Multiple sequence alignment - TraesCS6A01G323300

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6A01G323300 chr6A 100.000 2555 0 0 1 2555 556761400 556763954 0.000000e+00 4719.0
1 TraesCS6A01G323300 chr6A 85.075 134 17 1 2373 2506 556864636 556864766 1.590000e-27 134.0
2 TraesCS6A01G323300 chr6D 87.569 1979 116 52 48 1955 411811524 411813443 0.000000e+00 2172.0
3 TraesCS6A01G323300 chr6D 85.405 370 44 9 2125 2486 411813429 411813796 2.400000e-100 375.0
4 TraesCS6A01G323300 chr6B 88.507 931 59 26 1 907 619719840 619720746 0.000000e+00 1083.0
5 TraesCS6A01G323300 chr6B 87.421 946 72 16 933 1851 619720829 619721754 0.000000e+00 1044.0
6 TraesCS6A01G323300 chr6B 85.682 440 46 14 2125 2552 619721813 619722247 5.010000e-122 448.0
7 TraesCS6A01G323300 chr6B 90.141 71 4 2 1887 1954 619721756 619721826 3.500000e-14 89.8
8 TraesCS6A01G323300 chr7D 93.960 149 5 2 1131 1278 118873688 118873833 3.310000e-54 222.0
9 TraesCS6A01G323300 chr7B 91.946 149 8 3 1131 1278 79734027 79734172 3.330000e-49 206.0
10 TraesCS6A01G323300 chr7A 91.946 149 8 2 1131 1278 122914867 122915012 3.330000e-49 206.0


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 TraesCS6A01G323300 chr6A 556761400 556763954 2554 False 4719.0 4719 100.00000 1 2555 1 chr6A.!!$F1 2554
1 TraesCS6A01G323300 chr6D 411811524 411813796 2272 False 1273.5 2172 86.48700 48 2486 2 chr6D.!!$F1 2438
2 TraesCS6A01G323300 chr6B 619719840 619722247 2407 False 666.2 1083 87.93775 1 2552 4 chr6B.!!$F1 2551

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
842 899 0.179004 TGGTAGTGGTTGCAACTGGG 60.179 55.0 27.64 0.0 0.0 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1966 2130 0.107945 CAGTCAACTGAGGCCTAGCC 60.108 60.0 4.42 0.0 46.59 3.93 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
29 30 2.281761 CAACGTCAAGGGGCAGCT 60.282 61.111 0.00 0.00 0.00 4.24
89 96 2.426261 CGCTGTGACGACGACGAA 60.426 61.111 15.32 0.00 42.66 3.85
112 119 4.664677 AGCGTCCCGTGTCAGTGC 62.665 66.667 0.00 0.00 0.00 4.40
149 156 2.338984 GTTCGGTGGTGCGAGTCT 59.661 61.111 0.00 0.00 0.00 3.24
150 157 1.733399 GTTCGGTGGTGCGAGTCTC 60.733 63.158 0.00 0.00 0.00 3.36
151 158 2.197605 TTCGGTGGTGCGAGTCTCA 61.198 57.895 0.00 0.00 0.00 3.27
152 159 1.532604 TTCGGTGGTGCGAGTCTCAT 61.533 55.000 0.00 0.00 0.00 2.90
199 216 3.743396 GGCAATGATGGATCGAGTAGAAC 59.257 47.826 0.00 0.00 0.00 3.01
241 258 2.573340 CCGTTTCATGGGCCTTGC 59.427 61.111 14.30 0.43 0.00 4.01
325 371 1.301716 ATGACACGCACCACTCCAC 60.302 57.895 0.00 0.00 0.00 4.02
339 385 3.958147 CCACTCCACCCCATTTTAATACC 59.042 47.826 0.00 0.00 0.00 2.73
344 390 3.704061 CCACCCCATTTTAATACCACTGG 59.296 47.826 0.00 0.00 0.00 4.00
362 408 1.522580 GCTCATCCTCCTTGGCGAC 60.523 63.158 0.00 0.00 35.26 5.19
384 430 1.605457 CGGCACACTGTCAGTACATGT 60.605 52.381 4.85 2.69 34.37 3.21
389 435 6.049149 GGCACACTGTCAGTACATGTTATAT 58.951 40.000 2.30 0.00 34.37 0.86
390 436 7.207383 GGCACACTGTCAGTACATGTTATATA 58.793 38.462 2.30 0.00 34.37 0.86
391 437 7.872993 GGCACACTGTCAGTACATGTTATATAT 59.127 37.037 2.30 0.00 34.37 0.86
392 438 9.908152 GCACACTGTCAGTACATGTTATATATA 57.092 33.333 2.30 0.00 34.37 0.86
484 530 1.065636 ACTCATGACTCATGCACCCAG 60.066 52.381 13.46 8.26 41.18 4.45
494 540 3.712881 GCACCCAGTTCGTCGTGC 61.713 66.667 0.00 0.00 44.17 5.34
623 679 2.587574 GCGATCTGCACTCACTAGC 58.412 57.895 4.93 0.00 45.45 3.42
624 680 0.873743 GCGATCTGCACTCACTAGCC 60.874 60.000 4.93 0.00 45.45 3.93
625 681 0.457443 CGATCTGCACTCACTAGCCA 59.543 55.000 0.00 0.00 0.00 4.75
626 682 1.800655 CGATCTGCACTCACTAGCCAC 60.801 57.143 0.00 0.00 0.00 5.01
627 683 0.539051 ATCTGCACTCACTAGCCACC 59.461 55.000 0.00 0.00 0.00 4.61
628 684 1.446792 CTGCACTCACTAGCCACCG 60.447 63.158 0.00 0.00 0.00 4.94
629 685 2.159819 CTGCACTCACTAGCCACCGT 62.160 60.000 0.00 0.00 0.00 4.83
630 686 1.446272 GCACTCACTAGCCACCGTC 60.446 63.158 0.00 0.00 0.00 4.79
631 687 1.215647 CACTCACTAGCCACCGTCC 59.784 63.158 0.00 0.00 0.00 4.79
632 688 1.076906 ACTCACTAGCCACCGTCCT 59.923 57.895 0.00 0.00 0.00 3.85
633 689 0.966370 ACTCACTAGCCACCGTCCTC 60.966 60.000 0.00 0.00 0.00 3.71
634 690 1.668101 CTCACTAGCCACCGTCCTCC 61.668 65.000 0.00 0.00 0.00 4.30
653 709 2.777972 CCTCCATGGGTGCAATGCG 61.778 63.158 13.02 0.00 0.00 4.73
737 794 2.159599 ACGTTACGATCTGTTCCGTCTC 60.160 50.000 13.03 0.00 39.86 3.36
739 796 2.414994 TACGATCTGTTCCGTCTCCT 57.585 50.000 0.00 0.00 39.86 3.69
751 808 1.935873 CCGTCTCCTTGCACATGTATG 59.064 52.381 0.00 0.00 0.00 2.39
784 841 7.253783 CCGCGCATGATTAATACTACTATCTTG 60.254 40.741 8.75 0.00 0.00 3.02
830 887 2.851263 TGCTGGGTTACTTGGTAGTG 57.149 50.000 0.00 0.00 35.78 2.74
835 892 2.156917 GGGTTACTTGGTAGTGGTTGC 58.843 52.381 0.00 0.00 35.78 4.17
842 899 0.179004 TGGTAGTGGTTGCAACTGGG 60.179 55.000 27.64 0.00 0.00 4.45
913 973 0.808060 TGTACGTGTGTGTGCCACTG 60.808 55.000 0.00 0.00 44.81 3.66
920 1040 1.071299 TGTGTGCCACTGTAGCCAG 59.929 57.895 0.00 0.00 44.68 4.85
946 1066 5.069501 ACCACCTACTAGATGTTCGTTTC 57.930 43.478 0.00 0.00 0.00 2.78
955 1075 2.424601 AGATGTTCGTTTCCGTCGGATA 59.575 45.455 16.23 7.70 35.01 2.59
957 1077 2.532235 TGTTCGTTTCCGTCGGATATG 58.468 47.619 16.23 15.81 35.01 1.78
970 1093 4.912187 CGTCGGATATGTTAGTGTCATCAG 59.088 45.833 0.00 0.00 0.00 2.90
975 1098 5.403766 GGATATGTTAGTGTCATCAGCTTCG 59.596 44.000 0.00 0.00 0.00 3.79
1017 1147 0.037697 ACATGTTGCAATGCAGCCTG 60.038 50.000 21.20 21.20 40.61 4.85
1030 1160 0.393537 CAGCCTGGAGAATGGACACC 60.394 60.000 0.00 0.00 0.00 4.16
1037 1167 0.949105 GAGAATGGACACCGCAACGT 60.949 55.000 0.00 0.00 0.00 3.99
1039 1169 2.780149 GAATGGACACCGCAACGTGC 62.780 60.000 0.00 0.00 40.69 5.34
1078 1208 2.097918 CCGGAGAACGTCTCGTCG 59.902 66.667 0.00 0.00 44.28 5.12
1084 1214 2.666190 AACGTCTCGTCGTCCCGA 60.666 61.111 0.00 0.00 43.38 5.14
1096 1226 2.359850 TCCCGACAATGCCAGTGC 60.360 61.111 0.00 0.00 38.26 4.40
1101 1231 2.203523 ACAATGCCAGTGCTGCCA 60.204 55.556 0.00 0.00 38.71 4.92
1128 1258 3.264450 ACGTCAAGGAAGGGATCAAGATT 59.736 43.478 0.00 0.00 0.00 2.40
1129 1259 3.624861 CGTCAAGGAAGGGATCAAGATTG 59.375 47.826 0.00 0.00 0.00 2.67
1130 1260 3.950395 GTCAAGGAAGGGATCAAGATTGG 59.050 47.826 0.00 0.00 0.00 3.16
1464 1624 1.294659 CCAGCAGCAGGAAGAACGTC 61.295 60.000 0.00 0.00 0.00 4.34
1545 1705 4.143333 GCACCTCTAGCGGCGGAA 62.143 66.667 9.78 0.00 0.00 4.30
1558 1718 1.651987 GGCGGAAGTCGATTGATTGA 58.348 50.000 0.00 0.00 42.43 2.57
1559 1719 2.213499 GGCGGAAGTCGATTGATTGAT 58.787 47.619 0.00 0.00 42.43 2.57
1573 1734 2.843701 GATTGATCAATCGGCTGGTCT 58.156 47.619 27.90 1.72 37.97 3.85
1627 1789 8.940768 TTTTTGATTTTCTGTTAGAAGGGTTG 57.059 30.769 0.00 0.00 35.37 3.77
1628 1790 7.654022 TTTGATTTTCTGTTAGAAGGGTTGT 57.346 32.000 0.00 0.00 35.37 3.32
1629 1791 6.633500 TGATTTTCTGTTAGAAGGGTTGTG 57.367 37.500 0.00 0.00 35.37 3.33
1630 1792 4.911514 TTTTCTGTTAGAAGGGTTGTGC 57.088 40.909 0.00 0.00 35.37 4.57
1631 1793 3.569194 TTCTGTTAGAAGGGTTGTGCA 57.431 42.857 0.00 0.00 29.50 4.57
1659 1821 5.165911 CATATCTTGCAGTTCATGGTGAC 57.834 43.478 0.00 0.00 0.00 3.67
1670 1832 4.081752 AGTTCATGGTGACTAGCTTCTCTG 60.082 45.833 0.00 0.00 0.00 3.35
1672 1834 2.310779 TGGTGACTAGCTTCTCTGGT 57.689 50.000 0.00 0.00 39.39 4.00
1673 1835 2.609747 TGGTGACTAGCTTCTCTGGTT 58.390 47.619 0.00 0.00 36.57 3.67
1676 1838 3.321497 GTGACTAGCTTCTCTGGTTGTG 58.679 50.000 0.00 0.00 36.57 3.33
1677 1839 3.005897 GTGACTAGCTTCTCTGGTTGTGA 59.994 47.826 0.00 0.00 36.57 3.58
1685 1849 3.753294 TCTCTGGTTGTGAGTTTCTCC 57.247 47.619 0.00 0.00 33.59 3.71
1689 1853 2.880890 CTGGTTGTGAGTTTCTCCTTGG 59.119 50.000 0.00 0.00 0.00 3.61
1693 1857 4.200092 GTTGTGAGTTTCTCCTTGGTCTT 58.800 43.478 0.00 0.00 0.00 3.01
1708 1872 3.959293 TGGTCTTTGTGATCATGCAGAT 58.041 40.909 0.00 0.00 40.48 2.90
1806 1970 6.400568 TCCGGTCGAGTGAAGTAATTTATTT 58.599 36.000 0.00 0.00 0.00 1.40
1831 1995 6.258230 TCTTTGACAGCAATTGGTAATCTG 57.742 37.500 10.31 8.97 33.25 2.90
1835 1999 3.356290 ACAGCAATTGGTAATCTGACCC 58.644 45.455 10.31 0.00 38.89 4.46
1942 2106 4.873827 AGGTGCAACATATACGTTGTTAGG 59.126 41.667 12.80 0.00 46.47 2.69
1943 2107 4.871557 GGTGCAACATATACGTTGTTAGGA 59.128 41.667 12.80 0.00 46.47 2.94
1944 2108 5.352016 GGTGCAACATATACGTTGTTAGGAA 59.648 40.000 12.80 0.00 46.47 3.36
1945 2109 6.245724 GTGCAACATATACGTTGTTAGGAAC 58.754 40.000 12.80 0.00 46.47 3.62
1946 2110 5.932883 TGCAACATATACGTTGTTAGGAACA 59.067 36.000 12.80 0.00 46.47 3.18
1947 2111 7.571613 GTGCAACATATACGTTGTTAGGAACAA 60.572 37.037 12.80 0.69 46.47 2.83
1972 2136 3.713826 TTTTCTTAGGGTGTGGCTAGG 57.286 47.619 0.00 0.00 0.00 3.02
1973 2137 0.909623 TTCTTAGGGTGTGGCTAGGC 59.090 55.000 9.85 9.85 0.00 3.93
1983 2147 4.943822 GGCTAGGCCTCAGTTGAC 57.056 61.111 9.68 0.00 46.69 3.18
1984 2148 2.291856 GGCTAGGCCTCAGTTGACT 58.708 57.895 9.68 0.00 46.69 3.41
1985 2149 0.107945 GGCTAGGCCTCAGTTGACTG 60.108 60.000 9.68 4.77 46.69 3.51
2000 2164 4.313277 TTGACTGAGTCAAGTGACAGAG 57.687 45.455 23.02 10.31 45.88 3.35
2001 2165 3.701542 TTGACTGAGTCAAGTGACAGAGT 59.298 43.478 23.02 13.08 45.88 3.24
2002 2166 4.887655 TTGACTGAGTCAAGTGACAGAGTA 59.112 41.667 23.02 0.00 45.88 2.59
2003 2167 5.009110 TTGACTGAGTCAAGTGACAGAGTAG 59.991 44.000 23.02 6.56 45.88 2.57
2004 2168 8.390500 TTGACTGAGTCAAGTGACAGAGTAGC 62.391 46.154 23.02 4.97 45.88 3.58
2007 2171 2.678324 GTCAAGTGACAGAGTAGCACC 58.322 52.381 6.57 0.00 44.18 5.01
2008 2172 2.035961 GTCAAGTGACAGAGTAGCACCA 59.964 50.000 6.57 0.00 44.18 4.17
2009 2173 2.899900 TCAAGTGACAGAGTAGCACCAT 59.100 45.455 0.00 0.00 33.14 3.55
2010 2174 4.082190 GTCAAGTGACAGAGTAGCACCATA 60.082 45.833 6.57 0.00 44.18 2.74
2011 2175 4.711846 TCAAGTGACAGAGTAGCACCATAT 59.288 41.667 0.00 0.00 33.14 1.78
2012 2176 5.891551 TCAAGTGACAGAGTAGCACCATATA 59.108 40.000 0.00 0.00 33.14 0.86
2013 2177 6.379988 TCAAGTGACAGAGTAGCACCATATAA 59.620 38.462 0.00 0.00 33.14 0.98
2014 2178 6.398234 AGTGACAGAGTAGCACCATATAAG 57.602 41.667 0.00 0.00 33.14 1.73
2015 2179 6.129874 AGTGACAGAGTAGCACCATATAAGA 58.870 40.000 0.00 0.00 33.14 2.10
2016 2180 6.607600 AGTGACAGAGTAGCACCATATAAGAA 59.392 38.462 0.00 0.00 33.14 2.52
2017 2181 6.920758 GTGACAGAGTAGCACCATATAAGAAG 59.079 42.308 0.00 0.00 0.00 2.85
2018 2182 6.833933 TGACAGAGTAGCACCATATAAGAAGA 59.166 38.462 0.00 0.00 0.00 2.87
2019 2183 7.342026 TGACAGAGTAGCACCATATAAGAAGAA 59.658 37.037 0.00 0.00 0.00 2.52
2020 2184 8.079211 ACAGAGTAGCACCATATAAGAAGAAA 57.921 34.615 0.00 0.00 0.00 2.52
2021 2185 8.540388 ACAGAGTAGCACCATATAAGAAGAAAA 58.460 33.333 0.00 0.00 0.00 2.29
2022 2186 9.383519 CAGAGTAGCACCATATAAGAAGAAAAA 57.616 33.333 0.00 0.00 0.00 1.94
2063 2227 9.868277 ATAAAATTTTAAATGGATCTTCACGCA 57.132 25.926 14.35 0.00 0.00 5.24
2064 2228 8.600449 AAAATTTTAAATGGATCTTCACGCAA 57.400 26.923 0.37 0.00 0.00 4.85
2066 2230 6.567687 TTTTAAATGGATCTTCACGCAAGA 57.432 33.333 0.16 0.16 45.60 3.02
2073 2237 1.336877 TCTTCACGCAAGATCGAACG 58.663 50.000 0.00 3.29 36.08 3.95
2074 2238 1.068816 TCTTCACGCAAGATCGAACGA 60.069 47.619 10.55 0.00 36.08 3.85
2075 2239 1.920574 CTTCACGCAAGATCGAACGAT 59.079 47.619 9.46 9.46 43.62 3.73
2086 2250 3.993547 GATCGAACGATCCTAGATCGAC 58.006 50.000 28.15 20.06 43.56 4.20
2087 2251 3.109044 TCGAACGATCCTAGATCGACT 57.891 47.619 28.15 16.75 43.59 4.18
2088 2252 2.801111 TCGAACGATCCTAGATCGACTG 59.199 50.000 28.15 17.68 43.59 3.51
2089 2253 2.801111 CGAACGATCCTAGATCGACTGA 59.199 50.000 28.15 0.00 43.59 3.41
2090 2254 3.120820 CGAACGATCCTAGATCGACTGAG 60.121 52.174 28.15 13.33 43.59 3.35
2091 2255 3.755112 ACGATCCTAGATCGACTGAGA 57.245 47.619 28.15 0.00 43.59 3.27
2092 2256 3.395639 ACGATCCTAGATCGACTGAGAC 58.604 50.000 28.15 0.00 43.59 3.36
2093 2257 3.181464 ACGATCCTAGATCGACTGAGACA 60.181 47.826 28.15 0.00 43.59 3.41
2094 2258 4.000325 CGATCCTAGATCGACTGAGACAT 59.000 47.826 19.51 0.00 43.59 3.06
2095 2259 5.172205 CGATCCTAGATCGACTGAGACATA 58.828 45.833 19.51 0.00 43.59 2.29
2096 2260 5.639931 CGATCCTAGATCGACTGAGACATAA 59.360 44.000 19.51 0.00 43.59 1.90
2097 2261 6.401688 CGATCCTAGATCGACTGAGACATAAC 60.402 46.154 19.51 0.00 43.59 1.89
2098 2262 5.064558 TCCTAGATCGACTGAGACATAACC 58.935 45.833 0.00 0.00 0.00 2.85
2099 2263 4.822350 CCTAGATCGACTGAGACATAACCA 59.178 45.833 0.00 0.00 0.00 3.67
2100 2264 5.299531 CCTAGATCGACTGAGACATAACCAA 59.700 44.000 0.00 0.00 0.00 3.67
2101 2265 5.255710 AGATCGACTGAGACATAACCAAG 57.744 43.478 0.00 0.00 0.00 3.61
2102 2266 4.707448 AGATCGACTGAGACATAACCAAGT 59.293 41.667 0.00 0.00 0.00 3.16
2103 2267 4.436242 TCGACTGAGACATAACCAAGTC 57.564 45.455 0.00 0.00 35.02 3.01
2105 2269 5.250982 TCGACTGAGACATAACCAAGTCTA 58.749 41.667 0.00 0.00 44.61 2.59
2106 2270 5.708697 TCGACTGAGACATAACCAAGTCTAA 59.291 40.000 0.00 0.00 44.61 2.10
2107 2271 6.208007 TCGACTGAGACATAACCAAGTCTAAA 59.792 38.462 0.00 0.00 44.61 1.85
2108 2272 6.866770 CGACTGAGACATAACCAAGTCTAAAA 59.133 38.462 0.00 0.00 44.61 1.52
2109 2273 7.148787 CGACTGAGACATAACCAAGTCTAAAAC 60.149 40.741 0.00 0.00 44.61 2.43
2110 2274 7.506114 ACTGAGACATAACCAAGTCTAAAACA 58.494 34.615 0.00 0.00 44.61 2.83
2111 2275 7.657761 ACTGAGACATAACCAAGTCTAAAACAG 59.342 37.037 0.00 0.00 44.61 3.16
2112 2276 7.506114 TGAGACATAACCAAGTCTAAAACAGT 58.494 34.615 0.00 0.00 44.61 3.55
2113 2277 7.990886 TGAGACATAACCAAGTCTAAAACAGTT 59.009 33.333 0.00 0.00 44.61 3.16
2114 2278 8.747538 AGACATAACCAAGTCTAAAACAGTTT 57.252 30.769 0.00 0.00 42.92 2.66
2115 2279 9.185680 AGACATAACCAAGTCTAAAACAGTTTT 57.814 29.630 15.58 15.58 42.92 2.43
2116 2280 9.797556 GACATAACCAAGTCTAAAACAGTTTTT 57.202 29.630 16.44 1.72 38.51 1.94
2193 2357 5.579753 ATCAAGCCATCAACATAGGATCT 57.420 39.130 0.00 0.00 0.00 2.75
2207 2371 8.461222 CAACATAGGATCTGTGCATTTTCTAAA 58.539 33.333 0.00 0.00 0.00 1.85
2223 2387 8.469200 CATTTTCTAAACAAAGCATAGGATCCA 58.531 33.333 15.82 0.00 0.00 3.41
2227 2391 7.224297 TCTAAACAAAGCATAGGATCCATACC 58.776 38.462 15.82 0.00 0.00 2.73
2235 2399 2.691409 AGGATCCATACCAACGTGTG 57.309 50.000 15.82 0.00 0.00 3.82
2269 2460 7.390718 ACATATACGGGAGCTAAAAATGGAATC 59.609 37.037 0.00 0.00 0.00 2.52
2272 2463 5.123936 ACGGGAGCTAAAAATGGAATCTAC 58.876 41.667 0.00 0.00 0.00 2.59
2276 2467 5.998363 GGAGCTAAAAATGGAATCTACGGAT 59.002 40.000 0.00 0.00 0.00 4.18
2277 2468 7.159372 GGAGCTAAAAATGGAATCTACGGATA 58.841 38.462 0.00 0.00 0.00 2.59
2278 2469 7.660208 GGAGCTAAAAATGGAATCTACGGATAA 59.340 37.037 0.00 0.00 0.00 1.75
2279 2470 9.220767 GAGCTAAAAATGGAATCTACGGATAAT 57.779 33.333 0.00 0.00 0.00 1.28
2280 2471 9.003658 AGCTAAAAATGGAATCTACGGATAATG 57.996 33.333 0.00 0.00 0.00 1.90
2281 2472 8.999431 GCTAAAAATGGAATCTACGGATAATGA 58.001 33.333 0.00 0.00 0.00 2.57
2284 2475 7.986085 AAATGGAATCTACGGATAATGAAGG 57.014 36.000 0.00 0.00 0.00 3.46
2285 2476 6.935240 ATGGAATCTACGGATAATGAAGGA 57.065 37.500 0.00 0.00 0.00 3.36
2286 2477 6.346477 TGGAATCTACGGATAATGAAGGAG 57.654 41.667 0.00 0.00 0.00 3.69
2287 2478 5.839063 TGGAATCTACGGATAATGAAGGAGT 59.161 40.000 0.00 0.00 0.00 3.85
2288 2479 6.159988 GGAATCTACGGATAATGAAGGAGTG 58.840 44.000 0.00 0.00 0.00 3.51
2289 2480 4.585955 TCTACGGATAATGAAGGAGTGC 57.414 45.455 0.00 0.00 0.00 4.40
2290 2481 4.215908 TCTACGGATAATGAAGGAGTGCT 58.784 43.478 0.00 0.00 0.00 4.40
2291 2482 3.914426 ACGGATAATGAAGGAGTGCTT 57.086 42.857 0.00 0.00 0.00 3.91
2292 2483 3.798202 ACGGATAATGAAGGAGTGCTTC 58.202 45.455 16.85 16.85 0.00 3.86
2355 2546 1.137872 GTAGCAGCAGCATGTAGAGGT 59.862 52.381 3.17 0.00 45.49 3.85
2493 2684 1.063266 GGCATTAAACATGGAGGGGGA 60.063 52.381 0.00 0.00 0.00 4.81
2507 2698 0.555769 GGGGGATATGGGAAAGTGCA 59.444 55.000 0.00 0.00 0.00 4.57
2513 2704 4.532834 GGATATGGGAAAGTGCAAACCTA 58.467 43.478 0.00 0.00 0.00 3.08
2514 2705 4.338400 GGATATGGGAAAGTGCAAACCTAC 59.662 45.833 0.00 0.00 0.00 3.18
2517 2708 1.265905 GGGAAAGTGCAAACCTACACG 59.734 52.381 0.00 0.00 41.72 4.49
2532 2724 0.830648 ACACGGGGGACATAGACATG 59.169 55.000 0.00 0.00 38.21 3.21
2540 2732 4.386312 GGGGGACATAGACATGATTCCAAA 60.386 45.833 0.00 0.00 35.96 3.28
2552 2744 9.710900 AGACATGATTCCAAATTTCTTTTAACC 57.289 29.630 0.00 0.00 0.00 2.85
2553 2745 9.487790 GACATGATTCCAAATTTCTTTTAACCA 57.512 29.630 0.00 0.00 0.00 3.67
2554 2746 9.844257 ACATGATTCCAAATTTCTTTTAACCAA 57.156 25.926 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 50 4.961511 TCTCGTGTGTGCGGGTGC 62.962 66.667 0.00 0.00 43.20 5.01
70 77 2.759519 TTCGTCGTCGTCACAGCGAG 62.760 60.000 1.33 0.00 41.85 5.03
149 156 4.402474 CCAGTATAGTATCATCGGCCATGA 59.598 45.833 16.84 16.84 46.01 3.07
150 157 4.160439 ACCAGTATAGTATCATCGGCCATG 59.840 45.833 2.24 6.18 0.00 3.66
151 158 4.353777 ACCAGTATAGTATCATCGGCCAT 58.646 43.478 2.24 0.00 0.00 4.40
152 159 3.774734 ACCAGTATAGTATCATCGGCCA 58.225 45.455 2.24 0.00 0.00 5.36
241 258 0.038166 TAAAACAGCAGGGAGGCCAG 59.962 55.000 5.01 0.00 0.00 4.85
268 285 2.045926 GCACTGCCCCCACTAGTG 60.046 66.667 16.34 16.34 43.49 2.74
269 286 1.500783 ATTGCACTGCCCCCACTAGT 61.501 55.000 0.00 0.00 0.00 2.57
325 371 3.636764 GAGCCAGTGGTATTAAAATGGGG 59.363 47.826 11.74 0.00 0.00 4.96
339 385 0.107312 CCAAGGAGGATGAGCCAGTG 60.107 60.000 0.00 0.00 41.22 3.66
344 390 1.522580 GTCGCCAAGGAGGATGAGC 60.523 63.158 0.00 0.00 41.22 4.26
362 408 2.049526 TACTGACAGTGTGCCGCG 60.050 61.111 18.58 0.00 0.00 6.46
432 478 5.401674 CCGAAATACTACCGTATGCTTCTTC 59.598 44.000 0.00 0.00 36.48 2.87
436 482 4.365723 CACCGAAATACTACCGTATGCTT 58.634 43.478 0.00 0.00 36.48 3.91
438 484 2.473984 GCACCGAAATACTACCGTATGC 59.526 50.000 0.00 0.00 36.48 3.14
439 485 3.488310 GTGCACCGAAATACTACCGTATG 59.512 47.826 5.22 0.00 36.48 2.39
440 486 3.382546 AGTGCACCGAAATACTACCGTAT 59.617 43.478 14.63 0.00 37.94 3.06
441 487 2.754552 AGTGCACCGAAATACTACCGTA 59.245 45.455 14.63 0.00 0.00 4.02
442 488 1.547372 AGTGCACCGAAATACTACCGT 59.453 47.619 14.63 0.00 0.00 4.83
443 489 2.190981 GAGTGCACCGAAATACTACCG 58.809 52.381 14.63 0.00 0.00 4.02
494 540 2.817258 TGCAAGGGGACAAAAGTAATCG 59.183 45.455 0.00 0.00 0.00 3.34
571 617 2.371259 GGTGGGGAGGAGAGGAAGC 61.371 68.421 0.00 0.00 0.00 3.86
620 676 3.674050 GAGGGGAGGACGGTGGCTA 62.674 68.421 0.00 0.00 0.00 3.93
623 679 4.715130 TGGAGGGGAGGACGGTGG 62.715 72.222 0.00 0.00 0.00 4.61
624 680 2.365635 ATGGAGGGGAGGACGGTG 60.366 66.667 0.00 0.00 0.00 4.94
625 681 2.365635 CATGGAGGGGAGGACGGT 60.366 66.667 0.00 0.00 0.00 4.83
626 682 3.164269 CCATGGAGGGGAGGACGG 61.164 72.222 5.56 0.00 0.00 4.79
653 709 2.250485 GGTGCATCGCATCGCATC 59.750 61.111 0.00 0.00 41.91 3.91
737 794 4.211164 CGGTGTATACATACATGTGCAAGG 59.789 45.833 9.11 0.00 44.25 3.61
739 796 3.558006 GCGGTGTATACATACATGTGCAA 59.442 43.478 9.11 0.00 44.25 4.08
751 808 4.921470 ATTAATCATGCGCGGTGTATAC 57.079 40.909 8.83 0.00 0.00 1.47
817 874 3.881089 AGTTGCAACCACTACCAAGTAAC 59.119 43.478 25.62 0.00 33.48 2.50
830 887 1.856265 CGAGAAGCCCAGTTGCAACC 61.856 60.000 25.62 10.58 0.00 3.77
835 892 1.165907 TGCAACGAGAAGCCCAGTTG 61.166 55.000 0.00 3.15 44.66 3.16
842 899 3.423571 CATCAAAGATGCAACGAGAAGC 58.576 45.455 0.00 0.00 0.00 3.86
913 973 4.952335 TCTAGTAGGTGGTAAACTGGCTAC 59.048 45.833 0.00 0.00 0.00 3.58
920 1040 5.958955 ACGAACATCTAGTAGGTGGTAAAC 58.041 41.667 14.91 0.00 0.00 2.01
924 1044 4.081807 GGAAACGAACATCTAGTAGGTGGT 60.082 45.833 14.91 8.16 0.00 4.16
925 1045 4.430908 GGAAACGAACATCTAGTAGGTGG 58.569 47.826 14.91 0.00 0.00 4.61
946 1066 3.703286 TGACACTAACATATCCGACGG 57.297 47.619 7.84 7.84 0.00 4.79
955 1075 3.525537 CCGAAGCTGATGACACTAACAT 58.474 45.455 0.00 0.00 0.00 2.71
957 1077 2.271800 CCCGAAGCTGATGACACTAAC 58.728 52.381 0.00 0.00 0.00 2.34
989 1112 4.202040 TGCATTGCAACATGTAGGATTAGC 60.202 41.667 9.33 0.00 34.76 3.09
998 1121 0.037697 CAGGCTGCATTGCAACATGT 60.038 50.000 16.28 0.00 38.41 3.21
1017 1147 1.635663 CGTTGCGGTGTCCATTCTCC 61.636 60.000 0.00 0.00 0.00 3.71
1039 1169 4.899239 GATCACCGGCCGCTCAGG 62.899 72.222 22.85 8.46 44.97 3.86
1078 1208 2.690778 GCACTGGCATTGTCGGGAC 61.691 63.158 6.71 0.00 40.72 4.46
1096 1226 1.669115 CCTTGACGTCCACTGGCAG 60.669 63.158 14.16 14.16 0.00 4.85
1101 1231 0.471211 TCCCTTCCTTGACGTCCACT 60.471 55.000 14.12 0.00 0.00 4.00
1105 1235 2.233922 TCTTGATCCCTTCCTTGACGTC 59.766 50.000 9.11 9.11 0.00 4.34
1350 1480 1.523258 CTTCCTGATGCTGGGCTCG 60.523 63.158 0.00 0.00 0.00 5.03
1444 1604 1.302033 CGTTCTTCCTGCTGCTGGT 60.302 57.895 22.62 0.00 0.00 4.00
1556 1716 2.965147 TGATAGACCAGCCGATTGATCA 59.035 45.455 0.00 0.00 0.00 2.92
1557 1717 3.667497 TGATAGACCAGCCGATTGATC 57.333 47.619 0.00 0.00 0.00 2.92
1558 1718 3.307269 CCATGATAGACCAGCCGATTGAT 60.307 47.826 0.00 0.00 0.00 2.57
1559 1719 2.037641 CCATGATAGACCAGCCGATTGA 59.962 50.000 0.00 0.00 0.00 2.57
1566 1727 3.550437 ACTGTTCCATGATAGACCAGC 57.450 47.619 0.00 0.00 0.00 4.85
1568 1729 6.440647 ACTTTCTACTGTTCCATGATAGACCA 59.559 38.462 0.00 0.00 0.00 4.02
1569 1730 6.879400 ACTTTCTACTGTTCCATGATAGACC 58.121 40.000 0.00 0.00 0.00 3.85
1603 1764 7.978975 CACAACCCTTCTAACAGAAAATCAAAA 59.021 33.333 0.00 0.00 33.19 2.44
1659 1821 3.951775 ACTCACAACCAGAGAAGCTAG 57.048 47.619 0.00 0.00 36.91 3.42
1670 1832 2.879026 GACCAAGGAGAAACTCACAACC 59.121 50.000 0.00 0.00 31.08 3.77
1672 1834 4.503714 AAGACCAAGGAGAAACTCACAA 57.496 40.909 0.00 0.00 31.08 3.33
1673 1835 4.199310 CAAAGACCAAGGAGAAACTCACA 58.801 43.478 0.00 0.00 31.08 3.58
1676 1838 4.451900 TCACAAAGACCAAGGAGAAACTC 58.548 43.478 0.00 0.00 0.00 3.01
1677 1839 4.503714 TCACAAAGACCAAGGAGAAACT 57.496 40.909 0.00 0.00 0.00 2.66
1685 1849 3.754850 TCTGCATGATCACAAAGACCAAG 59.245 43.478 0.00 0.00 0.00 3.61
1708 1872 9.027129 CAATCCTATTAATTACACGACGAAAGA 57.973 33.333 0.00 0.00 0.00 2.52
1709 1873 7.792508 GCAATCCTATTAATTACACGACGAAAG 59.207 37.037 0.00 0.00 0.00 2.62
1714 1878 7.709269 TCTGCAATCCTATTAATTACACGAC 57.291 36.000 0.00 0.00 0.00 4.34
1759 1923 3.979101 TGCACTGATCAATCTACCACA 57.021 42.857 0.00 0.00 0.00 4.17
1806 1970 7.014134 TCAGATTACCAATTGCTGTCAAAGAAA 59.986 33.333 0.00 0.00 35.56 2.52
1835 1999 3.506059 CTATGAGGCGCTGTCCCCG 62.506 68.421 7.64 0.00 0.00 5.73
1874 2038 2.168054 GGCACGTTCCCATGTGTAC 58.832 57.895 0.00 0.00 41.45 2.90
1891 2055 4.565360 ATGGCATCATGACACCGG 57.435 55.556 0.00 0.00 38.83 5.28
1951 2115 3.812882 GCCTAGCCACACCCTAAGAAAAA 60.813 47.826 0.00 0.00 0.00 1.94
1952 2116 2.290705 GCCTAGCCACACCCTAAGAAAA 60.291 50.000 0.00 0.00 0.00 2.29
1953 2117 1.280998 GCCTAGCCACACCCTAAGAAA 59.719 52.381 0.00 0.00 0.00 2.52
1954 2118 0.909623 GCCTAGCCACACCCTAAGAA 59.090 55.000 0.00 0.00 0.00 2.52
1955 2119 2.604118 GCCTAGCCACACCCTAAGA 58.396 57.895 0.00 0.00 0.00 2.10
1964 2128 4.876906 CAGTCAACTGAGGCCTAGCCAC 62.877 59.091 4.42 1.82 46.69 5.01
1965 2129 2.782999 CAGTCAACTGAGGCCTAGCCA 61.783 57.143 4.42 0.00 46.69 4.75
1966 2130 0.107945 CAGTCAACTGAGGCCTAGCC 60.108 60.000 4.42 0.00 46.59 3.93
1967 2131 3.450028 CAGTCAACTGAGGCCTAGC 57.550 57.895 4.42 0.00 46.59 3.42
1975 2139 3.447229 TGTCACTTGACTCAGTCAACTGA 59.553 43.478 20.12 20.12 45.88 3.41
1976 2140 3.785486 TGTCACTTGACTCAGTCAACTG 58.215 45.455 16.67 16.84 45.88 3.16
1977 2141 3.701542 TCTGTCACTTGACTCAGTCAACT 59.298 43.478 16.67 4.99 45.88 3.16
1978 2142 4.046938 TCTGTCACTTGACTCAGTCAAC 57.953 45.455 16.67 8.24 45.88 3.18
1980 2144 3.291584 ACTCTGTCACTTGACTCAGTCA 58.708 45.455 2.36 2.36 44.99 3.41
1981 2145 4.614993 GCTACTCTGTCACTTGACTCAGTC 60.615 50.000 10.63 0.00 44.99 3.51
1982 2146 3.254657 GCTACTCTGTCACTTGACTCAGT 59.745 47.826 10.63 12.91 44.99 3.41
1983 2147 3.254411 TGCTACTCTGTCACTTGACTCAG 59.746 47.826 10.63 8.34 44.99 3.35
1984 2148 3.004839 GTGCTACTCTGTCACTTGACTCA 59.995 47.826 10.63 0.00 44.99 3.41
1985 2149 3.570559 GTGCTACTCTGTCACTTGACTC 58.429 50.000 10.63 0.00 44.99 3.36
1986 2150 2.297597 GGTGCTACTCTGTCACTTGACT 59.702 50.000 10.63 0.00 44.99 3.41
1987 2151 2.035961 TGGTGCTACTCTGTCACTTGAC 59.964 50.000 2.19 2.19 44.97 3.18
1988 2152 2.316108 TGGTGCTACTCTGTCACTTGA 58.684 47.619 0.00 0.00 0.00 3.02
1989 2153 2.820059 TGGTGCTACTCTGTCACTTG 57.180 50.000 0.00 0.00 0.00 3.16
1990 2154 6.607600 TCTTATATGGTGCTACTCTGTCACTT 59.392 38.462 0.00 0.00 0.00 3.16
1991 2155 6.129874 TCTTATATGGTGCTACTCTGTCACT 58.870 40.000 0.00 0.00 0.00 3.41
1992 2156 6.392625 TCTTATATGGTGCTACTCTGTCAC 57.607 41.667 0.00 0.00 0.00 3.67
1993 2157 6.833933 TCTTCTTATATGGTGCTACTCTGTCA 59.166 38.462 0.00 0.00 0.00 3.58
1994 2158 7.278461 TCTTCTTATATGGTGCTACTCTGTC 57.722 40.000 0.00 0.00 0.00 3.51
1995 2159 7.661536 TTCTTCTTATATGGTGCTACTCTGT 57.338 36.000 0.00 0.00 0.00 3.41
1996 2160 8.948631 TTTTCTTCTTATATGGTGCTACTCTG 57.051 34.615 0.00 0.00 0.00 3.35
2037 2201 9.868277 TGCGTGAAGATCCATTTAAAATTTTAT 57.132 25.926 11.33 0.00 0.00 1.40
2038 2202 9.698309 TTGCGTGAAGATCCATTTAAAATTTTA 57.302 25.926 6.54 6.54 0.00 1.52
2039 2203 8.600449 TTGCGTGAAGATCCATTTAAAATTTT 57.400 26.923 8.75 8.75 0.00 1.82
2040 2204 8.087750 TCTTGCGTGAAGATCCATTTAAAATTT 58.912 29.630 0.00 0.00 35.64 1.82
2041 2205 7.601856 TCTTGCGTGAAGATCCATTTAAAATT 58.398 30.769 0.00 0.00 35.64 1.82
2042 2206 7.156876 TCTTGCGTGAAGATCCATTTAAAAT 57.843 32.000 0.00 0.00 35.64 1.82
2043 2207 6.567687 TCTTGCGTGAAGATCCATTTAAAA 57.432 33.333 0.00 0.00 35.64 1.52
2044 2208 6.757897 ATCTTGCGTGAAGATCCATTTAAA 57.242 33.333 6.12 0.00 46.84 1.52
2054 2218 1.068816 TCGTTCGATCTTGCGTGAAGA 60.069 47.619 2.09 2.09 45.03 2.87
2055 2219 1.336877 TCGTTCGATCTTGCGTGAAG 58.663 50.000 0.00 0.00 0.00 3.02
2056 2220 1.917955 GATCGTTCGATCTTGCGTGAA 59.082 47.619 22.56 0.00 38.30 3.18
2057 2221 1.545759 GATCGTTCGATCTTGCGTGA 58.454 50.000 22.56 0.00 38.30 4.35
2058 2222 0.572590 GGATCGTTCGATCTTGCGTG 59.427 55.000 26.57 0.00 40.44 5.34
2059 2223 0.456221 AGGATCGTTCGATCTTGCGT 59.544 50.000 26.57 7.72 40.44 5.24
2060 2224 2.031944 TCTAGGATCGTTCGATCTTGCG 60.032 50.000 26.57 17.66 40.44 4.85
2061 2225 3.627732 TCTAGGATCGTTCGATCTTGC 57.372 47.619 26.57 15.05 40.44 4.01
2062 2226 4.152580 TCGATCTAGGATCGTTCGATCTTG 59.847 45.833 26.57 18.71 41.77 3.02
2063 2227 4.152759 GTCGATCTAGGATCGTTCGATCTT 59.847 45.833 26.57 23.29 40.48 2.40
2064 2228 3.680937 GTCGATCTAGGATCGTTCGATCT 59.319 47.826 26.57 17.88 40.48 2.75
2065 2229 3.680937 AGTCGATCTAGGATCGTTCGATC 59.319 47.826 23.14 21.99 40.48 3.69
2066 2230 3.433957 CAGTCGATCTAGGATCGTTCGAT 59.566 47.826 23.14 7.43 40.48 3.59
2067 2231 2.801111 CAGTCGATCTAGGATCGTTCGA 59.199 50.000 23.14 6.59 41.77 3.71
2068 2232 2.801111 TCAGTCGATCTAGGATCGTTCG 59.199 50.000 23.14 14.96 41.77 3.95
2069 2233 4.059511 TCTCAGTCGATCTAGGATCGTTC 58.940 47.826 23.14 18.15 41.77 3.95
2070 2234 3.810941 GTCTCAGTCGATCTAGGATCGTT 59.189 47.826 23.14 13.67 41.77 3.85
2071 2235 3.181464 TGTCTCAGTCGATCTAGGATCGT 60.181 47.826 23.14 8.10 41.77 3.73
2072 2236 3.394719 TGTCTCAGTCGATCTAGGATCG 58.605 50.000 19.74 19.74 42.38 3.69
2073 2237 6.128117 GGTTATGTCTCAGTCGATCTAGGATC 60.128 46.154 0.00 0.00 0.00 3.36
2074 2238 5.708230 GGTTATGTCTCAGTCGATCTAGGAT 59.292 44.000 0.00 0.00 0.00 3.24
2075 2239 5.064558 GGTTATGTCTCAGTCGATCTAGGA 58.935 45.833 0.00 0.00 0.00 2.94
2076 2240 4.822350 TGGTTATGTCTCAGTCGATCTAGG 59.178 45.833 0.00 0.00 0.00 3.02
2077 2241 6.038825 ACTTGGTTATGTCTCAGTCGATCTAG 59.961 42.308 0.00 0.00 0.00 2.43
2078 2242 5.886474 ACTTGGTTATGTCTCAGTCGATCTA 59.114 40.000 0.00 0.00 0.00 1.98
2079 2243 4.707448 ACTTGGTTATGTCTCAGTCGATCT 59.293 41.667 0.00 0.00 0.00 2.75
2080 2244 5.000012 ACTTGGTTATGTCTCAGTCGATC 58.000 43.478 0.00 0.00 0.00 3.69
2081 2245 4.707448 AGACTTGGTTATGTCTCAGTCGAT 59.293 41.667 0.00 0.00 36.84 3.59
2082 2246 4.079970 AGACTTGGTTATGTCTCAGTCGA 58.920 43.478 0.00 0.00 36.84 4.20
2083 2247 4.442375 AGACTTGGTTATGTCTCAGTCG 57.558 45.455 0.00 0.00 36.84 4.18
2084 2248 7.656137 TGTTTTAGACTTGGTTATGTCTCAGTC 59.344 37.037 0.00 0.00 40.55 3.51
2085 2249 7.506114 TGTTTTAGACTTGGTTATGTCTCAGT 58.494 34.615 0.00 0.00 40.55 3.41
2086 2250 7.657761 ACTGTTTTAGACTTGGTTATGTCTCAG 59.342 37.037 0.00 0.00 40.55 3.35
2087 2251 7.506114 ACTGTTTTAGACTTGGTTATGTCTCA 58.494 34.615 0.00 0.00 40.55 3.27
2088 2252 7.964604 ACTGTTTTAGACTTGGTTATGTCTC 57.035 36.000 0.00 0.00 40.55 3.36
2089 2253 8.747538 AAACTGTTTTAGACTTGGTTATGTCT 57.252 30.769 0.00 0.00 42.17 3.41
2090 2254 9.797556 AAAAACTGTTTTAGACTTGGTTATGTC 57.202 29.630 17.97 0.00 35.12 3.06
2114 2278 4.436113 AACCGTGTTACTCCCCTAAAAA 57.564 40.909 0.00 0.00 0.00 1.94
2115 2279 4.436113 AAACCGTGTTACTCCCCTAAAA 57.564 40.909 0.00 0.00 0.00 1.52
2116 2280 4.436113 AAAACCGTGTTACTCCCCTAAA 57.564 40.909 0.00 0.00 0.00 1.85
2117 2281 4.592778 AGTAAAACCGTGTTACTCCCCTAA 59.407 41.667 8.14 0.00 37.23 2.69
2118 2282 4.021192 CAGTAAAACCGTGTTACTCCCCTA 60.021 45.833 10.69 0.00 39.28 3.53
2119 2283 2.974794 AGTAAAACCGTGTTACTCCCCT 59.025 45.455 8.14 0.00 37.23 4.79
2120 2284 3.069289 CAGTAAAACCGTGTTACTCCCC 58.931 50.000 10.69 0.00 39.28 4.81
2121 2285 3.742882 GTCAGTAAAACCGTGTTACTCCC 59.257 47.826 10.69 2.21 39.28 4.30
2122 2286 4.370917 TGTCAGTAAAACCGTGTTACTCC 58.629 43.478 10.69 6.13 39.28 3.85
2123 2287 4.446719 CCTGTCAGTAAAACCGTGTTACTC 59.553 45.833 10.69 3.00 39.28 2.59
2131 2295 2.673368 GAGCATCCTGTCAGTAAAACCG 59.327 50.000 0.00 0.00 0.00 4.44
2193 2357 6.867816 CCTATGCTTTGTTTAGAAAATGCACA 59.132 34.615 0.00 0.00 31.92 4.57
2207 2371 5.133221 GTTGGTATGGATCCTATGCTTTGT 58.867 41.667 14.23 0.00 0.00 2.83
2235 2399 3.128242 AGCTCCCGTATATGTATGCGTAC 59.872 47.826 9.25 9.25 39.62 3.67
2248 2439 5.367945 AGATTCCATTTTTAGCTCCCGTA 57.632 39.130 0.00 0.00 0.00 4.02
2269 2460 4.592485 AGCACTCCTTCATTATCCGTAG 57.408 45.455 0.00 0.00 0.00 3.51
2281 2472 4.530875 CTTCATTATGGGAAGCACTCCTT 58.469 43.478 4.98 0.00 44.68 3.36
2282 2473 3.117738 CCTTCATTATGGGAAGCACTCCT 60.118 47.826 4.98 0.00 44.68 3.69
2283 2474 3.217626 CCTTCATTATGGGAAGCACTCC 58.782 50.000 0.00 0.00 44.54 3.85
2284 2475 3.217626 CCCTTCATTATGGGAAGCACTC 58.782 50.000 0.00 0.00 46.15 3.51
2285 2476 2.582636 ACCCTTCATTATGGGAAGCACT 59.417 45.455 4.89 0.00 46.15 4.40
2286 2477 2.689983 CACCCTTCATTATGGGAAGCAC 59.310 50.000 4.89 0.00 46.15 4.40
2287 2478 2.311542 ACACCCTTCATTATGGGAAGCA 59.688 45.455 4.89 0.00 46.15 3.91
2288 2479 2.689983 CACACCCTTCATTATGGGAAGC 59.310 50.000 4.89 0.00 46.15 3.86
2289 2480 3.947834 GACACACCCTTCATTATGGGAAG 59.052 47.826 4.89 0.00 46.15 3.46
2290 2481 3.591527 AGACACACCCTTCATTATGGGAA 59.408 43.478 4.89 0.00 46.15 3.97
2291 2482 3.054434 CAGACACACCCTTCATTATGGGA 60.054 47.826 4.89 0.00 46.15 4.37
2293 2484 3.955471 ACAGACACACCCTTCATTATGG 58.045 45.455 0.00 0.00 0.00 2.74
2294 2485 6.406370 TCTAACAGACACACCCTTCATTATG 58.594 40.000 0.00 0.00 0.00 1.90
2295 2486 6.620877 TCTAACAGACACACCCTTCATTAT 57.379 37.500 0.00 0.00 0.00 1.28
2355 2546 0.964700 CTGCTAGCTCATCCGGATCA 59.035 55.000 15.88 0.00 0.00 2.92
2471 2662 1.756538 CCCCTCCATGTTTAATGCCAC 59.243 52.381 0.00 0.00 0.00 5.01
2472 2663 1.342874 CCCCCTCCATGTTTAATGCCA 60.343 52.381 0.00 0.00 0.00 4.92
2482 2673 1.759101 TTCCCATATCCCCCTCCATG 58.241 55.000 0.00 0.00 0.00 3.66
2493 2684 4.705023 GTGTAGGTTTGCACTTTCCCATAT 59.295 41.667 0.00 0.00 37.02 1.78
2507 2698 1.835531 CTATGTCCCCCGTGTAGGTTT 59.164 52.381 0.00 0.00 38.74 3.27
2513 2704 0.830648 CATGTCTATGTCCCCCGTGT 59.169 55.000 0.00 0.00 0.00 4.49
2514 2705 1.119684 TCATGTCTATGTCCCCCGTG 58.880 55.000 0.00 0.00 35.73 4.94
2517 2708 2.711009 TGGAATCATGTCTATGTCCCCC 59.289 50.000 0.00 0.00 35.73 5.40


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

AutoCloner maintained by Alex Coulton.