Multiple sequence alignment - TraesCS6B01G301000

Loading Multiple Alignment...

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 TraesCS6B01G301000 chr6B 100.000 3753 0 0 1 3753 539197453 539193701 0.000000e+00 6931.0
1 TraesCS6B01G301000 chr6D 90.660 3833 159 71 4 3753 357594280 357590564 0.000000e+00 4911.0
2 TraesCS6B01G301000 chr6D 88.687 495 27 9 676 1154 357873165 357872684 9.040000e-161 577.0
3 TraesCS6B01G301000 chr6D 92.411 224 16 1 1197 1420 357872698 357872476 6.050000e-83 318.0
4 TraesCS6B01G301000 chr6D 91.795 195 14 2 137 331 357596204 357596012 1.720000e-68 270.0
5 TraesCS6B01G301000 chr6D 89.806 206 12 6 440 637 357873373 357873169 4.810000e-64 255.0
6 TraesCS6B01G301000 chr6A 86.360 3849 193 116 108 3750 499953365 499957087 0.000000e+00 3893.0
7 TraesCS6B01G301000 chr6A 95.480 177 7 1 2039 2215 74320417 74320592 7.940000e-72 281.0
8 TraesCS6B01G301000 chr6A 91.489 47 3 1 1821 1866 74320375 74320421 3.130000e-06 63.9
9 TraesCS6B01G301000 chr1B 90.403 719 30 19 2247 2932 185184936 185184224 0.000000e+00 909.0
10 TraesCS6B01G301000 chr2A 90.402 646 57 4 1820 2462 228397096 228397739 0.000000e+00 845.0
11 TraesCS6B01G301000 chr2D 90.071 423 42 0 1680 2102 578229257 578229679 1.970000e-152 549.0
12 TraesCS6B01G301000 chr2D 90.476 252 9 9 2280 2516 578306521 578306772 6.050000e-83 318.0
13 TraesCS6B01G301000 chr2D 78.378 148 19 6 1785 1930 388481929 388481793 2.400000e-12 84.2
14 TraesCS6B01G301000 chr4B 86.885 366 48 0 1608 1973 141577551 141577186 9.700000e-111 411.0
15 TraesCS6B01G301000 chr4B 85.979 378 30 10 1243 1620 141577860 141577506 2.110000e-102 383.0
16 TraesCS6B01G301000 chr5D 81.250 208 28 10 2179 2382 359475476 359475676 1.400000e-34 158.0
17 TraesCS6B01G301000 chr5B 81.250 208 28 10 2179 2382 425094268 425094468 1.400000e-34 158.0
18 TraesCS6B01G301000 chr5A 80.769 208 29 10 2179 2382 459775677 459775477 6.490000e-33 152.0
19 TraesCS6B01G301000 chr3D 79.433 141 21 5 1792 1931 305622304 305622437 3.990000e-15 93.5
20 TraesCS6B01G301000 chr3B 78.621 145 21 6 1792 1934 416135821 416135685 1.860000e-13 87.9
21 TraesCS6B01G301000 chr3A 78.723 141 22 5 1792 1931 423671794 423671927 1.860000e-13 87.9


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 TraesCS6B01G301000 chr6B 539193701 539197453 3752 True 6931.000000 6931 100.000000 1 3753 1 chr6B.!!$R1 3752
1 TraesCS6B01G301000 chr6D 357590564 357596204 5640 True 2590.500000 4911 91.227500 4 3753 2 chr6D.!!$R1 3749
2 TraesCS6B01G301000 chr6D 357872476 357873373 897 True 383.333333 577 90.301333 440 1420 3 chr6D.!!$R2 980
3 TraesCS6B01G301000 chr6A 499953365 499957087 3722 False 3893.000000 3893 86.360000 108 3750 1 chr6A.!!$F1 3642
4 TraesCS6B01G301000 chr1B 185184224 185184936 712 True 909.000000 909 90.403000 2247 2932 1 chr1B.!!$R1 685
5 TraesCS6B01G301000 chr2A 228397096 228397739 643 False 845.000000 845 90.402000 1820 2462 1 chr2A.!!$F1 642
6 TraesCS6B01G301000 chr4B 141577186 141577860 674 True 397.000000 411 86.432000 1243 1973 2 chr4B.!!$R1 730

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
348 2290 0.039764 GGGTTTGGAGGAGGGAAAGG 59.960 60.0 0.00 0.00 0.00 3.11 F
433 2382 0.539438 TGGTGAAACATGGCCCTGTC 60.539 55.0 14.54 3.58 39.98 3.51 F
1517 3611 0.688087 ATCCCCACCGGAGAAGAGTC 60.688 60.0 9.46 0.00 46.60 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1517 3611 1.040339 CCTTCTCCCTCTCCCTGTCG 61.040 65.000 0.00 0.00 0.0 4.35 R
1631 3731 2.046023 TCCTGATGGCGCTGTTGG 60.046 61.111 7.64 3.94 0.0 3.77 R
3370 5632 0.036164 CACCACCACCGGAAATCAGA 59.964 55.000 9.46 0.00 0.0 3.27 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
82 2008 5.212532 TGGATCAAAACACTGAATTTGGG 57.787 39.130 0.00 0.00 37.19 4.12
97 2023 4.537433 GGGCGCTACAGGAGGCTG 62.537 72.222 7.64 0.00 39.97 4.85
165 2091 2.435437 GGTCAATGGGGCAAGCAAATAT 59.565 45.455 0.00 0.00 0.00 1.28
213 2140 0.812811 TCGATCGGTAGGTCACTCGG 60.813 60.000 16.41 0.00 0.00 4.63
294 2236 1.560860 GAGACAGAACACGGCAGCAC 61.561 60.000 0.00 0.00 0.00 4.40
322 2264 4.041567 GGATTTGATCAGGGTTTGGGTTTT 59.958 41.667 0.00 0.00 0.00 2.43
325 2267 1.623311 GATCAGGGTTTGGGTTTTGGG 59.377 52.381 0.00 0.00 0.00 4.12
334 2276 1.670059 TGGGTTTTGGGTTTGGGTTT 58.330 45.000 0.00 0.00 0.00 3.27
342 2284 0.541998 GGGTTTGGGTTTGGAGGAGG 60.542 60.000 0.00 0.00 0.00 4.30
344 2286 0.481128 GTTTGGGTTTGGAGGAGGGA 59.519 55.000 0.00 0.00 0.00 4.20
345 2287 1.133294 GTTTGGGTTTGGAGGAGGGAA 60.133 52.381 0.00 0.00 0.00 3.97
346 2288 1.236708 TTGGGTTTGGAGGAGGGAAA 58.763 50.000 0.00 0.00 0.00 3.13
347 2289 0.777446 TGGGTTTGGAGGAGGGAAAG 59.223 55.000 0.00 0.00 0.00 2.62
348 2290 0.039764 GGGTTTGGAGGAGGGAAAGG 59.960 60.000 0.00 0.00 0.00 3.11
349 2291 0.778083 GGTTTGGAGGAGGGAAAGGT 59.222 55.000 0.00 0.00 0.00 3.50
350 2292 1.547901 GGTTTGGAGGAGGGAAAGGTG 60.548 57.143 0.00 0.00 0.00 4.00
374 2316 1.448893 GCAATGGCAGTGGCAATGG 60.449 57.895 29.56 19.84 42.43 3.16
430 2379 1.228862 GGTGGTGAAACATGGCCCT 60.229 57.895 0.00 0.00 39.98 5.19
431 2380 1.535204 GGTGGTGAAACATGGCCCTG 61.535 60.000 6.46 6.46 39.98 4.45
432 2381 0.827507 GTGGTGAAACATGGCCCTGT 60.828 55.000 8.00 8.00 39.98 4.00
433 2382 0.539438 TGGTGAAACATGGCCCTGTC 60.539 55.000 14.54 3.58 39.98 3.51
434 2383 1.586154 GGTGAAACATGGCCCTGTCG 61.586 60.000 14.54 0.00 39.98 4.35
436 2385 1.303317 GAAACATGGCCCTGTCGGT 60.303 57.895 14.54 3.02 0.00 4.69
480 2437 0.912006 GCTTCTTCCTCCCCTCCACT 60.912 60.000 0.00 0.00 0.00 4.00
483 2440 1.081092 CTTCCTCCCCTCCACTCCA 59.919 63.158 0.00 0.00 0.00 3.86
578 2546 1.461127 GTAGACTGGTTCAAGCAAGCG 59.539 52.381 0.00 0.00 35.00 4.68
625 2593 2.677848 GCCACTTTCCCTCTCCCC 59.322 66.667 0.00 0.00 0.00 4.81
652 2626 3.665971 CCTTTGCCCTGGCCCTCT 61.666 66.667 5.57 0.00 41.09 3.69
737 2742 5.332106 AGATAAGATGGCCTAGTGAGAGA 57.668 43.478 3.32 0.00 0.00 3.10
738 2743 5.324409 AGATAAGATGGCCTAGTGAGAGAG 58.676 45.833 3.32 0.00 0.00 3.20
739 2744 3.678965 AAGATGGCCTAGTGAGAGAGA 57.321 47.619 3.32 0.00 0.00 3.10
740 2745 3.901570 AGATGGCCTAGTGAGAGAGAT 57.098 47.619 3.32 0.00 0.00 2.75
741 2746 5.332106 AAGATGGCCTAGTGAGAGAGATA 57.668 43.478 3.32 0.00 0.00 1.98
742 2747 4.922206 AGATGGCCTAGTGAGAGAGATAG 58.078 47.826 3.32 0.00 0.00 2.08
743 2748 4.353788 AGATGGCCTAGTGAGAGAGATAGT 59.646 45.833 3.32 0.00 0.00 2.12
744 2749 5.550011 AGATGGCCTAGTGAGAGAGATAGTA 59.450 44.000 3.32 0.00 0.00 1.82
745 2750 5.235850 TGGCCTAGTGAGAGAGATAGTAG 57.764 47.826 3.32 0.00 0.00 2.57
746 2751 4.908481 TGGCCTAGTGAGAGAGATAGTAGA 59.092 45.833 3.32 0.00 0.00 2.59
747 2752 5.550011 TGGCCTAGTGAGAGAGATAGTAGAT 59.450 44.000 3.32 0.00 0.00 1.98
863 2878 1.077501 CCAGCCATACCACCCTGTG 60.078 63.158 0.00 0.00 0.00 3.66
914 2963 2.283173 CCCCCTTGAGGCCAACAC 60.283 66.667 5.01 0.00 0.00 3.32
1023 3083 2.892334 CGCCCAAGAACACACCACG 61.892 63.158 0.00 0.00 0.00 4.94
1024 3084 2.551912 GCCCAAGAACACACCACGG 61.552 63.158 0.00 0.00 0.00 4.94
1202 3284 0.859760 ATGAGGAGGAGGAGGAGGAG 59.140 60.000 0.00 0.00 0.00 3.69
1203 3285 1.292941 TGAGGAGGAGGAGGAGGAGG 61.293 65.000 0.00 0.00 0.00 4.30
1204 3286 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
1514 3608 2.367202 GCATCCCCACCGGAGAAGA 61.367 63.158 9.46 0.00 46.60 2.87
1517 3611 0.688087 ATCCCCACCGGAGAAGAGTC 60.688 60.000 9.46 0.00 46.60 3.36
1545 3639 1.380650 AGGGAGAAGGAGAGGACGC 60.381 63.158 0.00 0.00 0.00 5.19
1637 3737 4.034258 CAGCCGCAGCACCAACAG 62.034 66.667 0.00 0.00 43.56 3.16
1713 3813 2.511373 CGCCTACGCTTGCCATCA 60.511 61.111 0.00 0.00 0.00 3.07
1949 4049 4.467084 CCGGTGGTGATGGTCCCG 62.467 72.222 0.00 0.00 38.39 5.14
2578 4733 8.801882 TTTTATCATTTCTCCCGTGTAATTCT 57.198 30.769 0.00 0.00 0.00 2.40
2609 4764 3.804786 TCGTTGTCAGGTGTTAACTCA 57.195 42.857 7.22 0.00 0.00 3.41
2787 4961 3.274095 ACTGCTTCTTGCTTAGATCCC 57.726 47.619 0.00 0.00 43.37 3.85
2806 4980 7.278875 AGATCCCACTTCTACATTGAAGATTC 58.721 38.462 10.68 0.00 44.40 2.52
2815 4989 6.382087 TCTACATTGAAGATTCTAGGGCCTA 58.618 40.000 13.73 13.73 0.00 3.93
2826 5000 2.916934 TCTAGGGCCTATCTCTCTCTCC 59.083 54.545 14.95 0.00 0.00 3.71
2829 5003 1.272480 GGGCCTATCTCTCTCTCCTCC 60.272 61.905 0.84 0.00 0.00 4.30
2883 5079 2.357009 GCTTGCTTGTATGTATGCAGCT 59.643 45.455 0.00 0.00 36.75 4.24
2884 5080 3.791122 GCTTGCTTGTATGTATGCAGCTG 60.791 47.826 10.11 10.11 36.75 4.24
2885 5081 1.672363 TGCTTGTATGTATGCAGCTGC 59.328 47.619 31.89 31.89 42.50 5.25
2970 5172 2.283173 CACCCACCCTTCTTGGCC 60.283 66.667 0.00 0.00 32.13 5.36
3045 5251 0.185901 AGAGGGGCATTGTGTTGTGT 59.814 50.000 0.00 0.00 0.00 3.72
3050 5256 1.569708 GGCATTGTGTTGTGTTGTGG 58.430 50.000 0.00 0.00 0.00 4.17
3051 5257 1.134848 GGCATTGTGTTGTGTTGTGGT 60.135 47.619 0.00 0.00 0.00 4.16
3052 5258 1.925847 GCATTGTGTTGTGTTGTGGTG 59.074 47.619 0.00 0.00 0.00 4.17
3053 5259 2.673610 GCATTGTGTTGTGTTGTGGTGT 60.674 45.455 0.00 0.00 0.00 4.16
3054 5260 2.713895 TTGTGTTGTGTTGTGGTGTG 57.286 45.000 0.00 0.00 0.00 3.82
3055 5261 1.610363 TGTGTTGTGTTGTGGTGTGT 58.390 45.000 0.00 0.00 0.00 3.72
3056 5262 1.268079 TGTGTTGTGTTGTGGTGTGTG 59.732 47.619 0.00 0.00 0.00 3.82
3057 5263 0.242286 TGTTGTGTTGTGGTGTGTGC 59.758 50.000 0.00 0.00 0.00 4.57
3058 5264 0.796491 GTTGTGTTGTGGTGTGTGCG 60.796 55.000 0.00 0.00 0.00 5.34
3059 5265 1.237954 TTGTGTTGTGGTGTGTGCGT 61.238 50.000 0.00 0.00 0.00 5.24
3060 5266 1.061887 GTGTTGTGGTGTGTGCGTC 59.938 57.895 0.00 0.00 0.00 5.19
3061 5267 2.323105 GTTGTGGTGTGTGCGTCG 59.677 61.111 0.00 0.00 0.00 5.12
3062 5268 3.568743 TTGTGGTGTGTGCGTCGC 61.569 61.111 11.10 11.10 0.00 5.19
3101 5315 2.681421 GGAGGGGCCCTTTGCTTG 60.681 66.667 29.49 0.00 40.92 4.01
3102 5316 3.385384 GAGGGGCCCTTTGCTTGC 61.385 66.667 29.49 8.17 40.92 4.01
3189 5403 0.919710 GGGTCATTACAGGAGGGCTT 59.080 55.000 0.00 0.00 0.00 4.35
3230 5448 2.364186 GCCTTGATTGGGTGGGGG 60.364 66.667 0.00 0.00 0.00 5.40
3261 5480 3.061369 ACCCCCTTTCCTAAGTTGTCTT 58.939 45.455 0.00 0.00 37.65 3.01
3390 5652 0.960364 CTGATTTCCGGTGGTGGTGG 60.960 60.000 0.00 0.00 0.00 4.61
3391 5653 1.074248 GATTTCCGGTGGTGGTGGT 59.926 57.895 0.00 0.00 0.00 4.16
3458 5720 2.435586 GCAGGCGCATGTGAGAGT 60.436 61.111 24.27 0.00 38.36 3.24
3488 5750 4.060900 GTGTGTCAGAAGCTGATCAAAGA 58.939 43.478 0.00 0.00 42.73 2.52
3492 5754 5.468072 GTGTCAGAAGCTGATCAAAGAGAAA 59.532 40.000 0.00 0.00 42.73 2.52
3585 5857 6.724263 TGATATGTACATTGTCGGCAAATTC 58.276 36.000 14.77 0.00 38.21 2.17
3598 5870 2.004733 GCAAATTCAAGGCTTGCATCC 58.995 47.619 22.31 5.97 43.89 3.51
3621 5893 1.831286 CCCATCCAGCCCTGCAATC 60.831 63.158 0.00 0.00 0.00 2.67
3706 5978 2.613725 GGTCGCCAGCATGATGATGATA 60.614 50.000 13.69 0.00 39.69 2.15
3709 5981 2.159037 CGCCAGCATGATGATGATACAC 59.841 50.000 13.69 0.00 39.69 2.90
3719 5996 4.160626 TGATGATGATACACGGGTTGTACA 59.839 41.667 0.00 0.00 43.71 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 1957 9.877178 TGAAAAAGTTAAGCAAAATTGAACCTA 57.123 25.926 0.00 0.00 0.00 3.08
97 2023 1.887707 CGCCCATCTTAACCGAGCC 60.888 63.158 0.00 0.00 0.00 4.70
194 2120 0.812811 CCGAGTGACCTACCGATCGA 60.813 60.000 18.66 0.00 32.13 3.59
195 2121 1.094073 ACCGAGTGACCTACCGATCG 61.094 60.000 8.51 8.51 0.00 3.69
213 2140 1.372087 CTCCAATTCTCGCCCTGCAC 61.372 60.000 0.00 0.00 0.00 4.57
273 2211 0.243907 GCTGCCGTGTTCTGTCTCTA 59.756 55.000 0.00 0.00 0.00 2.43
294 2236 0.107017 ACCCTGATCAAATCCGCCAG 60.107 55.000 0.00 0.00 0.00 4.85
322 2264 0.187361 CTCCTCCAAACCCAAACCCA 59.813 55.000 0.00 0.00 0.00 4.51
325 2267 0.481128 TCCCTCCTCCAAACCCAAAC 59.519 55.000 0.00 0.00 0.00 2.93
334 2276 2.592993 CGCACCTTTCCCTCCTCCA 61.593 63.158 0.00 0.00 0.00 3.86
349 2291 2.039974 CACTGCCATTGCTACCGCA 61.040 57.895 0.00 0.00 46.24 5.69
350 2292 2.764314 CCACTGCCATTGCTACCGC 61.764 63.158 0.00 0.00 38.71 5.68
365 2307 1.045407 ATGGATGATGCCATTGCCAC 58.955 50.000 0.00 0.00 46.29 5.01
480 2437 5.105716 CGGTGAATTTTAGAGAGAGAGTGGA 60.106 44.000 0.00 0.00 0.00 4.02
483 2440 4.382147 GCCGGTGAATTTTAGAGAGAGAGT 60.382 45.833 1.90 0.00 0.00 3.24
549 2511 3.336468 TGAACCAGTCTACTCTCGTCTC 58.664 50.000 0.00 0.00 0.00 3.36
550 2512 3.420300 TGAACCAGTCTACTCTCGTCT 57.580 47.619 0.00 0.00 0.00 4.18
551 2513 3.671164 GCTTGAACCAGTCTACTCTCGTC 60.671 52.174 0.00 0.00 0.00 4.20
625 2593 3.423154 GGCAAAGGCGAGGTGACG 61.423 66.667 0.00 0.00 42.47 4.35
675 2649 4.394712 AAACGAGGGCGAGCAGGG 62.395 66.667 0.00 0.00 41.64 4.45
676 2650 2.788191 AAGAAACGAGGGCGAGCAGG 62.788 60.000 0.00 0.00 41.64 4.85
677 2651 0.951040 AAAGAAACGAGGGCGAGCAG 60.951 55.000 0.00 0.00 41.64 4.24
687 2666 6.258160 CAAGCTTCTCAAAAGAAAGAAACGA 58.742 36.000 0.00 0.00 40.95 3.85
744 2749 9.170890 AGCTAGCTATCCTATCTATCTGTATCT 57.829 37.037 17.69 0.00 0.00 1.98
745 2750 9.436957 GAGCTAGCTATCCTATCTATCTGTATC 57.563 40.741 19.38 0.00 0.00 2.24
746 2751 9.170890 AGAGCTAGCTATCCTATCTATCTGTAT 57.829 37.037 19.38 0.00 0.00 2.29
747 2752 8.561536 AGAGCTAGCTATCCTATCTATCTGTA 57.438 38.462 19.38 0.00 0.00 2.74
1110 3186 3.184382 TGACCTCTTGTACTCCATGGA 57.816 47.619 15.27 15.27 0.00 3.41
1202 3284 1.758906 CCCCTCCTCGTCCTCTTCC 60.759 68.421 0.00 0.00 0.00 3.46
1203 3285 1.758906 CCCCCTCCTCGTCCTCTTC 60.759 68.421 0.00 0.00 0.00 2.87
1204 3286 2.364961 CCCCCTCCTCGTCCTCTT 59.635 66.667 0.00 0.00 0.00 2.85
1514 3608 1.208844 TCTCCCTCTCCCTGTCGACT 61.209 60.000 17.92 0.00 0.00 4.18
1517 3611 1.040339 CCTTCTCCCTCTCCCTGTCG 61.040 65.000 0.00 0.00 0.00 4.35
1599 3699 2.895865 CTCCTGATGGCGCTGCTG 60.896 66.667 7.64 0.95 0.00 4.41
1600 3700 4.853050 GCTCCTGATGGCGCTGCT 62.853 66.667 7.64 0.00 40.68 4.24
1630 3730 2.360350 CCTGATGGCGCTGTTGGT 60.360 61.111 7.64 0.00 0.00 3.67
1631 3731 2.046023 TCCTGATGGCGCTGTTGG 60.046 61.111 7.64 3.94 0.00 3.77
1632 3732 2.758089 GCTCCTGATGGCGCTGTTG 61.758 63.158 7.64 0.00 40.68 3.33
1633 3733 2.437359 GCTCCTGATGGCGCTGTT 60.437 61.111 7.64 0.00 40.68 3.16
1634 3734 4.479993 GGCTCCTGATGGCGCTGT 62.480 66.667 7.64 0.00 43.22 4.40
2204 4313 2.863153 CGGAACCGCTTCTTGCTG 59.137 61.111 0.00 0.00 40.11 4.41
2222 4331 2.280524 TCCGGCGTGAACTTGGTG 60.281 61.111 6.01 0.00 0.00 4.17
2519 4668 0.740868 TGCATCCTCTAGCGTTGTGC 60.741 55.000 0.00 0.00 46.98 4.57
2520 4669 1.945387 ATGCATCCTCTAGCGTTGTG 58.055 50.000 0.00 0.00 0.00 3.33
2521 4670 2.698855 AATGCATCCTCTAGCGTTGT 57.301 45.000 0.00 0.00 38.46 3.32
2578 4733 2.094906 CCTGACAACGATGAGGTTACGA 60.095 50.000 0.00 0.00 0.00 3.43
2609 4764 0.037697 TTAAGTGACTGCCGACGCAT 60.038 50.000 0.00 0.00 46.11 4.73
2787 4961 6.481644 GCCCTAGAATCTTCAATGTAGAAGTG 59.518 42.308 0.00 0.00 44.18 3.16
2806 4980 2.919602 AGGAGAGAGAGATAGGCCCTAG 59.080 54.545 0.00 0.00 0.00 3.02
2815 4989 2.787956 TCAGAGGGAGGAGAGAGAGAT 58.212 52.381 0.00 0.00 0.00 2.75
2826 5000 1.411977 CCACAGCACTATCAGAGGGAG 59.588 57.143 0.00 0.00 0.00 4.30
2829 5003 1.741732 GCACCACAGCACTATCAGAGG 60.742 57.143 0.00 0.00 0.00 3.69
2958 5160 3.984732 GCCCAGGCCAAGAAGGGT 61.985 66.667 5.01 0.00 43.42 4.34
3045 5251 3.568743 GCGACGCACACACCACAA 61.569 61.111 16.42 0.00 0.00 3.33
3050 5256 4.360027 CAGCAGCGACGCACACAC 62.360 66.667 23.70 6.05 0.00 3.82
3054 5260 4.806481 CATGCAGCAGCGACGCAC 62.806 66.667 23.70 13.74 46.23 5.34
3095 5309 0.531090 CCAAGCAAGCAAGCAAGCAA 60.531 50.000 10.52 0.00 36.85 3.91
3100 5314 1.042229 ACATTCCAAGCAAGCAAGCA 58.958 45.000 3.19 0.00 36.85 3.91
3101 5315 2.229784 AGTACATTCCAAGCAAGCAAGC 59.770 45.455 0.00 0.00 0.00 4.01
3102 5316 4.510038 AAGTACATTCCAAGCAAGCAAG 57.490 40.909 0.00 0.00 0.00 4.01
3189 5403 0.263172 AGCTAGGGCAGGAGCTTAGA 59.737 55.000 1.61 0.00 46.99 2.10
3230 5448 4.728110 AAGGGGGTTAACGGCGGC 62.728 66.667 13.24 0.00 0.00 6.53
3358 5620 4.565652 CCGGAAATCAGAGAGGGAGAAAAA 60.566 45.833 0.00 0.00 0.00 1.94
3359 5621 3.055094 CCGGAAATCAGAGAGGGAGAAAA 60.055 47.826 0.00 0.00 0.00 2.29
3360 5622 2.501723 CCGGAAATCAGAGAGGGAGAAA 59.498 50.000 0.00 0.00 0.00 2.52
3361 5623 2.111384 CCGGAAATCAGAGAGGGAGAA 58.889 52.381 0.00 0.00 0.00 2.87
3362 5624 1.007238 ACCGGAAATCAGAGAGGGAGA 59.993 52.381 9.46 0.00 0.00 3.71
3363 5625 1.137872 CACCGGAAATCAGAGAGGGAG 59.862 57.143 9.46 0.00 0.00 4.30
3364 5626 1.195115 CACCGGAAATCAGAGAGGGA 58.805 55.000 9.46 0.00 0.00 4.20
3365 5627 0.179000 CCACCGGAAATCAGAGAGGG 59.821 60.000 9.46 0.00 0.00 4.30
3370 5632 0.036164 CACCACCACCGGAAATCAGA 59.964 55.000 9.46 0.00 0.00 3.27
3390 5652 1.077357 TTGACACCACCACCACCAC 60.077 57.895 0.00 0.00 0.00 4.16
3391 5653 1.225983 CTTGACACCACCACCACCA 59.774 57.895 0.00 0.00 0.00 4.17
3458 5720 1.473257 GCTTCTGACACACACAGTCCA 60.473 52.381 0.00 0.00 36.81 4.02
3488 5750 2.633509 CCGGTCCGGTCTCGTTTCT 61.634 63.158 23.02 0.00 42.73 2.52
3585 5857 1.138247 GCTTCGGATGCAAGCCTTG 59.862 57.895 10.65 0.00 43.22 3.61
3598 5870 3.801997 AGGGCTGGATGGGCTTCG 61.802 66.667 0.00 0.00 0.00 3.79
3621 5893 1.067706 TCATTGCCAAAATCGCACCAG 60.068 47.619 0.00 0.00 35.56 4.00
3706 5978 0.321298 GGCAGATGTACAACCCGTGT 60.321 55.000 0.00 0.00 44.82 4.49
3709 5981 0.462047 GGAGGCAGATGTACAACCCG 60.462 60.000 0.00 0.00 0.00 5.28
3719 5996 0.474660 GGACTATGGGGGAGGCAGAT 60.475 60.000 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.