Multiple sequence alignment - TraesCS2B01G184400

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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 TraesCS2B01G184400 chr2B 100.000 2264 0 0 1 2264 159318089 159320352 0.000000e+00 4181.0
1 TraesCS2B01G184400 chr2B 85.641 390 43 10 997 1381 159300179 159300560 4.530000e-107 398.0
2 TraesCS2B01G184400 chr2B 89.706 68 3 3 833 896 12597389 12597322 1.440000e-12 84.2
3 TraesCS2B01G184400 chr2D 95.117 1372 40 13 893 2264 109901947 109903291 0.000000e+00 2137.0
4 TraesCS2B01G184400 chr2D 91.497 835 53 7 2 835 109901133 109901950 0.000000e+00 1133.0
5 TraesCS2B01G184400 chr2D 89.320 412 38 5 995 1404 109793381 109793788 1.550000e-141 512.0
6 TraesCS2B01G184400 chr2D 81.153 642 49 37 2 639 109792647 109793220 1.230000e-122 449.0
7 TraesCS2B01G184400 chr2D 87.778 360 33 8 997 1350 109737609 109737963 5.820000e-111 411.0
8 TraesCS2B01G184400 chr2D 85.714 357 39 6 997 1349 109830849 109831197 1.280000e-97 366.0
9 TraesCS2B01G184400 chr2D 83.763 388 40 12 1418 1783 109796122 109796508 1.660000e-91 346.0
10 TraesCS2B01G184400 chr2D 91.304 46 2 1 649 694 360737740 360737697 6.750000e-06 62.1
11 TraesCS2B01G184400 chr2D 91.304 46 2 1 649 694 360991968 360991925 6.750000e-06 62.1
12 TraesCS2B01G184400 chr2A 94.058 1077 38 8 893 1955 105541175 105542239 0.000000e+00 1611.0
13 TraesCS2B01G184400 chr2A 89.676 649 50 8 2 649 105540394 105541026 0.000000e+00 811.0
14 TraesCS2B01G184400 chr2A 84.615 442 40 14 920 1351 105531728 105532151 4.500000e-112 414.0
15 TraesCS2B01G184400 chr2A 94.444 270 13 2 1995 2264 105542229 105542496 4.500000e-112 414.0
16 TraesCS2B01G184400 chr2A 85.552 353 47 3 997 1349 105522796 105523144 1.280000e-97 366.0
17 TraesCS2B01G184400 chr2A 83.558 371 35 12 291 639 105522175 105522541 7.800000e-85 324.0
18 TraesCS2B01G184400 chr2A 95.139 144 7 0 692 835 105541035 105541178 6.290000e-56 228.0
19 TraesCS2B01G184400 chr3B 79.365 189 22 13 1832 2014 718347527 718347704 1.420000e-22 117.0
20 TraesCS2B01G184400 chr7D 76.471 204 35 11 1815 2014 152114700 152114894 5.150000e-17 99.0
21 TraesCS2B01G184400 chrUn 92.308 65 3 2 833 895 316777230 316777166 8.610000e-15 91.6
22 TraesCS2B01G184400 chrUn 93.220 59 2 2 824 881 322720402 322720459 4.010000e-13 86.1
23 TraesCS2B01G184400 chr5B 92.308 65 3 2 833 895 513807755 513807691 8.610000e-15 91.6
24 TraesCS2B01G184400 chr5B 86.420 81 6 5 804 881 275503802 275503724 1.440000e-12 84.2
25 TraesCS2B01G184400 chr5B 93.182 44 1 1 651 694 583172482 583172523 1.880000e-06 63.9
26 TraesCS2B01G184400 chr5A 90.278 72 4 3 811 881 46616334 46616265 8.610000e-15 91.6
27 TraesCS2B01G184400 chr5A 94.737 57 1 2 826 881 36944646 36944591 1.110000e-13 87.9
28 TraesCS2B01G184400 chr5A 88.000 50 4 1 646 695 670543042 670543089 8.730000e-05 58.4
29 TraesCS2B01G184400 chr7B 89.706 68 5 2 816 881 551956397 551956464 4.010000e-13 86.1
30 TraesCS2B01G184400 chr7B 93.220 59 2 2 824 881 714509832 714509775 4.010000e-13 86.1
31 TraesCS2B01G184400 chr1A 80.952 105 14 6 1941 2044 84019521 84019422 6.700000e-11 78.7
32 TraesCS2B01G184400 chr5D 82.558 86 14 1 1922 2006 289348472 289348557 8.670000e-10 75.0
33 TraesCS2B01G184400 chr5D 85.294 68 9 1 1939 2006 505775665 505775731 4.040000e-08 69.4
34 TraesCS2B01G184400 chr1D 85.714 70 7 3 1941 2009 87770936 87770869 1.120000e-08 71.3
35 TraesCS2B01G184400 chr1D 85.075 67 9 1 1940 2006 302249672 302249737 1.450000e-07 67.6
36 TraesCS2B01G184400 chr6A 80.899 89 16 1 1919 2006 560193282 560193370 4.040000e-08 69.4
37 TraesCS2B01G184400 chr4D 91.489 47 3 1 649 694 420142685 420142731 1.880000e-06 63.9
38 TraesCS2B01G184400 chr4D 89.796 49 2 2 651 699 320282217 320282172 2.430000e-05 60.2
39 TraesCS2B01G184400 chr6D 89.362 47 3 1 649 695 353812303 353812347 8.730000e-05 58.4
40 TraesCS2B01G184400 chr3A 88.235 51 3 2 651 700 166141721 166141673 8.730000e-05 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 TraesCS2B01G184400 chr2B 159318089 159320352 2263 False 4181.000000 4181 100.000000 1 2264 1 chr2B.!!$F2 2263
1 TraesCS2B01G184400 chr2D 109901133 109903291 2158 False 1635.000000 2137 93.307000 2 2264 2 chr2D.!!$F4 2262
2 TraesCS2B01G184400 chr2D 109792647 109796508 3861 False 435.666667 512 84.745333 2 1783 3 chr2D.!!$F3 1781
3 TraesCS2B01G184400 chr2A 105540394 105542496 2102 False 766.000000 1611 93.329250 2 2264 4 chr2A.!!$F3 2262
4 TraesCS2B01G184400 chr2A 105522175 105523144 969 False 345.000000 366 84.555000 291 1349 2 chr2A.!!$F2 1058

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
885 923 0.03759 TGGACAAAAGGGATGGGACG 59.962 55.0 0.0 0.0 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1820 4233 1.304052 TTGCATGCCTGGGTACACC 60.304 57.895 16.68 0.0 40.81 4.16 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 1.280421 GCCTCACTTGGATGGAAGACT 59.720 52.381 0.00 0.00 0.00 3.24
29 30 4.288105 ACTTGGATGGAAGACTGTCTCATT 59.712 41.667 11.31 0.00 0.00 2.57
35 36 1.656095 GAAGACTGTCTCATTTCGCCG 59.344 52.381 11.31 0.00 0.00 6.46
36 37 0.737715 AGACTGTCTCATTTCGCCGC 60.738 55.000 4.06 0.00 0.00 6.53
39 40 1.078497 TGTCTCATTTCGCCGCCAT 60.078 52.632 0.00 0.00 0.00 4.40
75 76 8.610035 CGACTAGTTTTTCAACTCCTAAACTTT 58.390 33.333 0.00 0.00 42.66 2.66
136 137 1.205893 GCACTCCTCGACCAGATTTCT 59.794 52.381 0.00 0.00 0.00 2.52
142 143 4.759782 TCCTCGACCAGATTTCTGATTTC 58.240 43.478 9.15 2.31 46.59 2.17
156 157 4.641396 TCTGATTTCGGCGGATAATTCAT 58.359 39.130 7.21 0.00 0.00 2.57
183 184 3.395702 ATACGCCCCAACGAGCCA 61.396 61.111 0.00 0.00 36.70 4.75
198 199 3.725459 CCAAGCGCGCACATGTGA 61.725 61.111 35.10 0.00 0.00 3.58
200 201 1.866059 CAAGCGCGCACATGTGATG 60.866 57.895 35.10 20.32 0.00 3.07
201 202 3.042842 AAGCGCGCACATGTGATGG 62.043 57.895 35.10 17.32 33.60 3.51
202 203 3.803082 GCGCGCACATGTGATGGT 61.803 61.111 29.80 0.00 33.60 3.55
203 204 2.869646 CGCGCACATGTGATGGTT 59.130 55.556 29.80 0.00 33.60 3.67
204 205 1.209898 CGCGCACATGTGATGGTTT 59.790 52.632 29.80 0.00 33.60 3.27
250 252 9.039870 CACTTAGTCATTCATCCTCTCAAATAC 57.960 37.037 0.00 0.00 0.00 1.89
256 258 7.337942 GTCATTCATCCTCTCAAATACCTTTGT 59.662 37.037 0.00 0.00 42.02 2.83
449 451 3.124297 CACGGCTTTGAAACATCTCTCTC 59.876 47.826 0.00 0.00 0.00 3.20
460 462 9.877178 TTGAAACATCTCTCTCTTATTTACTCC 57.123 33.333 0.00 0.00 0.00 3.85
461 463 9.261035 TGAAACATCTCTCTCTTATTTACTCCT 57.739 33.333 0.00 0.00 0.00 3.69
464 466 9.930158 AACATCTCTCTCTTATTTACTCCTACT 57.070 33.333 0.00 0.00 0.00 2.57
465 467 9.930158 ACATCTCTCTCTTATTTACTCCTACTT 57.070 33.333 0.00 0.00 0.00 2.24
468 470 9.563748 TCTCTCTCTTATTTACTCCTACTTAGC 57.436 37.037 0.00 0.00 0.00 3.09
469 471 9.344772 CTCTCTCTTATTTACTCCTACTTAGCA 57.655 37.037 0.00 0.00 0.00 3.49
470 472 9.869667 TCTCTCTTATTTACTCCTACTTAGCAT 57.130 33.333 0.00 0.00 0.00 3.79
487 519 7.149973 ACTTAGCATTGCATTGCCTATAAATG 58.850 34.615 25.62 9.80 43.83 2.32
554 586 5.106712 GGTGCTAGAAACGATCAAATCACAA 60.107 40.000 0.00 0.00 0.00 3.33
649 684 1.134521 TGCTCCGGTTGACCATATCAC 60.135 52.381 0.00 0.00 36.92 3.06
718 753 6.887368 TCATTGTCTATGAAATTTATCGCCG 58.113 36.000 0.00 0.00 40.29 6.46
831 869 9.767228 TCTACTACTAAGAGACTGCTAATACTG 57.233 37.037 0.00 0.00 0.00 2.74
832 870 9.550406 CTACTACTAAGAGACTGCTAATACTGT 57.450 37.037 0.00 0.00 0.00 3.55
834 872 9.328845 ACTACTAAGAGACTGCTAATACTGTAC 57.671 37.037 0.00 0.00 0.00 2.90
835 873 9.550406 CTACTAAGAGACTGCTAATACTGTACT 57.450 37.037 0.00 0.00 0.00 2.73
837 875 6.702716 AAGAGACTGCTAATACTGTACTCC 57.297 41.667 0.00 0.00 0.00 3.85
839 877 5.103855 AGAGACTGCTAATACTGTACTCCCT 60.104 44.000 0.00 0.00 0.00 4.20
840 878 5.134661 AGACTGCTAATACTGTACTCCCTC 58.865 45.833 0.00 0.00 0.00 4.30
841 879 4.216708 ACTGCTAATACTGTACTCCCTCC 58.783 47.826 0.00 0.00 0.00 4.30
842 880 3.220110 TGCTAATACTGTACTCCCTCCG 58.780 50.000 0.00 0.00 0.00 4.63
843 881 3.220940 GCTAATACTGTACTCCCTCCGT 58.779 50.000 0.00 0.00 0.00 4.69
844 882 3.252944 GCTAATACTGTACTCCCTCCGTC 59.747 52.174 0.00 0.00 0.00 4.79
845 883 2.361643 ATACTGTACTCCCTCCGTCC 57.638 55.000 0.00 0.00 0.00 4.79
847 885 1.077930 CTGTACTCCCTCCGTCCGA 60.078 63.158 0.00 0.00 0.00 4.55
849 887 0.251297 TGTACTCCCTCCGTCCGAAA 60.251 55.000 0.00 0.00 0.00 3.46
850 888 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
851 889 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
852 890 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
853 891 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
854 892 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
855 893 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
856 894 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
857 895 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
858 896 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
859 897 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
860 898 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
861 899 4.571919 TCCGTCCGAAAATACTTGTCATT 58.428 39.130 0.00 0.00 0.00 2.57
862 900 5.722263 TCCGTCCGAAAATACTTGTCATTA 58.278 37.500 0.00 0.00 0.00 1.90
863 901 6.164876 TCCGTCCGAAAATACTTGTCATTAA 58.835 36.000 0.00 0.00 0.00 1.40
864 902 6.649973 TCCGTCCGAAAATACTTGTCATTAAA 59.350 34.615 0.00 0.00 0.00 1.52
865 903 7.172875 TCCGTCCGAAAATACTTGTCATTAAAA 59.827 33.333 0.00 0.00 0.00 1.52
866 904 7.966204 CCGTCCGAAAATACTTGTCATTAAAAT 59.034 33.333 0.00 0.00 0.00 1.82
867 905 8.785101 CGTCCGAAAATACTTGTCATTAAAATG 58.215 33.333 0.00 0.00 37.75 2.32
868 906 9.072294 GTCCGAAAATACTTGTCATTAAAATGG 57.928 33.333 3.00 0.00 37.03 3.16
869 907 9.015367 TCCGAAAATACTTGTCATTAAAATGGA 57.985 29.630 3.00 0.00 37.03 3.41
870 908 9.072294 CCGAAAATACTTGTCATTAAAATGGAC 57.928 33.333 3.00 0.00 37.03 4.02
871 909 9.619316 CGAAAATACTTGTCATTAAAATGGACA 57.381 29.630 3.00 0.00 37.03 4.02
876 914 9.927668 ATACTTGTCATTAAAATGGACAAAAGG 57.072 29.630 15.23 10.14 36.72 3.11
877 915 7.216494 ACTTGTCATTAAAATGGACAAAAGGG 58.784 34.615 15.23 9.93 36.72 3.95
878 916 6.985653 TGTCATTAAAATGGACAAAAGGGA 57.014 33.333 3.00 0.00 37.03 4.20
879 917 7.552050 TGTCATTAAAATGGACAAAAGGGAT 57.448 32.000 3.00 0.00 37.03 3.85
880 918 7.385267 TGTCATTAAAATGGACAAAAGGGATG 58.615 34.615 3.00 0.00 37.03 3.51
881 919 6.818142 GTCATTAAAATGGACAAAAGGGATGG 59.182 38.462 3.00 0.00 37.03 3.51
882 920 5.753721 TTAAAATGGACAAAAGGGATGGG 57.246 39.130 0.00 0.00 0.00 4.00
883 921 3.558608 AAATGGACAAAAGGGATGGGA 57.441 42.857 0.00 0.00 0.00 4.37
884 922 2.532250 ATGGACAAAAGGGATGGGAC 57.468 50.000 0.00 0.00 0.00 4.46
885 923 0.037590 TGGACAAAAGGGATGGGACG 59.962 55.000 0.00 0.00 0.00 4.79
886 924 0.679960 GGACAAAAGGGATGGGACGG 60.680 60.000 0.00 0.00 0.00 4.79
887 925 0.326927 GACAAAAGGGATGGGACGGA 59.673 55.000 0.00 0.00 0.00 4.69
888 926 0.328258 ACAAAAGGGATGGGACGGAG 59.672 55.000 0.00 0.00 0.00 4.63
889 927 0.394352 CAAAAGGGATGGGACGGAGG 60.394 60.000 0.00 0.00 0.00 4.30
890 928 1.571773 AAAAGGGATGGGACGGAGGG 61.572 60.000 0.00 0.00 0.00 4.30
891 929 2.486410 AAAGGGATGGGACGGAGGGA 62.486 60.000 0.00 0.00 0.00 4.20
903 941 4.323715 GGGACGGAGGGAGTACAAATTTAA 60.324 45.833 0.00 0.00 0.00 1.52
990 1037 5.596836 TGGGAACAGATAATTCATTTGCC 57.403 39.130 0.00 0.00 35.01 4.52
991 1038 5.271598 TGGGAACAGATAATTCATTTGCCT 58.728 37.500 0.00 0.00 31.52 4.75
992 1039 5.127519 TGGGAACAGATAATTCATTTGCCTG 59.872 40.000 0.00 0.00 31.52 4.85
993 1040 5.360714 GGGAACAGATAATTCATTTGCCTGA 59.639 40.000 0.00 0.00 0.00 3.86
1300 1354 4.341487 AGCCTACTGGAATAAAAACCCAC 58.659 43.478 0.00 0.00 34.57 4.61
1589 3973 3.567164 GCATGATCCTGGTCGATTTTGAT 59.433 43.478 0.00 0.00 0.00 2.57
1590 3974 4.037208 GCATGATCCTGGTCGATTTTGATT 59.963 41.667 0.00 0.00 0.00 2.57
1800 4213 1.727062 TGGGGCCATGTCAACAAAAT 58.273 45.000 4.39 0.00 0.00 1.82
1820 4233 5.407407 AATGTACTACTTCTGTCAGTGGG 57.593 43.478 0.00 0.00 29.63 4.61
2081 4494 8.909708 TCAATTTCACTTAGTTCAAAACACTG 57.090 30.769 0.00 0.00 0.00 3.66
2082 4495 8.735315 TCAATTTCACTTAGTTCAAAACACTGA 58.265 29.630 0.00 0.00 0.00 3.41
2093 4506 7.373493 AGTTCAAAACACTGATTTCCATCATC 58.627 34.615 0.00 0.00 38.81 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.003580 GTCTTCCATCCAAGTGAGGCA 59.996 52.381 0.00 0.00 0.00 4.75
3 4 3.260380 AGACAGTCTTCCATCCAAGTGAG 59.740 47.826 0.00 0.00 0.00 3.51
21 22 1.078497 ATGGCGGCGAAATGAGACA 60.078 52.632 12.98 0.00 0.00 3.41
29 30 1.295792 GTTTAGATCATGGCGGCGAA 58.704 50.000 12.98 0.00 0.00 4.70
35 36 4.323553 ACTAGTCGGTTTAGATCATGGC 57.676 45.455 0.00 0.00 0.00 4.40
36 37 7.333423 TGAAAAACTAGTCGGTTTAGATCATGG 59.667 37.037 0.00 0.00 38.30 3.66
39 40 7.929785 AGTTGAAAAACTAGTCGGTTTAGATCA 59.070 33.333 0.00 0.00 38.30 2.92
97 98 4.094739 AGTGCAGTTTTGTTTTGCCATTTC 59.905 37.500 0.00 0.00 37.03 2.17
113 114 0.613292 ATCTGGTCGAGGAGTGCAGT 60.613 55.000 0.00 0.00 0.00 4.40
136 137 3.501828 CCATGAATTATCCGCCGAAATCA 59.498 43.478 0.00 0.00 0.00 2.57
142 143 1.877637 TGTCCATGAATTATCCGCCG 58.122 50.000 0.00 0.00 0.00 6.46
156 157 1.268283 TGGGGCGTATGACATGTCCA 61.268 55.000 22.85 8.90 39.99 4.02
183 184 2.481919 CATCACATGTGCGCGCTT 59.518 55.556 33.29 13.54 0.00 4.68
210 211 8.783660 AATGACTAAGTGATAGGTATGAGGAA 57.216 34.615 0.00 0.00 35.81 3.36
221 222 8.539117 TTGAGAGGATGAATGACTAAGTGATA 57.461 34.615 0.00 0.00 0.00 2.15
306 308 6.282199 ACGTGTAGATATGAAGGTTTGACT 57.718 37.500 0.00 0.00 0.00 3.41
449 451 8.662781 TGCAATGCTAAGTAGGAGTAAATAAG 57.337 34.615 6.82 0.00 0.00 1.73
459 461 2.954318 AGGCAATGCAATGCTAAGTAGG 59.046 45.455 25.07 0.00 45.68 3.18
460 462 5.954296 ATAGGCAATGCAATGCTAAGTAG 57.046 39.130 25.07 0.00 45.68 2.57
461 463 7.815840 TTTATAGGCAATGCAATGCTAAGTA 57.184 32.000 25.07 12.54 45.68 2.24
462 464 6.713762 TTTATAGGCAATGCAATGCTAAGT 57.286 33.333 25.07 12.00 45.68 2.24
463 465 7.576750 CATTTATAGGCAATGCAATGCTAAG 57.423 36.000 25.07 3.51 45.68 2.18
487 519 1.100510 TCTTGATGAAGCTGCCATGC 58.899 50.000 6.59 0.99 0.00 4.06
554 586 2.417924 CCACGAGCTCTATGCACTTCTT 60.418 50.000 12.85 0.00 45.94 2.52
712 747 3.524606 CCCGTGAGTACCGGCGAT 61.525 66.667 9.30 0.00 44.13 4.58
718 753 1.609555 CTAGAGATGCCCGTGAGTACC 59.390 57.143 0.00 0.00 0.00 3.34
831 869 0.890683 TTTTCGGACGGAGGGAGTAC 59.109 55.000 0.00 0.00 0.00 2.73
832 870 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
834 872 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
835 873 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
837 875 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
839 877 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
840 878 4.939509 AATGACAAGTATTTTCGGACGG 57.060 40.909 0.00 0.00 0.00 4.79
841 879 8.785101 CATTTTAATGACAAGTATTTTCGGACG 58.215 33.333 0.00 0.00 38.70 4.79
842 880 9.072294 CCATTTTAATGACAAGTATTTTCGGAC 57.928 33.333 4.07 0.00 38.70 4.79
843 881 9.015367 TCCATTTTAATGACAAGTATTTTCGGA 57.985 29.630 4.07 0.00 38.70 4.55
844 882 9.072294 GTCCATTTTAATGACAAGTATTTTCGG 57.928 33.333 4.07 0.00 38.70 4.30
845 883 9.619316 TGTCCATTTTAATGACAAGTATTTTCG 57.381 29.630 4.07 0.00 38.70 3.46
850 888 9.927668 CCTTTTGTCCATTTTAATGACAAGTAT 57.072 29.630 4.07 0.00 37.53 2.12
851 889 8.364142 CCCTTTTGTCCATTTTAATGACAAGTA 58.636 33.333 4.07 5.09 37.53 2.24
852 890 7.070571 TCCCTTTTGTCCATTTTAATGACAAGT 59.929 33.333 4.07 0.00 37.53 3.16
853 891 7.441017 TCCCTTTTGTCCATTTTAATGACAAG 58.559 34.615 4.07 3.30 37.53 3.16
854 892 7.366847 TCCCTTTTGTCCATTTTAATGACAA 57.633 32.000 4.07 9.25 38.70 3.18
855 893 6.985653 TCCCTTTTGTCCATTTTAATGACA 57.014 33.333 4.07 4.41 38.70 3.58
856 894 6.818142 CCATCCCTTTTGTCCATTTTAATGAC 59.182 38.462 4.07 2.18 38.70 3.06
857 895 6.070309 CCCATCCCTTTTGTCCATTTTAATGA 60.070 38.462 4.07 0.00 38.70 2.57
858 896 6.070309 TCCCATCCCTTTTGTCCATTTTAATG 60.070 38.462 0.00 0.00 36.17 1.90
859 897 6.028780 TCCCATCCCTTTTGTCCATTTTAAT 58.971 36.000 0.00 0.00 0.00 1.40
860 898 5.247337 GTCCCATCCCTTTTGTCCATTTTAA 59.753 40.000 0.00 0.00 0.00 1.52
861 899 4.775253 GTCCCATCCCTTTTGTCCATTTTA 59.225 41.667 0.00 0.00 0.00 1.52
862 900 3.582647 GTCCCATCCCTTTTGTCCATTTT 59.417 43.478 0.00 0.00 0.00 1.82
863 901 3.173151 GTCCCATCCCTTTTGTCCATTT 58.827 45.455 0.00 0.00 0.00 2.32
864 902 2.820178 GTCCCATCCCTTTTGTCCATT 58.180 47.619 0.00 0.00 0.00 3.16
865 903 1.340991 CGTCCCATCCCTTTTGTCCAT 60.341 52.381 0.00 0.00 0.00 3.41
866 904 0.037590 CGTCCCATCCCTTTTGTCCA 59.962 55.000 0.00 0.00 0.00 4.02
867 905 0.679960 CCGTCCCATCCCTTTTGTCC 60.680 60.000 0.00 0.00 0.00 4.02
868 906 0.326927 TCCGTCCCATCCCTTTTGTC 59.673 55.000 0.00 0.00 0.00 3.18
869 907 0.328258 CTCCGTCCCATCCCTTTTGT 59.672 55.000 0.00 0.00 0.00 2.83
870 908 0.394352 CCTCCGTCCCATCCCTTTTG 60.394 60.000 0.00 0.00 0.00 2.44
871 909 1.571773 CCCTCCGTCCCATCCCTTTT 61.572 60.000 0.00 0.00 0.00 2.27
872 910 2.001269 CCCTCCGTCCCATCCCTTT 61.001 63.158 0.00 0.00 0.00 3.11
873 911 2.366972 CCCTCCGTCCCATCCCTT 60.367 66.667 0.00 0.00 0.00 3.95
874 912 3.364964 TCCCTCCGTCCCATCCCT 61.365 66.667 0.00 0.00 0.00 4.20
875 913 2.308118 TACTCCCTCCGTCCCATCCC 62.308 65.000 0.00 0.00 0.00 3.85
876 914 1.114119 GTACTCCCTCCGTCCCATCC 61.114 65.000 0.00 0.00 0.00 3.51
877 915 0.396695 TGTACTCCCTCCGTCCCATC 60.397 60.000 0.00 0.00 0.00 3.51
878 916 0.042131 TTGTACTCCCTCCGTCCCAT 59.958 55.000 0.00 0.00 0.00 4.00
879 917 0.178926 TTTGTACTCCCTCCGTCCCA 60.179 55.000 0.00 0.00 0.00 4.37
880 918 1.201424 ATTTGTACTCCCTCCGTCCC 58.799 55.000 0.00 0.00 0.00 4.46
881 919 3.345508 AAATTTGTACTCCCTCCGTCC 57.654 47.619 0.00 0.00 0.00 4.79
882 920 6.806388 TTTTAAATTTGTACTCCCTCCGTC 57.194 37.500 0.00 0.00 0.00 4.79
883 921 6.999871 TCTTTTTAAATTTGTACTCCCTCCGT 59.000 34.615 0.00 0.00 0.00 4.69
884 922 7.443259 TCTTTTTAAATTTGTACTCCCTCCG 57.557 36.000 0.00 0.00 0.00 4.63
903 941 7.545615 CAGCTGGTTTTGTACTCTTTTTCTTTT 59.454 33.333 5.57 0.00 0.00 2.27
989 1036 1.340308 TGGTCAACATCAGCCATCAGG 60.340 52.381 0.00 0.00 38.23 3.86
990 1037 1.741706 GTGGTCAACATCAGCCATCAG 59.258 52.381 0.00 0.00 33.20 2.90
991 1038 1.825090 GTGGTCAACATCAGCCATCA 58.175 50.000 0.00 0.00 33.20 3.07
992 1039 0.729116 CGTGGTCAACATCAGCCATC 59.271 55.000 0.00 0.00 33.20 3.51
993 1040 0.324614 TCGTGGTCAACATCAGCCAT 59.675 50.000 0.00 0.00 33.20 4.40
1295 1349 0.108585 ATGTTGAGACTTGCGTGGGT 59.891 50.000 0.00 0.00 0.00 4.51
1300 1354 1.338105 TGGAGGATGTTGAGACTTGCG 60.338 52.381 0.00 0.00 0.00 4.85
1316 1370 4.497473 TTGTTCGGCAAATTAACTGGAG 57.503 40.909 0.00 0.00 33.53 3.86
1375 1429 2.113910 ACATTTCCGCGAAACACAAC 57.886 45.000 8.23 0.00 34.23 3.32
1377 1431 3.067833 TGATACATTTCCGCGAAACACA 58.932 40.909 8.23 1.50 34.23 3.72
1488 3872 9.909644 GATTTCACTCCGCTAAAGTAGATTATA 57.090 33.333 0.00 0.00 0.00 0.98
1589 3973 8.485578 AGTGTTGGAATTTTACTCCCATAAAA 57.514 30.769 0.00 0.00 38.16 1.52
1590 3974 8.485578 AAGTGTTGGAATTTTACTCCCATAAA 57.514 30.769 0.00 0.00 31.32 1.40
1700 4104 9.735362 ATACAGGGTTATACATATGGATGAGAT 57.265 33.333 10.95 0.00 36.48 2.75
1701 4105 9.560860 AATACAGGGTTATACATATGGATGAGA 57.439 33.333 10.95 0.00 36.48 3.27
1800 4213 3.162666 CCCCACTGACAGAAGTAGTACA 58.837 50.000 10.08 0.00 0.00 2.90
1820 4233 1.304052 TTGCATGCCTGGGTACACC 60.304 57.895 16.68 0.00 40.81 4.16
1890 4303 6.759497 AAGACAGTGGCCATCTAAAATTAC 57.241 37.500 9.72 0.00 0.00 1.89
1904 4317 7.134815 CAGAATTTTAGTGTGAAAGACAGTGG 58.865 38.462 0.00 0.00 38.76 4.00
2167 4580 5.421277 TCAAGAACTGGTTCACTCGTTTTA 58.579 37.500 14.67 0.00 41.84 1.52
2168 4581 4.258543 TCAAGAACTGGTTCACTCGTTTT 58.741 39.130 14.67 0.00 41.84 2.43
2172 4585 4.511454 TCATTTCAAGAACTGGTTCACTCG 59.489 41.667 14.67 1.94 41.84 4.18


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

AutoCloner maintained by Alex Coulton.