Multiple sequence alignment - TraesCS7B01G442400

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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 TraesCS7B01G442400 chr7B 100.000 2363 0 0 1 2363 707241838 707244200 0.000000e+00 4364.0
1 TraesCS7B01G442400 chr7B 92.627 2021 126 12 220 2220 64339550 64337533 0.000000e+00 2885.0
2 TraesCS7B01G442400 chr3B 93.083 2241 131 13 1 2220 9351065 9348828 0.000000e+00 3258.0
3 TraesCS7B01G442400 chr3B 92.685 2242 140 13 1 2221 809693441 809691203 0.000000e+00 3210.0
4 TraesCS7B01G442400 chr7A 93.288 1907 108 10 333 2221 372242950 372241046 0.000000e+00 2795.0
5 TraesCS7B01G442400 chr5A 93.284 1906 108 10 333 2220 17083451 17085354 0.000000e+00 2793.0
6 TraesCS7B01G442400 chr6D 92.767 1908 109 12 333 2221 315864955 315863058 0.000000e+00 2732.0
7 TraesCS7B01G442400 chr6D 92.827 237 16 1 1 236 315865211 315864975 2.250000e-90 342.0
8 TraesCS7B01G442400 chr3A 93.927 1729 98 6 333 2055 160390699 160392426 0.000000e+00 2604.0
9 TraesCS7B01G442400 chr3A 93.463 1438 89 3 711 2144 160368049 160369485 0.000000e+00 2130.0
10 TraesCS7B01G442400 chr4D 87.401 2270 203 34 1 2220 157629184 157631420 0.000000e+00 2531.0
11 TraesCS7B01G442400 chr1B 87.175 2269 216 29 1 2220 563497171 563499413 0.000000e+00 2508.0
12 TraesCS7B01G442400 chr1B 93.707 1589 92 7 1 1582 596960110 596958523 0.000000e+00 2374.0
13 TraesCS7B01G442400 chr1B 89.140 1593 136 22 1 1575 646717486 646719059 0.000000e+00 1949.0
14 TraesCS7B01G442400 chr1B 87.602 613 60 6 1624 2221 596958538 596957927 0.000000e+00 697.0
15 TraesCS7B01G442400 chr4B 85.643 2194 215 55 96 2223 366674845 366672686 0.000000e+00 2215.0
16 TraesCS7B01G442400 chr4B 96.875 32 1 0 2189 2220 366676538 366676569 1.000000e-03 54.7
17 TraesCS7B01G442400 chr1A 88.359 859 82 9 1 844 139174208 139175063 0.000000e+00 1016.0
18 TraesCS7B01G442400 chr1A 100.000 30 0 0 2191 2220 139169555 139169526 3.280000e-04 56.5
19 TraesCS7B01G442400 chr1D 82.100 743 85 21 1511 2220 22074590 22073863 2.020000e-165 592.0
20 TraesCS7B01G442400 chr3D 94.093 237 13 1 1 236 555286867 555287103 2.230000e-95 359.0


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 TraesCS7B01G442400 chr7B 707241838 707244200 2362 False 4364.0 4364 100.0000 1 2363 1 chr7B.!!$F1 2362
1 TraesCS7B01G442400 chr7B 64337533 64339550 2017 True 2885.0 2885 92.6270 220 2220 1 chr7B.!!$R1 2000
2 TraesCS7B01G442400 chr3B 9348828 9351065 2237 True 3258.0 3258 93.0830 1 2220 1 chr3B.!!$R1 2219
3 TraesCS7B01G442400 chr3B 809691203 809693441 2238 True 3210.0 3210 92.6850 1 2221 1 chr3B.!!$R2 2220
4 TraesCS7B01G442400 chr7A 372241046 372242950 1904 True 2795.0 2795 93.2880 333 2221 1 chr7A.!!$R1 1888
5 TraesCS7B01G442400 chr5A 17083451 17085354 1903 False 2793.0 2793 93.2840 333 2220 1 chr5A.!!$F1 1887
6 TraesCS7B01G442400 chr6D 315863058 315865211 2153 True 1537.0 2732 92.7970 1 2221 2 chr6D.!!$R1 2220
7 TraesCS7B01G442400 chr3A 160390699 160392426 1727 False 2604.0 2604 93.9270 333 2055 1 chr3A.!!$F2 1722
8 TraesCS7B01G442400 chr3A 160368049 160369485 1436 False 2130.0 2130 93.4630 711 2144 1 chr3A.!!$F1 1433
9 TraesCS7B01G442400 chr4D 157629184 157631420 2236 False 2531.0 2531 87.4010 1 2220 1 chr4D.!!$F1 2219
10 TraesCS7B01G442400 chr1B 563497171 563499413 2242 False 2508.0 2508 87.1750 1 2220 1 chr1B.!!$F1 2219
11 TraesCS7B01G442400 chr1B 646717486 646719059 1573 False 1949.0 1949 89.1400 1 1575 1 chr1B.!!$F2 1574
12 TraesCS7B01G442400 chr1B 596957927 596960110 2183 True 1535.5 2374 90.6545 1 2221 2 chr1B.!!$R1 2220
13 TraesCS7B01G442400 chr4B 366672686 366674845 2159 True 2215.0 2215 85.6430 96 2223 1 chr4B.!!$R1 2127
14 TraesCS7B01G442400 chr1A 139174208 139175063 855 False 1016.0 1016 88.3590 1 844 1 chr1A.!!$F1 843
15 TraesCS7B01G442400 chr1D 22073863 22074590 727 True 592.0 592 82.1000 1511 2220 1 chr1D.!!$R1 709

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
94 95 0.322816 AGCTACCCTGTGCATTGTGG 60.323 55.000 0.0 0.0 0.00 4.17 F
413 429 1.064832 TGCCTACAGCCAATACATGCA 60.065 47.619 0.0 0.0 42.71 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1175 1232 0.033699 AGCATTTCCCCTCTTCTGCC 60.034 55.0 0.00 0.0 0.00 4.85 R
2264 2476 0.178995 TGCCTGCATGTCTGGTTCAA 60.179 50.0 12.29 0.0 36.29 2.69 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
48 49 4.226761 CAAAAATAACCGTGCTCAAGTCC 58.773 43.478 0.00 0.00 0.00 3.85
50 51 2.851263 ATAACCGTGCTCAAGTCCAA 57.149 45.000 0.00 0.00 0.00 3.53
54 55 2.306847 ACCGTGCTCAAGTCCAATTTT 58.693 42.857 0.00 0.00 0.00 1.82
89 90 2.124983 CGCAGCTACCCTGTGCAT 60.125 61.111 0.00 0.00 44.30 3.96
94 95 0.322816 AGCTACCCTGTGCATTGTGG 60.323 55.000 0.00 0.00 0.00 4.17
124 125 3.297134 AAGTCAAACATGTGTCTGGGT 57.703 42.857 0.00 0.00 0.00 4.51
134 135 3.153369 TGTGTCTGGGTATGTGCAAAT 57.847 42.857 0.00 0.00 0.00 2.32
181 182 8.553696 GCAATTGTTTTCATGAGATTTTTCTGT 58.446 29.630 7.40 0.00 0.00 3.41
203 205 7.770433 TCTGTCTGGTCTTGATAATGTTATTGG 59.230 37.037 0.00 0.00 0.00 3.16
413 429 1.064832 TGCCTACAGCCAATACATGCA 60.065 47.619 0.00 0.00 42.71 3.96
533 550 7.062322 TGCATATATGTTGTTTTCAGGGAGAT 58.938 34.615 14.14 0.00 0.00 2.75
576 593 5.163513 CCACTGCACTGGATTTATTCAAAC 58.836 41.667 6.54 0.00 32.30 2.93
587 604 6.150976 TGGATTTATTCAAACAGTGCCACTAG 59.849 38.462 0.00 0.00 0.00 2.57
689 709 7.716799 AATGTTAACCTTTTGCCATAGATCA 57.283 32.000 2.48 0.00 0.00 2.92
757 809 7.997223 TCTATCCTTGTGCTAAAGTACTAGCTA 59.003 37.037 16.62 5.45 43.96 3.32
945 1002 5.445069 TGTGGCATACATATAGGCAAAACT 58.555 37.500 0.00 0.00 39.93 2.66
1136 1193 2.669569 GGTCCAGCACGTGCATGT 60.670 61.111 39.21 19.13 45.16 3.21
1155 1212 3.729966 TGTGAGATCTAGTCGTAGCGAT 58.270 45.455 0.00 0.00 38.42 4.58
1164 1221 2.722548 CGTAGCGATCGTGAGGCG 60.723 66.667 17.81 10.58 43.01 5.52
1175 1232 1.376037 GTGAGGCGGAACAGGAAGG 60.376 63.158 0.00 0.00 0.00 3.46
1205 1262 1.682087 GGGAAATGCTAAGCTTCGGGT 60.682 52.381 0.00 0.00 0.00 5.28
1213 1270 2.347731 CTAAGCTTCGGGTCCTTGTTC 58.652 52.381 0.00 0.00 0.00 3.18
1219 1276 0.179012 TCGGGTCCTTGTTCAAACCC 60.179 55.000 12.81 12.81 46.61 4.11
1220 1277 2.741433 GGGTCCTTGTTCAAACCCC 58.259 57.895 12.11 6.26 44.75 4.95
1221 1278 0.105913 GGGTCCTTGTTCAAACCCCA 60.106 55.000 12.11 0.00 44.75 4.96
1236 1293 7.604657 TCAAACCCCAAACAATAAGTTACAT 57.395 32.000 0.00 0.00 40.26 2.29
1433 1493 0.324943 GTGCTGGAACCTGCCTTCTA 59.675 55.000 17.44 0.00 39.64 2.10
1434 1494 1.065126 GTGCTGGAACCTGCCTTCTAT 60.065 52.381 17.44 0.00 39.64 1.98
1559 1624 5.253330 GTTAGTGGATTTGGACATGGAAGA 58.747 41.667 0.00 0.00 0.00 2.87
1566 1663 7.707893 GTGGATTTGGACATGGAAGATTATTTG 59.292 37.037 0.00 0.00 0.00 2.32
1660 1847 8.404889 TCTGTTTATTTGACATTGTTGTTGTG 57.595 30.769 0.00 0.00 35.79 3.33
1745 1933 8.041143 AGATTTGGTACAGTATAAATGGGCTA 57.959 34.615 9.35 0.00 42.39 3.93
1775 1963 5.018809 AGCATACTGGACCATCAAAAACAT 58.981 37.500 0.00 0.00 0.00 2.71
1776 1964 5.126061 AGCATACTGGACCATCAAAAACATC 59.874 40.000 0.00 0.00 0.00 3.06
1787 1975 9.125026 GACCATCAAAAACATCCTAACAGATAT 57.875 33.333 0.00 0.00 0.00 1.63
1788 1976 9.479549 ACCATCAAAAACATCCTAACAGATATT 57.520 29.630 0.00 0.00 0.00 1.28
1918 2116 2.588925 ATAGGCCCAAAGGGTAGAGT 57.411 50.000 0.00 0.00 46.51 3.24
1920 2118 0.119358 AGGCCCAAAGGGTAGAGTCT 59.881 55.000 0.00 0.00 46.51 3.24
1927 2125 3.133721 CCAAAGGGTAGAGTCTCAGATGG 59.866 52.174 0.00 0.00 0.00 3.51
1934 2132 0.459237 GAGTCTCAGATGGTGCCACG 60.459 60.000 0.00 0.00 0.00 4.94
2009 2207 2.531771 TCTGTCTATCACCGAAACCCA 58.468 47.619 0.00 0.00 0.00 4.51
2057 2255 1.154205 GGCCTGATCAATGACGGTCG 61.154 60.000 3.34 0.00 0.00 4.79
2221 2433 6.312426 CAGATAAGCAGGTTTCTTGTAGTGAG 59.688 42.308 0.00 0.00 0.00 3.51
2222 2434 4.689612 AAGCAGGTTTCTTGTAGTGAGA 57.310 40.909 0.00 0.00 0.00 3.27
2223 2435 3.996480 AGCAGGTTTCTTGTAGTGAGAC 58.004 45.455 0.00 0.00 0.00 3.36
2224 2436 3.388024 AGCAGGTTTCTTGTAGTGAGACA 59.612 43.478 0.00 0.00 0.00 3.41
2225 2437 4.127171 GCAGGTTTCTTGTAGTGAGACAA 58.873 43.478 0.00 0.00 36.98 3.18
2234 2446 4.710423 TGTAGTGAGACAAGAGAGCATC 57.290 45.455 0.00 0.00 0.00 3.91
2235 2447 4.769488 TTGTAGTGAGACAAGAGAGCATCT 59.231 41.667 0.00 0.00 40.77 2.90
2236 2448 5.946377 TTGTAGTGAGACAAGAGAGCATCTA 59.054 40.000 0.00 0.00 39.09 1.98
2237 2449 6.094742 TTGTAGTGAGACAAGAGAGCATCTAG 59.905 42.308 0.00 0.00 39.09 2.43
2238 2450 8.014622 TTGTAGTGAGACAAGAGAGCATCTAGA 61.015 40.741 0.00 0.00 39.09 2.43
2255 2467 9.819267 AGCATCTAGAAACCTATTACTAAACAC 57.181 33.333 0.00 0.00 0.00 3.32
2256 2468 9.819267 GCATCTAGAAACCTATTACTAAACACT 57.181 33.333 0.00 0.00 0.00 3.55
2274 2486 4.410492 CACTAATGTGCTTGAACCAGAC 57.590 45.455 0.00 0.00 37.38 3.51
2275 2487 3.814842 CACTAATGTGCTTGAACCAGACA 59.185 43.478 0.00 0.00 37.38 3.41
2276 2488 4.456911 CACTAATGTGCTTGAACCAGACAT 59.543 41.667 0.00 0.00 37.38 3.06
2277 2489 3.928727 AATGTGCTTGAACCAGACATG 57.071 42.857 0.00 0.00 0.00 3.21
2278 2490 0.953727 TGTGCTTGAACCAGACATGC 59.046 50.000 0.00 0.00 38.37 4.06
2279 2491 0.953727 GTGCTTGAACCAGACATGCA 59.046 50.000 0.00 0.00 42.84 3.96
2280 2492 1.068748 GTGCTTGAACCAGACATGCAG 60.069 52.381 0.00 0.00 44.57 4.41
2281 2493 0.524862 GCTTGAACCAGACATGCAGG 59.475 55.000 0.00 0.00 37.99 4.85
2282 2494 0.524862 CTTGAACCAGACATGCAGGC 59.475 55.000 0.00 0.00 0.00 4.85
2283 2495 0.178995 TTGAACCAGACATGCAGGCA 60.179 50.000 0.00 0.00 0.00 4.75
2284 2496 0.178995 TGAACCAGACATGCAGGCAA 60.179 50.000 0.00 0.00 0.00 4.52
2285 2497 1.180029 GAACCAGACATGCAGGCAAT 58.820 50.000 0.00 0.00 0.00 3.56
2286 2498 0.892755 AACCAGACATGCAGGCAATG 59.107 50.000 0.00 0.38 0.00 2.82
2299 2511 4.657075 CAGGCAATGCAACAAATTCTTC 57.343 40.909 7.79 0.00 0.00 2.87
2300 2512 3.434299 CAGGCAATGCAACAAATTCTTCC 59.566 43.478 7.79 0.00 0.00 3.46
2301 2513 3.325716 AGGCAATGCAACAAATTCTTCCT 59.674 39.130 7.79 0.00 0.00 3.36
2302 2514 3.434299 GGCAATGCAACAAATTCTTCCTG 59.566 43.478 7.79 0.00 0.00 3.86
2303 2515 4.060205 GCAATGCAACAAATTCTTCCTGT 58.940 39.130 0.00 0.00 0.00 4.00
2304 2516 4.084223 GCAATGCAACAAATTCTTCCTGTG 60.084 41.667 0.00 0.00 0.00 3.66
2305 2517 5.291178 CAATGCAACAAATTCTTCCTGTGA 58.709 37.500 0.00 0.00 0.00 3.58
2306 2518 5.733620 ATGCAACAAATTCTTCCTGTGAT 57.266 34.783 0.00 0.00 0.00 3.06
2307 2519 6.839124 ATGCAACAAATTCTTCCTGTGATA 57.161 33.333 0.00 0.00 0.00 2.15
2308 2520 6.839124 TGCAACAAATTCTTCCTGTGATAT 57.161 33.333 0.00 0.00 0.00 1.63
2309 2521 7.936496 TGCAACAAATTCTTCCTGTGATATA 57.064 32.000 0.00 0.00 0.00 0.86
2310 2522 8.523915 TGCAACAAATTCTTCCTGTGATATAT 57.476 30.769 0.00 0.00 0.00 0.86
2311 2523 8.407832 TGCAACAAATTCTTCCTGTGATATATG 58.592 33.333 0.00 0.00 0.00 1.78
2312 2524 7.864379 GCAACAAATTCTTCCTGTGATATATGG 59.136 37.037 0.00 0.00 0.00 2.74
2313 2525 9.123902 CAACAAATTCTTCCTGTGATATATGGA 57.876 33.333 0.00 0.00 0.00 3.41
2314 2526 9.872684 AACAAATTCTTCCTGTGATATATGGAT 57.127 29.630 0.00 0.00 0.00 3.41
2315 2527 9.872684 ACAAATTCTTCCTGTGATATATGGATT 57.127 29.630 0.00 0.00 0.00 3.01
2319 2531 9.956640 ATTCTTCCTGTGATATATGGATTTCTC 57.043 33.333 0.00 0.00 0.00 2.87
2320 2532 7.606349 TCTTCCTGTGATATATGGATTTCTCG 58.394 38.462 0.00 0.00 0.00 4.04
2321 2533 7.451566 TCTTCCTGTGATATATGGATTTCTCGA 59.548 37.037 0.00 0.00 0.00 4.04
2322 2534 7.539034 TCCTGTGATATATGGATTTCTCGAA 57.461 36.000 0.00 0.00 0.00 3.71
2323 2535 7.962441 TCCTGTGATATATGGATTTCTCGAAA 58.038 34.615 0.00 0.00 34.46 3.46
2324 2536 8.428852 TCCTGTGATATATGGATTTCTCGAAAA 58.571 33.333 0.00 0.00 33.56 2.29
2325 2537 9.224267 CCTGTGATATATGGATTTCTCGAAAAT 57.776 33.333 0.00 5.59 33.56 1.82
2334 2546 8.792830 ATGGATTTCTCGAAAATACTCTTCAA 57.207 30.769 13.11 0.00 33.56 2.69
2335 2547 8.792830 TGGATTTCTCGAAAATACTCTTCAAT 57.207 30.769 13.11 0.00 33.56 2.57
2336 2548 8.883731 TGGATTTCTCGAAAATACTCTTCAATC 58.116 33.333 13.11 0.00 33.56 2.67
2337 2549 8.058915 GGATTTCTCGAAAATACTCTTCAATCG 58.941 37.037 7.59 0.00 33.56 3.34
2338 2550 8.703604 ATTTCTCGAAAATACTCTTCAATCGA 57.296 30.769 0.00 0.00 36.53 3.59
2339 2551 8.703604 TTTCTCGAAAATACTCTTCAATCGAT 57.296 30.769 0.00 0.00 37.24 3.59
2340 2552 7.916128 TCTCGAAAATACTCTTCAATCGATC 57.084 36.000 0.00 0.00 37.24 3.69
2341 2553 7.708051 TCTCGAAAATACTCTTCAATCGATCT 58.292 34.615 0.00 0.00 37.24 2.75
2342 2554 7.645735 TCTCGAAAATACTCTTCAATCGATCTG 59.354 37.037 0.00 0.00 37.24 2.90
2343 2555 6.199154 TCGAAAATACTCTTCAATCGATCTGC 59.801 38.462 0.00 0.00 33.45 4.26
2344 2556 6.019559 CGAAAATACTCTTCAATCGATCTGCA 60.020 38.462 0.00 0.00 0.00 4.41
2345 2557 7.307042 CGAAAATACTCTTCAATCGATCTGCAT 60.307 37.037 0.00 0.00 0.00 3.96
2346 2558 7.418840 AAATACTCTTCAATCGATCTGCATC 57.581 36.000 0.00 0.00 0.00 3.91
2358 2570 5.372742 CGATCTGCATCGCTATAATTCAG 57.627 43.478 0.00 0.00 45.28 3.02
2359 2571 4.861462 CGATCTGCATCGCTATAATTCAGT 59.139 41.667 0.00 0.00 45.28 3.41
2360 2572 6.030228 CGATCTGCATCGCTATAATTCAGTA 58.970 40.000 0.00 0.00 45.28 2.74
2361 2573 6.528072 CGATCTGCATCGCTATAATTCAGTAA 59.472 38.462 0.00 0.00 45.28 2.24
2362 2574 7.462069 CGATCTGCATCGCTATAATTCAGTAAC 60.462 40.741 0.00 0.00 45.28 2.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
89 90 4.774660 TTGACTTACCAGGTTACCACAA 57.225 40.909 3.51 0.00 0.00 3.33
94 95 5.529800 ACACATGTTTGACTTACCAGGTTAC 59.470 40.000 0.00 0.00 0.00 2.50
124 125 8.560355 ACTGTCACATAAACTATTTGCACATA 57.440 30.769 0.00 0.00 0.00 2.29
134 135 6.104146 TGCCAGTTACTGTCACATAAACTA 57.896 37.500 11.68 0.00 0.00 2.24
181 182 5.827797 GGCCAATAACATTATCAAGACCAGA 59.172 40.000 0.00 0.00 0.00 3.86
203 205 6.376018 TGGTAAGGTTTACATGAACTTATGGC 59.624 38.462 0.00 0.00 32.32 4.40
280 286 1.475403 TCAAGCCCAAAACACCGAAA 58.525 45.000 0.00 0.00 0.00 3.46
370 377 6.072452 GCAAGGGAGCAGTTATATTCATTACC 60.072 42.308 0.00 0.00 0.00 2.85
413 429 8.830580 CACGATGAGATACCATTAAGTGAAAAT 58.169 33.333 0.00 0.00 33.15 1.82
484 501 7.330208 GCATCAAGCTAACATTTGTGAAGAAAT 59.670 33.333 0.00 0.00 41.15 2.17
533 550 7.338449 GCAGTGGGTTCTTTATCCTTGTATTTA 59.662 37.037 0.00 0.00 0.00 1.40
576 593 0.321034 TTGCTGCTCTAGTGGCACTG 60.321 55.000 29.65 18.63 35.71 3.66
587 604 2.808523 AGCCTTTCTTTTTGCTGCTC 57.191 45.000 0.00 0.00 31.70 4.26
734 756 5.941555 AGCTAGTACTTTAGCACAAGGAT 57.058 39.130 17.76 0.00 46.69 3.24
748 770 6.037098 CACAAGGACAGAACATAGCTAGTAC 58.963 44.000 0.00 0.00 0.00 2.73
757 809 7.796054 AGTATTATAGCACAAGGACAGAACAT 58.204 34.615 0.00 0.00 0.00 2.71
945 1002 5.009610 GGTGAGCAAAACAGGAGACAAATAA 59.990 40.000 0.00 0.00 0.00 1.40
1136 1193 2.987821 CGATCGCTACGACTAGATCTCA 59.012 50.000 0.26 0.00 39.18 3.27
1164 1221 0.693049 TCTTCTGCCCTTCCTGTTCC 59.307 55.000 0.00 0.00 0.00 3.62
1175 1232 0.033699 AGCATTTCCCCTCTTCTGCC 60.034 55.000 0.00 0.00 0.00 4.85
1205 1262 2.821437 TGTTTGGGGTTTGAACAAGGA 58.179 42.857 0.00 0.00 30.96 3.36
1213 1270 7.437748 TCATGTAACTTATTGTTTGGGGTTTG 58.562 34.615 0.00 0.00 39.89 2.93
1236 1293 6.118170 CCTGATCCTTGCTTCTTCTAATTCA 58.882 40.000 0.00 0.00 0.00 2.57
1354 1414 6.370166 ACAACTTACTCTTGAGCTTATCTTGC 59.630 38.462 0.00 0.00 0.00 4.01
1566 1663 9.601217 ACAATAAGATAAGTACTGATCCAACAC 57.399 33.333 15.65 0.00 0.00 3.32
1640 1827 5.664457 TGGCACAACAACAATGTCAAATAA 58.336 33.333 0.00 0.00 39.40 1.40
1660 1847 5.234972 CCACAATGAAGAACTTTCTTTTGGC 59.765 40.000 15.62 2.66 46.84 4.52
1704 1892 4.454678 CAAATCTAGCCCACTAATGCTCA 58.545 43.478 0.00 0.00 39.00 4.26
1713 1901 3.629142 ACTGTACCAAATCTAGCCCAC 57.371 47.619 0.00 0.00 0.00 4.61
1745 1933 3.788227 TGGTCCAGTATGCTGTTTCTT 57.212 42.857 10.09 0.00 41.02 2.52
1918 2116 1.184970 TGACGTGGCACCATCTGAGA 61.185 55.000 12.86 0.00 0.00 3.27
1920 2118 1.184970 TCTGACGTGGCACCATCTGA 61.185 55.000 12.86 15.46 0.00 3.27
1927 2125 0.391661 ATGTGGATCTGACGTGGCAC 60.392 55.000 7.79 7.79 0.00 5.01
1934 2132 1.065199 TGGCTTCCATGTGGATCTGAC 60.065 52.381 1.98 0.00 44.98 3.51
1950 2148 1.311859 CCATGATGTATTGCGTGGCT 58.688 50.000 0.00 0.00 34.69 4.75
2057 2255 3.246226 GTCACAGATTCATGACGGTATGC 59.754 47.826 0.00 0.00 36.20 3.14
2110 2308 1.061887 GCGCGTCATAATTTGCCGT 59.938 52.632 8.43 0.00 0.00 5.68
2111 2309 1.998257 CGCGCGTCATAATTTGCCG 60.998 57.895 24.19 0.00 0.00 5.69
2221 2433 5.337578 AGGTTTCTAGATGCTCTCTTGTC 57.662 43.478 0.00 0.00 35.28 3.18
2222 2434 7.430760 AATAGGTTTCTAGATGCTCTCTTGT 57.569 36.000 0.00 0.00 35.28 3.16
2223 2435 8.637986 AGTAATAGGTTTCTAGATGCTCTCTTG 58.362 37.037 0.00 0.00 35.28 3.02
2224 2436 8.776061 AGTAATAGGTTTCTAGATGCTCTCTT 57.224 34.615 0.00 0.00 35.28 2.85
2225 2437 9.869667 TTAGTAATAGGTTTCTAGATGCTCTCT 57.130 33.333 0.00 0.00 38.06 3.10
2229 2441 9.819267 GTGTTTAGTAATAGGTTTCTAGATGCT 57.181 33.333 0.00 0.00 0.00 3.79
2230 2442 9.819267 AGTGTTTAGTAATAGGTTTCTAGATGC 57.181 33.333 0.00 0.00 0.00 3.91
2239 2451 9.734984 AAGCACATTAGTGTTTAGTAATAGGTT 57.265 29.630 0.00 0.00 45.64 3.50
2240 2452 9.162764 CAAGCACATTAGTGTTTAGTAATAGGT 57.837 33.333 0.00 0.00 45.72 3.08
2241 2453 9.378551 TCAAGCACATTAGTGTTTAGTAATAGG 57.621 33.333 0.00 0.00 45.72 2.57
2244 2456 8.512138 GGTTCAAGCACATTAGTGTTTAGTAAT 58.488 33.333 0.00 0.00 45.72 1.89
2245 2457 7.499563 TGGTTCAAGCACATTAGTGTTTAGTAA 59.500 33.333 0.00 0.00 45.72 2.24
2246 2458 6.993308 TGGTTCAAGCACATTAGTGTTTAGTA 59.007 34.615 0.00 0.00 45.72 1.82
2247 2459 5.825679 TGGTTCAAGCACATTAGTGTTTAGT 59.174 36.000 0.00 0.00 45.72 2.24
2248 2460 6.204688 TCTGGTTCAAGCACATTAGTGTTTAG 59.795 38.462 0.00 0.00 45.72 1.85
2249 2461 6.017440 GTCTGGTTCAAGCACATTAGTGTTTA 60.017 38.462 0.00 0.00 45.72 2.01
2254 2466 4.085357 TGTCTGGTTCAAGCACATTAGT 57.915 40.909 0.00 0.00 0.00 2.24
2255 2467 4.673580 GCATGTCTGGTTCAAGCACATTAG 60.674 45.833 0.00 0.00 31.22 1.73
2256 2468 3.191162 GCATGTCTGGTTCAAGCACATTA 59.809 43.478 0.00 0.00 31.22 1.90
2257 2469 2.029649 GCATGTCTGGTTCAAGCACATT 60.030 45.455 0.00 0.00 31.22 2.71
2258 2470 1.542915 GCATGTCTGGTTCAAGCACAT 59.457 47.619 0.00 0.00 31.22 3.21
2259 2471 0.953727 GCATGTCTGGTTCAAGCACA 59.046 50.000 0.00 0.00 31.22 4.57
2260 2472 0.953727 TGCATGTCTGGTTCAAGCAC 59.046 50.000 0.00 0.00 35.21 4.40
2261 2473 1.241165 CTGCATGTCTGGTTCAAGCA 58.759 50.000 0.00 0.00 37.22 3.91
2262 2474 0.524862 CCTGCATGTCTGGTTCAAGC 59.475 55.000 0.00 0.00 0.00 4.01
2263 2475 0.524862 GCCTGCATGTCTGGTTCAAG 59.475 55.000 12.29 0.00 36.29 3.02
2264 2476 0.178995 TGCCTGCATGTCTGGTTCAA 60.179 50.000 12.29 0.00 36.29 2.69
2265 2477 0.178995 TTGCCTGCATGTCTGGTTCA 60.179 50.000 12.29 3.52 36.29 3.18
2266 2478 1.135199 CATTGCCTGCATGTCTGGTTC 60.135 52.381 12.29 1.58 36.29 3.62
2267 2479 0.892755 CATTGCCTGCATGTCTGGTT 59.107 50.000 12.29 0.23 36.29 3.67
2268 2480 2.575108 CATTGCCTGCATGTCTGGT 58.425 52.632 12.29 0.00 36.29 4.00
2278 2490 3.434299 GGAAGAATTTGTTGCATTGCCTG 59.566 43.478 6.12 0.00 0.00 4.85
2279 2491 3.325716 AGGAAGAATTTGTTGCATTGCCT 59.674 39.130 6.12 0.00 0.00 4.75
2280 2492 3.434299 CAGGAAGAATTTGTTGCATTGCC 59.566 43.478 6.12 0.00 0.00 4.52
2281 2493 4.060205 ACAGGAAGAATTTGTTGCATTGC 58.940 39.130 0.46 0.46 0.00 3.56
2282 2494 5.291178 TCACAGGAAGAATTTGTTGCATTG 58.709 37.500 0.84 0.00 0.00 2.82
2283 2495 5.534207 TCACAGGAAGAATTTGTTGCATT 57.466 34.783 0.84 0.00 0.00 3.56
2284 2496 5.733620 ATCACAGGAAGAATTTGTTGCAT 57.266 34.783 0.84 0.00 0.00 3.96
2285 2497 6.839124 ATATCACAGGAAGAATTTGTTGCA 57.161 33.333 0.84 0.00 0.00 4.08
2286 2498 7.864379 CCATATATCACAGGAAGAATTTGTTGC 59.136 37.037 0.00 0.00 0.00 4.17
2287 2499 9.123902 TCCATATATCACAGGAAGAATTTGTTG 57.876 33.333 0.00 0.00 0.00 3.33
2288 2500 9.872684 ATCCATATATCACAGGAAGAATTTGTT 57.127 29.630 0.00 0.00 33.17 2.83
2289 2501 9.872684 AATCCATATATCACAGGAAGAATTTGT 57.127 29.630 0.00 0.00 33.17 2.83
2293 2505 9.956640 GAGAAATCCATATATCACAGGAAGAAT 57.043 33.333 0.00 0.00 33.17 2.40
2294 2506 8.090831 CGAGAAATCCATATATCACAGGAAGAA 58.909 37.037 0.00 0.00 33.17 2.52
2295 2507 7.451566 TCGAGAAATCCATATATCACAGGAAGA 59.548 37.037 0.00 0.00 33.17 2.87
2296 2508 7.606349 TCGAGAAATCCATATATCACAGGAAG 58.394 38.462 0.00 0.00 33.17 3.46
2297 2509 7.539034 TCGAGAAATCCATATATCACAGGAA 57.461 36.000 0.00 0.00 33.17 3.36
2298 2510 7.539034 TTCGAGAAATCCATATATCACAGGA 57.461 36.000 0.00 0.00 34.12 3.86
2299 2511 8.607441 TTTTCGAGAAATCCATATATCACAGG 57.393 34.615 0.00 0.00 0.00 4.00
2308 2520 9.884636 TTGAAGAGTATTTTCGAGAAATCCATA 57.115 29.630 8.27 0.00 0.00 2.74
2309 2521 8.792830 TTGAAGAGTATTTTCGAGAAATCCAT 57.207 30.769 8.27 0.00 0.00 3.41
2310 2522 8.792830 ATTGAAGAGTATTTTCGAGAAATCCA 57.207 30.769 8.27 0.00 0.00 3.41
2311 2523 8.058915 CGATTGAAGAGTATTTTCGAGAAATCC 58.941 37.037 8.27 0.30 0.00 3.01
2312 2524 8.808529 TCGATTGAAGAGTATTTTCGAGAAATC 58.191 33.333 8.27 1.36 31.33 2.17
2313 2525 8.703604 TCGATTGAAGAGTATTTTCGAGAAAT 57.296 30.769 0.00 2.11 31.33 2.17
2314 2526 8.703604 ATCGATTGAAGAGTATTTTCGAGAAA 57.296 30.769 0.00 0.00 37.53 2.52
2315 2527 8.191446 AGATCGATTGAAGAGTATTTTCGAGAA 58.809 33.333 0.00 0.00 37.53 2.87
2316 2528 7.645735 CAGATCGATTGAAGAGTATTTTCGAGA 59.354 37.037 0.00 0.00 37.53 4.04
2317 2529 7.566688 GCAGATCGATTGAAGAGTATTTTCGAG 60.567 40.741 0.00 0.00 37.53 4.04
2318 2530 6.199154 GCAGATCGATTGAAGAGTATTTTCGA 59.801 38.462 0.00 0.00 38.34 3.71
2319 2531 6.019559 TGCAGATCGATTGAAGAGTATTTTCG 60.020 38.462 0.00 0.00 0.00 3.46
2320 2532 7.239166 TGCAGATCGATTGAAGAGTATTTTC 57.761 36.000 0.00 0.00 0.00 2.29
2321 2533 7.798596 ATGCAGATCGATTGAAGAGTATTTT 57.201 32.000 0.00 0.00 0.00 1.82
2322 2534 7.418840 GATGCAGATCGATTGAAGAGTATTT 57.581 36.000 0.00 0.00 0.00 1.40
2337 2549 7.670916 GTTACTGAATTATAGCGATGCAGATC 58.329 38.462 0.00 0.00 0.00 2.75
2338 2550 7.588143 GTTACTGAATTATAGCGATGCAGAT 57.412 36.000 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.