Multiple sequence alignment - TraesCS2D01G348700

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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 TraesCS2D01G348700 chr2D 100.000 2264 0 0 1 2264 446641884 446639621 0.000000e+00 4181.0
1 TraesCS2D01G348700 chr2D 96.269 134 5 0 2131 2264 446624521 446624388 1.050000e-53 220.0
2 TraesCS2D01G348700 chr2A 91.985 2121 117 25 1 2083 590727127 590725022 0.000000e+00 2926.0
3 TraesCS2D01G348700 chr2A 92.478 1130 54 10 697 1800 590720303 590719179 0.000000e+00 1587.0
4 TraesCS2D01G348700 chr2A 87.367 847 52 15 699 1519 590690741 590689924 0.000000e+00 920.0
5 TraesCS2D01G348700 chr2A 93.548 279 17 1 1805 2083 590695736 590695459 4.500000e-112 414.0
6 TraesCS2D01G348700 chr2A 82.031 128 5 8 797 907 590689875 590689749 2.390000e-15 93.5
7 TraesCS2D01G348700 chr2B 90.825 970 54 14 677 1615 526525141 526524176 0.000000e+00 1266.0
8 TraesCS2D01G348700 chr2B 91.824 477 32 3 900 1372 526397658 526397185 0.000000e+00 658.0
9 TraesCS2D01G348700 chr2B 92.818 362 18 3 1 358 526592845 526592488 3.330000e-143 518.0
10 TraesCS2D01G348700 chr2B 87.500 320 36 4 353 670 526583744 526583427 1.280000e-97 366.0
11 TraesCS2D01G348700 chr2B 89.444 180 12 4 1371 1545 526396994 526396817 1.050000e-53 220.0
12 TraesCS2D01G348700 chr2B 96.241 133 5 0 2132 2264 423811663 423811795 3.790000e-53 219.0
13 TraesCS2D01G348700 chr2B 92.647 136 8 2 1648 1782 526524176 526524042 6.380000e-46 195.0
14 TraesCS2D01G348700 chr7A 95.522 134 6 0 2131 2264 595810035 595809902 4.900000e-52 215.0
15 TraesCS2D01G348700 chr7A 94.776 134 7 0 2131 2264 650873864 650873997 2.280000e-50 209.0
16 TraesCS2D01G348700 chr3D 95.556 135 5 1 2131 2264 358635475 358635341 4.900000e-52 215.0
17 TraesCS2D01G348700 chr3D 80.263 152 27 2 142 291 593077708 593077858 6.610000e-21 111.0
18 TraesCS2D01G348700 chr7D 94.776 134 7 0 2131 2264 438691649 438691782 2.280000e-50 209.0
19 TraesCS2D01G348700 chr7D 85.882 170 23 1 1597 1766 5318787 5318955 1.790000e-41 180.0
20 TraesCS2D01G348700 chr6A 94.776 134 7 0 2131 2264 2224505 2224372 2.280000e-50 209.0
21 TraesCS2D01G348700 chr6A 85.465 172 22 2 1597 1766 617556547 617556717 2.310000e-40 176.0
22 TraesCS2D01G348700 chr5D 94.776 134 7 0 2131 2264 433923939 433923806 2.280000e-50 209.0
23 TraesCS2D01G348700 chr1D 94.118 136 8 0 2129 2264 471792147 471792282 8.200000e-50 207.0
24 TraesCS2D01G348700 chr1A 85.227 176 22 3 1596 1769 2826171 2825998 6.430000e-41 178.0
25 TraesCS2D01G348700 chr4B 85.207 169 23 2 1600 1767 601746207 601746040 2.990000e-39 172.0
26 TraesCS2D01G348700 chr6D 83.243 185 28 3 1597 1779 337847119 337847302 1.390000e-37 167.0
27 TraesCS2D01G348700 chr5A 78.417 278 43 15 41 307 395288150 395287879 5.000000e-37 165.0
28 TraesCS2D01G348700 chr5A 75.648 193 33 10 463 653 290689005 290689185 1.440000e-12 84.2
29 TraesCS2D01G348700 chr4D 80.172 232 37 8 60 285 415286345 415286573 5.000000e-37 165.0
30 TraesCS2D01G348700 chr4D 83.240 179 28 2 1597 1775 8152455 8152631 1.800000e-36 163.0
31 TraesCS2D01G348700 chr6B 82.386 176 23 8 121 293 497878497 497878667 1.810000e-31 147.0


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 TraesCS2D01G348700 chr2D 446639621 446641884 2263 True 4181.00 4181 100.000 1 2264 1 chr2D.!!$R2 2263
1 TraesCS2D01G348700 chr2A 590725022 590727127 2105 True 2926.00 2926 91.985 1 2083 1 chr2A.!!$R3 2082
2 TraesCS2D01G348700 chr2A 590719179 590720303 1124 True 1587.00 1587 92.478 697 1800 1 chr2A.!!$R2 1103
3 TraesCS2D01G348700 chr2A 590689749 590690741 992 True 506.75 920 84.699 699 1519 2 chr2A.!!$R4 820
4 TraesCS2D01G348700 chr2B 526524042 526525141 1099 True 730.50 1266 91.736 677 1782 2 chr2B.!!$R4 1105
5 TraesCS2D01G348700 chr2B 526396817 526397658 841 True 439.00 658 90.634 900 1545 2 chr2B.!!$R3 645

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
984 997 0.325602 CCTTAACCAGTTACCCGGCA 59.674 55.0 0.0 0.0 0.0 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2205 2424 0.167689 GTCCGACTCCGACACTACAC 59.832 60.0 0.0 0.0 38.22 2.9 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
65 67 8.510243 TTAGCACATTCAGATAATGTTGATGT 57.490 30.769 0.74 0.00 38.69 3.06
166 168 6.076981 AGCACAAGTTGGACTTTAGATTTG 57.923 37.500 7.96 0.00 36.03 2.32
181 183 1.886542 GATTTGGCCCATTATCGGACC 59.113 52.381 0.00 0.00 0.00 4.46
182 184 0.464735 TTTGGCCCATTATCGGACCG 60.465 55.000 7.84 7.84 0.00 4.79
212 214 5.786401 ATTTGTCAGTTGTATTCTCGAGC 57.214 39.130 7.81 0.00 0.00 5.03
333 335 0.530431 TGACATCCGGTGCATCGATG 60.530 55.000 23.56 22.60 0.00 3.84
335 337 1.227645 CATCCGGTGCATCGATGGT 60.228 57.895 23.56 0.00 0.00 3.55
358 360 1.553704 CACAAGGGTGGGGTACTAGAC 59.446 57.143 0.00 0.00 41.45 2.59
373 375 4.650754 ACTAGACACATTCCCACGATAC 57.349 45.455 0.00 0.00 0.00 2.24
406 408 1.951130 CGGTTCATCGGCTGATCGG 60.951 63.158 4.63 0.00 32.72 4.18
453 455 9.196552 CTCCTTTGCTTTACAGGAATTTTAAAG 57.803 33.333 0.00 0.00 36.23 1.85
456 458 7.604657 TTGCTTTACAGGAATTTTAAAGGGA 57.395 32.000 0.00 0.00 34.64 4.20
500 502 3.650942 TGGAGCCCTTTGGTACATATAGG 59.349 47.826 0.00 0.00 39.30 2.57
546 549 7.056635 AGGATAAGAACCAATCGATCACATTT 58.943 34.615 0.00 0.00 30.84 2.32
554 557 6.980593 ACCAATCGATCACATTTCAAAAGAA 58.019 32.000 0.00 0.00 0.00 2.52
593 596 9.597681 AATTCAATGAAAAGATCCCTATGCTAT 57.402 29.630 0.00 0.00 0.00 2.97
594 597 7.991084 TCAATGAAAAGATCCCTATGCTATG 57.009 36.000 0.00 0.00 0.00 2.23
617 620 3.848272 TCGAATTGCATGTCTTTTCCC 57.152 42.857 0.00 0.00 0.00 3.97
618 621 3.153130 TCGAATTGCATGTCTTTTCCCA 58.847 40.909 0.00 0.00 0.00 4.37
621 624 5.417266 TCGAATTGCATGTCTTTTCCCATAA 59.583 36.000 0.00 0.00 0.00 1.90
653 656 8.423906 AGATACGTATCATTTCACCTCCTATT 57.576 34.615 31.52 7.51 35.17 1.73
664 667 6.884472 TTCACCTCCTATTCTATGAACCAA 57.116 37.500 0.00 0.00 0.00 3.67
665 668 6.884472 TCACCTCCTATTCTATGAACCAAA 57.116 37.500 0.00 0.00 0.00 3.28
666 669 7.265599 TCACCTCCTATTCTATGAACCAAAA 57.734 36.000 0.00 0.00 0.00 2.44
667 670 7.695055 TCACCTCCTATTCTATGAACCAAAAA 58.305 34.615 0.00 0.00 0.00 1.94
871 879 0.694771 ATCACGCCTGCCCATCATAT 59.305 50.000 0.00 0.00 0.00 1.78
913 921 5.347620 ACTCGCTTATATAAACCACCACA 57.652 39.130 0.00 0.00 0.00 4.17
948 960 3.330701 TCCTCCACCTCAAAATAGCTGTT 59.669 43.478 0.00 0.00 0.00 3.16
984 997 0.325602 CCTTAACCAGTTACCCGGCA 59.674 55.000 0.00 0.00 0.00 5.69
989 1002 0.536460 ACCAGTTACCCGGCAACTTG 60.536 55.000 14.98 14.17 33.99 3.16
1434 1648 4.487714 TGTCGAGAAGGAAATAAGCCAT 57.512 40.909 0.00 0.00 0.00 4.40
1801 2020 2.602257 TGAGAGAGAGAGAGAGAGCG 57.398 55.000 0.00 0.00 0.00 5.03
1803 2022 0.541392 AGAGAGAGAGAGAGAGCGCA 59.459 55.000 11.47 0.00 0.00 6.09
1897 2116 3.614399 CCATGAGGGTCCGATAAGC 57.386 57.895 0.00 0.00 0.00 3.09
1907 2126 1.139058 GTCCGATAAGCACCTCACCAT 59.861 52.381 0.00 0.00 0.00 3.55
1923 2142 3.727391 TCACCATATCTGAGAGGTAGGGA 59.273 47.826 1.66 0.00 32.01 4.20
1924 2143 4.170053 TCACCATATCTGAGAGGTAGGGAA 59.830 45.833 1.66 0.00 32.01 3.97
1960 2179 3.587923 GAGAGAGATCATGTGCTATGGC 58.412 50.000 0.00 0.00 39.26 4.40
1997 2216 2.841442 AAGACGGTTGGAGGAAGAAG 57.159 50.000 0.00 0.00 0.00 2.85
2074 2293 5.676532 TTTATCGCCGAAACTGAAAAGAA 57.323 34.783 0.00 0.00 0.00 2.52
2079 2298 4.274950 TCGCCGAAACTGAAAAGAAAATCT 59.725 37.500 0.00 0.00 0.00 2.40
2083 2302 6.255670 GCCGAAACTGAAAAGAAAATCTGTTT 59.744 34.615 9.52 9.52 44.85 2.83
2084 2303 7.201522 GCCGAAACTGAAAAGAAAATCTGTTTT 60.202 33.333 10.63 0.00 43.34 2.43
2085 2304 8.655970 CCGAAACTGAAAAGAAAATCTGTTTTT 58.344 29.630 10.63 0.00 43.34 1.94
2107 2326 7.765695 TTTTAGCATGGAAAAGAAGATCAGT 57.234 32.000 0.00 0.00 0.00 3.41
2108 2327 7.765695 TTTAGCATGGAAAAGAAGATCAGTT 57.234 32.000 0.00 0.00 0.00 3.16
2109 2328 8.862325 TTTAGCATGGAAAAGAAGATCAGTTA 57.138 30.769 0.00 0.00 0.00 2.24
2110 2329 6.749923 AGCATGGAAAAGAAGATCAGTTAC 57.250 37.500 0.00 0.00 0.00 2.50
2111 2330 5.649831 AGCATGGAAAAGAAGATCAGTTACC 59.350 40.000 0.00 0.00 0.00 2.85
2112 2331 5.649831 GCATGGAAAAGAAGATCAGTTACCT 59.350 40.000 0.00 0.00 0.00 3.08
2113 2332 6.183360 GCATGGAAAAGAAGATCAGTTACCTC 60.183 42.308 0.00 0.00 0.00 3.85
2114 2333 6.688073 TGGAAAAGAAGATCAGTTACCTCT 57.312 37.500 0.00 0.00 0.00 3.69
2115 2334 6.702329 TGGAAAAGAAGATCAGTTACCTCTC 58.298 40.000 0.00 0.00 0.00 3.20
2116 2335 6.270000 TGGAAAAGAAGATCAGTTACCTCTCA 59.730 38.462 0.00 0.00 0.00 3.27
2117 2336 7.162082 GGAAAAGAAGATCAGTTACCTCTCAA 58.838 38.462 0.00 0.00 0.00 3.02
2118 2337 7.661847 GGAAAAGAAGATCAGTTACCTCTCAAA 59.338 37.037 0.00 0.00 0.00 2.69
2119 2338 8.980481 AAAAGAAGATCAGTTACCTCTCAAAA 57.020 30.769 0.00 0.00 0.00 2.44
2120 2339 8.614469 AAAGAAGATCAGTTACCTCTCAAAAG 57.386 34.615 0.00 0.00 0.00 2.27
2121 2340 6.706295 AGAAGATCAGTTACCTCTCAAAAGG 58.294 40.000 0.00 0.00 42.55 3.11
2122 2341 6.498651 AGAAGATCAGTTACCTCTCAAAAGGA 59.501 38.462 0.00 0.00 38.87 3.36
2123 2342 6.882768 AGATCAGTTACCTCTCAAAAGGAT 57.117 37.500 0.00 0.00 38.87 3.24
2124 2343 7.264294 AGATCAGTTACCTCTCAAAAGGATT 57.736 36.000 0.00 0.00 38.87 3.01
2125 2344 7.108847 AGATCAGTTACCTCTCAAAAGGATTG 58.891 38.462 0.00 0.00 38.87 2.67
2126 2345 6.433847 TCAGTTACCTCTCAAAAGGATTGA 57.566 37.500 0.00 0.00 38.87 2.57
2127 2346 7.020827 TCAGTTACCTCTCAAAAGGATTGAT 57.979 36.000 0.00 0.00 38.87 2.57
2128 2347 7.461749 TCAGTTACCTCTCAAAAGGATTGATT 58.538 34.615 0.00 0.00 38.87 2.57
2129 2348 8.602424 TCAGTTACCTCTCAAAAGGATTGATTA 58.398 33.333 0.00 0.00 38.87 1.75
2130 2349 9.401058 CAGTTACCTCTCAAAAGGATTGATTAT 57.599 33.333 0.00 0.00 38.87 1.28
2131 2350 9.981460 AGTTACCTCTCAAAAGGATTGATTATT 57.019 29.630 0.00 0.00 38.87 1.40
2133 2352 9.753674 TTACCTCTCAAAAGGATTGATTATTGT 57.246 29.630 0.00 0.00 38.87 2.71
2134 2353 8.655935 ACCTCTCAAAAGGATTGATTATTGTT 57.344 30.769 0.00 0.00 38.87 2.83
2135 2354 8.526147 ACCTCTCAAAAGGATTGATTATTGTTG 58.474 33.333 0.00 0.00 38.87 3.33
2136 2355 8.526147 CCTCTCAAAAGGATTGATTATTGTTGT 58.474 33.333 0.00 0.00 38.87 3.32
2137 2356 9.350357 CTCTCAAAAGGATTGATTATTGTTGTG 57.650 33.333 0.00 0.00 0.00 3.33
2138 2357 8.859090 TCTCAAAAGGATTGATTATTGTTGTGT 58.141 29.630 0.00 0.00 0.00 3.72
2139 2358 9.480053 CTCAAAAGGATTGATTATTGTTGTGTT 57.520 29.630 0.00 0.00 0.00 3.32
2140 2359 9.829507 TCAAAAGGATTGATTATTGTTGTGTTT 57.170 25.926 0.00 0.00 0.00 2.83
2141 2360 9.866936 CAAAAGGATTGATTATTGTTGTGTTTG 57.133 29.630 0.00 0.00 0.00 2.93
2142 2361 9.612066 AAAAGGATTGATTATTGTTGTGTTTGT 57.388 25.926 0.00 0.00 0.00 2.83
2143 2362 8.592105 AAGGATTGATTATTGTTGTGTTTGTG 57.408 30.769 0.00 0.00 0.00 3.33
2144 2363 7.725251 AGGATTGATTATTGTTGTGTTTGTGT 58.275 30.769 0.00 0.00 0.00 3.72
2145 2364 7.867403 AGGATTGATTATTGTTGTGTTTGTGTC 59.133 33.333 0.00 0.00 0.00 3.67
2146 2365 7.148983 GGATTGATTATTGTTGTGTTTGTGTCG 60.149 37.037 0.00 0.00 0.00 4.35
2147 2366 6.364945 TGATTATTGTTGTGTTTGTGTCGA 57.635 33.333 0.00 0.00 0.00 4.20
2148 2367 6.786207 TGATTATTGTTGTGTTTGTGTCGAA 58.214 32.000 0.00 0.00 0.00 3.71
2149 2368 7.421599 TGATTATTGTTGTGTTTGTGTCGAAT 58.578 30.769 0.00 0.00 0.00 3.34
2150 2369 8.560374 TGATTATTGTTGTGTTTGTGTCGAATA 58.440 29.630 0.00 0.00 0.00 1.75
2151 2370 8.722342 ATTATTGTTGTGTTTGTGTCGAATAC 57.278 30.769 0.00 0.00 0.00 1.89
2152 2371 5.547181 TTGTTGTGTTTGTGTCGAATACA 57.453 34.783 0.01 0.01 35.06 2.29
2153 2372 5.150342 TGTTGTGTTTGTGTCGAATACAG 57.850 39.130 4.26 0.00 39.29 2.74
2154 2373 4.632251 TGTTGTGTTTGTGTCGAATACAGT 59.368 37.500 4.26 0.00 39.29 3.55
2155 2374 4.787381 TGTGTTTGTGTCGAATACAGTG 57.213 40.909 4.26 0.00 39.29 3.66
2156 2375 4.185394 TGTGTTTGTGTCGAATACAGTGT 58.815 39.130 0.00 0.00 39.29 3.55
2157 2376 5.349809 TGTGTTTGTGTCGAATACAGTGTA 58.650 37.500 5.24 5.24 39.29 2.90
2158 2377 5.232626 TGTGTTTGTGTCGAATACAGTGTAC 59.767 40.000 4.80 0.00 39.29 2.90
2159 2378 5.232626 GTGTTTGTGTCGAATACAGTGTACA 59.767 40.000 4.80 0.00 39.29 2.90
2160 2379 5.811100 TGTTTGTGTCGAATACAGTGTACAA 59.189 36.000 4.80 3.25 39.29 2.41
2161 2380 6.019398 TGTTTGTGTCGAATACAGTGTACAAG 60.019 38.462 4.80 0.00 39.29 3.16
2162 2381 5.190992 TGTGTCGAATACAGTGTACAAGT 57.809 39.130 4.80 1.92 39.29 3.16
2163 2382 5.593968 TGTGTCGAATACAGTGTACAAGTT 58.406 37.500 4.80 0.00 39.29 2.66
2164 2383 5.460748 TGTGTCGAATACAGTGTACAAGTTG 59.539 40.000 4.80 0.00 39.29 3.16
2165 2384 4.986034 TGTCGAATACAGTGTACAAGTTGG 59.014 41.667 4.80 0.00 33.01 3.77
2166 2385 4.387862 GTCGAATACAGTGTACAAGTTGGG 59.612 45.833 4.80 0.00 0.00 4.12
2167 2386 4.039488 TCGAATACAGTGTACAAGTTGGGT 59.961 41.667 4.80 0.00 0.00 4.51
2168 2387 4.753107 CGAATACAGTGTACAAGTTGGGTT 59.247 41.667 4.80 0.00 0.00 4.11
2169 2388 5.927689 CGAATACAGTGTACAAGTTGGGTTA 59.072 40.000 4.80 0.00 0.00 2.85
2170 2389 6.128742 CGAATACAGTGTACAAGTTGGGTTAC 60.129 42.308 4.80 1.68 0.00 2.50
2171 2390 3.460103 ACAGTGTACAAGTTGGGTTACG 58.540 45.455 7.96 0.00 0.00 3.18
2172 2391 3.118665 ACAGTGTACAAGTTGGGTTACGT 60.119 43.478 7.96 0.00 0.00 3.57
2173 2392 3.872771 CAGTGTACAAGTTGGGTTACGTT 59.127 43.478 7.96 0.00 0.00 3.99
2174 2393 4.333372 CAGTGTACAAGTTGGGTTACGTTT 59.667 41.667 7.96 0.00 0.00 3.60
2175 2394 4.333372 AGTGTACAAGTTGGGTTACGTTTG 59.667 41.667 7.96 0.00 0.00 2.93
2176 2395 3.626670 TGTACAAGTTGGGTTACGTTTGG 59.373 43.478 7.96 0.00 0.00 3.28
2177 2396 3.002038 ACAAGTTGGGTTACGTTTGGA 57.998 42.857 7.96 0.00 0.00 3.53
2178 2397 2.684374 ACAAGTTGGGTTACGTTTGGAC 59.316 45.455 7.96 0.00 0.00 4.02
2179 2398 2.946990 CAAGTTGGGTTACGTTTGGACT 59.053 45.455 0.00 0.00 0.00 3.85
2180 2399 3.286329 AGTTGGGTTACGTTTGGACTT 57.714 42.857 0.00 0.00 0.00 3.01
2181 2400 2.946990 AGTTGGGTTACGTTTGGACTTG 59.053 45.455 0.00 0.00 0.00 3.16
2182 2401 1.970092 TGGGTTACGTTTGGACTTGG 58.030 50.000 0.00 0.00 0.00 3.61
2183 2402 1.212441 TGGGTTACGTTTGGACTTGGT 59.788 47.619 0.00 0.00 0.00 3.67
2184 2403 1.605232 GGGTTACGTTTGGACTTGGTG 59.395 52.381 0.00 0.00 0.00 4.17
2185 2404 2.291365 GGTTACGTTTGGACTTGGTGT 58.709 47.619 0.00 0.00 0.00 4.16
2186 2405 2.684374 GGTTACGTTTGGACTTGGTGTT 59.316 45.455 0.00 0.00 0.00 3.32
2187 2406 3.487879 GGTTACGTTTGGACTTGGTGTTG 60.488 47.826 0.00 0.00 0.00 3.33
2188 2407 1.828979 ACGTTTGGACTTGGTGTTGT 58.171 45.000 0.00 0.00 0.00 3.32
2189 2408 2.988570 ACGTTTGGACTTGGTGTTGTA 58.011 42.857 0.00 0.00 0.00 2.41
2190 2409 2.940410 ACGTTTGGACTTGGTGTTGTAG 59.060 45.455 0.00 0.00 0.00 2.74
2191 2410 2.940410 CGTTTGGACTTGGTGTTGTAGT 59.060 45.455 0.00 0.00 0.00 2.73
2192 2411 3.242608 CGTTTGGACTTGGTGTTGTAGTG 60.243 47.826 0.00 0.00 0.00 2.74
2193 2412 3.637911 TTGGACTTGGTGTTGTAGTGT 57.362 42.857 0.00 0.00 0.00 3.55
2194 2413 2.912771 TGGACTTGGTGTTGTAGTGTG 58.087 47.619 0.00 0.00 0.00 3.82
2195 2414 2.218603 GGACTTGGTGTTGTAGTGTGG 58.781 52.381 0.00 0.00 0.00 4.17
2196 2415 2.158871 GGACTTGGTGTTGTAGTGTGGA 60.159 50.000 0.00 0.00 0.00 4.02
2197 2416 3.496160 GGACTTGGTGTTGTAGTGTGGAT 60.496 47.826 0.00 0.00 0.00 3.41
2198 2417 4.262721 GGACTTGGTGTTGTAGTGTGGATA 60.263 45.833 0.00 0.00 0.00 2.59
2199 2418 4.894784 ACTTGGTGTTGTAGTGTGGATAG 58.105 43.478 0.00 0.00 0.00 2.08
2200 2419 3.973206 TGGTGTTGTAGTGTGGATAGG 57.027 47.619 0.00 0.00 0.00 2.57
2201 2420 3.512496 TGGTGTTGTAGTGTGGATAGGA 58.488 45.455 0.00 0.00 0.00 2.94
2202 2421 4.101114 TGGTGTTGTAGTGTGGATAGGAT 58.899 43.478 0.00 0.00 0.00 3.24
2203 2422 5.274015 TGGTGTTGTAGTGTGGATAGGATA 58.726 41.667 0.00 0.00 0.00 2.59
2204 2423 5.128171 TGGTGTTGTAGTGTGGATAGGATAC 59.872 44.000 0.00 0.00 0.00 2.24
2205 2424 5.279384 GTGTTGTAGTGTGGATAGGATACG 58.721 45.833 0.00 0.00 46.39 3.06
2206 2425 4.951715 TGTTGTAGTGTGGATAGGATACGT 59.048 41.667 0.00 0.00 46.39 3.57
2207 2426 5.163591 TGTTGTAGTGTGGATAGGATACGTG 60.164 44.000 0.00 0.00 46.39 4.49
2208 2427 4.529897 TGTAGTGTGGATAGGATACGTGT 58.470 43.478 0.00 0.00 46.39 4.49
2209 2428 5.683681 TGTAGTGTGGATAGGATACGTGTA 58.316 41.667 0.00 0.00 46.39 2.90
2210 2429 5.761726 TGTAGTGTGGATAGGATACGTGTAG 59.238 44.000 0.00 0.00 46.39 2.74
2211 2430 4.789807 AGTGTGGATAGGATACGTGTAGT 58.210 43.478 0.00 0.00 46.39 2.73
2212 2431 4.579340 AGTGTGGATAGGATACGTGTAGTG 59.421 45.833 0.00 0.00 46.39 2.74
2213 2432 4.337555 GTGTGGATAGGATACGTGTAGTGT 59.662 45.833 0.00 0.00 46.39 3.55
2214 2433 4.577693 TGTGGATAGGATACGTGTAGTGTC 59.422 45.833 0.00 0.00 46.39 3.67
2215 2434 3.811497 TGGATAGGATACGTGTAGTGTCG 59.189 47.826 0.00 0.00 41.26 4.35
2216 2435 3.188048 GGATAGGATACGTGTAGTGTCGG 59.812 52.174 0.00 0.00 41.26 4.79
2217 2436 2.408271 AGGATACGTGTAGTGTCGGA 57.592 50.000 0.00 0.00 41.26 4.55
2218 2437 2.286872 AGGATACGTGTAGTGTCGGAG 58.713 52.381 0.00 0.00 41.26 4.63
2219 2438 2.012673 GGATACGTGTAGTGTCGGAGT 58.987 52.381 0.00 0.00 41.26 3.85
2220 2439 2.031437 GGATACGTGTAGTGTCGGAGTC 59.969 54.545 0.00 0.00 41.26 3.36
2221 2440 1.070821 TACGTGTAGTGTCGGAGTCG 58.929 55.000 0.00 0.00 37.82 4.18
2222 2441 1.134075 CGTGTAGTGTCGGAGTCGG 59.866 63.158 0.00 0.00 36.95 4.79
2223 2442 1.293963 CGTGTAGTGTCGGAGTCGGA 61.294 60.000 0.00 0.00 36.95 4.55
2224 2443 0.167689 GTGTAGTGTCGGAGTCGGAC 59.832 60.000 20.71 20.71 36.95 4.79
2225 2444 0.250424 TGTAGTGTCGGAGTCGGACA 60.250 55.000 24.90 24.90 36.95 4.02
2226 2445 0.167689 GTAGTGTCGGAGTCGGACAC 59.832 60.000 37.65 37.65 42.24 3.67
2227 2446 1.293963 TAGTGTCGGAGTCGGACACG 61.294 60.000 37.49 16.21 44.26 4.49
2228 2447 2.592574 TGTCGGAGTCGGACACGT 60.593 61.111 24.90 0.00 41.85 4.49
2229 2448 2.188829 TGTCGGAGTCGGACACGTT 61.189 57.895 24.90 0.00 41.85 3.99
2230 2449 0.884259 TGTCGGAGTCGGACACGTTA 60.884 55.000 24.90 6.58 41.85 3.18
2231 2450 0.449388 GTCGGAGTCGGACACGTTAT 59.551 55.000 22.11 0.00 41.85 1.89
2232 2451 1.665679 GTCGGAGTCGGACACGTTATA 59.334 52.381 22.11 3.64 41.85 0.98
2233 2452 1.665679 TCGGAGTCGGACACGTTATAC 59.334 52.381 19.60 0.00 41.85 1.47
2234 2453 1.268234 CGGAGTCGGACACGTTATACC 60.268 57.143 11.27 0.40 41.85 2.73
2235 2454 1.066152 GGAGTCGGACACGTTATACCC 59.934 57.143 11.27 0.00 41.85 3.69
2236 2455 2.019984 GAGTCGGACACGTTATACCCT 58.980 52.381 11.27 0.00 41.85 4.34
2237 2456 2.424956 GAGTCGGACACGTTATACCCTT 59.575 50.000 11.27 0.00 41.85 3.95
2238 2457 2.165030 AGTCGGACACGTTATACCCTTG 59.835 50.000 11.27 0.00 41.85 3.61
2239 2458 1.477700 TCGGACACGTTATACCCTTGG 59.522 52.381 0.00 0.00 41.85 3.61
2240 2459 1.660167 GGACACGTTATACCCTTGGC 58.340 55.000 0.00 0.00 0.00 4.52
2241 2460 1.660167 GACACGTTATACCCTTGGCC 58.340 55.000 0.00 0.00 0.00 5.36
2242 2461 1.208776 GACACGTTATACCCTTGGCCT 59.791 52.381 3.32 0.00 0.00 5.19
2243 2462 1.208776 ACACGTTATACCCTTGGCCTC 59.791 52.381 3.32 0.00 0.00 4.70
2244 2463 1.485066 CACGTTATACCCTTGGCCTCT 59.515 52.381 3.32 0.00 0.00 3.69
2245 2464 2.093128 CACGTTATACCCTTGGCCTCTT 60.093 50.000 3.32 0.00 0.00 2.85
2246 2465 3.133362 CACGTTATACCCTTGGCCTCTTA 59.867 47.826 3.32 0.00 0.00 2.10
2247 2466 3.971971 ACGTTATACCCTTGGCCTCTTAT 59.028 43.478 3.32 0.00 0.00 1.73
2248 2467 5.011329 CACGTTATACCCTTGGCCTCTTATA 59.989 44.000 3.32 0.00 0.00 0.98
2249 2468 5.783875 ACGTTATACCCTTGGCCTCTTATAT 59.216 40.000 3.32 0.00 0.00 0.86
2250 2469 6.955851 ACGTTATACCCTTGGCCTCTTATATA 59.044 38.462 3.32 0.00 0.00 0.86
2251 2470 7.622479 ACGTTATACCCTTGGCCTCTTATATAT 59.378 37.037 3.32 0.00 0.00 0.86
2252 2471 7.926555 CGTTATACCCTTGGCCTCTTATATATG 59.073 40.741 3.32 0.00 0.00 1.78
2253 2472 8.989131 GTTATACCCTTGGCCTCTTATATATGA 58.011 37.037 3.32 0.00 0.00 2.15
2254 2473 7.682787 ATACCCTTGGCCTCTTATATATGAG 57.317 40.000 15.54 15.54 0.00 2.90
2263 2482 5.606348 CTCTTATATATGAGGAGGCACCC 57.394 47.826 14.93 0.00 40.05 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
181 183 8.017373 AGAATACAACTGACAAATTTGACATCG 58.983 33.333 24.64 14.99 32.85 3.84
182 184 9.334693 GAGAATACAACTGACAAATTTGACATC 57.665 33.333 24.64 15.35 32.85 3.06
333 335 1.211212 GTACCCCACCCTTGTGATACC 59.789 57.143 0.00 0.00 45.76 2.73
335 337 2.653543 AGTACCCCACCCTTGTGATA 57.346 50.000 0.00 0.00 45.76 2.15
358 360 0.462375 TCGGGTATCGTGGGAATGTG 59.538 55.000 0.00 0.00 40.32 3.21
406 408 0.379669 TCTAAGCTACTGCGGCGTAC 59.620 55.000 9.37 0.00 45.42 3.67
412 414 1.394618 AGGAGGTCTAAGCTACTGCG 58.605 55.000 0.00 0.00 45.42 5.18
476 478 2.990740 ATGTACCAAAGGGCTCCAAA 57.009 45.000 0.00 0.00 37.90 3.28
479 481 3.908103 TCCTATATGTACCAAAGGGCTCC 59.092 47.826 0.00 0.00 37.90 4.70
481 483 5.222130 CCATTCCTATATGTACCAAAGGGCT 60.222 44.000 0.00 0.00 37.90 5.19
514 517 7.228314 TCGATTGGTTCTTATCCTACATAGG 57.772 40.000 0.00 0.00 45.02 2.57
562 565 7.666063 AGGGATCTTTTCATTGAATTTAGGG 57.334 36.000 0.00 0.00 0.00 3.53
567 570 7.909485 AGCATAGGGATCTTTTCATTGAATT 57.091 32.000 0.00 0.00 0.00 2.17
571 574 6.208007 TGCATAGCATAGGGATCTTTTCATTG 59.792 38.462 0.00 0.00 31.71 2.82
594 597 3.549070 GGAAAAGACATGCAATTCGATGC 59.451 43.478 4.01 4.01 46.58 3.91
599 602 7.903995 TTTTATGGGAAAAGACATGCAATTC 57.096 32.000 0.00 0.00 0.00 2.17
643 646 7.938140 TTTTTGGTTCATAGAATAGGAGGTG 57.062 36.000 0.00 0.00 30.70 4.00
689 692 1.564348 ACCGGGCCATCTAAAATGTCT 59.436 47.619 6.32 0.00 0.00 3.41
690 693 1.947456 GACCGGGCCATCTAAAATGTC 59.053 52.381 6.32 0.00 0.00 3.06
692 695 1.949525 CTGACCGGGCCATCTAAAATG 59.050 52.381 3.83 0.00 0.00 2.32
693 696 1.750682 GCTGACCGGGCCATCTAAAAT 60.751 52.381 3.83 0.00 0.00 1.82
694 697 0.393808 GCTGACCGGGCCATCTAAAA 60.394 55.000 3.83 0.00 0.00 1.52
737 740 1.745115 CACGGCCAACGGTGATGAT 60.745 57.895 0.00 0.00 46.92 2.45
761 764 0.534873 TATAGGCACAACTGCAGCGA 59.465 50.000 15.27 0.00 46.28 4.93
871 879 5.120208 CGAGTTCGATAGCAGAAAAGGAAAA 59.880 40.000 0.00 0.00 43.02 2.29
913 921 3.069778 GAGGAAGTTCCGCCTGGT 58.930 61.111 16.31 0.00 42.75 4.00
948 960 1.148273 GGTCCTGCTGTTGTGTGGA 59.852 57.895 0.00 0.00 0.00 4.02
984 997 1.610522 GCCATCTGTGCTTGACAAGTT 59.389 47.619 16.39 0.00 32.80 2.66
989 1002 1.668047 GCTTTGCCATCTGTGCTTGAC 60.668 52.381 0.00 0.00 0.00 3.18
1583 1802 4.394920 TGGAGCCGACTACATTCATTTTTC 59.605 41.667 0.00 0.00 29.04 2.29
1815 2034 2.188994 GCCGCTCTCATCTTGGCT 59.811 61.111 0.00 0.00 42.44 4.75
1822 2041 3.933722 CATCCGGGCCGCTCTCAT 61.934 66.667 23.20 3.47 0.00 2.90
1889 2108 3.259374 AGATATGGTGAGGTGCTTATCGG 59.741 47.826 0.00 0.00 0.00 4.18
1890 2109 4.021981 TCAGATATGGTGAGGTGCTTATCG 60.022 45.833 0.00 0.00 0.00 2.92
1924 2143 0.252197 CTCTCCCCGGTCCGATTTTT 59.748 55.000 14.39 0.00 0.00 1.94
1960 2179 5.258622 CGTCTTATTTTCTGGCTTGATTCG 58.741 41.667 0.00 0.00 0.00 3.34
2019 2238 1.750193 TGAGCCATTGGATCGGAAAC 58.250 50.000 15.77 0.00 41.58 2.78
2023 2242 0.383231 GCTTTGAGCCATTGGATCGG 59.617 55.000 15.77 9.61 41.58 4.18
2054 2273 5.676532 TTTTCTTTTCAGTTTCGGCGATA 57.323 34.783 11.76 2.15 0.00 2.92
2083 2302 7.765695 ACTGATCTTCTTTTCCATGCTAAAA 57.234 32.000 0.00 4.68 0.00 1.52
2084 2303 7.765695 AACTGATCTTCTTTTCCATGCTAAA 57.234 32.000 0.00 0.00 0.00 1.85
2085 2304 7.336931 GGTAACTGATCTTCTTTTCCATGCTAA 59.663 37.037 0.00 0.00 0.00 3.09
2086 2305 6.823689 GGTAACTGATCTTCTTTTCCATGCTA 59.176 38.462 0.00 0.00 0.00 3.49
2087 2306 5.649831 GGTAACTGATCTTCTTTTCCATGCT 59.350 40.000 0.00 0.00 0.00 3.79
2088 2307 5.884771 GGTAACTGATCTTCTTTTCCATGC 58.115 41.667 0.00 0.00 0.00 4.06
2107 2326 9.753674 ACAATAATCAATCCTTTTGAGAGGTAA 57.246 29.630 0.00 0.00 38.04 2.85
2108 2327 9.753674 AACAATAATCAATCCTTTTGAGAGGTA 57.246 29.630 0.00 0.00 38.04 3.08
2109 2328 8.526147 CAACAATAATCAATCCTTTTGAGAGGT 58.474 33.333 0.00 0.00 38.04 3.85
2110 2329 8.526147 ACAACAATAATCAATCCTTTTGAGAGG 58.474 33.333 0.00 0.00 38.20 3.69
2111 2330 9.350357 CACAACAATAATCAATCCTTTTGAGAG 57.650 33.333 0.00 0.00 0.00 3.20
2112 2331 8.859090 ACACAACAATAATCAATCCTTTTGAGA 58.141 29.630 0.00 0.00 0.00 3.27
2113 2332 9.480053 AACACAACAATAATCAATCCTTTTGAG 57.520 29.630 0.00 0.00 0.00 3.02
2114 2333 9.829507 AAACACAACAATAATCAATCCTTTTGA 57.170 25.926 0.00 0.00 0.00 2.69
2115 2334 9.866936 CAAACACAACAATAATCAATCCTTTTG 57.133 29.630 0.00 0.00 0.00 2.44
2116 2335 9.612066 ACAAACACAACAATAATCAATCCTTTT 57.388 25.926 0.00 0.00 0.00 2.27
2117 2336 9.044150 CACAAACACAACAATAATCAATCCTTT 57.956 29.630 0.00 0.00 0.00 3.11
2118 2337 8.203485 ACACAAACACAACAATAATCAATCCTT 58.797 29.630 0.00 0.00 0.00 3.36
2119 2338 7.725251 ACACAAACACAACAATAATCAATCCT 58.275 30.769 0.00 0.00 0.00 3.24
2120 2339 7.148983 CGACACAAACACAACAATAATCAATCC 60.149 37.037 0.00 0.00 0.00 3.01
2121 2340 7.589587 TCGACACAAACACAACAATAATCAATC 59.410 33.333 0.00 0.00 0.00 2.67
2122 2341 7.421599 TCGACACAAACACAACAATAATCAAT 58.578 30.769 0.00 0.00 0.00 2.57
2123 2342 6.786207 TCGACACAAACACAACAATAATCAA 58.214 32.000 0.00 0.00 0.00 2.57
2124 2343 6.364945 TCGACACAAACACAACAATAATCA 57.635 33.333 0.00 0.00 0.00 2.57
2125 2344 7.851822 ATTCGACACAAACACAACAATAATC 57.148 32.000 0.00 0.00 0.00 1.75
2126 2345 8.346300 TGTATTCGACACAAACACAACAATAAT 58.654 29.630 0.00 0.00 31.20 1.28
2127 2346 7.694886 TGTATTCGACACAAACACAACAATAA 58.305 30.769 0.00 0.00 31.20 1.40
2128 2347 7.011576 ACTGTATTCGACACAAACACAACAATA 59.988 33.333 1.10 0.00 33.31 1.90
2129 2348 6.125327 TGTATTCGACACAAACACAACAAT 57.875 33.333 0.00 0.00 31.20 2.71
2130 2349 5.122554 ACTGTATTCGACACAAACACAACAA 59.877 36.000 1.10 0.00 33.31 2.83
2131 2350 4.632251 ACTGTATTCGACACAAACACAACA 59.368 37.500 1.10 0.00 33.31 3.33
2132 2351 4.961551 CACTGTATTCGACACAAACACAAC 59.038 41.667 1.10 0.00 33.31 3.32
2133 2352 4.632251 ACACTGTATTCGACACAAACACAA 59.368 37.500 1.10 0.00 33.31 3.33
2134 2353 4.185394 ACACTGTATTCGACACAAACACA 58.815 39.130 1.10 0.00 33.31 3.72
2135 2354 4.789095 ACACTGTATTCGACACAAACAC 57.211 40.909 1.10 0.00 33.31 3.32
2136 2355 5.349809 TGTACACTGTATTCGACACAAACA 58.650 37.500 0.00 1.71 33.31 2.83
2137 2356 5.893512 TGTACACTGTATTCGACACAAAC 57.106 39.130 0.00 0.00 33.31 2.93
2138 2357 6.044046 ACTTGTACACTGTATTCGACACAAA 58.956 36.000 0.00 0.00 33.31 2.83
2139 2358 5.593968 ACTTGTACACTGTATTCGACACAA 58.406 37.500 0.00 0.00 33.31 3.33
2140 2359 5.190992 ACTTGTACACTGTATTCGACACA 57.809 39.130 0.00 0.00 33.31 3.72
2141 2360 5.107607 CCAACTTGTACACTGTATTCGACAC 60.108 44.000 0.00 0.00 33.31 3.67
2142 2361 4.986034 CCAACTTGTACACTGTATTCGACA 59.014 41.667 0.00 0.00 36.35 4.35
2143 2362 4.387862 CCCAACTTGTACACTGTATTCGAC 59.612 45.833 0.00 0.00 0.00 4.20
2144 2363 4.039488 ACCCAACTTGTACACTGTATTCGA 59.961 41.667 0.00 0.00 0.00 3.71
2145 2364 4.312443 ACCCAACTTGTACACTGTATTCG 58.688 43.478 0.00 0.00 0.00 3.34
2146 2365 6.128742 CGTAACCCAACTTGTACACTGTATTC 60.129 42.308 0.00 0.00 0.00 1.75
2147 2366 5.697633 CGTAACCCAACTTGTACACTGTATT 59.302 40.000 0.00 0.00 0.00 1.89
2148 2367 5.221501 ACGTAACCCAACTTGTACACTGTAT 60.222 40.000 0.00 0.00 0.00 2.29
2149 2368 4.099266 ACGTAACCCAACTTGTACACTGTA 59.901 41.667 0.00 0.00 0.00 2.74
2150 2369 3.118665 ACGTAACCCAACTTGTACACTGT 60.119 43.478 0.00 0.00 0.00 3.55
2151 2370 3.460103 ACGTAACCCAACTTGTACACTG 58.540 45.455 0.00 0.00 0.00 3.66
2152 2371 3.825143 ACGTAACCCAACTTGTACACT 57.175 42.857 0.00 0.00 0.00 3.55
2153 2372 4.496175 CCAAACGTAACCCAACTTGTACAC 60.496 45.833 0.00 0.00 0.00 2.90
2154 2373 3.626670 CCAAACGTAACCCAACTTGTACA 59.373 43.478 0.00 0.00 0.00 2.90
2155 2374 3.876320 TCCAAACGTAACCCAACTTGTAC 59.124 43.478 0.00 0.00 0.00 2.90
2156 2375 3.876320 GTCCAAACGTAACCCAACTTGTA 59.124 43.478 0.00 0.00 0.00 2.41
2157 2376 2.684374 GTCCAAACGTAACCCAACTTGT 59.316 45.455 0.00 0.00 0.00 3.16
2158 2377 2.946990 AGTCCAAACGTAACCCAACTTG 59.053 45.455 0.00 0.00 0.00 3.16
2159 2378 3.286329 AGTCCAAACGTAACCCAACTT 57.714 42.857 0.00 0.00 0.00 2.66
2160 2379 2.946990 CAAGTCCAAACGTAACCCAACT 59.053 45.455 0.00 0.00 0.00 3.16
2161 2380 2.033675 CCAAGTCCAAACGTAACCCAAC 59.966 50.000 0.00 0.00 0.00 3.77
2162 2381 2.299521 CCAAGTCCAAACGTAACCCAA 58.700 47.619 0.00 0.00 0.00 4.12
2163 2382 1.212441 ACCAAGTCCAAACGTAACCCA 59.788 47.619 0.00 0.00 0.00 4.51
2164 2383 1.605232 CACCAAGTCCAAACGTAACCC 59.395 52.381 0.00 0.00 0.00 4.11
2165 2384 2.291365 ACACCAAGTCCAAACGTAACC 58.709 47.619 0.00 0.00 0.00 2.85
2166 2385 3.127376 ACAACACCAAGTCCAAACGTAAC 59.873 43.478 0.00 0.00 0.00 2.50
2167 2386 3.345414 ACAACACCAAGTCCAAACGTAA 58.655 40.909 0.00 0.00 0.00 3.18
2168 2387 2.988570 ACAACACCAAGTCCAAACGTA 58.011 42.857 0.00 0.00 0.00 3.57
2169 2388 1.828979 ACAACACCAAGTCCAAACGT 58.171 45.000 0.00 0.00 0.00 3.99
2170 2389 2.940410 ACTACAACACCAAGTCCAAACG 59.060 45.455 0.00 0.00 0.00 3.60
2171 2390 3.692593 ACACTACAACACCAAGTCCAAAC 59.307 43.478 0.00 0.00 0.00 2.93
2172 2391 3.692101 CACACTACAACACCAAGTCCAAA 59.308 43.478 0.00 0.00 0.00 3.28
2173 2392 3.275143 CACACTACAACACCAAGTCCAA 58.725 45.455 0.00 0.00 0.00 3.53
2174 2393 2.420827 CCACACTACAACACCAAGTCCA 60.421 50.000 0.00 0.00 0.00 4.02
2175 2394 2.158871 TCCACACTACAACACCAAGTCC 60.159 50.000 0.00 0.00 0.00 3.85
2176 2395 3.188159 TCCACACTACAACACCAAGTC 57.812 47.619 0.00 0.00 0.00 3.01
2177 2396 3.857157 ATCCACACTACAACACCAAGT 57.143 42.857 0.00 0.00 0.00 3.16
2178 2397 4.020573 TCCTATCCACACTACAACACCAAG 60.021 45.833 0.00 0.00 0.00 3.61
2179 2398 3.904965 TCCTATCCACACTACAACACCAA 59.095 43.478 0.00 0.00 0.00 3.67
2180 2399 3.512496 TCCTATCCACACTACAACACCA 58.488 45.455 0.00 0.00 0.00 4.17
2181 2400 4.755266 ATCCTATCCACACTACAACACC 57.245 45.455 0.00 0.00 0.00 4.16
2182 2401 5.163581 ACGTATCCTATCCACACTACAACAC 60.164 44.000 0.00 0.00 0.00 3.32
2183 2402 4.951715 ACGTATCCTATCCACACTACAACA 59.048 41.667 0.00 0.00 0.00 3.33
2184 2403 5.163581 ACACGTATCCTATCCACACTACAAC 60.164 44.000 0.00 0.00 0.00 3.32
2185 2404 4.951715 ACACGTATCCTATCCACACTACAA 59.048 41.667 0.00 0.00 0.00 2.41
2186 2405 4.529897 ACACGTATCCTATCCACACTACA 58.470 43.478 0.00 0.00 0.00 2.74
2187 2406 5.762218 ACTACACGTATCCTATCCACACTAC 59.238 44.000 0.00 0.00 0.00 2.73
2188 2407 5.761726 CACTACACGTATCCTATCCACACTA 59.238 44.000 0.00 0.00 0.00 2.74
2189 2408 4.579340 CACTACACGTATCCTATCCACACT 59.421 45.833 0.00 0.00 0.00 3.55
2190 2409 4.337555 ACACTACACGTATCCTATCCACAC 59.662 45.833 0.00 0.00 0.00 3.82
2191 2410 4.529897 ACACTACACGTATCCTATCCACA 58.470 43.478 0.00 0.00 0.00 4.17
2192 2411 4.319333 CGACACTACACGTATCCTATCCAC 60.319 50.000 0.00 0.00 0.00 4.02
2193 2412 3.811497 CGACACTACACGTATCCTATCCA 59.189 47.826 0.00 0.00 0.00 3.41
2194 2413 3.188048 CCGACACTACACGTATCCTATCC 59.812 52.174 0.00 0.00 0.00 2.59
2195 2414 4.060900 TCCGACACTACACGTATCCTATC 58.939 47.826 0.00 0.00 0.00 2.08
2196 2415 4.063689 CTCCGACACTACACGTATCCTAT 58.936 47.826 0.00 0.00 0.00 2.57
2197 2416 3.118629 ACTCCGACACTACACGTATCCTA 60.119 47.826 0.00 0.00 0.00 2.94
2198 2417 2.286872 CTCCGACACTACACGTATCCT 58.713 52.381 0.00 0.00 0.00 3.24
2199 2418 2.012673 ACTCCGACACTACACGTATCC 58.987 52.381 0.00 0.00 0.00 2.59
2200 2419 2.285486 CGACTCCGACACTACACGTATC 60.285 54.545 0.00 0.00 38.22 2.24
2201 2420 1.662629 CGACTCCGACACTACACGTAT 59.337 52.381 0.00 0.00 38.22 3.06
2202 2421 1.070821 CGACTCCGACACTACACGTA 58.929 55.000 0.00 0.00 38.22 3.57
2203 2422 1.572085 CCGACTCCGACACTACACGT 61.572 60.000 0.00 0.00 38.22 4.49
2204 2423 1.134075 CCGACTCCGACACTACACG 59.866 63.158 0.00 0.00 38.22 4.49
2205 2424 0.167689 GTCCGACTCCGACACTACAC 59.832 60.000 0.00 0.00 38.22 2.90
2206 2425 0.250424 TGTCCGACTCCGACACTACA 60.250 55.000 0.00 0.00 38.22 2.74
2207 2426 0.167689 GTGTCCGACTCCGACACTAC 59.832 60.000 18.21 0.00 40.36 2.73
2208 2427 1.293963 CGTGTCCGACTCCGACACTA 61.294 60.000 21.12 0.00 40.83 2.74
2209 2428 2.614446 CGTGTCCGACTCCGACACT 61.614 63.158 21.12 0.00 40.83 3.55
2210 2429 2.126965 CGTGTCCGACTCCGACAC 60.127 66.667 16.44 16.44 40.25 3.67
2211 2430 0.884259 TAACGTGTCCGACTCCGACA 60.884 55.000 15.15 0.00 38.22 4.35
2212 2431 0.449388 ATAACGTGTCCGACTCCGAC 59.551 55.000 15.15 0.00 38.22 4.79
2213 2432 1.665679 GTATAACGTGTCCGACTCCGA 59.334 52.381 15.15 0.00 38.22 4.55
2214 2433 1.268234 GGTATAACGTGTCCGACTCCG 60.268 57.143 0.00 5.01 37.88 4.63
2215 2434 1.066152 GGGTATAACGTGTCCGACTCC 59.934 57.143 0.00 0.00 37.88 3.85
2216 2435 2.019984 AGGGTATAACGTGTCCGACTC 58.980 52.381 0.00 0.00 37.88 3.36
2217 2436 2.134789 AGGGTATAACGTGTCCGACT 57.865 50.000 0.00 0.00 37.88 4.18
2218 2437 2.533266 CAAGGGTATAACGTGTCCGAC 58.467 52.381 0.00 0.00 37.88 4.79
2219 2438 1.477700 CCAAGGGTATAACGTGTCCGA 59.522 52.381 0.00 0.00 37.88 4.55
2220 2439 1.930567 CCAAGGGTATAACGTGTCCG 58.069 55.000 0.00 0.00 40.83 4.79
2221 2440 1.660167 GCCAAGGGTATAACGTGTCC 58.340 55.000 0.00 0.00 0.00 4.02
2222 2441 1.208776 AGGCCAAGGGTATAACGTGTC 59.791 52.381 5.01 0.00 0.00 3.67
2223 2442 1.208776 GAGGCCAAGGGTATAACGTGT 59.791 52.381 5.01 0.00 0.00 4.49
2224 2443 1.485066 AGAGGCCAAGGGTATAACGTG 59.515 52.381 5.01 0.00 0.00 4.49
2225 2444 1.875488 AGAGGCCAAGGGTATAACGT 58.125 50.000 5.01 0.00 0.00 3.99
2226 2445 4.618920 ATAAGAGGCCAAGGGTATAACG 57.381 45.455 5.01 0.00 0.00 3.18
2227 2446 8.989131 TCATATATAAGAGGCCAAGGGTATAAC 58.011 37.037 5.01 0.00 0.00 1.89
2228 2447 9.213777 CTCATATATAAGAGGCCAAGGGTATAA 57.786 37.037 5.01 0.00 0.00 0.98
2229 2448 7.789831 CCTCATATATAAGAGGCCAAGGGTATA 59.210 40.741 18.53 2.60 44.37 1.47
2230 2449 6.617371 CCTCATATATAAGAGGCCAAGGGTAT 59.383 42.308 18.53 0.12 44.37 2.73
2231 2450 5.964477 CCTCATATATAAGAGGCCAAGGGTA 59.036 44.000 18.53 0.00 44.37 3.69
2232 2451 4.785376 CCTCATATATAAGAGGCCAAGGGT 59.215 45.833 18.53 0.00 44.37 4.34
2233 2452 5.365021 CCTCATATATAAGAGGCCAAGGG 57.635 47.826 18.53 0.00 44.37 3.95
2241 2460 5.606348 GGGTGCCTCCTCATATATAAGAG 57.394 47.826 7.83 7.83 36.25 2.85


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

AutoCloner maintained by Alex Coulton.