Multiple sequence alignment - TraesCS3B01G391100

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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 TraesCS3B01G391100 chr3B 100.000 3858 0 0 1 3858 616427978 616424121 0.000000e+00 7125.0
1 TraesCS3B01G391100 chr3B 84.339 779 93 17 4 774 616583696 616582939 0.000000e+00 736.0
2 TraesCS3B01G391100 chr3B 83.186 791 76 23 899 1667 616647939 616647184 0.000000e+00 671.0
3 TraesCS3B01G391100 chr3D 92.521 3891 231 32 1 3856 463200248 463196383 0.000000e+00 5518.0
4 TraesCS3B01G391100 chr3D 91.369 1680 124 20 1 1667 463231467 463229796 0.000000e+00 2279.0
5 TraesCS3B01G391100 chr3D 86.230 886 96 19 1 876 463266456 463265587 0.000000e+00 937.0
6 TraesCS3B01G391100 chr3D 83.715 786 93 18 899 1667 463381918 463381151 0.000000e+00 710.0
7 TraesCS3B01G391100 chr3D 82.890 789 90 22 899 1667 463261884 463261121 0.000000e+00 667.0
8 TraesCS3B01G391100 chr3D 86.472 377 41 8 4 376 463249988 463249618 4.640000e-109 405.0
9 TraesCS3B01G391100 chr3D 96.970 33 1 0 1824 1856 44062483 44062451 5.380000e-04 56.5
10 TraesCS3B01G391100 chr3A 92.577 2169 147 12 1699 3856 606446126 606443961 0.000000e+00 3101.0
11 TraesCS3B01G391100 chr3A 91.990 1673 98 24 1 1655 606447780 606446126 0.000000e+00 2314.0
12 TraesCS3B01G391100 chr3A 85.788 1548 146 32 134 1667 606519987 606518500 0.000000e+00 1572.0
13 TraesCS3B01G391100 chr3A 84.807 362 37 11 423 774 606453749 606453396 7.930000e-92 348.0
14 TraesCS3B01G391100 chr3A 84.488 303 36 8 78 376 606458474 606458179 4.880000e-74 289.0
15 TraesCS3B01G391100 chr5D 80.493 446 69 12 989 1422 108103453 108103892 3.720000e-85 326.0
16 TraesCS3B01G391100 chr5B 80.831 433 67 10 996 1417 118452021 118452448 3.720000e-85 326.0
17 TraesCS3B01G391100 chr5A 79.054 444 61 25 989 1416 111588734 111589161 3.800000e-70 276.0
18 TraesCS3B01G391100 chr7B 91.304 46 4 0 1809 1854 60679106 60679151 3.220000e-06 63.9
19 TraesCS3B01G391100 chr2A 86.207 58 3 2 1804 1857 15870094 15870038 1.500000e-04 58.4


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 TraesCS3B01G391100 chr3B 616424121 616427978 3857 True 7125.0 7125 100.0000 1 3858 1 chr3B.!!$R1 3857
1 TraesCS3B01G391100 chr3B 616582939 616583696 757 True 736.0 736 84.3390 4 774 1 chr3B.!!$R2 770
2 TraesCS3B01G391100 chr3B 616647184 616647939 755 True 671.0 671 83.1860 899 1667 1 chr3B.!!$R3 768
3 TraesCS3B01G391100 chr3D 463196383 463200248 3865 True 5518.0 5518 92.5210 1 3856 1 chr3D.!!$R2 3855
4 TraesCS3B01G391100 chr3D 463229796 463231467 1671 True 2279.0 2279 91.3690 1 1667 1 chr3D.!!$R3 1666
5 TraesCS3B01G391100 chr3D 463261121 463266456 5335 True 802.0 937 84.5600 1 1667 2 chr3D.!!$R6 1666
6 TraesCS3B01G391100 chr3D 463381151 463381918 767 True 710.0 710 83.7150 899 1667 1 chr3D.!!$R5 768
7 TraesCS3B01G391100 chr3A 606443961 606447780 3819 True 2707.5 3101 92.2835 1 3856 2 chr3A.!!$R4 3855
8 TraesCS3B01G391100 chr3A 606518500 606519987 1487 True 1572.0 1572 85.7880 134 1667 1 chr3A.!!$R3 1533

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
36 37 0.523072 CCGCTTGAGTTGTCAATGGG 59.477 55.0 0.00 0.0 41.96 4.00 F
1090 1166 0.543174 GCTCTCCCCACCGATATCCT 60.543 60.0 0.00 0.0 0.00 3.24 F
1953 5711 0.110486 AGTTTCGGGCCACTGAACAT 59.890 50.0 4.39 0.0 41.53 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1726 5481 0.238553 GCAAGAGGAACAGCGGAAAC 59.761 55.0 0.00 0.00 0.00 2.78 R
2063 5821 0.306840 CAGACATGCGTCATGCCATC 59.693 55.0 16.43 9.19 44.80 3.51 R
3505 7268 0.759959 TAGGCACAACCGGAGTTTGA 59.240 50.0 9.46 0.00 46.52 2.69 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
26 27 2.919228 AGAAACAGAAACCGCTTGAGT 58.081 42.857 0.00 0.00 0.00 3.41
36 37 0.523072 CCGCTTGAGTTGTCAATGGG 59.477 55.000 0.00 0.00 41.96 4.00
112 113 6.017605 CCAAGTTATTGTCTGAGTCATATGGC 60.018 42.308 0.00 0.00 34.39 4.40
128 130 1.080093 GGCACCAGAACATCGTCGA 60.080 57.895 0.00 0.00 0.00 4.20
131 133 0.647410 CACCAGAACATCGTCGATGC 59.353 55.000 30.31 17.58 43.15 3.91
247 251 6.579666 ACAAACTCATGCATATTTCACAGT 57.420 33.333 0.00 0.00 0.00 3.55
248 252 6.615088 ACAAACTCATGCATATTTCACAGTC 58.385 36.000 0.00 0.00 0.00 3.51
266 270 2.866762 AGTCACAAGAAACGAGAAGCAC 59.133 45.455 0.00 0.00 0.00 4.40
311 315 6.979701 AATAAAAACAGAAACCGCTTAACG 57.020 33.333 0.00 0.00 43.15 3.18
312 316 2.394545 AAACAGAAACCGCTTAACGC 57.605 45.000 0.00 0.00 41.76 4.84
363 370 1.888436 TAGAGGGAGCACAACTGGCG 61.888 60.000 0.00 0.00 36.08 5.69
435 443 0.892755 TATCAGAGAACACCGCGGTT 59.107 50.000 32.11 16.90 0.00 4.44
601 610 9.023962 ACTTAGAAATATGATTGCACTTTTGGA 57.976 29.630 0.00 0.00 0.00 3.53
643 652 5.866335 TTGACCGCGTGAATTACTAAATT 57.134 34.783 4.92 0.00 38.03 1.82
647 656 3.181505 CCGCGTGAATTACTAAATTGCCA 60.182 43.478 4.92 0.00 35.41 4.92
657 666 9.914131 GAATTACTAAATTGCCAAATAGATCCC 57.086 33.333 7.41 0.00 35.41 3.85
802 816 0.898320 ATAGCTGGCACACGAGTCTT 59.102 50.000 0.00 0.00 0.00 3.01
804 818 2.320587 GCTGGCACACGAGTCTTGG 61.321 63.158 1.30 0.00 0.00 3.61
861 875 2.899838 ACAGCTTTTGACCGCGCA 60.900 55.556 8.75 0.00 0.00 6.09
882 942 1.731093 GACAGCGGCTAGTCTCTCC 59.269 63.158 18.85 1.04 0.00 3.71
885 946 2.123640 GCGGCTAGTCTCTCCCCT 60.124 66.667 0.00 0.00 0.00 4.79
894 957 0.750182 GTCTCTCCCCTCTCCAGTCG 60.750 65.000 0.00 0.00 0.00 4.18
897 960 2.045242 TCCCCTCTCCAGTCGTCG 60.045 66.667 0.00 0.00 0.00 5.12
932 996 1.172508 ATAAAACCCCCAACACCCCT 58.827 50.000 0.00 0.00 0.00 4.79
940 1004 2.663196 CAACACCCCTCCCGACTC 59.337 66.667 0.00 0.00 0.00 3.36
987 1062 2.305052 AGCGCTAAGAAAACCCCTACTT 59.695 45.455 8.99 0.00 0.00 2.24
1003 1078 3.898123 CCTACTTTCCTAGCTAGCCATGA 59.102 47.826 15.74 4.30 0.00 3.07
1090 1166 0.543174 GCTCTCCCCACCGATATCCT 60.543 60.000 0.00 0.00 0.00 3.24
1308 5037 1.521450 GCCAGAAGCAGAAGCAGCAA 61.521 55.000 0.00 0.00 45.49 3.91
1478 5219 2.238521 GCACAAACCCTCTCCATTTCA 58.761 47.619 0.00 0.00 0.00 2.69
1682 5437 3.521947 AAGCTTTCTATAGCCGTCGTT 57.478 42.857 0.00 0.00 42.20 3.85
1773 5528 1.062365 GCGCGCATGCACATCTAAA 59.938 52.632 29.10 0.00 42.97 1.85
1776 5531 1.841944 CGCGCATGCACATCTAAAAAG 59.158 47.619 19.57 0.00 42.97 2.27
1833 5591 8.683615 ACACGTATCTTAATACAAGATCTCACA 58.316 33.333 0.00 0.00 38.11 3.58
1881 5639 7.174946 TGGATTTAGCAAGACTGTTTCCTTAAG 59.825 37.037 0.00 0.00 0.00 1.85
1940 5698 2.857618 CGAGAGAGTTGAGGAGTTTCG 58.142 52.381 0.00 0.00 0.00 3.46
1953 5711 0.110486 AGTTTCGGGCCACTGAACAT 59.890 50.000 4.39 0.00 41.53 2.71
1961 5719 1.686115 GGCCACTGAACATGCCCTAAT 60.686 52.381 0.00 0.00 37.94 1.73
1975 5733 4.843728 TGCCCTAATTGTCTTGTTCCTAG 58.156 43.478 0.00 0.00 0.00 3.02
1983 5741 3.774734 TGTCTTGTTCCTAGCTACTCCA 58.225 45.455 0.00 0.00 0.00 3.86
1990 5748 0.530870 CCTAGCTACTCCAAAGCGGC 60.531 60.000 0.00 0.00 44.87 6.53
2014 5772 0.813210 CCTCTGAGAAATGCCTCGGC 60.813 60.000 6.17 0.00 38.97 5.54
2030 5788 0.962356 CGGCCTGCCATCCCATAATC 60.962 60.000 9.17 0.00 35.37 1.75
2036 5794 3.199508 CCTGCCATCCCATAATCTAGGAG 59.800 52.174 0.00 0.00 31.94 3.69
2044 5802 5.403512 TCCCATAATCTAGGAGGACGAAAT 58.596 41.667 0.00 0.00 0.00 2.17
2057 5815 3.258123 AGGACGAAATCAATTTTGTGGGG 59.742 43.478 12.07 0.00 42.76 4.96
2063 5821 1.055040 TCAATTTTGTGGGGCCCAAG 58.945 50.000 30.70 11.29 34.18 3.61
2076 5834 1.750018 CCCAAGATGGCATGACGCA 60.750 57.895 3.81 0.00 45.17 5.24
2081 5839 0.179702 AGATGGCATGACGCATGTCT 59.820 50.000 19.90 12.74 45.49 3.41
2105 5863 0.898320 ATCCAGCAGCGAGTAGTGTT 59.102 50.000 0.00 0.00 0.00 3.32
2114 5872 3.054878 AGCGAGTAGTGTTTGTTTACCG 58.945 45.455 0.00 0.00 0.00 4.02
2196 5956 4.457257 TCATTGTGTTTATCGATGCCAACA 59.543 37.500 8.54 11.33 0.00 3.33
2213 5973 5.160641 GCCAACATTGTTCGTTATCAACAT 58.839 37.500 0.00 0.00 33.76 2.71
2234 5994 5.888161 ACATAAATCAAGGAGGTGTTGGATC 59.112 40.000 0.00 0.00 0.00 3.36
2277 6038 5.107298 GCGTAATCTATGTGATTCTGCTTCC 60.107 44.000 0.00 0.00 43.69 3.46
2279 6040 4.944619 ATCTATGTGATTCTGCTTCCGA 57.055 40.909 0.00 0.00 29.59 4.55
2288 6049 4.883585 TGATTCTGCTTCCGATATTTTGCT 59.116 37.500 0.00 0.00 0.00 3.91
2309 6070 2.922740 AACCTTGAGCAAACTACCGA 57.077 45.000 0.00 0.00 0.00 4.69
2363 6124 6.959639 ATATGCCCTAAAGTTATGGTTGTG 57.040 37.500 0.00 0.00 0.00 3.33
2383 6144 6.219417 TGTGCTAATATGTTTTCCATTGGG 57.781 37.500 2.09 0.00 34.86 4.12
2403 6164 4.714308 TGGGTCCATGTTTCTTTTTCTTGT 59.286 37.500 0.00 0.00 0.00 3.16
2422 6183 2.238395 TGTAGGGATGTACATGCAGCAA 59.762 45.455 26.11 8.50 0.00 3.91
2446 6207 0.322456 GTTACATGACAGGGCCAGCA 60.322 55.000 6.18 0.00 0.00 4.41
2499 6260 1.519455 AGATGCAGCCGTCGCTAAC 60.519 57.895 0.00 0.00 46.25 2.34
2514 6275 2.350498 CGCTAACGAACCCAAATGTAGG 59.650 50.000 0.00 0.00 43.93 3.18
2551 6312 2.044555 CATCCAGGCACAGGCACAG 61.045 63.158 0.00 0.00 43.71 3.66
2581 6342 0.320247 ACTTCCAGACAGCAGCTTCG 60.320 55.000 0.00 0.00 0.00 3.79
2607 6368 0.393132 TCCAACACTCAACAACCGCA 60.393 50.000 0.00 0.00 0.00 5.69
2626 6387 1.488705 ATGCGGTCCAGTTCCCTTCA 61.489 55.000 0.00 0.00 0.00 3.02
2710 6471 2.469516 GCAATACCCCACCTTCGCG 61.470 63.158 0.00 0.00 0.00 5.87
2786 6547 1.344763 CAAGGTCGTTCTCTTGGGAGT 59.655 52.381 0.00 0.00 40.29 3.85
2797 6558 1.357420 TCTTGGGAGTCTGAGAGCTCT 59.643 52.381 18.28 18.28 32.67 4.09
2851 6612 5.825593 TCTATGACTTCTTTGGTGAAGGT 57.174 39.130 8.77 0.00 45.49 3.50
2872 6633 3.066621 GTCACTGAACAAGCCACATGAAA 59.933 43.478 0.00 0.00 0.00 2.69
2911 6672 6.431234 ACAAGAACCTTGTCCAAATCATCTAC 59.569 38.462 6.53 0.00 0.00 2.59
3067 6828 8.223100 GGCATCAGAAACATGTTGTTAAATTTC 58.777 33.333 12.82 3.14 40.14 2.17
3161 6923 1.532437 GAAACGGTTACAAGGTTCCCG 59.468 52.381 0.00 0.00 44.06 5.14
3170 6932 5.335426 GGTTACAAGGTTCCCGAAAGATTTC 60.335 44.000 0.00 0.00 0.00 2.17
3263 7025 6.989759 TGTAATGTTTGTGTGGCTATCGATAT 59.010 34.615 5.40 0.00 0.00 1.63
3384 7147 8.462016 TCTTTTCTTTTGAGAAAAAGAGGAGTG 58.538 33.333 13.41 2.83 45.96 3.51
3389 7152 3.884895 TGAGAAAAAGAGGAGTGTTGCA 58.115 40.909 0.00 0.00 0.00 4.08
3459 7222 3.093574 CGAAGTGTAGAATGCGCAAATG 58.906 45.455 17.11 0.00 31.93 2.32
3532 7295 2.369532 TCCGGTTGTGCCTAATATACCC 59.630 50.000 0.00 0.00 34.25 3.69
3614 7377 2.276201 GCAAAAACTTGCCGTCCTTTT 58.724 42.857 0.00 0.00 41.85 2.27
3616 7379 3.489416 GCAAAAACTTGCCGTCCTTTTAG 59.511 43.478 0.00 0.00 41.85 1.85
3677 7442 9.487790 GAACAAAATTTTATGGAATGGAAGTGA 57.512 29.630 2.44 0.00 0.00 3.41
3727 7492 4.974368 ACGAAACAACATTTTCTGGTGA 57.026 36.364 0.00 0.00 46.14 4.02
3756 7521 5.757850 AGCAGGAACGAAATTTCCATATC 57.242 39.130 12.54 5.78 46.76 1.63
3856 7627 6.989169 CACCAAGTAAGATAATCCTTCTCCTG 59.011 42.308 0.00 0.00 0.00 3.86
3857 7628 5.994668 CCAAGTAAGATAATCCTTCTCCTGC 59.005 44.000 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 3.938963 GCTCTTTATCGACCCATTGACAA 59.061 43.478 0.00 0.00 0.00 3.18
36 37 1.929836 CCAGCTGTGCTCTTTATCGAC 59.070 52.381 13.81 0.00 36.40 4.20
100 101 2.571202 TGTTCTGGTGCCATATGACTCA 59.429 45.455 3.65 0.00 0.00 3.41
112 113 0.647410 GCATCGACGATGTTCTGGTG 59.353 55.000 32.08 12.22 41.60 4.17
128 130 7.278646 CACAGTTGTATGTAGACTACAATGCAT 59.721 37.037 18.89 5.26 42.76 3.96
131 133 8.029522 AGACACAGTTGTATGTAGACTACAATG 58.970 37.037 18.89 12.52 40.22 2.82
213 217 4.993584 TGCATGAGTTTGTTTGTGTGTTTT 59.006 33.333 0.00 0.00 0.00 2.43
247 251 3.179443 AGTGCTTCTCGTTTCTTGTGA 57.821 42.857 0.00 0.00 0.00 3.58
248 252 3.951979 AAGTGCTTCTCGTTTCTTGTG 57.048 42.857 0.00 0.00 0.00 3.33
266 270 5.529581 TTTCTCCCCTAAAAGCACAAAAG 57.470 39.130 0.00 0.00 0.00 2.27
311 315 5.698545 AGTTCAGACACTAAGAAATCACTGC 59.301 40.000 0.00 0.00 0.00 4.40
312 316 8.818141 TTAGTTCAGACACTAAGAAATCACTG 57.182 34.615 0.00 0.00 34.85 3.66
363 370 7.377928 ACAAGTATAGCATGTAAACGTCGTATC 59.622 37.037 0.00 0.00 0.00 2.24
435 443 9.154632 AGTTGTATGTACATCAGGATATACCAA 57.845 33.333 12.68 0.00 37.28 3.67
566 575 9.807649 GCAATCATATTTCTAAGTTGTTGGATT 57.192 29.630 0.00 0.00 0.00 3.01
578 587 7.833682 TCCTCCAAAAGTGCAATCATATTTCTA 59.166 33.333 0.00 0.00 0.00 2.10
643 652 1.801242 TCCTCGGGATCTATTTGGCA 58.199 50.000 0.00 0.00 0.00 4.92
647 656 5.071788 TGTTATGCTTCCTCGGGATCTATTT 59.928 40.000 0.00 0.00 0.00 1.40
657 666 0.025001 CGCGTTGTTATGCTTCCTCG 59.975 55.000 0.00 0.00 33.99 4.63
717 731 2.459644 AGTAACATACGGGCTGGTACA 58.540 47.619 10.62 0.00 38.90 2.90
831 845 2.898920 AAGCTGTGGATGGGCCGATG 62.899 60.000 4.37 0.00 40.66 3.84
861 875 2.752238 AGACTAGCCGCTGTCGCT 60.752 61.111 2.16 0.00 38.16 4.93
876 891 1.208844 ACGACTGGAGAGGGGAGAGA 61.209 60.000 0.00 0.00 0.00 3.10
877 892 0.750182 GACGACTGGAGAGGGGAGAG 60.750 65.000 0.00 0.00 0.00 3.20
878 893 1.303615 GACGACTGGAGAGGGGAGA 59.696 63.158 0.00 0.00 0.00 3.71
882 942 3.827898 GGCGACGACTGGAGAGGG 61.828 72.222 0.00 0.00 0.00 4.30
885 946 2.750637 GAGGGCGACGACTGGAGA 60.751 66.667 0.00 0.00 0.00 3.71
913 976 1.078159 GAGGGGTGTTGGGGGTTTTAT 59.922 52.381 0.00 0.00 0.00 1.40
932 996 4.373116 GTGCGCTTGGAGTCGGGA 62.373 66.667 9.73 0.00 0.00 5.14
971 1039 5.789054 AGCTAGGAAAGTAGGGGTTTTCTTA 59.211 40.000 0.00 0.00 0.00 2.10
987 1062 2.366916 GCTCTTCATGGCTAGCTAGGAA 59.633 50.000 23.89 23.89 32.18 3.36
1003 1078 2.049063 GTGGTGCTCGACGCTCTT 60.049 61.111 8.07 0.00 40.11 2.85
1207 4918 0.525668 CTCGCCGTCACCTGATGTAC 60.526 60.000 0.00 0.00 0.00 2.90
1716 5471 1.071471 AGCGGAAACCAGACCACAG 59.929 57.895 0.00 0.00 0.00 3.66
1726 5481 0.238553 GCAAGAGGAACAGCGGAAAC 59.761 55.000 0.00 0.00 0.00 2.78
1730 5485 1.004560 TGAGCAAGAGGAACAGCGG 60.005 57.895 0.00 0.00 0.00 5.52
1806 5564 9.517609 GTGAGATCTTGTATTAAGATACGTGTT 57.482 33.333 0.00 0.00 40.85 3.32
1833 5591 6.040955 TCCAAGTCTCAGTCGATGCTATATTT 59.959 38.462 0.00 0.00 0.00 1.40
1881 5639 2.697751 ACTGCTCTGGTATCATCAGGAC 59.302 50.000 5.43 0.00 33.36 3.85
1913 5671 0.523125 CTCAACTCTCTCGCTCGCTG 60.523 60.000 0.00 0.00 0.00 5.18
1953 5711 3.806949 AGGAACAAGACAATTAGGGCA 57.193 42.857 0.00 0.00 0.00 5.36
1957 5715 6.981559 GGAGTAGCTAGGAACAAGACAATTAG 59.018 42.308 0.00 0.00 0.00 1.73
1961 5719 4.157246 TGGAGTAGCTAGGAACAAGACAA 58.843 43.478 0.00 0.00 0.00 3.18
1975 5733 2.046314 TGGCCGCTTTGGAGTAGC 60.046 61.111 0.00 0.00 42.00 3.58
1983 5741 2.177594 CTCAGAGGTCTGGCCGCTTT 62.178 60.000 0.40 0.00 45.47 3.51
1990 5748 1.558756 AGGCATTTCTCAGAGGTCTGG 59.441 52.381 7.14 0.00 43.91 3.86
2014 5772 3.184628 TCCTAGATTATGGGATGGCAGG 58.815 50.000 0.00 0.00 32.67 4.85
2030 5788 6.403636 CCACAAAATTGATTTCGTCCTCCTAG 60.404 42.308 0.00 0.00 0.00 3.02
2036 5794 3.584834 CCCCACAAAATTGATTTCGTCC 58.415 45.455 0.00 0.00 0.00 4.79
2044 5802 1.055040 CTTGGGCCCCACAAAATTGA 58.945 50.000 22.27 0.00 30.78 2.57
2063 5821 0.306840 CAGACATGCGTCATGCCATC 59.693 55.000 16.43 9.19 44.80 3.51
2076 5834 3.312799 TGCTGGATCGGCAGACAT 58.687 55.556 7.72 0.00 41.16 3.06
2081 5839 4.519437 CTCGCTGCTGGATCGGCA 62.519 66.667 10.74 10.74 44.04 5.69
2161 5920 5.398603 AAACACAATGAAATGGGCGAATA 57.601 34.783 0.00 0.00 0.00 1.75
2196 5956 9.787532 CCTTGATTTATGTTGATAACGAACAAT 57.212 29.630 0.00 0.00 36.90 2.71
2213 5973 5.500234 CAGATCCAACACCTCCTTGATTTA 58.500 41.667 0.00 0.00 0.00 1.40
2219 5979 0.329596 GCCAGATCCAACACCTCCTT 59.670 55.000 0.00 0.00 0.00 3.36
2234 5994 2.793585 CGCTCAATGCAAACATAGCCAG 60.794 50.000 0.00 0.00 43.06 4.85
2277 6038 5.879237 TGCTCAAGGTTAAGCAAAATATCG 58.121 37.500 7.52 0.00 45.09 2.92
2288 6049 4.339872 TCGGTAGTTTGCTCAAGGTTAA 57.660 40.909 0.00 0.00 0.00 2.01
2309 6070 3.844640 AGGGTATCCTTTGTGTGCTTTT 58.155 40.909 0.00 0.00 41.56 2.27
2363 6124 5.362430 TGGACCCAATGGAAAACATATTAGC 59.638 40.000 0.00 0.00 39.40 3.09
2383 6144 6.264518 TCCCTACAAGAAAAAGAAACATGGAC 59.735 38.462 0.00 0.00 0.00 4.02
2403 6164 2.421388 GGTTGCTGCATGTACATCCCTA 60.421 50.000 5.07 0.00 0.00 3.53
2422 6183 1.340991 GGCCCTGTCATGTAACATGGT 60.341 52.381 9.58 0.00 37.29 3.55
2446 6207 3.612247 ATTCGCCGAGGCTTGTGCT 62.612 57.895 12.70 0.00 39.59 4.40
2460 6221 2.287608 TGCGAGTAGTAGGATGCATTCG 60.288 50.000 0.00 4.61 0.00 3.34
2468 6229 1.950216 CTGCATCTGCGAGTAGTAGGA 59.050 52.381 0.00 0.00 45.83 2.94
2499 6260 2.781681 AGTCCCTACATTTGGGTTCG 57.218 50.000 0.00 0.00 44.84 3.95
2501 6262 3.372675 GCCATAGTCCCTACATTTGGGTT 60.373 47.826 0.00 0.00 44.84 4.11
2510 6271 0.320771 CCATGCGCCATAGTCCCTAC 60.321 60.000 4.18 0.00 0.00 3.18
2514 6275 1.823470 TTGCCATGCGCCATAGTCC 60.823 57.895 4.18 0.00 36.24 3.85
2518 6279 1.454572 GGATGTTGCCATGCGCCATA 61.455 55.000 4.18 0.00 36.24 2.74
2551 6312 0.618458 TCTGGAAGTACATGGTGGCC 59.382 55.000 0.00 0.00 33.76 5.36
2555 6316 1.977854 TGCTGTCTGGAAGTACATGGT 59.022 47.619 0.00 0.00 33.76 3.55
2581 6342 4.412207 GTTGTTGAGTGTTGGAGTTGTTC 58.588 43.478 0.00 0.00 0.00 3.18
2607 6368 1.299976 GAAGGGAACTGGACCGCAT 59.700 57.895 0.00 0.00 42.68 4.73
2626 6387 4.430765 CCGTAGCTGCCGTCGGTT 62.431 66.667 13.94 0.00 38.45 4.44
2710 6471 2.231618 GCGGGTCTTCTCGCGATTC 61.232 63.158 10.36 0.00 44.40 2.52
2721 6482 2.203640 TCTCAGTGTGGCGGGTCT 60.204 61.111 0.00 0.00 0.00 3.85
2781 6542 1.064758 TCTCAGAGCTCTCAGACTCCC 60.065 57.143 14.04 0.00 33.18 4.30
2786 6547 1.133513 GGGGATCTCAGAGCTCTCAGA 60.134 57.143 20.40 20.40 0.00 3.27
2797 6558 1.117749 CATCTCCGCTGGGGATCTCA 61.118 60.000 14.33 0.00 46.04 3.27
2851 6612 2.636647 TCATGTGGCTTGTTCAGTGA 57.363 45.000 0.00 0.00 0.00 3.41
2872 6633 4.081420 AGGTTCTTGTCGAGCATATCAACT 60.081 41.667 0.00 0.00 0.00 3.16
2911 6672 8.535014 CATGGTCATGAGATCGAGAGATACCG 62.535 50.000 5.06 0.00 45.64 4.02
3419 7182 8.120465 ACACTTCGTGAACTTAAACAACTAATG 58.880 33.333 0.38 0.00 36.96 1.90
3446 7209 6.624352 ACATAAGATACATTTGCGCATTCT 57.376 33.333 12.75 4.31 0.00 2.40
3450 7213 7.315247 AGTTTACATAAGATACATTTGCGCA 57.685 32.000 5.66 5.66 0.00 6.09
3451 7214 8.523464 CAAAGTTTACATAAGATACATTTGCGC 58.477 33.333 0.00 0.00 0.00 6.09
3480 7243 6.157211 GCTTGAGCTCAGTAGTTGTTTAGTA 58.843 40.000 17.43 0.00 38.21 1.82
3505 7268 0.759959 TAGGCACAACCGGAGTTTGA 59.240 50.000 9.46 0.00 46.52 2.69
3507 7270 2.579410 ATTAGGCACAACCGGAGTTT 57.421 45.000 9.46 0.00 46.52 2.66
3508 7271 3.926058 ATATTAGGCACAACCGGAGTT 57.074 42.857 9.46 0.00 46.52 3.01
3509 7272 3.070590 GGTATATTAGGCACAACCGGAGT 59.929 47.826 9.46 2.78 46.52 3.85
3567 7330 7.766278 TCTGTTTTCATCTCTATAAGGAACTGC 59.234 37.037 0.00 0.00 40.86 4.40
3727 7492 5.391312 AAATTTCGTTCCTGCTAGCATTT 57.609 34.783 19.72 9.52 0.00 2.32


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

AutoCloner maintained by Alex Coulton.