Multiple sequence alignment - TraesCS3D01G045100

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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 TraesCS3D01G045100 chr3D 100.000 2687 0 0 1 2687 17360993 17363679 0.000000e+00 4963.0
1 TraesCS3D01G045100 chr3D 87.929 1077 108 14 670 1731 17533165 17532096 0.000000e+00 1249.0
2 TraesCS3D01G045100 chr3D 90.438 251 20 4 274 523 17528030 17527783 7.170000e-86 327.0
3 TraesCS3D01G045100 chr3D 90.040 251 21 4 274 523 17533659 17533412 3.340000e-84 322.0
4 TraesCS3D01G045100 chr3D 87.085 271 22 4 612 869 17527614 17527344 7.270000e-76 294.0
5 TraesCS3D01G045100 chr3D 90.260 154 15 0 29 182 17534079 17533926 4.540000e-48 202.0
6 TraesCS3D01G045100 chr3D 83.590 195 17 10 2277 2458 113818432 113818624 4.600000e-38 169.0
7 TraesCS3D01G045100 chr3A 89.609 1713 115 23 612 2292 19486498 19484817 0.000000e+00 2119.0
8 TraesCS3D01G045100 chr3A 87.752 1143 109 16 612 1731 19357198 19358332 0.000000e+00 1306.0
9 TraesCS3D01G045100 chr3A 79.054 888 127 29 742 1592 19286263 19287128 3.020000e-154 555.0
10 TraesCS3D01G045100 chr3A 78.738 729 122 15 994 1707 26413665 26414375 8.770000e-125 457.0
11 TraesCS3D01G045100 chr3A 78.716 592 97 17 1170 1740 26449886 26450469 4.230000e-98 368.0
12 TraesCS3D01G045100 chr3A 85.902 305 28 8 2394 2687 19484810 19484510 7.220000e-81 311.0
13 TraesCS3D01G045100 chr3A 90.323 155 13 1 27 181 19487245 19487093 4.540000e-48 202.0
14 TraesCS3D01G045100 chr3A 79.459 185 20 15 2345 2512 230540151 230539968 6.080000e-22 115.0
15 TraesCS3D01G045100 chr3A 71.658 374 90 12 1074 1443 25990417 25990056 3.680000e-14 89.8
16 TraesCS3D01G045100 chr3A 88.889 54 6 0 1588 1641 26448865 26448918 1.730000e-07 67.6
17 TraesCS3D01G045100 chr3B 85.994 1785 169 28 285 2039 24932623 24934356 0.000000e+00 1836.0
18 TraesCS3D01G045100 chr3B 81.487 713 88 21 1011 1698 30363600 30364293 1.820000e-151 545.0
19 TraesCS3D01G045100 chr3B 81.944 648 86 16 1011 1645 29976624 29977253 1.100000e-143 520.0
20 TraesCS3D01G045100 chr3B 83.974 468 54 16 1189 1645 29981199 29981656 1.910000e-116 429.0
21 TraesCS3D01G045100 chr3B 73.669 676 124 29 997 1647 30484684 30485330 2.100000e-51 213.0
22 TraesCS3D01G045100 chr3B 75.510 343 44 28 2195 2512 22771924 22771597 6.040000e-27 132.0
23 TraesCS3D01G045100 chr3B 84.167 120 10 3 1602 1712 29529731 29529612 1.020000e-19 108.0
24 TraesCS3D01G045100 chr3B 89.286 56 6 0 1587 1642 30495257 30495312 1.330000e-08 71.3
25 TraesCS3D01G045100 chr2D 85.547 256 28 3 2069 2316 569346940 569346686 2.650000e-65 259.0
26 TraesCS3D01G045100 chr1D 81.923 260 27 16 2272 2518 445587634 445587382 4.540000e-48 202.0
27 TraesCS3D01G045100 chr1D 83.065 124 14 5 2395 2512 409815292 409815414 3.660000e-19 106.0
28 TraesCS3D01G045100 chr4D 82.803 157 13 8 2365 2508 51607919 51607764 7.810000e-26 128.0
29 TraesCS3D01G045100 chr5D 87.619 105 10 2 2231 2332 408753169 408753273 4.700000e-23 119.0
30 TraesCS3D01G045100 chr2B 80.838 167 13 11 2364 2512 748586001 748585836 2.190000e-21 113.0
31 TraesCS3D01G045100 chr1B 77.540 187 30 10 2277 2459 633965518 633965696 4.730000e-18 102.0
32 TraesCS3D01G045100 chr1B 88.235 51 6 0 2462 2512 633965719 633965769 8.030000e-06 62.1
33 TraesCS3D01G045100 chr5B 84.466 103 6 3 2364 2458 13266331 13266431 2.850000e-15 93.5


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 TraesCS3D01G045100 chr3D 17360993 17363679 2686 False 4963.000000 4963 100.000000 1 2687 1 chr3D.!!$F1 2686
1 TraesCS3D01G045100 chr3D 17532096 17534079 1983 True 591.000000 1249 89.409667 29 1731 3 chr3D.!!$R2 1702
2 TraesCS3D01G045100 chr3D 17527344 17528030 686 True 310.500000 327 88.761500 274 869 2 chr3D.!!$R1 595
3 TraesCS3D01G045100 chr3A 19357198 19358332 1134 False 1306.000000 1306 87.752000 612 1731 1 chr3A.!!$F2 1119
4 TraesCS3D01G045100 chr3A 19484510 19487245 2735 True 877.333333 2119 88.611333 27 2687 3 chr3A.!!$R3 2660
5 TraesCS3D01G045100 chr3A 19286263 19287128 865 False 555.000000 555 79.054000 742 1592 1 chr3A.!!$F1 850
6 TraesCS3D01G045100 chr3A 26413665 26414375 710 False 457.000000 457 78.738000 994 1707 1 chr3A.!!$F3 713
7 TraesCS3D01G045100 chr3A 26448865 26450469 1604 False 217.800000 368 83.802500 1170 1740 2 chr3A.!!$F4 570
8 TraesCS3D01G045100 chr3B 24932623 24934356 1733 False 1836.000000 1836 85.994000 285 2039 1 chr3B.!!$F1 1754
9 TraesCS3D01G045100 chr3B 30363600 30364293 693 False 545.000000 545 81.487000 1011 1698 1 chr3B.!!$F2 687
10 TraesCS3D01G045100 chr3B 29976624 29981656 5032 False 474.500000 520 82.959000 1011 1645 2 chr3B.!!$F5 634
11 TraesCS3D01G045100 chr3B 30484684 30485330 646 False 213.000000 213 73.669000 997 1647 1 chr3B.!!$F3 650

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
263 266 0.032267 GAGGGAGTAGCGCGCTATTT 59.968 55.0 39.99 30.72 34.07 1.40 F
1251 1648 0.179936 GGAGCTCTGGATTCACTGGG 59.820 60.0 14.64 0.00 0.00 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1253 1650 0.099968 CATGATCGCAAAGCCAGTGG 59.900 55.0 4.20 4.20 0.00 4.00 R
2347 7397 0.037734 GGGGCTTCTCCGGAGAAAAA 59.962 55.0 38.83 23.25 45.75 1.94 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
91 92 0.317479 ACGGGTCCTTCAACTCGAAG 59.683 55.000 2.96 0.00 46.09 3.79
110 111 6.100004 TCGAAGAAATGATAATATCCCTCGC 58.900 40.000 0.00 0.00 0.00 5.03
114 115 9.383519 GAAGAAATGATAATATCCCTCGCATTA 57.616 33.333 0.00 0.00 0.00 1.90
115 116 8.723942 AGAAATGATAATATCCCTCGCATTAC 57.276 34.615 0.00 0.00 0.00 1.89
149 152 5.241403 AGCCCGGTGATATTGATTATTGA 57.759 39.130 0.00 0.00 0.00 2.57
151 154 5.882557 AGCCCGGTGATATTGATTATTGATC 59.117 40.000 0.00 0.00 35.21 2.92
152 155 5.882557 GCCCGGTGATATTGATTATTGATCT 59.117 40.000 0.00 0.00 35.69 2.75
182 185 6.920817 TCATCGCGTCTAGTTGGAATATATT 58.079 36.000 5.77 0.00 0.00 1.28
183 186 7.027760 TCATCGCGTCTAGTTGGAATATATTC 58.972 38.462 15.88 15.88 36.08 1.75
185 188 6.609533 TCGCGTCTAGTTGGAATATATTCTC 58.390 40.000 21.80 13.83 37.00 2.87
186 189 6.430308 TCGCGTCTAGTTGGAATATATTCTCT 59.570 38.462 21.80 18.50 37.00 3.10
187 190 6.743627 CGCGTCTAGTTGGAATATATTCTCTC 59.256 42.308 21.80 13.17 37.00 3.20
188 191 7.030768 GCGTCTAGTTGGAATATATTCTCTCC 58.969 42.308 21.80 9.37 37.00 3.71
189 192 7.309255 GCGTCTAGTTGGAATATATTCTCTCCA 60.309 40.741 21.80 11.70 37.00 3.86
190 193 8.744652 CGTCTAGTTGGAATATATTCTCTCCAT 58.255 37.037 21.80 8.76 37.78 3.41
192 195 9.261035 TCTAGTTGGAATATATTCTCTCCATCC 57.739 37.037 21.80 7.06 37.78 3.51
193 196 7.264294 AGTTGGAATATATTCTCTCCATCCC 57.736 40.000 21.80 6.32 37.78 3.85
195 198 6.627087 TGGAATATATTCTCTCCATCCCAC 57.373 41.667 21.80 4.69 37.00 4.61
198 201 7.240405 TGGAATATATTCTCTCCATCCCACAAT 59.760 37.037 21.80 0.00 37.00 2.71
199 202 8.772250 GGAATATATTCTCTCCATCCCACAATA 58.228 37.037 21.80 0.00 37.00 1.90
204 207 7.878621 ATTCTCTCCATCCCACAATATAAGA 57.121 36.000 0.00 0.00 0.00 2.10
205 208 6.924913 TCTCTCCATCCCACAATATAAGAG 57.075 41.667 0.00 0.00 0.00 2.85
206 209 5.247110 TCTCTCCATCCCACAATATAAGAGC 59.753 44.000 0.00 0.00 0.00 4.09
207 210 4.021104 TCTCCATCCCACAATATAAGAGCG 60.021 45.833 0.00 0.00 0.00 5.03
208 211 3.646162 TCCATCCCACAATATAAGAGCGT 59.354 43.478 0.00 0.00 0.00 5.07
212 215 4.693283 TCCCACAATATAAGAGCGTCTTG 58.307 43.478 9.58 0.00 37.29 3.02
215 218 5.462398 CCCACAATATAAGAGCGTCTTGTAC 59.538 44.000 9.58 0.00 37.29 2.90
216 219 6.040247 CCACAATATAAGAGCGTCTTGTACA 58.960 40.000 9.58 0.00 37.29 2.90
217 220 6.019801 CCACAATATAAGAGCGTCTTGTACAC 60.020 42.308 0.00 0.00 37.29 2.90
219 222 7.913821 CACAATATAAGAGCGTCTTGTACACTA 59.086 37.037 0.00 0.00 37.29 2.74
220 223 7.914346 ACAATATAAGAGCGTCTTGTACACTAC 59.086 37.037 0.00 0.00 37.29 2.73
221 224 5.892160 ATAAGAGCGTCTTGTACACTACA 57.108 39.130 0.00 0.00 37.29 2.74
224 227 4.321718 AGAGCGTCTTGTACACTACACTA 58.678 43.478 0.00 0.00 38.63 2.74
225 228 4.392445 AGAGCGTCTTGTACACTACACTAG 59.608 45.833 0.00 0.00 38.63 2.57
226 229 3.119919 AGCGTCTTGTACACTACACTAGC 60.120 47.826 0.00 0.00 38.63 3.42
227 230 3.414464 CGTCTTGTACACTACACTAGCG 58.586 50.000 0.00 0.00 38.63 4.26
228 231 3.120408 CGTCTTGTACACTACACTAGCGT 60.120 47.826 0.00 0.00 38.63 5.07
229 232 4.401714 GTCTTGTACACTACACTAGCGTC 58.598 47.826 0.00 0.00 38.63 5.19
230 233 4.067192 TCTTGTACACTACACTAGCGTCA 58.933 43.478 0.00 0.00 38.63 4.35
231 234 4.516321 TCTTGTACACTACACTAGCGTCAA 59.484 41.667 0.00 0.00 38.63 3.18
233 236 4.539870 TGTACACTACACTAGCGTCAAAC 58.460 43.478 0.00 0.00 32.89 2.93
234 237 3.720949 ACACTACACTAGCGTCAAACA 57.279 42.857 0.00 0.00 0.00 2.83
235 238 4.049546 ACACTACACTAGCGTCAAACAA 57.950 40.909 0.00 0.00 0.00 2.83
236 239 3.800506 ACACTACACTAGCGTCAAACAAC 59.199 43.478 0.00 0.00 0.00 3.32
237 240 4.049186 CACTACACTAGCGTCAAACAACT 58.951 43.478 0.00 0.00 0.00 3.16
239 242 2.210116 ACACTAGCGTCAAACAACTGG 58.790 47.619 0.00 0.00 0.00 4.00
241 244 1.414919 ACTAGCGTCAAACAACTGGGA 59.585 47.619 0.00 0.00 0.00 4.37
242 245 1.798813 CTAGCGTCAAACAACTGGGAC 59.201 52.381 0.00 0.00 0.00 4.46
244 247 1.938861 CGTCAAACAACTGGGACGG 59.061 57.895 5.22 0.00 46.70 4.79
246 249 1.226746 GTCAAACAACTGGGACGGAG 58.773 55.000 0.00 0.00 38.67 4.63
247 250 0.107831 TCAAACAACTGGGACGGAGG 59.892 55.000 0.00 0.00 38.67 4.30
248 251 0.889186 CAAACAACTGGGACGGAGGG 60.889 60.000 0.00 0.00 38.67 4.30
251 254 1.913762 CAACTGGGACGGAGGGAGT 60.914 63.158 0.00 0.00 38.67 3.85
252 255 0.613853 CAACTGGGACGGAGGGAGTA 60.614 60.000 0.00 0.00 38.67 2.59
253 256 0.324460 AACTGGGACGGAGGGAGTAG 60.324 60.000 0.00 0.00 38.67 2.57
254 257 2.043248 TGGGACGGAGGGAGTAGC 60.043 66.667 0.00 0.00 0.00 3.58
255 258 3.217743 GGGACGGAGGGAGTAGCG 61.218 72.222 0.00 0.00 0.00 4.26
256 259 3.902086 GGACGGAGGGAGTAGCGC 61.902 72.222 0.00 0.00 0.00 5.92
257 260 4.253257 GACGGAGGGAGTAGCGCG 62.253 72.222 0.00 0.00 34.07 6.86
260 263 2.905880 GGAGGGAGTAGCGCGCTA 60.906 66.667 35.48 35.48 34.07 4.26
262 265 1.660917 GAGGGAGTAGCGCGCTATT 59.339 57.895 39.99 36.29 34.07 1.73
263 266 0.032267 GAGGGAGTAGCGCGCTATTT 59.968 55.000 39.99 30.72 34.07 1.40
264 267 0.464452 AGGGAGTAGCGCGCTATTTT 59.536 50.000 39.99 28.35 34.07 1.82
334 552 2.357517 CTGGAAAGGCTGCGACGT 60.358 61.111 0.00 0.00 0.00 4.34
371 589 4.701663 CACTCCGTGCATGACCTT 57.298 55.556 7.72 0.00 0.00 3.50
508 727 6.578020 TGTATGTTTGGTCGACGATAAATC 57.422 37.500 9.92 6.78 0.00 2.17
540 874 7.641760 TGGACTAAAATTTACACGGAGTTTTC 58.358 34.615 0.00 0.00 41.61 2.29
556 890 4.190772 AGTTTTCAAAATGCACAACCCAG 58.809 39.130 0.00 0.00 0.00 4.45
600 934 5.571784 TTTTCGTCGGATACTGACATAGT 57.428 39.130 10.60 0.00 43.56 2.12
696 1050 9.383519 TCTTGTATTTAGATAGCTGACAAAAGG 57.616 33.333 0.00 0.00 0.00 3.11
700 1054 7.814264 ATTTAGATAGCTGACAAAAGGATGG 57.186 36.000 0.00 0.00 0.00 3.51
705 1059 4.851639 AGCTGACAAAAGGATGGAGTAT 57.148 40.909 0.00 0.00 0.00 2.12
936 1307 7.016661 AGGATTCGTCCACATATATCCTTCTTT 59.983 37.037 0.00 0.00 38.94 2.52
942 1313 7.878127 CGTCCACATATATCCTTCTTTAACCAT 59.122 37.037 0.00 0.00 0.00 3.55
994 1373 2.355716 CCCACGGCCAAATCTTCTTCTA 60.356 50.000 2.24 0.00 0.00 2.10
1089 1480 2.964310 GCCTGAGGAGCAGCAAGGA 61.964 63.158 0.65 0.00 43.50 3.36
1131 1528 4.235762 ACGTGCGGCAACCTCACT 62.236 61.111 3.23 0.00 35.23 3.41
1157 1554 3.051392 GCCCGTTTTGGATCGCCAG 62.051 63.158 0.00 0.00 46.91 4.85
1251 1648 0.179936 GGAGCTCTGGATTCACTGGG 59.820 60.000 14.64 0.00 0.00 4.45
1253 1650 0.908198 AGCTCTGGATTCACTGGGTC 59.092 55.000 0.00 0.00 0.00 4.46
1287 1684 4.467735 CGATCATGAACATCTCGTACGAT 58.532 43.478 19.87 2.67 0.00 3.73
1328 1725 4.377431 CGTTGATGTACACAAAGAGGAAGC 60.377 45.833 14.23 0.00 0.00 3.86
1501 6505 0.247894 GAGCAACGTGTTTGTTCGCA 60.248 50.000 0.00 0.00 35.93 5.10
1524 6530 1.402984 GGAGTGCGTTTCGATGAGACT 60.403 52.381 0.00 0.00 0.00 3.24
1608 6623 1.662876 GCGAATGCAAGCAACTTCGAA 60.663 47.619 25.86 0.00 39.40 3.71
1698 6733 9.409949 CGAATCATCTTTTAATCAAGTTCGTAC 57.590 33.333 0.00 0.00 30.08 3.67
1792 6830 7.776969 TGTTACTACTCACTAACCGAGGATTAT 59.223 37.037 0.00 0.00 34.66 1.28
1803 6841 5.359194 ACCGAGGATTATGATGAAGTTGT 57.641 39.130 0.00 0.00 0.00 3.32
1872 6911 3.725634 ACAGGCCCTAGTTAGTCTGAAT 58.274 45.455 11.85 0.00 0.00 2.57
1928 6967 1.154413 GGCATCACGCACTTGTTCG 60.154 57.895 0.00 0.00 45.17 3.95
1937 6976 1.801771 CGCACTTGTTCGGTAATCCAA 59.198 47.619 0.00 0.00 0.00 3.53
1944 6983 4.819105 TGTTCGGTAATCCAATCAGAGT 57.181 40.909 0.00 0.00 0.00 3.24
1957 6996 4.384056 CAATCAGAGTCCAGTCACACTTT 58.616 43.478 0.00 0.00 0.00 2.66
1958 6997 3.735237 TCAGAGTCCAGTCACACTTTC 57.265 47.619 0.00 0.00 0.00 2.62
1959 6998 3.031013 TCAGAGTCCAGTCACACTTTCA 58.969 45.455 0.00 0.00 0.00 2.69
1960 6999 3.068732 TCAGAGTCCAGTCACACTTTCAG 59.931 47.826 0.00 0.00 0.00 3.02
1961 7000 3.034635 AGAGTCCAGTCACACTTTCAGT 58.965 45.455 0.00 0.00 0.00 3.41
1962 7001 3.452627 AGAGTCCAGTCACACTTTCAGTT 59.547 43.478 0.00 0.00 0.00 3.16
1963 7002 3.798202 AGTCCAGTCACACTTTCAGTTC 58.202 45.455 0.00 0.00 0.00 3.01
2010 7059 8.173775 CACTTTCAGCTTCAGACAACATATTAG 58.826 37.037 0.00 0.00 0.00 1.73
2059 7108 1.338200 GGGAGTGGCTACAAGACAGTG 60.338 57.143 2.02 0.00 36.93 3.66
2060 7109 1.338200 GGAGTGGCTACAAGACAGTGG 60.338 57.143 2.02 0.00 36.93 4.00
2062 7111 1.344763 AGTGGCTACAAGACAGTGGAC 59.655 52.381 2.02 0.00 35.06 4.02
2063 7112 1.344763 GTGGCTACAAGACAGTGGACT 59.655 52.381 0.00 0.00 30.96 3.85
2065 7114 1.618837 GGCTACAAGACAGTGGACTGA 59.381 52.381 13.74 0.00 46.59 3.41
2066 7115 2.037251 GGCTACAAGACAGTGGACTGAA 59.963 50.000 13.74 0.00 46.59 3.02
2067 7116 3.321497 GCTACAAGACAGTGGACTGAAG 58.679 50.000 13.74 3.10 46.59 3.02
2093 7142 7.761038 AAATTTAAAGGGTCAGTCGATTTCT 57.239 32.000 0.00 0.00 0.00 2.52
2096 7145 7.662604 TTTAAAGGGTCAGTCGATTTCTAAC 57.337 36.000 0.00 0.00 0.00 2.34
2097 7146 4.884668 AAGGGTCAGTCGATTTCTAACA 57.115 40.909 0.00 0.00 0.00 2.41
2140 7189 2.767505 AGATCCAACGTCCACAACTTC 58.232 47.619 0.00 0.00 0.00 3.01
2152 7201 4.023707 GTCCACAACTTCATCTTCAACCTG 60.024 45.833 0.00 0.00 0.00 4.00
2185 7234 6.433766 CACTGTTTCTCTTCAACCTCAAATC 58.566 40.000 0.00 0.00 0.00 2.17
2193 7242 2.061848 TCAACCTCAAATCTGACCCCA 58.938 47.619 0.00 0.00 0.00 4.96
2215 7265 3.721706 GCCAGCTACCACCAGCCT 61.722 66.667 0.00 0.00 42.84 4.58
2216 7266 2.367202 GCCAGCTACCACCAGCCTA 61.367 63.158 0.00 0.00 42.84 3.93
2217 7267 1.910580 GCCAGCTACCACCAGCCTAA 61.911 60.000 0.00 0.00 42.84 2.69
2218 7268 0.107654 CCAGCTACCACCAGCCTAAC 60.108 60.000 0.00 0.00 42.84 2.34
2219 7269 0.107654 CAGCTACCACCAGCCTAACC 60.108 60.000 0.00 0.00 42.84 2.85
2220 7270 0.546747 AGCTACCACCAGCCTAACCA 60.547 55.000 0.00 0.00 42.84 3.67
2221 7271 0.392595 GCTACCACCAGCCTAACCAC 60.393 60.000 0.00 0.00 35.40 4.16
2222 7272 1.276622 CTACCACCAGCCTAACCACT 58.723 55.000 0.00 0.00 0.00 4.00
2223 7273 0.981183 TACCACCAGCCTAACCACTG 59.019 55.000 0.00 0.00 0.00 3.66
2224 7274 1.675641 CCACCAGCCTAACCACTGC 60.676 63.158 0.00 0.00 32.37 4.40
2225 7275 1.675641 CACCAGCCTAACCACTGCC 60.676 63.158 0.00 0.00 32.37 4.85
2226 7276 2.153401 ACCAGCCTAACCACTGCCA 61.153 57.895 0.00 0.00 32.37 4.92
2227 7277 1.675641 CCAGCCTAACCACTGCCAC 60.676 63.158 0.00 0.00 32.37 5.01
2228 7278 1.675641 CAGCCTAACCACTGCCACC 60.676 63.158 0.00 0.00 0.00 4.61
2229 7279 1.847968 AGCCTAACCACTGCCACCT 60.848 57.895 0.00 0.00 0.00 4.00
2266 7316 4.212913 GCTCCAGCGATCGCCTCA 62.213 66.667 34.89 18.20 43.17 3.86
2289 7339 3.771160 CCGTCCTCCCCTGAACCG 61.771 72.222 0.00 0.00 0.00 4.44
2297 7347 4.722700 CCCTGAACCGCCCCACTG 62.723 72.222 0.00 0.00 0.00 3.66
2308 7358 4.335647 CCCACTGCCGGTCTTGCT 62.336 66.667 1.90 0.00 0.00 3.91
2309 7359 3.052082 CCACTGCCGGTCTTGCTG 61.052 66.667 1.90 0.00 0.00 4.41
2310 7360 3.730761 CACTGCCGGTCTTGCTGC 61.731 66.667 1.90 0.00 0.00 5.25
2329 7379 2.122989 GCCCCGGTCATCCCTCTA 60.123 66.667 0.00 0.00 0.00 2.43
2330 7380 2.210711 GCCCCGGTCATCCCTCTAG 61.211 68.421 0.00 0.00 0.00 2.43
2331 7381 2.210711 CCCCGGTCATCCCTCTAGC 61.211 68.421 0.00 0.00 0.00 3.42
2332 7382 2.210711 CCCGGTCATCCCTCTAGCC 61.211 68.421 0.00 0.00 0.00 3.93
2333 7383 1.152440 CCGGTCATCCCTCTAGCCT 60.152 63.158 0.00 0.00 0.00 4.58
2334 7384 1.182385 CCGGTCATCCCTCTAGCCTC 61.182 65.000 0.00 0.00 0.00 4.70
2335 7385 1.519751 CGGTCATCCCTCTAGCCTCG 61.520 65.000 0.00 0.00 0.00 4.63
2336 7386 1.663173 GTCATCCCTCTAGCCTCGC 59.337 63.158 0.00 0.00 0.00 5.03
2337 7387 1.531840 TCATCCCTCTAGCCTCGCC 60.532 63.158 0.00 0.00 0.00 5.54
2338 7388 2.203714 ATCCCTCTAGCCTCGCCC 60.204 66.667 0.00 0.00 0.00 6.13
2339 7389 3.837213 ATCCCTCTAGCCTCGCCCC 62.837 68.421 0.00 0.00 0.00 5.80
2342 7392 3.597728 CTCTAGCCTCGCCCCGTC 61.598 72.222 0.00 0.00 0.00 4.79
2348 7398 4.016706 CCTCGCCCCGTCCAGTTT 62.017 66.667 0.00 0.00 0.00 2.66
2349 7399 2.032071 CTCGCCCCGTCCAGTTTT 59.968 61.111 0.00 0.00 0.00 2.43
2350 7400 1.599797 CTCGCCCCGTCCAGTTTTT 60.600 57.895 0.00 0.00 0.00 1.94
2365 7415 3.644861 TTTTTCTCCGGAGAAGCCC 57.355 52.632 37.89 0.00 46.80 5.19
2366 7416 0.037734 TTTTTCTCCGGAGAAGCCCC 59.962 55.000 37.89 0.00 46.80 5.80
2367 7417 1.131303 TTTTCTCCGGAGAAGCCCCA 61.131 55.000 37.89 25.09 46.80 4.96
2368 7418 1.838073 TTTCTCCGGAGAAGCCCCAC 61.838 60.000 37.89 0.00 46.80 4.61
2369 7419 3.787001 CTCCGGAGAAGCCCCACC 61.787 72.222 28.21 0.00 0.00 4.61
2370 7420 4.649705 TCCGGAGAAGCCCCACCA 62.650 66.667 0.00 0.00 0.00 4.17
2371 7421 4.410400 CCGGAGAAGCCCCACCAC 62.410 72.222 0.00 0.00 0.00 4.16
2372 7422 4.410400 CGGAGAAGCCCCACCACC 62.410 72.222 0.00 0.00 0.00 4.61
2373 7423 4.410400 GGAGAAGCCCCACCACCG 62.410 72.222 0.00 0.00 0.00 4.94
2408 7458 4.383118 CGCCCCCACCTAAGATAGATAATG 60.383 50.000 0.00 0.00 0.00 1.90
2412 7462 4.475016 CCCACCTAAGATAGATAATGGGGG 59.525 50.000 0.00 0.00 41.64 5.40
2413 7463 5.101529 CCACCTAAGATAGATAATGGGGGT 58.898 45.833 0.00 0.00 32.35 4.95
2414 7464 5.045578 CCACCTAAGATAGATAATGGGGGTG 60.046 48.000 0.00 0.00 39.81 4.61
2415 7465 5.785423 CACCTAAGATAGATAATGGGGGTGA 59.215 44.000 0.00 0.00 41.82 4.02
2442 7492 0.618968 GAGCCCCTTCCTTCTCTCCA 60.619 60.000 0.00 0.00 0.00 3.86
2443 7493 0.620121 AGCCCCTTCCTTCTCTCCAG 60.620 60.000 0.00 0.00 0.00 3.86
2444 7494 1.631071 GCCCCTTCCTTCTCTCCAGG 61.631 65.000 0.00 0.00 0.00 4.45
2464 7524 2.381445 AGGCCCTTCCTTCACTCAG 58.619 57.895 0.00 0.00 44.75 3.35
2468 7528 2.291217 GGCCCTTCCTTCACTCAGAATT 60.291 50.000 0.00 0.00 35.25 2.17
2476 7536 3.999663 CCTTCACTCAGAATTGACTGACC 59.000 47.826 0.00 0.00 41.21 4.02
2479 7539 1.276421 ACTCAGAATTGACTGACCCGG 59.724 52.381 0.00 0.00 41.21 5.73
2481 7541 2.169352 CTCAGAATTGACTGACCCGGAT 59.831 50.000 0.73 0.00 41.21 4.18
2484 7544 1.933853 GAATTGACTGACCCGGATTCG 59.066 52.381 0.73 0.00 0.00 3.34
2494 7554 0.663153 CCCGGATTCGAAATTCAGCC 59.337 55.000 0.73 0.00 39.00 4.85
2512 7572 2.695666 AGCCGACTGACATGTAGCTAAT 59.304 45.455 0.00 0.00 30.82 1.73
2513 7573 3.889538 AGCCGACTGACATGTAGCTAATA 59.110 43.478 0.00 0.00 30.82 0.98
2514 7574 4.524714 AGCCGACTGACATGTAGCTAATAT 59.475 41.667 0.00 0.00 30.82 1.28
2515 7575 4.623167 GCCGACTGACATGTAGCTAATATG 59.377 45.833 14.52 14.52 0.00 1.78
2516 7576 5.164233 CCGACTGACATGTAGCTAATATGG 58.836 45.833 18.35 7.75 0.00 2.74
2527 7587 6.460781 TGTAGCTAATATGGGTTGGATTACG 58.539 40.000 0.00 0.00 0.00 3.18
2528 7588 4.906618 AGCTAATATGGGTTGGATTACGG 58.093 43.478 0.00 0.00 0.00 4.02
2607 7667 3.015516 GGTGGACAAACGACCATGT 57.984 52.632 0.00 0.00 44.92 3.21
2650 7710 1.312371 CCACAACCCATGTTAGCCCG 61.312 60.000 0.00 0.00 41.46 6.13
2651 7711 0.608035 CACAACCCATGTTAGCCCGT 60.608 55.000 0.00 0.00 41.46 5.28
2654 7714 0.322187 AACCCATGTTAGCCCGTGTC 60.322 55.000 0.00 0.00 31.36 3.67
2658 7718 1.468520 CCATGTTAGCCCGTGTCTTTG 59.531 52.381 0.00 0.00 0.00 2.77
2665 7725 1.822371 AGCCCGTGTCTTTGTTTTTGT 59.178 42.857 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
91 92 8.492673 TGTAATGCGAGGGATATTATCATTTC 57.507 34.615 6.04 0.13 0.00 2.17
94 95 6.051717 GCTGTAATGCGAGGGATATTATCAT 58.948 40.000 6.04 0.00 0.00 2.45
110 111 1.474077 GGCTTGAGTTGGGCTGTAATG 59.526 52.381 0.00 0.00 0.00 1.90
114 115 2.116125 GGGCTTGAGTTGGGCTGT 59.884 61.111 0.00 0.00 0.00 4.40
115 116 3.058160 CGGGCTTGAGTTGGGCTG 61.058 66.667 0.00 0.00 0.00 4.85
149 152 5.888691 ACTAGACGCGATGATCATTAGAT 57.111 39.130 15.93 0.00 37.13 1.98
151 154 4.618912 CCAACTAGACGCGATGATCATTAG 59.381 45.833 15.93 8.76 0.00 1.73
152 155 4.277423 TCCAACTAGACGCGATGATCATTA 59.723 41.667 15.93 0.00 0.00 1.90
182 185 5.247110 GCTCTTATATTGTGGGATGGAGAGA 59.753 44.000 0.00 0.00 32.02 3.10
183 186 5.486526 GCTCTTATATTGTGGGATGGAGAG 58.513 45.833 0.00 0.00 33.16 3.20
185 188 4.248859 CGCTCTTATATTGTGGGATGGAG 58.751 47.826 0.00 0.00 0.00 3.86
186 189 3.646162 ACGCTCTTATATTGTGGGATGGA 59.354 43.478 0.00 0.00 0.00 3.41
187 190 3.997021 GACGCTCTTATATTGTGGGATGG 59.003 47.826 0.00 0.00 0.00 3.51
188 191 4.887748 AGACGCTCTTATATTGTGGGATG 58.112 43.478 0.00 0.00 0.00 3.51
189 192 5.163301 ACAAGACGCTCTTATATTGTGGGAT 60.163 40.000 0.87 0.00 33.78 3.85
190 193 4.161565 ACAAGACGCTCTTATATTGTGGGA 59.838 41.667 0.87 0.00 33.78 4.37
191 194 4.442706 ACAAGACGCTCTTATATTGTGGG 58.557 43.478 0.87 0.00 33.78 4.61
192 195 6.019801 GTGTACAAGACGCTCTTATATTGTGG 60.020 42.308 0.00 0.00 33.78 4.17
193 196 6.752351 AGTGTACAAGACGCTCTTATATTGTG 59.248 38.462 0.00 0.00 46.22 3.33
195 198 7.913821 TGTAGTGTACAAGACGCTCTTATATTG 59.086 37.037 0.00 0.00 46.22 1.90
198 201 6.596888 AGTGTAGTGTACAAGACGCTCTTATA 59.403 38.462 15.37 0.00 46.22 0.98
199 202 5.415077 AGTGTAGTGTACAAGACGCTCTTAT 59.585 40.000 15.37 0.00 46.22 1.73
200 203 4.758674 AGTGTAGTGTACAAGACGCTCTTA 59.241 41.667 15.37 0.00 46.22 2.10
201 204 3.568853 AGTGTAGTGTACAAGACGCTCTT 59.431 43.478 15.37 0.00 46.22 2.85
202 205 3.147629 AGTGTAGTGTACAAGACGCTCT 58.852 45.455 15.37 2.65 46.22 4.09
203 206 3.555917 AGTGTAGTGTACAAGACGCTC 57.444 47.619 15.37 5.00 46.22 5.03
205 208 3.169733 GCTAGTGTAGTGTACAAGACGC 58.830 50.000 12.03 12.03 40.93 5.19
206 209 3.120408 ACGCTAGTGTAGTGTACAAGACG 60.120 47.826 7.28 0.96 46.81 4.18
207 210 4.416505 ACGCTAGTGTAGTGTACAAGAC 57.583 45.455 7.28 0.00 46.81 3.01
215 218 4.049186 AGTTGTTTGACGCTAGTGTAGTG 58.951 43.478 9.36 0.00 41.90 2.74
216 219 4.049186 CAGTTGTTTGACGCTAGTGTAGT 58.951 43.478 9.36 0.00 0.00 2.73
217 220 3.428870 CCAGTTGTTTGACGCTAGTGTAG 59.571 47.826 9.36 0.00 0.00 2.74
219 222 2.210116 CCAGTTGTTTGACGCTAGTGT 58.790 47.619 9.11 9.11 0.00 3.55
220 223 1.531149 CCCAGTTGTTTGACGCTAGTG 59.469 52.381 0.59 0.59 0.00 2.74
221 224 1.414919 TCCCAGTTGTTTGACGCTAGT 59.585 47.619 0.00 0.00 0.00 2.57
224 227 1.157870 CGTCCCAGTTGTTTGACGCT 61.158 55.000 0.00 0.00 43.20 5.07
225 228 1.278637 CGTCCCAGTTGTTTGACGC 59.721 57.895 0.00 0.00 43.20 5.19
227 230 1.226746 CTCCGTCCCAGTTGTTTGAC 58.773 55.000 0.00 0.00 0.00 3.18
228 231 0.107831 CCTCCGTCCCAGTTGTTTGA 59.892 55.000 0.00 0.00 0.00 2.69
229 232 0.889186 CCCTCCGTCCCAGTTGTTTG 60.889 60.000 0.00 0.00 0.00 2.93
230 233 1.057851 TCCCTCCGTCCCAGTTGTTT 61.058 55.000 0.00 0.00 0.00 2.83
231 234 1.460689 TCCCTCCGTCCCAGTTGTT 60.461 57.895 0.00 0.00 0.00 2.83
233 236 0.613853 TACTCCCTCCGTCCCAGTTG 60.614 60.000 0.00 0.00 0.00 3.16
234 237 0.324460 CTACTCCCTCCGTCCCAGTT 60.324 60.000 0.00 0.00 0.00 3.16
235 238 1.306970 CTACTCCCTCCGTCCCAGT 59.693 63.158 0.00 0.00 0.00 4.00
236 239 2.128507 GCTACTCCCTCCGTCCCAG 61.129 68.421 0.00 0.00 0.00 4.45
237 240 2.043248 GCTACTCCCTCCGTCCCA 60.043 66.667 0.00 0.00 0.00 4.37
239 242 3.902086 GCGCTACTCCCTCCGTCC 61.902 72.222 0.00 0.00 0.00 4.79
244 247 0.032267 AAATAGCGCGCTACTCCCTC 59.968 55.000 40.42 4.51 0.00 4.30
246 249 1.296727 AAAAATAGCGCGCTACTCCC 58.703 50.000 40.42 6.21 0.00 4.30
269 272 5.957716 CGTCTCACGGTGGTGTTACCAAT 62.958 52.174 8.50 0.00 40.82 3.16
270 273 4.727244 CGTCTCACGGTGGTGTTACCAA 62.727 54.545 8.50 0.00 40.82 3.67
271 274 3.284136 CGTCTCACGGTGGTGTTACCA 62.284 57.143 8.50 0.00 41.38 3.25
272 275 0.665369 CGTCTCACGGTGGTGTTACC 60.665 60.000 8.50 0.00 44.68 2.85
334 552 0.611618 CACCTGTTATGGGCTGGCAA 60.612 55.000 2.88 0.00 0.00 4.52
371 589 1.489481 ACGATTCTCCATCTCAGGCA 58.511 50.000 0.00 0.00 0.00 4.75
508 727 5.061808 CGTGTAAATTTTAGTCCAGACGGAG 59.938 44.000 0.00 0.00 43.99 4.63
540 874 3.069443 AGGTTACTGGGTTGTGCATTTTG 59.931 43.478 0.00 0.00 0.00 2.44
556 890 9.346725 GAAAAAGATGATCATTTGTCAGGTTAC 57.653 33.333 10.14 0.00 0.00 2.50
600 934 7.450074 ACAACATTCAGACTTGACAGGTAATA 58.550 34.615 0.00 0.00 31.71 0.98
696 1050 4.039973 TGTTTCCATACCGGATACTCCATC 59.960 45.833 9.46 0.00 45.80 3.51
700 1054 5.180271 TGTTTGTTTCCATACCGGATACTC 58.820 41.667 9.46 0.00 45.80 2.59
705 1059 2.156098 GCTGTTTGTTTCCATACCGGA 58.844 47.619 9.46 0.00 44.40 5.14
869 1226 0.329931 TGGAAAATCGGGGCTAAGCA 59.670 50.000 0.00 0.00 0.00 3.91
936 1307 8.670521 ATGTGTATGAGAGGATATCATGGTTA 57.329 34.615 4.83 0.00 37.91 2.85
942 1313 7.510343 TGGAGAAATGTGTATGAGAGGATATCA 59.490 37.037 4.83 0.00 0.00 2.15
1023 1405 1.764134 ACTACCCAGACGAACACCAAA 59.236 47.619 0.00 0.00 0.00 3.28
1131 1528 1.222387 CCAAAACGGGCGGGAGATA 59.778 57.895 0.00 0.00 0.00 1.98
1157 1554 3.468326 GATCTTCCCGCCTCCCTGC 62.468 68.421 0.00 0.00 0.00 4.85
1251 1648 0.955428 TGATCGCAAAGCCAGTGGAC 60.955 55.000 15.20 4.21 0.00 4.02
1253 1650 0.099968 CATGATCGCAAAGCCAGTGG 59.900 55.000 4.20 4.20 0.00 4.00
1303 1700 5.147330 TCCTCTTTGTGTACATCAACGAT 57.853 39.130 0.00 0.00 0.00 3.73
1501 6505 1.736645 CATCGAAACGCACTCCCGT 60.737 57.895 0.00 0.00 44.41 5.28
1524 6530 1.827394 GTAGCCGCCATAGTTCCCA 59.173 57.895 0.00 0.00 0.00 4.37
1608 6623 1.523258 GCCATCGCTGATGAGCTGT 60.523 57.895 16.69 0.00 42.09 4.40
1669 6702 8.168626 CGAACTTGATTAAAAGATGATTCGACA 58.831 33.333 0.00 0.00 35.56 4.35
1673 6706 9.704098 GGTACGAACTTGATTAAAAGATGATTC 57.296 33.333 0.00 0.00 0.00 2.52
1715 6753 4.585879 TCCATGAAAGTTACTTAGGCACC 58.414 43.478 0.00 0.00 0.00 5.01
1750 6788 8.458573 AGTAGTAACATGTTTGATTGTTCCAA 57.541 30.769 17.78 0.00 37.29 3.53
1752 6790 8.015658 GTGAGTAGTAACATGTTTGATTGTTCC 58.984 37.037 17.78 0.00 37.29 3.62
1753 6791 8.774586 AGTGAGTAGTAACATGTTTGATTGTTC 58.225 33.333 17.78 7.22 37.29 3.18
1792 6830 9.396022 AGAAGAAGAAAACTAACAACTTCATCA 57.604 29.630 0.00 0.00 37.59 3.07
1872 6911 1.214175 TGGCCAACTTCAGGAGTTCAA 59.786 47.619 0.61 0.00 45.40 2.69
1887 6926 6.186957 CCAATTTAGGCTGTATATATGGCCA 58.813 40.000 22.41 8.56 46.23 5.36
1928 6967 4.162320 TGACTGGACTCTGATTGGATTACC 59.838 45.833 0.00 0.00 0.00 2.85
1937 6976 3.643320 TGAAAGTGTGACTGGACTCTGAT 59.357 43.478 0.00 0.00 0.00 2.90
2010 7059 7.713073 TCCAACAATCCAAAAGTTCCAAATAAC 59.287 33.333 0.00 0.00 0.00 1.89
2059 7108 7.014326 ACTGACCCTTTAAATTTTCTTCAGTCC 59.986 37.037 0.00 0.00 37.24 3.85
2060 7109 7.941919 ACTGACCCTTTAAATTTTCTTCAGTC 58.058 34.615 0.00 0.00 37.24 3.51
2062 7111 7.041372 TCGACTGACCCTTTAAATTTTCTTCAG 60.041 37.037 0.00 3.64 35.21 3.02
2063 7112 6.768861 TCGACTGACCCTTTAAATTTTCTTCA 59.231 34.615 0.00 0.00 0.00 3.02
2064 7113 7.198306 TCGACTGACCCTTTAAATTTTCTTC 57.802 36.000 0.00 0.00 0.00 2.87
2065 7114 7.761038 ATCGACTGACCCTTTAAATTTTCTT 57.239 32.000 0.00 0.00 0.00 2.52
2066 7115 7.761038 AATCGACTGACCCTTTAAATTTTCT 57.239 32.000 0.00 0.00 0.00 2.52
2067 7116 8.297426 AGAAATCGACTGACCCTTTAAATTTTC 58.703 33.333 0.00 0.00 0.00 2.29
2093 7142 7.608376 TGATCCAACGGTTGAAATAGAATGTTA 59.392 33.333 21.88 0.00 0.00 2.41
2096 7145 6.435430 TGATCCAACGGTTGAAATAGAATG 57.565 37.500 21.88 2.35 0.00 2.67
2097 7146 6.884295 TCTTGATCCAACGGTTGAAATAGAAT 59.116 34.615 21.88 4.12 0.00 2.40
2140 7189 2.159421 GCATGCTCACAGGTTGAAGATG 60.159 50.000 11.37 0.00 32.21 2.90
2152 7201 2.149578 AGAGAAACAGTGCATGCTCAC 58.850 47.619 20.33 9.80 37.24 3.51
2205 7255 1.761174 CAGTGGTTAGGCTGGTGGT 59.239 57.895 0.00 0.00 0.00 4.16
2211 7261 1.847968 AGGTGGCAGTGGTTAGGCT 60.848 57.895 0.00 0.00 0.00 4.58
2271 7321 4.097361 GGTTCAGGGGAGGACGGC 62.097 72.222 0.00 0.00 0.00 5.68
2292 7342 3.052082 CAGCAAGACCGGCAGTGG 61.052 66.667 0.00 0.00 0.00 4.00
2293 7343 3.730761 GCAGCAAGACCGGCAGTG 61.731 66.667 0.00 0.00 0.00 3.66
2312 7362 2.122989 TAGAGGGATGACCGGGGC 60.123 66.667 6.32 0.00 46.96 5.80
2313 7363 2.210711 GCTAGAGGGATGACCGGGG 61.211 68.421 6.32 0.00 46.96 5.73
2314 7364 2.210711 GGCTAGAGGGATGACCGGG 61.211 68.421 6.32 0.00 46.96 5.73
2315 7365 1.152440 AGGCTAGAGGGATGACCGG 60.152 63.158 0.00 0.00 46.96 5.28
2316 7366 1.519751 CGAGGCTAGAGGGATGACCG 61.520 65.000 0.00 0.00 46.96 4.79
2317 7367 1.811645 GCGAGGCTAGAGGGATGACC 61.812 65.000 0.00 0.00 40.67 4.02
2318 7368 1.663173 GCGAGGCTAGAGGGATGAC 59.337 63.158 0.00 0.00 0.00 3.06
2319 7369 1.531840 GGCGAGGCTAGAGGGATGA 60.532 63.158 0.00 0.00 0.00 2.92
2320 7370 2.578714 GGGCGAGGCTAGAGGGATG 61.579 68.421 0.00 0.00 0.00 3.51
2321 7371 2.203714 GGGCGAGGCTAGAGGGAT 60.204 66.667 0.00 0.00 0.00 3.85
2322 7372 4.541648 GGGGCGAGGCTAGAGGGA 62.542 72.222 0.00 0.00 0.00 4.20
2325 7375 3.597728 GACGGGGCGAGGCTAGAG 61.598 72.222 0.00 0.00 0.00 2.43
2331 7381 3.546714 AAAACTGGACGGGGCGAGG 62.547 63.158 0.00 0.00 0.00 4.63
2332 7382 1.599797 AAAAACTGGACGGGGCGAG 60.600 57.895 0.00 0.00 0.00 5.03
2333 7383 2.511900 AAAAACTGGACGGGGCGA 59.488 55.556 0.00 0.00 0.00 5.54
2347 7397 0.037734 GGGGCTTCTCCGGAGAAAAA 59.962 55.000 38.83 23.25 45.75 1.94
2348 7398 1.131303 TGGGGCTTCTCCGGAGAAAA 61.131 55.000 38.83 23.94 45.75 2.29
2349 7399 1.537889 TGGGGCTTCTCCGGAGAAA 60.538 57.895 38.83 25.62 45.75 2.52
2350 7400 2.121832 TGGGGCTTCTCCGGAGAA 59.878 61.111 37.80 37.80 44.47 2.87
2351 7401 2.683933 GTGGGGCTTCTCCGGAGA 60.684 66.667 30.49 30.49 34.94 3.71
2352 7402 3.787001 GGTGGGGCTTCTCCGGAG 61.787 72.222 26.32 26.32 34.94 4.63
2353 7403 4.649705 TGGTGGGGCTTCTCCGGA 62.650 66.667 2.93 2.93 34.94 5.14
2354 7404 4.410400 GTGGTGGGGCTTCTCCGG 62.410 72.222 0.00 0.00 34.94 5.14
2355 7405 4.410400 GGTGGTGGGGCTTCTCCG 62.410 72.222 0.00 0.00 34.94 4.63
2356 7406 4.410400 CGGTGGTGGGGCTTCTCC 62.410 72.222 0.00 0.00 0.00 3.71
2380 7430 4.342086 TTAGGTGGGGGCGGAGGT 62.342 66.667 0.00 0.00 0.00 3.85
2381 7431 3.480133 CTTAGGTGGGGGCGGAGG 61.480 72.222 0.00 0.00 0.00 4.30
2382 7432 0.471211 TATCTTAGGTGGGGGCGGAG 60.471 60.000 0.00 0.00 0.00 4.63
2383 7433 0.471211 CTATCTTAGGTGGGGGCGGA 60.471 60.000 0.00 0.00 0.00 5.54
2384 7434 0.471211 TCTATCTTAGGTGGGGGCGG 60.471 60.000 0.00 0.00 0.00 6.13
2385 7435 1.645710 ATCTATCTTAGGTGGGGGCG 58.354 55.000 0.00 0.00 0.00 6.13
2386 7436 4.080299 CCATTATCTATCTTAGGTGGGGGC 60.080 50.000 0.00 0.00 0.00 5.80
2387 7437 4.475016 CCCATTATCTATCTTAGGTGGGGG 59.525 50.000 0.00 0.00 41.02 5.40
2388 7438 5.700402 CCCATTATCTATCTTAGGTGGGG 57.300 47.826 0.00 0.00 41.02 4.96
2389 7439 4.475016 CCCCCATTATCTATCTTAGGTGGG 59.525 50.000 0.00 0.00 43.65 4.61
2390 7440 5.045578 CACCCCCATTATCTATCTTAGGTGG 60.046 48.000 0.00 0.00 37.88 4.61
2391 7441 5.785423 TCACCCCCATTATCTATCTTAGGTG 59.215 44.000 0.00 0.00 41.87 4.00
2392 7442 5.989717 TCACCCCCATTATCTATCTTAGGT 58.010 41.667 0.00 0.00 0.00 3.08
2408 7458 4.530857 CTCGCCGTCATCACCCCC 62.531 72.222 0.00 0.00 0.00 5.40
2414 7464 4.162690 AAGGGGCTCGCCGTCATC 62.163 66.667 1.24 0.00 36.85 2.92
2415 7465 4.162690 GAAGGGGCTCGCCGTCAT 62.163 66.667 12.51 0.00 36.85 3.06
2460 7520 1.550524 TCCGGGTCAGTCAATTCTGAG 59.449 52.381 0.00 0.00 43.76 3.35
2464 7524 1.933853 CGAATCCGGGTCAGTCAATTC 59.066 52.381 0.00 0.00 0.00 2.17
2468 7528 0.970640 TTTCGAATCCGGGTCAGTCA 59.029 50.000 0.00 0.00 36.24 3.41
2476 7536 0.304705 CGGCTGAATTTCGAATCCGG 59.695 55.000 0.00 0.00 36.24 5.14
2479 7539 3.310303 CAGTCGGCTGAATTTCGAATC 57.690 47.619 12.86 0.00 45.28 2.52
2494 7554 5.164233 CCCATATTAGCTACATGTCAGTCG 58.836 45.833 0.00 0.00 0.00 4.18
2512 7572 1.473610 CGCACCGTAATCCAACCCATA 60.474 52.381 0.00 0.00 0.00 2.74
2513 7573 0.746563 CGCACCGTAATCCAACCCAT 60.747 55.000 0.00 0.00 0.00 4.00
2514 7574 1.376166 CGCACCGTAATCCAACCCA 60.376 57.895 0.00 0.00 0.00 4.51
2515 7575 0.956902 AACGCACCGTAATCCAACCC 60.957 55.000 0.00 0.00 39.99 4.11
2516 7576 0.167251 CAACGCACCGTAATCCAACC 59.833 55.000 0.00 0.00 39.99 3.77
2540 7600 2.816087 CCAGACAGAATTCCACTGTTGG 59.184 50.000 16.98 13.52 46.57 3.77
2573 7633 3.621715 GTCCACCTATTTGACGCTTAAGG 59.378 47.826 4.29 0.00 0.00 2.69
2578 7638 2.812011 GTTTGTCCACCTATTTGACGCT 59.188 45.455 0.00 0.00 0.00 5.07
2605 7665 0.966875 CTGGCCCAAATAGCTGCACA 60.967 55.000 0.00 0.00 0.00 4.57
2606 7666 1.811860 CTGGCCCAAATAGCTGCAC 59.188 57.895 0.00 0.00 0.00 4.57
2607 7667 2.053865 GCTGGCCCAAATAGCTGCA 61.054 57.895 0.00 0.00 34.70 4.41


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

AutoCloner maintained by Alex Coulton.