Multiple sequence alignment - TraesCS1D01G140300

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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 TraesCS1D01G140300 chr1D 100.000 4237 0 0 1 4237 193364221 193359985 0 7825
1 TraesCS1D01G140300 chr1A 93.910 3448 138 23 1 3405 239106260 239102842 0 5138
2 TraesCS1D01G140300 chr1A 96.894 837 22 4 3403 4237 239102789 239101955 0 1399
3 TraesCS1D01G140300 chr1B 91.908 3485 153 36 1 3405 267971945 267968510 0 4754
4 TraesCS1D01G140300 chr1B 97.847 836 17 1 3403 4237 267968457 267967622 0 1443


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 TraesCS1D01G140300 chr1D 193359985 193364221 4236 True 7825.0 7825 100.0000 1 4237 1 chr1D.!!$R1 4236
1 TraesCS1D01G140300 chr1A 239101955 239106260 4305 True 3268.5 5138 95.4020 1 4237 2 chr1A.!!$R1 4236
2 TraesCS1D01G140300 chr1B 267967622 267971945 4323 True 3098.5 4754 94.8775 1 4237 2 chr1B.!!$R1 4236

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
250 253 0.538057 CAACACCTGCACCCATCACT 60.538 55.0 0.00 0.00 0.00 3.41 F
1537 1625 0.106868 TCTGGATGGCTTGATGCAGG 60.107 55.0 10.76 0.00 41.01 4.85 F
1855 1943 0.393944 CCTCATCACAGGCATGCAGT 60.394 55.0 21.36 14.63 0.00 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2159 2261 0.103572 AGCATTGCGCCATGGAATTC 59.896 50.000 21.57 5.85 44.04 2.17 R
2924 3028 0.113190 AGTTCCCTTCAAGCCTTGGG 59.887 55.000 4.30 0.00 40.95 4.12 R
3633 3800 1.263484 CAGCTGTGTCAGTGCAGAAAG 59.737 52.381 5.25 0.00 34.87 2.62 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
60 61 4.769488 TGCTTTCTGAGAGATCTGTACAGT 59.231 41.667 21.99 9.95 0.00 3.55
61 62 5.101628 GCTTTCTGAGAGATCTGTACAGTG 58.898 45.833 21.99 0.00 0.00 3.66
166 169 8.266473 TCTTTTAGTTTTACTACTCCACAACCA 58.734 33.333 0.00 0.00 28.93 3.67
177 180 5.241403 ACTCCACAACCATGATGAAAGTA 57.759 39.130 0.00 0.00 0.00 2.24
178 181 5.630121 ACTCCACAACCATGATGAAAGTAA 58.370 37.500 0.00 0.00 0.00 2.24
196 199 5.046910 AGTAATTGTTCCTGCGATTTGTG 57.953 39.130 0.00 0.00 0.00 3.33
250 253 0.538057 CAACACCTGCACCCATCACT 60.538 55.000 0.00 0.00 0.00 3.41
332 373 3.209410 CAACCAAGCAGAAAGAGACAGT 58.791 45.455 0.00 0.00 0.00 3.55
527 571 5.418310 TCGTGTCTTTCATTTCAACTTCC 57.582 39.130 0.00 0.00 0.00 3.46
564 611 3.632145 GGACTTTGAAGAAGGTTGAGCAA 59.368 43.478 0.00 0.00 0.00 3.91
611 658 1.129437 GATCTTGCGGTTTCTGTCTGC 59.871 52.381 0.00 0.00 37.66 4.26
774 821 1.073923 TGCCTCTTCTGAAACCCCTTC 59.926 52.381 0.00 0.00 34.31 3.46
866 945 1.743252 CTGCGCCTGGTCTTCTTCC 60.743 63.158 4.18 0.00 0.00 3.46
916 1002 1.734163 CCTTTACCGCCGTCTGAAAT 58.266 50.000 0.00 0.00 0.00 2.17
1050 1138 2.291043 GGAGCGGGACAAGGAGGAA 61.291 63.158 0.00 0.00 0.00 3.36
1365 1453 2.690778 GCGCCGAAGCCTTGATGTT 61.691 57.895 0.00 0.00 34.57 2.71
1368 1456 1.589716 GCCGAAGCCTTGATGTTGCT 61.590 55.000 0.00 0.00 36.79 3.91
1402 1490 3.376918 GCAAAGGCCTCCAGGTGC 61.377 66.667 5.23 7.67 37.57 5.01
1430 1518 3.194116 TCTTCTTTTCCTCATGCATTGCC 59.806 43.478 6.12 0.00 0.00 4.52
1441 1529 2.119655 GCATTGCCTCCAGCTCCAG 61.120 63.158 0.00 0.00 44.23 3.86
1450 1538 1.073722 CCAGCTCCAGCCAACTCAA 59.926 57.895 0.00 0.00 43.38 3.02
1460 1548 4.832266 TCCAGCCAACTCAACATAAACATT 59.168 37.500 0.00 0.00 0.00 2.71
1485 1573 1.596477 GAGCTCATCCATGGCGGTC 60.596 63.158 9.40 6.73 35.57 4.79
1537 1625 0.106868 TCTGGATGGCTTGATGCAGG 60.107 55.000 10.76 0.00 41.01 4.85
1749 1837 2.887152 GTCAACAAGATCACCAAAGCCT 59.113 45.455 0.00 0.00 0.00 4.58
1837 1925 6.457528 CGAAGATTCTGAATTCAAGGTAAGCC 60.458 42.308 9.88 0.00 0.00 4.35
1840 1928 4.908601 TCTGAATTCAAGGTAAGCCTCA 57.091 40.909 9.88 0.00 46.33 3.86
1844 1932 4.943705 TGAATTCAAGGTAAGCCTCATCAC 59.056 41.667 5.45 0.00 46.33 3.06
1853 1941 4.649845 CCTCATCACAGGCATGCA 57.350 55.556 21.36 0.00 0.00 3.96
1855 1943 0.393944 CCTCATCACAGGCATGCAGT 60.394 55.000 21.36 14.63 0.00 4.40
1889 1981 8.347771 TCAAATGCTATGATTGCTGAAAGATAC 58.652 33.333 0.00 0.00 34.07 2.24
1890 1982 8.350722 CAAATGCTATGATTGCTGAAAGATACT 58.649 33.333 0.00 0.00 34.07 2.12
1891 1983 6.856135 TGCTATGATTGCTGAAAGATACTG 57.144 37.500 0.00 0.00 34.07 2.74
1892 1984 6.351711 TGCTATGATTGCTGAAAGATACTGT 58.648 36.000 0.00 0.00 34.07 3.55
1893 1985 7.500141 TGCTATGATTGCTGAAAGATACTGTA 58.500 34.615 0.00 0.00 34.07 2.74
1894 1986 7.986889 TGCTATGATTGCTGAAAGATACTGTAA 59.013 33.333 0.00 0.00 34.07 2.41
1895 1987 8.279103 GCTATGATTGCTGAAAGATACTGTAAC 58.721 37.037 0.00 0.00 34.07 2.50
1903 1995 7.928167 TGCTGAAAGATACTGTAACATCATAGG 59.072 37.037 0.00 0.00 34.07 2.57
2033 2126 0.888619 TGCTCGACGAGAACTGGAAT 59.111 50.000 28.43 0.00 0.00 3.01
2117 2210 1.206745 CGGTATGTAACGAGCAGCCG 61.207 60.000 0.00 2.15 34.17 5.52
2144 2239 1.815003 CATCTTCTTTGTCCAGCACCC 59.185 52.381 0.00 0.00 0.00 4.61
2159 2261 1.586422 CACCCGATGGCACTATTCTG 58.414 55.000 0.00 0.00 33.59 3.02
2190 2292 2.785477 GCGCAATGCTGACATATTGAAC 59.215 45.455 0.30 4.26 41.73 3.18
2212 2314 4.326826 CAGCATACTGGGACTTTCAAAGA 58.673 43.478 3.49 0.00 40.48 2.52
2233 2335 1.334869 CAGCTTTGCGAGTTTTCACCT 59.665 47.619 0.00 0.00 0.00 4.00
2297 2399 7.631377 GCAAGAATAGTTCATATTGTGGCCTTT 60.631 37.037 3.32 0.00 37.87 3.11
2317 2419 2.734670 TCGTACTTGTCAGACAAACCG 58.265 47.619 16.85 16.89 37.69 4.44
2328 2430 2.685897 CAGACAAACCGAAAACCAGGAA 59.314 45.455 0.00 0.00 0.00 3.36
2348 2451 5.705905 AGGAATGGTTAAAAGAAACTCCTCG 59.294 40.000 0.00 0.00 29.95 4.63
2351 2454 5.026038 TGGTTAAAAGAAACTCCTCGACA 57.974 39.130 0.00 0.00 0.00 4.35
2399 2502 9.639601 GCAAGTACTTTTAAAAGATTATTGGCT 57.360 29.630 29.97 10.28 39.31 4.75
2437 2540 8.859236 AATTGACAATACCATCATCCTAGATG 57.141 34.615 0.00 0.00 43.90 2.90
2438 2541 7.616528 TTGACAATACCATCATCCTAGATGA 57.383 36.000 9.56 9.56 46.51 2.92
2566 2670 3.339141 AGCTAGTAACTTTTCTGGCTGC 58.661 45.455 5.80 0.00 44.43 5.25
2580 2684 3.084039 CTGGCTGCTTTCCAATTGTAGA 58.916 45.455 4.43 0.00 32.41 2.59
2585 2689 5.349543 GGCTGCTTTCCAATTGTAGAATTTG 59.650 40.000 4.43 0.00 28.65 2.32
2625 2729 7.833285 AAATTTCCAAGTAAAAGTAGCCTCA 57.167 32.000 0.00 0.00 0.00 3.86
2663 2767 8.362464 ACTCTAGATACCTGACATTTGTTACA 57.638 34.615 0.00 0.00 0.00 2.41
2673 2777 9.528489 ACCTGACATTTGTTACATATAAAAGGT 57.472 29.630 8.51 8.51 30.03 3.50
2858 2962 3.316573 GAACAGGCCGAGGGGTGAG 62.317 68.421 0.00 0.00 34.97 3.51
2909 3013 1.070134 TCCTCCGACACCAAGAAGTTG 59.930 52.381 0.00 0.00 0.00 3.16
2924 3028 5.104259 AGAAGTTGGAGACCATAATGGAC 57.896 43.478 0.00 0.00 40.96 4.02
2933 3037 1.645919 ACCATAATGGACCCAAGGCTT 59.354 47.619 0.00 0.00 40.96 4.35
2954 3058 2.303022 TGAAGGGAACTACAGCCTGAAG 59.697 50.000 0.00 0.00 42.68 3.02
3111 3215 5.394553 CCCCTGATAAGCCATTCAAAAGAAC 60.395 44.000 0.00 0.00 0.00 3.01
3164 3268 1.959985 GATCTGAAGAGGAGGATCGCA 59.040 52.381 0.00 0.00 34.37 5.10
3166 3270 1.064389 TCTGAAGAGGAGGATCGCAGA 60.064 52.381 0.00 0.00 45.75 4.26
3192 3296 2.485966 AGCTGGAGATGGTAGATGGT 57.514 50.000 0.00 0.00 0.00 3.55
3263 3367 6.707608 TCAAAATATGGATGAGATGTTCCTCG 59.292 38.462 0.00 0.00 35.99 4.63
3274 3378 7.165460 TGAGATGTTCCTCGTTATGACTTTA 57.835 36.000 0.00 0.00 35.99 1.85
3305 3410 7.307694 CAGAGATATTAGCAAAAACAGCAACA 58.692 34.615 0.00 0.00 0.00 3.33
3358 3463 8.899427 ACCATACAATTCAGAGAACATGATAG 57.101 34.615 0.00 0.00 0.00 2.08
3370 3475 6.317391 AGAGAACATGATAGCTAAAAACAGGC 59.683 38.462 0.00 0.00 0.00 4.85
3373 3478 4.332819 ACATGATAGCTAAAAACAGGCGAC 59.667 41.667 0.00 0.00 0.00 5.19
3441 3608 5.350633 TGTTTTCACAAGAGCTGGAAAATG 58.649 37.500 0.00 0.00 36.96 2.32
3824 3993 2.371841 AGAAAATGTGGGGGAAAAAGGC 59.628 45.455 0.00 0.00 0.00 4.35
3989 4158 0.734889 CTCCGGATGTTTGGCATGAC 59.265 55.000 3.57 0.00 38.06 3.06
4026 4195 5.869649 AAGCAACACTAATTTTGGGAACT 57.130 34.783 0.00 0.00 0.00 3.01
4099 4269 4.294232 CGCTATACACAACCAGAGATCTG 58.706 47.826 0.00 2.72 43.40 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 9.037737 TGTATATGTTTTCCGAAGTAACATAGC 57.962 33.333 17.38 14.19 39.00 2.97
17 18 5.949735 AGCAACCTTTGTATATGTTTTCCG 58.050 37.500 0.00 0.00 0.00 4.30
34 35 3.936564 ACAGATCTCTCAGAAAGCAACC 58.063 45.455 0.00 0.00 0.00 3.77
157 160 6.493115 ACAATTACTTTCATCATGGTTGTGGA 59.507 34.615 0.00 0.00 0.00 4.02
166 169 5.647658 TCGCAGGAACAATTACTTTCATCAT 59.352 36.000 0.00 0.00 0.00 2.45
177 180 3.569701 ACTCACAAATCGCAGGAACAATT 59.430 39.130 0.00 0.00 0.00 2.32
178 181 3.149196 ACTCACAAATCGCAGGAACAAT 58.851 40.909 0.00 0.00 0.00 2.71
196 199 1.283321 AGGAGAGGGAAATGGCAACTC 59.717 52.381 0.00 0.00 37.61 3.01
250 253 3.581332 AGAGAAACGTGAGGGTTTGGATA 59.419 43.478 0.00 0.00 40.05 2.59
527 571 1.788229 AGTCCAAAACCAACCCAAGG 58.212 50.000 0.00 0.00 0.00 3.61
564 611 1.036707 CCAACAACCGACCAACCAAT 58.963 50.000 0.00 0.00 0.00 3.16
611 658 0.105593 CACCCATGGAGACGATCAGG 59.894 60.000 15.22 0.00 0.00 3.86
774 821 4.292977 AGGCGTCAAAAGAAGAAAACTG 57.707 40.909 0.00 0.00 0.00 3.16
852 931 1.004745 TGATTGGGAAGAAGACCAGGC 59.995 52.381 0.00 0.00 38.16 4.85
866 945 2.686915 GGATCTTGGAAGCACTGATTGG 59.313 50.000 0.00 0.00 0.00 3.16
916 1002 8.144478 CAGCCTTTCAGCTACTATAGTAATCAA 58.856 37.037 13.51 2.46 42.61 2.57
947 1033 4.735985 TGCAATAACATGACAGCATCAAC 58.264 39.130 0.00 0.00 41.93 3.18
1122 1210 2.183811 CAGCACTCTGAGCCCGAG 59.816 66.667 4.19 0.00 42.95 4.63
1368 1456 1.226974 GCGTCCGAGCTGCTTGATA 60.227 57.895 18.47 3.26 0.00 2.15
1402 1490 4.703575 TGCATGAGGAAAAGAAGAGAATGG 59.296 41.667 0.00 0.00 0.00 3.16
1430 1518 1.078567 GAGTTGGCTGGAGCTGGAG 60.079 63.158 0.00 0.00 41.70 3.86
1441 1529 5.288804 ACACAATGTTTATGTTGAGTTGGC 58.711 37.500 0.00 0.00 0.00 4.52
1450 1538 5.308014 TGAGCTCTGACACAATGTTTATGT 58.692 37.500 16.19 0.00 0.00 2.29
1460 1548 1.208776 CCATGGATGAGCTCTGACACA 59.791 52.381 16.19 7.39 0.00 3.72
1485 1573 1.867233 GTTCGGGTCAATGATCGGATG 59.133 52.381 4.60 0.00 0.00 3.51
1496 1584 1.004320 CGGATGGTTGTTCGGGTCA 60.004 57.895 0.00 0.00 0.00 4.02
1497 1585 0.247185 TACGGATGGTTGTTCGGGTC 59.753 55.000 0.00 0.00 0.00 4.46
1537 1625 7.748847 ACGAATCAAAGTATTGGTGTTATCAC 58.251 34.615 0.00 0.00 43.19 3.06
1551 1639 2.571653 TCCCTGGATGACGAATCAAAGT 59.428 45.455 0.00 0.00 38.69 2.66
1749 1837 1.324740 GCCTCATTGCCCATGAAGCA 61.325 55.000 10.36 6.31 45.51 3.91
1837 1925 2.320745 TACTGCATGCCTGTGATGAG 57.679 50.000 16.68 5.50 0.00 2.90
1840 1928 2.026915 TGAGTTACTGCATGCCTGTGAT 60.027 45.455 16.68 4.88 0.00 3.06
1844 1932 3.011818 TGAATGAGTTACTGCATGCCTG 58.988 45.455 16.68 10.76 0.00 4.85
1853 1941 8.133627 GCAATCATAGCATTTGAATGAGTTACT 58.866 33.333 7.86 0.00 38.70 2.24
1855 1943 8.132995 CAGCAATCATAGCATTTGAATGAGTTA 58.867 33.333 7.86 0.00 38.70 2.24
1889 1981 4.993584 GGTCATGCTCCTATGATGTTACAG 59.006 45.833 0.00 0.00 39.13 2.74
1890 1982 4.655649 AGGTCATGCTCCTATGATGTTACA 59.344 41.667 7.37 0.00 39.13 2.41
1891 1983 5.220710 AGGTCATGCTCCTATGATGTTAC 57.779 43.478 7.37 0.00 39.13 2.50
1892 1984 7.559335 AATAGGTCATGCTCCTATGATGTTA 57.441 36.000 21.51 3.35 44.53 2.41
1893 1985 6.445451 AATAGGTCATGCTCCTATGATGTT 57.555 37.500 21.51 10.04 44.53 2.71
1894 1986 6.445451 AAATAGGTCATGCTCCTATGATGT 57.555 37.500 21.51 9.77 44.53 3.06
1895 1987 8.316946 TCTAAAATAGGTCATGCTCCTATGATG 58.683 37.037 21.51 14.94 44.53 3.07
1903 1995 7.049799 AGAGACTCTAAAATAGGTCATGCTC 57.950 40.000 2.19 0.00 32.14 4.26
2033 2126 0.934496 CGAAGTCCGACAGTTTTGCA 59.066 50.000 0.40 0.00 41.76 4.08
2117 2210 3.157087 TGGACAAAGAAGATGGGCTTTC 58.843 45.455 0.00 0.00 36.83 2.62
2144 2239 4.129380 TGGAATTCAGAATAGTGCCATCG 58.871 43.478 7.93 0.00 0.00 3.84
2159 2261 0.103572 AGCATTGCGCCATGGAATTC 59.896 50.000 21.57 5.85 44.04 2.17
2190 2292 4.154918 GTCTTTGAAAGTCCCAGTATGCTG 59.845 45.833 3.45 3.45 42.22 4.41
2209 2311 2.682856 TGAAAACTCGCAAAGCTGTCTT 59.317 40.909 0.00 0.00 0.00 3.01
2212 2314 1.065551 GGTGAAAACTCGCAAAGCTGT 59.934 47.619 0.00 0.00 0.00 4.40
2222 2324 6.338937 ACCGATCATACTTAGGTGAAAACTC 58.661 40.000 0.00 0.00 33.37 3.01
2225 2327 6.703319 TGAACCGATCATACTTAGGTGAAAA 58.297 36.000 0.00 0.00 35.08 2.29
2226 2328 6.070995 ACTGAACCGATCATACTTAGGTGAAA 60.071 38.462 0.00 0.00 37.44 2.69
2233 2335 7.285566 AGTACCTACTGAACCGATCATACTTA 58.714 38.462 0.00 0.00 37.44 2.24
2297 2399 2.358582 TCGGTTTGTCTGACAAGTACGA 59.641 45.455 26.83 26.83 39.53 3.43
2328 2430 5.617252 TGTCGAGGAGTTTCTTTTAACCAT 58.383 37.500 0.00 0.00 0.00 3.55
2348 2451 3.881688 ACTGCTAAGCATCCATTCATGTC 59.118 43.478 0.00 0.00 38.13 3.06
2351 2454 4.135306 CTGACTGCTAAGCATCCATTCAT 58.865 43.478 0.00 0.00 38.13 2.57
2415 2518 7.071071 TGTTCATCTAGGATGATGGTATTGTCA 59.929 37.037 10.44 0.00 42.82 3.58
2437 2540 3.304726 GCCTACCTTTGTTCTGCTTGTTC 60.305 47.826 0.00 0.00 0.00 3.18
2438 2541 2.623416 GCCTACCTTTGTTCTGCTTGTT 59.377 45.455 0.00 0.00 0.00 2.83
2500 2604 0.739813 CTGGCTTTCCTAACCGGTCG 60.740 60.000 8.04 1.40 0.00 4.79
2538 2642 7.231519 AGCCAGAAAAGTTACTAGCTGATTTTT 59.768 33.333 0.00 0.00 30.90 1.94
2548 2652 4.760204 GGAAAGCAGCCAGAAAAGTTACTA 59.240 41.667 0.00 0.00 0.00 1.82
2549 2653 3.570125 GGAAAGCAGCCAGAAAAGTTACT 59.430 43.478 0.00 0.00 0.00 2.24
2550 2654 3.317993 TGGAAAGCAGCCAGAAAAGTTAC 59.682 43.478 0.00 0.00 0.00 2.50
2566 2670 9.865321 ATGTGATCAAATTCTACAATTGGAAAG 57.135 29.630 10.83 4.50 35.84 2.62
2585 2689 9.459640 CTTGGAAATTTATCATCACATGTGATC 57.540 33.333 33.46 21.24 46.57 2.92
2625 2729 6.155393 AGGTATCTAGAGTTAAGCTGCAAACT 59.845 38.462 17.00 17.00 38.62 2.66
2858 2962 0.890683 CCCATTCCACAAGGTTCTGC 59.109 55.000 0.00 0.00 35.89 4.26
2909 3013 2.158608 CCTTGGGTCCATTATGGTCTCC 60.159 54.545 11.39 11.63 39.03 3.71
2924 3028 0.113190 AGTTCCCTTCAAGCCTTGGG 59.887 55.000 4.30 0.00 40.95 4.12
2933 3037 2.024176 TCAGGCTGTAGTTCCCTTCA 57.976 50.000 15.27 0.00 0.00 3.02
2954 3058 3.512516 GCAATCCTGGCTGCCGAC 61.513 66.667 14.98 0.00 32.18 4.79
2962 3066 2.515523 CCAGCGAGGCAATCCTGG 60.516 66.667 9.63 9.63 44.46 4.45
3026 3130 1.985614 CACCATCTCCAGCACCTCA 59.014 57.895 0.00 0.00 0.00 3.86
3164 3268 8.538701 CATCTACCATCTCCAGCTTTAATATCT 58.461 37.037 0.00 0.00 0.00 1.98
3166 3270 7.238514 ACCATCTACCATCTCCAGCTTTAATAT 59.761 37.037 0.00 0.00 0.00 1.28
3192 3296 2.621055 GTGTCCACTTGTGCCATGTAAA 59.379 45.455 0.00 0.00 0.00 2.01
3274 3378 8.579850 TGTTTTTGCTAATATCTCTGGATGTT 57.420 30.769 0.00 0.00 37.17 2.71
3305 3410 2.283145 ACTCAAGTGGCATTTCAGCT 57.717 45.000 0.00 0.00 34.17 4.24
3358 3463 1.666023 GCCAAGTCGCCTGTTTTTAGC 60.666 52.381 0.00 0.00 0.00 3.09
3370 3475 1.812571 AGCATTAGGTTTGCCAAGTCG 59.187 47.619 0.00 0.00 41.06 4.18
3373 3478 5.300034 TGATGATAGCATTAGGTTTGCCAAG 59.700 40.000 0.00 0.00 41.06 3.61
3441 3608 5.650543 TCAAAAAGGACTGCTTCAGTTTTC 58.349 37.500 0.66 0.00 45.44 2.29
3633 3800 1.263484 CAGCTGTGTCAGTGCAGAAAG 59.737 52.381 5.25 0.00 34.87 2.62
3824 3993 5.818136 AAATAACATGACCTGTGAATCCG 57.182 39.130 0.00 0.00 38.39 4.18
3967 4136 1.315257 ATGCCAAACATCCGGAGCAC 61.315 55.000 15.18 0.00 31.52 4.40
4099 4269 0.521735 CTGAGCTTTGCCCGTTAACC 59.478 55.000 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.