Multiple sequence alignment - TraesCS6D01G255700

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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 TraesCS6D01G255700 chr6D 100.000 2378 0 0 1 2378 360816622 360818999 0.000000e+00 4392.0
1 TraesCS6D01G255700 chr6D 93.921 329 20 0 1 329 414239669 414239341 4.560000e-137 497.0
2 TraesCS6D01G255700 chr6B 95.284 2057 71 12 1 2054 542367725 542369758 0.000000e+00 3238.0
3 TraesCS6D01G255700 chr6B 91.720 157 11 2 2052 2207 451870629 451870784 1.430000e-52 217.0
4 TraesCS6D01G255700 chr6B 91.667 120 7 3 2204 2322 542369740 542369857 1.890000e-36 163.0
5 TraesCS6D01G255700 chr6A 93.642 1447 47 12 636 2054 501887078 501888507 0.000000e+00 2121.0
6 TraesCS6D01G255700 chr6A 95.298 319 15 0 11 329 92855839 92855521 7.580000e-140 507.0
7 TraesCS6D01G255700 chr6A 96.078 153 5 1 326 477 501886387 501886539 5.080000e-62 248.0
8 TraesCS6D01G255700 chr6A 92.045 176 13 1 2204 2378 501888488 501888663 1.830000e-61 246.0
9 TraesCS6D01G255700 chr6A 98.276 58 1 0 513 570 501886540 501886597 4.180000e-18 102.0
10 TraesCS6D01G255700 chr4A 95.441 329 15 0 1 329 669379184 669378856 2.090000e-145 525.0
11 TraesCS6D01G255700 chr7D 95.611 319 14 0 11 329 510701511 510701193 1.630000e-141 512.0
12 TraesCS6D01G255700 chr7D 94.225 329 19 0 1 329 411596048 411596376 9.810000e-139 503.0
13 TraesCS6D01G255700 chr2D 94.512 328 18 0 1 328 114822799 114822472 7.580000e-140 507.0
14 TraesCS6D01G255700 chr2D 93.038 158 8 3 2048 2204 591311112 591310957 6.610000e-56 228.0
15 TraesCS6D01G255700 chr1D 94.225 329 19 0 1 329 30590178 30590506 9.810000e-139 503.0
16 TraesCS6D01G255700 chr1D 92.903 155 9 2 2049 2202 463344301 463344454 8.550000e-55 224.0
17 TraesCS6D01G255700 chr5D 94.984 319 16 0 11 329 257127673 257127355 3.530000e-138 501.0
18 TraesCS6D01G255700 chr5D 94.984 319 16 0 11 329 275986560 275986242 3.530000e-138 501.0
19 TraesCS6D01G255700 chr5D 93.464 153 8 1 2052 2204 380078777 380078927 2.380000e-55 226.0
20 TraesCS6D01G255700 chr3D 94.702 151 7 1 2052 2202 488863577 488863428 1.420000e-57 233.0
21 TraesCS6D01G255700 chr1B 94.079 152 8 1 2052 2203 504521367 504521517 1.840000e-56 230.0
22 TraesCS6D01G255700 chr1A 93.377 151 9 1 2052 2202 104918858 104919007 3.080000e-54 222.0
23 TraesCS6D01G255700 chr1A 91.720 157 12 1 2052 2208 60910960 60911115 1.430000e-52 217.0
24 TraesCS6D01G255700 chr2B 91.250 160 11 3 2048 2206 719608221 719608064 5.150000e-52 215.0
25 TraesCS6D01G255700 chr3B 89.796 49 2 1 327 372 779369523 779369475 2.550000e-05 60.2


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 TraesCS6D01G255700 chr6D 360816622 360818999 2377 False 4392.00 4392 100.00000 1 2378 1 chr6D.!!$F1 2377
1 TraesCS6D01G255700 chr6B 542367725 542369857 2132 False 1700.50 3238 93.47550 1 2322 2 chr6B.!!$F2 2321
2 TraesCS6D01G255700 chr6A 501886387 501888663 2276 False 679.25 2121 95.01025 326 2378 4 chr6A.!!$F1 2052

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
332 333 0.467659 AGGGTAGGGACCTCGATTCG 60.468 60.0 0.0 0.0 46.09 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2073 2521 0.392193 CAGTAACCTCAGCTGCCCAG 60.392 60.0 9.47 0.7 0.0 4.45 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
114 115 3.562779 GAGACCCGCCGTTGTCGAA 62.563 63.158 0.00 0.00 39.71 3.71
129 130 1.672030 CGAAGTGCCAGATGCCACA 60.672 57.895 0.00 0.00 40.16 4.17
131 132 1.589716 GAAGTGCCAGATGCCACACC 61.590 60.000 0.00 0.00 40.16 4.16
154 155 2.654912 CTCCGACGCGAAACACCAC 61.655 63.158 15.93 0.00 0.00 4.16
170 171 1.078848 CACCTGCTGCCACTAGTCC 60.079 63.158 0.00 0.00 0.00 3.85
171 172 2.294078 ACCTGCTGCCACTAGTCCC 61.294 63.158 0.00 0.00 0.00 4.46
183 184 2.946988 CTAGTCCCATCCCCTCCGCA 62.947 65.000 0.00 0.00 0.00 5.69
191 192 2.615227 ATCCCCTCCGCATGCAGTTC 62.615 60.000 19.57 0.00 0.00 3.01
213 214 2.841160 AAACCGAGCACCCAAACGC 61.841 57.895 0.00 0.00 0.00 4.84
218 219 4.974721 AGCACCCAAACGCCCCAG 62.975 66.667 0.00 0.00 0.00 4.45
274 275 1.887707 GTCGCCGCCCAATCTAAGG 60.888 63.158 0.00 0.00 0.00 2.69
332 333 0.467659 AGGGTAGGGACCTCGATTCG 60.468 60.000 0.00 0.00 46.09 3.34
573 575 5.123820 CAGAAGACTTTGTTCAGTGTTTCCA 59.876 40.000 0.00 0.00 30.64 3.53
971 1399 1.751924 GGCTCTCCACTGTTCTATCGT 59.248 52.381 0.00 0.00 0.00 3.73
1395 1823 2.556257 TGAAGTGTTCGTTAAGCTGCA 58.444 42.857 1.02 0.00 0.00 4.41
1459 1887 2.165030 TCCGGTTAGCACAGTAAGTAGC 59.835 50.000 0.00 0.00 0.00 3.58
1615 2058 4.948341 ACCAACATTCCCTTGTTAAACC 57.052 40.909 0.00 0.00 37.73 3.27
1635 2078 1.969589 ATCGCCGGCGGTTCTTTTT 60.970 52.632 44.95 18.69 40.25 1.94
1659 2102 3.433709 CTTCATGTGTTGCAACGTTTGA 58.566 40.909 23.79 20.77 0.00 2.69
1669 2112 1.454276 GCAACGTTTGAGATCGACGAA 59.546 47.619 16.70 6.33 39.85 3.85
1670 2113 2.717893 GCAACGTTTGAGATCGACGAAC 60.718 50.000 16.70 14.67 39.85 3.95
1677 2120 0.731417 GAGATCGACGAACCTCCGAA 59.269 55.000 15.61 0.00 35.87 4.30
1743 2186 6.180472 ACAATAAAGAATGTAGTCCACCCAG 58.820 40.000 0.00 0.00 0.00 4.45
1805 2248 2.035632 CTACCACCAACCAAGCCAAAA 58.964 47.619 0.00 0.00 0.00 2.44
1806 2249 1.506025 ACCACCAACCAAGCCAAAAT 58.494 45.000 0.00 0.00 0.00 1.82
1807 2250 2.683768 ACCACCAACCAAGCCAAAATA 58.316 42.857 0.00 0.00 0.00 1.40
1949 2397 6.531923 TGTGTGACTGTCTAGTACTCTAGTT 58.468 40.000 9.51 0.00 42.88 2.24
2042 2490 3.005554 CCATGCGAGAGTGACATTTCTT 58.994 45.455 0.00 0.00 0.00 2.52
2043 2491 3.063180 CCATGCGAGAGTGACATTTCTTC 59.937 47.826 0.00 0.00 0.00 2.87
2050 2498 6.588552 CGAGAGTGACATTTCTTCTTCTTTG 58.411 40.000 0.00 0.00 0.00 2.77
2054 2502 5.532779 AGTGACATTTCTTCTTCTTTGGGAC 59.467 40.000 0.00 0.00 0.00 4.46
2055 2503 4.515191 TGACATTTCTTCTTCTTTGGGACG 59.485 41.667 0.00 0.00 0.00 4.79
2056 2504 3.821033 ACATTTCTTCTTCTTTGGGACGG 59.179 43.478 0.00 0.00 0.00 4.79
2057 2505 2.561478 TTCTTCTTCTTTGGGACGGG 57.439 50.000 0.00 0.00 0.00 5.28
2058 2506 0.690762 TCTTCTTCTTTGGGACGGGG 59.309 55.000 0.00 0.00 0.00 5.73
2059 2507 0.960861 CTTCTTCTTTGGGACGGGGC 60.961 60.000 0.00 0.00 0.00 5.80
2060 2508 2.741486 TTCTTCTTTGGGACGGGGCG 62.741 60.000 0.00 0.00 0.00 6.13
2061 2509 3.546714 CTTCTTTGGGACGGGGCGT 62.547 63.158 0.00 0.00 45.10 5.68
2074 2522 4.681978 GGCGTCGACCTGTTGGCT 62.682 66.667 10.58 0.00 36.63 4.75
2075 2523 3.414700 GCGTCGACCTGTTGGCTG 61.415 66.667 10.58 0.00 36.63 4.85
2076 2524 2.738521 CGTCGACCTGTTGGCTGG 60.739 66.667 10.58 0.00 39.33 4.85
2077 2525 2.358737 GTCGACCTGTTGGCTGGG 60.359 66.667 3.51 0.00 37.95 4.45
2078 2526 4.329545 TCGACCTGTTGGCTGGGC 62.330 66.667 0.00 0.00 38.27 5.36
2079 2527 4.641645 CGACCTGTTGGCTGGGCA 62.642 66.667 0.00 0.00 41.36 5.36
2080 2528 2.674380 GACCTGTTGGCTGGGCAG 60.674 66.667 0.00 0.00 41.00 4.85
2090 2538 4.625800 CTGGGCAGCTGAGGTTAC 57.374 61.111 20.43 0.00 0.00 2.50
2091 2539 1.986413 CTGGGCAGCTGAGGTTACT 59.014 57.895 20.43 0.00 0.00 2.24
2092 2540 0.392193 CTGGGCAGCTGAGGTTACTG 60.392 60.000 20.43 0.42 34.48 2.74
2096 2544 3.149899 CAGCTGAGGTTACTGCCAG 57.850 57.895 8.42 0.00 35.80 4.85
2097 2545 3.896479 GCTGAGGTTACTGCCAGC 58.104 61.111 0.00 0.00 44.00 4.85
2098 2546 1.746991 GCTGAGGTTACTGCCAGCC 60.747 63.158 0.00 0.00 44.39 4.85
2099 2547 1.078143 CTGAGGTTACTGCCAGCCC 60.078 63.158 0.00 0.00 0.00 5.19
2100 2548 1.841302 CTGAGGTTACTGCCAGCCCA 61.841 60.000 0.00 0.00 0.00 5.36
2101 2549 1.377333 GAGGTTACTGCCAGCCCAC 60.377 63.158 0.00 0.00 0.00 4.61
2102 2550 2.361230 GGTTACTGCCAGCCCACC 60.361 66.667 0.00 0.00 0.00 4.61
2103 2551 2.361230 GTTACTGCCAGCCCACCC 60.361 66.667 0.00 0.00 0.00 4.61
2104 2552 4.028490 TTACTGCCAGCCCACCCG 62.028 66.667 0.00 0.00 0.00 5.28
2110 2558 3.636231 CCAGCCCACCCGAGTTCA 61.636 66.667 0.00 0.00 0.00 3.18
2111 2559 2.429930 CAGCCCACCCGAGTTCAA 59.570 61.111 0.00 0.00 0.00 2.69
2112 2560 1.672356 CAGCCCACCCGAGTTCAAG 60.672 63.158 0.00 0.00 0.00 3.02
2113 2561 2.147387 AGCCCACCCGAGTTCAAGT 61.147 57.895 0.00 0.00 0.00 3.16
2114 2562 1.671379 GCCCACCCGAGTTCAAGTC 60.671 63.158 0.00 0.00 0.00 3.01
2115 2563 1.003718 CCCACCCGAGTTCAAGTCC 60.004 63.158 0.00 0.00 0.00 3.85
2116 2564 1.003718 CCACCCGAGTTCAAGTCCC 60.004 63.158 0.00 0.00 0.00 4.46
2117 2565 1.374252 CACCCGAGTTCAAGTCCCG 60.374 63.158 0.00 0.00 0.00 5.14
2118 2566 2.264794 CCCGAGTTCAAGTCCCGG 59.735 66.667 0.00 0.00 39.85 5.73
2119 2567 2.434359 CCGAGTTCAAGTCCCGGC 60.434 66.667 0.00 0.00 33.47 6.13
2120 2568 2.657237 CGAGTTCAAGTCCCGGCT 59.343 61.111 0.00 0.00 0.00 5.52
2121 2569 1.446272 CGAGTTCAAGTCCCGGCTC 60.446 63.158 0.00 0.00 0.00 4.70
2122 2570 1.446272 GAGTTCAAGTCCCGGCTCG 60.446 63.158 0.00 0.00 0.00 5.03
2145 2593 2.665185 GCGGTGCTCACGGAGTTT 60.665 61.111 11.07 0.00 41.61 2.66
2146 2594 2.668280 GCGGTGCTCACGGAGTTTC 61.668 63.158 11.07 0.00 41.61 2.78
2147 2595 1.006102 CGGTGCTCACGGAGTTTCT 60.006 57.895 1.90 0.00 41.61 2.52
2148 2596 1.009389 CGGTGCTCACGGAGTTTCTC 61.009 60.000 1.90 0.00 41.61 2.87
2149 2597 0.670854 GGTGCTCACGGAGTTTCTCC 60.671 60.000 5.79 5.79 46.44 3.71
2178 2626 2.704464 AATACCAACGAGGGTTAGCC 57.296 50.000 7.99 0.00 43.89 3.93
2188 2636 2.359011 GGTTAGCCCCTGGGTTGG 59.641 66.667 12.71 0.00 37.65 3.77
2189 2637 2.544745 GGTTAGCCCCTGGGTTGGT 61.545 63.158 12.71 5.43 37.65 3.67
2190 2638 1.001269 GTTAGCCCCTGGGTTGGTC 60.001 63.158 12.71 0.00 37.65 4.02
2191 2639 1.151677 TTAGCCCCTGGGTTGGTCT 60.152 57.895 12.71 3.25 37.65 3.85
2192 2640 1.205460 TTAGCCCCTGGGTTGGTCTC 61.205 60.000 12.71 0.00 37.65 3.36
2193 2641 2.409984 TAGCCCCTGGGTTGGTCTCA 62.410 60.000 12.71 0.00 37.65 3.27
2194 2642 2.616458 GCCCCTGGGTTGGTCTCAT 61.616 63.158 12.71 0.00 37.65 2.90
2195 2643 2.087248 CCCCTGGGTTGGTCTCATT 58.913 57.895 12.71 0.00 0.00 2.57
2196 2644 0.409484 CCCCTGGGTTGGTCTCATTT 59.591 55.000 12.71 0.00 0.00 2.32
2197 2645 1.203174 CCCCTGGGTTGGTCTCATTTT 60.203 52.381 12.71 0.00 0.00 1.82
2198 2646 2.608623 CCCTGGGTTGGTCTCATTTTT 58.391 47.619 3.97 0.00 0.00 1.94
2267 2717 2.941453 TTAAGCACTCTCGAGCGAAT 57.059 45.000 9.87 0.00 35.48 3.34
2304 2754 3.186001 CGGATCTATTGCACTGATCTTGC 59.814 47.826 17.02 11.68 40.63 4.01
2335 2785 2.674852 CGGGTGACATGTCATCAAAGAG 59.325 50.000 33.99 18.39 42.34 2.85
2337 2787 4.326826 GGGTGACATGTCATCAAAGAGAA 58.673 43.478 33.99 6.29 42.34 2.87
2368 2818 5.637006 TGTATATGTTGTTCCTTGCCAAC 57.363 39.130 0.00 0.00 41.00 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
106 107 0.166814 GCATCTGGCACTTCGACAAC 59.833 55.000 0.00 0.00 43.97 3.32
145 146 1.827789 TGGCAGCAGGTGGTGTTTC 60.828 57.895 10.66 2.62 44.70 2.78
154 155 1.630126 ATGGGACTAGTGGCAGCAGG 61.630 60.000 0.00 0.00 0.00 4.85
170 171 4.193893 TGCATGCGGAGGGGATGG 62.194 66.667 14.09 0.00 44.01 3.51
171 172 2.593725 CTGCATGCGGAGGGGATG 60.594 66.667 22.55 0.00 46.33 3.51
183 184 1.813513 CTCGGTTTGAGGAACTGCAT 58.186 50.000 0.00 0.00 43.10 3.96
191 192 0.821711 TTTGGGTGCTCGGTTTGAGG 60.822 55.000 0.00 0.00 45.38 3.86
225 226 1.067071 GTGTCGTACCCTTCTTGGAGG 60.067 57.143 0.00 0.00 38.35 4.30
257 258 2.028125 CTCCTTAGATTGGGCGGCGA 62.028 60.000 12.98 0.00 0.00 5.54
259 260 0.398318 ATCTCCTTAGATTGGGCGGC 59.602 55.000 0.00 0.00 39.55 6.53
316 317 4.376340 TTTTACGAATCGAGGTCCCTAC 57.624 45.455 10.55 0.00 0.00 3.18
318 319 3.967332 TTTTTACGAATCGAGGTCCCT 57.033 42.857 10.55 0.00 0.00 4.20
573 575 3.009253 AGAGAGGGATATACACGGACGAT 59.991 47.826 0.00 0.00 0.00 3.73
746 1163 2.863988 AAGAAGGGTGGGTGGGGG 60.864 66.667 0.00 0.00 0.00 5.40
834 1258 3.936203 TCGGCCAAAGCGTCACCT 61.936 61.111 2.24 0.00 41.24 4.00
836 1260 3.723348 GGTCGGCCAAAGCGTCAC 61.723 66.667 0.00 0.00 41.24 3.67
971 1399 4.007644 CCAGGTGAGTCCAGCGCA 62.008 66.667 11.47 0.00 44.94 6.09
1056 1484 2.480555 GGCGGCGTGAAGAACATG 59.519 61.111 9.37 0.00 38.43 3.21
1140 1568 3.665675 GAACGTGCCGATGGAGCCT 62.666 63.158 0.00 0.00 0.00 4.58
1240 1668 2.202401 GTCGTACACCTCGTCGGC 60.202 66.667 0.00 0.00 35.61 5.54
1395 1823 1.613630 AGCAGGAACCGGATGACCT 60.614 57.895 9.46 8.11 0.00 3.85
1459 1887 5.759506 AGATACACTAAGACGGATCACTG 57.240 43.478 0.00 0.00 0.00 3.66
1635 2078 1.133982 ACGTTGCAACACATGAAGCAA 59.866 42.857 28.01 7.22 43.90 3.91
1636 2079 0.737804 ACGTTGCAACACATGAAGCA 59.262 45.000 28.01 0.51 34.79 3.91
1659 2102 0.450983 GTTCGGAGGTTCGTCGATCT 59.549 55.000 0.00 0.00 32.80 2.75
1677 2120 3.202001 CATTCCGGCGCGATTGGT 61.202 61.111 12.10 0.00 0.00 3.67
1743 2186 4.147321 ACAATCCTTCCATATCCATGTGC 58.853 43.478 0.00 0.00 0.00 4.57
1805 2248 7.092891 TGGAAGATCGGCAAGATATGGTAATAT 60.093 37.037 0.00 0.00 40.26 1.28
1806 2249 6.212589 TGGAAGATCGGCAAGATATGGTAATA 59.787 38.462 0.00 0.00 40.26 0.98
1807 2250 5.013079 TGGAAGATCGGCAAGATATGGTAAT 59.987 40.000 0.00 0.00 40.26 1.89
2024 2472 3.667497 AGAAGAAATGTCACTCTCGCA 57.333 42.857 0.00 0.00 0.00 5.10
2042 2490 2.754375 GCCCCGTCCCAAAGAAGA 59.246 61.111 0.00 0.00 0.00 2.87
2043 2491 2.746277 CGCCCCGTCCCAAAGAAG 60.746 66.667 0.00 0.00 0.00 2.85
2057 2505 4.681978 AGCCAACAGGTCGACGCC 62.682 66.667 9.92 0.00 0.00 5.68
2058 2506 3.414700 CAGCCAACAGGTCGACGC 61.415 66.667 9.92 6.10 0.00 5.19
2059 2507 2.738521 CCAGCCAACAGGTCGACG 60.739 66.667 9.92 0.00 0.00 5.12
2060 2508 2.358737 CCCAGCCAACAGGTCGAC 60.359 66.667 7.13 7.13 0.00 4.20
2061 2509 4.329545 GCCCAGCCAACAGGTCGA 62.330 66.667 0.00 0.00 0.00 4.20
2062 2510 4.641645 TGCCCAGCCAACAGGTCG 62.642 66.667 0.00 0.00 0.00 4.79
2063 2511 2.674380 CTGCCCAGCCAACAGGTC 60.674 66.667 0.00 0.00 0.00 3.85
2073 2521 0.392193 CAGTAACCTCAGCTGCCCAG 60.392 60.000 9.47 0.70 0.00 4.45
2074 2522 1.679311 CAGTAACCTCAGCTGCCCA 59.321 57.895 9.47 0.00 0.00 5.36
2075 2523 1.746991 GCAGTAACCTCAGCTGCCC 60.747 63.158 9.47 0.00 46.93 5.36
2076 2524 3.896479 GCAGTAACCTCAGCTGCC 58.104 61.111 9.47 0.00 46.93 4.85
2078 2526 1.023513 GCTGGCAGTAACCTCAGCTG 61.024 60.000 17.16 7.63 46.29 4.24
2079 2527 1.298014 GCTGGCAGTAACCTCAGCT 59.702 57.895 17.16 0.00 46.29 4.24
2080 2528 3.896479 GCTGGCAGTAACCTCAGC 58.104 61.111 17.16 0.00 44.34 4.26
2081 2529 1.078143 GGGCTGGCAGTAACCTCAG 60.078 63.158 17.16 0.00 0.00 3.35
2082 2530 1.845664 TGGGCTGGCAGTAACCTCA 60.846 57.895 17.16 1.97 0.00 3.86
2083 2531 1.377333 GTGGGCTGGCAGTAACCTC 60.377 63.158 17.16 12.75 0.00 3.85
2084 2532 2.757077 GTGGGCTGGCAGTAACCT 59.243 61.111 17.16 0.00 0.00 3.50
2085 2533 2.361230 GGTGGGCTGGCAGTAACC 60.361 66.667 17.16 16.52 0.00 2.85
2086 2534 2.361230 GGGTGGGCTGGCAGTAAC 60.361 66.667 17.16 11.55 0.00 2.50
2087 2535 4.028490 CGGGTGGGCTGGCAGTAA 62.028 66.667 17.16 0.00 0.00 2.24
2093 2541 3.190738 TTGAACTCGGGTGGGCTGG 62.191 63.158 0.00 0.00 0.00 4.85
2094 2542 1.672356 CTTGAACTCGGGTGGGCTG 60.672 63.158 0.00 0.00 0.00 4.85
2095 2543 2.113243 GACTTGAACTCGGGTGGGCT 62.113 60.000 0.00 0.00 0.00 5.19
2096 2544 1.671379 GACTTGAACTCGGGTGGGC 60.671 63.158 0.00 0.00 0.00 5.36
2097 2545 1.003718 GGACTTGAACTCGGGTGGG 60.004 63.158 0.00 0.00 0.00 4.61
2098 2546 1.003718 GGGACTTGAACTCGGGTGG 60.004 63.158 0.00 0.00 0.00 4.61
2099 2547 1.374252 CGGGACTTGAACTCGGGTG 60.374 63.158 0.00 0.00 0.00 4.61
2100 2548 2.580601 CCGGGACTTGAACTCGGGT 61.581 63.158 0.00 0.00 46.21 5.28
2101 2549 2.264794 CCGGGACTTGAACTCGGG 59.735 66.667 0.00 0.00 46.21 5.14
2103 2551 1.446272 GAGCCGGGACTTGAACTCG 60.446 63.158 2.18 0.00 0.00 4.18
2104 2552 1.446272 CGAGCCGGGACTTGAACTC 60.446 63.158 2.18 0.00 0.00 3.01
2105 2553 2.657237 CGAGCCGGGACTTGAACT 59.343 61.111 2.18 0.00 0.00 3.01
2106 2554 2.434359 CCGAGCCGGGACTTGAAC 60.434 66.667 2.18 0.00 44.15 3.18
2128 2576 2.665185 AAACTCCGTGAGCACCGC 60.665 61.111 1.36 0.00 32.04 5.68
2129 2577 1.006102 AGAAACTCCGTGAGCACCG 60.006 57.895 1.36 0.00 32.04 4.94
2130 2578 0.670854 GGAGAAACTCCGTGAGCACC 60.671 60.000 1.97 0.00 41.08 5.01
2131 2579 2.828933 GGAGAAACTCCGTGAGCAC 58.171 57.895 1.97 0.00 41.08 4.40
2156 2604 3.760151 GGCTAACCCTCGTTGGTATTTTT 59.240 43.478 0.00 0.00 37.76 1.94
2157 2605 3.349927 GGCTAACCCTCGTTGGTATTTT 58.650 45.455 0.00 0.00 37.76 1.82
2158 2606 2.995283 GGCTAACCCTCGTTGGTATTT 58.005 47.619 0.00 0.00 37.76 1.40
2159 2607 2.704464 GGCTAACCCTCGTTGGTATT 57.296 50.000 0.00 0.00 37.76 1.89
2171 2619 2.359011 CCAACCCAGGGGCTAACC 59.641 66.667 11.37 0.00 39.32 2.85
2172 2620 1.001269 GACCAACCCAGGGGCTAAC 60.001 63.158 11.37 0.00 39.32 2.34
2173 2621 1.151677 AGACCAACCCAGGGGCTAA 60.152 57.895 11.37 0.00 43.80 3.09
2174 2622 1.615424 GAGACCAACCCAGGGGCTA 60.615 63.158 11.37 0.00 46.31 3.93
2176 2624 2.155197 AATGAGACCAACCCAGGGGC 62.155 60.000 11.37 0.00 39.32 5.80
2177 2625 0.409484 AAATGAGACCAACCCAGGGG 59.591 55.000 11.37 6.87 42.03 4.79
2178 2626 2.309136 AAAATGAGACCAACCCAGGG 57.691 50.000 2.85 2.85 0.00 4.45
2199 2647 9.981114 GATTCCCAAAGAAGAAGAAATGTTAAA 57.019 29.630 0.00 0.00 38.07 1.52
2200 2648 9.142014 TGATTCCCAAAGAAGAAGAAATGTTAA 57.858 29.630 0.00 0.00 38.07 2.01
2201 2649 8.576442 GTGATTCCCAAAGAAGAAGAAATGTTA 58.424 33.333 0.00 0.00 38.07 2.41
2202 2650 7.288621 AGTGATTCCCAAAGAAGAAGAAATGTT 59.711 33.333 0.00 0.00 38.07 2.71
2203 2651 6.779539 AGTGATTCCCAAAGAAGAAGAAATGT 59.220 34.615 0.00 0.00 38.07 2.71
2204 2652 7.224522 AGTGATTCCCAAAGAAGAAGAAATG 57.775 36.000 0.00 0.00 38.07 2.32
2205 2653 8.940397 TTAGTGATTCCCAAAGAAGAAGAAAT 57.060 30.769 0.00 0.00 38.07 2.17
2206 2654 8.760980 TTTAGTGATTCCCAAAGAAGAAGAAA 57.239 30.769 0.00 0.00 38.07 2.52
2207 2655 8.760980 TTTTAGTGATTCCCAAAGAAGAAGAA 57.239 30.769 0.00 0.00 38.07 2.52
2208 2656 8.760980 TTTTTAGTGATTCCCAAAGAAGAAGA 57.239 30.769 0.00 0.00 38.07 2.87
2323 2773 6.427853 ACATCGAACAATTCTCTTTGATGACA 59.572 34.615 17.07 0.00 39.33 3.58
2335 2785 8.612619 AGGAACAACATATACATCGAACAATTC 58.387 33.333 0.00 0.00 0.00 2.17
2337 2787 8.397906 CAAGGAACAACATATACATCGAACAAT 58.602 33.333 0.00 0.00 0.00 2.71


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

AutoCloner maintained by Alex Coulton.