Multiple sequence alignment - TraesCS5A01G058800

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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 TraesCS5A01G058800 chr5A 100.000 2747 0 0 1 2747 59140098 59137352 0.000000e+00 5073
1 TraesCS5A01G058800 chr5D 91.427 2053 78 40 1 2033 68237389 68239363 0.000000e+00 2726
2 TraesCS5A01G058800 chr5D 93.557 714 42 3 2034 2747 333368708 333369417 0.000000e+00 1061
3 TraesCS5A01G058800 chr5B 90.193 2070 79 51 1 2033 74306649 74308631 0.000000e+00 2584
4 TraesCS5A01G058800 chr5B 93.653 709 41 3 2039 2747 670933281 670933985 0.000000e+00 1057
5 TraesCS5A01G058800 chr5B 93.390 711 40 5 2039 2747 143728173 143727468 0.000000e+00 1046
6 TraesCS5A01G058800 chr3D 93.741 719 41 3 2029 2747 588339339 588340053 0.000000e+00 1075
7 TraesCS5A01G058800 chr1A 93.838 714 40 3 2034 2747 25549930 25550639 0.000000e+00 1072
8 TraesCS5A01G058800 chr7D 93.706 715 41 3 2033 2747 576947339 576948049 0.000000e+00 1068
9 TraesCS5A01G058800 chr7D 93.417 714 41 6 2034 2747 123438357 123439064 0.000000e+00 1053
10 TraesCS5A01G058800 chr4D 93.417 714 42 4 2034 2747 296664272 296664980 0.000000e+00 1053
11 TraesCS5A01G058800 chr1B 93.512 709 40 5 2039 2747 323682358 323681656 0.000000e+00 1050
12 TraesCS5A01G058800 chr3B 77.957 186 38 2 5 187 45271190 45271375 2.240000e-21 113


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 TraesCS5A01G058800 chr5A 59137352 59140098 2746 True 5073 5073 100.000 1 2747 1 chr5A.!!$R1 2746
1 TraesCS5A01G058800 chr5D 68237389 68239363 1974 False 2726 2726 91.427 1 2033 1 chr5D.!!$F1 2032
2 TraesCS5A01G058800 chr5D 333368708 333369417 709 False 1061 1061 93.557 2034 2747 1 chr5D.!!$F2 713
3 TraesCS5A01G058800 chr5B 74306649 74308631 1982 False 2584 2584 90.193 1 2033 1 chr5B.!!$F1 2032
4 TraesCS5A01G058800 chr5B 670933281 670933985 704 False 1057 1057 93.653 2039 2747 1 chr5B.!!$F2 708
5 TraesCS5A01G058800 chr5B 143727468 143728173 705 True 1046 1046 93.390 2039 2747 1 chr5B.!!$R1 708
6 TraesCS5A01G058800 chr3D 588339339 588340053 714 False 1075 1075 93.741 2029 2747 1 chr3D.!!$F1 718
7 TraesCS5A01G058800 chr1A 25549930 25550639 709 False 1072 1072 93.838 2034 2747 1 chr1A.!!$F1 713
8 TraesCS5A01G058800 chr7D 576947339 576948049 710 False 1068 1068 93.706 2033 2747 1 chr7D.!!$F2 714
9 TraesCS5A01G058800 chr7D 123438357 123439064 707 False 1053 1053 93.417 2034 2747 1 chr7D.!!$F1 713
10 TraesCS5A01G058800 chr4D 296664272 296664980 708 False 1053 1053 93.417 2034 2747 1 chr4D.!!$F1 713
11 TraesCS5A01G058800 chr1B 323681656 323682358 702 True 1050 1050 93.512 2039 2747 1 chr1B.!!$R1 708

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
721 739 0.319727 CGAGATGATCTGGGCTCAGC 60.32 60.0 9.36 0.0 40.69 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2060 2116 0.179004 GATGTCAACCACCCCACACA 60.179 55.0 0.0 0.0 0.0 3.72 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
346 347 3.077556 GAGCGGCAGGAGGAGGAA 61.078 66.667 1.45 0.00 0.00 3.36
484 485 3.351885 AGGGCGAGGAGGAGGAGT 61.352 66.667 0.00 0.00 0.00 3.85
513 514 0.399233 GTAGGAGAGGAGGTGGCCAT 60.399 60.000 9.72 0.00 0.00 4.40
561 562 0.818445 TGTATCGTCTCTCCCCTCGC 60.818 60.000 0.00 0.00 0.00 5.03
721 739 0.319727 CGAGATGATCTGGGCTCAGC 60.320 60.000 9.36 0.00 40.69 4.26
736 754 0.528017 TCAGCTCGCTCGAAATGTCT 59.472 50.000 0.00 0.00 0.00 3.41
744 762 2.848887 CGCTCGAAATGTCTCACACTAG 59.151 50.000 0.00 0.00 0.00 2.57
761 786 4.527038 ACACTAGTTACTGCTGGTACATGT 59.473 41.667 2.69 2.69 38.20 3.21
762 787 5.713389 ACACTAGTTACTGCTGGTACATGTA 59.287 40.000 0.08 0.08 38.20 2.29
763 788 6.380274 ACACTAGTTACTGCTGGTACATGTAT 59.620 38.462 9.18 0.00 38.20 2.29
769 794 3.181465 ACTGCTGGTACATGTATACTGCC 60.181 47.826 25.24 16.47 38.20 4.85
818 855 1.922447 TCCCATTGAATGCCACCTACT 59.078 47.619 0.00 0.00 0.00 2.57
827 864 1.226888 GCCACCTACTAAGCGACGG 60.227 63.158 0.00 0.00 0.00 4.79
839 876 1.227556 GCGACGGGCAGTAATGGAT 60.228 57.895 0.00 0.00 42.87 3.41
851 888 2.299013 AGTAATGGATCGCGCCAGAATA 59.701 45.455 11.18 2.50 42.15 1.75
876 914 3.518998 CCATCCGTCGCCTCGTCT 61.519 66.667 0.00 0.00 0.00 4.18
1026 1069 4.972733 ACACAAGCCCCGCATGCA 62.973 61.111 19.57 0.00 29.81 3.96
1027 1070 3.454573 CACAAGCCCCGCATGCAT 61.455 61.111 19.57 0.00 29.81 3.96
1028 1071 3.454573 ACAAGCCCCGCATGCATG 61.455 61.111 22.70 22.70 29.81 4.06
1090 1136 0.380378 CACAACCACACCAGGAAACG 59.620 55.000 0.00 0.00 0.00 3.60
1093 1139 1.746220 CAACCACACCAGGAAACGAAA 59.254 47.619 0.00 0.00 0.00 3.46
1094 1140 1.385528 ACCACACCAGGAAACGAAAC 58.614 50.000 0.00 0.00 0.00 2.78
1095 1141 1.340211 ACCACACCAGGAAACGAAACA 60.340 47.619 0.00 0.00 0.00 2.83
1096 1142 1.746220 CCACACCAGGAAACGAAACAA 59.254 47.619 0.00 0.00 0.00 2.83
1098 1144 3.181480 CCACACCAGGAAACGAAACAAAT 60.181 43.478 0.00 0.00 0.00 2.32
1099 1145 4.036971 CCACACCAGGAAACGAAACAAATA 59.963 41.667 0.00 0.00 0.00 1.40
1125 1174 2.669670 CGAGCTCGATCACACTTCAGTT 60.670 50.000 32.06 0.00 43.02 3.16
1126 1175 2.920490 GAGCTCGATCACACTTCAGTTC 59.080 50.000 0.00 0.00 0.00 3.01
1127 1176 2.297315 AGCTCGATCACACTTCAGTTCA 59.703 45.455 0.00 0.00 0.00 3.18
1141 1190 0.949397 AGTTCACGAGCGTCAGTGTA 59.051 50.000 0.00 0.00 39.25 2.90
1171 1220 3.030652 CGAACAACCACCACCAGC 58.969 61.111 0.00 0.00 0.00 4.85
1174 1223 0.385390 GAACAACCACCACCAGCAAG 59.615 55.000 0.00 0.00 0.00 4.01
1182 1231 2.345760 CCACCAGCAAGCCATGACC 61.346 63.158 0.00 0.00 0.00 4.02
1183 1232 1.303888 CACCAGCAAGCCATGACCT 60.304 57.895 0.00 0.00 0.00 3.85
1184 1233 0.896940 CACCAGCAAGCCATGACCTT 60.897 55.000 0.00 0.00 0.00 3.50
1188 1237 3.056313 GCAAGCCATGACCTTCCGC 62.056 63.158 0.00 0.00 0.00 5.54
1189 1238 2.436646 AAGCCATGACCTTCCGCG 60.437 61.111 0.00 0.00 0.00 6.46
1196 1245 2.586357 GACCTTCCGCGGCTCATC 60.586 66.667 23.51 11.96 0.00 2.92
1197 1246 4.162690 ACCTTCCGCGGCTCATCC 62.163 66.667 23.51 0.00 0.00 3.51
1198 1247 4.918201 CCTTCCGCGGCTCATCCC 62.918 72.222 23.51 0.00 0.00 3.85
1199 1248 3.854669 CTTCCGCGGCTCATCCCT 61.855 66.667 23.51 0.00 0.00 4.20
1200 1249 3.798954 CTTCCGCGGCTCATCCCTC 62.799 68.421 23.51 0.00 0.00 4.30
1203 1252 4.292178 CGCGGCTCATCCCTCCTC 62.292 72.222 0.00 0.00 0.00 3.71
1204 1253 3.934962 GCGGCTCATCCCTCCTCC 61.935 72.222 0.00 0.00 0.00 4.30
1207 1256 1.235696 GGCTCATCCCTCCTCCTCT 59.764 63.158 0.00 0.00 0.00 3.69
1239 1288 4.545706 CTAGCGCCGGCCATCCAA 62.546 66.667 23.46 0.00 41.24 3.53
1605 1654 4.724602 TCGCTGCTGTCGCTCACC 62.725 66.667 0.00 0.00 36.97 4.02
1700 1749 1.621301 CGCGAGTTTGACCAGCTCAG 61.621 60.000 0.00 0.00 0.00 3.35
1736 1785 0.803768 CTGCTCAACAGGGTCGATCG 60.804 60.000 9.36 9.36 43.19 3.69
1738 1787 0.802607 GCTCAACAGGGTCGATCGTC 60.803 60.000 15.94 9.66 0.00 4.20
1739 1788 0.526211 CTCAACAGGGTCGATCGTCA 59.474 55.000 15.94 0.00 0.00 4.35
1743 1792 2.442272 AGGGTCGATCGTCAGGGG 60.442 66.667 15.94 0.00 0.00 4.79
1747 1796 1.139095 GTCGATCGTCAGGGGTGAC 59.861 63.158 15.94 0.00 35.59 3.67
1753 1802 3.936203 GTCAGGGGTGACGTGGCA 61.936 66.667 0.00 0.00 39.29 4.92
1754 1803 3.625897 TCAGGGGTGACGTGGCAG 61.626 66.667 0.00 0.00 35.71 4.85
1757 1806 4.722700 GGGGTGACGTGGCAGCAT 62.723 66.667 7.27 0.00 37.99 3.79
1758 1807 3.434319 GGGTGACGTGGCAGCATG 61.434 66.667 7.27 0.00 37.99 4.06
1791 1840 3.471399 GGCGCACCGTAGTTCTTC 58.529 61.111 10.83 0.00 0.00 2.87
1792 1841 1.080025 GGCGCACCGTAGTTCTTCT 60.080 57.895 10.83 0.00 0.00 2.85
1793 1842 0.669625 GGCGCACCGTAGTTCTTCTT 60.670 55.000 10.83 0.00 0.00 2.52
1794 1843 0.438830 GCGCACCGTAGTTCTTCTTG 59.561 55.000 0.30 0.00 0.00 3.02
1810 1859 8.211629 AGTTCTTCTTGTGTTAATAACCAGAGT 58.788 33.333 0.18 0.00 0.00 3.24
1865 1916 6.174049 AGTTCCTTGATCAAACTAGTAAGCC 58.826 40.000 9.88 0.00 31.68 4.35
1866 1917 5.099042 TCCTTGATCAAACTAGTAAGCCC 57.901 43.478 9.88 0.00 0.00 5.19
1883 1934 2.164624 AGCCCGCGCATGTAAAATTTAA 59.835 40.909 8.75 0.00 37.52 1.52
1944 1999 3.445857 AGCTACCTTTTCTAATCGCGTC 58.554 45.455 5.77 0.00 0.00 5.19
1951 2006 2.736144 TTCTAATCGCGTCAACTGGT 57.264 45.000 5.77 0.00 0.00 4.00
1988 2043 6.967199 CCATATACTCGGCAGTTTTTCTTTTC 59.033 38.462 0.00 0.00 33.62 2.29
1992 2047 4.580580 ACTCGGCAGTTTTTCTTTTCTGAT 59.419 37.500 0.00 0.00 0.00 2.90
1993 2048 4.858935 TCGGCAGTTTTTCTTTTCTGATG 58.141 39.130 0.00 0.00 0.00 3.07
1998 2053 6.419116 GGCAGTTTTTCTTTTCTGATGAACTC 59.581 38.462 0.00 0.00 31.02 3.01
2188 2246 5.957771 ACTTTACATGCTCCCTCAATCTA 57.042 39.130 0.00 0.00 0.00 1.98
2215 2273 9.520515 AACTACATACAAGATTCAGATTGGTTT 57.479 29.630 0.00 0.00 0.00 3.27
2269 2327 8.827677 CAGGTTTAGTAAATACATCTGCTAACC 58.172 37.037 0.00 0.00 0.00 2.85
2332 2390 2.664085 GCTACTCGTTCTCTCACAAAGC 59.336 50.000 0.00 0.00 0.00 3.51
2356 2414 6.251376 GCGGAAATCAATCTCAATGTGTTTAC 59.749 38.462 0.00 0.00 0.00 2.01
2366 2424 5.079689 TCAATGTGTTTACTCCGAGCATA 57.920 39.130 0.00 0.00 0.00 3.14
2380 2438 5.357257 TCCGAGCATAAAACACTAGATTCC 58.643 41.667 0.00 0.00 0.00 3.01
2410 2468 5.432060 AGGTAAGTTGCCCCTAAGTTATCAT 59.568 40.000 6.35 0.00 31.80 2.45
2459 2517 3.008485 GGGACTCCAAGTTCTGTGAGAAT 59.992 47.826 0.00 0.00 36.50 2.40
2527 2585 0.392193 CTCTGCCTCGGTGCTTGATT 60.392 55.000 0.00 0.00 0.00 2.57
2528 2586 0.391661 TCTGCCTCGGTGCTTGATTC 60.392 55.000 0.00 0.00 0.00 2.52
2529 2587 0.392193 CTGCCTCGGTGCTTGATTCT 60.392 55.000 0.00 0.00 0.00 2.40
2530 2588 0.036732 TGCCTCGGTGCTTGATTCTT 59.963 50.000 0.00 0.00 0.00 2.52
2584 2642 8.454106 CAAGATACAAGATTAGGTCCAACAAAG 58.546 37.037 0.00 0.00 0.00 2.77
2589 2647 7.690256 ACAAGATTAGGTCCAACAAAGATAGT 58.310 34.615 0.00 0.00 0.00 2.12
2596 2654 5.704053 AGGTCCAACAAAGATAGTAAAACCG 59.296 40.000 0.00 0.00 0.00 4.44
2597 2655 5.471116 GGTCCAACAAAGATAGTAAAACCGT 59.529 40.000 0.00 0.00 0.00 4.83
2627 2685 2.609459 CGCCTATCATCAACACAACCTC 59.391 50.000 0.00 0.00 0.00 3.85
2693 2751 2.900528 CGAATCCGTAGTCCCATGC 58.099 57.895 0.00 0.00 0.00 4.06
2716 2774 6.183361 TGCCTAGCATACCTTTGACATATCTT 60.183 38.462 0.00 0.00 31.71 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
151 152 1.142748 GTCGTGCCTGCAGCTCTAT 59.857 57.895 8.66 0.00 44.23 1.98
529 530 1.359475 GATACAGAGACGTCCGCCC 59.641 63.158 13.01 0.00 0.00 6.13
561 562 4.982916 CGTTATCATTTAAGAGGACCGAGG 59.017 45.833 0.00 0.00 0.00 4.63
721 739 1.651138 GTGTGAGACATTTCGAGCGAG 59.349 52.381 0.00 0.00 0.00 5.03
736 754 4.146564 TGTACCAGCAGTAACTAGTGTGA 58.853 43.478 0.00 0.00 31.05 3.58
744 762 5.462398 GCAGTATACATGTACCAGCAGTAAC 59.538 44.000 7.96 0.00 31.05 2.50
761 786 6.542370 TCGATGAATAGATGATCGGCAGTATA 59.458 38.462 0.00 0.00 39.54 1.47
762 787 5.358160 TCGATGAATAGATGATCGGCAGTAT 59.642 40.000 0.00 0.00 39.54 2.12
763 788 4.700213 TCGATGAATAGATGATCGGCAGTA 59.300 41.667 0.00 0.00 39.54 2.74
818 855 0.179094 CCATTACTGCCCGTCGCTTA 60.179 55.000 0.00 0.00 38.78 3.09
827 864 2.607892 GGCGCGATCCATTACTGCC 61.608 63.158 12.10 0.00 0.00 4.85
839 876 1.286501 GTCACATTATTCTGGCGCGA 58.713 50.000 12.10 0.00 0.00 5.87
851 888 1.449601 GCGACGGATGGGTCACATT 60.450 57.895 0.00 0.00 40.72 2.71
876 914 2.482316 CCGGTGTCGCCATTAACTCATA 60.482 50.000 2.76 0.00 36.97 2.15
1046 1089 4.498894 AGGTGAGCTGATGAATGAATGA 57.501 40.909 0.00 0.00 0.00 2.57
1090 1136 3.291162 GAGCTCGCTCGTATTTGTTTC 57.709 47.619 0.00 0.00 33.06 2.78
1125 1174 0.516001 GACTACACTGACGCTCGTGA 59.484 55.000 0.00 0.00 35.23 4.35
1126 1175 0.237498 TGACTACACTGACGCTCGTG 59.763 55.000 0.00 0.00 37.18 4.35
1127 1176 0.517755 CTGACTACACTGACGCTCGT 59.482 55.000 0.00 0.00 0.00 4.18
1141 1190 2.049063 GTTCGCCTGACGCTGACT 60.049 61.111 0.00 0.00 43.23 3.41
1155 1204 0.385390 CTTGCTGGTGGTGGTTGTTC 59.615 55.000 0.00 0.00 0.00 3.18
1171 1220 2.753966 CGCGGAAGGTCATGGCTTG 61.754 63.158 0.00 0.00 0.00 4.01
1182 1231 3.798954 GAGGGATGAGCCGCGGAAG 62.799 68.421 33.48 1.91 37.63 3.46
1183 1232 3.849951 GAGGGATGAGCCGCGGAA 61.850 66.667 33.48 14.45 37.63 4.30
1188 1237 2.123077 AGGAGGAGGGATGAGCCG 60.123 66.667 0.00 0.00 37.63 5.52
1189 1238 0.399806 AAGAGGAGGAGGGATGAGCC 60.400 60.000 0.00 0.00 0.00 4.70
1196 1245 0.105709 GAGGAGGAAGAGGAGGAGGG 60.106 65.000 0.00 0.00 0.00 4.30
1197 1246 0.105709 GGAGGAGGAAGAGGAGGAGG 60.106 65.000 0.00 0.00 0.00 4.30
1198 1247 0.933700 AGGAGGAGGAAGAGGAGGAG 59.066 60.000 0.00 0.00 0.00 3.69
1199 1248 1.007721 CAAGGAGGAGGAAGAGGAGGA 59.992 57.143 0.00 0.00 0.00 3.71
1200 1249 1.494960 CAAGGAGGAGGAAGAGGAGG 58.505 60.000 0.00 0.00 0.00 4.30
1201 1250 0.829990 GCAAGGAGGAGGAAGAGGAG 59.170 60.000 0.00 0.00 0.00 3.69
1202 1251 0.972983 CGCAAGGAGGAGGAAGAGGA 60.973 60.000 0.00 0.00 0.00 3.71
1203 1252 1.519719 CGCAAGGAGGAGGAAGAGG 59.480 63.158 0.00 0.00 0.00 3.69
1204 1253 1.153469 GCGCAAGGAGGAGGAAGAG 60.153 63.158 0.30 0.00 38.28 2.85
1207 1256 1.961180 GCTAGCGCAAGGAGGAGGAA 61.961 60.000 11.47 0.00 35.78 3.36
1229 1278 2.409870 GCTTGGACTTGGATGGCCG 61.410 63.158 0.00 0.00 36.79 6.13
1234 1283 1.078143 GAGCGGCTTGGACTTGGAT 60.078 57.895 2.97 0.00 0.00 3.41
1235 1284 2.347490 GAGCGGCTTGGACTTGGA 59.653 61.111 2.97 0.00 0.00 3.53
1236 1285 2.747855 GGAGCGGCTTGGACTTGG 60.748 66.667 2.97 0.00 0.00 3.61
1237 1286 2.747855 GGGAGCGGCTTGGACTTG 60.748 66.667 2.97 0.00 0.00 3.16
1238 1287 3.249189 TGGGAGCGGCTTGGACTT 61.249 61.111 2.97 0.00 0.00 3.01
1239 1288 4.021925 GTGGGAGCGGCTTGGACT 62.022 66.667 2.97 0.00 0.00 3.85
1652 1701 2.697644 CCATCCTCCCCTTGGCCT 60.698 66.667 3.32 0.00 0.00 5.19
1689 1738 1.002990 CATGGTGCTGAGCTGGTCA 60.003 57.895 5.83 9.44 0.00 4.02
1736 1785 3.883744 CTGCCACGTCACCCCTGAC 62.884 68.421 0.00 0.00 43.17 3.51
1783 1832 9.706691 CTCTGGTTATTAACACAAGAAGAACTA 57.293 33.333 8.73 0.00 29.65 2.24
1791 1840 7.228706 ACAAGGAACTCTGGTTATTAACACAAG 59.771 37.037 8.73 4.80 38.49 3.16
1792 1841 7.012894 CACAAGGAACTCTGGTTATTAACACAA 59.987 37.037 8.73 0.00 38.49 3.33
1793 1842 6.485313 CACAAGGAACTCTGGTTATTAACACA 59.515 38.462 8.73 3.86 38.49 3.72
1794 1843 6.485648 ACACAAGGAACTCTGGTTATTAACAC 59.514 38.462 8.73 0.00 38.49 3.32
1865 1916 8.055609 TCATAATTTAAATTTTACATGCGCGG 57.944 30.769 18.14 0.00 0.00 6.46
1883 1934 7.341805 ACTGTGAGCCTTGAGTATTCATAATT 58.658 34.615 0.00 0.00 32.27 1.40
1913 1968 5.948992 AGAAAAGGTAGCTTCATGTGAAC 57.051 39.130 7.80 0.00 0.00 3.18
1988 2043 5.640189 AATGAAAAGGCAGAGTTCATCAG 57.360 39.130 5.08 0.00 40.28 2.90
1992 2047 6.219417 TGAAAAATGAAAAGGCAGAGTTCA 57.781 33.333 0.00 0.00 35.83 3.18
1993 2048 7.719778 AATGAAAAATGAAAAGGCAGAGTTC 57.280 32.000 0.00 0.00 0.00 3.01
1998 2053 9.480053 TCTTCTTAATGAAAAATGAAAAGGCAG 57.520 29.630 0.00 0.00 33.79 4.85
2059 2115 0.260230 ATGTCAACCACCCCACACAA 59.740 50.000 0.00 0.00 0.00 3.33
2060 2116 0.179004 GATGTCAACCACCCCACACA 60.179 55.000 0.00 0.00 0.00 3.72
2063 2119 0.609131 CTGGATGTCAACCACCCCAC 60.609 60.000 0.00 0.00 33.57 4.61
2064 2120 1.767036 CTGGATGTCAACCACCCCA 59.233 57.895 0.00 0.00 33.57 4.96
2065 2121 1.678970 GCTGGATGTCAACCACCCC 60.679 63.158 0.00 0.00 33.57 4.95
2160 2218 4.721776 TGAGGGAGCATGTAAAGTAGGATT 59.278 41.667 0.00 0.00 0.00 3.01
2162 2220 3.719871 TGAGGGAGCATGTAAAGTAGGA 58.280 45.455 0.00 0.00 0.00 2.94
2177 2235 8.603898 TCTTGTATGTAGTTTAGATTGAGGGA 57.396 34.615 0.00 0.00 0.00 4.20
2188 2246 9.520515 AACCAATCTGAATCTTGTATGTAGTTT 57.479 29.630 0.00 0.00 0.00 2.66
2215 2273 5.401531 AGACAGATGCTAGACCGTTTTAA 57.598 39.130 0.00 0.00 0.00 1.52
2262 2320 5.592104 TTTCTACAGATGATCGGTTAGCA 57.408 39.130 3.11 0.00 0.00 3.49
2269 2327 7.923344 AGTCAGGTTTATTTCTACAGATGATCG 59.077 37.037 0.00 0.00 0.00 3.69
2332 2390 7.530010 AGTAAACACATTGAGATTGATTTCCG 58.470 34.615 0.00 0.00 0.00 4.30
2356 2414 5.463724 GGAATCTAGTGTTTTATGCTCGGAG 59.536 44.000 0.00 0.00 0.00 4.63
2366 2424 3.307480 CCTGACGGGGAATCTAGTGTTTT 60.307 47.826 0.00 0.00 0.00 2.43
2380 2438 1.376812 GGGCAACTTACCTGACGGG 60.377 63.158 0.00 0.00 41.89 5.28
2410 2468 2.963101 AGCGCACTCCTATATTGTGGTA 59.037 45.455 11.47 0.00 28.48 3.25
2459 2517 5.178096 TGAAGCCATTTGGATAGACTCAA 57.822 39.130 0.00 0.00 37.39 3.02
2527 2585 1.131638 AGCAACCCACAGTCTCAAGA 58.868 50.000 0.00 0.00 0.00 3.02
2528 2586 1.876156 GAAGCAACCCACAGTCTCAAG 59.124 52.381 0.00 0.00 0.00 3.02
2529 2587 1.490490 AGAAGCAACCCACAGTCTCAA 59.510 47.619 0.00 0.00 0.00 3.02
2530 2588 1.131638 AGAAGCAACCCACAGTCTCA 58.868 50.000 0.00 0.00 0.00 3.27
2584 2642 3.864003 GCTCCACTGACGGTTTTACTATC 59.136 47.826 0.00 0.00 0.00 2.08
2589 2647 0.947180 GCGCTCCACTGACGGTTTTA 60.947 55.000 0.00 0.00 0.00 1.52
2596 2654 0.390860 ATGATAGGCGCTCCACTGAC 59.609 55.000 7.64 0.00 33.74 3.51
2597 2655 0.676184 GATGATAGGCGCTCCACTGA 59.324 55.000 7.64 0.00 33.74 3.41
2627 2685 2.124983 CACCGATGCAGACTGGGG 60.125 66.667 4.26 0.00 0.00 4.96
2693 2751 8.807118 TCTAAGATATGTCAAAGGTATGCTAGG 58.193 37.037 0.00 0.00 0.00 3.02
2716 2774 4.530553 TGGGAAGCAGTCAAGTGTATTCTA 59.469 41.667 0.00 0.00 0.00 2.10
2724 2782 2.957402 TCATTGGGAAGCAGTCAAGT 57.043 45.000 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.