Multiple sequence alignment - TraesCS1D01G325000

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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 TraesCS1D01G325000 chr1D 100.000 3199 0 0 1 3199 417368571 417365373 0.000000e+00 5908.0
1 TraesCS1D01G325000 chr1A 91.063 2003 123 31 64 2021 514539722 514537731 0.000000e+00 2656.0
2 TraesCS1D01G325000 chr1A 91.454 901 42 16 2300 3199 514537448 514536582 0.000000e+00 1205.0
3 TraesCS1D01G325000 chr1A 91.071 224 19 1 2018 2240 514537693 514537470 5.190000e-78 302.0
4 TraesCS1D01G325000 chr1B 95.979 1542 41 8 1502 3032 563997180 563995649 0.000000e+00 2484.0
5 TraesCS1D01G325000 chr1B 93.506 1355 64 10 64 1400 563998601 563997253 0.000000e+00 1993.0
6 TraesCS1D01G325000 chr3A 88.889 54 5 1 122 174 688609979 688610032 7.410000e-07 65.8
7 TraesCS1D01G325000 chr2A 91.837 49 1 2 129 174 694465358 694465406 7.410000e-07 65.8
8 TraesCS1D01G325000 chr5D 82.432 74 12 1 122 194 460951303 460951376 2.660000e-06 63.9


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 TraesCS1D01G325000 chr1D 417365373 417368571 3198 True 5908.000000 5908 100.0000 1 3199 1 chr1D.!!$R1 3198
1 TraesCS1D01G325000 chr1A 514536582 514539722 3140 True 1387.666667 2656 91.1960 64 3199 3 chr1A.!!$R1 3135
2 TraesCS1D01G325000 chr1B 563995649 563998601 2952 True 2238.500000 2484 94.7425 64 3032 2 chr1B.!!$R1 2968

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
728 745 0.248621 GCGGTGGTGATATGCTTTGC 60.249 55.0 0.0 0.0 0.0 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2277 2372 0.90158 CCAGCAAGCCAAGGAACCAT 60.902 55.0 0.0 0.0 0.0 3.55 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
21 22 3.982516 TCCTAGACTTGGCACTGATACT 58.017 45.455 0.00 0.00 0.00 2.12
22 23 3.954904 TCCTAGACTTGGCACTGATACTC 59.045 47.826 0.00 0.00 0.00 2.59
23 24 2.949451 AGACTTGGCACTGATACTCG 57.051 50.000 0.00 0.00 0.00 4.18
24 25 2.171840 AGACTTGGCACTGATACTCGT 58.828 47.619 0.00 0.00 0.00 4.18
25 26 3.353557 AGACTTGGCACTGATACTCGTA 58.646 45.455 0.00 0.00 0.00 3.43
26 27 3.954904 AGACTTGGCACTGATACTCGTAT 59.045 43.478 0.00 0.00 0.00 3.06
27 28 4.402793 AGACTTGGCACTGATACTCGTATT 59.597 41.667 0.00 0.00 0.00 1.89
28 29 5.086104 ACTTGGCACTGATACTCGTATTT 57.914 39.130 0.00 0.00 0.00 1.40
29 30 5.488341 ACTTGGCACTGATACTCGTATTTT 58.512 37.500 0.00 0.00 0.00 1.82
30 31 5.938125 ACTTGGCACTGATACTCGTATTTTT 59.062 36.000 0.00 0.00 0.00 1.94
61 62 9.632807 TTTATTCCAGGATTTTTATCAACAACG 57.367 29.630 0.00 0.00 0.00 4.10
62 63 6.885952 TTCCAGGATTTTTATCAACAACGA 57.114 33.333 0.00 0.00 0.00 3.85
71 72 1.800805 ATCAACAACGAGGCTCAGTG 58.199 50.000 15.95 13.55 0.00 3.66
119 120 1.478510 CTCAGTATGTCGGAGGTGCTT 59.521 52.381 0.00 0.00 37.40 3.91
138 139 6.205464 GGTGCTTATAGAATATGTGTGCATGT 59.795 38.462 0.00 0.00 36.58 3.21
160 161 7.432148 TGTGTTTATAGGGATGAGTGTATGT 57.568 36.000 0.00 0.00 0.00 2.29
162 163 7.093068 TGTGTTTATAGGGATGAGTGTATGTGT 60.093 37.037 0.00 0.00 0.00 3.72
189 191 3.696281 TGAGCATCGGCATTTGTATTG 57.304 42.857 0.00 0.00 44.61 1.90
195 197 4.388469 GCATCGGCATTTGTATTGTGTTTT 59.612 37.500 0.00 0.00 40.72 2.43
234 237 5.310182 GCCCATAAGGTGAGACCAGTCTC 62.310 56.522 18.85 18.85 45.41 3.36
280 283 3.745803 GAAGCGTCCGTCCGTCCT 61.746 66.667 0.00 0.00 0.00 3.85
347 354 1.153025 TAGCGAGCGGAGGAAGCTA 60.153 57.895 0.00 0.00 46.13 3.32
710 727 1.581147 GCATTAGACGCGCACTTGC 60.581 57.895 5.73 10.24 37.78 4.01
728 745 0.248621 GCGGTGGTGATATGCTTTGC 60.249 55.000 0.00 0.00 0.00 3.68
751 768 3.184736 CCCCCTTTCCATAACACCG 57.815 57.895 0.00 0.00 0.00 4.94
824 850 1.275856 AGCTGTGCTCTCCTCTTCTTG 59.724 52.381 0.00 0.00 30.62 3.02
846 872 5.880901 TGTTCTCCCTTTGCTTTTCTCTAT 58.119 37.500 0.00 0.00 0.00 1.98
872 898 2.439507 CCCACCAGCTTCATATAGTGGT 59.560 50.000 6.27 0.00 42.58 4.16
882 908 3.072211 TCATATAGTGGTCGGTAGCTCG 58.928 50.000 0.00 0.00 0.00 5.03
916 942 1.568025 GGTTCGTTCCGTTCACTGC 59.432 57.895 0.00 0.00 0.00 4.40
928 958 3.502920 CGTTCACTGCGTAGAGAGAAAT 58.497 45.455 7.78 0.00 0.00 2.17
938 968 4.318121 GCGTAGAGAGAAATAACATTGCCG 60.318 45.833 0.00 0.00 0.00 5.69
940 970 3.609853 AGAGAGAAATAACATTGCCGCA 58.390 40.909 0.00 0.00 0.00 5.69
954 984 2.199652 CCGCATTGGGTTGTGGTGT 61.200 57.895 0.00 0.00 41.43 4.16
955 985 1.007502 CGCATTGGGTTGTGGTGTG 60.008 57.895 0.00 0.00 0.00 3.82
973 1003 2.634940 TGTGGAGAGGAGGAGAAAGTTG 59.365 50.000 0.00 0.00 0.00 3.16
985 1015 3.333804 GAGAAAGTTGAGAAGCAGAGGG 58.666 50.000 0.00 0.00 0.00 4.30
987 1017 1.734655 AAGTTGAGAAGCAGAGGGGA 58.265 50.000 0.00 0.00 0.00 4.81
1090 1120 3.241067 TCGTGTGTATTGCCCTTCTAC 57.759 47.619 0.00 0.00 0.00 2.59
1166 1196 2.579787 CGGCGGAGTGACGATGAC 60.580 66.667 0.00 0.00 35.47 3.06
1359 1389 5.116084 TCTGCCTATCTACCTGCATTTTT 57.884 39.130 0.00 0.00 32.53 1.94
1412 1442 6.054941 TCTAGCGCATTTATCAAGAAATGGA 58.945 36.000 11.47 0.00 43.89 3.41
1418 1448 8.025445 GCGCATTTATCAAGAAATGGAAGATAT 58.975 33.333 0.30 0.00 43.89 1.63
1486 1517 5.411781 GGATCAAACTATCGACTGAACTGT 58.588 41.667 0.00 0.00 0.00 3.55
1624 1674 7.394641 TGAACAAGAAGCAGAAGTCTAGAGATA 59.605 37.037 0.00 0.00 0.00 1.98
1660 1710 8.165239 TCTACCGCATAAAATAGCAATGAAAT 57.835 30.769 0.00 0.00 0.00 2.17
1695 1747 6.979238 CAGTTCTTATACTTCTCCCGGTTAAG 59.021 42.308 0.00 3.29 0.00 1.85
1697 1749 4.343239 TCTTATACTTCTCCCGGTTAAGGC 59.657 45.833 0.00 0.00 0.00 4.35
1699 1751 0.838987 ACTTCTCCCGGTTAAGGCCA 60.839 55.000 5.01 0.00 0.00 5.36
1700 1752 0.392595 CTTCTCCCGGTTAAGGCCAC 60.393 60.000 5.01 0.00 0.00 5.01
1701 1753 1.128809 TTCTCCCGGTTAAGGCCACA 61.129 55.000 5.01 0.00 0.00 4.17
1702 1754 1.128809 TCTCCCGGTTAAGGCCACAA 61.129 55.000 5.01 0.00 0.00 3.33
1762 1814 6.431234 GCCTATGTGGATTATAAGGTTTCCAG 59.569 42.308 5.88 0.00 38.87 3.86
1769 1821 8.044908 GTGGATTATAAGGTTTCCAGTGAGTTA 58.955 37.037 5.88 0.00 38.87 2.24
1920 1972 3.004106 GTGCTGCATACTTCATTCCCATC 59.996 47.826 5.27 0.00 0.00 3.51
1966 2018 4.227864 AGAACCTTATCTCCCTGCTTTG 57.772 45.455 0.00 0.00 0.00 2.77
1967 2019 3.846588 AGAACCTTATCTCCCTGCTTTGA 59.153 43.478 0.00 0.00 0.00 2.69
2081 2175 9.911980 GGACGTAAGCTCTAAATTAAACATAAC 57.088 33.333 0.00 0.00 45.62 1.89
2131 2225 2.919494 GCTTTGGTTGCCACCTCCG 61.919 63.158 8.65 0.00 44.61 4.63
2205 2299 1.749638 CGGAGAGACTAGCACCGGT 60.750 63.158 0.00 0.00 39.92 5.28
2277 2372 4.388499 GCGACGGGGAAGCAGGAA 62.388 66.667 0.00 0.00 0.00 3.36
2278 2373 2.584608 CGACGGGGAAGCAGGAAT 59.415 61.111 0.00 0.00 0.00 3.01
2509 2604 8.803235 TCTACTTGTGTGTGTATTTATCTGTCT 58.197 33.333 0.00 0.00 0.00 3.41
2603 2698 5.308825 GCCACTAGCACCTATGTAAATCAT 58.691 41.667 0.00 0.00 42.97 2.45
2626 2721 6.414408 TGTTTTGTGGTTTGCAATAACAAG 57.586 33.333 16.69 0.00 32.75 3.16
2640 2735 5.327091 CAATAACAAGCAGAGATTTGTCGG 58.673 41.667 0.00 0.00 36.56 4.79
2659 2754 3.064958 TCGGACGACATGCTTTCTACTAG 59.935 47.826 0.00 0.00 0.00 2.57
2662 2757 5.272397 GGACGACATGCTTTCTACTAGTAC 58.728 45.833 0.00 0.00 0.00 2.73
3041 3146 6.366604 TGAAAACAGCTCGAATACGACAAATA 59.633 34.615 0.00 0.00 43.81 1.40
3092 3197 3.551485 GCAAACATATGACAAATTCGCCC 59.449 43.478 10.38 0.00 0.00 6.13
3101 3206 1.538075 ACAAATTCGCCCGTACAAAGG 59.462 47.619 0.00 0.00 0.00 3.11
3114 3219 3.614150 CGTACAAAGGTGAGCTAAGAGCA 60.614 47.826 0.64 0.00 45.56 4.26
3115 3220 2.772287 ACAAAGGTGAGCTAAGAGCAC 58.228 47.619 0.64 0.00 45.56 4.40
3116 3221 1.728971 CAAAGGTGAGCTAAGAGCACG 59.271 52.381 0.64 0.00 45.56 5.34
3117 3222 1.257743 AAGGTGAGCTAAGAGCACGA 58.742 50.000 0.64 0.00 45.56 4.35
3118 3223 0.528470 AGGTGAGCTAAGAGCACGAC 59.472 55.000 0.64 0.00 45.56 4.34
3119 3224 0.243907 GGTGAGCTAAGAGCACGACA 59.756 55.000 0.64 0.00 45.56 4.35
3120 3225 1.341606 GTGAGCTAAGAGCACGACAC 58.658 55.000 0.64 2.58 45.56 3.67
3121 3226 0.243907 TGAGCTAAGAGCACGACACC 59.756 55.000 0.64 0.00 45.56 4.16
3122 3227 0.798771 GAGCTAAGAGCACGACACCG 60.799 60.000 0.64 0.00 45.56 4.94
3141 3246 0.861837 GACTCTCAAACCACACGCAG 59.138 55.000 0.00 0.00 0.00 5.18
3183 3288 1.778591 GACGTGTTTTGCCATTCAACG 59.221 47.619 0.00 0.00 33.73 4.10
3192 3297 2.480555 CATTCAACGCGGTCCAGC 59.519 61.111 12.47 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.954904 GAGTATCAGTGCCAAGTCTAGGA 59.045 47.826 0.00 0.00 33.17 2.94
1 2 3.243234 CGAGTATCAGTGCCAAGTCTAGG 60.243 52.174 0.00 0.00 33.17 3.02
2 3 3.378742 ACGAGTATCAGTGCCAAGTCTAG 59.621 47.826 0.00 0.00 33.17 2.43
3 4 3.353557 ACGAGTATCAGTGCCAAGTCTA 58.646 45.455 0.00 0.00 33.17 2.59
4 5 2.171840 ACGAGTATCAGTGCCAAGTCT 58.828 47.619 0.00 0.00 33.17 3.24
5 6 2.656560 ACGAGTATCAGTGCCAAGTC 57.343 50.000 0.00 0.00 33.17 3.01
6 7 4.737855 AATACGAGTATCAGTGCCAAGT 57.262 40.909 0.00 0.00 33.17 3.16
7 8 6.422776 AAAAATACGAGTATCAGTGCCAAG 57.577 37.500 0.00 0.00 33.17 3.61
35 36 9.632807 CGTTGTTGATAAAAATCCTGGAATAAA 57.367 29.630 0.00 0.00 0.00 1.40
36 37 9.015367 TCGTTGTTGATAAAAATCCTGGAATAA 57.985 29.630 0.00 0.00 0.00 1.40
37 38 8.568676 TCGTTGTTGATAAAAATCCTGGAATA 57.431 30.769 0.00 0.00 0.00 1.75
38 39 7.362920 CCTCGTTGTTGATAAAAATCCTGGAAT 60.363 37.037 0.00 0.00 0.00 3.01
39 40 6.072175 CCTCGTTGTTGATAAAAATCCTGGAA 60.072 38.462 0.00 0.00 0.00 3.53
40 41 5.414454 CCTCGTTGTTGATAAAAATCCTGGA 59.586 40.000 0.00 0.00 0.00 3.86
41 42 5.640732 CCTCGTTGTTGATAAAAATCCTGG 58.359 41.667 0.00 0.00 0.00 4.45
42 43 5.095490 GCCTCGTTGTTGATAAAAATCCTG 58.905 41.667 0.00 0.00 0.00 3.86
43 44 5.010282 AGCCTCGTTGTTGATAAAAATCCT 58.990 37.500 0.00 0.00 0.00 3.24
44 45 5.106317 TGAGCCTCGTTGTTGATAAAAATCC 60.106 40.000 0.00 0.00 0.00 3.01
45 46 5.938322 TGAGCCTCGTTGTTGATAAAAATC 58.062 37.500 0.00 0.00 0.00 2.17
46 47 5.473504 ACTGAGCCTCGTTGTTGATAAAAAT 59.526 36.000 0.00 0.00 0.00 1.82
47 48 4.819630 ACTGAGCCTCGTTGTTGATAAAAA 59.180 37.500 0.00 0.00 0.00 1.94
48 49 4.213270 CACTGAGCCTCGTTGTTGATAAAA 59.787 41.667 0.00 0.00 0.00 1.52
49 50 3.745975 CACTGAGCCTCGTTGTTGATAAA 59.254 43.478 0.00 0.00 0.00 1.40
50 51 3.244078 ACACTGAGCCTCGTTGTTGATAA 60.244 43.478 0.00 0.00 0.00 1.75
51 52 2.299013 ACACTGAGCCTCGTTGTTGATA 59.701 45.455 0.00 0.00 0.00 2.15
52 53 1.070758 ACACTGAGCCTCGTTGTTGAT 59.929 47.619 0.00 0.00 0.00 2.57
53 54 0.464036 ACACTGAGCCTCGTTGTTGA 59.536 50.000 0.00 0.00 0.00 3.18
54 55 0.861837 GACACTGAGCCTCGTTGTTG 59.138 55.000 0.09 0.00 0.00 3.33
55 56 0.753262 AGACACTGAGCCTCGTTGTT 59.247 50.000 0.09 0.00 0.00 2.83
56 57 0.315568 GAGACACTGAGCCTCGTTGT 59.684 55.000 0.00 0.00 0.00 3.32
57 58 0.315251 TGAGACACTGAGCCTCGTTG 59.685 55.000 0.00 0.00 0.00 4.10
58 59 0.600557 CTGAGACACTGAGCCTCGTT 59.399 55.000 0.00 0.00 0.00 3.85
59 60 0.250945 TCTGAGACACTGAGCCTCGT 60.251 55.000 0.00 0.00 0.00 4.18
60 61 0.451383 CTCTGAGACACTGAGCCTCG 59.549 60.000 0.00 0.00 37.65 4.63
61 62 0.817013 CCTCTGAGACACTGAGCCTC 59.183 60.000 6.17 0.00 41.28 4.70
62 63 1.257055 GCCTCTGAGACACTGAGCCT 61.257 60.000 6.17 0.00 41.28 4.58
71 72 2.799412 CAAATATGAGCGCCTCTGAGAC 59.201 50.000 2.29 0.00 0.00 3.36
138 139 7.432148 ACACATACACTCATCCCTATAAACA 57.568 36.000 0.00 0.00 0.00 2.83
160 161 6.654582 ACAAATGCCGATGCTCATATATAACA 59.345 34.615 0.00 0.00 38.71 2.41
162 163 8.962884 ATACAAATGCCGATGCTCATATATAA 57.037 30.769 0.00 0.00 38.71 0.98
189 191 9.454585 GGGCGGTTAGATTATTTATAAAAACAC 57.545 33.333 1.21 0.00 0.00 3.32
195 197 9.675464 CCTTATGGGCGGTTAGATTATTTATAA 57.325 33.333 0.00 0.00 0.00 0.98
280 283 3.849563 TCTTTCTTTCCCGTTCCAGAA 57.150 42.857 0.00 0.00 0.00 3.02
710 727 1.382522 AGCAAAGCATATCACCACCG 58.617 50.000 0.00 0.00 0.00 4.94
751 768 1.869767 CAGGCAGGCGAGATCAAATAC 59.130 52.381 0.00 0.00 0.00 1.89
824 850 6.616017 CAATAGAGAAAAGCAAAGGGAGAAC 58.384 40.000 0.00 0.00 0.00 3.01
846 872 0.991146 TATGAAGCTGGTGGGAGCAA 59.009 50.000 0.00 0.00 41.83 3.91
872 898 2.433145 ACGACGTCGAGCTACCGA 60.433 61.111 41.52 0.00 43.02 4.69
886 912 2.355363 CGAACCCAGCAACGACGA 60.355 61.111 0.00 0.00 0.00 4.20
916 942 4.318121 GCGGCAATGTTATTTCTCTCTACG 60.318 45.833 0.00 0.00 0.00 3.51
928 958 1.067283 CAACCCAATGCGGCAATGTTA 60.067 47.619 16.21 0.00 0.00 2.41
938 968 1.112315 TCCACACCACAACCCAATGC 61.112 55.000 0.00 0.00 0.00 3.56
940 970 0.850100 TCTCCACACCACAACCCAAT 59.150 50.000 0.00 0.00 0.00 3.16
954 984 3.169099 CTCAACTTTCTCCTCCTCTCCA 58.831 50.000 0.00 0.00 0.00 3.86
955 985 3.436243 TCTCAACTTTCTCCTCCTCTCC 58.564 50.000 0.00 0.00 0.00 3.71
973 1003 1.688884 AGGCTCCCCTCTGCTTCTC 60.689 63.158 0.00 0.00 36.46 2.87
985 1015 3.748645 TCCCATATAGAGAGAGGCTCC 57.251 52.381 11.71 2.69 45.10 4.70
987 1017 4.672899 GTCTTCCCATATAGAGAGAGGCT 58.327 47.826 0.00 0.00 0.00 4.58
1090 1120 2.815211 CGTCGCCACCATCACCAG 60.815 66.667 0.00 0.00 0.00 4.00
1153 1183 0.248296 GAGCTCGTCATCGTCACTCC 60.248 60.000 0.00 0.00 38.33 3.85
1371 1401 7.309177 TGCGCTAGAAAATTATAAACTTTGCA 58.691 30.769 9.73 0.00 0.00 4.08
1442 1472 9.213777 TGATCCCACTAGTTAAGAGTCATAAAT 57.786 33.333 0.00 0.00 0.00 1.40
1464 1494 9.731819 TTATACAGTTCAGTCGATAGTTTGATC 57.268 33.333 0.00 0.00 37.40 2.92
1486 1517 5.458015 CAGAGTATCGCCGTGTCATTTATA 58.542 41.667 0.00 0.00 42.67 0.98
1755 1807 8.296713 TCTTTATTGCAATAACTCACTGGAAAC 58.703 33.333 27.44 0.00 31.03 2.78
1762 1814 7.617041 AGACCTCTTTATTGCAATAACTCAC 57.383 36.000 27.44 17.18 31.03 3.51
1769 1821 6.322201 CCATACCAAGACCTCTTTATTGCAAT 59.678 38.462 17.56 17.56 33.11 3.56
1920 1972 4.510167 AATGGAATCTTAGGTGTCCCTG 57.490 45.455 0.00 0.00 42.67 4.45
2081 2175 6.039047 TGACGATTAGTTAGTGGGCTACTTAG 59.961 42.308 9.37 0.00 40.89 2.18
2131 2225 4.991056 TGAAAGCACAGTTCTATCAGACAC 59.009 41.667 0.00 0.00 0.00 3.67
2205 2299 1.135112 CGGTGAATGGTCGTCATCTCA 60.135 52.381 0.00 0.00 34.44 3.27
2277 2372 0.901580 CCAGCAAGCCAAGGAACCAT 60.902 55.000 0.00 0.00 0.00 3.55
2278 2373 1.531365 CCAGCAAGCCAAGGAACCA 60.531 57.895 0.00 0.00 0.00 3.67
2455 2550 1.403814 TTTGGGCAAAATCACCACGA 58.596 45.000 0.00 0.00 33.20 4.35
2487 2582 7.412346 GCTCAGACAGATAAATACACACACAAG 60.412 40.741 0.00 0.00 0.00 3.16
2509 2604 2.159114 TGCTTATCTGCGTACATGCTCA 60.159 45.455 0.00 0.00 35.36 4.26
2603 2698 5.163814 GCTTGTTATTGCAAACCACAAAACA 60.164 36.000 17.31 10.77 32.51 2.83
2626 2721 0.992802 GTCGTCCGACAAATCTCTGC 59.007 55.000 14.48 0.00 44.02 4.26
2640 2735 5.966503 CAGTACTAGTAGAAAGCATGTCGTC 59.033 44.000 1.87 0.00 0.00 4.20
2659 2754 7.157050 CATGCAATGCAAAATCATACAGTAC 57.843 36.000 13.45 0.00 43.62 2.73
2972 3077 4.805744 TGCCTAAACCTGTCCCTTAAAAA 58.194 39.130 0.00 0.00 0.00 1.94
2973 3078 4.456662 TGCCTAAACCTGTCCCTTAAAA 57.543 40.909 0.00 0.00 0.00 1.52
2974 3079 4.668138 ATGCCTAAACCTGTCCCTTAAA 57.332 40.909 0.00 0.00 0.00 1.52
2975 3080 4.668138 AATGCCTAAACCTGTCCCTTAA 57.332 40.909 0.00 0.00 0.00 1.85
2976 3081 4.668138 AAATGCCTAAACCTGTCCCTTA 57.332 40.909 0.00 0.00 0.00 2.69
2977 3082 3.542969 AAATGCCTAAACCTGTCCCTT 57.457 42.857 0.00 0.00 0.00 3.95
2978 3083 3.165071 CAAAATGCCTAAACCTGTCCCT 58.835 45.455 0.00 0.00 0.00 4.20
2981 3086 5.453567 ACTTCAAAATGCCTAAACCTGTC 57.546 39.130 0.00 0.00 0.00 3.51
2984 3089 9.674068 TTTTTAAACTTCAAAATGCCTAAACCT 57.326 25.926 0.00 0.00 0.00 3.50
3012 3117 5.728507 GTCGTATTCGAGCTGTTTTCATTTC 59.271 40.000 0.00 0.00 46.96 2.17
3013 3118 5.178623 TGTCGTATTCGAGCTGTTTTCATTT 59.821 36.000 0.00 0.00 46.96 2.32
3014 3119 4.688879 TGTCGTATTCGAGCTGTTTTCATT 59.311 37.500 0.00 0.00 46.96 2.57
3080 3185 2.413634 CCTTTGTACGGGCGAATTTGTC 60.414 50.000 0.00 0.00 0.00 3.18
3092 3197 2.924290 GCTCTTAGCTCACCTTTGTACG 59.076 50.000 0.00 0.00 38.45 3.67
3101 3206 1.341606 GTGTCGTGCTCTTAGCTCAC 58.658 55.000 0.00 0.00 42.97 3.51
3114 3219 0.031721 GGTTTGAGAGTCGGTGTCGT 59.968 55.000 0.00 0.00 37.69 4.34
3115 3220 0.031585 TGGTTTGAGAGTCGGTGTCG 59.968 55.000 0.00 0.00 37.82 4.35
3116 3221 1.202486 TGTGGTTTGAGAGTCGGTGTC 60.202 52.381 0.00 0.00 0.00 3.67
3117 3222 0.828022 TGTGGTTTGAGAGTCGGTGT 59.172 50.000 0.00 0.00 0.00 4.16
3118 3223 1.217882 GTGTGGTTTGAGAGTCGGTG 58.782 55.000 0.00 0.00 0.00 4.94
3119 3224 0.249322 CGTGTGGTTTGAGAGTCGGT 60.249 55.000 0.00 0.00 0.00 4.69
3120 3225 1.557443 GCGTGTGGTTTGAGAGTCGG 61.557 60.000 0.00 0.00 0.00 4.79
3121 3226 0.874175 TGCGTGTGGTTTGAGAGTCG 60.874 55.000 0.00 0.00 0.00 4.18
3122 3227 0.861837 CTGCGTGTGGTTTGAGAGTC 59.138 55.000 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.