Multiple sequence alignment - TraesCS2A01G205000

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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 TraesCS2A01G205000 chr2A 100.000 2354 0 0 1 2354 182390957 182393310 0.000000e+00 4348.0
1 TraesCS2A01G205000 chr2A 94.980 1235 55 4 665 1895 551453249 551452018 0.000000e+00 1930.0
2 TraesCS2A01G205000 chr1A 95.635 1260 51 1 665 1920 3977493 3978752 0.000000e+00 2019.0
3 TraesCS2A01G205000 chr1A 95.635 1260 50 2 665 1920 536672970 536671712 0.000000e+00 2017.0
4 TraesCS2A01G205000 chr1A 95.709 1235 50 2 688 1920 497343264 497342031 0.000000e+00 1984.0
5 TraesCS2A01G205000 chr1D 94.944 1246 60 1 678 1920 60171765 60170520 0.000000e+00 1949.0
6 TraesCS2A01G205000 chr1D 94.222 1246 64 2 678 1920 205134646 205133406 0.000000e+00 1895.0
7 TraesCS2A01G205000 chr2D 94.623 1246 64 1 678 1920 73126821 73125576 0.000000e+00 1927.0
8 TraesCS2A01G205000 chr2D 93.462 673 27 5 3 659 168160368 168159697 0.000000e+00 983.0
9 TraesCS2A01G205000 chr2D 91.576 368 24 7 1919 2285 168159528 168159167 3.490000e-138 501.0
10 TraesCS2A01G205000 chr3D 94.512 1239 65 1 685 1920 584701334 584700096 0.000000e+00 1908.0
11 TraesCS2A01G205000 chr7D 94.431 1239 65 2 685 1920 497560964 497562201 0.000000e+00 1903.0
12 TraesCS2A01G205000 chr2B 93.006 672 32 6 3 664 230064443 230065109 0.000000e+00 966.0
13 TraesCS2A01G205000 chr2B 91.281 367 16 3 1919 2285 230065112 230065462 9.780000e-134 486.0
14 TraesCS2A01G205000 chr2B 85.526 76 11 0 152 227 622720295 622720370 1.940000e-11 80.5
15 TraesCS2A01G205000 chr5A 85.185 81 6 6 160 237 346350840 346350917 6.970000e-11 78.7
16 TraesCS2A01G205000 chr1B 85.526 76 9 2 162 237 217128494 217128421 6.970000e-11 78.7
17 TraesCS2A01G205000 chr7A 84.146 82 10 3 156 237 247179457 247179535 2.510000e-10 76.8
18 TraesCS2A01G205000 chr6D 84.615 78 8 3 162 237 423215484 423215409 9.020000e-10 75.0
19 TraesCS2A01G205000 chr6A 84.615 78 8 3 162 237 522460300 522460375 9.020000e-10 75.0
20 TraesCS2A01G205000 chr3A 82.955 88 8 6 152 237 700216142 700216060 3.250000e-09 73.1


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 TraesCS2A01G205000 chr2A 182390957 182393310 2353 False 4348 4348 100.0000 1 2354 1 chr2A.!!$F1 2353
1 TraesCS2A01G205000 chr2A 551452018 551453249 1231 True 1930 1930 94.9800 665 1895 1 chr2A.!!$R1 1230
2 TraesCS2A01G205000 chr1A 3977493 3978752 1259 False 2019 2019 95.6350 665 1920 1 chr1A.!!$F1 1255
3 TraesCS2A01G205000 chr1A 536671712 536672970 1258 True 2017 2017 95.6350 665 1920 1 chr1A.!!$R2 1255
4 TraesCS2A01G205000 chr1A 497342031 497343264 1233 True 1984 1984 95.7090 688 1920 1 chr1A.!!$R1 1232
5 TraesCS2A01G205000 chr1D 60170520 60171765 1245 True 1949 1949 94.9440 678 1920 1 chr1D.!!$R1 1242
6 TraesCS2A01G205000 chr1D 205133406 205134646 1240 True 1895 1895 94.2220 678 1920 1 chr1D.!!$R2 1242
7 TraesCS2A01G205000 chr2D 73125576 73126821 1245 True 1927 1927 94.6230 678 1920 1 chr2D.!!$R1 1242
8 TraesCS2A01G205000 chr2D 168159167 168160368 1201 True 742 983 92.5190 3 2285 2 chr2D.!!$R2 2282
9 TraesCS2A01G205000 chr3D 584700096 584701334 1238 True 1908 1908 94.5120 685 1920 1 chr3D.!!$R1 1235
10 TraesCS2A01G205000 chr7D 497560964 497562201 1237 False 1903 1903 94.4310 685 1920 1 chr7D.!!$F1 1235
11 TraesCS2A01G205000 chr2B 230064443 230065462 1019 False 726 966 92.1435 3 2285 2 chr2B.!!$F2 2282

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
616 640 0.526096 CCGCCAACATGCTTATGTGC 60.526 55.0 0.0 0.0 34.56 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2307 2344 0.034337 GGCTCGGTTGTAGTGTTCCA 59.966 55.0 0.0 0.0 0.0 3.53 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
28 29 9.292195 CTACTAACTCCATGAAAACCCTTTAAA 57.708 33.333 0.00 0.00 0.00 1.52
37 38 7.202056 CCATGAAAACCCTTTAAACCTAACCTT 60.202 37.037 0.00 0.00 0.00 3.50
46 47 7.094334 CCCTTTAAACCTAACCTTCACTTCATC 60.094 40.741 0.00 0.00 0.00 2.92
59 60 7.389053 ACCTTCACTTCATCTTCACAATCTTAC 59.611 37.037 0.00 0.00 0.00 2.34
78 79 1.018226 CCAGAAGCTTGCCTCGTCTG 61.018 60.000 2.10 2.59 38.95 3.51
133 151 1.480954 ACACCTCACGAACTGTCAAGT 59.519 47.619 0.00 0.00 38.71 3.16
141 159 1.605753 GAACTGTCAAGTGGTTCCCC 58.394 55.000 0.00 0.00 36.51 4.81
142 160 0.923358 AACTGTCAAGTGGTTCCCCA 59.077 50.000 0.00 0.00 36.51 4.96
170 189 7.201920 CCCCGGAATTCTAGAATATGTCGATAT 60.202 40.741 18.23 0.00 0.00 1.63
272 296 6.994868 TTTGTGTTACAACAACAGAAACAC 57.005 33.333 7.98 9.15 46.32 3.32
287 311 9.559958 CAACAGAAACACAAGGTGAATATATTC 57.440 33.333 17.09 17.09 36.96 1.75
304 328 3.634568 ATTCACTAGAATCTCGCGGAG 57.365 47.619 6.13 2.33 40.39 4.63
521 545 3.924114 TTGCTTCTGGAATCCGGAATA 57.076 42.857 22.59 12.79 46.34 1.75
616 640 0.526096 CCGCCAACATGCTTATGTGC 60.526 55.000 0.00 0.00 34.56 4.57
661 685 3.887741 TGCAATTATACATGCATGTCGC 58.112 40.909 34.54 25.04 46.87 5.19
740 768 6.631962 ACAAAGTAGTACATTAGTGAGCCTC 58.368 40.000 2.52 0.00 0.00 4.70
876 904 1.228367 GCCCCATCCTAGCCACATG 60.228 63.158 0.00 0.00 0.00 3.21
1013 1041 2.672651 CACCATGGCGCCAGACAA 60.673 61.111 35.36 11.21 39.91 3.18
1183 1213 0.998928 AGCCCACCATCCACAACATA 59.001 50.000 0.00 0.00 0.00 2.29
1284 1317 5.237344 CAGACTGAATTTTGGACTTTCGTCT 59.763 40.000 0.00 0.00 40.10 4.18
1345 1378 1.536907 TCCAGGAAGGGTAACGGCA 60.537 57.895 0.00 0.00 38.24 5.69
1349 1382 1.134098 CAGGAAGGGTAACGGCATCAT 60.134 52.381 0.00 0.00 37.60 2.45
1361 1394 0.673333 GGCATCATGTGACGTCACCA 60.673 55.000 38.12 27.87 45.88 4.17
1403 1436 0.400594 CAAAGTTTCCTCCGGTCCCT 59.599 55.000 0.00 0.00 0.00 4.20
1415 1448 1.573108 CGGTCCCTATCCTATGCCAT 58.427 55.000 0.00 0.00 0.00 4.40
1539 1572 1.588674 CTCGTAGATCTCCAGACGCT 58.411 55.000 10.28 0.00 35.33 5.07
1641 1674 3.295273 CCGATCTGGATCCGGCGA 61.295 66.667 16.48 8.15 42.00 5.54
1809 1842 2.751436 GCGCCAGCCAAGATGGAA 60.751 61.111 2.43 0.00 42.34 3.53
1959 1992 2.412089 GACAAAAGCGTCGCTCTATTGT 59.588 45.455 30.01 30.01 40.13 2.71
1960 1993 3.581755 ACAAAAGCGTCGCTCTATTGTA 58.418 40.909 29.20 0.00 38.25 2.41
1961 1994 4.181578 ACAAAAGCGTCGCTCTATTGTAT 58.818 39.130 29.20 15.70 38.25 2.29
1962 1995 4.630069 ACAAAAGCGTCGCTCTATTGTATT 59.370 37.500 29.20 14.72 38.25 1.89
1963 1996 4.778842 AAAGCGTCGCTCTATTGTATTG 57.221 40.909 21.98 0.00 38.25 1.90
1964 1997 3.438297 AGCGTCGCTCTATTGTATTGT 57.562 42.857 15.47 0.00 30.62 2.71
1965 1998 4.563337 AGCGTCGCTCTATTGTATTGTA 57.437 40.909 15.47 0.00 30.62 2.41
1966 1999 5.122512 AGCGTCGCTCTATTGTATTGTAT 57.877 39.130 15.47 0.00 30.62 2.29
1967 2000 6.250344 AGCGTCGCTCTATTGTATTGTATA 57.750 37.500 15.47 0.00 30.62 1.47
2097 2134 0.759346 ATCCCTCAATCTACCGGTGC 59.241 55.000 19.93 0.00 0.00 5.01
2162 2199 0.320374 CCACTTTACGGCTGGTCTCA 59.680 55.000 0.00 0.00 0.00 3.27
2163 2200 1.066143 CCACTTTACGGCTGGTCTCAT 60.066 52.381 0.00 0.00 0.00 2.90
2165 2202 2.673368 CACTTTACGGCTGGTCTCATTC 59.327 50.000 0.00 0.00 0.00 2.67
2176 2213 5.066505 GGCTGGTCTCATTCGAATTATTGTT 59.933 40.000 8.21 0.00 0.00 2.83
2226 2263 1.091537 CCACCCATATTTTGCGACGT 58.908 50.000 0.00 0.00 0.00 4.34
2231 2268 3.168193 CCCATATTTTGCGACGTGAAAC 58.832 45.455 0.00 0.00 0.00 2.78
2248 2285 0.951558 AACCCACACGCTGATTGAAC 59.048 50.000 0.00 0.00 0.00 3.18
2253 2290 1.126113 CACACGCTGATTGAACGGTAC 59.874 52.381 0.00 0.00 0.00 3.34
2287 2324 8.862325 TGGCTAAATGTATTATTATCCACTGG 57.138 34.615 0.00 0.00 0.00 4.00
2288 2325 8.444783 TGGCTAAATGTATTATTATCCACTGGT 58.555 33.333 0.00 0.00 0.00 4.00
2289 2326 8.947115 GGCTAAATGTATTATTATCCACTGGTC 58.053 37.037 0.00 0.00 0.00 4.02
2290 2327 9.726438 GCTAAATGTATTATTATCCACTGGTCT 57.274 33.333 0.00 0.00 0.00 3.85
2292 2329 8.924511 AAATGTATTATTATCCACTGGTCTGG 57.075 34.615 0.00 0.00 0.00 3.86
2293 2330 7.633018 ATGTATTATTATCCACTGGTCTGGT 57.367 36.000 0.00 0.00 32.50 4.00
2294 2331 8.736097 ATGTATTATTATCCACTGGTCTGGTA 57.264 34.615 0.00 0.00 32.50 3.25
2295 2332 8.555896 TGTATTATTATCCACTGGTCTGGTAA 57.444 34.615 0.00 0.00 32.50 2.85
2296 2333 8.647796 TGTATTATTATCCACTGGTCTGGTAAG 58.352 37.037 0.00 0.00 32.50 2.34
2297 2334 7.931015 ATTATTATCCACTGGTCTGGTAAGA 57.069 36.000 0.00 0.00 32.50 2.10
2298 2335 5.878406 ATTATCCACTGGTCTGGTAAGAG 57.122 43.478 0.00 0.00 31.37 2.85
2299 2336 1.938585 TCCACTGGTCTGGTAAGAGG 58.061 55.000 0.00 0.00 31.37 3.69
2300 2337 1.431633 TCCACTGGTCTGGTAAGAGGA 59.568 52.381 0.00 0.00 31.37 3.71
2301 2338 1.827969 CCACTGGTCTGGTAAGAGGAG 59.172 57.143 0.00 0.00 31.37 3.69
2302 2339 2.557676 CCACTGGTCTGGTAAGAGGAGA 60.558 54.545 0.00 0.00 31.37 3.71
2303 2340 3.370104 CACTGGTCTGGTAAGAGGAGAT 58.630 50.000 0.00 0.00 31.37 2.75
2304 2341 4.537751 CACTGGTCTGGTAAGAGGAGATA 58.462 47.826 0.00 0.00 31.37 1.98
2305 2342 4.582656 CACTGGTCTGGTAAGAGGAGATAG 59.417 50.000 0.00 0.00 31.37 2.08
2306 2343 4.479056 ACTGGTCTGGTAAGAGGAGATAGA 59.521 45.833 0.00 0.00 31.37 1.98
2307 2344 5.135362 ACTGGTCTGGTAAGAGGAGATAGAT 59.865 44.000 0.00 0.00 31.37 1.98
2308 2345 5.389520 TGGTCTGGTAAGAGGAGATAGATG 58.610 45.833 0.00 0.00 31.37 2.90
2309 2346 4.770010 GGTCTGGTAAGAGGAGATAGATGG 59.230 50.000 0.00 0.00 31.37 3.51
2310 2347 5.458362 GGTCTGGTAAGAGGAGATAGATGGA 60.458 48.000 0.00 0.00 31.37 3.41
2311 2348 6.071984 GTCTGGTAAGAGGAGATAGATGGAA 58.928 44.000 0.00 0.00 31.37 3.53
2312 2349 6.015772 GTCTGGTAAGAGGAGATAGATGGAAC 60.016 46.154 0.00 0.00 31.37 3.62
2313 2350 8.343645 GTCTGGTAAGAGGAGATAGATGGAACA 61.344 44.444 0.00 0.00 36.10 3.18
2325 2362 3.599412 TGGAACACTACAACCGAGC 57.401 52.632 0.00 0.00 0.00 5.03
2326 2363 0.034337 TGGAACACTACAACCGAGCC 59.966 55.000 0.00 0.00 0.00 4.70
2327 2364 1.012486 GGAACACTACAACCGAGCCG 61.012 60.000 0.00 0.00 0.00 5.52
2328 2365 0.038892 GAACACTACAACCGAGCCGA 60.039 55.000 0.00 0.00 0.00 5.54
2329 2366 0.606604 AACACTACAACCGAGCCGAT 59.393 50.000 0.00 0.00 0.00 4.18
2330 2367 0.108804 ACACTACAACCGAGCCGATG 60.109 55.000 0.00 0.00 0.00 3.84
2331 2368 1.153628 ACTACAACCGAGCCGATGC 60.154 57.895 0.00 0.00 37.95 3.91
2332 2369 1.883084 CTACAACCGAGCCGATGCC 60.883 63.158 0.00 0.00 38.69 4.40
2333 2370 2.572095 CTACAACCGAGCCGATGCCA 62.572 60.000 0.00 0.00 38.69 4.92
2334 2371 2.173758 TACAACCGAGCCGATGCCAA 62.174 55.000 0.00 0.00 38.69 4.52
2335 2372 2.436646 AACCGAGCCGATGCCAAG 60.437 61.111 0.00 0.00 38.69 3.61
2337 2374 4.845580 CCGAGCCGATGCCAAGCT 62.846 66.667 0.00 0.00 40.24 3.74
2338 2375 3.570638 CGAGCCGATGCCAAGCTG 61.571 66.667 0.00 0.00 36.87 4.24
2339 2376 3.885521 GAGCCGATGCCAAGCTGC 61.886 66.667 0.00 0.00 36.87 5.25
2340 2377 4.728110 AGCCGATGCCAAGCTGCA 62.728 61.111 1.02 0.65 46.94 4.41
2341 2378 4.189188 GCCGATGCCAAGCTGCAG 62.189 66.667 10.11 10.11 45.93 4.41
2342 2379 4.189188 CCGATGCCAAGCTGCAGC 62.189 66.667 31.53 31.53 45.93 5.25
2343 2380 4.189188 CGATGCCAAGCTGCAGCC 62.189 66.667 34.39 19.67 44.50 4.85
2344 2381 2.754658 GATGCCAAGCTGCAGCCT 60.755 61.111 34.39 20.85 45.93 4.58
2345 2382 3.064987 GATGCCAAGCTGCAGCCTG 62.065 63.158 34.39 30.56 45.93 4.85
2346 2383 3.881019 ATGCCAAGCTGCAGCCTGT 62.881 57.895 34.39 17.91 45.93 4.00
2347 2384 2.360350 GCCAAGCTGCAGCCTGTA 60.360 61.111 34.39 0.00 43.38 2.74
2348 2385 2.694760 GCCAAGCTGCAGCCTGTAC 61.695 63.158 34.39 21.25 43.38 2.90
2349 2386 1.302752 CCAAGCTGCAGCCTGTACA 60.303 57.895 34.39 0.00 43.38 2.90
2350 2387 1.580845 CCAAGCTGCAGCCTGTACAC 61.581 60.000 34.39 5.26 43.38 2.90
2351 2388 1.669115 AAGCTGCAGCCTGTACACG 60.669 57.895 34.39 0.00 43.38 4.49
2352 2389 2.048222 GCTGCAGCCTGTACACGA 60.048 61.111 28.76 0.00 34.31 4.35
2353 2390 2.097038 GCTGCAGCCTGTACACGAG 61.097 63.158 28.76 0.00 34.31 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.301169 AGGGTTTTCATGGAGTTAGTAGAG 57.699 41.667 0.00 0.00 0.00 2.43
1 2 6.697641 AAGGGTTTTCATGGAGTTAGTAGA 57.302 37.500 0.00 0.00 0.00 2.59
28 29 5.071788 TGTGAAGATGAAGTGAAGGTTAGGT 59.928 40.000 0.00 0.00 0.00 3.08
37 38 6.768483 TGGTAAGATTGTGAAGATGAAGTGA 58.232 36.000 0.00 0.00 0.00 3.41
46 47 5.618640 GCAAGCTTCTGGTAAGATTGTGAAG 60.619 44.000 14.86 0.00 43.36 3.02
59 60 1.018226 CAGACGAGGCAAGCTTCTGG 61.018 60.000 0.00 0.00 31.78 3.86
78 79 2.747436 CCAAGCTTGTCTTTCTTTGCC 58.253 47.619 24.35 0.00 31.27 4.52
141 159 4.041691 ACATATTCTAGAATTCCGGGGGTG 59.958 45.833 22.60 11.08 32.50 4.61
142 160 4.240323 ACATATTCTAGAATTCCGGGGGT 58.760 43.478 22.60 8.40 32.50 4.95
229 248 8.465999 ACACAAAAAGAATGACATGTTACTTCA 58.534 29.630 0.00 0.00 0.00 3.02
287 311 1.309950 TCCTCCGCGAGATTCTAGTG 58.690 55.000 8.23 0.81 0.00 2.74
304 328 0.321653 AGTCTTGCACCCACGATTCC 60.322 55.000 0.00 0.00 0.00 3.01
598 622 0.862701 CGCACATAAGCATGTTGGCG 60.863 55.000 7.26 7.26 45.29 5.69
616 640 2.395690 GGACAAATCACGAGCGCG 59.604 61.111 8.75 8.75 44.79 6.86
659 683 2.028766 ATCGTCGAAATGCAGCTGCG 62.029 55.000 32.11 18.34 45.83 5.18
660 684 0.930310 TATCGTCGAAATGCAGCTGC 59.070 50.000 31.89 31.89 42.50 5.25
661 685 1.926510 TGTATCGTCGAAATGCAGCTG 59.073 47.619 10.11 10.11 0.00 4.24
662 686 2.196749 CTGTATCGTCGAAATGCAGCT 58.803 47.619 12.15 0.00 31.58 4.24
663 687 1.927174 ACTGTATCGTCGAAATGCAGC 59.073 47.619 20.09 0.00 39.57 5.25
876 904 4.699522 GTGTGACCCAGTCCCGGC 62.700 72.222 0.00 0.00 0.00 6.13
932 960 0.678395 CTGGAGATGGATCGGTGGAG 59.322 60.000 0.00 0.00 0.00 3.86
1183 1213 0.032615 AGGAGCTGTTCGGGAGAGAT 60.033 55.000 0.00 0.00 41.75 2.75
1284 1317 1.538876 CACTCCTGAACCCCTCCCA 60.539 63.158 0.00 0.00 0.00 4.37
1358 1391 2.359478 GTTCGGCCCGACATTGGT 60.359 61.111 4.70 0.00 34.89 3.67
1361 1394 2.740826 CGTGTTCGGCCCGACATT 60.741 61.111 4.70 0.00 34.89 2.71
1403 1436 3.007940 CGGAGGTTTGATGGCATAGGATA 59.992 47.826 0.00 0.00 0.00 2.59
1415 1448 0.599558 CGGAGTACACGGAGGTTTGA 59.400 55.000 0.00 0.00 0.00 2.69
1447 1480 0.460722 TTCGCGGGTTTCGGATCATA 59.539 50.000 6.13 0.00 39.69 2.15
1539 1572 0.528924 ACGTCGGATCGTTGGATTCA 59.471 50.000 0.00 0.00 41.37 2.57
1597 1630 4.186077 TCTGGATCCTATCTTCGGACTT 57.814 45.455 14.23 0.00 32.41 3.01
1673 1706 2.733593 GCGTGTCGTGAGGTGGTC 60.734 66.667 0.00 0.00 0.00 4.02
1713 1746 1.430632 GTCTTCCATCGGCGTCGTA 59.569 57.895 10.18 0.00 37.69 3.43
2005 2042 1.140852 CTTCTCGCACCCAATCCCATA 59.859 52.381 0.00 0.00 0.00 2.74
2016 2053 2.485933 CGATCGCTACTTCTCGCAC 58.514 57.895 0.26 0.00 0.00 5.34
2097 2134 2.703416 AGTGGTATGCTGTGATGTGTG 58.297 47.619 0.00 0.00 0.00 3.82
2162 2199 7.117667 GCCCAGTTTTTCAACAATAATTCGAAT 59.882 33.333 4.39 4.39 35.05 3.34
2163 2200 6.422400 GCCCAGTTTTTCAACAATAATTCGAA 59.578 34.615 0.00 0.00 35.05 3.71
2165 2202 5.120053 GGCCCAGTTTTTCAACAATAATTCG 59.880 40.000 0.00 0.00 35.05 3.34
2176 2213 1.415659 CCATTGTGGCCCAGTTTTTCA 59.584 47.619 0.00 0.00 0.00 2.69
2226 2263 0.950836 CAATCAGCGTGTGGGTTTCA 59.049 50.000 0.00 0.00 0.00 2.69
2231 2268 1.497278 CGTTCAATCAGCGTGTGGG 59.503 57.895 0.00 0.00 0.00 4.61
2248 2285 2.172851 TAGCCAACTTGTTGGTACCG 57.827 50.000 26.99 7.99 43.90 4.02
2270 2307 8.555896 TTACCAGACCAGTGGATAATAATACA 57.444 34.615 18.40 0.00 40.44 2.29
2285 2322 5.389520 CATCTATCTCCTCTTACCAGACCA 58.610 45.833 0.00 0.00 0.00 4.02
2286 2323 4.770010 CCATCTATCTCCTCTTACCAGACC 59.230 50.000 0.00 0.00 0.00 3.85
2287 2324 5.636123 TCCATCTATCTCCTCTTACCAGAC 58.364 45.833 0.00 0.00 0.00 3.51
2288 2325 5.932027 TCCATCTATCTCCTCTTACCAGA 57.068 43.478 0.00 0.00 0.00 3.86
2289 2326 5.835819 TGTTCCATCTATCTCCTCTTACCAG 59.164 44.000 0.00 0.00 0.00 4.00
2290 2327 5.598830 GTGTTCCATCTATCTCCTCTTACCA 59.401 44.000 0.00 0.00 0.00 3.25
2291 2328 5.836358 AGTGTTCCATCTATCTCCTCTTACC 59.164 44.000 0.00 0.00 0.00 2.85
2292 2329 6.969993 AGTGTTCCATCTATCTCCTCTTAC 57.030 41.667 0.00 0.00 0.00 2.34
2293 2330 7.583625 TGTAGTGTTCCATCTATCTCCTCTTA 58.416 38.462 0.00 0.00 0.00 2.10
2294 2331 6.436027 TGTAGTGTTCCATCTATCTCCTCTT 58.564 40.000 0.00 0.00 0.00 2.85
2295 2332 6.019656 TGTAGTGTTCCATCTATCTCCTCT 57.980 41.667 0.00 0.00 0.00 3.69
2296 2333 6.461788 GGTTGTAGTGTTCCATCTATCTCCTC 60.462 46.154 0.00 0.00 0.00 3.71
2297 2334 5.364157 GGTTGTAGTGTTCCATCTATCTCCT 59.636 44.000 0.00 0.00 0.00 3.69
2298 2335 5.602628 GGTTGTAGTGTTCCATCTATCTCC 58.397 45.833 0.00 0.00 0.00 3.71
2299 2336 5.067413 TCGGTTGTAGTGTTCCATCTATCTC 59.933 44.000 0.00 0.00 0.00 2.75
2300 2337 4.954202 TCGGTTGTAGTGTTCCATCTATCT 59.046 41.667 0.00 0.00 0.00 1.98
2301 2338 5.258456 TCGGTTGTAGTGTTCCATCTATC 57.742 43.478 0.00 0.00 0.00 2.08
2302 2339 4.441634 GCTCGGTTGTAGTGTTCCATCTAT 60.442 45.833 0.00 0.00 0.00 1.98
2303 2340 3.119245 GCTCGGTTGTAGTGTTCCATCTA 60.119 47.826 0.00 0.00 0.00 1.98
2304 2341 2.353803 GCTCGGTTGTAGTGTTCCATCT 60.354 50.000 0.00 0.00 0.00 2.90
2305 2342 2.000447 GCTCGGTTGTAGTGTTCCATC 59.000 52.381 0.00 0.00 0.00 3.51
2306 2343 1.338769 GGCTCGGTTGTAGTGTTCCAT 60.339 52.381 0.00 0.00 0.00 3.41
2307 2344 0.034337 GGCTCGGTTGTAGTGTTCCA 59.966 55.000 0.00 0.00 0.00 3.53
2308 2345 1.012486 CGGCTCGGTTGTAGTGTTCC 61.012 60.000 0.00 0.00 0.00 3.62
2309 2346 0.038892 TCGGCTCGGTTGTAGTGTTC 60.039 55.000 0.00 0.00 0.00 3.18
2310 2347 0.606604 ATCGGCTCGGTTGTAGTGTT 59.393 50.000 0.00 0.00 0.00 3.32
2311 2348 0.108804 CATCGGCTCGGTTGTAGTGT 60.109 55.000 0.00 0.00 0.00 3.55
2312 2349 1.421410 GCATCGGCTCGGTTGTAGTG 61.421 60.000 0.00 0.00 36.96 2.74
2313 2350 1.153628 GCATCGGCTCGGTTGTAGT 60.154 57.895 0.00 0.00 36.96 2.73
2314 2351 1.883084 GGCATCGGCTCGGTTGTAG 60.883 63.158 0.00 0.00 40.87 2.74
2315 2352 2.173758 TTGGCATCGGCTCGGTTGTA 62.174 55.000 0.00 0.00 40.87 2.41
2316 2353 3.545124 TTGGCATCGGCTCGGTTGT 62.545 57.895 0.00 0.00 40.87 3.32
2317 2354 2.745884 TTGGCATCGGCTCGGTTG 60.746 61.111 0.00 0.00 40.87 3.77
2318 2355 2.436646 CTTGGCATCGGCTCGGTT 60.437 61.111 0.00 0.00 40.87 4.44
2320 2357 4.845580 AGCTTGGCATCGGCTCGG 62.846 66.667 4.67 0.00 40.87 4.63
2321 2358 3.570638 CAGCTTGGCATCGGCTCG 61.571 66.667 7.07 0.00 40.87 5.03
2322 2359 3.885521 GCAGCTTGGCATCGGCTC 61.886 66.667 7.07 1.23 40.87 4.70
2323 2360 4.728110 TGCAGCTTGGCATCGGCT 62.728 61.111 11.94 8.58 39.25 5.52
2324 2361 4.189188 CTGCAGCTTGGCATCGGC 62.189 66.667 0.00 5.68 43.97 5.54
2325 2362 4.189188 GCTGCAGCTTGGCATCGG 62.189 66.667 31.33 0.00 43.97 4.18
2326 2363 4.189188 GGCTGCAGCTTGGCATCG 62.189 66.667 35.82 0.00 43.97 3.84
2327 2364 2.754658 AGGCTGCAGCTTGGCATC 60.755 61.111 35.82 18.70 43.97 3.91
2328 2365 3.068691 CAGGCTGCAGCTTGGCAT 61.069 61.111 35.98 15.21 43.38 4.40
2333 2370 1.669115 CGTGTACAGGCTGCAGCTT 60.669 57.895 35.82 28.28 41.70 3.74
2334 2371 2.047844 CGTGTACAGGCTGCAGCT 60.048 61.111 35.82 20.59 41.70 4.24
2335 2372 2.048222 TCGTGTACAGGCTGCAGC 60.048 61.111 30.88 30.88 41.14 5.25
2336 2373 4.175599 CTCGTGTACAGGCTGCAG 57.824 61.111 15.89 10.11 0.00 4.41


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

AutoCloner maintained by Alex Coulton.