Multiple sequence alignment - TraesCS7B01G237100

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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 TraesCS7B01G237100 chr7B 100.000 2769 0 0 1 2769 441516591 441513823 0.000000e+00 5114.0
1 TraesCS7B01G237100 chr7B 77.232 672 110 30 5 647 103740244 103739587 1.220000e-93 353.0
2 TraesCS7B01G237100 chr7D 88.221 2046 179 32 1 2002 424105291 424103264 0.000000e+00 2386.0
3 TraesCS7B01G237100 chr7D 81.487 713 56 40 2108 2769 424103267 424102580 1.470000e-142 516.0
4 TraesCS7B01G237100 chr7D 76.522 575 89 26 7 543 538337319 538337885 3.510000e-69 272.0
5 TraesCS7B01G237100 chr7D 78.462 260 52 3 2 260 112155647 112155903 1.710000e-37 167.0
6 TraesCS7B01G237100 chr7A 95.212 898 36 4 806 1701 509209729 509210621 0.000000e+00 1413.0
7 TraesCS7B01G237100 chr7A 81.013 711 46 33 2108 2769 509211064 509211734 1.490000e-132 483.0
8 TraesCS7B01G237100 chr7A 79.344 305 42 8 1714 1999 509210759 509211061 7.820000e-46 195.0
9 TraesCS7B01G237100 chr7A 93.069 101 5 2 1995 2094 127823795 127823894 2.220000e-31 147.0
10 TraesCS7B01G237100 chr3B 80.733 737 110 18 5 717 784172995 784173723 1.880000e-151 545.0
11 TraesCS7B01G237100 chr3B 94.059 101 5 1 2000 2100 598987747 598987648 4.780000e-33 152.0
12 TraesCS7B01G237100 chr5A 78.962 732 115 24 15 723 258035442 258036157 1.940000e-126 462.0
13 TraesCS7B01G237100 chr5D 77.554 744 118 25 5 721 41432033 41431312 1.190000e-108 403.0
14 TraesCS7B01G237100 chr4B 76.747 744 134 21 2 723 100327616 100328342 2.010000e-101 379.0
15 TraesCS7B01G237100 chr4B 78.244 262 54 3 2 262 60540616 60540875 6.140000e-37 165.0
16 TraesCS7B01G237100 chr2B 78.014 564 75 26 10 551 478845665 478846201 2.680000e-80 309.0
17 TraesCS7B01G237100 chrUn 77.850 307 54 7 115 413 69889129 69888829 7.880000e-41 178.0
18 TraesCS7B01G237100 chr1A 94.792 96 5 0 2001 2096 14512458 14512553 1.720000e-32 150.0
19 TraesCS7B01G237100 chr5B 95.652 92 4 0 2008 2099 208583541 208583450 6.180000e-32 148.0
20 TraesCS7B01G237100 chr4A 77.567 263 46 9 135 388 693394109 693394367 2.220000e-31 147.0
21 TraesCS7B01G237100 chr4A 90.816 98 8 1 2000 2096 403270724 403270821 2.240000e-26 130.0
22 TraesCS7B01G237100 chr3D 91.919 99 7 1 2001 2099 577791697 577791600 1.340000e-28 137.0
23 TraesCS7B01G237100 chr3D 92.683 82 6 0 2000 2081 484837890 484837809 4.840000e-23 119.0
24 TraesCS7B01G237100 chr2A 82.828 99 14 3 627 724 647923039 647922943 4.910000e-13 86.1


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 TraesCS7B01G237100 chr7B 441513823 441516591 2768 True 5114 5114 100.000000 1 2769 1 chr7B.!!$R2 2768
1 TraesCS7B01G237100 chr7B 103739587 103740244 657 True 353 353 77.232000 5 647 1 chr7B.!!$R1 642
2 TraesCS7B01G237100 chr7D 424102580 424105291 2711 True 1451 2386 84.854000 1 2769 2 chr7D.!!$R1 2768
3 TraesCS7B01G237100 chr7D 538337319 538337885 566 False 272 272 76.522000 7 543 1 chr7D.!!$F2 536
4 TraesCS7B01G237100 chr7A 509209729 509211734 2005 False 697 1413 85.189667 806 2769 3 chr7A.!!$F2 1963
5 TraesCS7B01G237100 chr3B 784172995 784173723 728 False 545 545 80.733000 5 717 1 chr3B.!!$F1 712
6 TraesCS7B01G237100 chr5A 258035442 258036157 715 False 462 462 78.962000 15 723 1 chr5A.!!$F1 708
7 TraesCS7B01G237100 chr5D 41431312 41432033 721 True 403 403 77.554000 5 721 1 chr5D.!!$R1 716
8 TraesCS7B01G237100 chr4B 100327616 100328342 726 False 379 379 76.747000 2 723 1 chr4B.!!$F2 721
9 TraesCS7B01G237100 chr2B 478845665 478846201 536 False 309 309 78.014000 10 551 1 chr2B.!!$F1 541

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
744 824 0.1791 ATCCGGACAGTTGCAGATCG 60.179 55.0 6.12 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2007 2264 0.034337 TAGTTGGTGGACTGCCGAAC 59.966 55.0 0.0 0.0 36.79 3.95 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 0.250684 TCTTTGTGCATCCGGAAGCA 60.251 50.000 29.31 29.31 38.65 3.91
218 221 2.161486 GTCGTCTCATCCGTGCAGC 61.161 63.158 0.00 0.00 0.00 5.25
228 257 2.270205 CGTGCAGCCCTCCTCATT 59.730 61.111 0.00 0.00 0.00 2.57
373 412 2.361483 TACCTGTGCGGCGGTAGA 60.361 61.111 9.78 0.00 34.76 2.59
402 441 2.287274 TGGAACGGCGATGGAGGAA 61.287 57.895 16.62 0.00 0.00 3.36
544 594 4.408596 GGAGAGAAAATGAGAGGATGGAGT 59.591 45.833 0.00 0.00 0.00 3.85
584 654 1.080638 TGATGGGTTTTGGGTAGGCT 58.919 50.000 0.00 0.00 0.00 4.58
619 689 4.619227 ACGTGGCTGTTGTCGGGG 62.619 66.667 0.00 0.00 0.00 5.73
723 795 3.543884 GGATGGCTAAACACGTCCA 57.456 52.632 0.00 0.00 41.43 4.02
724 796 1.280710 TGGATGGCTAAACACGTCCAT 59.719 47.619 4.01 4.01 45.31 3.41
739 819 1.199615 TCCATATCCGGACAGTTGCA 58.800 50.000 6.12 0.00 0.00 4.08
741 821 1.138859 CCATATCCGGACAGTTGCAGA 59.861 52.381 6.12 0.00 0.00 4.26
744 824 0.179100 ATCCGGACAGTTGCAGATCG 60.179 55.000 6.12 0.00 0.00 3.69
773 853 3.983410 AGATGCCCTAAGGTACCATCATT 59.017 43.478 15.94 1.63 35.84 2.57
781 861 7.621796 CCCTAAGGTACCATCATTAGTATTCC 58.378 42.308 15.94 0.00 32.17 3.01
819 911 1.866853 CGACCCCTGCCTTCAAAAGC 61.867 60.000 0.00 0.00 0.00 3.51
935 1029 1.172180 ACATGGGGAACAAGTGTGCG 61.172 55.000 0.00 0.00 28.30 5.34
968 1062 1.468520 GCGACATGCACACTACCATTT 59.531 47.619 0.00 0.00 45.45 2.32
1056 1152 0.794229 GCACCGCAATGATCAACACG 60.794 55.000 0.00 3.45 0.00 4.49
1060 1156 0.794229 CGCAATGATCAACACGGCAC 60.794 55.000 0.00 0.00 33.14 5.01
1089 1185 2.766313 ACTTCGTGCAACAGCTCATAA 58.234 42.857 0.00 0.00 35.74 1.90
1596 1693 0.033504 CCGTTGAGCAGGTGTACAGT 59.966 55.000 0.00 0.00 0.00 3.55
1597 1694 1.419374 CGTTGAGCAGGTGTACAGTC 58.581 55.000 0.00 0.00 0.00 3.51
1598 1695 1.797025 GTTGAGCAGGTGTACAGTCC 58.203 55.000 0.00 0.00 0.00 3.85
1640 1737 1.787653 GCGTTGAAATATGCGCGTGC 61.788 55.000 15.48 15.48 40.46 5.34
1710 1944 8.545229 TGTGCATTTGTTCTTATATTTTTGGG 57.455 30.769 0.00 0.00 0.00 4.12
1711 1945 8.370940 TGTGCATTTGTTCTTATATTTTTGGGA 58.629 29.630 0.00 0.00 0.00 4.37
1712 1946 9.213799 GTGCATTTGTTCTTATATTTTTGGGAA 57.786 29.630 0.00 0.00 0.00 3.97
1729 1963 2.943033 GGGAATTATCTGGTGACCGTTG 59.057 50.000 0.00 0.00 0.00 4.10
1734 1968 0.537188 ATCTGGTGACCGTTGGCTAG 59.463 55.000 0.00 0.00 0.00 3.42
1735 1969 1.079127 CTGGTGACCGTTGGCTAGG 60.079 63.158 0.00 0.00 0.00 3.02
1740 1974 1.684734 GACCGTTGGCTAGGAGGGA 60.685 63.158 0.00 0.00 0.00 4.20
1744 1978 1.908483 GTTGGCTAGGAGGGAGTGG 59.092 63.158 0.00 0.00 0.00 4.00
1749 1983 0.107643 GCTAGGAGGGAGTGGCATTC 59.892 60.000 0.66 0.66 0.00 2.67
1756 1990 3.571401 GGAGGGAGTGGCATTCATAAATG 59.429 47.826 12.30 0.00 44.31 2.32
1788 2022 6.427547 TGGTATTTTTAGTTGTCTTACGGTGG 59.572 38.462 0.00 0.00 0.00 4.61
1792 2026 1.045407 AGTTGTCTTACGGTGGCAGA 58.955 50.000 0.00 0.00 0.00 4.26
1795 2029 3.259876 AGTTGTCTTACGGTGGCAGATTA 59.740 43.478 0.00 0.00 0.00 1.75
1803 2037 3.270877 ACGGTGGCAGATTATTCAGAAC 58.729 45.455 0.00 0.00 0.00 3.01
1825 2059 1.404391 GCATGACATTTCTGGGCAGAG 59.596 52.381 0.00 0.00 38.88 3.35
1826 2060 2.942752 GCATGACATTTCTGGGCAGAGA 60.943 50.000 0.00 0.00 38.88 3.10
1827 2061 2.479566 TGACATTTCTGGGCAGAGAC 57.520 50.000 0.00 0.00 38.88 3.36
1828 2062 1.699083 TGACATTTCTGGGCAGAGACA 59.301 47.619 0.00 0.00 38.88 3.41
1829 2063 2.289882 TGACATTTCTGGGCAGAGACAG 60.290 50.000 0.00 0.00 38.88 3.51
1839 2093 3.523157 TGGGCAGAGACAGGAAAATATCA 59.477 43.478 0.00 0.00 0.00 2.15
1849 2103 7.568349 AGACAGGAAAATATCATGCAGTTCTA 58.432 34.615 0.00 0.00 43.58 2.10
1852 2106 9.023962 ACAGGAAAATATCATGCAGTTCTAAAA 57.976 29.630 0.00 0.00 43.58 1.52
1875 2129 1.344763 ACTGTCACCTCTAACACAGCC 59.655 52.381 0.00 0.00 40.01 4.85
1896 2150 3.175929 CAAAACTGCGAGGAAAACGTTT 58.824 40.909 7.96 7.96 0.00 3.60
1897 2151 2.468532 AACTGCGAGGAAAACGTTTG 57.531 45.000 15.46 2.42 0.00 2.93
1898 2152 1.375551 ACTGCGAGGAAAACGTTTGT 58.624 45.000 15.46 4.87 0.00 2.83
1913 2167 3.890147 ACGTTTGTAAATGCCAACCCTTA 59.110 39.130 0.00 0.00 0.00 2.69
1914 2168 4.231439 CGTTTGTAAATGCCAACCCTTAC 58.769 43.478 0.00 0.00 0.00 2.34
1918 2172 2.008242 AAATGCCAACCCTTACAGCA 57.992 45.000 0.00 0.00 37.94 4.41
1925 2179 2.100087 CCAACCCTTACAGCAAACGTTT 59.900 45.455 7.96 7.96 0.00 3.60
1941 2195 3.200483 ACGTTTGTCGGTTAGCTTTTCT 58.800 40.909 0.00 0.00 44.69 2.52
2003 2260 9.799106 ATCAGAATTGTTGTAGGAAATATAGGG 57.201 33.333 0.00 0.00 0.00 3.53
2004 2261 7.719633 TCAGAATTGTTGTAGGAAATATAGGGC 59.280 37.037 0.00 0.00 0.00 5.19
2005 2262 6.710744 AGAATTGTTGTAGGAAATATAGGGCG 59.289 38.462 0.00 0.00 0.00 6.13
2006 2263 3.735591 TGTTGTAGGAAATATAGGGCGC 58.264 45.455 0.00 0.00 0.00 6.53
2007 2264 2.735134 GTTGTAGGAAATATAGGGCGCG 59.265 50.000 0.00 0.00 0.00 6.86
2008 2265 1.965643 TGTAGGAAATATAGGGCGCGT 59.034 47.619 8.43 0.00 0.00 6.01
2009 2266 2.366266 TGTAGGAAATATAGGGCGCGTT 59.634 45.455 8.43 0.00 0.00 4.84
2010 2267 2.165319 AGGAAATATAGGGCGCGTTC 57.835 50.000 8.43 0.00 0.00 3.95
2011 2268 0.788391 GGAAATATAGGGCGCGTTCG 59.212 55.000 8.43 0.00 39.07 3.95
2012 2269 0.788391 GAAATATAGGGCGCGTTCGG 59.212 55.000 8.43 0.00 35.95 4.30
2022 2279 4.980805 GCGTTCGGCAGTCCACCA 62.981 66.667 0.00 0.00 42.87 4.17
2023 2280 2.280524 CGTTCGGCAGTCCACCAA 60.281 61.111 0.00 0.00 0.00 3.67
2024 2281 2.604174 CGTTCGGCAGTCCACCAAC 61.604 63.158 0.00 0.00 0.00 3.77
2025 2282 1.227853 GTTCGGCAGTCCACCAACT 60.228 57.895 0.00 0.00 0.00 3.16
2026 2283 0.034337 GTTCGGCAGTCCACCAACTA 59.966 55.000 0.00 0.00 0.00 2.24
2027 2284 0.034337 TTCGGCAGTCCACCAACTAC 59.966 55.000 0.00 0.00 0.00 2.73
2028 2285 0.830444 TCGGCAGTCCACCAACTACT 60.830 55.000 0.00 0.00 0.00 2.57
2029 2286 0.034896 CGGCAGTCCACCAACTACTT 59.965 55.000 0.00 0.00 0.00 2.24
2030 2287 1.809684 GGCAGTCCACCAACTACTTC 58.190 55.000 0.00 0.00 0.00 3.01
2031 2288 1.071699 GGCAGTCCACCAACTACTTCA 59.928 52.381 0.00 0.00 0.00 3.02
2032 2289 2.486548 GGCAGTCCACCAACTACTTCAA 60.487 50.000 0.00 0.00 0.00 2.69
2033 2290 3.211045 GCAGTCCACCAACTACTTCAAA 58.789 45.455 0.00 0.00 0.00 2.69
2034 2291 3.821033 GCAGTCCACCAACTACTTCAAAT 59.179 43.478 0.00 0.00 0.00 2.32
2035 2292 4.278419 GCAGTCCACCAACTACTTCAAATT 59.722 41.667 0.00 0.00 0.00 1.82
2036 2293 5.562890 GCAGTCCACCAACTACTTCAAATTC 60.563 44.000 0.00 0.00 0.00 2.17
2037 2294 5.765182 CAGTCCACCAACTACTTCAAATTCT 59.235 40.000 0.00 0.00 0.00 2.40
2038 2295 6.934645 CAGTCCACCAACTACTTCAAATTCTA 59.065 38.462 0.00 0.00 0.00 2.10
2039 2296 7.118390 CAGTCCACCAACTACTTCAAATTCTAG 59.882 40.741 0.00 0.00 0.00 2.43
2040 2297 7.016268 AGTCCACCAACTACTTCAAATTCTAGA 59.984 37.037 0.00 0.00 0.00 2.43
2041 2298 7.660208 GTCCACCAACTACTTCAAATTCTAGAA 59.340 37.037 7.82 7.82 0.00 2.10
2042 2299 8.383175 TCCACCAACTACTTCAAATTCTAGAAT 58.617 33.333 12.37 12.37 0.00 2.40
2043 2300 8.669243 CCACCAACTACTTCAAATTCTAGAATC 58.331 37.037 18.19 0.00 0.00 2.52
2044 2301 9.442047 CACCAACTACTTCAAATTCTAGAATCT 57.558 33.333 18.19 1.37 0.00 2.40
2045 2302 9.442047 ACCAACTACTTCAAATTCTAGAATCTG 57.558 33.333 18.19 14.92 0.00 2.90
2046 2303 8.394121 CCAACTACTTCAAATTCTAGAATCTGC 58.606 37.037 18.19 0.00 0.00 4.26
2047 2304 7.763172 ACTACTTCAAATTCTAGAATCTGCG 57.237 36.000 18.19 11.27 0.00 5.18
2048 2305 6.758886 ACTACTTCAAATTCTAGAATCTGCGG 59.241 38.462 18.19 12.28 0.00 5.69
2049 2306 5.734720 ACTTCAAATTCTAGAATCTGCGGA 58.265 37.500 18.19 0.00 0.00 5.54
2050 2307 5.814705 ACTTCAAATTCTAGAATCTGCGGAG 59.185 40.000 18.19 14.19 0.00 4.63
2070 2327 3.854856 GCTGTTTGCTGGGTCCAA 58.145 55.556 0.00 0.00 38.95 3.53
2071 2328 1.662044 GCTGTTTGCTGGGTCCAAG 59.338 57.895 0.00 0.00 38.95 3.61
2072 2329 1.809567 GCTGTTTGCTGGGTCCAAGG 61.810 60.000 0.00 0.00 38.95 3.61
2073 2330 0.178992 CTGTTTGCTGGGTCCAAGGA 60.179 55.000 0.00 0.00 0.00 3.36
2074 2331 0.482446 TGTTTGCTGGGTCCAAGGAT 59.518 50.000 0.00 0.00 0.00 3.24
2075 2332 1.133199 TGTTTGCTGGGTCCAAGGATT 60.133 47.619 0.00 0.00 0.00 3.01
2076 2333 1.970640 GTTTGCTGGGTCCAAGGATTT 59.029 47.619 0.00 0.00 0.00 2.17
2077 2334 2.368548 GTTTGCTGGGTCCAAGGATTTT 59.631 45.455 0.00 0.00 0.00 1.82
2078 2335 3.534357 TTGCTGGGTCCAAGGATTTTA 57.466 42.857 0.00 0.00 0.00 1.52
2079 2336 3.534357 TGCTGGGTCCAAGGATTTTAA 57.466 42.857 0.00 0.00 0.00 1.52
2080 2337 3.161866 TGCTGGGTCCAAGGATTTTAAC 58.838 45.455 0.00 0.00 0.00 2.01
2081 2338 3.181423 TGCTGGGTCCAAGGATTTTAACT 60.181 43.478 0.00 0.00 0.00 2.24
2082 2339 4.043561 TGCTGGGTCCAAGGATTTTAACTA 59.956 41.667 0.00 0.00 0.00 2.24
2083 2340 4.398358 GCTGGGTCCAAGGATTTTAACTAC 59.602 45.833 0.00 0.00 0.00 2.73
2084 2341 4.925836 TGGGTCCAAGGATTTTAACTACC 58.074 43.478 0.00 0.00 0.00 3.18
2085 2342 3.943381 GGGTCCAAGGATTTTAACTACCG 59.057 47.826 0.00 0.00 0.00 4.02
2086 2343 3.376234 GGTCCAAGGATTTTAACTACCGC 59.624 47.826 0.00 0.00 0.00 5.68
2087 2344 4.259356 GTCCAAGGATTTTAACTACCGCT 58.741 43.478 0.00 0.00 0.00 5.52
2088 2345 4.331992 GTCCAAGGATTTTAACTACCGCTC 59.668 45.833 0.00 0.00 0.00 5.03
2089 2346 3.626217 CCAAGGATTTTAACTACCGCTCC 59.374 47.826 0.00 0.00 0.00 4.70
2090 2347 3.175109 AGGATTTTAACTACCGCTCCG 57.825 47.619 0.00 0.00 0.00 4.63
2103 2360 4.069232 CTCCGGGAGCAGAACGCA 62.069 66.667 11.83 0.00 46.13 5.24
2104 2361 3.997064 CTCCGGGAGCAGAACGCAG 62.997 68.421 11.83 0.00 46.13 5.18
2107 2364 4.704833 GGGAGCAGAACGCAGCCA 62.705 66.667 0.00 0.00 46.13 4.75
2119 2376 1.414181 ACGCAGCCATAGACTTATGCT 59.586 47.619 0.00 0.00 36.20 3.79
2160 2417 2.298163 CAACAGCAGAAGAGGGCAAAAT 59.702 45.455 0.00 0.00 0.00 1.82
2195 2452 5.308825 GCTGAGGGCTGCTAATTAAGAATA 58.691 41.667 0.00 0.00 38.06 1.75
2197 2454 6.093357 GCTGAGGGCTGCTAATTAAGAATATC 59.907 42.308 0.00 0.00 38.06 1.63
2220 2477 1.261619 GGAACTGCGATTTCATAGGCG 59.738 52.381 0.00 0.00 0.00 5.52
2292 2549 9.787532 ATAAAATCTCGTGTTTCAATGTATTGG 57.212 29.630 4.89 0.00 38.30 3.16
2302 2559 7.554835 GTGTTTCAATGTATTGGGGTACATAGA 59.445 37.037 4.89 0.00 42.79 1.98
2319 2576 6.650427 ACATAGAGGAACAAGCGATATACA 57.350 37.500 0.00 0.00 0.00 2.29
2333 2590 5.753438 AGCGATATACAATACAAGTGTGTGG 59.247 40.000 0.00 0.00 38.82 4.17
2336 2593 6.292328 CGATATACAATACAAGTGTGTGGCTG 60.292 42.308 0.00 0.00 38.82 4.85
2351 2608 3.578282 TGTGGCTGTCATGAAGTAAGAGA 59.422 43.478 0.00 0.00 0.00 3.10
2361 2618 8.539544 TGTCATGAAGTAAGAGATAAATGGACA 58.460 33.333 0.00 0.00 0.00 4.02
2408 2665 6.202570 ACGAGTAATCGAATCCACTAGTAGAC 59.797 42.308 20.67 0.00 36.85 2.59
2409 2666 6.542574 AGTAATCGAATCCACTAGTAGACG 57.457 41.667 3.59 0.00 0.00 4.18
2410 2667 4.832590 AATCGAATCCACTAGTAGACGG 57.167 45.455 3.59 4.17 0.00 4.79
2411 2668 2.569059 TCGAATCCACTAGTAGACGGG 58.431 52.381 3.59 2.75 0.00 5.28
2412 2669 2.171237 TCGAATCCACTAGTAGACGGGA 59.829 50.000 3.59 8.15 0.00 5.14
2413 2670 2.947652 CGAATCCACTAGTAGACGGGAA 59.052 50.000 3.59 0.00 0.00 3.97
2414 2671 3.003482 CGAATCCACTAGTAGACGGGAAG 59.997 52.174 3.59 1.58 0.00 3.46
2415 2672 1.760192 TCCACTAGTAGACGGGAAGC 58.240 55.000 3.59 0.00 0.00 3.86
2451 2708 0.391263 GGCGGACCTAGAACCAACTG 60.391 60.000 0.00 0.00 0.00 3.16
2452 2709 0.606604 GCGGACCTAGAACCAACTGA 59.393 55.000 0.00 0.00 0.00 3.41
2453 2710 1.404315 GCGGACCTAGAACCAACTGAG 60.404 57.143 0.00 0.00 0.00 3.35
2454 2711 1.404315 CGGACCTAGAACCAACTGAGC 60.404 57.143 0.00 0.00 0.00 4.26
2455 2712 1.623811 GGACCTAGAACCAACTGAGCA 59.376 52.381 0.00 0.00 0.00 4.26
2456 2713 2.613223 GGACCTAGAACCAACTGAGCAC 60.613 54.545 0.00 0.00 0.00 4.40
2457 2714 2.037251 GACCTAGAACCAACTGAGCACA 59.963 50.000 0.00 0.00 0.00 4.57
2458 2715 2.438021 ACCTAGAACCAACTGAGCACAA 59.562 45.455 0.00 0.00 0.00 3.33
2459 2716 2.808543 CCTAGAACCAACTGAGCACAAC 59.191 50.000 0.00 0.00 0.00 3.32
2463 2720 2.319136 ACCAACTGAGCACAACGTAA 57.681 45.000 0.00 0.00 0.00 3.18
2466 2723 3.067106 CCAACTGAGCACAACGTAATCT 58.933 45.455 0.00 0.00 0.00 2.40
2475 2732 3.991773 GCACAACGTAATCTAGTGTTGGA 59.008 43.478 8.57 0.00 44.47 3.53
2495 2752 7.884877 TGTTGGATCAGTAATCAGTTTCAAGAT 59.115 33.333 0.00 0.00 35.96 2.40
2582 2850 4.217118 GCACATCAGAGATTTTTCACCACT 59.783 41.667 0.00 0.00 0.00 4.00
2583 2851 5.412594 GCACATCAGAGATTTTTCACCACTA 59.587 40.000 0.00 0.00 0.00 2.74
2592 2883 7.337942 AGAGATTTTTCACCACTAGCCAAATAG 59.662 37.037 0.00 0.00 0.00 1.73
2597 2888 5.366482 TCACCACTAGCCAAATAGCAATA 57.634 39.130 0.00 0.00 34.23 1.90
2623 2914 5.182487 TCTAAGTTCAAACTGAGCACAACA 58.818 37.500 2.76 0.00 37.41 3.33
2678 2996 5.147330 TGACTACCTGTGTTGGAACATAG 57.853 43.478 8.81 8.81 44.66 2.23
2684 3002 3.750371 CTGTGTTGGAACATAGGTTGGA 58.250 45.455 0.00 0.00 42.34 3.53
2685 3003 4.335416 CTGTGTTGGAACATAGGTTGGAT 58.665 43.478 0.00 0.00 42.34 3.41
2686 3004 4.331968 TGTGTTGGAACATAGGTTGGATC 58.668 43.478 0.00 0.00 41.59 3.36
2687 3005 3.374058 GTGTTGGAACATAGGTTGGATCG 59.626 47.826 0.00 0.00 41.59 3.69
2688 3006 3.008594 TGTTGGAACATAGGTTGGATCGT 59.991 43.478 0.00 0.00 39.30 3.73
2689 3007 3.992943 TGGAACATAGGTTGGATCGTT 57.007 42.857 0.00 0.00 37.36 3.85
2690 3008 4.295141 TGGAACATAGGTTGGATCGTTT 57.705 40.909 0.00 0.00 37.36 3.60
2691 3009 4.006989 TGGAACATAGGTTGGATCGTTTG 58.993 43.478 0.00 0.00 37.36 2.93
2692 3010 4.258543 GGAACATAGGTTGGATCGTTTGA 58.741 43.478 0.00 0.00 37.36 2.69
2693 3011 4.332819 GGAACATAGGTTGGATCGTTTGAG 59.667 45.833 0.00 0.00 37.36 3.02
2694 3012 4.819105 ACATAGGTTGGATCGTTTGAGA 57.181 40.909 0.00 0.00 0.00 3.27
2695 3013 5.359194 ACATAGGTTGGATCGTTTGAGAT 57.641 39.130 0.00 0.00 0.00 2.75
2711 3029 2.899900 TGAGATGCAACTGTCAGGTACT 59.100 45.455 0.00 0.00 43.88 2.73
2712 3030 3.056536 TGAGATGCAACTGTCAGGTACTC 60.057 47.826 0.00 5.85 34.60 2.59
2753 3071 1.787155 CTGTCACAAGAACGAACCTCG 59.213 52.381 0.00 0.00 46.93 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 0.655733 CGCTGATAATTTTCGCCGGT 59.344 50.000 1.90 0.00 0.00 5.28
96 99 0.880278 GCAGTCAACCGCAACAGAGA 60.880 55.000 0.00 0.00 0.00 3.10
226 255 2.739932 GCACTATGCTGAGTCGTCCAAT 60.740 50.000 0.00 0.00 40.96 3.16
228 257 0.173481 GCACTATGCTGAGTCGTCCA 59.827 55.000 0.00 0.00 40.96 4.02
373 412 2.058675 CCGTTCCACACCTCTCCTT 58.941 57.895 0.00 0.00 0.00 3.36
480 520 2.825836 CGCTGCTTCACCATCCCC 60.826 66.667 0.00 0.00 0.00 4.81
560 620 3.007506 CCTACCCAAAACCCATCAAAACC 59.992 47.826 0.00 0.00 0.00 3.27
584 654 1.833492 TCGAACTTCGACACCCCCA 60.833 57.895 9.86 0.00 44.82 4.96
723 795 2.288457 CGATCTGCAACTGTCCGGATAT 60.288 50.000 7.81 0.00 0.00 1.63
724 796 1.067060 CGATCTGCAACTGTCCGGATA 59.933 52.381 7.81 3.21 0.00 2.59
739 819 0.179034 GGGCATCTCCAAAGCGATCT 60.179 55.000 0.00 0.00 36.21 2.75
741 821 1.131638 TAGGGCATCTCCAAAGCGAT 58.868 50.000 0.00 0.00 36.21 4.58
744 824 1.064389 ACCTTAGGGCATCTCCAAAGC 60.064 52.381 2.32 0.00 36.21 3.51
789 871 3.647771 GGGGTCGCCCTCCTTTGT 61.648 66.667 13.58 0.00 44.66 2.83
801 883 1.866853 CGCTTTTGAAGGCAGGGGTC 61.867 60.000 0.00 0.00 0.00 4.46
935 1029 2.903678 CATGTCGCGTGTATTATTGCC 58.096 47.619 5.77 0.00 0.00 4.52
968 1062 0.903454 GAAGGGGTCGAGTTGAGGGA 60.903 60.000 0.00 0.00 0.00 4.20
1060 1156 4.490799 GCTGTTGCACGAAGTTTTTCTTTG 60.491 41.667 0.00 0.00 41.61 2.77
1089 1185 1.099879 GCAAGCTCTGGCGATCCATT 61.100 55.000 0.00 0.00 42.51 3.16
1194 1291 4.008933 GGCGTGTCCTCCAGCAGT 62.009 66.667 0.00 0.00 0.00 4.40
1534 1631 5.363868 TGTAGTAGGATGATTCCCTGAACTG 59.636 44.000 0.00 0.00 43.76 3.16
1640 1737 2.872245 TCAGCTCACAACCTCTTTTTCG 59.128 45.455 0.00 0.00 0.00 3.46
1641 1738 4.900635 TTCAGCTCACAACCTCTTTTTC 57.099 40.909 0.00 0.00 0.00 2.29
1710 1944 2.354821 GCCAACGGTCACCAGATAATTC 59.645 50.000 0.00 0.00 0.00 2.17
1711 1945 2.026262 AGCCAACGGTCACCAGATAATT 60.026 45.455 0.00 0.00 0.00 1.40
1712 1946 1.559682 AGCCAACGGTCACCAGATAAT 59.440 47.619 0.00 0.00 0.00 1.28
1729 1963 1.348775 AATGCCACTCCCTCCTAGCC 61.349 60.000 0.00 0.00 0.00 3.93
1734 1968 3.297134 TTTATGAATGCCACTCCCTCC 57.703 47.619 0.00 0.00 0.00 4.30
1735 1969 4.210331 ACATTTATGAATGCCACTCCCTC 58.790 43.478 9.96 0.00 45.25 4.30
1740 1974 6.819649 CCATCAAAACATTTATGAATGCCACT 59.180 34.615 9.96 0.00 45.25 4.00
1781 2015 4.161565 AGTTCTGAATAATCTGCCACCGTA 59.838 41.667 0.00 0.00 0.00 4.02
1783 2017 3.310774 CAGTTCTGAATAATCTGCCACCG 59.689 47.826 0.00 0.00 0.00 4.94
1803 2037 1.134367 CTGCCCAGAAATGTCATGCAG 59.866 52.381 6.27 6.27 36.34 4.41
1807 2041 2.306805 TGTCTCTGCCCAGAAATGTCAT 59.693 45.455 0.00 0.00 36.94 3.06
1825 2059 6.690194 AGAACTGCATGATATTTTCCTGTC 57.310 37.500 0.00 0.00 0.00 3.51
1826 2060 8.579850 TTTAGAACTGCATGATATTTTCCTGT 57.420 30.769 0.00 0.00 0.00 4.00
1827 2061 9.859427 TTTTTAGAACTGCATGATATTTTCCTG 57.141 29.630 0.00 0.00 0.00 3.86
1852 2106 3.877508 GCTGTGTTAGAGGTGACAGTTTT 59.122 43.478 0.00 0.00 38.47 2.43
1862 2116 2.030805 GCAGTTTTGGCTGTGTTAGAGG 60.031 50.000 0.00 0.00 38.65 3.69
1866 2120 1.601903 CTCGCAGTTTTGGCTGTGTTA 59.398 47.619 6.54 0.00 44.65 2.41
1867 2121 0.381801 CTCGCAGTTTTGGCTGTGTT 59.618 50.000 6.54 0.00 44.65 3.32
1869 2123 1.165907 TCCTCGCAGTTTTGGCTGTG 61.166 55.000 0.00 0.00 45.43 3.66
1873 2127 1.487482 GTTTTCCTCGCAGTTTTGGC 58.513 50.000 0.00 0.00 0.00 4.52
1875 2129 2.468532 ACGTTTTCCTCGCAGTTTTG 57.531 45.000 0.00 0.00 0.00 2.44
1896 2150 2.823154 GCTGTAAGGGTTGGCATTTACA 59.177 45.455 11.36 11.36 35.43 2.41
1897 2151 2.823154 TGCTGTAAGGGTTGGCATTTAC 59.177 45.455 0.00 0.00 0.00 2.01
1898 2152 3.162147 TGCTGTAAGGGTTGGCATTTA 57.838 42.857 0.00 0.00 0.00 1.40
1913 2167 0.806241 AACCGACAAACGTTTGCTGT 59.194 45.000 34.70 26.18 41.79 4.40
1914 2168 2.635444 CTAACCGACAAACGTTTGCTG 58.365 47.619 34.70 26.96 41.79 4.41
1918 2172 4.095334 AGAAAAGCTAACCGACAAACGTTT 59.905 37.500 7.96 7.96 40.78 3.60
1925 2179 3.314080 CCAAACAGAAAAGCTAACCGACA 59.686 43.478 0.00 0.00 0.00 4.35
2005 2262 4.980805 TGGTGGACTGCCGAACGC 62.981 66.667 0.00 0.00 36.79 4.84
2006 2263 2.280524 TTGGTGGACTGCCGAACG 60.281 61.111 0.00 0.00 36.79 3.95
2007 2264 0.034337 TAGTTGGTGGACTGCCGAAC 59.966 55.000 0.00 0.00 36.79 3.95
2008 2265 0.034337 GTAGTTGGTGGACTGCCGAA 59.966 55.000 0.00 0.00 36.79 4.30
2009 2266 0.830444 AGTAGTTGGTGGACTGCCGA 60.830 55.000 0.00 0.00 36.79 5.54
2010 2267 0.034896 AAGTAGTTGGTGGACTGCCG 59.965 55.000 0.00 0.00 36.79 5.69
2011 2268 1.071699 TGAAGTAGTTGGTGGACTGCC 59.928 52.381 0.00 0.00 33.37 4.85
2012 2269 2.543777 TGAAGTAGTTGGTGGACTGC 57.456 50.000 0.00 0.00 33.12 4.40
2013 2270 5.765182 AGAATTTGAAGTAGTTGGTGGACTG 59.235 40.000 0.00 0.00 0.00 3.51
2014 2271 5.941788 AGAATTTGAAGTAGTTGGTGGACT 58.058 37.500 0.00 0.00 0.00 3.85
2015 2272 7.159372 TCTAGAATTTGAAGTAGTTGGTGGAC 58.841 38.462 0.00 0.00 0.00 4.02
2016 2273 7.311092 TCTAGAATTTGAAGTAGTTGGTGGA 57.689 36.000 0.00 0.00 0.00 4.02
2017 2274 7.979444 TTCTAGAATTTGAAGTAGTTGGTGG 57.021 36.000 0.00 0.00 0.00 4.61
2018 2275 9.442047 AGATTCTAGAATTTGAAGTAGTTGGTG 57.558 33.333 18.88 0.00 0.00 4.17
2019 2276 9.442047 CAGATTCTAGAATTTGAAGTAGTTGGT 57.558 33.333 24.80 0.00 35.60 3.67
2020 2277 8.394121 GCAGATTCTAGAATTTGAAGTAGTTGG 58.606 37.037 30.38 8.58 35.60 3.77
2021 2278 8.113062 CGCAGATTCTAGAATTTGAAGTAGTTG 58.887 37.037 30.38 13.35 35.60 3.16
2022 2279 7.278868 CCGCAGATTCTAGAATTTGAAGTAGTT 59.721 37.037 30.38 3.67 35.60 2.24
2023 2280 6.758886 CCGCAGATTCTAGAATTTGAAGTAGT 59.241 38.462 30.38 4.16 35.60 2.73
2024 2281 6.980978 TCCGCAGATTCTAGAATTTGAAGTAG 59.019 38.462 30.38 17.93 35.60 2.57
2025 2282 6.873997 TCCGCAGATTCTAGAATTTGAAGTA 58.126 36.000 30.38 13.70 35.60 2.24
2026 2283 5.734720 TCCGCAGATTCTAGAATTTGAAGT 58.265 37.500 30.38 6.23 35.60 3.01
2027 2284 5.277250 GCTCCGCAGATTCTAGAATTTGAAG 60.277 44.000 30.38 23.87 35.60 3.02
2028 2285 4.572389 GCTCCGCAGATTCTAGAATTTGAA 59.428 41.667 30.38 17.60 35.60 2.69
2029 2286 4.122776 GCTCCGCAGATTCTAGAATTTGA 58.877 43.478 30.38 14.83 35.60 2.69
2030 2287 3.873361 TGCTCCGCAGATTCTAGAATTTG 59.127 43.478 24.75 24.75 36.37 2.32
2031 2288 4.142609 TGCTCCGCAGATTCTAGAATTT 57.857 40.909 18.88 10.95 33.32 1.82
2032 2289 3.827008 TGCTCCGCAGATTCTAGAATT 57.173 42.857 18.88 6.84 33.32 2.17
2044 2301 3.663176 GCAAACAGCTGCTCCGCA 61.663 61.111 15.27 0.00 39.34 5.69
2053 2310 1.662044 CTTGGACCCAGCAAACAGC 59.338 57.895 0.00 0.00 46.19 4.40
2054 2311 0.178992 TCCTTGGACCCAGCAAACAG 60.179 55.000 0.00 0.00 0.00 3.16
2055 2312 0.482446 ATCCTTGGACCCAGCAAACA 59.518 50.000 0.00 0.00 0.00 2.83
2056 2313 1.632589 AATCCTTGGACCCAGCAAAC 58.367 50.000 0.00 0.00 0.00 2.93
2057 2314 2.397044 AAATCCTTGGACCCAGCAAA 57.603 45.000 0.00 0.00 0.00 3.68
2058 2315 2.397044 AAAATCCTTGGACCCAGCAA 57.603 45.000 0.00 0.00 0.00 3.91
2059 2316 3.161866 GTTAAAATCCTTGGACCCAGCA 58.838 45.455 0.00 0.00 0.00 4.41
2060 2317 3.431415 AGTTAAAATCCTTGGACCCAGC 58.569 45.455 0.00 0.00 0.00 4.85
2061 2318 4.948004 GGTAGTTAAAATCCTTGGACCCAG 59.052 45.833 0.00 0.00 0.00 4.45
2062 2319 4.566070 CGGTAGTTAAAATCCTTGGACCCA 60.566 45.833 0.00 0.00 0.00 4.51
2063 2320 3.943381 CGGTAGTTAAAATCCTTGGACCC 59.057 47.826 0.00 0.00 0.00 4.46
2064 2321 3.376234 GCGGTAGTTAAAATCCTTGGACC 59.624 47.826 0.00 0.00 0.00 4.46
2065 2322 4.259356 AGCGGTAGTTAAAATCCTTGGAC 58.741 43.478 0.00 0.00 0.00 4.02
2066 2323 4.510571 GAGCGGTAGTTAAAATCCTTGGA 58.489 43.478 0.00 0.00 0.00 3.53
2067 2324 3.626217 GGAGCGGTAGTTAAAATCCTTGG 59.374 47.826 0.00 0.00 0.00 3.61
2068 2325 3.308866 CGGAGCGGTAGTTAAAATCCTTG 59.691 47.826 0.00 0.00 0.00 3.61
2069 2326 3.528532 CGGAGCGGTAGTTAAAATCCTT 58.471 45.455 0.00 0.00 0.00 3.36
2070 2327 2.159000 CCGGAGCGGTAGTTAAAATCCT 60.159 50.000 0.00 0.00 42.73 3.24
2071 2328 2.207590 CCGGAGCGGTAGTTAAAATCC 58.792 52.381 0.00 0.00 42.73 3.01
2072 2329 2.159057 TCCCGGAGCGGTAGTTAAAATC 60.159 50.000 0.73 0.00 46.80 2.17
2073 2330 1.832998 TCCCGGAGCGGTAGTTAAAAT 59.167 47.619 0.73 0.00 46.80 1.82
2074 2331 1.205417 CTCCCGGAGCGGTAGTTAAAA 59.795 52.381 0.73 0.00 46.80 1.52
2075 2332 0.819582 CTCCCGGAGCGGTAGTTAAA 59.180 55.000 0.73 0.00 46.80 1.52
2076 2333 1.669999 GCTCCCGGAGCGGTAGTTAA 61.670 60.000 23.58 0.00 45.85 2.01
2077 2334 2.123428 GCTCCCGGAGCGGTAGTTA 61.123 63.158 23.58 0.00 45.85 2.24
2078 2335 3.459063 GCTCCCGGAGCGGTAGTT 61.459 66.667 23.58 0.00 45.85 2.24
2086 2343 3.997064 CTGCGTTCTGCTCCCGGAG 62.997 68.421 10.41 10.41 46.63 4.63
2087 2344 4.069232 CTGCGTTCTGCTCCCGGA 62.069 66.667 0.73 0.00 46.63 5.14
2090 2347 2.593468 TATGGCTGCGTTCTGCTCCC 62.593 60.000 0.00 0.00 46.63 4.30
2091 2348 1.153369 TATGGCTGCGTTCTGCTCC 60.153 57.895 0.00 0.00 46.63 4.70
2092 2349 0.179100 TCTATGGCTGCGTTCTGCTC 60.179 55.000 0.00 0.00 46.63 4.26
2093 2350 0.460987 GTCTATGGCTGCGTTCTGCT 60.461 55.000 0.00 0.00 46.63 4.24
2094 2351 0.460987 AGTCTATGGCTGCGTTCTGC 60.461 55.000 0.00 0.00 46.70 4.26
2095 2352 2.015736 AAGTCTATGGCTGCGTTCTG 57.984 50.000 0.00 0.00 0.00 3.02
2096 2353 3.722147 CATAAGTCTATGGCTGCGTTCT 58.278 45.455 0.00 0.00 32.63 3.01
2097 2354 2.221981 GCATAAGTCTATGGCTGCGTTC 59.778 50.000 0.00 0.00 36.22 3.95
2098 2355 2.158900 AGCATAAGTCTATGGCTGCGTT 60.159 45.455 0.00 0.00 36.22 4.84
2099 2356 1.414181 AGCATAAGTCTATGGCTGCGT 59.586 47.619 0.00 0.00 36.22 5.24
2100 2357 2.160822 AGCATAAGTCTATGGCTGCG 57.839 50.000 0.00 0.00 36.22 5.18
2101 2358 3.209410 ACAAGCATAAGTCTATGGCTGC 58.791 45.455 0.00 0.00 36.22 5.25
2102 2359 4.445453 TGACAAGCATAAGTCTATGGCTG 58.555 43.478 0.00 0.00 36.22 4.85
2103 2360 4.406972 TCTGACAAGCATAAGTCTATGGCT 59.593 41.667 0.00 0.00 36.22 4.75
2104 2361 4.697514 TCTGACAAGCATAAGTCTATGGC 58.302 43.478 0.00 0.00 36.22 4.40
2105 2362 5.931146 GGATCTGACAAGCATAAGTCTATGG 59.069 44.000 0.00 0.00 36.22 2.74
2106 2363 5.632764 CGGATCTGACAAGCATAAGTCTATG 59.367 44.000 0.00 0.00 38.39 2.23
2107 2364 5.777802 CGGATCTGACAAGCATAAGTCTAT 58.222 41.667 0.00 0.00 35.81 1.98
2160 2417 0.895530 CCCTCAGCCGAGTCTTACAA 59.104 55.000 0.00 0.00 37.59 2.41
2195 2452 4.758674 CCTATGAAATCGCAGTTCCATGAT 59.241 41.667 0.00 0.00 0.00 2.45
2197 2454 3.304257 GCCTATGAAATCGCAGTTCCATG 60.304 47.826 0.00 0.00 0.00 3.66
2220 2477 3.128242 CCAGATGCAGGAATCAAACTGTC 59.872 47.826 0.00 0.00 37.07 3.51
2267 2524 8.240682 CCCAATACATTGAAACACGAGATTTTA 58.759 33.333 3.48 0.00 40.14 1.52
2268 2525 7.090173 CCCAATACATTGAAACACGAGATTTT 58.910 34.615 3.48 0.00 40.14 1.82
2269 2526 6.350110 CCCCAATACATTGAAACACGAGATTT 60.350 38.462 3.48 0.00 40.14 2.17
2285 2542 5.282129 TGTTCCTCTATGTACCCCAATACA 58.718 41.667 0.00 0.00 39.35 2.29
2287 2544 5.163237 GCTTGTTCCTCTATGTACCCCAATA 60.163 44.000 0.00 0.00 0.00 1.90
2292 2549 2.429610 TCGCTTGTTCCTCTATGTACCC 59.570 50.000 0.00 0.00 0.00 3.69
2302 2559 7.224753 CACTTGTATTGTATATCGCTTGTTCCT 59.775 37.037 0.00 0.00 0.00 3.36
2319 2576 3.207265 TGACAGCCACACACTTGTATT 57.793 42.857 0.00 0.00 33.30 1.89
2333 2590 7.712639 TCCATTTATCTCTTACTTCATGACAGC 59.287 37.037 0.00 0.00 0.00 4.40
2336 2593 8.948631 TGTCCATTTATCTCTTACTTCATGAC 57.051 34.615 0.00 0.00 0.00 3.06
2351 2608 4.647611 TCTGTGACCGTTTGTCCATTTAT 58.352 39.130 0.00 0.00 43.78 1.40
2361 2618 4.866508 TCTCATTACTCTGTGACCGTTT 57.133 40.909 0.00 0.00 0.00 3.60
2370 2627 6.716438 TCGATTACTCGTTCTCATTACTCTG 58.284 40.000 2.20 0.00 45.25 3.35
2410 2667 2.266816 CTTACCCCTTCCCGGCTTCC 62.267 65.000 0.00 0.00 0.00 3.46
2411 2668 1.223763 CTTACCCCTTCCCGGCTTC 59.776 63.158 0.00 0.00 0.00 3.86
2412 2669 2.980177 GCTTACCCCTTCCCGGCTT 61.980 63.158 0.00 0.00 0.00 4.35
2413 2670 3.408853 GCTTACCCCTTCCCGGCT 61.409 66.667 0.00 0.00 0.00 5.52
2414 2671 3.699134 CTGCTTACCCCTTCCCGGC 62.699 68.421 0.00 0.00 0.00 6.13
2415 2672 2.590092 CTGCTTACCCCTTCCCGG 59.410 66.667 0.00 0.00 0.00 5.73
2451 2708 4.091509 CCAACACTAGATTACGTTGTGCTC 59.908 45.833 0.00 0.00 37.60 4.26
2452 2709 3.994392 CCAACACTAGATTACGTTGTGCT 59.006 43.478 0.00 0.00 37.60 4.40
2453 2710 3.991773 TCCAACACTAGATTACGTTGTGC 59.008 43.478 0.00 0.00 37.60 4.57
2454 2711 5.867174 TGATCCAACACTAGATTACGTTGTG 59.133 40.000 0.00 0.00 37.60 3.33
2455 2712 6.032956 TGATCCAACACTAGATTACGTTGT 57.967 37.500 0.00 0.00 37.60 3.32
2456 2713 6.100004 ACTGATCCAACACTAGATTACGTTG 58.900 40.000 0.00 2.15 38.73 4.10
2457 2714 6.282199 ACTGATCCAACACTAGATTACGTT 57.718 37.500 0.00 0.00 0.00 3.99
2458 2715 5.916661 ACTGATCCAACACTAGATTACGT 57.083 39.130 0.00 0.00 0.00 3.57
2459 2716 8.135529 TGATTACTGATCCAACACTAGATTACG 58.864 37.037 0.00 0.00 33.60 3.18
2463 2720 7.667575 ACTGATTACTGATCCAACACTAGAT 57.332 36.000 0.00 0.00 33.60 1.98
2466 2723 7.676004 TGAAACTGATTACTGATCCAACACTA 58.324 34.615 0.00 0.00 33.60 2.74
2495 2752 9.271828 TCGCATTCTTAAAAGATGAAGCATATA 57.728 29.630 0.00 0.00 34.49 0.86
2519 2777 7.058806 GCAATAATCTTCGCTTCACATTATTCG 59.941 37.037 0.00 0.00 30.59 3.34
2520 2778 7.857389 TGCAATAATCTTCGCTTCACATTATTC 59.143 33.333 0.00 0.00 30.59 1.75
2582 2850 9.326413 GAACTTAGAAGTATTGCTATTTGGCTA 57.674 33.333 0.00 0.00 38.57 3.93
2583 2851 7.829211 TGAACTTAGAAGTATTGCTATTTGGCT 59.171 33.333 0.00 0.00 38.57 4.75
2592 2883 7.018235 GCTCAGTTTGAACTTAGAAGTATTGC 58.982 38.462 8.79 0.00 38.57 3.56
2597 2888 5.428253 TGTGCTCAGTTTGAACTTAGAAGT 58.572 37.500 8.79 0.00 42.04 3.01
2623 2914 8.418597 TTGGTAAATCTTACAGTAGTCTCAGT 57.581 34.615 0.00 0.00 0.00 3.41
2678 2996 2.083774 TGCATCTCAAACGATCCAACC 58.916 47.619 0.00 0.00 0.00 3.77
2680 2998 3.189080 CAGTTGCATCTCAAACGATCCAA 59.811 43.478 0.00 0.00 36.26 3.53
2681 2999 2.743664 CAGTTGCATCTCAAACGATCCA 59.256 45.455 0.00 0.00 36.26 3.41
2682 3000 2.744202 ACAGTTGCATCTCAAACGATCC 59.256 45.455 0.00 0.00 36.26 3.36
2683 3001 3.433274 TGACAGTTGCATCTCAAACGATC 59.567 43.478 0.00 0.00 36.26 3.69
2684 3002 3.402110 TGACAGTTGCATCTCAAACGAT 58.598 40.909 0.00 0.00 36.26 3.73
2685 3003 2.802247 CTGACAGTTGCATCTCAAACGA 59.198 45.455 0.00 0.00 36.26 3.85
2686 3004 2.096069 CCTGACAGTTGCATCTCAAACG 60.096 50.000 0.93 0.00 36.26 3.60
2687 3005 2.880890 ACCTGACAGTTGCATCTCAAAC 59.119 45.455 0.93 0.00 36.26 2.93
2688 3006 3.213206 ACCTGACAGTTGCATCTCAAA 57.787 42.857 0.93 0.00 36.26 2.69
2689 3007 2.936919 ACCTGACAGTTGCATCTCAA 57.063 45.000 0.93 0.00 0.00 3.02
2690 3008 2.899900 AGTACCTGACAGTTGCATCTCA 59.100 45.455 0.93 0.00 0.00 3.27
2691 3009 3.516615 GAGTACCTGACAGTTGCATCTC 58.483 50.000 0.93 0.00 0.00 2.75
2692 3010 2.234908 GGAGTACCTGACAGTTGCATCT 59.765 50.000 0.93 0.00 0.00 2.90
2693 3011 2.028112 TGGAGTACCTGACAGTTGCATC 60.028 50.000 0.93 0.00 37.04 3.91
2694 3012 1.977854 TGGAGTACCTGACAGTTGCAT 59.022 47.619 0.93 0.00 37.04 3.96
2695 3013 1.419381 TGGAGTACCTGACAGTTGCA 58.581 50.000 0.93 0.00 37.04 4.08
2711 3029 5.591472 CAGCTTGAACCTATTGATTCATGGA 59.409 40.000 0.00 0.00 34.87 3.41
2712 3030 5.359009 ACAGCTTGAACCTATTGATTCATGG 59.641 40.000 0.00 0.00 34.87 3.66


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

AutoCloner maintained by Alex Coulton.