Multiple sequence alignment - TraesCS6B01G069000

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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 TraesCS6B01G069000 chr6B 100.000 3370 0 0 1 3370 46660871 46664240 0.000000e+00 6224.0
1 TraesCS6B01G069000 chr6B 92.357 1413 80 9 898 2295 37645157 37643758 0.000000e+00 1986.0
2 TraesCS6B01G069000 chr6B 91.500 1447 89 16 868 2295 38541657 38540226 0.000000e+00 1960.0
3 TraesCS6B01G069000 chr6B 92.777 1343 74 8 973 2295 37035364 37036703 0.000000e+00 1921.0
4 TraesCS6B01G069000 chr6B 97.957 1077 17 3 2296 3370 687058609 687059682 0.000000e+00 1862.0
5 TraesCS6B01G069000 chr6B 87.579 1272 133 13 1047 2295 37653007 37651738 0.000000e+00 1450.0
6 TraesCS6B01G069000 chr6B 84.951 1236 141 27 1087 2295 38625755 38624538 0.000000e+00 1210.0
7 TraesCS6B01G069000 chr6B 92.794 791 43 8 883 1663 37784797 37784011 0.000000e+00 1133.0
8 TraesCS6B01G069000 chr6B 87.846 469 41 6 397 861 38542153 38541697 1.380000e-148 536.0
9 TraesCS6B01G069000 chr6B 80.906 618 88 14 230 840 37033878 37034472 8.520000e-126 460.0
10 TraesCS6B01G069000 chr6B 93.137 306 17 3 561 863 37645588 37645284 2.390000e-121 446.0
11 TraesCS6B01G069000 chr6B 87.266 267 34 0 205 471 37645924 37645658 4.220000e-79 305.0
12 TraesCS6B01G069000 chr6B 84.783 322 21 8 399 713 37790778 37790478 7.070000e-77 298.0
13 TraesCS6B01G069000 chr6B 92.195 205 16 0 195 399 37825891 37825687 1.180000e-74 291.0
14 TraesCS6B01G069000 chr6B 91.878 197 15 1 1 196 611351054 611351250 1.190000e-69 274.0
15 TraesCS6B01G069000 chr6B 93.333 165 8 2 703 864 37790070 37789906 1.210000e-59 241.0
16 TraesCS6B01G069000 chr6B 81.726 197 20 6 205 401 38558258 38558078 2.090000e-32 150.0
17 TraesCS6B01G069000 chr6B 93.878 49 3 0 460 508 37645634 37645586 1.300000e-09 75.0
18 TraesCS6B01G069000 chr6A 90.208 1828 128 22 494 2295 22194044 22192242 0.000000e+00 2337.0
19 TraesCS6B01G069000 chr6A 87.795 1270 130 13 1049 2295 22201020 22199753 0.000000e+00 1463.0
20 TraesCS6B01G069000 chr6A 95.652 46 2 0 205 250 22194086 22194041 1.300000e-09 75.0
21 TraesCS6B01G069000 chr6D 89.877 1709 131 25 615 2295 23632624 23630930 0.000000e+00 2159.0
22 TraesCS6B01G069000 chr6D 87.657 1272 132 12 1047 2295 23642240 23640971 0.000000e+00 1456.0
23 TraesCS6B01G069000 chr6D 87.234 282 18 8 1075 1338 23748873 23748592 4.220000e-79 305.0
24 TraesCS6B01G069000 chr6D 80.252 238 22 9 355 590 23632834 23632620 4.500000e-34 156.0
25 TraesCS6B01G069000 chr3B 98.324 1074 13 3 2298 3370 13735253 13736322 0.000000e+00 1879.0
26 TraesCS6B01G069000 chr3B 92.579 1078 71 7 2297 3370 592869804 592868732 0.000000e+00 1539.0
27 TraesCS6B01G069000 chrUn 98.041 1072 17 2 2300 3370 8798102 8799170 0.000000e+00 1860.0
28 TraesCS6B01G069000 chr7A 97.854 1072 19 2 2300 3370 611317463 611318531 0.000000e+00 1849.0
29 TraesCS6B01G069000 chr2B 97.295 1072 24 3 2300 3370 30563908 30564975 0.000000e+00 1814.0
30 TraesCS6B01G069000 chr2B 92.658 1076 71 6 2299 3370 167499957 167501028 0.000000e+00 1543.0
31 TraesCS6B01G069000 chr2B 100.000 29 0 0 742 770 785231581 785231609 2.000000e-03 54.7
32 TraesCS6B01G069000 chr5B 97.106 1071 26 3 2298 3367 437922170 437923236 0.000000e+00 1801.0
33 TraesCS6B01G069000 chr4A 92.308 1079 71 10 2294 3370 737736545 737735477 0.000000e+00 1522.0
34 TraesCS6B01G069000 chr7D 86.028 866 95 20 1080 1935 59703717 59704566 0.000000e+00 905.0
35 TraesCS6B01G069000 chr5D 95.408 196 8 1 1 195 486768001 486768196 9.080000e-81 311.0
36 TraesCS6B01G069000 chr5D 94.845 194 9 1 3 195 363111189 363111382 5.460000e-78 302.0
37 TraesCS6B01G069000 chr7B 95.385 195 8 1 1 194 677156324 677156518 3.270000e-80 309.0
38 TraesCS6B01G069000 chr4B 94.359 195 10 1 1 194 654646809 654647003 7.070000e-77 298.0
39 TraesCS6B01G069000 chr4B 94.359 195 10 1 1 194 654755992 654756186 7.070000e-77 298.0
40 TraesCS6B01G069000 chr4B 93.846 195 11 1 1 194 654766309 654766503 3.290000e-75 292.0
41 TraesCS6B01G069000 chr4B 91.827 208 14 3 1 207 216875350 216875555 1.530000e-73 287.0
42 TraesCS6B01G069000 chr4B 92.821 195 13 1 1 194 654778493 654778687 7.120000e-72 281.0


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 TraesCS6B01G069000 chr6B 46660871 46664240 3369 False 6224.0 6224 100.0000 1 3370 1 chr6B.!!$F1 3369
1 TraesCS6B01G069000 chr6B 687058609 687059682 1073 False 1862.0 1862 97.9570 2296 3370 1 chr6B.!!$F3 1074
2 TraesCS6B01G069000 chr6B 37651738 37653007 1269 True 1450.0 1450 87.5790 1047 2295 1 chr6B.!!$R1 1248
3 TraesCS6B01G069000 chr6B 38540226 38542153 1927 True 1248.0 1960 89.6730 397 2295 2 chr6B.!!$R8 1898
4 TraesCS6B01G069000 chr6B 38624538 38625755 1217 True 1210.0 1210 84.9510 1087 2295 1 chr6B.!!$R5 1208
5 TraesCS6B01G069000 chr6B 37033878 37036703 2825 False 1190.5 1921 86.8415 230 2295 2 chr6B.!!$F4 2065
6 TraesCS6B01G069000 chr6B 37784011 37784797 786 True 1133.0 1133 92.7940 883 1663 1 chr6B.!!$R2 780
7 TraesCS6B01G069000 chr6B 37643758 37645924 2166 True 703.0 1986 91.6595 205 2295 4 chr6B.!!$R6 2090
8 TraesCS6B01G069000 chr6B 37789906 37790778 872 True 269.5 298 89.0580 399 864 2 chr6B.!!$R7 465
9 TraesCS6B01G069000 chr6A 22199753 22201020 1267 True 1463.0 1463 87.7950 1049 2295 1 chr6A.!!$R1 1246
10 TraesCS6B01G069000 chr6A 22192242 22194086 1844 True 1206.0 2337 92.9300 205 2295 2 chr6A.!!$R2 2090
11 TraesCS6B01G069000 chr6D 23640971 23642240 1269 True 1456.0 1456 87.6570 1047 2295 1 chr6D.!!$R1 1248
12 TraesCS6B01G069000 chr6D 23630930 23632834 1904 True 1157.5 2159 85.0645 355 2295 2 chr6D.!!$R3 1940
13 TraesCS6B01G069000 chr3B 13735253 13736322 1069 False 1879.0 1879 98.3240 2298 3370 1 chr3B.!!$F1 1072
14 TraesCS6B01G069000 chr3B 592868732 592869804 1072 True 1539.0 1539 92.5790 2297 3370 1 chr3B.!!$R1 1073
15 TraesCS6B01G069000 chrUn 8798102 8799170 1068 False 1860.0 1860 98.0410 2300 3370 1 chrUn.!!$F1 1070
16 TraesCS6B01G069000 chr7A 611317463 611318531 1068 False 1849.0 1849 97.8540 2300 3370 1 chr7A.!!$F1 1070
17 TraesCS6B01G069000 chr2B 30563908 30564975 1067 False 1814.0 1814 97.2950 2300 3370 1 chr2B.!!$F1 1070
18 TraesCS6B01G069000 chr2B 167499957 167501028 1071 False 1543.0 1543 92.6580 2299 3370 1 chr2B.!!$F2 1071
19 TraesCS6B01G069000 chr5B 437922170 437923236 1066 False 1801.0 1801 97.1060 2298 3367 1 chr5B.!!$F1 1069
20 TraesCS6B01G069000 chr4A 737735477 737736545 1068 True 1522.0 1522 92.3080 2294 3370 1 chr4A.!!$R1 1076
21 TraesCS6B01G069000 chr7D 59703717 59704566 849 False 905.0 905 86.0280 1080 1935 1 chr7D.!!$F1 855

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
137 138 0.109319 GTGTTGTAATTGCTGGCCGG 60.109 55.0 7.41 7.41 0.0 6.13 F
141 142 0.250945 TGTAATTGCTGGCCGGTTGA 60.251 50.0 14.55 0.00 0.0 3.18 F
274 275 0.254178 AGCAATCTCACCGCCTTCAT 59.746 50.0 0.00 0.00 0.0 2.57 F
1987 3442 0.390472 CGCCAGAAGAGGAGGTTCAC 60.390 60.0 0.00 0.00 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1784 3236 0.902984 ATGTACTGTGACCGGCCAGA 60.903 55.000 19.75 5.38 32.93 3.86 R
1960 3415 1.572085 CCTCTTCTGGCGTGTGCTTG 61.572 60.000 0.00 0.00 42.25 4.01 R
2057 3512 1.754226 GAAAGCCCTTGTGACACCAAA 59.246 47.619 2.45 0.00 0.00 3.28 R
3218 4681 5.869649 ATTATAAATGGGTGTGGAAAGCC 57.130 39.130 0.00 0.00 38.25 4.35 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
17 18 4.659002 GTCGACGGCGTGTACTAG 57.341 61.111 21.19 1.30 38.98 2.57
18 19 1.582168 GTCGACGGCGTGTACTAGC 60.582 63.158 21.19 0.00 38.98 3.42
19 20 1.742880 TCGACGGCGTGTACTAGCT 60.743 57.895 21.19 0.00 38.98 3.32
20 21 1.136147 CGACGGCGTGTACTAGCTT 59.864 57.895 21.19 0.00 0.00 3.74
21 22 1.132199 CGACGGCGTGTACTAGCTTG 61.132 60.000 21.19 0.00 0.00 4.01
22 23 0.801067 GACGGCGTGTACTAGCTTGG 60.801 60.000 21.19 0.00 0.00 3.61
23 24 1.518572 CGGCGTGTACTAGCTTGGG 60.519 63.158 0.00 0.00 0.00 4.12
24 25 1.814169 GGCGTGTACTAGCTTGGGC 60.814 63.158 11.69 0.00 39.06 5.36
35 36 3.660343 GCTTGGGCTTCCTCTTCTT 57.340 52.632 0.00 0.00 35.22 2.52
36 37 1.916506 GCTTGGGCTTCCTCTTCTTT 58.083 50.000 0.00 0.00 35.22 2.52
37 38 2.242926 GCTTGGGCTTCCTCTTCTTTT 58.757 47.619 0.00 0.00 35.22 2.27
38 39 2.029560 GCTTGGGCTTCCTCTTCTTTTG 60.030 50.000 0.00 0.00 35.22 2.44
39 40 3.225940 CTTGGGCTTCCTCTTCTTTTGT 58.774 45.455 0.00 0.00 0.00 2.83
40 41 3.312736 TGGGCTTCCTCTTCTTTTGTT 57.687 42.857 0.00 0.00 0.00 2.83
41 42 3.642141 TGGGCTTCCTCTTCTTTTGTTT 58.358 40.909 0.00 0.00 0.00 2.83
42 43 4.030216 TGGGCTTCCTCTTCTTTTGTTTT 58.970 39.130 0.00 0.00 0.00 2.43
43 44 4.141959 TGGGCTTCCTCTTCTTTTGTTTTG 60.142 41.667 0.00 0.00 0.00 2.44
44 45 4.099419 GGGCTTCCTCTTCTTTTGTTTTGA 59.901 41.667 0.00 0.00 0.00 2.69
45 46 5.284864 GGCTTCCTCTTCTTTTGTTTTGAG 58.715 41.667 0.00 0.00 0.00 3.02
46 47 4.742167 GCTTCCTCTTCTTTTGTTTTGAGC 59.258 41.667 0.00 0.00 0.00 4.26
47 48 5.451103 GCTTCCTCTTCTTTTGTTTTGAGCT 60.451 40.000 0.00 0.00 0.00 4.09
48 49 6.238759 GCTTCCTCTTCTTTTGTTTTGAGCTA 60.239 38.462 0.00 0.00 0.00 3.32
49 50 6.867662 TCCTCTTCTTTTGTTTTGAGCTAG 57.132 37.500 0.00 0.00 0.00 3.42
50 51 6.357367 TCCTCTTCTTTTGTTTTGAGCTAGT 58.643 36.000 0.00 0.00 0.00 2.57
51 52 7.506114 TCCTCTTCTTTTGTTTTGAGCTAGTA 58.494 34.615 0.00 0.00 0.00 1.82
52 53 8.157476 TCCTCTTCTTTTGTTTTGAGCTAGTAT 58.843 33.333 0.00 0.00 0.00 2.12
53 54 8.787852 CCTCTTCTTTTGTTTTGAGCTAGTATT 58.212 33.333 0.00 0.00 0.00 1.89
54 55 9.818796 CTCTTCTTTTGTTTTGAGCTAGTATTC 57.181 33.333 0.00 0.00 0.00 1.75
55 56 9.561069 TCTTCTTTTGTTTTGAGCTAGTATTCT 57.439 29.630 0.00 0.00 0.00 2.40
56 57 9.604626 CTTCTTTTGTTTTGAGCTAGTATTCTG 57.395 33.333 0.00 0.00 0.00 3.02
57 58 7.584987 TCTTTTGTTTTGAGCTAGTATTCTGC 58.415 34.615 0.00 0.00 0.00 4.26
58 59 5.530519 TTGTTTTGAGCTAGTATTCTGCG 57.469 39.130 0.00 0.00 0.00 5.18
59 60 4.566004 TGTTTTGAGCTAGTATTCTGCGT 58.434 39.130 0.00 0.00 0.00 5.24
60 61 4.994852 TGTTTTGAGCTAGTATTCTGCGTT 59.005 37.500 0.00 0.00 0.00 4.84
61 62 5.107104 TGTTTTGAGCTAGTATTCTGCGTTG 60.107 40.000 0.00 0.00 0.00 4.10
62 63 4.450082 TTGAGCTAGTATTCTGCGTTGA 57.550 40.909 0.00 0.00 0.00 3.18
63 64 4.033990 TGAGCTAGTATTCTGCGTTGAG 57.966 45.455 0.00 0.00 0.00 3.02
64 65 3.444034 TGAGCTAGTATTCTGCGTTGAGT 59.556 43.478 0.00 0.00 0.00 3.41
65 66 4.082190 TGAGCTAGTATTCTGCGTTGAGTT 60.082 41.667 0.00 0.00 0.00 3.01
66 67 4.177026 AGCTAGTATTCTGCGTTGAGTTG 58.823 43.478 0.00 0.00 0.00 3.16
67 68 3.927142 GCTAGTATTCTGCGTTGAGTTGT 59.073 43.478 0.00 0.00 0.00 3.32
68 69 5.100259 GCTAGTATTCTGCGTTGAGTTGTA 58.900 41.667 0.00 0.00 0.00 2.41
69 70 5.575606 GCTAGTATTCTGCGTTGAGTTGTAA 59.424 40.000 0.00 0.00 0.00 2.41
70 71 6.237595 GCTAGTATTCTGCGTTGAGTTGTAAG 60.238 42.308 0.00 0.00 0.00 2.34
71 72 3.813529 ATTCTGCGTTGAGTTGTAAGC 57.186 42.857 0.00 0.00 0.00 3.09
72 73 2.526304 TCTGCGTTGAGTTGTAAGCT 57.474 45.000 0.00 0.00 0.00 3.74
73 74 2.833794 TCTGCGTTGAGTTGTAAGCTT 58.166 42.857 3.48 3.48 0.00 3.74
74 75 2.800544 TCTGCGTTGAGTTGTAAGCTTC 59.199 45.455 0.00 0.00 0.00 3.86
75 76 1.871039 TGCGTTGAGTTGTAAGCTTCC 59.129 47.619 0.00 0.00 0.00 3.46
76 77 2.143925 GCGTTGAGTTGTAAGCTTCCT 58.856 47.619 0.00 0.00 0.00 3.36
77 78 3.243941 TGCGTTGAGTTGTAAGCTTCCTA 60.244 43.478 0.00 0.00 0.00 2.94
78 79 3.368236 GCGTTGAGTTGTAAGCTTCCTAG 59.632 47.826 0.00 0.00 0.00 3.02
79 80 3.927142 CGTTGAGTTGTAAGCTTCCTAGG 59.073 47.826 0.00 0.82 0.00 3.02
80 81 4.254492 GTTGAGTTGTAAGCTTCCTAGGG 58.746 47.826 9.46 0.00 0.00 3.53
81 82 3.786553 TGAGTTGTAAGCTTCCTAGGGA 58.213 45.455 9.46 0.00 0.00 4.20
82 83 3.769844 TGAGTTGTAAGCTTCCTAGGGAG 59.230 47.826 13.44 13.44 31.21 4.30
83 84 2.502130 AGTTGTAAGCTTCCTAGGGAGC 59.498 50.000 32.13 32.13 31.21 4.70
84 85 2.502130 GTTGTAAGCTTCCTAGGGAGCT 59.498 50.000 35.52 35.52 37.63 4.09
85 86 2.389715 TGTAAGCTTCCTAGGGAGCTC 58.610 52.381 39.42 29.00 36.00 4.09
86 87 1.689813 GTAAGCTTCCTAGGGAGCTCC 59.310 57.143 39.42 29.10 36.00 4.70
98 99 2.226602 GGAGCTCCCTTGTATCGTTC 57.773 55.000 23.19 0.00 0.00 3.95
99 100 1.536284 GGAGCTCCCTTGTATCGTTCG 60.536 57.143 23.19 0.00 0.00 3.95
100 101 0.460311 AGCTCCCTTGTATCGTTCGG 59.540 55.000 0.00 0.00 0.00 4.30
101 102 1.152383 GCTCCCTTGTATCGTTCGGC 61.152 60.000 0.00 0.00 0.00 5.54
102 103 0.460311 CTCCCTTGTATCGTTCGGCT 59.540 55.000 0.00 0.00 0.00 5.52
103 104 0.174845 TCCCTTGTATCGTTCGGCTG 59.825 55.000 0.00 0.00 0.00 4.85
104 105 0.174845 CCCTTGTATCGTTCGGCTGA 59.825 55.000 0.00 0.00 0.00 4.26
105 106 1.202533 CCCTTGTATCGTTCGGCTGAT 60.203 52.381 0.00 0.00 0.00 2.90
106 107 1.860950 CCTTGTATCGTTCGGCTGATG 59.139 52.381 0.00 0.00 0.00 3.07
107 108 2.540515 CTTGTATCGTTCGGCTGATGT 58.459 47.619 0.00 0.00 0.00 3.06
108 109 3.490249 CCTTGTATCGTTCGGCTGATGTA 60.490 47.826 0.00 0.00 0.00 2.29
109 110 3.074504 TGTATCGTTCGGCTGATGTAC 57.925 47.619 0.00 0.00 0.00 2.90
110 111 2.686405 TGTATCGTTCGGCTGATGTACT 59.314 45.455 0.00 0.00 0.00 2.73
111 112 2.961526 ATCGTTCGGCTGATGTACTT 57.038 45.000 0.00 0.00 0.00 2.24
112 113 1.990799 TCGTTCGGCTGATGTACTTG 58.009 50.000 0.00 0.00 0.00 3.16
113 114 1.271379 TCGTTCGGCTGATGTACTTGT 59.729 47.619 0.00 0.00 0.00 3.16
114 115 2.066262 CGTTCGGCTGATGTACTTGTT 58.934 47.619 0.00 0.00 0.00 2.83
115 116 2.159841 CGTTCGGCTGATGTACTTGTTG 60.160 50.000 0.00 0.00 0.00 3.33
116 117 2.806244 GTTCGGCTGATGTACTTGTTGT 59.194 45.455 0.00 0.00 0.00 3.32
117 118 3.120321 TCGGCTGATGTACTTGTTGTT 57.880 42.857 0.00 0.00 0.00 2.83
118 119 2.805671 TCGGCTGATGTACTTGTTGTTG 59.194 45.455 0.00 0.00 0.00 3.33
119 120 2.548057 CGGCTGATGTACTTGTTGTTGT 59.452 45.455 0.00 0.00 0.00 3.32
120 121 3.606846 CGGCTGATGTACTTGTTGTTGTG 60.607 47.826 0.00 0.00 0.00 3.33
121 122 3.315191 GGCTGATGTACTTGTTGTTGTGT 59.685 43.478 0.00 0.00 0.00 3.72
122 123 4.202010 GGCTGATGTACTTGTTGTTGTGTT 60.202 41.667 0.00 0.00 0.00 3.32
123 124 4.734854 GCTGATGTACTTGTTGTTGTGTTG 59.265 41.667 0.00 0.00 0.00 3.33
124 125 5.676079 GCTGATGTACTTGTTGTTGTGTTGT 60.676 40.000 0.00 0.00 0.00 3.32
125 126 6.457663 GCTGATGTACTTGTTGTTGTGTTGTA 60.458 38.462 0.00 0.00 0.00 2.41
126 127 7.379098 TGATGTACTTGTTGTTGTGTTGTAA 57.621 32.000 0.00 0.00 0.00 2.41
127 128 7.990917 TGATGTACTTGTTGTTGTGTTGTAAT 58.009 30.769 0.00 0.00 0.00 1.89
128 129 8.462811 TGATGTACTTGTTGTTGTGTTGTAATT 58.537 29.630 0.00 0.00 0.00 1.40
129 130 8.627487 ATGTACTTGTTGTTGTGTTGTAATTG 57.373 30.769 0.00 0.00 0.00 2.32
130 131 6.528423 TGTACTTGTTGTTGTGTTGTAATTGC 59.472 34.615 0.00 0.00 0.00 3.56
131 132 5.719173 ACTTGTTGTTGTGTTGTAATTGCT 58.281 33.333 0.00 0.00 0.00 3.91
132 133 5.576384 ACTTGTTGTTGTGTTGTAATTGCTG 59.424 36.000 0.00 0.00 0.00 4.41
133 134 4.428209 TGTTGTTGTGTTGTAATTGCTGG 58.572 39.130 0.00 0.00 0.00 4.85
134 135 3.090952 TGTTGTGTTGTAATTGCTGGC 57.909 42.857 0.00 0.00 0.00 4.85
135 136 2.223923 TGTTGTGTTGTAATTGCTGGCC 60.224 45.455 0.00 0.00 0.00 5.36
136 137 0.595588 TGTGTTGTAATTGCTGGCCG 59.404 50.000 0.00 0.00 0.00 6.13
137 138 0.109319 GTGTTGTAATTGCTGGCCGG 60.109 55.000 7.41 7.41 0.00 6.13
138 139 0.538516 TGTTGTAATTGCTGGCCGGT 60.539 50.000 14.55 0.00 0.00 5.28
139 140 0.601057 GTTGTAATTGCTGGCCGGTT 59.399 50.000 14.55 1.88 0.00 4.44
140 141 0.600557 TTGTAATTGCTGGCCGGTTG 59.399 50.000 14.55 0.00 0.00 3.77
141 142 0.250945 TGTAATTGCTGGCCGGTTGA 60.251 50.000 14.55 0.00 0.00 3.18
142 143 1.102978 GTAATTGCTGGCCGGTTGAT 58.897 50.000 14.55 1.93 0.00 2.57
143 144 1.102154 TAATTGCTGGCCGGTTGATG 58.898 50.000 14.55 0.00 0.00 3.07
144 145 1.606885 AATTGCTGGCCGGTTGATGG 61.607 55.000 14.55 0.00 0.00 3.51
154 155 3.866883 CCGGTTGATGGCTTTGTTAAT 57.133 42.857 0.00 0.00 0.00 1.40
155 156 4.186856 CCGGTTGATGGCTTTGTTAATT 57.813 40.909 0.00 0.00 0.00 1.40
156 157 4.173256 CCGGTTGATGGCTTTGTTAATTC 58.827 43.478 0.00 0.00 0.00 2.17
157 158 4.321601 CCGGTTGATGGCTTTGTTAATTCA 60.322 41.667 0.00 0.00 0.00 2.57
158 159 5.226396 CGGTTGATGGCTTTGTTAATTCAA 58.774 37.500 0.00 0.00 0.00 2.69
159 160 5.694006 CGGTTGATGGCTTTGTTAATTCAAA 59.306 36.000 0.00 0.00 36.18 2.69
167 168 4.886579 CTTTGTTAATTCAAAGCCAGGCT 58.113 39.130 8.70 8.70 44.57 4.58
168 169 4.519540 TTGTTAATTCAAAGCCAGGCTC 57.480 40.909 16.53 0.00 38.25 4.70
169 170 3.495331 TGTTAATTCAAAGCCAGGCTCA 58.505 40.909 16.53 1.41 38.25 4.26
170 171 3.255642 TGTTAATTCAAAGCCAGGCTCAC 59.744 43.478 16.53 2.53 38.25 3.51
171 172 1.260544 AATTCAAAGCCAGGCTCACC 58.739 50.000 16.53 0.00 38.25 4.02
172 173 0.962356 ATTCAAAGCCAGGCTCACCG 60.962 55.000 16.53 3.59 38.25 4.94
173 174 3.741476 CAAAGCCAGGCTCACCGC 61.741 66.667 16.53 0.00 38.25 5.68
214 215 3.818961 ACGTCACTGATTGAAAGCATG 57.181 42.857 0.00 0.00 35.39 4.06
266 267 2.093235 AGCCACTAAGAGCAATCTCACC 60.093 50.000 0.00 0.00 41.81 4.02
274 275 0.254178 AGCAATCTCACCGCCTTCAT 59.746 50.000 0.00 0.00 0.00 2.57
293 294 8.012241 GCCTTCATAAGCTTGTTATTAATCTCG 58.988 37.037 9.86 0.00 0.00 4.04
308 309 2.804697 TCTCGTCATCACGGACAAAA 57.195 45.000 0.00 0.00 46.70 2.44
309 310 3.313012 TCTCGTCATCACGGACAAAAT 57.687 42.857 0.00 0.00 46.70 1.82
352 353 6.258727 TCCTTCAACTTCATATTCTTCATCGC 59.741 38.462 0.00 0.00 0.00 4.58
353 354 5.641777 TCAACTTCATATTCTTCATCGCG 57.358 39.130 0.00 0.00 0.00 5.87
402 403 1.278985 TCCTGCTACCCTTCACACATG 59.721 52.381 0.00 0.00 0.00 3.21
526 570 1.352622 GCATGGTCCATGGAGGGGTA 61.353 60.000 29.17 0.00 41.64 3.69
532 576 0.906775 TCCATGGAGGGGTAAACGAC 59.093 55.000 11.44 0.00 38.24 4.34
537 581 2.048601 TGGAGGGGTAAACGACTTCAA 58.951 47.619 0.00 0.00 0.00 2.69
538 582 2.640826 TGGAGGGGTAAACGACTTCAAT 59.359 45.455 0.00 0.00 0.00 2.57
601 651 7.414222 ACGAAGTACTTGAACCCTAATCATA 57.586 36.000 14.14 0.00 41.94 2.15
684 740 8.776376 TCCAAAAGAGCAAATTCAATTAATCC 57.224 30.769 0.00 0.00 0.00 3.01
692 748 6.048509 GCAAATTCAATTAATCCCGACCATT 58.951 36.000 0.00 0.00 0.00 3.16
696 752 9.816354 AAATTCAATTAATCCCGACCATTAAAG 57.184 29.630 0.00 0.00 31.15 1.85
932 2311 1.038130 ATCCGGGACTGGACTCGAAG 61.038 60.000 0.00 0.00 41.85 3.79
933 2312 2.711922 CCGGGACTGGACTCGAAGG 61.712 68.421 0.00 0.00 35.62 3.46
934 2313 1.677966 CGGGACTGGACTCGAAGGA 60.678 63.158 0.00 0.00 35.62 3.36
935 2314 1.248785 CGGGACTGGACTCGAAGGAA 61.249 60.000 0.00 0.00 35.62 3.36
1040 2460 4.907034 CGTCGTCAGATCGCCGGG 62.907 72.222 2.18 0.00 0.00 5.73
1161 2584 2.279069 ACCTCTGCTCGACCCTGTG 61.279 63.158 0.00 0.00 0.00 3.66
1315 2759 4.794439 CTGTCGATCCACGCGGCA 62.794 66.667 12.47 0.00 41.50 5.69
1428 2872 2.401195 GGCGATCAAGCTTGTCGC 59.599 61.111 38.88 38.88 46.60 5.19
1733 3185 1.374947 CCTTTCGCCCTCTTCACCA 59.625 57.895 0.00 0.00 0.00 4.17
1753 3205 4.344865 CCGTTCCACACCCCAGGG 62.345 72.222 0.00 0.00 42.03 4.45
1924 3379 1.440893 CCTCAGCCTCACCGATCTG 59.559 63.158 0.00 0.00 0.00 2.90
1960 3415 1.227380 ATCGCCGGAGTTCATCAGC 60.227 57.895 5.05 0.00 0.00 4.26
1987 3442 0.390472 CGCCAGAAGAGGAGGTTCAC 60.390 60.000 0.00 0.00 0.00 3.18
2057 3512 0.388649 GTCGTCAGACATGCGGAAGT 60.389 55.000 0.41 0.00 46.32 3.01
2295 3750 0.400213 TTTGCCGTGGTTGAGGAGAT 59.600 50.000 0.00 0.00 0.00 2.75
2431 3887 1.960689 GCCAACTACCAAGCAAAGGAA 59.039 47.619 0.00 0.00 0.00 3.36
2532 3991 1.801771 CGAAAACCTGGCGACACAATA 59.198 47.619 0.00 0.00 35.60 1.90
2533 3992 2.418628 CGAAAACCTGGCGACACAATAT 59.581 45.455 0.00 0.00 35.60 1.28
2534 3993 3.119990 CGAAAACCTGGCGACACAATATT 60.120 43.478 0.00 0.00 35.60 1.28
2638 4098 1.076549 GGGCATCAAACCCCAGTGA 59.923 57.895 0.00 0.00 42.01 3.41
2655 4116 5.376625 CCAGTGAATATAGGCCAAGCTAAA 58.623 41.667 5.01 0.00 0.00 1.85
3218 4681 5.830900 TTTTTATTTTCAACGGGATTGCG 57.169 34.783 0.00 0.00 38.29 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.132199 CAAGCTAGTACACGCCGTCG 61.132 60.000 0.00 0.00 42.43 5.12
3 4 0.801067 CCAAGCTAGTACACGCCGTC 60.801 60.000 0.00 0.00 0.00 4.79
4 5 1.214589 CCAAGCTAGTACACGCCGT 59.785 57.895 0.00 0.00 0.00 5.68
5 6 1.518572 CCCAAGCTAGTACACGCCG 60.519 63.158 0.00 0.00 0.00 6.46
6 7 1.814169 GCCCAAGCTAGTACACGCC 60.814 63.158 0.00 0.00 35.50 5.68
7 8 3.795638 GCCCAAGCTAGTACACGC 58.204 61.111 0.00 0.00 35.50 5.34
17 18 1.916506 AAAGAAGAGGAAGCCCAAGC 58.083 50.000 0.00 0.00 40.32 4.01
18 19 3.225940 ACAAAAGAAGAGGAAGCCCAAG 58.774 45.455 0.00 0.00 33.88 3.61
19 20 3.312736 ACAAAAGAAGAGGAAGCCCAA 57.687 42.857 0.00 0.00 33.88 4.12
20 21 3.312736 AACAAAAGAAGAGGAAGCCCA 57.687 42.857 0.00 0.00 33.88 5.36
21 22 4.099419 TCAAAACAAAAGAAGAGGAAGCCC 59.901 41.667 0.00 0.00 0.00 5.19
22 23 5.262588 TCAAAACAAAAGAAGAGGAAGCC 57.737 39.130 0.00 0.00 0.00 4.35
23 24 4.742167 GCTCAAAACAAAAGAAGAGGAAGC 59.258 41.667 0.00 0.00 0.00 3.86
24 25 6.141560 AGCTCAAAACAAAAGAAGAGGAAG 57.858 37.500 0.00 0.00 0.00 3.46
25 26 6.828785 ACTAGCTCAAAACAAAAGAAGAGGAA 59.171 34.615 0.00 0.00 0.00 3.36
26 27 6.357367 ACTAGCTCAAAACAAAAGAAGAGGA 58.643 36.000 0.00 0.00 0.00 3.71
27 28 6.625873 ACTAGCTCAAAACAAAAGAAGAGG 57.374 37.500 0.00 0.00 0.00 3.69
28 29 9.818796 GAATACTAGCTCAAAACAAAAGAAGAG 57.181 33.333 0.00 0.00 0.00 2.85
29 30 9.561069 AGAATACTAGCTCAAAACAAAAGAAGA 57.439 29.630 0.00 0.00 0.00 2.87
30 31 9.604626 CAGAATACTAGCTCAAAACAAAAGAAG 57.395 33.333 0.00 0.00 0.00 2.85
31 32 8.076178 GCAGAATACTAGCTCAAAACAAAAGAA 58.924 33.333 0.00 0.00 0.00 2.52
32 33 7.571244 CGCAGAATACTAGCTCAAAACAAAAGA 60.571 37.037 0.00 0.00 0.00 2.52
33 34 6.521133 CGCAGAATACTAGCTCAAAACAAAAG 59.479 38.462 0.00 0.00 0.00 2.27
34 35 6.017440 ACGCAGAATACTAGCTCAAAACAAAA 60.017 34.615 0.00 0.00 0.00 2.44
35 36 5.468746 ACGCAGAATACTAGCTCAAAACAAA 59.531 36.000 0.00 0.00 0.00 2.83
36 37 4.994852 ACGCAGAATACTAGCTCAAAACAA 59.005 37.500 0.00 0.00 0.00 2.83
37 38 4.566004 ACGCAGAATACTAGCTCAAAACA 58.434 39.130 0.00 0.00 0.00 2.83
38 39 5.120208 TCAACGCAGAATACTAGCTCAAAAC 59.880 40.000 0.00 0.00 0.00 2.43
39 40 5.234752 TCAACGCAGAATACTAGCTCAAAA 58.765 37.500 0.00 0.00 0.00 2.44
40 41 4.816392 TCAACGCAGAATACTAGCTCAAA 58.184 39.130 0.00 0.00 0.00 2.69
41 42 4.082190 ACTCAACGCAGAATACTAGCTCAA 60.082 41.667 0.00 0.00 0.00 3.02
42 43 3.444034 ACTCAACGCAGAATACTAGCTCA 59.556 43.478 0.00 0.00 0.00 4.26
43 44 4.035278 ACTCAACGCAGAATACTAGCTC 57.965 45.455 0.00 0.00 0.00 4.09
44 45 4.177026 CAACTCAACGCAGAATACTAGCT 58.823 43.478 0.00 0.00 0.00 3.32
45 46 3.927142 ACAACTCAACGCAGAATACTAGC 59.073 43.478 0.00 0.00 0.00 3.42
46 47 6.237595 GCTTACAACTCAACGCAGAATACTAG 60.238 42.308 0.00 0.00 0.00 2.57
47 48 5.575606 GCTTACAACTCAACGCAGAATACTA 59.424 40.000 0.00 0.00 0.00 1.82
48 49 4.389077 GCTTACAACTCAACGCAGAATACT 59.611 41.667 0.00 0.00 0.00 2.12
49 50 4.389077 AGCTTACAACTCAACGCAGAATAC 59.611 41.667 0.00 0.00 0.00 1.89
50 51 4.566004 AGCTTACAACTCAACGCAGAATA 58.434 39.130 0.00 0.00 0.00 1.75
51 52 3.403038 AGCTTACAACTCAACGCAGAAT 58.597 40.909 0.00 0.00 0.00 2.40
52 53 2.833794 AGCTTACAACTCAACGCAGAA 58.166 42.857 0.00 0.00 0.00 3.02
53 54 2.526304 AGCTTACAACTCAACGCAGA 57.474 45.000 0.00 0.00 0.00 4.26
54 55 2.096218 GGAAGCTTACAACTCAACGCAG 60.096 50.000 2.98 0.00 0.00 5.18
55 56 1.871039 GGAAGCTTACAACTCAACGCA 59.129 47.619 2.98 0.00 0.00 5.24
56 57 2.143925 AGGAAGCTTACAACTCAACGC 58.856 47.619 12.25 0.00 0.00 4.84
57 58 3.927142 CCTAGGAAGCTTACAACTCAACG 59.073 47.826 12.25 0.00 0.00 4.10
58 59 4.020485 TCCCTAGGAAGCTTACAACTCAAC 60.020 45.833 12.25 0.00 0.00 3.18
59 60 4.164981 TCCCTAGGAAGCTTACAACTCAA 58.835 43.478 12.25 0.00 0.00 3.02
60 61 3.769844 CTCCCTAGGAAGCTTACAACTCA 59.230 47.826 12.25 0.00 0.00 3.41
61 62 3.431068 GCTCCCTAGGAAGCTTACAACTC 60.431 52.174 13.71 0.00 0.00 3.01
62 63 2.502130 GCTCCCTAGGAAGCTTACAACT 59.498 50.000 13.71 4.65 0.00 3.16
63 64 2.502130 AGCTCCCTAGGAAGCTTACAAC 59.498 50.000 18.29 0.00 34.35 3.32
64 65 2.766828 GAGCTCCCTAGGAAGCTTACAA 59.233 50.000 24.95 0.00 36.72 2.41
65 66 2.389715 GAGCTCCCTAGGAAGCTTACA 58.610 52.381 24.95 0.00 36.72 2.41
66 67 1.689813 GGAGCTCCCTAGGAAGCTTAC 59.310 57.143 24.95 16.22 36.72 2.34
67 68 2.089600 GGAGCTCCCTAGGAAGCTTA 57.910 55.000 24.95 0.00 36.72 3.09
68 69 2.923619 GGAGCTCCCTAGGAAGCTT 58.076 57.895 24.95 7.86 36.72 3.74
69 70 4.718143 GGAGCTCCCTAGGAAGCT 57.282 61.111 24.41 24.41 38.31 3.74
79 80 1.536284 CGAACGATACAAGGGAGCTCC 60.536 57.143 25.59 25.59 0.00 4.70
80 81 1.536284 CCGAACGATACAAGGGAGCTC 60.536 57.143 4.71 4.71 0.00 4.09
81 82 0.460311 CCGAACGATACAAGGGAGCT 59.540 55.000 0.00 0.00 0.00 4.09
82 83 1.152383 GCCGAACGATACAAGGGAGC 61.152 60.000 0.00 0.00 0.00 4.70
83 84 0.460311 AGCCGAACGATACAAGGGAG 59.540 55.000 0.00 0.00 0.00 4.30
84 85 0.174845 CAGCCGAACGATACAAGGGA 59.825 55.000 0.00 0.00 0.00 4.20
85 86 0.174845 TCAGCCGAACGATACAAGGG 59.825 55.000 0.00 0.00 0.00 3.95
86 87 1.860950 CATCAGCCGAACGATACAAGG 59.139 52.381 0.00 0.00 0.00 3.61
87 88 2.540515 ACATCAGCCGAACGATACAAG 58.459 47.619 0.00 0.00 0.00 3.16
88 89 2.665649 ACATCAGCCGAACGATACAA 57.334 45.000 0.00 0.00 0.00 2.41
89 90 2.686405 AGTACATCAGCCGAACGATACA 59.314 45.455 0.00 0.00 0.00 2.29
90 91 3.351020 AGTACATCAGCCGAACGATAC 57.649 47.619 0.00 0.00 0.00 2.24
91 92 3.129813 ACAAGTACATCAGCCGAACGATA 59.870 43.478 0.00 0.00 0.00 2.92
92 93 2.094182 ACAAGTACATCAGCCGAACGAT 60.094 45.455 0.00 0.00 0.00 3.73
93 94 1.271379 ACAAGTACATCAGCCGAACGA 59.729 47.619 0.00 0.00 0.00 3.85
94 95 1.710013 ACAAGTACATCAGCCGAACG 58.290 50.000 0.00 0.00 0.00 3.95
95 96 2.806244 ACAACAAGTACATCAGCCGAAC 59.194 45.455 0.00 0.00 0.00 3.95
96 97 3.120321 ACAACAAGTACATCAGCCGAA 57.880 42.857 0.00 0.00 0.00 4.30
97 98 2.805671 CAACAACAAGTACATCAGCCGA 59.194 45.455 0.00 0.00 0.00 5.54
98 99 2.548057 ACAACAACAAGTACATCAGCCG 59.452 45.455 0.00 0.00 0.00 5.52
99 100 3.315191 ACACAACAACAAGTACATCAGCC 59.685 43.478 0.00 0.00 0.00 4.85
100 101 4.552166 ACACAACAACAAGTACATCAGC 57.448 40.909 0.00 0.00 0.00 4.26
101 102 5.879237 ACAACACAACAACAAGTACATCAG 58.121 37.500 0.00 0.00 0.00 2.90
102 103 5.888691 ACAACACAACAACAAGTACATCA 57.111 34.783 0.00 0.00 0.00 3.07
103 104 8.742188 CAATTACAACACAACAACAAGTACATC 58.258 33.333 0.00 0.00 0.00 3.06
104 105 7.221838 GCAATTACAACACAACAACAAGTACAT 59.778 33.333 0.00 0.00 0.00 2.29
105 106 6.528423 GCAATTACAACACAACAACAAGTACA 59.472 34.615 0.00 0.00 0.00 2.90
106 107 6.750039 AGCAATTACAACACAACAACAAGTAC 59.250 34.615 0.00 0.00 0.00 2.73
107 108 6.749578 CAGCAATTACAACACAACAACAAGTA 59.250 34.615 0.00 0.00 0.00 2.24
108 109 5.576384 CAGCAATTACAACACAACAACAAGT 59.424 36.000 0.00 0.00 0.00 3.16
109 110 5.005586 CCAGCAATTACAACACAACAACAAG 59.994 40.000 0.00 0.00 0.00 3.16
110 111 4.867047 CCAGCAATTACAACACAACAACAA 59.133 37.500 0.00 0.00 0.00 2.83
111 112 4.428209 CCAGCAATTACAACACAACAACA 58.572 39.130 0.00 0.00 0.00 3.33
112 113 3.245048 GCCAGCAATTACAACACAACAAC 59.755 43.478 0.00 0.00 0.00 3.32
113 114 3.452474 GCCAGCAATTACAACACAACAA 58.548 40.909 0.00 0.00 0.00 2.83
114 115 2.223923 GGCCAGCAATTACAACACAACA 60.224 45.455 0.00 0.00 0.00 3.33
115 116 2.403259 GGCCAGCAATTACAACACAAC 58.597 47.619 0.00 0.00 0.00 3.32
116 117 1.000827 CGGCCAGCAATTACAACACAA 60.001 47.619 2.24 0.00 0.00 3.33
117 118 0.595588 CGGCCAGCAATTACAACACA 59.404 50.000 2.24 0.00 0.00 3.72
118 119 0.109319 CCGGCCAGCAATTACAACAC 60.109 55.000 2.24 0.00 0.00 3.32
119 120 0.538516 ACCGGCCAGCAATTACAACA 60.539 50.000 0.00 0.00 0.00 3.33
120 121 0.601057 AACCGGCCAGCAATTACAAC 59.399 50.000 0.00 0.00 0.00 3.32
121 122 0.600557 CAACCGGCCAGCAATTACAA 59.399 50.000 0.00 0.00 0.00 2.41
122 123 0.250945 TCAACCGGCCAGCAATTACA 60.251 50.000 0.00 0.00 0.00 2.41
123 124 1.102978 ATCAACCGGCCAGCAATTAC 58.897 50.000 0.00 0.00 0.00 1.89
124 125 1.102154 CATCAACCGGCCAGCAATTA 58.898 50.000 0.00 0.00 0.00 1.40
125 126 1.606885 CCATCAACCGGCCAGCAATT 61.607 55.000 0.00 0.00 0.00 2.32
126 127 2.053865 CCATCAACCGGCCAGCAAT 61.054 57.895 0.00 0.00 0.00 3.56
127 128 2.676121 CCATCAACCGGCCAGCAA 60.676 61.111 0.00 0.00 0.00 3.91
134 135 3.866883 ATTAACAAAGCCATCAACCGG 57.133 42.857 0.00 0.00 0.00 5.28
135 136 4.804108 TGAATTAACAAAGCCATCAACCG 58.196 39.130 0.00 0.00 0.00 4.44
136 137 7.120789 CTTTGAATTAACAAAGCCATCAACC 57.879 36.000 6.67 0.00 46.05 3.77
146 147 4.343526 TGAGCCTGGCTTTGAATTAACAAA 59.656 37.500 24.26 0.00 39.88 2.83
147 148 3.894427 TGAGCCTGGCTTTGAATTAACAA 59.106 39.130 24.26 0.00 39.88 2.83
148 149 3.255642 GTGAGCCTGGCTTTGAATTAACA 59.744 43.478 24.26 9.75 39.88 2.41
149 150 3.367395 GGTGAGCCTGGCTTTGAATTAAC 60.367 47.826 24.26 6.97 39.88 2.01
150 151 2.825532 GGTGAGCCTGGCTTTGAATTAA 59.174 45.455 24.26 0.00 39.88 1.40
151 152 2.446435 GGTGAGCCTGGCTTTGAATTA 58.554 47.619 24.26 0.98 39.88 1.40
152 153 1.260544 GGTGAGCCTGGCTTTGAATT 58.739 50.000 24.26 0.00 39.88 2.17
153 154 0.962356 CGGTGAGCCTGGCTTTGAAT 60.962 55.000 24.26 0.00 39.88 2.57
154 155 1.600636 CGGTGAGCCTGGCTTTGAA 60.601 57.895 24.26 6.44 39.88 2.69
155 156 2.032528 CGGTGAGCCTGGCTTTGA 59.967 61.111 24.26 7.29 39.88 2.69
156 157 3.741476 GCGGTGAGCCTGGCTTTG 61.741 66.667 24.26 13.60 39.88 2.77
190 191 4.992688 TGCTTTCAATCAGTGACGTTTTT 58.007 34.783 0.00 0.00 35.39 1.94
191 192 4.630894 TGCTTTCAATCAGTGACGTTTT 57.369 36.364 0.00 0.00 35.39 2.43
192 193 4.036734 ACATGCTTTCAATCAGTGACGTTT 59.963 37.500 0.00 0.00 35.39 3.60
193 194 3.565482 ACATGCTTTCAATCAGTGACGTT 59.435 39.130 0.00 0.00 35.39 3.99
194 195 3.141398 ACATGCTTTCAATCAGTGACGT 58.859 40.909 0.00 0.00 35.39 4.34
195 196 3.818961 ACATGCTTTCAATCAGTGACG 57.181 42.857 0.00 0.00 35.39 4.35
214 215 2.910199 TGAGGCATCTGTTCAGCATAC 58.090 47.619 0.00 0.00 0.00 2.39
221 222 5.181748 AGAGTAAACATGAGGCATCTGTTC 58.818 41.667 13.78 5.83 32.18 3.18
266 267 7.865707 AGATTAATAACAAGCTTATGAAGGCG 58.134 34.615 0.00 0.00 0.00 5.52
274 275 9.031360 GTGATGACGAGATTAATAACAAGCTTA 57.969 33.333 0.00 0.00 0.00 3.09
293 294 2.222508 CGACGATTTTGTCCGTGATGAC 60.223 50.000 0.00 0.00 39.30 3.06
308 309 1.405821 GATGGAGGACTTGACGACGAT 59.594 52.381 0.00 0.00 0.00 3.73
309 310 0.809385 GATGGAGGACTTGACGACGA 59.191 55.000 0.00 0.00 0.00 4.20
371 372 1.485480 GGTAGCAGGAAGGGTAAGGAC 59.515 57.143 0.00 0.00 0.00 3.85
510 554 0.996583 GTTTACCCCTCCATGGACCA 59.003 55.000 11.44 0.00 38.35 4.02
514 558 0.909623 AGTCGTTTACCCCTCCATGG 59.090 55.000 4.97 4.97 0.00 3.66
526 570 9.987272 TCTATATGATCATCATTGAAGTCGTTT 57.013 29.630 12.53 0.00 38.26 3.60
577 622 5.733620 TGATTAGGGTTCAAGTACTTCGT 57.266 39.130 4.77 0.00 0.00 3.85
684 740 5.123186 TGCATTGACTTACTTTAATGGTCGG 59.877 40.000 0.00 0.00 32.59 4.79
692 748 5.876357 AGGTCCTTGCATTGACTTACTTTA 58.124 37.500 13.80 0.00 0.00 1.85
696 752 5.086104 TCTAGGTCCTTGCATTGACTTAC 57.914 43.478 13.80 1.06 0.00 2.34
806 1285 7.941790 TGGCAGGAGTATATTAATTGCACATAA 59.058 33.333 7.98 0.00 0.00 1.90
932 2311 1.030457 CAATGAGCTGATGGGCTTCC 58.970 55.000 0.00 0.00 43.20 3.46
933 2312 1.404391 CACAATGAGCTGATGGGCTTC 59.596 52.381 0.00 0.00 43.20 3.86
934 2313 1.471119 CACAATGAGCTGATGGGCTT 58.529 50.000 0.00 0.00 43.20 4.35
935 2314 1.035932 GCACAATGAGCTGATGGGCT 61.036 55.000 9.38 0.00 46.11 5.19
946 2332 2.910319 AGGTAGGTTAGGTGCACAATGA 59.090 45.455 20.43 0.00 0.00 2.57
1016 2423 1.728179 GCGATCTGACGACGAAGACAA 60.728 52.381 0.00 0.00 35.09 3.18
1040 2460 1.373497 CAGATAGGATCACCGGCGC 60.373 63.158 0.00 0.00 41.83 6.53
1360 2804 4.465446 CCGAGGAGCCCCAGGAGA 62.465 72.222 0.00 0.00 35.38 3.71
1428 2872 1.726853 CTTTAGTCCGTTGAGCCTGG 58.273 55.000 0.00 0.00 0.00 4.45
1717 3169 1.301401 CGTGGTGAAGAGGGCGAAA 60.301 57.895 0.00 0.00 0.00 3.46
1784 3236 0.902984 ATGTACTGTGACCGGCCAGA 60.903 55.000 19.75 5.38 32.93 3.86
1786 3238 1.594833 GATGTACTGTGACCGGCCA 59.405 57.895 0.00 0.00 0.00 5.36
1865 3320 7.800092 AGAAGGATAAGCATGTAGAATGAAGT 58.200 34.615 0.00 0.00 0.00 3.01
1868 3323 6.239714 GGGAGAAGGATAAGCATGTAGAATGA 60.240 42.308 0.00 0.00 0.00 2.57
1960 3415 1.572085 CCTCTTCTGGCGTGTGCTTG 61.572 60.000 0.00 0.00 42.25 4.01
1987 3442 2.125832 ACCATGAACCGCCGTACG 60.126 61.111 8.69 8.69 43.15 3.67
2057 3512 1.754226 GAAAGCCCTTGTGACACCAAA 59.246 47.619 2.45 0.00 0.00 3.28
2327 3782 7.953158 TTTCCGTTGATTGCAAAATTAATGA 57.047 28.000 1.71 0.00 35.42 2.57
2431 3887 0.610687 CTCGCTCTCCCCTTTCAGTT 59.389 55.000 0.00 0.00 0.00 3.16
2532 3991 4.213482 GTCTGTAGCGAACTTTGGTTGAAT 59.787 41.667 0.00 0.00 35.58 2.57
2533 3992 3.558418 GTCTGTAGCGAACTTTGGTTGAA 59.442 43.478 0.00 0.00 35.58 2.69
2534 3993 3.128349 GTCTGTAGCGAACTTTGGTTGA 58.872 45.455 0.00 0.00 35.58 3.18
2638 4098 6.717084 GTCTCCATTTTAGCTTGGCCTATATT 59.283 38.462 3.32 0.00 32.80 1.28
2655 4116 7.437713 TGGTTAGATCATGTTAGTCTCCATT 57.562 36.000 0.00 0.00 0.00 3.16
3218 4681 5.869649 ATTATAAATGGGTGTGGAAAGCC 57.130 39.130 0.00 0.00 38.25 4.35


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

AutoCloner maintained by Alex Coulton.