 0.00 30.69 3.01
2117 2273 4.838423 TGTCACAGGTCTTTGGATCTAGAA 59.162 41.667 0.00 0.00 30.69 2.10
2118 2274 4.220821 GTGTCACAGGTCTTTGGATCTAGA 59.779 45.833 0.00 0.00 30.69 2.43
2119 2275 4.499183 GTGTCACAGGTCTTTGGATCTAG 58.501 47.826 0.00 0.00 30.69 2.43
2120 2276 3.056821 CGTGTCACAGGTCTTTGGATCTA 60.057 47.826 3.42 0.00 30.69 1.98
2121 2277 2.289072 CGTGTCACAGGTCTTTGGATCT 60.289 50.000 3.42 0.00 32.26 2.75
2122 2278 2.069273 CGTGTCACAGGTCTTTGGATC 58.931 52.381 3.42 0.00 0.00 3.36
2123 2279 1.691976 TCGTGTCACAGGTCTTTGGAT 59.308 47.619 3.42 0.00 0.00 3.41
2124 2280 1.116308 TCGTGTCACAGGTCTTTGGA 58.884 50.000 3.42 0.00 0.00 3.53
2125 2281 1.948104 TTCGTGTCACAGGTCTTTGG 58.052 50.000 3.42 0.00 0.00 3.28
2126 2282 3.559655 TGAATTCGTGTCACAGGTCTTTG 59.440 43.478 3.42 0.00 0.00 2.77
2127 2283 3.804036 TGAATTCGTGTCACAGGTCTTT 58.196 40.909 3.42 0.00 0.00 2.52
2128 2284 3.469008 TGAATTCGTGTCACAGGTCTT 57.531 42.857 3.42 0.00 0.00 3.01
2129 2285 3.393800 CTTGAATTCGTGTCACAGGTCT 58.606 45.455 3.42 0.00 0.00 3.85
2130 2286 2.096218 GCTTGAATTCGTGTCACAGGTC 60.096 50.000 3.42 0.00 0.00 3.85
2131 2287 1.873591 GCTTGAATTCGTGTCACAGGT 59.126 47.619 3.42 0.00 0.00 4.00
2132 2288 1.872952 TGCTTGAATTCGTGTCACAGG 59.127 47.619 3.42 0.00 0.00 4.00
2133 2289 3.818961 ATGCTTGAATTCGTGTCACAG 57.181 42.857 3.42 0.00 0.00 3.66
2134 2290 6.018016 CCATATATGCTTGAATTCGTGTCACA 60.018 38.462 7.24 0.00 0.00 3.58
2135 2291 6.365839 CCATATATGCTTGAATTCGTGTCAC 58.634 40.000 7.24 0.00 0.00 3.67
2136 2292 5.049474 GCCATATATGCTTGAATTCGTGTCA 60.049 40.000 7.24 0.00 0.00 3.58
2137 2293 5.385617 GCCATATATGCTTGAATTCGTGTC 58.614 41.667 7.24 0.00 0.00 3.67
2138 2294 4.083855 CGCCATATATGCTTGAATTCGTGT 60.084 41.667 7.24 0.00 0.00 4.49
2139 2295 4.152223 TCGCCATATATGCTTGAATTCGTG 59.848 41.667 7.24 0.00 0.00 4.35
2140 2296 4.314961 TCGCCATATATGCTTGAATTCGT 58.685 39.130 7.24 0.00 0.00 3.85
2141 2297 4.926860 TCGCCATATATGCTTGAATTCG 57.073 40.909 7.24 1.20 0.00 3.34
2142 2298 6.426980 TGATCGCCATATATGCTTGAATTC 57.573 37.500 7.24 0.00 0.00 2.17
2143 2299 6.822667 TTGATCGCCATATATGCTTGAATT 57.177 33.333 7.24 0.00 0.00 2.17
2144 2300 7.121611 TGAATTGATCGCCATATATGCTTGAAT 59.878 33.333 7.24 0.00 0.00 2.57
2145 2301 6.430616 TGAATTGATCGCCATATATGCTTGAA 59.569 34.615 7.24 0.00 0.00 2.69
2146 2302 5.939296 TGAATTGATCGCCATATATGCTTGA 59.061 36.000 7.24 4.93 0.00 3.02
2147 2303 6.025896 GTGAATTGATCGCCATATATGCTTG 58.974 40.000 7.24 0.00 32.15 4.01
2148 2304 5.942236 AGTGAATTGATCGCCATATATGCTT 59.058 36.000 7.24 0.00 39.47 3.91
2171 2371 7.134815 CACCTTTCAAACAAGTCTTGTATCAG 58.865 38.462 18.45 10.06 44.59 2.90
2198 2398 3.198872 GTTTCTCCCTACTGCTATGTGC 58.801 50.000 0.00 0.00 43.25 4.57
2233 2433 5.579904 CAGTCGATCATTTGAACTGATCACT 59.420 40.000 20.65 18.47 46.08 3.41
2234 2434 5.578336 TCAGTCGATCATTTGAACTGATCAC 59.422 40.000 20.65 17.10 46.08 3.06
2235 2435 5.578336 GTCAGTCGATCATTTGAACTGATCA 59.422 40.000 20.65 8.98 46.08 2.92
2244 2444 4.092529 CCTGTTGAGTCAGTCGATCATTTG 59.907 45.833 0.00 0.00 34.02 2.32
2270 2470 4.946784 AGGTTAACGATGAAATGTGAGC 57.053 40.909 0.00 0.00 0.00 4.26
2272 2472 6.038825 ACAACAAGGTTAACGATGAAATGTGA 59.961 34.615 14.11 0.00 0.00 3.58
2301 2501 5.068987 ACATGCTTATGAAACAAGGTTGTGT 59.931 36.000 0.00 0.00 41.31 3.72
2307 2507 4.728882 GCTCGACATGCTTATGAAACAAGG 60.729 45.833 0.00 0.00 0.00 3.61
2325 2525 3.625313 TCAACATTTTCACAACAGCTCGA 59.375 39.130 0.00 0.00 0.00 4.04
2327 2527 6.211515 AGATTCAACATTTTCACAACAGCTC 58.788 36.000 0.00 0.00 0.00 4.09
2333 2533 5.970612 CACGTGAGATTCAACATTTTCACAA 59.029 36.000 10.90 0.00 35.80 3.33
2381 2588 2.717639 AGCCTAGTTATGCAGGTTGG 57.282 50.000 0.00 0.00 34.18 3.77
2419 2626 2.417719 GTGTTTCTGCCCTCTACACAG 58.582 52.381 0.00 0.00 39.05 3.66
2436 2643 2.936498 CTGTTGGTTCTGAGTTTCGTGT 59.064 45.455 0.00 0.00 0.00 4.49
2441 2648 9.965902 ATATCTAATTCTGTTGGTTCTGAGTTT 57.034 29.630 0.00 0.00 0.00 2.66
2470 2689 9.883142 AAGTTAATCATTTTTGTCCAGTGAAAA 57.117 25.926 0.00 0.00 0.00 2.29
2540 2759 7.096477 CCGTGAAAAGAAAATCTAAAAGTGCTG 60.096 37.037 0.00 0.00 0.00 4.41
2565 2784 8.027189 GTGTAATTTCTTGGAAAGTTATGTCCC 58.973 37.037 0.00 0.00 46.34 4.46
2604 2824 6.494146 AGACTTATATTTAGGAACGGAGGGAG 59.506 42.308 0.00 0.00 0.00 4.30
2605 2825 6.379579 AGACTTATATTTAGGAACGGAGGGA 58.620 40.000 0.00 0.00 0.00 4.20
2606 2826 6.667558 AGACTTATATTTAGGAACGGAGGG 57.332 41.667 0.00 0.00 0.00 4.30
2607 2827 8.959705 AAAAGACTTATATTTAGGAACGGAGG 57.040 34.615 0.00 0.00 0.00 4.30
2634 2854 9.179909 CCGTATGTAGTCCATATTAGAATCTCT 57.820 37.037 0.00 0.00 38.29 3.10
2635 2855 9.175312 TCCGTATGTAGTCCATATTAGAATCTC 57.825 37.037 0.00 0.00 38.29 2.75
2636 2856 9.179909 CTCCGTATGTAGTCCATATTAGAATCT 57.820 37.037 0.00 0.00 38.29 2.40
2637 2857 7.916450 GCTCCGTATGTAGTCCATATTAGAATC 59.084 40.741 0.00 0.00 38.29 2.52
2638 2858 7.396339 TGCTCCGTATGTAGTCCATATTAGAAT 59.604 37.037 0.00 0.00 38.29 2.40
2639 2859 6.717997 TGCTCCGTATGTAGTCCATATTAGAA 59.282 38.462 0.00 0.00 38.29 2.10
2640 2860 6.243148 TGCTCCGTATGTAGTCCATATTAGA 58.757 40.000 0.00 0.00 38.29 2.10
2641 2861 6.510879 TGCTCCGTATGTAGTCCATATTAG 57.489 41.667 0.00 0.00 38.29 1.73
2642 2862 6.904463 TTGCTCCGTATGTAGTCCATATTA 57.096 37.500 0.00 0.00 38.29 0.98
2643 2863 5.801531 TTGCTCCGTATGTAGTCCATATT 57.198 39.130 0.00 0.00 38.29 1.28
2644 2864 5.801531 TTTGCTCCGTATGTAGTCCATAT 57.198 39.130 0.00 0.00 38.29 1.78
2645 2865 5.601583 TTTTGCTCCGTATGTAGTCCATA 57.398 39.130 0.00 0.00 34.86 2.74
2646 2866 4.481368 TTTTGCTCCGTATGTAGTCCAT 57.519 40.909 0.00 0.00 37.58 3.41
2647 2867 3.965379 TTTTGCTCCGTATGTAGTCCA 57.035 42.857 0.00 0.00 0.00 4.02
2648 2868 4.439057 TCATTTTGCTCCGTATGTAGTCC 58.561 43.478 0.00 0.00 0.00 3.85
2649 2869 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
2650 2870 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
2651 2871 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
2652 2872 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
2653 2873 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
2654 2874 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
2655 2875 6.515272 AAATTCACTCATTTTGCTCCGTAT 57.485 33.333 0.00 0.00 0.00 3.06
2656 2876 5.957842 AAATTCACTCATTTTGCTCCGTA 57.042 34.783 0.00 0.00 0.00 4.02
2657 2877 4.853924 AAATTCACTCATTTTGCTCCGT 57.146 36.364 0.00 0.00 0.00 4.69
2658 2878 5.569059 GTGTAAATTCACTCATTTTGCTCCG 59.431 40.000 0.00 0.00 35.68 4.63
2659 2879 6.681777 AGTGTAAATTCACTCATTTTGCTCC 58.318 36.000 0.00 0.00 44.07 4.70
2689 2909 9.610705 ACTACATACGGATGAATATAGACGTAT 57.389 33.333 16.36 0.00 45.07 3.06
2690 2910 9.440773 AACTACATACGGATGAATATAGACGTA 57.559 33.333 16.36 0.00 40.43 3.57
2691 2911 7.918536 ACTACATACGGATGAATATAGACGT 57.081 36.000 16.36 0.00 36.48 4.34
2692 2912 8.448615 TGAACTACATACGGATGAATATAGACG 58.551 37.037 16.36 0.00 36.48 4.18


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

AutoCloner maintained by Alex Coulton.