Multiple sequence alignment - TraesCS2B01G368900

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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 TraesCS2B01G368900 chr2B 100.000 2440 0 0 1 2440 526525923 526523484 0.000000e+00 4506.0
1 TraesCS2B01G368900 chr2B 92.593 783 45 6 1 783 40896496 40895727 0.000000e+00 1112.0
2 TraesCS2B01G368900 chr2B 90.119 506 38 6 1003 1503 526397658 526397160 0.000000e+00 647.0
3 TraesCS2B01G368900 chr2B 94.974 378 14 1 1906 2278 344987811 344987434 2.700000e-164 588.0
4 TraesCS2B01G368900 chr2B 91.367 417 30 4 1875 2286 324662199 324662614 1.270000e-157 566.0
5 TraesCS2B01G368900 chr2B 88.235 187 15 4 1495 1676 526397001 526396817 1.470000e-52 217.0
6 TraesCS2B01G368900 chr2B 85.714 112 14 2 1753 1863 600086172 600086282 1.530000e-22 117.0
7 TraesCS2B01G368900 chr2B 96.721 61 2 0 2292 2352 2600766 2600706 4.290000e-18 102.0
8 TraesCS2B01G368900 chr2B 83.486 109 13 5 1759 1866 800972466 800972362 2.000000e-16 97.1
9 TraesCS2B01G368900 chr2B 100.000 30 0 0 1663 1692 44428335 44428364 3.390000e-04 56.5
10 TraesCS2B01G368900 chr2A 91.895 950 57 12 801 1743 590720303 590719367 0.000000e+00 1310.0
11 TraesCS2B01G368900 chr2A 90.816 980 62 16 783 1748 590726455 590725490 0.000000e+00 1286.0
12 TraesCS2B01G368900 chr2A 87.822 854 62 19 803 1650 590690741 590689924 0.000000e+00 963.0
13 TraesCS2B01G368900 chr2A 92.517 147 11 0 2293 2439 293047523 293047377 6.840000e-51 211.0
14 TraesCS2B01G368900 chr2A 91.852 135 11 0 1748 1882 590725457 590725323 3.200000e-44 189.0
15 TraesCS2B01G368900 chr2A 88.148 135 14 2 1748 1882 590719329 590719197 2.510000e-35 159.0
16 TraesCS2B01G368900 chr2A 81.890 127 6 7 901 1010 590689875 590689749 9.290000e-15 91.6
17 TraesCS2B01G368900 chr2D 90.825 970 54 14 783 1748 446641208 446640270 0.000000e+00 1266.0
18 TraesCS2B01G368900 chr2D 94.859 389 14 2 1894 2277 2039392 2039005 9.650000e-169 603.0
19 TraesCS2B01G368900 chr2D 92.647 136 8 2 1748 1882 446640237 446640103 6.880000e-46 195.0
20 TraesCS2B01G368900 chr7B 95.159 785 35 3 1 783 530589295 530590078 0.000000e+00 1236.0
21 TraesCS2B01G368900 chr5B 94.904 785 38 2 1 783 692929586 692928802 0.000000e+00 1227.0
22 TraesCS2B01G368900 chr5B 93.103 783 52 1 1 783 46717284 46718064 0.000000e+00 1146.0
23 TraesCS2B01G368900 chr5B 83.333 102 16 1 1755 1855 653810206 653810105 2.580000e-15 93.5
24 TraesCS2B01G368900 chr6B 94.381 783 44 0 1 783 679124170 679124952 0.000000e+00 1203.0
25 TraesCS2B01G368900 chr6B 90.842 677 47 4 110 783 78481236 78480572 0.000000e+00 893.0
26 TraesCS2B01G368900 chr6B 92.157 408 25 5 1885 2286 19441828 19441422 9.790000e-159 569.0
27 TraesCS2B01G368900 chr6B 91.587 416 28 3 1877 2286 136907277 136907691 3.520000e-158 568.0
28 TraesCS2B01G368900 chr4A 93.750 784 48 1 1 783 620072035 620071252 0.000000e+00 1175.0
29 TraesCS2B01G368900 chr4A 92.593 783 38 4 1 783 620134715 620133953 0.000000e+00 1107.0
30 TraesCS2B01G368900 chr4A 90.000 780 53 8 4 783 659265533 659264779 0.000000e+00 985.0
31 TraesCS2B01G368900 chr4A 93.243 148 10 0 2292 2439 649026564 649026711 4.080000e-53 219.0
32 TraesCS2B01G368900 chrUn 93.622 784 49 1 1 783 212363968 212364751 0.000000e+00 1170.0
33 TraesCS2B01G368900 chr3B 91.360 787 64 2 1 785 64620944 64620160 0.000000e+00 1074.0
34 TraesCS2B01G368900 chr4B 91.847 417 28 4 1875 2286 286229422 286229837 5.850000e-161 577.0
35 TraesCS2B01G368900 chr4B 91.367 417 30 2 1875 2286 306748085 306748500 1.270000e-157 566.0
36 TraesCS2B01G368900 chr4B 92.568 148 11 0 2292 2439 419321525 419321378 1.900000e-51 213.0
37 TraesCS2B01G368900 chr5D 91.367 417 30 2 1875 2286 168337721 168338136 1.270000e-157 566.0
38 TraesCS2B01G368900 chr5D 93.082 159 10 1 2281 2439 510566563 510566406 5.250000e-57 231.0
39 TraesCS2B01G368900 chr5D 88.288 111 12 1 1753 1863 441884593 441884702 5.470000e-27 132.0
40 TraesCS2B01G368900 chr5D 84.545 110 15 2 1753 1861 459220259 459220151 9.230000e-20 108.0
41 TraesCS2B01G368900 chr1A 91.127 417 31 2 1875 2286 10404061 10403646 5.890000e-156 560.0
42 TraesCS2B01G368900 chr6A 92.568 148 11 0 2292 2439 58372059 58371912 1.900000e-51 213.0
43 TraesCS2B01G368900 chr6A 91.837 147 12 0 2293 2439 581485703 581485557 3.180000e-49 206.0
44 TraesCS2B01G368900 chr6A 85.981 107 14 1 1749 1855 617556599 617556704 1.980000e-21 113.0
45 TraesCS2B01G368900 chr3A 95.385 65 3 0 2292 2356 739338495 739338431 1.190000e-18 104.0


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 TraesCS2B01G368900 chr2B 526523484 526525923 2439 True 4506.0 4506 100.0000 1 2440 1 chr2B.!!$R4 2439
1 TraesCS2B01G368900 chr2B 40895727 40896496 769 True 1112.0 1112 92.5930 1 783 1 chr2B.!!$R2 782
2 TraesCS2B01G368900 chr2B 526396817 526397658 841 True 432.0 647 89.1770 1003 1676 2 chr2B.!!$R6 673
3 TraesCS2B01G368900 chr2A 590725323 590726455 1132 True 737.5 1286 91.3340 783 1882 2 chr2A.!!$R4 1099
4 TraesCS2B01G368900 chr2A 590719197 590720303 1106 True 734.5 1310 90.0215 801 1882 2 chr2A.!!$R3 1081
5 TraesCS2B01G368900 chr2A 590689749 590690741 992 True 527.3 963 84.8560 803 1650 2 chr2A.!!$R2 847
6 TraesCS2B01G368900 chr2D 446640103 446641208 1105 True 730.5 1266 91.7360 783 1882 2 chr2D.!!$R2 1099
7 TraesCS2B01G368900 chr7B 530589295 530590078 783 False 1236.0 1236 95.1590 1 783 1 chr7B.!!$F1 782
8 TraesCS2B01G368900 chr5B 692928802 692929586 784 True 1227.0 1227 94.9040 1 783 1 chr5B.!!$R2 782
9 TraesCS2B01G368900 chr5B 46717284 46718064 780 False 1146.0 1146 93.1030 1 783 1 chr5B.!!$F1 782
10 TraesCS2B01G368900 chr6B 679124170 679124952 782 False 1203.0 1203 94.3810 1 783 1 chr6B.!!$F2 782
11 TraesCS2B01G368900 chr6B 78480572 78481236 664 True 893.0 893 90.8420 110 783 1 chr6B.!!$R2 673
12 TraesCS2B01G368900 chr4A 620071252 620072035 783 True 1175.0 1175 93.7500 1 783 1 chr4A.!!$R1 782
13 TraesCS2B01G368900 chr4A 620133953 620134715 762 True 1107.0 1107 92.5930 1 783 1 chr4A.!!$R2 782
14 TraesCS2B01G368900 chr4A 659264779 659265533 754 True 985.0 985 90.0000 4 783 1 chr4A.!!$R3 779
15 TraesCS2B01G368900 chrUn 212363968 212364751 783 False 1170.0 1170 93.6220 1 783 1 chrUn.!!$F1 782
16 TraesCS2B01G368900 chr3B 64620160 64620944 784 True 1074.0 1074 91.3600 1 785 1 chr3B.!!$R1 784

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
692 697 0.034089 GGCTAGACATGGCTTGGGTT 60.034 55.0 6.27 0.0 32.55 4.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2320 2549 0.037326 TGTTCATCTCCACACGGCTC 60.037 55.0 0.0 0.0 0.0 4.7 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
70 72 3.490348 CAAACCAAGTCAGGAAGATGGT 58.510 45.455 0.00 0.00 40.53 3.55
79 81 1.194781 AGGAAGATGGTCACGGCACT 61.195 55.000 0.00 0.00 0.00 4.40
254 256 4.647564 ACACTGAAGAAACCCAGATCAT 57.352 40.909 0.00 0.00 34.65 2.45
338 340 0.107848 CCCCGCTAGGTTAACCACTG 60.108 60.000 26.26 15.64 38.89 3.66
557 561 0.251354 AGATTGATGGAGCTGCGTGT 59.749 50.000 3.99 0.00 0.00 4.49
652 657 3.119531 CGTATACGGTCTGGGTTGTACAA 60.120 47.826 17.61 3.59 35.37 2.41
690 695 1.152881 GGGCTAGACATGGCTTGGG 60.153 63.158 6.27 0.00 32.55 4.12
692 697 0.034089 GGCTAGACATGGCTTGGGTT 60.034 55.000 6.27 0.00 32.55 4.11
703 708 1.074248 CTTGGGTTTGGGCTACGGT 59.926 57.895 0.00 0.00 0.00 4.83
1090 1106 1.625315 GACCTTAACCAGTTACCCGGT 59.375 52.381 0.00 0.00 36.98 5.28
1094 1110 0.975887 TAACCAGTTACCCGGTCACC 59.024 55.000 0.00 0.00 33.17 4.02
1385 1401 2.117137 CGATAGGTGACACGTATGCAC 58.883 52.381 22.08 9.59 30.24 4.57
1405 1421 2.673523 CTGCCTCAACTCCCAGGG 59.326 66.667 0.00 0.00 0.00 4.45
1422 1438 1.848388 AGGGCTGGAATGTGATGATCA 59.152 47.619 0.00 0.00 0.00 2.92
1542 1732 1.217942 TCCTAGATGGCCAGAGCAGTA 59.782 52.381 13.05 0.00 42.56 2.74
1681 1877 4.501071 CGCCTAGCCTACAAAAAGTCTTA 58.499 43.478 0.00 0.00 0.00 2.10
1743 1939 2.434336 TGAATGTAGCCGGCTTCAGTAT 59.566 45.455 37.74 24.32 0.00 2.12
1791 2020 5.119694 GGGGTCTCAGAATCTCAATGTAAC 58.880 45.833 0.00 0.00 0.00 2.50
1931 2160 3.139077 GGAAAATGCATCCTACTACCGG 58.861 50.000 0.00 0.00 33.98 5.28
1932 2161 2.930826 AAATGCATCCTACTACCGGG 57.069 50.000 6.32 0.00 0.00 5.73
1933 2162 1.802553 AATGCATCCTACTACCGGGT 58.197 50.000 6.32 4.46 0.00 5.28
1934 2163 1.048601 ATGCATCCTACTACCGGGTG 58.951 55.000 10.66 0.00 35.71 4.61
1935 2164 0.324923 TGCATCCTACTACCGGGTGT 60.325 55.000 10.66 6.62 35.06 4.16
1936 2165 1.063792 TGCATCCTACTACCGGGTGTA 60.064 52.381 10.66 7.54 35.06 2.90
1956 2185 6.747414 TGTAGCTACACCCATTTCTCATAT 57.253 37.500 22.67 0.00 0.00 1.78
1957 2186 7.849322 TGTAGCTACACCCATTTCTCATATA 57.151 36.000 22.67 0.00 0.00 0.86
1958 2187 7.667557 TGTAGCTACACCCATTTCTCATATAC 58.332 38.462 22.67 0.00 0.00 1.47
1959 2188 7.509318 TGTAGCTACACCCATTTCTCATATACT 59.491 37.037 22.67 0.00 0.00 2.12
1960 2189 9.021807 GTAGCTACACCCATTTCTCATATACTA 57.978 37.037 19.15 0.00 0.00 1.82
1961 2190 7.897864 AGCTACACCCATTTCTCATATACTAC 58.102 38.462 0.00 0.00 0.00 2.73
1962 2191 7.038941 AGCTACACCCATTTCTCATATACTACC 60.039 40.741 0.00 0.00 0.00 3.18
1963 2192 7.256190 GCTACACCCATTTCTCATATACTACCA 60.256 40.741 0.00 0.00 0.00 3.25
1964 2193 7.633018 ACACCCATTTCTCATATACTACCAT 57.367 36.000 0.00 0.00 0.00 3.55
1965 2194 7.453393 ACACCCATTTCTCATATACTACCATG 58.547 38.462 0.00 0.00 0.00 3.66
1968 2197 6.881065 CCCATTTCTCATATACTACCATGTGG 59.119 42.308 0.00 0.00 42.17 4.17
2029 2258 9.588096 TGCTATATCTAAGATACTCCAAAGTGA 57.412 33.333 0.00 0.00 36.92 3.41
2117 2346 7.422878 TGTACGTGAAATAAAGTATGCACAA 57.577 32.000 0.00 0.00 0.00 3.33
2137 2366 9.620259 TGCACAAAATATGATACATACTACCAA 57.380 29.630 0.00 0.00 0.00 3.67
2192 2421 9.855021 TCTTATATACTACATACTACGCGTACA 57.145 33.333 16.41 6.57 0.00 2.90
2196 2425 9.809096 ATATACTACATACTACGCGTACATACT 57.191 33.333 16.41 0.56 0.00 2.12
2197 2426 6.459257 ACTACATACTACGCGTACATACTC 57.541 41.667 16.41 0.00 0.00 2.59
2198 2427 6.219473 ACTACATACTACGCGTACATACTCT 58.781 40.000 16.41 0.00 0.00 3.24
2199 2428 5.588568 ACATACTACGCGTACATACTCTC 57.411 43.478 16.41 0.00 0.00 3.20
2200 2429 4.450419 ACATACTACGCGTACATACTCTCC 59.550 45.833 16.41 0.00 0.00 3.71
2201 2430 2.910199 ACTACGCGTACATACTCTCCA 58.090 47.619 16.41 0.00 0.00 3.86
2202 2431 3.273434 ACTACGCGTACATACTCTCCAA 58.727 45.455 16.41 0.00 0.00 3.53
2203 2432 3.881688 ACTACGCGTACATACTCTCCAAT 59.118 43.478 16.41 0.00 0.00 3.16
2204 2433 5.059161 ACTACGCGTACATACTCTCCAATA 58.941 41.667 16.41 0.00 0.00 1.90
2205 2434 5.704515 ACTACGCGTACATACTCTCCAATAT 59.295 40.000 16.41 0.00 0.00 1.28
2206 2435 4.795268 ACGCGTACATACTCTCCAATATG 58.205 43.478 11.67 0.00 35.33 1.78
2207 2436 4.517832 ACGCGTACATACTCTCCAATATGA 59.482 41.667 11.67 0.00 33.73 2.15
2208 2437 5.183331 ACGCGTACATACTCTCCAATATGAT 59.817 40.000 11.67 0.00 33.73 2.45
2209 2438 6.373495 ACGCGTACATACTCTCCAATATGATA 59.627 38.462 11.67 0.00 33.73 2.15
2210 2439 6.907748 CGCGTACATACTCTCCAATATGATAG 59.092 42.308 0.00 0.00 33.73 2.08
2211 2440 7.201617 CGCGTACATACTCTCCAATATGATAGA 60.202 40.741 0.00 0.00 33.73 1.98
2212 2441 8.625651 GCGTACATACTCTCCAATATGATAGAT 58.374 37.037 0.00 0.00 33.73 1.98
2249 2478 9.975218 ATGTATGAAATAAAAGTGGGAGTAACT 57.025 29.630 0.00 0.00 0.00 2.24
2253 2482 8.611654 TGAAATAAAAGTGGGAGTAACTACAC 57.388 34.615 0.00 0.00 0.00 2.90
2254 2483 7.662669 TGAAATAAAAGTGGGAGTAACTACACC 59.337 37.037 0.00 0.00 36.39 4.16
2255 2484 6.947376 ATAAAAGTGGGAGTAACTACACCT 57.053 37.500 3.76 0.00 37.16 4.00
2256 2485 4.618920 AAAGTGGGAGTAACTACACCTG 57.381 45.455 3.76 0.00 37.16 4.00
2257 2486 2.537143 AGTGGGAGTAACTACACCTGG 58.463 52.381 3.76 0.00 37.16 4.45
2258 2487 2.158204 AGTGGGAGTAACTACACCTGGT 60.158 50.000 0.00 0.00 37.16 4.00
2259 2488 3.076484 AGTGGGAGTAACTACACCTGGTA 59.924 47.826 0.00 0.00 37.16 3.25
2273 2502 6.894339 ACACCTGGTAGTAGGAAAAATTTG 57.106 37.500 0.00 0.00 40.42 2.32
2274 2503 6.370453 ACACCTGGTAGTAGGAAAAATTTGT 58.630 36.000 0.00 0.00 40.42 2.83
2275 2504 6.489022 ACACCTGGTAGTAGGAAAAATTTGTC 59.511 38.462 0.00 0.00 40.42 3.18
2276 2505 6.008331 ACCTGGTAGTAGGAAAAATTTGTCC 58.992 40.000 18.47 18.47 40.42 4.02
2277 2506 6.183361 ACCTGGTAGTAGGAAAAATTTGTCCT 60.183 38.462 28.92 28.92 46.29 3.85
2278 2507 6.374613 CCTGGTAGTAGGAAAAATTTGTCCTC 59.625 42.308 29.66 20.90 43.44 3.71
2279 2508 6.243148 TGGTAGTAGGAAAAATTTGTCCTCC 58.757 40.000 29.66 23.95 43.44 4.30
2280 2509 6.045106 TGGTAGTAGGAAAAATTTGTCCTCCT 59.955 38.462 29.66 25.68 43.44 3.69
2281 2510 7.238096 TGGTAGTAGGAAAAATTTGTCCTCCTA 59.762 37.037 29.66 24.72 43.44 2.94
2282 2511 8.272889 GGTAGTAGGAAAAATTTGTCCTCCTAT 58.727 37.037 29.66 17.36 43.44 2.57
2311 2540 9.607333 AGGATGGAGTATATAGATTGTTTCTCA 57.393 33.333 0.00 0.00 35.79 3.27
2312 2541 9.646427 GGATGGAGTATATAGATTGTTTCTCAC 57.354 37.037 0.00 0.00 35.79 3.51
2315 2544 9.421399 TGGAGTATATAGATTGTTTCTCACTCA 57.579 33.333 0.00 0.00 34.27 3.41
2323 2552 7.316640 TAGATTGTTTCTCACTCAAGTAGAGC 58.683 38.462 0.00 0.00 40.85 4.09
2324 2553 7.577807 TAGATTGTTTCTCACTCAAGTAGAGCC 60.578 40.741 0.00 0.00 40.85 4.70
2330 2559 3.425578 CTCAAGTAGAGCCGTGTGG 57.574 57.895 0.00 0.00 37.59 4.17
2331 2560 0.888619 CTCAAGTAGAGCCGTGTGGA 59.111 55.000 0.00 0.00 37.59 4.02
2332 2561 0.888619 TCAAGTAGAGCCGTGTGGAG 59.111 55.000 0.00 0.00 37.49 3.86
2333 2562 0.888619 CAAGTAGAGCCGTGTGGAGA 59.111 55.000 0.00 0.00 37.49 3.71
2334 2563 1.478510 CAAGTAGAGCCGTGTGGAGAT 59.521 52.381 0.00 0.00 37.49 2.75
2335 2564 1.107114 AGTAGAGCCGTGTGGAGATG 58.893 55.000 0.00 0.00 37.49 2.90
2336 2565 1.103803 GTAGAGCCGTGTGGAGATGA 58.896 55.000 0.00 0.00 37.49 2.92
2337 2566 1.476891 GTAGAGCCGTGTGGAGATGAA 59.523 52.381 0.00 0.00 37.49 2.57
2338 2567 0.247736 AGAGCCGTGTGGAGATGAAC 59.752 55.000 0.00 0.00 37.49 3.18
2339 2568 0.037326 GAGCCGTGTGGAGATGAACA 60.037 55.000 0.00 0.00 37.49 3.18
2340 2569 0.396435 AGCCGTGTGGAGATGAACAA 59.604 50.000 0.00 0.00 37.49 2.83
2341 2570 1.003580 AGCCGTGTGGAGATGAACAAT 59.996 47.619 0.00 0.00 37.49 2.71
2342 2571 1.131126 GCCGTGTGGAGATGAACAATG 59.869 52.381 0.00 0.00 37.49 2.82
2343 2572 2.698803 CCGTGTGGAGATGAACAATGA 58.301 47.619 0.00 0.00 37.49 2.57
2344 2573 3.273434 CCGTGTGGAGATGAACAATGAT 58.727 45.455 0.00 0.00 37.49 2.45
2345 2574 3.310774 CCGTGTGGAGATGAACAATGATC 59.689 47.826 0.00 0.00 37.49 2.92
2346 2575 4.186926 CGTGTGGAGATGAACAATGATCT 58.813 43.478 0.00 0.00 0.00 2.75
2347 2576 4.269603 CGTGTGGAGATGAACAATGATCTC 59.730 45.833 0.00 0.00 42.67 2.75
2348 2577 5.181009 GTGTGGAGATGAACAATGATCTCA 58.819 41.667 11.07 1.15 44.41 3.27
2349 2578 5.645067 GTGTGGAGATGAACAATGATCTCAA 59.355 40.000 11.07 0.00 44.41 3.02
2350 2579 6.149973 GTGTGGAGATGAACAATGATCTCAAA 59.850 38.462 11.07 0.00 44.41 2.69
2351 2580 6.149973 TGTGGAGATGAACAATGATCTCAAAC 59.850 38.462 11.07 9.25 44.41 2.93
2352 2581 5.352293 TGGAGATGAACAATGATCTCAAACG 59.648 40.000 11.07 0.00 44.41 3.60
2353 2582 5.352569 GGAGATGAACAATGATCTCAAACGT 59.647 40.000 11.07 0.00 44.41 3.99
2354 2583 6.174451 AGATGAACAATGATCTCAAACGTG 57.826 37.500 0.00 0.00 0.00 4.49
2355 2584 5.702670 AGATGAACAATGATCTCAAACGTGT 59.297 36.000 0.00 0.00 0.00 4.49
2356 2585 6.873605 AGATGAACAATGATCTCAAACGTGTA 59.126 34.615 0.00 0.00 0.00 2.90
2357 2586 7.550551 AGATGAACAATGATCTCAAACGTGTAT 59.449 33.333 0.00 0.00 0.00 2.29
2358 2587 6.830736 TGAACAATGATCTCAAACGTGTATG 58.169 36.000 0.00 0.00 0.00 2.39
2359 2588 6.426633 TGAACAATGATCTCAAACGTGTATGT 59.573 34.615 0.00 0.00 0.00 2.29
2360 2589 6.169419 ACAATGATCTCAAACGTGTATGTG 57.831 37.500 0.00 0.00 0.00 3.21
2361 2590 5.700832 ACAATGATCTCAAACGTGTATGTGT 59.299 36.000 0.00 0.00 0.00 3.72
2362 2591 6.871492 ACAATGATCTCAAACGTGTATGTGTA 59.129 34.615 0.00 0.00 0.00 2.90
2363 2592 7.549134 ACAATGATCTCAAACGTGTATGTGTAT 59.451 33.333 0.00 0.00 0.00 2.29
2364 2593 7.700322 ATGATCTCAAACGTGTATGTGTATC 57.300 36.000 0.00 0.00 0.00 2.24
2365 2594 6.040247 TGATCTCAAACGTGTATGTGTATCC 58.960 40.000 0.00 0.00 0.00 2.59
2366 2595 5.654603 TCTCAAACGTGTATGTGTATCCT 57.345 39.130 0.00 0.00 0.00 3.24
2367 2596 6.032956 TCTCAAACGTGTATGTGTATCCTT 57.967 37.500 0.00 0.00 0.00 3.36
2368 2597 5.867174 TCTCAAACGTGTATGTGTATCCTTG 59.133 40.000 0.00 0.00 0.00 3.61
2369 2598 5.543714 TCAAACGTGTATGTGTATCCTTGT 58.456 37.500 0.00 0.00 0.00 3.16
2370 2599 5.992829 TCAAACGTGTATGTGTATCCTTGTT 59.007 36.000 0.00 0.00 0.00 2.83
2371 2600 5.856126 AACGTGTATGTGTATCCTTGTTG 57.144 39.130 0.00 0.00 0.00 3.33
2372 2601 4.890088 ACGTGTATGTGTATCCTTGTTGT 58.110 39.130 0.00 0.00 0.00 3.32
2373 2602 6.028146 ACGTGTATGTGTATCCTTGTTGTA 57.972 37.500 0.00 0.00 0.00 2.41
2374 2603 6.636705 ACGTGTATGTGTATCCTTGTTGTAT 58.363 36.000 0.00 0.00 0.00 2.29
2375 2604 7.774134 ACGTGTATGTGTATCCTTGTTGTATA 58.226 34.615 0.00 0.00 0.00 1.47
2376 2605 7.919091 ACGTGTATGTGTATCCTTGTTGTATAG 59.081 37.037 0.00 0.00 0.00 1.31
2377 2606 7.096189 CGTGTATGTGTATCCTTGTTGTATAGC 60.096 40.741 0.00 0.00 0.00 2.97
2378 2607 7.709182 GTGTATGTGTATCCTTGTTGTATAGCA 59.291 37.037 0.00 0.00 0.00 3.49
2379 2608 7.926018 TGTATGTGTATCCTTGTTGTATAGCAG 59.074 37.037 0.00 0.00 0.00 4.24
2380 2609 6.294361 TGTGTATCCTTGTTGTATAGCAGT 57.706 37.500 0.00 0.00 0.00 4.40
2381 2610 6.106003 TGTGTATCCTTGTTGTATAGCAGTG 58.894 40.000 0.00 0.00 0.00 3.66
2382 2611 6.071051 TGTGTATCCTTGTTGTATAGCAGTGA 60.071 38.462 0.00 0.00 0.00 3.41
2383 2612 6.255887 GTGTATCCTTGTTGTATAGCAGTGAC 59.744 42.308 0.00 0.00 0.00 3.67
2384 2613 4.882842 TCCTTGTTGTATAGCAGTGACA 57.117 40.909 0.00 0.00 0.00 3.58
2385 2614 5.222079 TCCTTGTTGTATAGCAGTGACAA 57.778 39.130 0.00 0.00 0.00 3.18
2386 2615 5.804639 TCCTTGTTGTATAGCAGTGACAAT 58.195 37.500 0.00 0.00 35.65 2.71
2387 2616 5.874810 TCCTTGTTGTATAGCAGTGACAATC 59.125 40.000 0.00 0.00 35.65 2.67
2388 2617 5.220472 CCTTGTTGTATAGCAGTGACAATCG 60.220 44.000 0.00 0.00 35.65 3.34
2389 2618 5.066968 TGTTGTATAGCAGTGACAATCGA 57.933 39.130 0.00 0.00 35.65 3.59
2390 2619 5.660460 TGTTGTATAGCAGTGACAATCGAT 58.340 37.500 0.00 0.00 35.65 3.59
2391 2620 6.106003 TGTTGTATAGCAGTGACAATCGATT 58.894 36.000 4.39 4.39 35.65 3.34
2392 2621 6.593770 TGTTGTATAGCAGTGACAATCGATTT 59.406 34.615 8.21 0.00 35.65 2.17
2393 2622 6.588348 TGTATAGCAGTGACAATCGATTTG 57.412 37.500 8.21 5.14 41.36 2.32
2394 2623 5.523552 TGTATAGCAGTGACAATCGATTTGG 59.476 40.000 8.21 0.45 39.80 3.28
2395 2624 3.057969 AGCAGTGACAATCGATTTGGA 57.942 42.857 8.21 0.00 39.80 3.53
2396 2625 3.005554 AGCAGTGACAATCGATTTGGAG 58.994 45.455 8.21 0.00 39.80 3.86
2397 2626 2.096496 GCAGTGACAATCGATTTGGAGG 59.904 50.000 8.21 0.00 39.80 4.30
2398 2627 2.679837 CAGTGACAATCGATTTGGAGGG 59.320 50.000 8.21 0.00 39.80 4.30
2399 2628 2.571653 AGTGACAATCGATTTGGAGGGA 59.428 45.455 8.21 0.00 39.80 4.20
2400 2629 3.009033 AGTGACAATCGATTTGGAGGGAA 59.991 43.478 8.21 0.00 39.80 3.97
2401 2630 3.127030 GTGACAATCGATTTGGAGGGAAC 59.873 47.826 8.21 0.00 39.80 3.62
2402 2631 3.244735 TGACAATCGATTTGGAGGGAACA 60.245 43.478 8.21 0.69 39.80 3.18
2403 2632 3.756434 GACAATCGATTTGGAGGGAACAA 59.244 43.478 8.21 0.00 39.80 2.83
2404 2633 3.758554 ACAATCGATTTGGAGGGAACAAG 59.241 43.478 8.21 0.00 39.80 3.16
2405 2634 1.821216 TCGATTTGGAGGGAACAAGC 58.179 50.000 0.00 0.00 0.00 4.01
2406 2635 1.351017 TCGATTTGGAGGGAACAAGCT 59.649 47.619 0.00 0.00 0.00 3.74
2407 2636 1.470098 CGATTTGGAGGGAACAAGCTG 59.530 52.381 0.00 0.00 0.00 4.24
2408 2637 2.795329 GATTTGGAGGGAACAAGCTGA 58.205 47.619 0.00 0.00 0.00 4.26
2409 2638 2.746279 TTTGGAGGGAACAAGCTGAA 57.254 45.000 0.00 0.00 0.00 3.02
2410 2639 1.981256 TTGGAGGGAACAAGCTGAAC 58.019 50.000 0.00 0.00 0.00 3.18
2411 2640 0.843309 TGGAGGGAACAAGCTGAACA 59.157 50.000 0.00 0.00 0.00 3.18
2412 2641 1.214175 TGGAGGGAACAAGCTGAACAA 59.786 47.619 0.00 0.00 0.00 2.83
2413 2642 2.158475 TGGAGGGAACAAGCTGAACAAT 60.158 45.455 0.00 0.00 0.00 2.71
2414 2643 2.893489 GGAGGGAACAAGCTGAACAATT 59.107 45.455 0.00 0.00 0.00 2.32
2415 2644 3.305608 GGAGGGAACAAGCTGAACAATTG 60.306 47.826 3.24 3.24 0.00 2.32
2416 2645 2.036346 AGGGAACAAGCTGAACAATTGC 59.964 45.455 5.05 0.00 0.00 3.56
2417 2646 2.224018 GGGAACAAGCTGAACAATTGCA 60.224 45.455 5.05 0.00 0.00 4.08
2418 2647 3.054878 GGAACAAGCTGAACAATTGCAG 58.945 45.455 5.05 7.02 35.28 4.41
2424 2653 1.959747 CTGAACAATTGCAGCTGTCG 58.040 50.000 16.64 2.11 0.00 4.35
2425 2654 1.265095 CTGAACAATTGCAGCTGTCGT 59.735 47.619 16.64 2.77 0.00 4.34
2426 2655 1.264020 TGAACAATTGCAGCTGTCGTC 59.736 47.619 16.64 0.00 0.00 4.20
2427 2656 0.593128 AACAATTGCAGCTGTCGTCC 59.407 50.000 16.64 0.00 0.00 4.79
2428 2657 0.250467 ACAATTGCAGCTGTCGTCCT 60.250 50.000 16.64 0.00 0.00 3.85
2429 2658 1.001974 ACAATTGCAGCTGTCGTCCTA 59.998 47.619 16.64 0.00 0.00 2.94
2430 2659 1.662629 CAATTGCAGCTGTCGTCCTAG 59.337 52.381 16.64 0.00 0.00 3.02
2431 2660 0.460987 ATTGCAGCTGTCGTCCTAGC 60.461 55.000 16.64 0.00 40.18 3.42
2432 2661 2.202810 GCAGCTGTCGTCCTAGCC 60.203 66.667 16.64 0.00 40.76 3.93
2433 2662 2.716017 GCAGCTGTCGTCCTAGCCT 61.716 63.158 16.64 0.00 40.76 4.58
2434 2663 1.384989 GCAGCTGTCGTCCTAGCCTA 61.385 60.000 16.64 0.00 40.76 3.93
2435 2664 0.665835 CAGCTGTCGTCCTAGCCTAG 59.334 60.000 5.25 0.00 40.76 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 81 2.914838 CGATTGAAAGTGATCACGACGA 59.085 45.455 19.85 14.41 36.20 4.20
254 256 2.351244 CCGGTAGTGCTGCTCCTCA 61.351 63.158 0.00 0.00 0.00 3.86
408 410 2.989824 AGCGCTCACAGGTACCGT 60.990 61.111 2.64 4.86 0.00 4.83
501 503 3.246226 CAGCTCCATAATTCACGCAGTAC 59.754 47.826 0.00 0.00 41.61 2.73
557 561 1.347707 GACCTGCCGGATCCAATCATA 59.652 52.381 13.41 0.00 0.00 2.15
652 657 2.674220 GCCAAGCCCTGTCTAGCCT 61.674 63.158 0.00 0.00 0.00 4.58
690 695 3.060000 GCCCACCGTAGCCCAAAC 61.060 66.667 0.00 0.00 0.00 2.93
1090 1106 2.420547 GCCATCTGTGCTTGATAGGTGA 60.421 50.000 0.00 0.00 0.00 4.02
1094 1110 3.488721 GCTTTGCCATCTGTGCTTGATAG 60.489 47.826 0.00 0.00 0.00 2.08
1366 1382 2.117137 CGTGCATACGTGTCACCTATC 58.883 52.381 0.00 0.00 44.99 2.08
1385 1401 3.965539 CTGGGAGTTGAGGCAGGCG 62.966 68.421 0.00 0.00 0.00 5.52
1386 1402 2.045536 CTGGGAGTTGAGGCAGGC 60.046 66.667 0.00 0.00 0.00 4.85
1405 1421 2.483106 CGGATGATCATCACATTCCAGC 59.517 50.000 31.49 13.60 39.54 4.85
1454 1470 6.598064 GCTTTACTTAGCTCCCAGTAATTCAA 59.402 38.462 11.80 0.64 35.80 2.69
1486 1504 4.916983 ACGTATTAGCCGTACCATTACA 57.083 40.909 0.00 0.00 36.65 2.41
1542 1732 5.106157 CGTGGCTTATTTCCTTCTCAACAAT 60.106 40.000 0.00 0.00 0.00 2.71
1602 1797 8.233692 TGCAAAATGATAATTCGGTAAAACAC 57.766 30.769 0.00 0.00 0.00 3.32
1731 1927 0.676466 TGTTGCCATACTGAAGCCGG 60.676 55.000 0.00 0.00 0.00 6.13
1737 1933 1.206132 CTACCGGTGTTGCCATACTGA 59.794 52.381 19.93 0.00 36.97 3.41
1743 1939 1.985460 AACCACTACCGGTGTTGCCA 61.985 55.000 19.93 0.00 43.94 4.92
1791 2020 7.425606 ACAAAGCACCTCAAACATACTAAAAG 58.574 34.615 0.00 0.00 0.00 2.27
1797 2026 5.941948 AGTACAAAGCACCTCAAACATAC 57.058 39.130 0.00 0.00 0.00 2.39
1904 2133 7.987458 CGGTAGTAGGATGCATTTTCCATATAT 59.013 37.037 0.00 0.00 35.59 0.86
1905 2134 7.327975 CGGTAGTAGGATGCATTTTCCATATA 58.672 38.462 0.00 0.00 35.59 0.86
1906 2135 6.173339 CGGTAGTAGGATGCATTTTCCATAT 58.827 40.000 0.00 0.00 35.59 1.78
1907 2136 5.512404 CCGGTAGTAGGATGCATTTTCCATA 60.512 44.000 0.00 0.00 35.59 2.74
1908 2137 4.389374 CGGTAGTAGGATGCATTTTCCAT 58.611 43.478 0.00 0.00 35.59 3.41
1909 2138 3.433031 CCGGTAGTAGGATGCATTTTCCA 60.433 47.826 0.00 0.00 35.59 3.53
1910 2139 3.139077 CCGGTAGTAGGATGCATTTTCC 58.861 50.000 0.00 0.00 0.00 3.13
1911 2140 3.139077 CCCGGTAGTAGGATGCATTTTC 58.861 50.000 0.00 0.00 0.00 2.29
1912 2141 2.508300 ACCCGGTAGTAGGATGCATTTT 59.492 45.455 0.00 0.00 0.00 1.82
1914 2143 1.416401 CACCCGGTAGTAGGATGCATT 59.584 52.381 0.00 0.00 0.00 3.56
1915 2144 1.048601 CACCCGGTAGTAGGATGCAT 58.951 55.000 0.00 0.00 0.00 3.96
1933 2162 6.747414 ATATGAGAAATGGGTGTAGCTACA 57.253 37.500 22.67 22.67 0.00 2.74
1934 2163 7.897864 AGTATATGAGAAATGGGTGTAGCTAC 58.102 38.462 17.30 17.30 0.00 3.58
1935 2164 9.021807 GTAGTATATGAGAAATGGGTGTAGCTA 57.978 37.037 0.00 0.00 0.00 3.32
1936 2165 7.038941 GGTAGTATATGAGAAATGGGTGTAGCT 60.039 40.741 0.00 0.00 0.00 3.32
1937 2166 7.097834 GGTAGTATATGAGAAATGGGTGTAGC 58.902 42.308 0.00 0.00 0.00 3.58
1938 2167 8.190326 TGGTAGTATATGAGAAATGGGTGTAG 57.810 38.462 0.00 0.00 0.00 2.74
1941 2170 7.388776 CACATGGTAGTATATGAGAAATGGGTG 59.611 40.741 0.00 0.00 0.00 4.61
1942 2171 7.453393 CACATGGTAGTATATGAGAAATGGGT 58.547 38.462 0.00 0.00 0.00 4.51
1944 2173 7.912056 CCACATGGTAGTATATGAGAAATGG 57.088 40.000 0.00 0.00 0.00 3.16
2003 2232 9.588096 TCACTTTGGAGTATCTTAGATATAGCA 57.412 33.333 5.15 0.00 33.90 3.49
2089 2318 9.976255 GTGCATACTTTATTTCACGTACAAATA 57.024 29.630 7.47 7.47 0.00 1.40
2090 2319 8.508062 TGTGCATACTTTATTTCACGTACAAAT 58.492 29.630 9.07 9.07 0.00 2.32
2091 2320 7.862648 TGTGCATACTTTATTTCACGTACAAA 58.137 30.769 0.00 0.00 0.00 2.83
2092 2321 7.422878 TGTGCATACTTTATTTCACGTACAA 57.577 32.000 0.00 0.00 0.00 2.41
2093 2322 7.422878 TTGTGCATACTTTATTTCACGTACA 57.577 32.000 0.00 0.00 0.00 2.90
2094 2323 8.716619 TTTTGTGCATACTTTATTTCACGTAC 57.283 30.769 0.00 0.00 0.00 3.67
2110 2339 9.791801 TGGTAGTATGTATCATATTTTGTGCAT 57.208 29.630 0.00 0.00 0.00 3.96
2166 2395 9.855021 TGTACGCGTAGTATGTAGTATATAAGA 57.145 33.333 21.25 0.00 37.69 2.10
2170 2399 9.809096 AGTATGTACGCGTAGTATGTAGTATAT 57.191 33.333 21.25 2.43 37.69 0.86
2171 2400 9.290483 GAGTATGTACGCGTAGTATGTAGTATA 57.710 37.037 21.25 4.94 37.69 1.47
2172 2401 8.031864 AGAGTATGTACGCGTAGTATGTAGTAT 58.968 37.037 21.25 5.95 37.69 2.12
2173 2402 7.371159 AGAGTATGTACGCGTAGTATGTAGTA 58.629 38.462 21.25 0.00 37.69 1.82
2174 2403 6.219473 AGAGTATGTACGCGTAGTATGTAGT 58.781 40.000 21.25 10.64 37.69 2.73
2175 2404 6.183360 GGAGAGTATGTACGCGTAGTATGTAG 60.183 46.154 21.25 0.00 37.69 2.74
2176 2405 5.635280 GGAGAGTATGTACGCGTAGTATGTA 59.365 44.000 21.25 5.63 37.69 2.29
2177 2406 4.450419 GGAGAGTATGTACGCGTAGTATGT 59.550 45.833 21.25 9.14 37.69 2.29
2178 2407 4.450080 TGGAGAGTATGTACGCGTAGTATG 59.550 45.833 21.25 0.00 37.69 2.39
2179 2408 4.635223 TGGAGAGTATGTACGCGTAGTAT 58.365 43.478 21.25 18.64 37.69 2.12
2180 2409 4.058721 TGGAGAGTATGTACGCGTAGTA 57.941 45.455 21.25 12.49 0.00 1.82
2181 2410 2.910199 TGGAGAGTATGTACGCGTAGT 58.090 47.619 21.25 14.01 0.00 2.73
2182 2411 3.957671 TTGGAGAGTATGTACGCGTAG 57.042 47.619 21.25 0.00 0.00 3.51
2183 2412 5.702209 TCATATTGGAGAGTATGTACGCGTA 59.298 40.000 16.41 16.41 31.75 4.42
2184 2413 4.517832 TCATATTGGAGAGTATGTACGCGT 59.482 41.667 19.17 19.17 31.75 6.01
2185 2414 5.043189 TCATATTGGAGAGTATGTACGCG 57.957 43.478 3.53 3.53 31.75 6.01
2186 2415 7.986562 TCTATCATATTGGAGAGTATGTACGC 58.013 38.462 0.00 0.00 31.75 4.42
2223 2452 9.975218 AGTTACTCCCACTTTTATTTCATACAT 57.025 29.630 0.00 0.00 0.00 2.29
2227 2456 9.227777 GTGTAGTTACTCCCACTTTTATTTCAT 57.772 33.333 7.55 0.00 0.00 2.57
2228 2457 7.662669 GGTGTAGTTACTCCCACTTTTATTTCA 59.337 37.037 12.62 0.00 34.61 2.69
2229 2458 7.881751 AGGTGTAGTTACTCCCACTTTTATTTC 59.118 37.037 12.62 0.00 39.92 2.17
2230 2459 7.664318 CAGGTGTAGTTACTCCCACTTTTATTT 59.336 37.037 12.62 0.00 39.92 1.40
2231 2460 7.166167 CAGGTGTAGTTACTCCCACTTTTATT 58.834 38.462 12.62 0.00 39.92 1.40
2232 2461 6.296259 CCAGGTGTAGTTACTCCCACTTTTAT 60.296 42.308 12.62 0.00 39.92 1.40
2233 2462 5.012354 CCAGGTGTAGTTACTCCCACTTTTA 59.988 44.000 12.62 0.00 39.92 1.52
2234 2463 4.202430 CCAGGTGTAGTTACTCCCACTTTT 60.202 45.833 12.62 0.83 39.92 2.27
2235 2464 3.326880 CCAGGTGTAGTTACTCCCACTTT 59.673 47.826 12.62 2.66 39.92 2.66
2236 2465 2.904434 CCAGGTGTAGTTACTCCCACTT 59.096 50.000 12.62 4.97 39.92 3.16
2237 2466 2.158204 ACCAGGTGTAGTTACTCCCACT 60.158 50.000 12.62 0.00 39.92 4.00
2238 2467 2.254508 ACCAGGTGTAGTTACTCCCAC 58.745 52.381 0.00 6.56 39.92 4.61
2239 2468 2.708037 ACCAGGTGTAGTTACTCCCA 57.292 50.000 0.00 0.00 39.92 4.37
2249 2478 7.519927 ACAAATTTTTCCTACTACCAGGTGTA 58.480 34.615 0.76 2.15 36.99 2.90
2250 2479 6.370453 ACAAATTTTTCCTACTACCAGGTGT 58.630 36.000 0.76 0.92 36.99 4.16
2251 2480 6.072119 GGACAAATTTTTCCTACTACCAGGTG 60.072 42.308 14.90 0.00 36.99 4.00
2252 2481 6.008331 GGACAAATTTTTCCTACTACCAGGT 58.992 40.000 14.90 0.00 36.99 4.00
2253 2482 6.246163 AGGACAAATTTTTCCTACTACCAGG 58.754 40.000 21.79 0.00 40.70 4.45
2254 2483 6.374613 GGAGGACAAATTTTTCCTACTACCAG 59.625 42.308 23.29 0.00 42.68 4.00
2255 2484 6.243148 GGAGGACAAATTTTTCCTACTACCA 58.757 40.000 23.29 0.00 42.68 3.25
2256 2485 6.754702 GGAGGACAAATTTTTCCTACTACC 57.245 41.667 23.29 17.00 42.68 3.18
2285 2514 9.607333 TGAGAAACAATCTATATACTCCATCCT 57.393 33.333 0.00 0.00 38.96 3.24
2286 2515 9.646427 GTGAGAAACAATCTATATACTCCATCC 57.354 37.037 0.00 0.00 38.96 3.51
2289 2518 9.421399 TGAGTGAGAAACAATCTATATACTCCA 57.579 33.333 0.00 0.00 42.99 3.86
2297 2526 7.978975 GCTCTACTTGAGTGAGAAACAATCTAT 59.021 37.037 11.96 0.00 42.99 1.98
2298 2527 7.316640 GCTCTACTTGAGTGAGAAACAATCTA 58.683 38.462 11.96 0.00 42.99 1.98
2299 2528 6.162777 GCTCTACTTGAGTGAGAAACAATCT 58.837 40.000 11.96 0.00 42.99 2.40
2300 2529 5.350091 GGCTCTACTTGAGTGAGAAACAATC 59.650 44.000 11.96 0.00 44.41 2.67
2301 2530 5.241662 GGCTCTACTTGAGTGAGAAACAAT 58.758 41.667 11.96 0.00 44.41 2.71
2302 2531 4.632153 GGCTCTACTTGAGTGAGAAACAA 58.368 43.478 11.96 0.00 44.41 2.83
2303 2532 3.305403 CGGCTCTACTTGAGTGAGAAACA 60.305 47.826 11.96 0.00 44.41 2.83
2304 2533 3.246619 CGGCTCTACTTGAGTGAGAAAC 58.753 50.000 11.96 4.16 44.41 2.78
2305 2534 2.891580 ACGGCTCTACTTGAGTGAGAAA 59.108 45.455 11.96 0.00 44.41 2.52
2306 2535 2.229062 CACGGCTCTACTTGAGTGAGAA 59.771 50.000 11.96 0.00 44.41 2.87
2307 2536 1.813178 CACGGCTCTACTTGAGTGAGA 59.187 52.381 11.96 3.79 44.41 3.27
2308 2537 1.542030 ACACGGCTCTACTTGAGTGAG 59.458 52.381 0.19 0.99 44.41 3.51
2309 2538 1.269723 CACACGGCTCTACTTGAGTGA 59.730 52.381 0.19 0.00 44.41 3.41
2310 2539 1.670087 CCACACGGCTCTACTTGAGTG 60.670 57.143 0.00 0.00 44.41 3.51
2311 2540 0.603569 CCACACGGCTCTACTTGAGT 59.396 55.000 0.00 0.00 44.41 3.41
2312 2541 0.888619 TCCACACGGCTCTACTTGAG 59.111 55.000 0.00 0.00 45.33 3.02
2313 2542 0.888619 CTCCACACGGCTCTACTTGA 59.111 55.000 0.00 0.00 0.00 3.02
2314 2543 0.888619 TCTCCACACGGCTCTACTTG 59.111 55.000 0.00 0.00 0.00 3.16
2315 2544 1.478510 CATCTCCACACGGCTCTACTT 59.521 52.381 0.00 0.00 0.00 2.24
2316 2545 1.107114 CATCTCCACACGGCTCTACT 58.893 55.000 0.00 0.00 0.00 2.57
2317 2546 1.103803 TCATCTCCACACGGCTCTAC 58.896 55.000 0.00 0.00 0.00 2.59
2318 2547 1.476891 GTTCATCTCCACACGGCTCTA 59.523 52.381 0.00 0.00 0.00 2.43
2319 2548 0.247736 GTTCATCTCCACACGGCTCT 59.752 55.000 0.00 0.00 0.00 4.09
2320 2549 0.037326 TGTTCATCTCCACACGGCTC 60.037 55.000 0.00 0.00 0.00 4.70
2321 2550 0.396435 TTGTTCATCTCCACACGGCT 59.604 50.000 0.00 0.00 0.00 5.52
2322 2551 1.131126 CATTGTTCATCTCCACACGGC 59.869 52.381 0.00 0.00 0.00 5.68
2323 2552 2.698803 TCATTGTTCATCTCCACACGG 58.301 47.619 0.00 0.00 0.00 4.94
2324 2553 4.186926 AGATCATTGTTCATCTCCACACG 58.813 43.478 0.00 0.00 0.00 4.49
2325 2554 5.181009 TGAGATCATTGTTCATCTCCACAC 58.819 41.667 9.95 0.00 43.09 3.82
2326 2555 5.425196 TGAGATCATTGTTCATCTCCACA 57.575 39.130 9.95 0.00 43.09 4.17
2327 2556 6.549952 GTTTGAGATCATTGTTCATCTCCAC 58.450 40.000 9.95 5.19 43.09 4.02
2328 2557 5.352293 CGTTTGAGATCATTGTTCATCTCCA 59.648 40.000 9.95 0.00 43.09 3.86
2329 2558 5.352569 ACGTTTGAGATCATTGTTCATCTCC 59.647 40.000 9.95 0.00 43.09 3.71
2330 2559 6.128445 ACACGTTTGAGATCATTGTTCATCTC 60.128 38.462 0.00 6.82 43.75 2.75
2331 2560 5.702670 ACACGTTTGAGATCATTGTTCATCT 59.297 36.000 0.00 0.00 31.70 2.90
2332 2561 5.931532 ACACGTTTGAGATCATTGTTCATC 58.068 37.500 0.00 0.00 0.00 2.92
2333 2562 5.947228 ACACGTTTGAGATCATTGTTCAT 57.053 34.783 0.00 0.00 0.00 2.57
2334 2563 6.426633 ACATACACGTTTGAGATCATTGTTCA 59.573 34.615 0.00 0.00 0.00 3.18
2335 2564 6.738200 CACATACACGTTTGAGATCATTGTTC 59.262 38.462 0.00 0.00 0.00 3.18
2336 2565 6.204688 ACACATACACGTTTGAGATCATTGTT 59.795 34.615 0.00 0.00 0.00 2.83
2337 2566 5.700832 ACACATACACGTTTGAGATCATTGT 59.299 36.000 0.00 0.00 0.00 2.71
2338 2567 6.169419 ACACATACACGTTTGAGATCATTG 57.831 37.500 0.00 0.00 0.00 2.82
2339 2568 7.224753 GGATACACATACACGTTTGAGATCATT 59.775 37.037 0.00 0.00 0.00 2.57
2340 2569 6.701841 GGATACACATACACGTTTGAGATCAT 59.298 38.462 0.00 0.00 0.00 2.45
2341 2570 6.040247 GGATACACATACACGTTTGAGATCA 58.960 40.000 0.00 0.00 0.00 2.92
2342 2571 6.273825 AGGATACACATACACGTTTGAGATC 58.726 40.000 0.00 0.00 41.41 2.75
2343 2572 6.222038 AGGATACACATACACGTTTGAGAT 57.778 37.500 0.00 0.00 41.41 2.75
2344 2573 5.654603 AGGATACACATACACGTTTGAGA 57.345 39.130 0.00 0.00 41.41 3.27
2345 2574 5.637810 ACAAGGATACACATACACGTTTGAG 59.362 40.000 0.00 0.00 41.41 3.02
2346 2575 5.543714 ACAAGGATACACATACACGTTTGA 58.456 37.500 0.00 0.00 41.41 2.69
2347 2576 5.856126 ACAAGGATACACATACACGTTTG 57.144 39.130 0.00 0.00 41.41 2.93
2348 2577 5.761234 ACAACAAGGATACACATACACGTTT 59.239 36.000 0.00 0.00 41.41 3.60
2349 2578 5.302360 ACAACAAGGATACACATACACGTT 58.698 37.500 0.00 0.00 41.41 3.99
2350 2579 4.890088 ACAACAAGGATACACATACACGT 58.110 39.130 0.00 0.00 41.41 4.49
2351 2580 7.096189 GCTATACAACAAGGATACACATACACG 60.096 40.741 0.00 0.00 41.41 4.49
2352 2581 7.709182 TGCTATACAACAAGGATACACATACAC 59.291 37.037 0.00 0.00 41.41 2.90
2353 2582 7.787028 TGCTATACAACAAGGATACACATACA 58.213 34.615 0.00 0.00 41.41 2.29
2354 2583 7.926555 ACTGCTATACAACAAGGATACACATAC 59.073 37.037 0.00 0.00 41.41 2.39
2355 2584 7.926018 CACTGCTATACAACAAGGATACACATA 59.074 37.037 0.00 0.00 41.41 2.29
2356 2585 6.763135 CACTGCTATACAACAAGGATACACAT 59.237 38.462 0.00 0.00 41.41 3.21
2357 2586 6.071051 TCACTGCTATACAACAAGGATACACA 60.071 38.462 0.00 0.00 41.41 3.72
2358 2587 6.255887 GTCACTGCTATACAACAAGGATACAC 59.744 42.308 0.00 0.00 41.41 2.90
2359 2588 6.071051 TGTCACTGCTATACAACAAGGATACA 60.071 38.462 0.00 0.00 41.41 2.29
2360 2589 6.338146 TGTCACTGCTATACAACAAGGATAC 58.662 40.000 0.00 0.00 0.00 2.24
2361 2590 6.538945 TGTCACTGCTATACAACAAGGATA 57.461 37.500 0.00 0.00 0.00 2.59
2362 2591 5.420725 TGTCACTGCTATACAACAAGGAT 57.579 39.130 0.00 0.00 0.00 3.24
2363 2592 4.882842 TGTCACTGCTATACAACAAGGA 57.117 40.909 0.00 0.00 0.00 3.36
2364 2593 5.220472 CGATTGTCACTGCTATACAACAAGG 60.220 44.000 0.00 0.00 36.06 3.61
2365 2594 5.576774 TCGATTGTCACTGCTATACAACAAG 59.423 40.000 0.00 0.00 36.06 3.16
2366 2595 5.474825 TCGATTGTCACTGCTATACAACAA 58.525 37.500 0.00 0.00 36.06 2.83
2367 2596 5.066968 TCGATTGTCACTGCTATACAACA 57.933 39.130 0.00 0.00 36.06 3.33
2368 2597 6.589830 AATCGATTGTCACTGCTATACAAC 57.410 37.500 10.50 0.00 36.06 3.32
2369 2598 6.037062 CCAAATCGATTGTCACTGCTATACAA 59.963 38.462 12.25 0.00 37.32 2.41
2370 2599 5.523552 CCAAATCGATTGTCACTGCTATACA 59.476 40.000 12.25 0.00 37.32 2.29
2371 2600 5.753438 TCCAAATCGATTGTCACTGCTATAC 59.247 40.000 12.25 0.00 37.32 1.47
2372 2601 5.912892 TCCAAATCGATTGTCACTGCTATA 58.087 37.500 12.25 0.00 37.32 1.31
2373 2602 4.769688 TCCAAATCGATTGTCACTGCTAT 58.230 39.130 12.25 0.00 37.32 2.97
2374 2603 4.183865 CTCCAAATCGATTGTCACTGCTA 58.816 43.478 12.25 0.00 37.32 3.49
2375 2604 3.005554 CTCCAAATCGATTGTCACTGCT 58.994 45.455 12.25 0.00 37.32 4.24
2376 2605 2.096496 CCTCCAAATCGATTGTCACTGC 59.904 50.000 12.25 0.00 37.32 4.40
2377 2606 2.679837 CCCTCCAAATCGATTGTCACTG 59.320 50.000 12.25 5.60 37.32 3.66
2378 2607 2.571653 TCCCTCCAAATCGATTGTCACT 59.428 45.455 12.25 0.00 37.32 3.41
2379 2608 2.985896 TCCCTCCAAATCGATTGTCAC 58.014 47.619 12.25 0.00 37.32 3.67
2380 2609 3.244735 TGTTCCCTCCAAATCGATTGTCA 60.245 43.478 12.25 0.00 37.32 3.58
2381 2610 3.343617 TGTTCCCTCCAAATCGATTGTC 58.656 45.455 12.25 0.00 37.32 3.18
2382 2611 3.433306 TGTTCCCTCCAAATCGATTGT 57.567 42.857 12.25 0.00 37.32 2.71
2383 2612 3.428045 GCTTGTTCCCTCCAAATCGATTG 60.428 47.826 12.25 6.05 38.84 2.67
2384 2613 2.755103 GCTTGTTCCCTCCAAATCGATT 59.245 45.455 4.39 4.39 0.00 3.34
2385 2614 2.025887 AGCTTGTTCCCTCCAAATCGAT 60.026 45.455 0.00 0.00 0.00 3.59
2386 2615 1.351017 AGCTTGTTCCCTCCAAATCGA 59.649 47.619 0.00 0.00 0.00 3.59
2387 2616 1.470098 CAGCTTGTTCCCTCCAAATCG 59.530 52.381 0.00 0.00 0.00 3.34
2388 2617 2.795329 TCAGCTTGTTCCCTCCAAATC 58.205 47.619 0.00 0.00 0.00 2.17
2389 2618 2.893489 GTTCAGCTTGTTCCCTCCAAAT 59.107 45.455 0.00 0.00 0.00 2.32
2390 2619 2.306847 GTTCAGCTTGTTCCCTCCAAA 58.693 47.619 0.00 0.00 0.00 3.28
2391 2620 1.214175 TGTTCAGCTTGTTCCCTCCAA 59.786 47.619 0.00 0.00 0.00 3.53
2392 2621 0.843309 TGTTCAGCTTGTTCCCTCCA 59.157 50.000 0.00 0.00 0.00 3.86
2393 2622 1.981256 TTGTTCAGCTTGTTCCCTCC 58.019 50.000 0.00 0.00 0.00 4.30
2394 2623 3.858503 GCAATTGTTCAGCTTGTTCCCTC 60.859 47.826 7.40 0.00 0.00 4.30
2395 2624 2.036346 GCAATTGTTCAGCTTGTTCCCT 59.964 45.455 7.40 0.00 0.00 4.20
2396 2625 2.224018 TGCAATTGTTCAGCTTGTTCCC 60.224 45.455 7.40 0.00 0.00 3.97
2397 2626 3.054878 CTGCAATTGTTCAGCTTGTTCC 58.945 45.455 7.40 0.00 0.00 3.62
2405 2634 1.265095 ACGACAGCTGCAATTGTTCAG 59.735 47.619 15.27 7.92 0.00 3.02
2406 2635 1.264020 GACGACAGCTGCAATTGTTCA 59.736 47.619 15.27 0.00 0.00 3.18
2407 2636 1.400242 GGACGACAGCTGCAATTGTTC 60.400 52.381 15.27 0.00 0.00 3.18
2408 2637 0.593128 GGACGACAGCTGCAATTGTT 59.407 50.000 15.27 0.00 0.00 2.83
2409 2638 0.250467 AGGACGACAGCTGCAATTGT 60.250 50.000 15.27 4.29 0.00 2.71
2410 2639 1.662629 CTAGGACGACAGCTGCAATTG 59.337 52.381 15.27 0.00 0.00 2.32
2411 2640 2.009042 GCTAGGACGACAGCTGCAATT 61.009 52.381 15.27 0.00 34.86 2.32
2412 2641 0.460987 GCTAGGACGACAGCTGCAAT 60.461 55.000 15.27 0.00 34.86 3.56
2413 2642 1.079819 GCTAGGACGACAGCTGCAA 60.080 57.895 15.27 0.00 34.86 4.08
2414 2643 2.573869 GCTAGGACGACAGCTGCA 59.426 61.111 15.27 0.00 34.86 4.41
2415 2644 1.384989 TAGGCTAGGACGACAGCTGC 61.385 60.000 15.27 5.81 37.91 5.25
2416 2645 0.665835 CTAGGCTAGGACGACAGCTG 59.334 60.000 13.48 13.48 37.91 4.24
2417 2646 3.103637 CTAGGCTAGGACGACAGCT 57.896 57.895 13.92 0.00 37.91 4.24


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

AutoCloner maintained by Alex Coulton.