Multiple sequence alignment - TraesCS3B01G049500

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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 TraesCS3B01G049500 chr3B 100.000 2729 0 0 1 2729 24934765 24937493 0.000000e+00 5040.0
1 TraesCS3B01G049500 chr3B 80.482 415 59 13 2329 2729 29727304 29727710 5.710000e-77 298.0
2 TraesCS3B01G049500 chr3B 81.766 351 35 17 2181 2514 30464153 30464491 1.610000e-67 267.0
3 TraesCS3B01G049500 chr3D 88.388 1042 93 15 773 1800 17364775 17365802 0.000000e+00 1229.0
4 TraesCS3B01G049500 chr3D 83.414 826 64 24 1 783 17363939 17364734 0.000000e+00 699.0
5 TraesCS3B01G049500 chr3D 79.935 927 142 23 775 1681 17530488 17529586 2.290000e-180 641.0
6 TraesCS3B01G049500 chr3D 87.500 520 49 12 1172 1680 18741155 18741669 1.090000e-163 586.0
7 TraesCS3B01G049500 chr3D 78.246 570 88 21 2182 2729 17366751 17367306 1.570000e-87 333.0
8 TraesCS3B01G049500 chr3D 78.723 517 83 20 2228 2729 18692015 18692519 1.220000e-83 320.0
9 TraesCS3B01G049500 chr3D 77.804 419 66 18 2329 2729 18944240 18944649 1.630000e-57 233.0
10 TraesCS3B01G049500 chr3D 85.427 199 23 3 2531 2729 18700777 18700969 4.610000e-48 202.0
11 TraesCS3B01G049500 chr3D 77.033 209 18 12 1933 2141 17366570 17366748 2.890000e-15 93.5
12 TraesCS3B01G049500 chr3A 82.876 1057 128 28 774 1800 19483410 19482377 0.000000e+00 900.0
13 TraesCS3B01G049500 chr3A 83.961 823 63 30 4 783 19484247 19483451 0.000000e+00 725.0
14 TraesCS3B01G049500 chr3A 82.153 734 109 14 962 1680 26201640 26202366 6.460000e-171 610.0
15 TraesCS3B01G049500 chr3A 78.852 941 138 41 775 1681 19360014 19360927 1.820000e-161 579.0
16 TraesCS3B01G049500 chr3A 77.886 823 120 32 1932 2729 19481414 19480629 3.200000e-124 455.0
17 TraesCS3B01G049500 chr3A 89.091 55 5 1 2202 2256 26398118 26398171 1.750000e-07 67.6


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 TraesCS3B01G049500 chr3B 24934765 24937493 2728 False 5040.000000 5040 100.000000 1 2729 1 chr3B.!!$F1 2728
1 TraesCS3B01G049500 chr3D 17529586 17530488 902 True 641.000000 641 79.935000 775 1681 1 chr3D.!!$R1 906
2 TraesCS3B01G049500 chr3D 17363939 17367306 3367 False 588.625000 1229 81.770250 1 2729 4 chr3D.!!$F5 2728
3 TraesCS3B01G049500 chr3D 18741155 18741669 514 False 586.000000 586 87.500000 1172 1680 1 chr3D.!!$F3 508
4 TraesCS3B01G049500 chr3D 18692015 18692519 504 False 320.000000 320 78.723000 2228 2729 1 chr3D.!!$F1 501
5 TraesCS3B01G049500 chr3A 19480629 19484247 3618 True 693.333333 900 81.574333 4 2729 3 chr3A.!!$R1 2725
6 TraesCS3B01G049500 chr3A 26201640 26202366 726 False 610.000000 610 82.153000 962 1680 1 chr3A.!!$F2 718
7 TraesCS3B01G049500 chr3A 19360014 19360927 913 False 579.000000 579 78.852000 775 1681 1 chr3A.!!$F1 906

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
878 980 0.525668 CGGCTAACAGTACTCCGCTG 60.526 60.0 6.98 2.59 39.67 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2522 3607 0.03496 AGAGCTCCGTAGACTGCTGA 60.035 55.0 10.93 0.0 35.76 4.26 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
140 144 6.687081 AAGAACGAAACATAAAACTGACCA 57.313 33.333 0.00 0.00 0.00 4.02
157 161 1.271597 ACCAAACCAGGAGATGTGCTC 60.272 52.381 0.00 0.00 43.17 4.26
160 164 1.198713 AACCAGGAGATGTGCTCGAT 58.801 50.000 0.00 0.00 44.91 3.59
190 194 2.484264 GCGTCCTCTTTTGTGTTATGCT 59.516 45.455 0.00 0.00 0.00 3.79
196 200 5.181811 TCCTCTTTTGTGTTATGCTGACATG 59.818 40.000 0.00 0.00 37.04 3.21
252 256 1.208293 TGCAAACCTTGTTTTGGGTCC 59.792 47.619 0.00 0.00 37.02 4.46
253 257 1.804746 GCAAACCTTGTTTTGGGTCCG 60.805 52.381 0.00 0.00 37.02 4.79
265 269 1.993948 GGGTCCGAGCCCCTTAGTT 60.994 63.158 5.21 0.00 42.89 2.24
267 271 1.551019 GGTCCGAGCCCCTTAGTTGT 61.551 60.000 0.00 0.00 0.00 3.32
310 314 2.050895 CCGCATCCTCGCTCGTAG 60.051 66.667 0.00 0.00 0.00 3.51
336 340 4.543590 ATCCGAGTGTCATCTTTGAGTT 57.456 40.909 0.00 0.00 30.85 3.01
348 352 6.808704 GTCATCTTTGAGTTTTATTTGAGGCC 59.191 38.462 0.00 0.00 30.85 5.19
353 357 3.892588 TGAGTTTTATTTGAGGCCCGTTT 59.107 39.130 0.00 0.00 0.00 3.60
377 381 5.929992 TCACTGGATAGTTGGTTTCTTAACG 59.070 40.000 0.00 0.00 34.07 3.18
403 408 2.577449 AAAAGTTGTGGCGGTTTCTG 57.423 45.000 0.00 0.00 0.00 3.02
408 413 3.219281 AGTTGTGGCGGTTTCTGTAATT 58.781 40.909 0.00 0.00 0.00 1.40
429 434 9.427127 GTAATTAAAATCGATGAGAAGACTTGC 57.573 33.333 0.00 0.00 0.00 4.01
435 440 3.193479 TCGATGAGAAGACTTGCTGCTTA 59.807 43.478 0.00 0.00 30.35 3.09
436 441 3.928992 CGATGAGAAGACTTGCTGCTTAA 59.071 43.478 0.00 0.00 30.35 1.85
475 480 5.774878 AAGACGGCGTAAAGAATTAGTTC 57.225 39.130 14.74 0.00 34.46 3.01
476 481 4.813027 AGACGGCGTAAAGAATTAGTTCA 58.187 39.130 14.74 0.00 36.79 3.18
484 489 7.361799 GGCGTAAAGAATTAGTTCAGAAATGGT 60.362 37.037 0.44 0.00 36.79 3.55
524 530 1.899814 TGGAGAAACCACTAGTCGCAT 59.100 47.619 0.00 0.00 44.64 4.73
525 531 2.271800 GGAGAAACCACTAGTCGCATG 58.728 52.381 0.00 0.00 38.79 4.06
526 532 2.271800 GAGAAACCACTAGTCGCATGG 58.728 52.381 0.00 0.00 39.57 3.66
663 704 4.743644 GCCAATCAGTGTACGGATAGTTAC 59.256 45.833 0.00 0.00 30.73 2.50
664 705 5.451520 GCCAATCAGTGTACGGATAGTTACT 60.452 44.000 0.00 0.00 30.73 2.24
665 706 5.977725 CCAATCAGTGTACGGATAGTTACTG 59.022 44.000 0.00 0.00 42.81 2.74
701 744 1.275010 TGCCGTAGAACAAGAGCATGA 59.725 47.619 0.00 0.00 0.00 3.07
705 748 3.369147 CCGTAGAACAAGAGCATGAAGTG 59.631 47.826 0.00 0.00 0.00 3.16
721 764 3.998672 TGCCCGGAACCGACAGAC 61.999 66.667 15.07 0.21 42.83 3.51
866 968 2.161609 CCAGTCAAATGTTCCGGCTAAC 59.838 50.000 0.00 0.00 0.00 2.34
878 980 0.525668 CGGCTAACAGTACTCCGCTG 60.526 60.000 6.98 2.59 39.67 5.18
898 1000 1.202891 GGCTTGCCGTCCCCTTATATT 60.203 52.381 0.00 0.00 0.00 1.28
900 1002 2.486548 GCTTGCCGTCCCCTTATATTGA 60.487 50.000 0.00 0.00 0.00 2.57
902 1004 3.417069 TGCCGTCCCCTTATATTGATG 57.583 47.619 0.00 0.00 0.00 3.07
963 1085 1.536174 CCACAACCCCCTTTGGCAT 60.536 57.895 0.00 0.00 0.00 4.40
1011 1136 0.820074 CTACTCCGATGGCTCCGAGT 60.820 60.000 0.00 10.69 41.14 4.18
1168 1296 1.482593 AGACGGGAAGATCATGTGGTC 59.517 52.381 0.00 0.00 0.00 4.02
1279 1412 4.676799 ATCCTCAATATCTCCTACGGGA 57.323 45.455 0.00 0.00 39.70 5.14
1349 1482 0.322456 CCGCCCAAGATCTTCAACCA 60.322 55.000 4.57 0.00 0.00 3.67
1354 1487 1.466167 CCAAGATCTTCAACCACTGCG 59.534 52.381 4.57 0.00 0.00 5.18
1355 1488 1.135859 CAAGATCTTCAACCACTGCGC 60.136 52.381 4.57 0.00 0.00 6.09
1385 1518 1.604278 GAACACCTCTGTCAAACTGGC 59.396 52.381 0.00 0.00 0.00 4.85
1386 1519 0.532862 ACACCTCTGTCAAACTGGCG 60.533 55.000 0.00 0.00 0.00 5.69
1403 1536 1.885850 CGCCCCCGTTTAAGATCGG 60.886 63.158 8.26 8.26 45.42 4.18
1446 1585 4.308458 TACAACTGCACGGCGGCT 62.308 61.111 13.24 0.00 38.71 5.52
1478 1623 0.609131 CGGGGAAATGAACTGGTGCT 60.609 55.000 0.00 0.00 0.00 4.40
1533 1678 1.279527 CGTTTGTTCGCGCAGGAGTA 61.280 55.000 8.75 0.00 0.00 2.59
1537 1682 2.092882 GTTCGCGCAGGAGTACCAC 61.093 63.158 8.75 0.00 38.94 4.16
1638 1806 2.720758 CGAGACAAACGCGAGCCAG 61.721 63.158 15.93 0.00 44.01 4.85
1645 1813 2.814183 AAACGCGAGCCAGTACGAGG 62.814 60.000 15.93 3.30 34.06 4.63
1656 1824 2.223688 CCAGTACGAGGAGCTCATCAAG 60.224 54.545 26.42 14.41 0.00 3.02
1681 1849 3.152341 GGCTTCCTATTGACATGGGATG 58.848 50.000 0.00 0.00 39.70 3.51
1682 1850 3.181440 GGCTTCCTATTGACATGGGATGA 60.181 47.826 0.00 0.00 39.70 2.92
1683 1851 4.464008 GCTTCCTATTGACATGGGATGAA 58.536 43.478 0.00 0.00 39.70 2.57
1684 1852 4.518211 GCTTCCTATTGACATGGGATGAAG 59.482 45.833 0.00 1.42 39.70 3.02
1691 1862 0.467384 ACATGGGATGAAGCTCCTCG 59.533 55.000 0.00 0.00 35.50 4.63
1692 1863 0.250209 CATGGGATGAAGCTCCTCGG 60.250 60.000 0.00 0.00 35.50 4.63
1696 1867 1.227497 GATGAAGCTCCTCGGCCTG 60.227 63.158 0.00 0.00 0.00 4.85
1699 1870 4.400961 AAGCTCCTCGGCCTGCAC 62.401 66.667 0.00 0.00 0.00 4.57
1728 1900 6.488683 AGTTCACCCGTCAAATCATCTTTTAA 59.511 34.615 0.00 0.00 0.00 1.52
1732 1904 6.968904 CACCCGTCAAATCATCTTTTAATCTG 59.031 38.462 0.00 0.00 0.00 2.90
1745 1917 1.491668 TAATCTGGTTCGGCTAGCCA 58.508 50.000 32.47 17.27 35.85 4.75
1750 1922 1.741770 GGTTCGGCTAGCCACAGTG 60.742 63.158 32.47 16.38 35.37 3.66
1752 1924 2.878089 TTCGGCTAGCCACAGTGCA 61.878 57.895 32.47 4.10 35.37 4.57
1777 1949 4.329638 TTTGCCAGGATTTCCCTAATCA 57.670 40.909 0.00 0.00 45.60 2.57
1824 2047 5.016831 ACTTTTGGGTTCAGAACAAAGTCT 58.983 37.500 18.18 4.23 32.81 3.24
1825 2048 6.184789 ACTTTTGGGTTCAGAACAAAGTCTA 58.815 36.000 18.18 0.00 32.81 2.59
1829 2052 3.498777 GGGTTCAGAACAAAGTCTACTGC 59.501 47.826 15.36 0.00 0.00 4.40
1838 2061 4.381411 ACAAAGTCTACTGCCAGAACTTC 58.619 43.478 0.00 0.00 0.00 3.01
1840 2063 3.951775 AGTCTACTGCCAGAACTTCTG 57.048 47.619 11.37 11.37 43.91 3.02
1844 2067 0.475906 ACTGCCAGAACTTCTGCCTT 59.524 50.000 12.69 0.00 42.98 4.35
1848 2071 1.528129 CCAGAACTTCTGCCTTGTCC 58.472 55.000 12.69 0.00 42.98 4.02
1849 2072 1.528129 CAGAACTTCTGCCTTGTCCC 58.472 55.000 5.84 0.00 37.72 4.46
1853 2076 1.672356 CTTCTGCCTTGTCCCACGG 60.672 63.158 0.00 0.00 0.00 4.94
1871 2094 2.034812 ACGGTGACTGAACTCTGAACTC 59.965 50.000 0.00 0.00 0.00 3.01
1875 2098 3.319405 GTGACTGAACTCTGAACTCCTCA 59.681 47.826 0.00 0.00 0.00 3.86
1884 2107 2.036475 TCTGAACTCCTCAACTCTGCAC 59.964 50.000 0.00 0.00 32.17 4.57
1891 2114 2.591429 CAACTCTGCACCACGGCA 60.591 61.111 0.00 0.00 42.53 5.69
1894 2117 1.034838 AACTCTGCACCACGGCAAAA 61.035 50.000 0.00 0.00 44.40 2.44
1918 2141 8.579682 AAAATTTTGTTAAGAGAGATGTGCAC 57.420 30.769 10.75 10.75 0.00 4.57
1921 2144 3.664107 TGTTAAGAGAGATGTGCACCAC 58.336 45.455 15.69 8.34 34.56 4.16
1922 2145 3.324846 TGTTAAGAGAGATGTGCACCACT 59.675 43.478 15.69 13.37 35.11 4.00
1923 2146 2.469274 AAGAGAGATGTGCACCACTG 57.531 50.000 15.69 0.00 35.11 3.66
1924 2147 1.637338 AGAGAGATGTGCACCACTGA 58.363 50.000 15.69 0.00 35.11 3.41
1926 2149 0.037882 AGAGATGTGCACCACTGACG 60.038 55.000 15.69 0.00 35.11 4.35
1927 2150 0.038251 GAGATGTGCACCACTGACGA 60.038 55.000 15.69 0.00 35.11 4.20
1928 2151 0.610174 AGATGTGCACCACTGACGAT 59.390 50.000 15.69 0.00 35.11 3.73
1930 2153 2.432146 AGATGTGCACCACTGACGATAT 59.568 45.455 15.69 0.00 35.11 1.63
2000 3068 0.961753 CCTGGTTCCAGGTTTTCAGC 59.038 55.000 25.10 0.00 46.22 4.26
2001 3069 1.691196 CTGGTTCCAGGTTTTCAGCA 58.309 50.000 10.71 0.00 0.00 4.41
2003 3071 1.064017 TGGTTCCAGGTTTTCAGCAGT 60.064 47.619 0.00 0.00 0.00 4.40
2005 3073 2.297701 GTTCCAGGTTTTCAGCAGTCA 58.702 47.619 0.00 0.00 0.00 3.41
2007 3075 1.490490 TCCAGGTTTTCAGCAGTCACT 59.510 47.619 0.00 0.00 0.00 3.41
2008 3076 2.092429 TCCAGGTTTTCAGCAGTCACTT 60.092 45.455 0.00 0.00 0.00 3.16
2009 3077 2.291741 CCAGGTTTTCAGCAGTCACTTC 59.708 50.000 0.00 0.00 0.00 3.01
2011 3079 1.334149 GGTTTTCAGCAGTCACTTCGC 60.334 52.381 0.00 0.00 0.00 4.70
2012 3080 0.581529 TTTTCAGCAGTCACTTCGCG 59.418 50.000 0.00 0.00 0.00 5.87
2013 3081 1.221466 TTTCAGCAGTCACTTCGCGG 61.221 55.000 6.13 0.00 0.00 6.46
2014 3082 3.114616 CAGCAGTCACTTCGCGGG 61.115 66.667 6.13 1.80 0.00 6.13
2017 3085 2.664851 CAGTCACTTCGCGGGCAA 60.665 61.111 6.13 0.00 0.00 4.52
2018 3086 2.110213 AGTCACTTCGCGGGCAAA 59.890 55.556 6.13 0.00 0.00 3.68
2019 3087 2.251371 GTCACTTCGCGGGCAAAC 59.749 61.111 6.13 0.00 0.00 2.93
2020 3088 2.975799 TCACTTCGCGGGCAAACC 60.976 61.111 6.13 0.00 0.00 3.27
2021 3089 3.283684 CACTTCGCGGGCAAACCA 61.284 61.111 6.13 0.00 40.22 3.67
2022 3090 2.517402 ACTTCGCGGGCAAACCAA 60.517 55.556 6.13 0.00 40.22 3.67
2023 3091 2.255252 CTTCGCGGGCAAACCAAG 59.745 61.111 6.13 0.00 40.22 3.61
2024 3092 3.267597 CTTCGCGGGCAAACCAAGG 62.268 63.158 6.13 0.00 40.22 3.61
2025 3093 4.572571 TCGCGGGCAAACCAAGGT 62.573 61.111 6.13 0.00 40.22 3.50
2026 3094 4.038080 CGCGGGCAAACCAAGGTC 62.038 66.667 0.00 0.00 40.22 3.85
2027 3095 2.909965 GCGGGCAAACCAAGGTCA 60.910 61.111 0.00 0.00 40.22 4.02
2028 3096 2.275380 GCGGGCAAACCAAGGTCAT 61.275 57.895 0.00 0.00 40.22 3.06
2029 3097 1.586028 CGGGCAAACCAAGGTCATG 59.414 57.895 0.00 0.00 40.22 3.07
2030 3098 1.876497 CGGGCAAACCAAGGTCATGG 61.876 60.000 0.00 0.00 46.38 3.66
2048 3116 2.209758 TGGGGTCATGGCATACCTTAA 58.790 47.619 18.97 8.08 35.97 1.85
2086 3155 2.705658 TCATGGCTTACTAGTCCATGGG 59.294 50.000 28.64 14.05 45.76 4.00
2091 3160 2.365941 GCTTACTAGTCCATGGGGTCTC 59.634 54.545 13.02 0.00 34.29 3.36
2092 3161 2.769602 TACTAGTCCATGGGGTCTCC 57.230 55.000 13.02 0.00 34.29 3.71
2112 3181 2.490718 CCATTGGGAAACTTCCTGGACA 60.491 50.000 8.37 0.00 46.72 4.02
2119 3188 4.568592 GGGAAACTTCCTGGACAATGATCT 60.569 45.833 8.37 0.00 46.72 2.75
2126 3195 2.356432 CCTGGACAATGATCTCTTGGCA 60.356 50.000 14.03 0.00 33.04 4.92
2127 3196 3.349927 CTGGACAATGATCTCTTGGCAA 58.650 45.455 14.03 0.00 33.04 4.52
2128 3197 3.349927 TGGACAATGATCTCTTGGCAAG 58.650 45.455 21.17 21.17 33.04 4.01
2145 3214 4.344679 TGGCAAGAATTTCCAGTCAAATGT 59.655 37.500 0.00 0.00 0.00 2.71
2146 3215 5.163322 TGGCAAGAATTTCCAGTCAAATGTT 60.163 36.000 0.00 0.00 0.00 2.71
2149 3218 6.479660 GCAAGAATTTCCAGTCAAATGTTCAA 59.520 34.615 0.00 0.00 0.00 2.69
2152 3221 9.696917 AAGAATTTCCAGTCAAATGTTCAATAC 57.303 29.630 0.00 0.00 0.00 1.89
2158 3227 7.103641 TCCAGTCAAATGTTCAATACTAGTCC 58.896 38.462 0.00 0.00 0.00 3.85
2168 3237 0.307146 ATACTAGTCCGCTCGTTCGC 59.693 55.000 0.00 0.00 0.00 4.70
2169 3238 1.709147 TACTAGTCCGCTCGTTCGCC 61.709 60.000 0.00 0.00 0.00 5.54
2178 3247 4.444838 TCGTTCGCCGTCCCCATG 62.445 66.667 0.00 0.00 37.94 3.66
2193 3262 3.397282 TCCCCATGCATATATGTGGTTCA 59.603 43.478 16.99 6.93 29.06 3.18
2194 3263 4.141065 TCCCCATGCATATATGTGGTTCAA 60.141 41.667 16.99 2.28 29.06 2.69
2206 3275 0.468226 TGGTTCAAGCTTCGACCACT 59.532 50.000 21.04 0.00 37.26 4.00
2208 3277 1.583054 GTTCAAGCTTCGACCACTGT 58.417 50.000 0.00 0.00 0.00 3.55
2212 3281 3.585862 TCAAGCTTCGACCACTGTATTC 58.414 45.455 0.00 0.00 0.00 1.75
2220 3289 5.814764 TCGACCACTGTATTCTCTCTTAC 57.185 43.478 0.00 0.00 0.00 2.34
2222 3291 4.094590 CGACCACTGTATTCTCTCTTACGT 59.905 45.833 0.00 0.00 0.00 3.57
2225 3294 5.942236 ACCACTGTATTCTCTCTTACGTGTA 59.058 40.000 0.00 0.00 0.00 2.90
2226 3295 6.093771 ACCACTGTATTCTCTCTTACGTGTAG 59.906 42.308 0.00 0.00 0.00 2.74
2251 3325 1.308877 ACCTTCCCAATAGCCCATGT 58.691 50.000 0.00 0.00 0.00 3.21
2266 3340 1.097547 CATGTCCACCGAATCCAGCC 61.098 60.000 0.00 0.00 0.00 4.85
2270 3344 2.438434 CACCGAATCCAGCCACCC 60.438 66.667 0.00 0.00 0.00 4.61
2271 3345 2.933287 ACCGAATCCAGCCACCCA 60.933 61.111 0.00 0.00 0.00 4.51
2275 3349 1.077429 GAATCCAGCCACCCACCTC 60.077 63.158 0.00 0.00 0.00 3.85
2280 3354 3.644606 AGCCACCCACCTCTGCTG 61.645 66.667 0.00 0.00 0.00 4.41
2286 3360 1.302832 CCCACCTCTGCTGTTCACC 60.303 63.158 0.00 0.00 0.00 4.02
2288 3362 0.037303 CCACCTCTGCTGTTCACCAT 59.963 55.000 0.00 0.00 0.00 3.55
2298 3372 3.118261 TGCTGTTCACCATAATCTCTCCC 60.118 47.826 0.00 0.00 0.00 4.30
2302 3376 6.688922 GCTGTTCACCATAATCTCTCCCAATA 60.689 42.308 0.00 0.00 0.00 1.90
2303 3377 7.392766 TGTTCACCATAATCTCTCCCAATAT 57.607 36.000 0.00 0.00 0.00 1.28
2306 3380 8.571336 GTTCACCATAATCTCTCCCAATATTTG 58.429 37.037 0.00 0.00 0.00 2.32
2351 3425 0.599204 TGGTTCTTGGTCTTCGTCGC 60.599 55.000 0.00 0.00 0.00 5.19
2385 3461 2.267006 CTGATGCTCGTGGTGGCT 59.733 61.111 0.00 0.00 0.00 4.75
2401 3477 3.385384 CTGAGGACCAGCAGCGGA 61.385 66.667 9.87 0.00 35.89 5.54
2458 3534 0.248825 CTCTGATCCGTTCTGGCTCG 60.249 60.000 0.00 0.00 35.54 5.03
2460 3536 2.956964 GATCCGTTCTGGCTCGCG 60.957 66.667 0.00 0.00 37.80 5.87
2461 3537 3.411418 GATCCGTTCTGGCTCGCGA 62.411 63.158 9.26 9.26 37.80 5.87
2462 3538 3.701604 ATCCGTTCTGGCTCGCGAC 62.702 63.158 3.71 1.87 37.80 5.19
2465 3541 2.430244 GTTCTGGCTCGCGACGAA 60.430 61.111 3.71 2.87 34.74 3.85
2472 3548 4.154613 CTCGCGACGAAAGAGCTT 57.845 55.556 3.71 0.00 34.74 3.74
2474 3550 0.729478 CTCGCGACGAAAGAGCTTGA 60.729 55.000 3.71 0.00 34.74 3.02
2475 3551 0.729478 TCGCGACGAAAGAGCTTGAG 60.729 55.000 3.71 0.00 36.49 3.02
2479 3555 2.246789 CGACGAAAGAGCTTGAGAGAC 58.753 52.381 0.00 0.00 0.00 3.36
2502 3587 0.727398 GCGGTTCCTTGGATTTCGAG 59.273 55.000 9.65 0.00 0.00 4.04
2506 3591 2.290071 GGTTCCTTGGATTTCGAGGTCA 60.290 50.000 0.00 0.00 45.51 4.02
2508 3593 1.278127 TCCTTGGATTTCGAGGTCACC 59.722 52.381 0.00 0.00 45.51 4.02
2511 3596 0.036388 TGGATTTCGAGGTCACCTGC 60.036 55.000 0.00 0.00 31.76 4.85
2515 3600 1.522668 TTTCGAGGTCACCTGCAATG 58.477 50.000 0.00 0.00 31.76 2.82
2516 3601 0.321564 TTCGAGGTCACCTGCAATGG 60.322 55.000 0.00 0.00 31.76 3.16
2517 3602 1.003355 CGAGGTCACCTGCAATGGT 60.003 57.895 0.00 0.00 41.77 3.55
2519 3604 1.739067 GAGGTCACCTGCAATGGTAC 58.261 55.000 0.00 0.00 38.45 3.34
2522 3607 1.340991 GGTCACCTGCAATGGTACCAT 60.341 52.381 22.23 22.23 38.45 3.55
2523 3608 2.017049 GTCACCTGCAATGGTACCATC 58.983 52.381 27.49 16.38 38.45 3.51
2525 3610 2.019249 CACCTGCAATGGTACCATCAG 58.981 52.381 27.49 26.72 38.45 2.90
2526 3611 1.027357 CCTGCAATGGTACCATCAGC 58.973 55.000 30.85 30.85 37.66 4.26
2527 3612 1.682702 CCTGCAATGGTACCATCAGCA 60.683 52.381 34.47 34.47 41.58 4.41
2528 3613 1.753930 TGCAATGGTACCATCAGCAG 58.246 50.000 33.94 21.14 40.15 4.24
2556 3644 4.443621 GGAGCTCTATACCCTTCAACAAC 58.556 47.826 14.64 0.00 0.00 3.32
2591 3679 4.082190 CCTCAACATCTCTTACGAGGAACA 60.082 45.833 0.00 0.00 42.18 3.18
2639 3727 1.794151 CTGGACGTGTTGCATGCCAA 61.794 55.000 16.68 6.85 30.65 4.52
2653 3741 2.639286 CCAACAACAGCTGCCGTC 59.361 61.111 15.27 0.00 0.00 4.79
2680 3768 4.618927 CGTTCCCGTTCTATAACACCTCAA 60.619 45.833 0.00 0.00 35.16 3.02
2681 3769 4.730949 TCCCGTTCTATAACACCTCAAG 57.269 45.455 0.00 0.00 35.16 3.02
2685 3773 4.330074 CCGTTCTATAACACCTCAAGCAAG 59.670 45.833 0.00 0.00 35.16 4.01
2693 3781 0.183492 ACCTCAAGCAAGCTGAACCA 59.817 50.000 0.00 0.00 0.00 3.67
2694 3782 1.202976 ACCTCAAGCAAGCTGAACCAT 60.203 47.619 0.00 0.00 0.00 3.55
2696 3784 2.434428 CTCAAGCAAGCTGAACCATCT 58.566 47.619 0.00 0.00 0.00 2.90
2709 3797 5.605534 CTGAACCATCTGTTTAGGATCGAT 58.394 41.667 0.00 0.00 37.02 3.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 68 9.975218 TCTAGTTTTCTATTTTTATGCTTCCCT 57.025 29.630 0.00 0.00 0.00 4.20
123 127 5.983118 CCTGGTTTGGTCAGTTTTATGTTTC 59.017 40.000 0.00 0.00 0.00 2.78
140 144 0.976641 TCGAGCACATCTCCTGGTTT 59.023 50.000 0.00 0.00 38.62 3.27
157 161 3.032017 AGAGGACGCATAATTGGATCG 57.968 47.619 0.00 0.00 0.00 3.69
160 164 4.155826 CACAAAAGAGGACGCATAATTGGA 59.844 41.667 0.00 0.00 0.00 3.53
190 194 2.481289 TGACGCCCATTAACATGTCA 57.519 45.000 0.00 0.00 34.27 3.58
196 200 3.284617 ACCCTATTTGACGCCCATTAAC 58.715 45.455 0.00 0.00 0.00 2.01
252 256 1.078426 CCCACAACTAAGGGGCTCG 60.078 63.158 0.00 0.00 41.58 5.03
282 286 2.993899 CGAGGATGCGGGTTTATGTATC 59.006 50.000 0.00 0.00 0.00 2.24
310 314 6.369065 ACTCAAAGATGACACTCGGATAAAAC 59.631 38.462 0.00 0.00 0.00 2.43
336 340 3.254657 CAGTGAAACGGGCCTCAAATAAA 59.745 43.478 0.84 0.00 45.86 1.40
348 352 3.053831 ACCAACTATCCAGTGAAACGG 57.946 47.619 0.00 0.00 45.86 4.44
353 357 5.929992 CGTTAAGAAACCAACTATCCAGTGA 59.070 40.000 0.00 0.00 31.26 3.41
377 381 2.159071 ACCGCCACAACTTTTTAAACCC 60.159 45.455 0.00 0.00 0.00 4.11
403 408 9.427127 GCAAGTCTTCTCATCGATTTTAATTAC 57.573 33.333 0.00 0.00 0.00 1.89
408 413 5.063944 GCAGCAAGTCTTCTCATCGATTTTA 59.936 40.000 0.00 0.00 0.00 1.52
442 447 8.031848 TCTTTACGCCGTCTTTTTAATATTGT 57.968 30.769 0.00 0.00 0.00 2.71
443 448 8.883789 TTCTTTACGCCGTCTTTTTAATATTG 57.116 30.769 0.00 0.00 0.00 1.90
459 464 7.527457 ACCATTTCTGAACTAATTCTTTACGC 58.473 34.615 0.00 0.00 35.69 4.42
460 465 9.893305 AAACCATTTCTGAACTAATTCTTTACG 57.107 29.630 0.00 0.00 35.69 3.18
470 475 6.899393 AGCATCAAAACCATTTCTGAACTA 57.101 33.333 0.00 0.00 0.00 2.24
475 480 6.847956 TTGAAAGCATCAAAACCATTTCTG 57.152 33.333 2.79 0.00 44.94 3.02
518 524 4.413495 TTTAGCTTTTGTACCATGCGAC 57.587 40.909 0.00 0.00 0.00 5.19
520 526 5.286082 GTCATTTTAGCTTTTGTACCATGCG 59.714 40.000 0.00 0.00 0.00 4.73
521 527 5.286082 CGTCATTTTAGCTTTTGTACCATGC 59.714 40.000 0.00 0.00 0.00 4.06
522 528 5.286082 GCGTCATTTTAGCTTTTGTACCATG 59.714 40.000 0.00 0.00 0.00 3.66
524 530 4.276183 TGCGTCATTTTAGCTTTTGTACCA 59.724 37.500 0.00 0.00 0.00 3.25
525 531 4.789784 TGCGTCATTTTAGCTTTTGTACC 58.210 39.130 0.00 0.00 0.00 3.34
526 532 6.416750 ACTTTGCGTCATTTTAGCTTTTGTAC 59.583 34.615 0.00 0.00 0.00 2.90
622 647 0.528249 GCTATTGGGGTTGCGCATTG 60.528 55.000 12.75 0.00 0.00 2.82
663 704 1.068748 GCATTCACACTTGACAGGCAG 60.069 52.381 0.00 0.00 0.00 4.85
664 705 0.953727 GCATTCACACTTGACAGGCA 59.046 50.000 0.00 0.00 0.00 4.75
665 706 0.242017 GGCATTCACACTTGACAGGC 59.758 55.000 0.00 0.00 0.00 4.85
701 744 3.530910 CTGTCGGTTCCGGGCACTT 62.531 63.158 11.37 0.00 0.00 3.16
705 748 4.754667 GGTCTGTCGGTTCCGGGC 62.755 72.222 11.37 5.73 0.00 6.13
721 764 2.515523 CCAGGATGCTTCGCTGGG 60.516 66.667 20.38 6.28 36.99 4.45
741 792 0.899720 GACCCCGTGATGTGACCTTA 59.100 55.000 0.00 0.00 0.00 2.69
745 796 0.173708 GAGAGACCCCGTGATGTGAC 59.826 60.000 0.00 0.00 0.00 3.67
866 968 2.103042 GCAAGCCAGCGGAGTACTG 61.103 63.158 0.00 0.00 34.82 2.74
878 980 0.400594 ATATAAGGGGACGGCAAGCC 59.599 55.000 0.00 0.00 0.00 4.35
902 1004 0.390735 AATACCGTGGTCGAAGCACC 60.391 55.000 0.00 0.00 43.18 5.01
1238 1371 2.935740 GCAAAGCCAGGGGTGAAGC 61.936 63.158 0.00 0.00 0.00 3.86
1349 1482 2.755876 TCCAGATCGGAGCGCAGT 60.756 61.111 11.47 0.00 39.64 4.40
1385 1518 1.885850 CCGATCTTAAACGGGGGCG 60.886 63.158 0.00 0.00 44.59 6.13
1386 1519 4.136250 CCGATCTTAAACGGGGGC 57.864 61.111 0.00 0.00 44.59 5.80
1403 1536 2.671963 GTTCCAGGTTGACGGGGC 60.672 66.667 0.00 0.00 34.87 5.80
1463 1608 0.109597 CGCCAGCACCAGTTCATTTC 60.110 55.000 0.00 0.00 0.00 2.17
1467 1612 1.597854 CTTCGCCAGCACCAGTTCA 60.598 57.895 0.00 0.00 0.00 3.18
1478 1623 1.215382 CACCTCATCGTCTTCGCCA 59.785 57.895 0.00 0.00 36.96 5.69
1554 1699 4.202264 CCCTCCAAAGCATAACTCGAGTAT 60.202 45.833 20.39 11.63 0.00 2.12
1560 1705 2.019984 CAGCCCTCCAAAGCATAACTC 58.980 52.381 0.00 0.00 0.00 3.01
1626 1788 1.443872 CTCGTACTGGCTCGCGTTT 60.444 57.895 5.77 0.00 0.00 3.60
1638 1806 2.025155 TCCTTGATGAGCTCCTCGTAC 58.975 52.381 12.15 0.00 32.35 3.67
1645 1813 2.220313 GAAGCCATCCTTGATGAGCTC 58.780 52.381 6.82 6.82 41.77 4.09
1668 1836 2.512896 AGGAGCTTCATCCCATGTCAAT 59.487 45.455 0.00 0.00 40.53 2.57
1681 1849 4.087892 TGCAGGCCGAGGAGCTTC 62.088 66.667 0.00 0.00 0.00 3.86
1682 1850 4.400961 GTGCAGGCCGAGGAGCTT 62.401 66.667 0.00 0.00 0.00 3.74
1691 1862 1.574702 GGTGAACTTACGTGCAGGCC 61.575 60.000 6.26 0.00 0.00 5.19
1692 1863 1.574702 GGGTGAACTTACGTGCAGGC 61.575 60.000 6.26 0.00 0.00 4.85
1696 1867 0.598158 TGACGGGTGAACTTACGTGC 60.598 55.000 0.00 0.00 39.95 5.34
1699 1870 3.061322 TGATTTGACGGGTGAACTTACG 58.939 45.455 0.00 0.00 0.00 3.18
1728 1900 1.264749 TGTGGCTAGCCGAACCAGAT 61.265 55.000 28.28 0.00 39.42 2.90
1732 1904 1.741770 CACTGTGGCTAGCCGAACC 60.742 63.158 28.28 16.08 39.42 3.62
1750 1922 3.389002 AGGGAAATCCTGGCAAATTATGC 59.611 43.478 0.00 4.60 46.47 3.14
1777 1949 6.160576 ACTAACATGATTGTTGCTTGGTTT 57.839 33.333 0.00 0.00 45.56 3.27
1800 1973 6.184789 AGACTTTGTTCTGAACCCAAAAGTA 58.815 36.000 25.01 3.92 36.13 2.24
1801 1974 5.016831 AGACTTTGTTCTGAACCCAAAAGT 58.983 37.500 25.14 25.14 37.65 2.66
1803 1976 6.094881 CAGTAGACTTTGTTCTGAACCCAAAA 59.905 38.462 17.26 10.38 0.00 2.44
1804 1977 5.588648 CAGTAGACTTTGTTCTGAACCCAAA 59.411 40.000 17.26 11.06 0.00 3.28
1806 1979 4.703897 CAGTAGACTTTGTTCTGAACCCA 58.296 43.478 17.26 1.97 0.00 4.51
1807 1980 3.498777 GCAGTAGACTTTGTTCTGAACCC 59.501 47.826 17.26 2.75 0.00 4.11
1829 2052 1.528129 GGACAAGGCAGAAGTTCTGG 58.472 55.000 29.45 17.41 44.43 3.86
1844 2067 1.046472 AGTTCAGTCACCGTGGGACA 61.046 55.000 8.67 0.00 37.74 4.02
1848 2071 0.673985 TCAGAGTTCAGTCACCGTGG 59.326 55.000 0.00 0.00 0.00 4.94
1849 2072 2.128035 GTTCAGAGTTCAGTCACCGTG 58.872 52.381 0.00 0.00 0.00 4.94
1853 2076 3.319405 TGAGGAGTTCAGAGTTCAGTCAC 59.681 47.826 0.00 0.00 0.00 3.67
1871 2094 1.669115 CCGTGGTGCAGAGTTGAGG 60.669 63.158 0.00 0.00 0.00 3.86
1875 2098 1.034838 TTTTGCCGTGGTGCAGAGTT 61.035 50.000 0.00 0.00 43.21 3.01
1894 2117 7.147976 GGTGCACATCTCTCTTAACAAAATTT 58.852 34.615 20.43 0.00 0.00 1.82
1896 2119 5.769662 TGGTGCACATCTCTCTTAACAAAAT 59.230 36.000 20.43 0.00 0.00 1.82
1897 2120 5.008613 GTGGTGCACATCTCTCTTAACAAAA 59.991 40.000 20.43 0.00 34.08 2.44
1898 2121 4.515191 GTGGTGCACATCTCTCTTAACAAA 59.485 41.667 20.43 0.00 34.08 2.83
1899 2122 4.065088 GTGGTGCACATCTCTCTTAACAA 58.935 43.478 20.43 0.00 34.08 2.83
1900 2123 3.324846 AGTGGTGCACATCTCTCTTAACA 59.675 43.478 20.43 0.00 36.74 2.41
1901 2124 3.681897 CAGTGGTGCACATCTCTCTTAAC 59.318 47.826 20.43 0.00 36.74 2.01
1903 2126 3.056536 GTCAGTGGTGCACATCTCTCTTA 60.057 47.826 20.43 0.00 36.74 2.10
1904 2127 1.973515 TCAGTGGTGCACATCTCTCTT 59.026 47.619 20.43 0.00 36.74 2.85
1905 2128 1.274728 GTCAGTGGTGCACATCTCTCT 59.725 52.381 20.43 4.40 36.74 3.10
1907 2130 0.037882 CGTCAGTGGTGCACATCTCT 60.038 55.000 20.43 5.52 36.74 3.10
1909 2132 0.610174 ATCGTCAGTGGTGCACATCT 59.390 50.000 20.43 12.95 36.74 2.90
1910 2133 2.293677 TATCGTCAGTGGTGCACATC 57.706 50.000 20.43 10.71 36.74 3.06
1911 2134 2.988010 ATATCGTCAGTGGTGCACAT 57.012 45.000 20.43 3.10 36.74 3.21
1912 2135 2.760634 AATATCGTCAGTGGTGCACA 57.239 45.000 20.43 1.62 36.74 4.57
1913 2136 4.419522 AAAAATATCGTCAGTGGTGCAC 57.580 40.909 8.80 8.80 34.10 4.57
1940 3008 7.333423 TGCTCTTGCTTAGACGTTTATGTAATT 59.667 33.333 0.00 0.00 40.48 1.40
1945 3013 4.388773 TGTGCTCTTGCTTAGACGTTTATG 59.611 41.667 0.00 0.00 40.48 1.90
1951 3019 3.878086 TTTTGTGCTCTTGCTTAGACG 57.122 42.857 0.00 0.00 40.48 4.18
1958 3026 3.445096 ACCAGGATATTTTGTGCTCTTGC 59.555 43.478 0.00 0.00 40.20 4.01
1959 3027 4.096984 GGACCAGGATATTTTGTGCTCTTG 59.903 45.833 0.00 0.00 0.00 3.02
1992 3060 1.657538 CGCGAAGTGACTGCTGAAAAC 60.658 52.381 0.00 0.00 43.07 2.43
1993 3061 0.581529 CGCGAAGTGACTGCTGAAAA 59.418 50.000 0.00 0.00 43.07 2.29
1994 3062 1.221466 CCGCGAAGTGACTGCTGAAA 61.221 55.000 8.23 0.00 43.07 2.69
1996 3064 2.049156 CCGCGAAGTGACTGCTGA 60.049 61.111 8.23 0.00 43.07 4.26
1997 3065 3.114616 CCCGCGAAGTGACTGCTG 61.115 66.667 8.23 0.00 43.07 4.41
2000 3068 2.250939 TTTGCCCGCGAAGTGACTG 61.251 57.895 8.23 0.00 43.07 3.51
2001 3069 2.110213 TTTGCCCGCGAAGTGACT 59.890 55.556 8.23 0.00 43.07 3.41
2003 3071 2.975799 GGTTTGCCCGCGAAGTGA 60.976 61.111 8.23 0.00 43.07 3.41
2005 3073 2.517402 TTGGTTTGCCCGCGAAGT 60.517 55.556 8.23 0.00 35.15 3.01
2007 3075 3.291383 CCTTGGTTTGCCCGCGAA 61.291 61.111 8.23 0.00 35.15 4.70
2008 3076 4.572571 ACCTTGGTTTGCCCGCGA 62.573 61.111 8.23 0.00 35.15 5.87
2009 3077 4.038080 GACCTTGGTTTGCCCGCG 62.038 66.667 0.00 0.00 35.15 6.46
2011 3079 1.586028 CATGACCTTGGTTTGCCCG 59.414 57.895 0.00 0.00 35.15 6.13
2012 3080 1.543944 CCCATGACCTTGGTTTGCCC 61.544 60.000 0.00 0.00 34.77 5.36
2013 3081 1.543944 CCCCATGACCTTGGTTTGCC 61.544 60.000 0.00 0.00 34.77 4.52
2014 3082 0.831711 ACCCCATGACCTTGGTTTGC 60.832 55.000 0.00 0.00 34.77 3.68
2015 3083 1.256812 GACCCCATGACCTTGGTTTG 58.743 55.000 0.00 0.00 34.77 2.93
2016 3084 0.856982 TGACCCCATGACCTTGGTTT 59.143 50.000 0.00 0.00 34.77 3.27
2017 3085 1.084018 ATGACCCCATGACCTTGGTT 58.916 50.000 0.00 0.00 34.77 3.67
2018 3086 2.805164 ATGACCCCATGACCTTGGT 58.195 52.632 0.00 0.00 34.77 3.67
2027 3095 1.234806 AAGGTATGCCATGACCCCAT 58.765 50.000 1.54 0.00 36.27 4.00
2028 3096 1.900254 TAAGGTATGCCATGACCCCA 58.100 50.000 1.54 0.00 36.27 4.96
2029 3097 2.174854 AGTTAAGGTATGCCATGACCCC 59.825 50.000 1.54 0.00 36.27 4.95
2030 3098 3.214328 CAGTTAAGGTATGCCATGACCC 58.786 50.000 1.54 0.00 36.27 4.46
2048 3116 4.337555 GCCATGACTTATCAAATCTGCAGT 59.662 41.667 14.67 0.00 38.69 4.40
2086 3155 2.447443 GGAAGTTTCCCAATGGAGACC 58.553 52.381 0.00 0.00 44.89 3.85
2112 3181 5.718130 TGGAAATTCTTGCCAAGAGATCATT 59.282 36.000 7.29 1.98 39.03 2.57
2119 3188 3.831323 TGACTGGAAATTCTTGCCAAGA 58.169 40.909 2.24 2.24 35.26 3.02
2126 3195 9.696917 GTATTGAACATTTGACTGGAAATTCTT 57.303 29.630 0.00 0.00 0.00 2.52
2127 3196 9.082313 AGTATTGAACATTTGACTGGAAATTCT 57.918 29.630 0.00 0.00 0.00 2.40
2145 3214 3.486375 CGAACGAGCGGACTAGTATTGAA 60.486 47.826 0.00 0.00 30.77 2.69
2146 3215 2.031314 CGAACGAGCGGACTAGTATTGA 59.969 50.000 0.00 0.00 30.77 2.57
2149 3218 0.307146 GCGAACGAGCGGACTAGTAT 59.693 55.000 0.00 0.00 30.77 2.12
2152 3221 2.278013 GGCGAACGAGCGGACTAG 60.278 66.667 0.00 0.00 38.18 2.57
2168 3237 2.358957 CACATATATGCATGGGGACGG 58.641 52.381 10.16 0.00 0.00 4.79
2178 3247 4.511454 TCGAAGCTTGAACCACATATATGC 59.489 41.667 12.79 0.00 0.00 3.14
2179 3248 5.050091 GGTCGAAGCTTGAACCACATATATG 60.050 44.000 17.93 11.29 0.00 1.78
2193 3262 3.511934 AGAGAATACAGTGGTCGAAGCTT 59.488 43.478 0.00 0.00 0.00 3.74
2194 3263 3.093057 AGAGAATACAGTGGTCGAAGCT 58.907 45.455 0.00 0.00 0.00 3.74
2206 3275 7.329499 AGAGACTACACGTAAGAGAGAATACA 58.671 38.462 4.23 0.00 43.62 2.29
2208 3277 7.925483 GGTAGAGACTACACGTAAGAGAGAATA 59.075 40.741 10.39 0.00 43.62 1.75
2212 3281 5.663456 AGGTAGAGACTACACGTAAGAGAG 58.337 45.833 10.39 0.00 43.62 3.20
2220 3289 2.719739 TGGGAAGGTAGAGACTACACG 58.280 52.381 10.39 0.00 0.00 4.49
2222 3291 4.894114 GCTATTGGGAAGGTAGAGACTACA 59.106 45.833 10.39 0.00 0.00 2.74
2225 3294 3.310193 GGCTATTGGGAAGGTAGAGACT 58.690 50.000 0.00 0.00 0.00 3.24
2226 3295 2.369203 GGGCTATTGGGAAGGTAGAGAC 59.631 54.545 0.00 0.00 0.00 3.36
2251 3325 2.668632 GTGGCTGGATTCGGTGGA 59.331 61.111 0.00 0.00 0.00 4.02
2266 3340 0.886490 GTGAACAGCAGAGGTGGGTG 60.886 60.000 1.09 0.00 39.54 4.61
2270 3344 2.768253 TATGGTGAACAGCAGAGGTG 57.232 50.000 12.02 0.00 42.52 4.00
2271 3345 3.521126 AGATTATGGTGAACAGCAGAGGT 59.479 43.478 12.02 1.62 42.52 3.85
2275 3349 4.125703 GGAGAGATTATGGTGAACAGCAG 58.874 47.826 12.02 0.00 42.52 4.24
2280 3354 8.571336 CAAATATTGGGAGAGATTATGGTGAAC 58.429 37.037 0.00 0.00 0.00 3.18
2286 3360 7.094463 GGAGCACAAATATTGGGAGAGATTATG 60.094 40.741 0.00 0.00 35.62 1.90
2288 3362 6.299141 GGAGCACAAATATTGGGAGAGATTA 58.701 40.000 0.00 0.00 35.62 1.75
2298 3372 4.024556 GGAGACATCGGAGCACAAATATTG 60.025 45.833 0.00 0.00 0.00 1.90
2302 3376 1.407437 GGGAGACATCGGAGCACAAAT 60.407 52.381 0.00 0.00 0.00 2.32
2303 3377 0.036388 GGGAGACATCGGAGCACAAA 60.036 55.000 0.00 0.00 0.00 2.83
2306 3380 1.142748 CTGGGAGACATCGGAGCAC 59.857 63.158 0.00 0.00 0.00 4.40
2385 3461 3.385384 CTCCGCTGCTGGTCCTCA 61.385 66.667 9.66 0.00 0.00 3.86
2398 3474 4.200283 GGCCGAGCAGTCTCTCCG 62.200 72.222 0.00 0.00 37.19 4.63
2401 3477 1.188219 TTCTTGGCCGAGCAGTCTCT 61.188 55.000 16.01 0.00 37.19 3.10
2458 3534 0.988439 CTCTCAAGCTCTTTCGTCGC 59.012 55.000 0.00 0.00 0.00 5.19
2460 3536 2.029828 TGGTCTCTCAAGCTCTTTCGTC 60.030 50.000 0.00 0.00 0.00 4.20
2461 3537 1.964223 TGGTCTCTCAAGCTCTTTCGT 59.036 47.619 0.00 0.00 0.00 3.85
2462 3538 2.732412 TGGTCTCTCAAGCTCTTTCG 57.268 50.000 0.00 0.00 0.00 3.46
2463 3539 2.677337 GCATGGTCTCTCAAGCTCTTTC 59.323 50.000 0.00 0.00 0.00 2.62
2465 3541 1.405256 CGCATGGTCTCTCAAGCTCTT 60.405 52.381 0.00 0.00 0.00 2.85
2479 3555 1.134946 GAAATCCAAGGAACCGCATGG 59.865 52.381 0.00 0.00 42.84 3.66
2490 3566 2.350522 CAGGTGACCTCGAAATCCAAG 58.649 52.381 0.00 0.00 0.00 3.61
2492 3568 0.036388 GCAGGTGACCTCGAAATCCA 60.036 55.000 0.00 0.00 0.00 3.41
2502 3587 0.037590 TGGTACCATTGCAGGTGACC 59.962 55.000 11.60 10.90 43.14 4.02
2506 3591 1.683011 GCTGATGGTACCATTGCAGGT 60.683 52.381 30.49 12.44 45.72 4.00
2508 3593 1.674441 CTGCTGATGGTACCATTGCAG 59.326 52.381 39.03 39.03 46.37 4.41
2511 3596 3.272574 AGACTGCTGATGGTACCATTG 57.727 47.619 27.97 22.62 36.70 2.82
2515 3600 1.067212 CCGTAGACTGCTGATGGTACC 59.933 57.143 4.43 4.43 0.00 3.34
2516 3601 2.022195 TCCGTAGACTGCTGATGGTAC 58.978 52.381 0.00 0.00 0.00 3.34
2517 3602 2.298610 CTCCGTAGACTGCTGATGGTA 58.701 52.381 0.00 0.00 0.00 3.25
2519 3604 0.249238 GCTCCGTAGACTGCTGATGG 60.249 60.000 0.00 0.00 0.00 3.51
2522 3607 0.034960 AGAGCTCCGTAGACTGCTGA 60.035 55.000 10.93 0.00 35.76 4.26
2523 3608 1.669604 TAGAGCTCCGTAGACTGCTG 58.330 55.000 10.93 0.00 35.76 4.41
2525 3610 2.485038 GGTATAGAGCTCCGTAGACTGC 59.515 54.545 10.93 0.00 0.00 4.40
2526 3611 3.075884 GGGTATAGAGCTCCGTAGACTG 58.924 54.545 10.93 0.00 0.00 3.51
2527 3612 2.981081 AGGGTATAGAGCTCCGTAGACT 59.019 50.000 10.93 0.00 0.00 3.24
2528 3613 3.421919 AGGGTATAGAGCTCCGTAGAC 57.578 52.381 10.93 4.65 0.00 2.59
2556 3644 3.441572 AGATGTTGAGGATTTTGAAGCCG 59.558 43.478 0.00 0.00 43.19 5.52
2591 3679 3.630769 CAGATCAATGGCATACAAGCTGT 59.369 43.478 0.00 0.00 34.17 4.40
2658 3746 4.460948 TGAGGTGTTATAGAACGGGAAC 57.539 45.455 0.00 0.00 38.51 3.62
2659 3747 4.622220 GCTTGAGGTGTTATAGAACGGGAA 60.622 45.833 0.00 0.00 38.51 3.97
2660 3748 3.118884 GCTTGAGGTGTTATAGAACGGGA 60.119 47.826 0.00 0.00 38.51 5.14
2661 3749 3.195661 GCTTGAGGTGTTATAGAACGGG 58.804 50.000 0.00 0.00 38.51 5.28
2680 3768 2.283145 AACAGATGGTTCAGCTTGCT 57.717 45.000 0.00 0.00 33.35 3.91
2681 3769 3.119708 CCTAAACAGATGGTTCAGCTTGC 60.120 47.826 0.00 0.00 39.29 4.01
2685 3773 3.557595 CGATCCTAAACAGATGGTTCAGC 59.442 47.826 0.00 0.00 39.29 4.26
2693 3781 3.231818 ACGGGATCGATCCTAAACAGAT 58.768 45.455 36.72 15.29 46.35 2.90
2694 3782 2.621998 GACGGGATCGATCCTAAACAGA 59.378 50.000 36.72 0.00 46.35 3.41
2696 3784 2.380941 TGACGGGATCGATCCTAAACA 58.619 47.619 36.72 27.59 46.35 2.83
2709 3797 0.761323 TGAGGTTCAGGTTGACGGGA 60.761 55.000 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.