Multiple sequence alignment - TraesCS5A01G075100

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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 TraesCS5A01G075100 chr5A 100.000 4518 0 0 1 4518 89382581 89387098 0.000000e+00 8344.0
1 TraesCS5A01G075100 chr5A 82.703 4492 621 96 99 4518 69365395 69360988 0.000000e+00 3847.0
2 TraesCS5A01G075100 chr5A 82.379 4591 630 112 4 4518 69341242 69336755 0.000000e+00 3831.0
3 TraesCS5A01G075100 chr5A 74.658 1610 296 66 62 1614 559095880 559094326 1.070000e-170 610.0
4 TraesCS5A01G075100 chr5A 75.956 366 71 9 1661 2025 69339753 69339404 6.010000e-39 172.0
5 TraesCS5A01G075100 chr5A 78.571 238 49 2 1538 1774 89384364 89384600 6.050000e-34 156.0
6 TraesCS5A01G075100 chr5A 86.364 132 16 2 2280 2410 559094239 559094109 4.710000e-30 143.0
7 TraesCS5A01G075100 chr5D 94.221 4534 202 16 1 4518 95049592 95054081 0.000000e+00 6866.0
8 TraesCS5A01G075100 chr5D 82.990 2910 423 37 1661 4518 74215849 74212960 0.000000e+00 2566.0
9 TraesCS5A01G075100 chr5D 82.636 1935 263 31 4 1902 74217382 74215485 0.000000e+00 1644.0
10 TraesCS5A01G075100 chr5D 82.231 242 43 0 1784 2025 74215849 74215608 4.580000e-50 209.0
11 TraesCS5A01G075100 chr5D 81.224 245 43 2 1784 2025 95051132 95051376 1.280000e-45 195.0
12 TraesCS5A01G075100 chr5D 86.364 132 16 2 2280 2410 443068087 443067957 4.710000e-30 143.0
13 TraesCS5A01G075100 chr5D 77.406 239 50 4 1538 1774 95051381 95051617 6.090000e-29 139.0
14 TraesCS5A01G075100 chr5D 95.556 45 2 0 2802 2846 74214667 74214623 6.270000e-09 73.1
15 TraesCS5A01G075100 chr5B 93.397 4528 227 21 1 4518 102062026 102066491 0.000000e+00 6639.0
16 TraesCS5A01G075100 chr5B 81.888 2214 333 34 2353 4518 78134923 78137116 0.000000e+00 1805.0
17 TraesCS5A01G075100 chr5B 82.181 1678 226 43 1 1652 78133288 78134918 0.000000e+00 1375.0
18 TraesCS5A01G075100 chr5B 75.326 920 185 22 2591 3483 539310749 539309845 1.960000e-108 403.0
19 TraesCS5A01G075100 chr5B 80.165 242 48 0 1784 2025 102063545 102063786 9.980000e-42 182.0
20 TraesCS5A01G075100 chr5B 78.151 238 50 2 1538 1774 102063791 102064027 2.820000e-32 150.0


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 TraesCS5A01G075100 chr5A 89382581 89387098 4517 False 4250.000000 8344 89.285500 1 4518 2 chr5A.!!$F1 4517
1 TraesCS5A01G075100 chr5A 69360988 69365395 4407 True 3847.000000 3847 82.703000 99 4518 1 chr5A.!!$R1 4419
2 TraesCS5A01G075100 chr5A 69336755 69341242 4487 True 2001.500000 3831 79.167500 4 4518 2 chr5A.!!$R2 4514
3 TraesCS5A01G075100 chr5A 559094109 559095880 1771 True 376.500000 610 80.511000 62 2410 2 chr5A.!!$R3 2348
4 TraesCS5A01G075100 chr5D 95049592 95054081 4489 False 2400.000000 6866 84.283667 1 4518 3 chr5D.!!$F1 4517
5 TraesCS5A01G075100 chr5D 74212960 74217382 4422 True 1123.025000 2566 85.853250 4 4518 4 chr5D.!!$R2 4514
6 TraesCS5A01G075100 chr5B 102062026 102066491 4465 False 2323.666667 6639 83.904333 1 4518 3 chr5B.!!$F2 4517
7 TraesCS5A01G075100 chr5B 78133288 78137116 3828 False 1590.000000 1805 82.034500 1 4518 2 chr5B.!!$F1 4517
8 TraesCS5A01G075100 chr5B 539309845 539310749 904 True 403.000000 403 75.326000 2591 3483 1 chr5B.!!$R1 892

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
759 795 3.261897 CCAGAGTCCACAAGTAGAACCAT 59.738 47.826 0.00 0.0 0.00 3.55 F
1134 1201 0.463833 CATTCCGGGAACAGGTAGGC 60.464 60.000 12.53 0.0 0.00 3.93 F
2257 2345 1.065199 TGAAATTGAGCCATCCTCGCT 60.065 47.619 0.00 0.0 43.82 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2467 2555 0.040058 TGAATCAATGGCTGCACCCT 59.960 50.0 0.5 0.0 37.83 4.34 R
2857 2995 0.759959 TTGGTGTTGGAAGGCGACTA 59.240 50.0 0.0 0.0 42.68 2.59 R
3641 3808 0.109342 CCTTCTGGAGGTGTTGCTGT 59.891 55.0 0.0 0.0 40.95 4.40 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
79 82 8.484641 TGTGTTTTTATGCTTGATTTGTTCAA 57.515 26.923 0.00 0.00 42.09 2.69
356 378 7.230747 TCTTGATCTTGTTTACCATTCTTCCA 58.769 34.615 0.00 0.00 0.00 3.53
401 428 6.624352 ATTATGCATGCGTTCATACTTTCT 57.376 33.333 19.31 0.00 0.00 2.52
427 457 7.041107 GCAAATGCCAAATTTGAGGTCTATTA 58.959 34.615 19.86 0.00 40.42 0.98
641 677 7.985184 TCTAGGTGTTTATCGAGTAATGCAATT 59.015 33.333 0.00 0.00 41.28 2.32
753 789 4.767928 AGTACTTCCAGAGTCCACAAGTAG 59.232 45.833 0.00 0.00 39.86 2.57
756 792 4.039366 ACTTCCAGAGTCCACAAGTAGAAC 59.961 45.833 0.00 0.00 31.20 3.01
759 795 3.261897 CCAGAGTCCACAAGTAGAACCAT 59.738 47.826 0.00 0.00 0.00 3.55
782 818 9.211485 CCATTTTTAATGCTTTGAATGAGAAGT 57.789 29.630 14.13 0.00 0.00 3.01
1077 1144 7.284034 ACAAATGGATCTGGATATCTTGACAAC 59.716 37.037 2.05 0.00 0.00 3.32
1078 1145 5.955961 TGGATCTGGATATCTTGACAACA 57.044 39.130 2.05 0.19 0.00 3.33
1134 1201 0.463833 CATTCCGGGAACAGGTAGGC 60.464 60.000 12.53 0.00 0.00 3.93
1146 1219 6.262496 GGGAACAGGTAGGCTATGATTTTAAC 59.738 42.308 0.00 0.00 0.00 2.01
1148 1221 7.201705 GGAACAGGTAGGCTATGATTTTAACAC 60.202 40.741 0.00 0.00 0.00 3.32
1345 1430 6.759497 ATGCCAAAGAGGTGAATTAAGTAC 57.241 37.500 0.00 0.00 40.61 2.73
1402 1487 1.761198 GGGTATAAGAACAGTCCGGCT 59.239 52.381 0.00 0.00 0.00 5.52
1540 1625 4.970003 CACACAAGAAAAACTAGCCTTTCG 59.030 41.667 10.08 2.69 36.78 3.46
1593 1678 6.990798 AGTGATGATGATGTGGTGATACTAG 58.009 40.000 0.00 0.00 0.00 2.57
1605 1690 3.147629 GTGATACTAGCGGAGAAGCCTA 58.852 50.000 0.00 0.00 38.01 3.93
1679 1764 1.078918 TCAGGTTCCAGCTGATGCG 60.079 57.895 17.39 0.00 46.53 4.73
1684 1769 2.767445 TTCCAGCTGATGCGCATGC 61.767 57.895 30.76 25.38 45.42 4.06
1731 1819 5.923684 GTGATACTATTAGAGAAGCCTGCAC 59.076 44.000 0.00 0.00 0.00 4.57
1753 1841 4.827284 ACATAGGTGGCCAATAACTAATGC 59.173 41.667 7.24 0.00 0.00 3.56
1761 1849 7.417342 GGTGGCCAATAACTAATGCTTCAATTA 60.417 37.037 7.24 0.00 0.00 1.40
2013 2101 9.492973 CAAGAAATAATGGTTCAATTCTTGGTT 57.507 29.630 14.93 0.00 44.84 3.67
2137 2225 4.650131 AGAAGTTGTAGGGCCATCTAGTAC 59.350 45.833 6.18 0.00 0.00 2.73
2198 2286 4.158764 AGTTCTCAGAACCAGGTCTATTCG 59.841 45.833 14.27 0.00 0.00 3.34
2199 2287 3.024547 TCTCAGAACCAGGTCTATTCGG 58.975 50.000 0.00 0.00 0.00 4.30
2257 2345 1.065199 TGAAATTGAGCCATCCTCGCT 60.065 47.619 0.00 0.00 43.82 4.93
2275 2363 3.052036 CGCTTGTGAAAAAGAACCATGG 58.948 45.455 11.19 11.19 0.00 3.66
2748 2844 5.537188 TCCAAAAACATTTGTAGCATCCAC 58.463 37.500 1.17 0.00 0.00 4.02
2831 2969 7.225931 GTCGCCTTCCAACATTACAAGAATATA 59.774 37.037 0.00 0.00 0.00 0.86
2832 2970 7.441157 TCGCCTTCCAACATTACAAGAATATAG 59.559 37.037 0.00 0.00 0.00 1.31
2833 2971 7.226720 CGCCTTCCAACATTACAAGAATATAGT 59.773 37.037 0.00 0.00 0.00 2.12
2834 2972 8.560374 GCCTTCCAACATTACAAGAATATAGTC 58.440 37.037 0.00 0.00 0.00 2.59
2835 2973 8.765219 CCTTCCAACATTACAAGAATATAGTCG 58.235 37.037 0.00 0.00 0.00 4.18
2836 2974 7.709269 TCCAACATTACAAGAATATAGTCGC 57.291 36.000 0.00 0.00 0.00 5.19
2837 2975 6.704493 TCCAACATTACAAGAATATAGTCGCC 59.296 38.462 0.00 0.00 0.00 5.54
2838 2976 6.706270 CCAACATTACAAGAATATAGTCGCCT 59.294 38.462 0.00 0.00 0.00 5.52
2839 2977 7.226720 CCAACATTACAAGAATATAGTCGCCTT 59.773 37.037 0.00 0.00 0.00 4.35
2840 2978 7.948278 ACATTACAAGAATATAGTCGCCTTC 57.052 36.000 0.00 0.00 0.00 3.46
2841 2979 6.929606 ACATTACAAGAATATAGTCGCCTTCC 59.070 38.462 0.00 0.00 0.00 3.46
2842 2980 6.474140 TTACAAGAATATAGTCGCCTTCCA 57.526 37.500 0.00 0.00 0.00 3.53
2843 2981 5.353394 ACAAGAATATAGTCGCCTTCCAA 57.647 39.130 0.00 0.00 0.00 3.53
2844 2982 5.116882 ACAAGAATATAGTCGCCTTCCAAC 58.883 41.667 0.00 0.00 0.00 3.77
2845 2983 5.116180 CAAGAATATAGTCGCCTTCCAACA 58.884 41.667 0.00 0.00 0.00 3.33
2846 2984 5.552870 AGAATATAGTCGCCTTCCAACAT 57.447 39.130 0.00 0.00 0.00 2.71
2847 2985 5.930135 AGAATATAGTCGCCTTCCAACATT 58.070 37.500 0.00 0.00 0.00 2.71
2848 2986 7.062749 AGAATATAGTCGCCTTCCAACATTA 57.937 36.000 0.00 0.00 0.00 1.90
2849 2987 6.929606 AGAATATAGTCGCCTTCCAACATTAC 59.070 38.462 0.00 0.00 0.00 1.89
2850 2988 2.851263 AGTCGCCTTCCAACATTACA 57.149 45.000 0.00 0.00 0.00 2.41
2851 2989 3.134574 AGTCGCCTTCCAACATTACAA 57.865 42.857 0.00 0.00 0.00 2.41
2852 2990 3.074412 AGTCGCCTTCCAACATTACAAG 58.926 45.455 0.00 0.00 0.00 3.16
2853 2991 3.071479 GTCGCCTTCCAACATTACAAGA 58.929 45.455 0.00 0.00 0.00 3.02
2854 2992 3.500680 GTCGCCTTCCAACATTACAAGAA 59.499 43.478 0.00 0.00 0.00 2.52
2855 2993 4.156008 GTCGCCTTCCAACATTACAAGAAT 59.844 41.667 0.00 0.00 0.00 2.40
2856 2994 5.353123 GTCGCCTTCCAACATTACAAGAATA 59.647 40.000 0.00 0.00 0.00 1.75
2857 2995 6.038271 GTCGCCTTCCAACATTACAAGAATAT 59.962 38.462 0.00 0.00 0.00 1.28
2858 2996 7.225931 GTCGCCTTCCAACATTACAAGAATATA 59.774 37.037 0.00 0.00 0.00 0.86
3023 3161 1.064758 CCCCAATGGAAATCTCGTGGA 60.065 52.381 0.00 0.00 35.39 4.02
3071 3209 4.164988 GGAAGGGAATCTCCATGAAGAAGA 59.835 45.833 0.00 0.00 38.64 2.87
3092 3230 6.199937 AGACACAAGTGCCATCAAATTATC 57.800 37.500 0.00 0.00 0.00 1.75
3202 3340 3.690422 CGAGAAAGATCCTCAACTCTCG 58.310 50.000 5.06 5.06 44.15 4.04
3252 3399 3.552875 CATCCTCGAGTAAGGGTGTAGA 58.447 50.000 12.31 0.00 41.82 2.59
3307 3457 2.621998 CACCAATGCCAGGAATCTCATC 59.378 50.000 0.00 0.00 0.00 2.92
3311 3461 1.489481 TGCCAGGAATCTCATCGACT 58.511 50.000 0.00 0.00 0.00 4.18
3418 3574 8.797350 ATGATTCTTCTAATCATGTTGTGACA 57.203 30.769 11.39 0.00 43.52 3.58
3435 3591 3.061429 GTGACAGCTGCGAAGAATCTTAC 59.939 47.826 15.27 0.00 0.00 2.34
3462 3618 4.365514 TGCATAAGGTTGAGTTCCAAGA 57.634 40.909 0.00 0.00 35.03 3.02
3506 3662 5.046529 ACAATGATGATGACTCTAACGCTC 58.953 41.667 0.00 0.00 0.00 5.03
3520 3676 7.600065 ACTCTAACGCTCTGAAACAATAACTA 58.400 34.615 0.00 0.00 0.00 2.24
3555 3711 2.012673 CCACATTAGCAGCTCAACTCC 58.987 52.381 0.00 0.00 0.00 3.85
3577 3733 8.997734 ACTCCATTATCCAAAGAGAATAAGAGT 58.002 33.333 8.40 8.40 39.39 3.24
3578 3734 9.844257 CTCCATTATCCAAAGAGAATAAGAGTT 57.156 33.333 0.00 0.00 32.17 3.01
3641 3808 3.258872 CCCTGACAAATCCAATTCAAGCA 59.741 43.478 0.00 0.00 0.00 3.91
3696 3864 3.321039 ACCCAGGATTCTAGATGATGCA 58.679 45.455 0.00 0.00 0.00 3.96
3737 3908 7.905031 GAAATTAAGATTTCTTCGCTCATGG 57.095 36.000 0.00 0.00 44.96 3.66
3881 4053 6.029346 ACATTGGATCAAAACATCTTGTCC 57.971 37.500 0.00 0.00 32.04 4.02
4060 4254 9.196552 TGCTATTTTAACTCACAGATGATATCG 57.803 33.333 0.00 0.00 33.22 2.92
4176 4370 7.724061 GGGATAGCTAATTTTAGAATGGTTGGA 59.276 37.037 0.00 0.00 32.47 3.53
4264 4462 4.919754 GCTAGTCTGCCAAAAATTGAAGTG 59.080 41.667 0.00 0.00 0.00 3.16
4283 4481 1.371183 CGAAGCCAACCACCTGAGA 59.629 57.895 0.00 0.00 0.00 3.27
4288 4486 0.465460 GCCAACCACCTGAGAACACA 60.465 55.000 0.00 0.00 0.00 3.72
4328 4526 3.055385 CCCCGGATCAAGTAGAAAACTCA 60.055 47.826 0.73 0.00 37.50 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
233 253 4.556233 CGCGAATCTTCACCTCCATATAA 58.444 43.478 0.00 0.00 0.00 0.98
289 309 6.018469 TGGGACAATGATTCCAAGAAGAAAT 58.982 36.000 0.00 0.00 34.45 2.17
308 328 4.702131 AGCTCTAACAAATTGTGATGGGAC 59.298 41.667 0.00 0.00 0.00 4.46
401 428 3.071312 AGACCTCAAATTTGGCATTTGCA 59.929 39.130 17.90 0.00 44.36 4.08
427 457 6.273825 CAGATAAACGGTAAGCTATGTCAGT 58.726 40.000 0.00 0.00 0.00 3.41
617 653 8.500753 AAATTGCATTACTCGATAAACACCTA 57.499 30.769 0.00 0.00 0.00 3.08
753 789 9.206870 TCTCATTCAAAGCATTAAAAATGGTTC 57.793 29.630 15.15 0.00 38.60 3.62
756 792 9.211485 ACTTCTCATTCAAAGCATTAAAAATGG 57.789 29.630 2.11 0.00 0.00 3.16
1077 1144 7.567571 CAAGTATGGTCTGCTTTATCGTATTG 58.432 38.462 0.00 0.00 0.00 1.90
1078 1145 6.202954 GCAAGTATGGTCTGCTTTATCGTATT 59.797 38.462 0.00 0.00 0.00 1.89
1134 1201 8.656849 ACTACTCAAAGCGTGTTAAAATCATAG 58.343 33.333 0.00 0.00 0.00 2.23
1146 1219 4.096532 TCTCCATAGACTACTCAAAGCGTG 59.903 45.833 0.00 0.00 0.00 5.34
1148 1221 4.902443 TCTCCATAGACTACTCAAAGCG 57.098 45.455 0.00 0.00 0.00 4.68
1283 1368 3.062369 TCTTTTGAACGTTGTACACACGG 59.938 43.478 24.27 12.93 0.00 4.94
1366 1451 4.934797 ATACCCCCATATGGTGATGAAG 57.065 45.455 20.46 3.10 36.57 3.02
1540 1625 2.480759 GCATGTGCATCATCTGAAACCC 60.481 50.000 0.00 0.00 41.59 4.11
1593 1678 3.124560 GACTATTTGTAGGCTTCTCCGC 58.875 50.000 0.00 0.00 40.77 5.54
1636 1721 5.010282 GGTCCTTCACATTTGTACAAGGAT 58.990 41.667 19.04 0.73 43.00 3.24
1641 1726 5.042463 TGAAGGTCCTTCACATTTGTACA 57.958 39.130 27.39 4.38 44.27 2.90
1679 1764 3.446310 TCATCATTGTCATTGGCATGC 57.554 42.857 9.90 9.90 0.00 4.06
1684 1769 5.068591 ACCACATCATCATCATTGTCATTGG 59.931 40.000 0.00 0.00 0.00 3.16
1731 1819 5.072741 AGCATTAGTTATTGGCCACCTATG 58.927 41.667 3.88 3.90 0.00 2.23
1753 1841 8.658609 CCTTTGCATTTGTACCAATAATTGAAG 58.341 33.333 0.00 0.00 0.00 3.02
1761 1849 4.159557 AGGTCCTTTGCATTTGTACCAAT 58.840 39.130 8.05 0.00 0.00 3.16
2013 2101 5.239306 CCTCACTGTTAAGCTTCACATTTGA 59.761 40.000 13.63 16.14 0.00 2.69
2137 2225 5.782893 TGGGAAGTTTGTTGTTTCCATAG 57.217 39.130 5.02 0.00 41.69 2.23
2198 2286 1.374758 CAGGTTCACTCCTGCGACC 60.375 63.158 0.00 0.00 46.53 4.79
2199 2287 4.268687 CAGGTTCACTCCTGCGAC 57.731 61.111 0.00 0.00 46.53 5.19
2257 2345 5.068460 CCACTACCATGGTTCTTTTTCACAA 59.932 40.000 25.38 0.00 34.77 3.33
2467 2555 0.040058 TGAATCAATGGCTGCACCCT 59.960 50.000 0.50 0.00 37.83 4.34
2685 2781 7.851228 ACTGGACATATCATTTGTAGTTGAGA 58.149 34.615 0.00 0.00 0.00 3.27
2748 2844 4.467769 AGATTTGGATGTAGCATTGGAGG 58.532 43.478 0.00 0.00 0.00 4.30
2832 2970 3.071479 TCTTGTAATGTTGGAAGGCGAC 58.929 45.455 0.00 0.00 0.00 5.19
2833 2971 3.410631 TCTTGTAATGTTGGAAGGCGA 57.589 42.857 0.00 0.00 0.00 5.54
2834 2972 4.701956 ATTCTTGTAATGTTGGAAGGCG 57.298 40.909 0.00 0.00 0.00 5.52
2835 2973 8.451908 ACTATATTCTTGTAATGTTGGAAGGC 57.548 34.615 0.00 0.00 0.00 4.35
2836 2974 8.765219 CGACTATATTCTTGTAATGTTGGAAGG 58.235 37.037 0.00 0.00 0.00 3.46
2837 2975 8.276325 GCGACTATATTCTTGTAATGTTGGAAG 58.724 37.037 0.00 0.00 0.00 3.46
2838 2976 7.225931 GGCGACTATATTCTTGTAATGTTGGAA 59.774 37.037 0.00 0.00 0.00 3.53
2839 2977 6.704493 GGCGACTATATTCTTGTAATGTTGGA 59.296 38.462 0.00 0.00 0.00 3.53
2840 2978 6.706270 AGGCGACTATATTCTTGTAATGTTGG 59.294 38.462 0.00 0.00 40.61 3.77
2841 2979 7.715265 AGGCGACTATATTCTTGTAATGTTG 57.285 36.000 0.00 0.00 40.61 3.33
2842 2980 7.441458 GGAAGGCGACTATATTCTTGTAATGTT 59.559 37.037 0.00 0.00 42.68 2.71
2843 2981 6.929606 GGAAGGCGACTATATTCTTGTAATGT 59.070 38.462 0.00 0.00 42.68 2.71
2844 2982 6.929049 TGGAAGGCGACTATATTCTTGTAATG 59.071 38.462 0.00 0.00 42.68 1.90
2845 2983 7.062749 TGGAAGGCGACTATATTCTTGTAAT 57.937 36.000 0.00 0.00 42.68 1.89
2846 2984 6.474140 TGGAAGGCGACTATATTCTTGTAA 57.526 37.500 0.00 0.00 42.68 2.41
2847 2985 6.127281 TGTTGGAAGGCGACTATATTCTTGTA 60.127 38.462 0.00 0.00 42.68 2.41
2848 2986 5.116882 GTTGGAAGGCGACTATATTCTTGT 58.883 41.667 0.00 0.00 42.68 3.16
2849 2987 5.006746 GTGTTGGAAGGCGACTATATTCTTG 59.993 44.000 0.00 0.00 42.68 3.02
2850 2988 5.116882 GTGTTGGAAGGCGACTATATTCTT 58.883 41.667 0.00 0.00 42.68 2.52
2851 2989 4.443034 GGTGTTGGAAGGCGACTATATTCT 60.443 45.833 0.00 0.00 42.68 2.40
2852 2990 3.808174 GGTGTTGGAAGGCGACTATATTC 59.192 47.826 0.00 0.00 42.68 1.75
2853 2991 3.199071 TGGTGTTGGAAGGCGACTATATT 59.801 43.478 0.00 0.00 42.68 1.28
2854 2992 2.769663 TGGTGTTGGAAGGCGACTATAT 59.230 45.455 0.00 0.00 42.68 0.86
2855 2993 2.181125 TGGTGTTGGAAGGCGACTATA 58.819 47.619 0.00 0.00 42.68 1.31
2856 2994 0.981183 TGGTGTTGGAAGGCGACTAT 59.019 50.000 0.00 0.00 42.68 2.12
2857 2995 0.759959 TTGGTGTTGGAAGGCGACTA 59.240 50.000 0.00 0.00 42.68 2.59
3023 3161 7.094463 CCTCATGTTTAGCAACTTCTTTCTGAT 60.094 37.037 0.00 0.00 33.58 2.90
3071 3209 4.771577 TGGATAATTTGATGGCACTTGTGT 59.228 37.500 0.00 0.00 0.00 3.72
3162 3300 4.345837 TCTCGGTGGTTGTATTAATAGGGG 59.654 45.833 0.00 0.00 0.00 4.79
3224 3371 2.163815 CCTTACTCGAGGATGTGTCGTT 59.836 50.000 18.41 0.00 39.25 3.85
3307 3457 3.067106 AGGTAGTGCAACATTCAAGTCG 58.933 45.455 0.00 0.00 41.43 4.18
3311 3461 5.278907 CCATGAAAGGTAGTGCAACATTCAA 60.279 40.000 10.94 0.00 41.43 2.69
3418 3574 1.927895 CCGTAAGATTCTTCGCAGCT 58.072 50.000 1.27 0.00 43.02 4.24
3435 3591 0.664761 CTCAACCTTATGCATGGCCG 59.335 55.000 10.16 0.00 0.00 6.13
3520 3676 7.275920 TGCTAATGTGGTGTTTGGTTTTAAAT 58.724 30.769 0.00 0.00 0.00 1.40
3555 3711 8.896744 TGCAACTCTTATTCTCTTTGGATAATG 58.103 33.333 0.00 0.00 0.00 1.90
3577 3733 1.202510 GCAACACCATGGTCTTTGCAA 60.203 47.619 35.50 0.00 40.82 4.08
3578 3734 0.388659 GCAACACCATGGTCTTTGCA 59.611 50.000 35.50 0.00 40.82 4.08
3641 3808 0.109342 CCTTCTGGAGGTGTTGCTGT 59.891 55.000 0.00 0.00 40.95 4.40
3881 4053 9.450807 AACAAGAGTTCGATTTGAAATAAACAG 57.549 29.630 14.33 6.93 38.60 3.16
4057 4251 8.816640 AAAAGTGCTAAAAATGACAAATCGAT 57.183 26.923 0.00 0.00 0.00 3.59
4060 4254 9.801714 CATGAAAAGTGCTAAAAATGACAAATC 57.198 29.630 0.00 0.00 0.00 2.17
4102 4296 2.554563 ACCACCTCCGGTAAACCTTAT 58.445 47.619 0.00 0.00 37.57 1.73
4109 4303 3.150767 CAAAATGAACCACCTCCGGTAA 58.849 45.455 0.00 0.00 38.76 2.85
4113 4307 3.058224 GTCTTCAAAATGAACCACCTCCG 60.058 47.826 0.00 0.00 32.21 4.63
4176 4370 0.193574 TCCCTCCACACCCTTTCTCT 59.806 55.000 0.00 0.00 0.00 3.10
4240 4437 4.829492 ACTTCAATTTTTGGCAGACTAGCT 59.171 37.500 0.00 0.00 34.17 3.32
4264 4462 2.281484 TCAGGTGGTTGGCTTCGC 60.281 61.111 0.00 0.00 0.00 4.70
4283 4481 0.685097 AGCCTATCGTGGTGTGTGTT 59.315 50.000 0.00 0.00 0.00 3.32
4288 4486 1.614241 GGGTGAGCCTATCGTGGTGT 61.614 60.000 0.00 0.00 34.45 4.16
4400 4598 1.373812 GGGGTCGGTGTAGCAAACT 59.626 57.895 0.00 0.00 0.00 2.66
4440 4641 6.892658 ATCTAGACCATAGATCTGTGTCAC 57.107 41.667 17.14 8.64 28.79 3.67


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

AutoCloner maintained by Alex Coulton.