Multiple sequence alignment - TraesCS3D01G155600

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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 TraesCS3D01G155600 chr3D 100.000 3568 0 0 1 3568 123293915 123297482 0.000000e+00 6589
1 TraesCS3D01G155600 chr3D 95.396 782 30 5 3 782 122586815 122586038 0.000000e+00 1240
2 TraesCS3D01G155600 chr3B 93.939 1881 93 10 833 2697 175756112 175757987 0.000000e+00 2822
3 TraesCS3D01G155600 chr3B 94.313 844 23 7 2746 3568 175757988 175758827 0.000000e+00 1269
4 TraesCS3D01G155600 chr3A 93.594 1889 83 15 834 2697 130834545 130836420 0.000000e+00 2784
5 TraesCS3D01G155600 chr3A 90.618 842 36 17 2746 3563 130836421 130837243 0.000000e+00 1077
6 TraesCS3D01G155600 chr3A 85.885 751 70 21 44 784 502266057 502265333 0.000000e+00 767
7 TraesCS3D01G155600 chr3A 85.848 749 67 25 44 780 694112843 694112122 0.000000e+00 760
8 TraesCS3D01G155600 chr3A 78.692 413 54 22 377 780 9919696 9919309 9.890000e-61 244
9 TraesCS3D01G155600 chr3A 98.276 58 1 0 786 843 130834391 130834448 6.300000e-18 102
10 TraesCS3D01G155600 chr6D 95.600 750 30 3 3 752 119505688 119504942 0.000000e+00 1199
11 TraesCS3D01G155600 chr4A 86.230 748 66 21 44 780 4008320 4007599 0.000000e+00 776
12 TraesCS3D01G155600 chr4A 85.542 747 72 21 41 777 174149128 174149848 0.000000e+00 749
13 TraesCS3D01G155600 chr7A 85.828 755 69 21 41 784 714679974 714680701 0.000000e+00 767
14 TraesCS3D01G155600 chr7A 85.810 747 71 21 44 780 679006173 679005452 0.000000e+00 760
15 TraesCS3D01G155600 chr2A 85.944 747 69 21 41 777 778138997 778139717 0.000000e+00 765
16 TraesCS3D01G155600 chr6A 85.467 750 76 19 44 784 75948049 75947324 0.000000e+00 750
17 TraesCS3D01G155600 chr5A 87.222 180 20 3 600 777 77755919 77756097 6.040000e-48 202


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 TraesCS3D01G155600 chr3D 123293915 123297482 3567 False 6589.0 6589 100.000000 1 3568 1 chr3D.!!$F1 3567
1 TraesCS3D01G155600 chr3D 122586038 122586815 777 True 1240.0 1240 95.396000 3 782 1 chr3D.!!$R1 779
2 TraesCS3D01G155600 chr3B 175756112 175758827 2715 False 2045.5 2822 94.126000 833 3568 2 chr3B.!!$F1 2735
3 TraesCS3D01G155600 chr3A 130834391 130837243 2852 False 1321.0 2784 94.162667 786 3563 3 chr3A.!!$F1 2777
4 TraesCS3D01G155600 chr3A 502265333 502266057 724 True 767.0 767 85.885000 44 784 1 chr3A.!!$R2 740
5 TraesCS3D01G155600 chr3A 694112122 694112843 721 True 760.0 760 85.848000 44 780 1 chr3A.!!$R3 736
6 TraesCS3D01G155600 chr6D 119504942 119505688 746 True 1199.0 1199 95.600000 3 752 1 chr6D.!!$R1 749
7 TraesCS3D01G155600 chr4A 4007599 4008320 721 True 776.0 776 86.230000 44 780 1 chr4A.!!$R1 736
8 TraesCS3D01G155600 chr4A 174149128 174149848 720 False 749.0 749 85.542000 41 777 1 chr4A.!!$F1 736
9 TraesCS3D01G155600 chr7A 714679974 714680701 727 False 767.0 767 85.828000 41 784 1 chr7A.!!$F1 743
10 TraesCS3D01G155600 chr7A 679005452 679006173 721 True 760.0 760 85.810000 44 780 1 chr7A.!!$R1 736
11 TraesCS3D01G155600 chr2A 778138997 778139717 720 False 765.0 765 85.944000 41 777 1 chr2A.!!$F1 736
12 TraesCS3D01G155600 chr6A 75947324 75948049 725 True 750.0 750 85.467000 44 784 1 chr6A.!!$R1 740

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
591 639 1.178276 ACGGCAAAACAGTGGAACAA 58.822 45.0 0.0 0.0 44.16 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2573 2759 0.036732 ACTGGCCAATTTCTCAGCGA 59.963 50.0 7.01 0.0 0.0 4.93 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
225 227 4.718961 ACCTTCAGCTGTAAACAATGTCT 58.281 39.130 14.67 0.00 0.00 3.41
509 557 2.912956 AGCACCTGGGTTCAGAAATAGA 59.087 45.455 0.00 0.00 43.49 1.98
534 582 5.134661 ACCGATTTCTTTGGGAAACAGTAA 58.865 37.500 0.00 0.00 45.29 2.24
591 639 1.178276 ACGGCAAAACAGTGGAACAA 58.822 45.000 0.00 0.00 44.16 2.83
592 640 1.546476 ACGGCAAAACAGTGGAACAAA 59.454 42.857 0.00 0.00 44.16 2.83
642 692 1.939934 CGAAACAGTGGAACAGCTTCA 59.060 47.619 0.00 0.00 41.80 3.02
730 780 2.753043 CCCGCCAATCAGCTGCTT 60.753 61.111 9.47 1.96 0.00 3.91
731 781 2.345760 CCCGCCAATCAGCTGCTTT 61.346 57.895 9.47 2.03 0.00 3.51
784 834 1.681538 GTCACATAGGAGCTCTCGGA 58.318 55.000 14.64 0.56 0.00 4.55
847 1001 9.107177 GAATATCCTGATATGAAAGGTATGCTG 57.893 37.037 0.57 0.00 34.45 4.41
1276 1431 3.637273 GACGGCAGTGGGGTTCCT 61.637 66.667 0.00 0.00 0.00 3.36
1291 1446 2.338500 GTTCCTCTCCTGCACGTAAAG 58.662 52.381 0.00 0.00 0.00 1.85
1306 1461 5.233263 GCACGTAAAGATTCTCCTTCTCATC 59.767 44.000 0.00 0.00 0.00 2.92
1316 1474 1.916181 TCCTTCTCATCAACTTCCCCC 59.084 52.381 0.00 0.00 0.00 5.40
1362 1520 3.125146 TCGTTGAGCATTACTGAATGTGC 59.875 43.478 0.08 0.00 43.82 4.57
1389 1547 1.168714 GCAGGTGATTCTGGTCAACC 58.831 55.000 0.00 0.00 36.46 3.77
1607 1775 2.435410 TGCACAGCTGATCCTGCG 60.435 61.111 23.35 0.44 36.29 5.18
1623 1791 2.125512 CGTTCCTGCCTTCTCCGG 60.126 66.667 0.00 0.00 0.00 5.14
1624 1792 2.943978 CGTTCCTGCCTTCTCCGGT 61.944 63.158 0.00 0.00 0.00 5.28
1625 1793 1.079057 GTTCCTGCCTTCTCCGGTC 60.079 63.158 0.00 0.00 0.00 4.79
1751 1919 1.197721 AGTGGTACGTGTACTGTACGC 59.802 52.381 18.96 18.96 44.87 4.42
1773 1947 2.125753 CTCAGACCAGCCAGACGC 60.126 66.667 0.00 0.00 37.98 5.19
1794 1968 1.213013 GCGACTGGACTGTCACGAT 59.787 57.895 10.38 0.00 36.82 3.73
1796 1970 0.179161 CGACTGGACTGTCACGATCC 60.179 60.000 10.38 0.00 36.82 3.36
1797 1971 1.178276 GACTGGACTGTCACGATCCT 58.822 55.000 10.38 0.00 36.97 3.24
1803 1985 0.671781 ACTGTCACGATCCTTGCTGC 60.672 55.000 0.00 0.00 0.00 5.25
1986 2168 1.742761 CACTGCTACAACCTGATGGG 58.257 55.000 0.00 0.00 41.89 4.00
2051 2233 4.047059 GGTTCGCCGTCCACGAGA 62.047 66.667 0.00 0.00 41.18 4.04
2324 2506 5.452255 AGTACCCGATCTTTATGACAGGTA 58.548 41.667 0.00 0.00 0.00 3.08
2332 2515 7.429633 CGATCTTTATGACAGGTAATCTCAGT 58.570 38.462 0.00 0.00 0.00 3.41
2393 2576 2.432874 AGGGGGTTTGCTACAAAAACAC 59.567 45.455 0.00 0.00 39.68 3.32
2424 2610 1.346722 ACCGGTGACTACTTTTCAGGG 59.653 52.381 6.12 0.00 0.00 4.45
2493 2679 2.169769 GACGATGACCATTTACAGGGGA 59.830 50.000 0.00 0.00 0.00 4.81
2525 2711 1.402259 CAGAGATGCCGTTCGAGTAGT 59.598 52.381 0.00 0.00 0.00 2.73
2536 2722 4.334759 CCGTTCGAGTAGTTCTTCCTATGA 59.665 45.833 0.00 0.00 0.00 2.15
2573 2759 3.633418 ACTAGATTGGCTTAGTCCTCGT 58.367 45.455 0.00 0.00 0.00 4.18
2599 2785 3.269381 TGAGAAATTGGCCAGTATCCCTT 59.731 43.478 5.11 0.00 0.00 3.95
2702 2891 5.526506 AGCATAATCATTTTTGCTCTCCC 57.473 39.130 2.44 0.00 43.80 4.30
2703 2892 4.037208 AGCATAATCATTTTTGCTCTCCCG 59.963 41.667 2.44 0.00 43.80 5.14
2704 2893 4.794003 GCATAATCATTTTTGCTCTCCCGG 60.794 45.833 0.00 0.00 36.99 5.73
2705 2894 2.806945 ATCATTTTTGCTCTCCCGGA 57.193 45.000 0.73 0.00 0.00 5.14
2706 2895 2.113860 TCATTTTTGCTCTCCCGGAG 57.886 50.000 8.30 8.30 44.49 4.63
2721 2910 2.965572 CGGAGGGGTATTGTCGTAAA 57.034 50.000 0.00 0.00 0.00 2.01
2722 2911 3.464111 CGGAGGGGTATTGTCGTAAAT 57.536 47.619 0.00 0.00 0.00 1.40
2723 2912 3.800531 CGGAGGGGTATTGTCGTAAATT 58.199 45.455 0.00 0.00 0.00 1.82
2724 2913 4.193865 CGGAGGGGTATTGTCGTAAATTT 58.806 43.478 0.00 0.00 0.00 1.82
2725 2914 4.034742 CGGAGGGGTATTGTCGTAAATTTG 59.965 45.833 0.00 0.00 0.00 2.32
2726 2915 4.945543 GGAGGGGTATTGTCGTAAATTTGT 59.054 41.667 0.00 0.00 0.00 2.83
2727 2916 5.416639 GGAGGGGTATTGTCGTAAATTTGTT 59.583 40.000 0.00 0.00 0.00 2.83
2728 2917 6.598850 GGAGGGGTATTGTCGTAAATTTGTTA 59.401 38.462 0.00 0.00 0.00 2.41
2729 2918 7.381766 AGGGGTATTGTCGTAAATTTGTTAC 57.618 36.000 0.00 0.00 0.00 2.50
2730 2919 6.375174 AGGGGTATTGTCGTAAATTTGTTACC 59.625 38.462 0.00 2.14 0.00 2.85
2731 2920 6.150809 GGGGTATTGTCGTAAATTTGTTACCA 59.849 38.462 0.00 0.00 0.00 3.25
2732 2921 7.245604 GGGTATTGTCGTAAATTTGTTACCAG 58.754 38.462 0.00 0.00 0.00 4.00
2733 2922 7.119553 GGGTATTGTCGTAAATTTGTTACCAGA 59.880 37.037 0.00 0.00 0.00 3.86
2734 2923 8.505625 GGTATTGTCGTAAATTTGTTACCAGAA 58.494 33.333 0.00 0.00 0.00 3.02
2735 2924 9.881529 GTATTGTCGTAAATTTGTTACCAGAAA 57.118 29.630 0.00 0.00 0.00 2.52
2737 2926 8.844441 TTGTCGTAAATTTGTTACCAGAAAAG 57.156 30.769 0.00 0.00 0.00 2.27
2738 2927 6.913673 TGTCGTAAATTTGTTACCAGAAAAGC 59.086 34.615 0.00 0.00 0.00 3.51
2739 2928 6.913673 GTCGTAAATTTGTTACCAGAAAAGCA 59.086 34.615 0.00 0.00 0.00 3.91
2740 2929 6.913673 TCGTAAATTTGTTACCAGAAAAGCAC 59.086 34.615 0.00 0.00 0.00 4.40
2741 2930 6.129561 CGTAAATTTGTTACCAGAAAAGCACG 60.130 38.462 0.00 0.00 0.00 5.34
2742 2931 5.508200 AATTTGTTACCAGAAAAGCACGA 57.492 34.783 0.00 0.00 0.00 4.35
2743 2932 4.545823 TTTGTTACCAGAAAAGCACGAG 57.454 40.909 0.00 0.00 0.00 4.18
2744 2933 2.489971 TGTTACCAGAAAAGCACGAGG 58.510 47.619 0.00 0.00 0.00 4.63
2803 2992 9.578439 CATATGACGATGTATTCACTGTATGAT 57.422 33.333 0.00 0.00 37.11 2.45
2828 3024 3.935203 CTCGCAACAATTATCACCTCTGT 59.065 43.478 0.00 0.00 0.00 3.41
2845 3041 4.158764 CCTCTGTACTGTAGGAAGACCAAG 59.841 50.000 10.65 0.00 38.94 3.61
2866 3075 2.872245 GTGCTGTGCTAGACTGAAACAA 59.128 45.455 0.00 0.00 0.00 2.83
2973 3189 8.005976 TGTTTTGGTAAAAGGTAAGGGTAAGAT 58.994 33.333 0.00 0.00 0.00 2.40
3079 3295 0.534203 TTGAGGTTTCCACGTGCTCC 60.534 55.000 10.91 9.04 0.00 4.70
3186 3402 2.613026 TGCTACGGTGTTCCCATATG 57.387 50.000 0.00 0.00 0.00 1.78
3230 3446 9.060347 GGATAATCAAGACTTTCAGCATATCAA 57.940 33.333 0.00 0.00 0.00 2.57
3251 3467 8.856153 ATCAATGTACCACTGTTATTACACAA 57.144 30.769 0.00 0.00 0.00 3.33
3252 3468 8.856153 TCAATGTACCACTGTTATTACACAAT 57.144 30.769 0.00 0.00 0.00 2.71
3253 3469 8.726068 TCAATGTACCACTGTTATTACACAATG 58.274 33.333 0.00 0.00 0.00 2.82
3294 3510 2.957402 TCTCTGCACTGGGACAAAAT 57.043 45.000 0.00 0.00 38.70 1.82
3316 3532 6.705863 ATCAATGTTTTCTTAGAGGATGGC 57.294 37.500 0.00 0.00 0.00 4.40
3332 3548 5.448654 AGGATGGCATTTTATCTGTAGCAA 58.551 37.500 0.00 0.00 0.00 3.91
3477 3693 0.188587 AGGCTCCCTCCGATGTATGA 59.811 55.000 0.00 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.215789 ACAGGTGCAAAACATTTCATCATTTA 58.784 30.769 0.00 0.00 0.00 1.40
1 2 6.056884 ACAGGTGCAAAACATTTCATCATTT 58.943 32.000 0.00 0.00 0.00 2.32
247 249 6.627243 TGTACATGTCTTACTGCTCGTTTAT 58.373 36.000 0.00 0.00 0.00 1.40
509 557 4.404394 ACTGTTTCCCAAAGAAATCGGTTT 59.596 37.500 0.00 0.00 45.99 3.27
555 603 2.227194 CCGTACCTGCTGTTTTCCTTT 58.773 47.619 0.00 0.00 0.00 3.11
591 639 6.238076 CCTGCTGTTTCGCTGTTTTAAAAATT 60.238 34.615 1.31 0.00 0.00 1.82
592 640 5.234116 CCTGCTGTTTCGCTGTTTTAAAAAT 59.766 36.000 1.31 0.00 0.00 1.82
642 692 2.401351 GTTTCGCTGTTCCTACTTCGT 58.599 47.619 0.00 0.00 0.00 3.85
706 756 1.508088 CTGATTGGCGGGCTTTGTC 59.492 57.895 2.38 0.00 0.00 3.18
743 793 2.688507 CATTCTGCGTCAACTAGGTGT 58.311 47.619 7.85 0.00 0.00 4.16
847 1001 1.571955 AATTTGGCCCATCAAGGTCC 58.428 50.000 0.00 0.00 34.66 4.46
924 1079 7.315142 TGCCTTATCTTCAAATAGCTGTTTTG 58.685 34.615 5.61 11.03 35.79 2.44
1090 1245 2.854214 CGTCTCGCTGAATCGCTGC 61.854 63.158 0.00 0.00 38.02 5.25
1096 1251 1.336440 CTCCTGATCGTCTCGCTGAAT 59.664 52.381 0.00 0.00 0.00 2.57
1198 1353 2.528818 CCTGTTGGTGGCCTGGAGA 61.529 63.158 3.32 0.00 0.00 3.71
1208 1363 3.084191 GGTACCTCTCCCTGTTGGT 57.916 57.895 4.06 0.00 36.66 3.67
1270 1425 0.606604 TTACGTGCAGGAGAGGAACC 59.393 55.000 14.38 0.00 0.00 3.62
1273 1428 1.919240 TCTTTACGTGCAGGAGAGGA 58.081 50.000 14.38 4.14 0.00 3.71
1276 1431 3.119101 GGAGAATCTTTACGTGCAGGAGA 60.119 47.826 14.38 6.08 33.73 3.71
1291 1446 5.122519 GGGAAGTTGATGAGAAGGAGAATC 58.877 45.833 0.00 0.00 0.00 2.52
1324 1482 2.664436 CGAAAACTCCCACGTCGCC 61.664 63.158 0.00 0.00 0.00 5.54
1327 1485 1.525619 CTCAACGAAAACTCCCACGTC 59.474 52.381 0.00 0.00 38.00 4.34
1336 1494 6.086765 CACATTCAGTAATGCTCAACGAAAAC 59.913 38.462 0.00 0.00 45.41 2.43
1362 1520 0.390866 AGAATCACCTGCTCAGCACG 60.391 55.000 0.00 0.00 33.79 5.34
1389 1547 1.066303 CGGACGAATCTCCTTCCTCAG 59.934 57.143 0.00 0.00 0.00 3.35
1589 1753 2.747822 CGCAGGATCAGCTGTGCAC 61.748 63.158 22.33 10.75 35.57 4.57
1607 1775 1.079057 GACCGGAGAAGGCAGGAAC 60.079 63.158 9.46 0.00 33.69 3.62
1623 1791 0.389948 CCTTCACCACGTAGCTGGAC 60.390 60.000 0.00 0.00 33.89 4.02
1624 1792 1.972198 CCTTCACCACGTAGCTGGA 59.028 57.895 0.00 0.00 33.89 3.86
1625 1793 1.741770 GCCTTCACCACGTAGCTGG 60.742 63.158 0.00 0.00 35.40 4.85
1756 1924 2.125753 GCGTCTGGCTGGTCTGAG 60.126 66.667 0.00 0.00 39.11 3.35
1773 1947 2.016704 GTGACAGTCCAGTCGCGTG 61.017 63.158 5.77 0.00 41.41 5.34
1794 1968 1.469703 CATGTCGAAATGCAGCAAGGA 59.530 47.619 1.83 0.00 0.00 3.36
1796 1970 2.624316 ACATGTCGAAATGCAGCAAG 57.376 45.000 15.73 0.00 0.00 4.01
1797 1971 2.292845 TGAACATGTCGAAATGCAGCAA 59.707 40.909 15.73 0.00 0.00 3.91
1803 1985 2.086869 AGGCCTGAACATGTCGAAATG 58.913 47.619 14.24 14.24 0.00 2.32
1961 2143 1.078426 GGTTGTAGCAGTGCCCGAT 60.078 57.895 12.58 0.00 0.00 4.18
2057 2239 2.359975 GTGGAAGGAAGGCACCGG 60.360 66.667 0.00 0.00 34.73 5.28
2061 2243 3.171828 TTCGCGTGGAAGGAAGGCA 62.172 57.895 5.77 0.00 0.00 4.75
2065 2247 0.250124 ACATGTTCGCGTGGAAGGAA 60.250 50.000 5.77 0.00 38.40 3.36
2324 2506 1.538047 AAATGGCGTGCACTGAGATT 58.462 45.000 16.19 4.97 0.00 2.40
2332 2515 3.056962 ACATACATGAAAAATGGCGTGCA 60.057 39.130 0.00 0.00 0.00 4.57
2376 2559 3.110358 GGTCGTGTTTTTGTAGCAAACC 58.890 45.455 0.00 0.00 33.83 3.27
2424 2610 2.731976 GCATAGAGTATACAGCGTTGGC 59.268 50.000 5.50 0.00 40.37 4.52
2493 2679 3.359950 GGCATCTCTGTTCTTGGGATTT 58.640 45.455 0.00 0.00 0.00 2.17
2536 2722 9.331282 GCCAATCTAGTTATTAGAAGTTCACAT 57.669 33.333 5.50 0.00 41.59 3.21
2560 2746 1.226717 CAGCGACGAGGACTAAGCC 60.227 63.158 0.00 0.00 0.00 4.35
2573 2759 0.036732 ACTGGCCAATTTCTCAGCGA 59.963 50.000 7.01 0.00 0.00 4.93
2685 2874 3.019564 CTCCGGGAGAGCAAAAATGATT 58.980 45.455 19.57 0.00 35.31 2.57
2701 2890 1.113788 TTACGACAATACCCCTCCGG 58.886 55.000 0.00 0.00 37.81 5.14
2702 2891 2.965572 TTTACGACAATACCCCTCCG 57.034 50.000 0.00 0.00 0.00 4.63
2703 2892 4.945543 ACAAATTTACGACAATACCCCTCC 59.054 41.667 0.00 0.00 0.00 4.30
2704 2893 6.505044 AACAAATTTACGACAATACCCCTC 57.495 37.500 0.00 0.00 0.00 4.30
2705 2894 6.375174 GGTAACAAATTTACGACAATACCCCT 59.625 38.462 0.00 0.00 0.00 4.79
2706 2895 6.554419 GGTAACAAATTTACGACAATACCCC 58.446 40.000 0.00 0.00 0.00 4.95
2720 2909 8.873746 GCCTCGTGCTTTTCTGGTAACAAATT 62.874 42.308 0.00 0.00 41.92 1.82
2721 2910 7.503011 GCCTCGTGCTTTTCTGGTAACAAAT 62.503 44.000 0.00 0.00 41.92 2.32
2722 2911 6.273509 GCCTCGTGCTTTTCTGGTAACAAA 62.274 45.833 0.00 0.00 41.92 2.83
2723 2912 4.847228 GCCTCGTGCTTTTCTGGTAACAA 61.847 47.826 0.00 0.00 41.92 2.83
2724 2913 3.383272 GCCTCGTGCTTTTCTGGTAACA 61.383 50.000 0.00 0.00 40.59 2.41
2725 2914 1.197036 GCCTCGTGCTTTTCTGGTAAC 59.803 52.381 0.00 0.00 36.87 2.50
2726 2915 1.202710 TGCCTCGTGCTTTTCTGGTAA 60.203 47.619 1.74 0.00 42.00 2.85
2727 2916 0.394938 TGCCTCGTGCTTTTCTGGTA 59.605 50.000 1.74 0.00 42.00 3.25
2728 2917 0.465460 TTGCCTCGTGCTTTTCTGGT 60.465 50.000 1.74 0.00 42.00 4.00
2729 2918 0.667993 TTTGCCTCGTGCTTTTCTGG 59.332 50.000 1.74 0.00 42.00 3.86
2730 2919 1.334869 AGTTTGCCTCGTGCTTTTCTG 59.665 47.619 1.74 0.00 42.00 3.02
2731 2920 1.334869 CAGTTTGCCTCGTGCTTTTCT 59.665 47.619 1.74 0.00 42.00 2.52
2732 2921 1.333619 TCAGTTTGCCTCGTGCTTTTC 59.666 47.619 1.74 0.00 42.00 2.29
2733 2922 1.334869 CTCAGTTTGCCTCGTGCTTTT 59.665 47.619 1.74 0.00 42.00 2.27
2734 2923 0.947244 CTCAGTTTGCCTCGTGCTTT 59.053 50.000 1.74 0.00 42.00 3.51
2735 2924 0.106708 TCTCAGTTTGCCTCGTGCTT 59.893 50.000 1.74 0.00 42.00 3.91
2736 2925 0.322975 ATCTCAGTTTGCCTCGTGCT 59.677 50.000 1.74 0.00 42.00 4.40
2737 2926 0.723981 GATCTCAGTTTGCCTCGTGC 59.276 55.000 0.00 0.00 41.77 5.34
2738 2927 1.998315 CAGATCTCAGTTTGCCTCGTG 59.002 52.381 0.00 0.00 0.00 4.35
2739 2928 1.674221 GCAGATCTCAGTTTGCCTCGT 60.674 52.381 0.00 0.00 0.00 4.18
2740 2929 1.005340 GCAGATCTCAGTTTGCCTCG 58.995 55.000 0.00 0.00 0.00 4.63
2741 2930 2.105006 TGCAGATCTCAGTTTGCCTC 57.895 50.000 0.00 0.00 35.75 4.70
2742 2931 2.157738 GTTGCAGATCTCAGTTTGCCT 58.842 47.619 0.00 0.00 35.75 4.75
2743 2932 1.881973 TGTTGCAGATCTCAGTTTGCC 59.118 47.619 0.00 0.00 35.75 4.52
2744 2933 2.095364 CCTGTTGCAGATCTCAGTTTGC 60.095 50.000 8.01 2.54 37.09 3.68
2803 2992 3.938963 GAGGTGATAATTGTTGCGAGGAA 59.061 43.478 0.00 0.00 0.00 3.36
2828 3024 3.258372 CAGCACTTGGTCTTCCTACAGTA 59.742 47.826 0.00 0.00 34.23 2.74
2845 3041 2.483876 TGTTTCAGTCTAGCACAGCAC 58.516 47.619 0.00 0.00 0.00 4.40
2866 3075 5.413833 CAGAAAGTCTATGGCACTGTTGAAT 59.586 40.000 0.00 0.00 0.00 2.57
3045 3261 4.640771 ACCTCAACTCCAAAGAGCATTA 57.359 40.909 0.00 0.00 44.65 1.90
3046 3262 3.515602 ACCTCAACTCCAAAGAGCATT 57.484 42.857 0.00 0.00 44.65 3.56
3047 3263 3.515602 AACCTCAACTCCAAAGAGCAT 57.484 42.857 0.00 0.00 44.65 3.79
3059 3275 0.586802 GAGCACGTGGAAACCTCAAC 59.413 55.000 18.88 0.00 0.00 3.18
3079 3295 3.119291 GCATGATTGGTACTGAGACTCG 58.881 50.000 0.00 0.00 0.00 4.18
3186 3402 9.778741 TGATTATCCACAGGAAATATACTGTTC 57.221 33.333 5.24 2.02 45.03 3.18
3194 3410 9.396022 GAAAGTCTTGATTATCCACAGGAAATA 57.604 33.333 0.00 0.00 34.34 1.40
3251 3467 7.559170 AGAAATCAGCAGTTTAGCTATTTCCAT 59.441 33.333 17.25 6.84 44.54 3.41
3252 3468 6.886459 AGAAATCAGCAGTTTAGCTATTTCCA 59.114 34.615 17.25 0.00 44.54 3.53
3253 3469 7.281999 AGAGAAATCAGCAGTTTAGCTATTTCC 59.718 37.037 17.25 12.78 44.54 3.13
3294 3510 5.569355 TGCCATCCTCTAAGAAAACATTGA 58.431 37.500 0.00 0.00 0.00 2.57
3332 3548 9.577110 CAGATACATCATTTACTTGCAAAATGT 57.423 29.630 17.59 8.28 42.39 2.71
3477 3693 6.015095 TGTCTCCATTCTCGTGCAGATTATAT 60.015 38.462 0.00 0.00 0.00 0.86
3503 3719 5.798132 TGCACAATTTATGCCCAACAATTA 58.202 33.333 8.60 0.00 42.69 1.40


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

AutoCloner maintained by Alex Coulton.