Multiple sequence alignment - TraesCS3A01G058000

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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 TraesCS3A01G058000 chr3A 100.000 3185 0 0 1 3185 34250499 34247315 0.000000e+00 5882.0
1 TraesCS3A01G058000 chr3A 98.933 2904 21 2 1 2904 34052694 34049801 0.000000e+00 5182.0
2 TraesCS3A01G058000 chr3A 97.942 583 11 1 1 583 34151867 34151286 0.000000e+00 1009.0
3 TraesCS3A01G058000 chr3A 95.595 227 10 0 2959 3185 34049807 34049581 6.490000e-97 364.0
4 TraesCS3A01G058000 chr3A 99.429 175 1 0 128 302 34052345 34052171 5.130000e-83 318.0
5 TraesCS3A01G058000 chr3A 99.425 174 1 0 129 302 34250148 34249975 1.840000e-82 316.0
6 TraesCS3A01G058000 chr3A 99.425 174 1 0 352 525 34250371 34250198 1.840000e-82 316.0
7 TraesCS3A01G058000 chr3A 98.857 175 2 0 128 302 34151518 34151344 2.390000e-81 313.0
8 TraesCS3A01G058000 chr3A 98.276 174 3 0 352 525 34052566 34052393 3.990000e-79 305.0
9 TraesCS3A01G058000 chr3A 98.276 174 3 0 352 525 34151740 34151567 3.990000e-79 305.0
10 TraesCS3A01G058000 chr3A 96.703 182 6 0 3004 3185 34151288 34151107 1.440000e-78 303.0
11 TraesCS3A01G058000 chr3A 98.214 56 0 1 547 601 34151568 34151513 2.620000e-16 97.1
12 TraesCS3A01G058000 chr3A 96.491 57 1 1 301 357 34052149 34052094 3.380000e-15 93.5
13 TraesCS3A01G058000 chr3A 100.000 50 0 0 301 350 34249953 34249904 3.380000e-15 93.5
14 TraesCS3A01G058000 chr3A 96.429 56 0 2 547 601 34052394 34052340 1.220000e-14 91.6
15 TraesCS3A01G058000 chr3B 88.710 2542 147 61 382 2849 42370567 42368092 0.000000e+00 2976.0
16 TraesCS3A01G058000 chr3B 86.786 280 33 3 2870 3148 143987886 143988162 3.090000e-80 309.0
17 TraesCS3A01G058000 chr3B 91.667 144 10 1 159 302 42370567 42370426 6.970000e-47 198.0
18 TraesCS3A01G058000 chr3D 91.117 1925 113 19 352 2254 24503276 24501388 0.000000e+00 2555.0
19 TraesCS3A01G058000 chr3D 91.617 1348 71 10 1564 2874 24288491 24287149 0.000000e+00 1825.0
20 TraesCS3A01G058000 chr3D 91.617 1348 72 9 1564 2874 24335779 24334436 0.000000e+00 1825.0
21 TraesCS3A01G058000 chr3D 91.543 1348 73 9 1564 2874 24385954 24384611 0.000000e+00 1820.0
22 TraesCS3A01G058000 chr3D 90.658 471 40 4 2405 2874 24499734 24499267 9.700000e-175 623.0
23 TraesCS3A01G058000 chr3D 97.268 366 10 0 1166 1531 24288856 24288491 3.490000e-174 621.0
24 TraesCS3A01G058000 chr3D 96.995 366 11 0 1166 1531 24386319 24385954 1.620000e-172 616.0
25 TraesCS3A01G058000 chr3D 96.448 366 13 0 1166 1531 24336144 24335779 3.510000e-169 604.0
26 TraesCS3A01G058000 chr3D 89.610 308 17 5 1 302 24386721 24386423 8.340000e-101 377.0
27 TraesCS3A01G058000 chr3D 89.286 308 18 5 1 302 24336546 24336248 3.880000e-99 372.0
28 TraesCS3A01G058000 chr3D 88.961 308 19 5 1 302 24289257 24288959 1.810000e-97 366.0
29 TraesCS3A01G058000 chr3D 88.814 295 12 6 352 635 24336425 24336141 3.040000e-90 342.0
30 TraesCS3A01G058000 chr3D 88.814 295 12 6 352 635 24386600 24386316 3.040000e-90 342.0
31 TraesCS3A01G058000 chr3D 87.755 294 16 7 352 635 24289136 24288853 3.060000e-85 326.0
32 TraesCS3A01G058000 chr3D 89.494 257 10 2 109 350 24503296 24503042 3.090000e-80 309.0
33 TraesCS3A01G058000 chr5A 95.238 315 15 0 2871 3185 28397213 28397527 1.710000e-137 499.0
34 TraesCS3A01G058000 chr5A 83.568 213 19 10 1359 1565 668271688 668271486 5.430000e-43 185.0
35 TraesCS3A01G058000 chr5A 83.929 168 27 0 1838 2005 668271092 668270925 9.140000e-36 161.0
36 TraesCS3A01G058000 chr5A 82.039 206 20 12 1359 1557 668226291 668226096 3.290000e-35 159.0
37 TraesCS3A01G058000 chr5A 83.333 168 28 0 1838 2005 668579659 668579492 4.250000e-34 156.0
38 TraesCS3A01G058000 chr7D 90.845 284 25 1 2873 3155 186819094 186818811 2.320000e-101 379.0
39 TraesCS3A01G058000 chr7D 88.889 279 29 2 2871 3148 38764037 38763760 3.040000e-90 342.0
40 TraesCS3A01G058000 chr7D 97.059 34 1 0 3152 3185 186818766 186818733 1.230000e-04 58.4
41 TraesCS3A01G058000 chr7B 88.380 284 27 4 2874 3155 641528138 641528417 1.420000e-88 337.0
42 TraesCS3A01G058000 chr4A 89.219 269 28 1 2888 3155 700539425 700539157 5.090000e-88 335.0
43 TraesCS3A01G058000 chr2D 92.670 191 14 0 2873 3063 600039143 600039333 3.130000e-70 276.0
44 TraesCS3A01G058000 chr2D 83.860 285 43 3 2870 3152 618646856 618647139 5.240000e-68 268.0
45 TraesCS3A01G058000 chr2D 97.059 34 1 0 3152 3185 600039418 600039451 1.230000e-04 58.4
46 TraesCS3A01G058000 chr4D 83.168 202 19 9 1362 1557 487290677 487290485 1.520000e-38 171.0
47 TraesCS3A01G058000 chr4D 84.146 82 13 0 2096 2177 487119501 487119420 2.630000e-11 80.5
48 TraesCS3A01G058000 chr1B 86.420 81 9 2 2425 2504 562498966 562499045 1.570000e-13 87.9
49 TraesCS3A01G058000 chr6A 83.333 90 14 1 2411 2499 344348785 344348696 7.320000e-12 82.4


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 TraesCS3A01G058000 chr3A 34247315 34250499 3184 True 1651.875000 5882 99.71250 1 3185 4 chr3A.!!$R3 3184
1 TraesCS3A01G058000 chr3A 34049581 34052694 3113 True 1059.016667 5182 97.52550 1 3185 6 chr3A.!!$R1 3184
2 TraesCS3A01G058000 chr3A 34151107 34151867 760 True 405.420000 1009 97.99840 1 3185 5 chr3A.!!$R2 3184
3 TraesCS3A01G058000 chr3B 42368092 42370567 2475 True 1587.000000 2976 90.18850 159 2849 2 chr3B.!!$R1 2690
4 TraesCS3A01G058000 chr3D 24499267 24503296 4029 True 1162.333333 2555 90.42300 109 2874 3 chr3D.!!$R4 2765
5 TraesCS3A01G058000 chr3D 24384611 24386721 2110 True 788.750000 1820 91.74050 1 2874 4 chr3D.!!$R3 2873
6 TraesCS3A01G058000 chr3D 24334436 24336546 2110 True 785.750000 1825 91.54125 1 2874 4 chr3D.!!$R2 2873
7 TraesCS3A01G058000 chr3D 24287149 24289257 2108 True 784.500000 1825 91.40025 1 2874 4 chr3D.!!$R1 2873

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
350 351 0.673644 CCCACGATCTCAAACGGCTT 60.674 55.0 0.00 0.0 0.0 4.35 F
624 638 1.802337 CGCTCGATCGGGGATTGGTA 61.802 60.0 18.35 0.0 0.0 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1655 2260 0.034059 GGGTCGCAGTCCTATCCATG 59.966 60.000 0.00 0.0 35.62 3.66 R
2613 4752 9.465199 CTATAGGAAATAGGTCCTCCTAACTAC 57.535 40.741 8.34 0.0 45.40 2.73 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
241 242 2.738846 ACATGACAACATTCGACAGCTC 59.261 45.455 0.00 0.00 34.15 4.09
350 351 0.673644 CCCACGATCTCAAACGGCTT 60.674 55.000 0.00 0.00 0.00 4.35
397 398 5.703130 GCTCTACATCACCTGATATTTTCCC 59.297 44.000 0.00 0.00 32.63 3.97
624 638 1.802337 CGCTCGATCGGGGATTGGTA 61.802 60.000 18.35 0.00 0.00 3.25
645 659 4.570663 GGGTCTCGATCACCGCCG 62.571 72.222 7.43 0.00 38.37 6.46
646 660 3.823330 GGTCTCGATCACCGCCGT 61.823 66.667 0.00 0.00 38.37 5.68
676 690 2.734606 CGCGAAACAGTACCAGAATTCA 59.265 45.455 0.00 0.00 0.00 2.57
1246 1808 3.746045 ACTTCAACTACCTGAGCGAAA 57.254 42.857 0.00 0.00 0.00 3.46
1531 2093 3.144120 CTCTCCATGCTCCGGTCCG 62.144 68.421 3.60 3.60 0.00 4.79
2897 5036 8.041143 AGAGGTAATTACATAAATGGTGCCTA 57.959 34.615 17.16 0.00 0.00 3.93
2898 5037 8.499406 AGAGGTAATTACATAAATGGTGCCTAA 58.501 33.333 17.16 0.00 0.00 2.69
2899 5038 9.127277 GAGGTAATTACATAAATGGTGCCTAAA 57.873 33.333 17.16 0.00 0.00 1.85
2900 5039 8.909923 AGGTAATTACATAAATGGTGCCTAAAC 58.090 33.333 17.16 0.00 0.00 2.01
2901 5040 8.909923 GGTAATTACATAAATGGTGCCTAAACT 58.090 33.333 17.16 0.00 0.00 2.66
2904 5043 5.072040 ACATAAATGGTGCCTAAACTTGC 57.928 39.130 0.00 0.00 0.00 4.01
2905 5044 4.081697 ACATAAATGGTGCCTAAACTTGCC 60.082 41.667 0.00 0.00 0.00 4.52
2906 5045 2.008242 AATGGTGCCTAAACTTGCCA 57.992 45.000 0.00 0.00 0.00 4.92
2907 5046 1.256812 ATGGTGCCTAAACTTGCCAC 58.743 50.000 0.00 0.00 0.00 5.01
2908 5047 0.825840 TGGTGCCTAAACTTGCCACC 60.826 55.000 0.00 0.00 32.68 4.61
2909 5048 0.825840 GGTGCCTAAACTTGCCACCA 60.826 55.000 3.43 0.00 32.48 4.17
2910 5049 1.036707 GTGCCTAAACTTGCCACCAA 58.963 50.000 0.00 0.00 0.00 3.67
2911 5050 1.618343 GTGCCTAAACTTGCCACCAAT 59.382 47.619 0.00 0.00 0.00 3.16
2912 5051 1.617850 TGCCTAAACTTGCCACCAATG 59.382 47.619 0.00 0.00 0.00 2.82
2913 5052 1.618343 GCCTAAACTTGCCACCAATGT 59.382 47.619 0.00 0.00 0.00 2.71
2914 5053 2.037121 GCCTAAACTTGCCACCAATGTT 59.963 45.455 0.00 0.00 0.00 2.71
2915 5054 3.860754 GCCTAAACTTGCCACCAATGTTC 60.861 47.826 0.00 0.00 0.00 3.18
2916 5055 3.320541 CCTAAACTTGCCACCAATGTTCA 59.679 43.478 0.00 0.00 0.00 3.18
2917 5056 3.457610 AAACTTGCCACCAATGTTCAG 57.542 42.857 0.00 0.00 0.00 3.02
2918 5057 2.071778 ACTTGCCACCAATGTTCAGT 57.928 45.000 0.00 0.00 0.00 3.41
2919 5058 2.387757 ACTTGCCACCAATGTTCAGTT 58.612 42.857 0.00 0.00 0.00 3.16
2920 5059 2.765699 ACTTGCCACCAATGTTCAGTTT 59.234 40.909 0.00 0.00 0.00 2.66
2921 5060 2.886862 TGCCACCAATGTTCAGTTTG 57.113 45.000 0.00 0.00 0.00 2.93
2922 5061 1.411977 TGCCACCAATGTTCAGTTTGG 59.588 47.619 0.29 0.29 46.37 3.28
2926 5065 2.886862 CCAATGTTCAGTTTGGTGCA 57.113 45.000 0.00 0.00 38.05 4.57
2927 5066 3.389925 CCAATGTTCAGTTTGGTGCAT 57.610 42.857 0.00 0.00 38.05 3.96
2928 5067 3.061322 CCAATGTTCAGTTTGGTGCATG 58.939 45.455 0.00 0.00 38.05 4.06
2929 5068 3.243805 CCAATGTTCAGTTTGGTGCATGA 60.244 43.478 0.00 0.00 38.05 3.07
2930 5069 4.370049 CAATGTTCAGTTTGGTGCATGAA 58.630 39.130 0.00 0.00 0.00 2.57
2932 5071 3.715628 GTTCAGTTTGGTGCATGAACT 57.284 42.857 17.34 12.12 45.09 3.01
2933 5072 4.045636 GTTCAGTTTGGTGCATGAACTT 57.954 40.909 17.34 0.85 45.09 2.66
2934 5073 3.713858 TCAGTTTGGTGCATGAACTTG 57.286 42.857 3.21 0.00 31.63 3.16
2935 5074 3.286353 TCAGTTTGGTGCATGAACTTGA 58.714 40.909 3.21 0.00 31.63 3.02
2936 5075 3.698539 TCAGTTTGGTGCATGAACTTGAA 59.301 39.130 3.21 0.00 31.63 2.69
2937 5076 4.046462 CAGTTTGGTGCATGAACTTGAAG 58.954 43.478 3.21 0.00 31.63 3.02
2938 5077 3.953612 AGTTTGGTGCATGAACTTGAAGA 59.046 39.130 3.21 0.00 29.81 2.87
2939 5078 4.402155 AGTTTGGTGCATGAACTTGAAGAA 59.598 37.500 3.21 0.00 29.81 2.52
2940 5079 5.069516 AGTTTGGTGCATGAACTTGAAGAAT 59.930 36.000 3.21 0.00 29.81 2.40
2941 5080 6.265196 AGTTTGGTGCATGAACTTGAAGAATA 59.735 34.615 3.21 0.00 29.81 1.75
2942 5081 5.627499 TGGTGCATGAACTTGAAGAATAC 57.373 39.130 3.21 0.00 0.00 1.89
2943 5082 4.154015 TGGTGCATGAACTTGAAGAATACG 59.846 41.667 3.21 0.00 0.00 3.06
2944 5083 4.091424 GTGCATGAACTTGAAGAATACGC 58.909 43.478 0.00 0.00 0.00 4.42
2945 5084 4.002982 TGCATGAACTTGAAGAATACGCT 58.997 39.130 0.00 0.00 0.00 5.07
2946 5085 4.142838 TGCATGAACTTGAAGAATACGCTG 60.143 41.667 0.00 0.00 0.00 5.18
2947 5086 4.093408 GCATGAACTTGAAGAATACGCTGA 59.907 41.667 0.00 0.00 0.00 4.26
2948 5087 5.220739 GCATGAACTTGAAGAATACGCTGAT 60.221 40.000 0.00 0.00 0.00 2.90
2949 5088 6.676456 GCATGAACTTGAAGAATACGCTGATT 60.676 38.462 0.00 0.00 0.00 2.57
2950 5089 6.801539 TGAACTTGAAGAATACGCTGATTT 57.198 33.333 0.00 0.00 0.00 2.17
2951 5090 6.602179 TGAACTTGAAGAATACGCTGATTTG 58.398 36.000 0.00 0.00 0.00 2.32
2952 5091 6.426633 TGAACTTGAAGAATACGCTGATTTGA 59.573 34.615 0.00 0.00 0.00 2.69
2953 5092 6.992063 ACTTGAAGAATACGCTGATTTGAT 57.008 33.333 0.00 0.00 0.00 2.57
2954 5093 6.779117 ACTTGAAGAATACGCTGATTTGATG 58.221 36.000 0.00 0.00 0.00 3.07
2955 5094 5.160699 TGAAGAATACGCTGATTTGATGC 57.839 39.130 0.00 0.00 0.00 3.91
2956 5095 4.635324 TGAAGAATACGCTGATTTGATGCA 59.365 37.500 0.00 0.00 0.00 3.96
2957 5096 5.123661 TGAAGAATACGCTGATTTGATGCAA 59.876 36.000 0.00 0.00 0.00 4.08
2962 5101 3.715495 ACGCTGATTTGATGCAAAAACA 58.285 36.364 0.00 0.00 36.90 2.83
2973 5112 5.668471 TGATGCAAAAACATGGTTCTTTGA 58.332 33.333 11.30 0.00 31.77 2.69
3028 5167 1.142531 CGCTGCTGACTAGGATGCA 59.857 57.895 0.00 0.00 0.00 3.96
3107 5246 1.263217 CGCGGCTGGGTGAAATATTAC 59.737 52.381 0.00 0.00 0.00 1.89
3173 5312 2.513897 CGATCCCCTTTCCACCGC 60.514 66.667 0.00 0.00 0.00 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.325484 GGTTGGTGACCCTTGGATTTT 58.675 47.619 0.00 0.00 43.06 1.82
397 398 0.376152 CTGGAGCGCTACATTTGCTG 59.624 55.000 25.49 6.31 39.49 4.41
488 495 3.738286 GGCAACAAACAAAAACAGTGG 57.262 42.857 0.00 0.00 0.00 4.00
624 638 3.148279 GGTGATCGAGACCCGGCT 61.148 66.667 0.00 0.00 39.14 5.52
1246 1808 1.852157 TCCTCCAGGGGTTGCACAT 60.852 57.895 0.00 0.00 35.41 3.21
1531 2093 1.312371 TTGCTAATCTTGGGCACGGC 61.312 55.000 0.00 0.00 35.62 5.68
1655 2260 0.034059 GGGTCGCAGTCCTATCCATG 59.966 60.000 0.00 0.00 35.62 3.66
2613 4752 9.465199 CTATAGGAAATAGGTCCTCCTAACTAC 57.535 40.741 8.34 0.00 45.40 2.73
2885 5024 3.501349 TGGCAAGTTTAGGCACCATTTA 58.499 40.909 0.00 0.00 36.56 1.40
2886 5025 2.324541 TGGCAAGTTTAGGCACCATTT 58.675 42.857 0.00 0.00 36.56 2.32
2897 5036 2.765699 ACTGAACATTGGTGGCAAGTTT 59.234 40.909 0.00 0.00 0.00 2.66
2898 5037 2.387757 ACTGAACATTGGTGGCAAGTT 58.612 42.857 0.00 0.00 0.00 2.66
2899 5038 2.071778 ACTGAACATTGGTGGCAAGT 57.928 45.000 0.00 0.00 0.00 3.16
2900 5039 3.125316 CAAACTGAACATTGGTGGCAAG 58.875 45.455 0.00 0.00 0.00 4.01
2901 5040 2.158986 CCAAACTGAACATTGGTGGCAA 60.159 45.455 0.00 0.00 40.96 4.52
2902 5041 1.411977 CCAAACTGAACATTGGTGGCA 59.588 47.619 0.00 0.00 40.96 4.92
2903 5042 2.153366 CCAAACTGAACATTGGTGGC 57.847 50.000 0.00 0.00 40.96 5.01
2907 5046 8.839403 AGTTCATGCACCAAACTGAACATTGG 62.839 42.308 23.44 3.11 46.22 3.16
2908 5047 3.979948 TCATGCACCAAACTGAACATTG 58.020 40.909 0.00 0.00 0.00 2.82
2909 5048 4.099881 AGTTCATGCACCAAACTGAACATT 59.900 37.500 23.44 7.61 46.22 2.71
2910 5049 3.638160 AGTTCATGCACCAAACTGAACAT 59.362 39.130 23.44 10.98 46.22 2.71
2911 5050 3.023119 AGTTCATGCACCAAACTGAACA 58.977 40.909 23.44 0.00 46.22 3.18
2912 5051 3.715628 AGTTCATGCACCAAACTGAAC 57.284 42.857 17.04 17.04 44.89 3.18
2913 5052 3.698539 TCAAGTTCATGCACCAAACTGAA 59.301 39.130 10.07 2.97 33.68 3.02
2914 5053 3.286353 TCAAGTTCATGCACCAAACTGA 58.714 40.909 10.07 7.78 33.68 3.41
2915 5054 3.713858 TCAAGTTCATGCACCAAACTG 57.286 42.857 10.07 6.11 33.68 3.16
2916 5055 3.953612 TCTTCAAGTTCATGCACCAAACT 59.046 39.130 0.00 0.00 34.81 2.66
2917 5056 4.305989 TCTTCAAGTTCATGCACCAAAC 57.694 40.909 0.00 0.00 0.00 2.93
2918 5057 4.998671 TTCTTCAAGTTCATGCACCAAA 57.001 36.364 0.00 0.00 0.00 3.28
2919 5058 5.334802 CGTATTCTTCAAGTTCATGCACCAA 60.335 40.000 0.00 0.00 0.00 3.67
2920 5059 4.154015 CGTATTCTTCAAGTTCATGCACCA 59.846 41.667 0.00 0.00 0.00 4.17
2921 5060 4.651994 CGTATTCTTCAAGTTCATGCACC 58.348 43.478 0.00 0.00 0.00 5.01
2922 5061 4.091424 GCGTATTCTTCAAGTTCATGCAC 58.909 43.478 0.00 0.00 0.00 4.57
2923 5062 4.002982 AGCGTATTCTTCAAGTTCATGCA 58.997 39.130 0.00 0.00 0.00 3.96
2924 5063 4.093408 TCAGCGTATTCTTCAAGTTCATGC 59.907 41.667 0.00 0.00 0.00 4.06
2925 5064 5.784750 TCAGCGTATTCTTCAAGTTCATG 57.215 39.130 0.00 0.00 0.00 3.07
2926 5065 6.992063 AATCAGCGTATTCTTCAAGTTCAT 57.008 33.333 0.00 0.00 0.00 2.57
2927 5066 6.426633 TCAAATCAGCGTATTCTTCAAGTTCA 59.573 34.615 0.00 0.00 0.00 3.18
2928 5067 6.831769 TCAAATCAGCGTATTCTTCAAGTTC 58.168 36.000 0.00 0.00 0.00 3.01
2929 5068 6.801539 TCAAATCAGCGTATTCTTCAAGTT 57.198 33.333 0.00 0.00 0.00 2.66
2930 5069 6.676456 GCATCAAATCAGCGTATTCTTCAAGT 60.676 38.462 0.00 0.00 0.00 3.16
2931 5070 5.680229 GCATCAAATCAGCGTATTCTTCAAG 59.320 40.000 0.00 0.00 0.00 3.02
2932 5071 5.123661 TGCATCAAATCAGCGTATTCTTCAA 59.876 36.000 0.00 0.00 0.00 2.69
2933 5072 4.635324 TGCATCAAATCAGCGTATTCTTCA 59.365 37.500 0.00 0.00 0.00 3.02
2934 5073 5.160699 TGCATCAAATCAGCGTATTCTTC 57.839 39.130 0.00 0.00 0.00 2.87
2935 5074 5.565592 TTGCATCAAATCAGCGTATTCTT 57.434 34.783 0.00 0.00 0.00 2.52
2936 5075 5.565592 TTTGCATCAAATCAGCGTATTCT 57.434 34.783 0.00 0.00 0.00 2.40
2937 5076 6.089283 TGTTTTTGCATCAAATCAGCGTATTC 59.911 34.615 0.00 0.00 33.19 1.75
2938 5077 5.925397 TGTTTTTGCATCAAATCAGCGTATT 59.075 32.000 0.00 0.00 33.19 1.89
2939 5078 5.468592 TGTTTTTGCATCAAATCAGCGTAT 58.531 33.333 0.00 0.00 33.19 3.06
2940 5079 4.864633 TGTTTTTGCATCAAATCAGCGTA 58.135 34.783 0.00 0.00 33.19 4.42
2941 5080 3.715495 TGTTTTTGCATCAAATCAGCGT 58.285 36.364 0.00 0.00 33.19 5.07
2942 5081 4.434989 CCATGTTTTTGCATCAAATCAGCG 60.435 41.667 0.00 0.00 33.19 5.18
2943 5082 4.453136 ACCATGTTTTTGCATCAAATCAGC 59.547 37.500 0.00 0.00 33.19 4.26
2944 5083 6.425721 AGAACCATGTTTTTGCATCAAATCAG 59.574 34.615 0.00 0.00 33.19 2.90
2945 5084 6.289834 AGAACCATGTTTTTGCATCAAATCA 58.710 32.000 0.00 0.00 33.19 2.57
2946 5085 6.790285 AGAACCATGTTTTTGCATCAAATC 57.210 33.333 0.00 0.00 33.19 2.17
2947 5086 7.282675 TCAAAGAACCATGTTTTTGCATCAAAT 59.717 29.630 0.00 0.00 33.19 2.32
2948 5087 6.596888 TCAAAGAACCATGTTTTTGCATCAAA 59.403 30.769 0.00 0.00 32.14 2.69
2949 5088 6.111382 TCAAAGAACCATGTTTTTGCATCAA 58.889 32.000 0.00 0.00 32.14 2.57
2950 5089 5.668471 TCAAAGAACCATGTTTTTGCATCA 58.332 33.333 0.00 0.00 32.14 3.07
2951 5090 6.595794 CATCAAAGAACCATGTTTTTGCATC 58.404 36.000 0.00 0.00 32.14 3.91
2952 5091 5.049267 GCATCAAAGAACCATGTTTTTGCAT 60.049 36.000 0.00 0.00 32.71 3.96
2953 5092 4.272991 GCATCAAAGAACCATGTTTTTGCA 59.727 37.500 0.00 0.00 32.71 4.08
2954 5093 4.272991 TGCATCAAAGAACCATGTTTTTGC 59.727 37.500 0.00 0.00 32.91 3.68
2955 5094 5.987777 TGCATCAAAGAACCATGTTTTTG 57.012 34.783 0.00 0.00 33.09 2.44
2956 5095 6.998968 TTTGCATCAAAGAACCATGTTTTT 57.001 29.167 0.00 0.00 0.00 1.94
2957 5096 7.095691 CGTATTTGCATCAAAGAACCATGTTTT 60.096 33.333 0.00 0.00 36.76 2.43
2962 5101 4.462483 ACCGTATTTGCATCAAAGAACCAT 59.538 37.500 0.00 0.00 36.76 3.55
2973 5112 3.242284 CGTGATTCGAACCGTATTTGCAT 60.242 43.478 0.00 0.00 42.86 3.96
3020 5159 0.541392 ACGACCATGCTTGCATCCTA 59.459 50.000 4.99 0.00 0.00 2.94
3107 5246 0.953960 CAGAACGAAGGGGGTTTCCG 60.954 60.000 0.00 0.00 36.01 4.30


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

AutoCloner maintained by Alex Coulton.