Multiple sequence alignment - TraesCS2B01G216300

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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 TraesCS2B01G216300 chr2B 100.000 4139 0 0 1 4139 202158126 202153988 0.000000e+00 7644.0
1 TraesCS2B01G216300 chr2D 92.767 3415 149 44 787 4139 143895152 143891774 0.000000e+00 4848.0
2 TraesCS2B01G216300 chr2D 86.654 1064 84 32 2601 3644 623404544 623403519 0.000000e+00 1125.0
3 TraesCS2B01G216300 chr2D 80.952 84 9 5 3729 3805 609558171 609558254 4.470000e-05 60.2
4 TraesCS2B01G216300 chr2A 89.383 2788 172 52 1029 3706 157534520 157537293 0.000000e+00 3395.0
5 TraesCS2B01G216300 chr2A 86.736 1146 91 35 2520 3645 81460064 81461168 0.000000e+00 1218.0
6 TraesCS2B01G216300 chr2A 88.028 852 72 23 2813 3645 43917515 43916675 0.000000e+00 981.0
7 TraesCS2B01G216300 chr2A 82.663 721 74 26 2520 3225 765404787 765405471 3.560000e-165 592.0
8 TraesCS2B01G216300 chr2A 92.941 340 20 3 3802 4139 157537299 157537636 3.720000e-135 492.0
9 TraesCS2B01G216300 chr2A 92.233 103 5 2 2241 2342 765403455 765403555 4.310000e-30 143.0
10 TraesCS2B01G216300 chr5A 98.479 789 12 0 1 789 450228510 450227722 0.000000e+00 1391.0
11 TraesCS2B01G216300 chr5B 98.226 789 13 1 1 788 308983363 308982575 0.000000e+00 1378.0
12 TraesCS2B01G216300 chr5B 82.500 80 5 7 3734 3804 704867174 704867253 1.240000e-05 62.1
13 TraesCS2B01G216300 chr1A 95.707 792 28 6 1 789 294437123 294436335 0.000000e+00 1269.0
14 TraesCS2B01G216300 chr1A 82.105 570 56 23 2520 3075 251370310 251370847 2.940000e-121 446.0
15 TraesCS2B01G216300 chr1A 81.754 570 58 23 2520 3075 540637037 540637574 6.350000e-118 435.0
16 TraesCS2B01G216300 chr1A 91.262 103 6 2 2241 2342 251368979 251369079 2.010000e-28 137.0
17 TraesCS2B01G216300 chr1A 91.262 103 6 2 2241 2342 540635707 540635807 2.010000e-28 137.0
18 TraesCS2B01G216300 chr7A 94.917 787 34 5 3 788 442155630 442154849 0.000000e+00 1227.0
19 TraesCS2B01G216300 chr7A 82.105 570 56 23 2520 3075 1877664 1877127 2.940000e-121 446.0
20 TraesCS2B01G216300 chr7A 91.262 103 6 2 2241 2342 1878931 1878831 2.010000e-28 137.0
21 TraesCS2B01G216300 chr4B 94.750 781 38 3 8 788 187302553 187301776 0.000000e+00 1212.0
22 TraesCS2B01G216300 chr3B 94.636 783 40 2 7 789 641368759 641367979 0.000000e+00 1212.0
23 TraesCS2B01G216300 chr3A 94.253 783 43 2 8 790 457512169 457512949 0.000000e+00 1195.0
24 TraesCS2B01G216300 chr6B 93.990 782 45 2 8 789 626713599 626712820 0.000000e+00 1182.0
25 TraesCS2B01G216300 chr6B 93.451 794 42 7 1 788 139400007 139400796 0.000000e+00 1170.0
26 TraesCS2B01G216300 chr6B 91.262 103 6 2 2241 2342 22933698 22933798 2.010000e-28 137.0
27 TraesCS2B01G216300 chr5D 86.265 1063 89 31 2601 3644 488187158 488186134 0.000000e+00 1101.0
28 TraesCS2B01G216300 chr5D 83.556 225 28 4 2241 2458 488187422 488187200 7.020000e-48 202.0
29 TraesCS2B01G216300 chr1B 85.084 1066 98 35 2601 3644 20776983 20775957 0.000000e+00 1031.0
30 TraesCS2B01G216300 chr1B 87.830 871 77 21 2794 3644 20803326 20802465 0.000000e+00 994.0
31 TraesCS2B01G216300 chr1B 84.000 225 27 5 2241 2458 20803720 20803498 1.510000e-49 207.0
32 TraesCS2B01G216300 chr6D 87.701 870 74 22 2795 3644 79935881 79936737 0.000000e+00 983.0
33 TraesCS2B01G216300 chr1D 92.500 40 3 0 3764 3803 360363527 360363488 1.610000e-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 TraesCS2B01G216300 chr2B 202153988 202158126 4138 True 7644.0 7644 100.0000 1 4139 1 chr2B.!!$R1 4138
1 TraesCS2B01G216300 chr2D 143891774 143895152 3378 True 4848.0 4848 92.7670 787 4139 1 chr2D.!!$R1 3352
2 TraesCS2B01G216300 chr2D 623403519 623404544 1025 True 1125.0 1125 86.6540 2601 3644 1 chr2D.!!$R2 1043
3 TraesCS2B01G216300 chr2A 157534520 157537636 3116 False 1943.5 3395 91.1620 1029 4139 2 chr2A.!!$F2 3110
4 TraesCS2B01G216300 chr2A 81460064 81461168 1104 False 1218.0 1218 86.7360 2520 3645 1 chr2A.!!$F1 1125
5 TraesCS2B01G216300 chr2A 43916675 43917515 840 True 981.0 981 88.0280 2813 3645 1 chr2A.!!$R1 832
6 TraesCS2B01G216300 chr2A 765403455 765405471 2016 False 367.5 592 87.4480 2241 3225 2 chr2A.!!$F3 984
7 TraesCS2B01G216300 chr5A 450227722 450228510 788 True 1391.0 1391 98.4790 1 789 1 chr5A.!!$R1 788
8 TraesCS2B01G216300 chr5B 308982575 308983363 788 True 1378.0 1378 98.2260 1 788 1 chr5B.!!$R1 787
9 TraesCS2B01G216300 chr1A 294436335 294437123 788 True 1269.0 1269 95.7070 1 789 1 chr1A.!!$R1 788
10 TraesCS2B01G216300 chr1A 251368979 251370847 1868 False 291.5 446 86.6835 2241 3075 2 chr1A.!!$F1 834
11 TraesCS2B01G216300 chr1A 540635707 540637574 1867 False 286.0 435 86.5080 2241 3075 2 chr1A.!!$F2 834
12 TraesCS2B01G216300 chr7A 442154849 442155630 781 True 1227.0 1227 94.9170 3 788 1 chr7A.!!$R1 785
13 TraesCS2B01G216300 chr7A 1877127 1878931 1804 True 291.5 446 86.6835 2241 3075 2 chr7A.!!$R2 834
14 TraesCS2B01G216300 chr4B 187301776 187302553 777 True 1212.0 1212 94.7500 8 788 1 chr4B.!!$R1 780
15 TraesCS2B01G216300 chr3B 641367979 641368759 780 True 1212.0 1212 94.6360 7 789 1 chr3B.!!$R1 782
16 TraesCS2B01G216300 chr3A 457512169 457512949 780 False 1195.0 1195 94.2530 8 790 1 chr3A.!!$F1 782
17 TraesCS2B01G216300 chr6B 626712820 626713599 779 True 1182.0 1182 93.9900 8 789 1 chr6B.!!$R1 781
18 TraesCS2B01G216300 chr6B 139400007 139400796 789 False 1170.0 1170 93.4510 1 788 1 chr6B.!!$F2 787
19 TraesCS2B01G216300 chr5D 488186134 488187422 1288 True 651.5 1101 84.9105 2241 3644 2 chr5D.!!$R1 1403
20 TraesCS2B01G216300 chr1B 20775957 20776983 1026 True 1031.0 1031 85.0840 2601 3644 1 chr1B.!!$R1 1043
21 TraesCS2B01G216300 chr1B 20802465 20803720 1255 True 600.5 994 85.9150 2241 3644 2 chr1B.!!$R2 1403
22 TraesCS2B01G216300 chr6D 79935881 79936737 856 False 983.0 983 87.7010 2795 3644 1 chr6D.!!$F1 849

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
948 956 0.172352 CAACCACCAACACACCACAC 59.828 55.0 0.0 0.0 0.0 3.82 F
1422 1446 0.250038 CCGCCGTGGATCTGAATGAT 60.250 55.0 0.0 0.0 42.0 2.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2737 3928 0.396417 TCTGAGCTGTAGGGGAGAGC 60.396 60.0 0.0 0.0 44.92 4.09 R
3157 4420 0.459237 CCTAGCCAAGCTCGTGACTG 60.459 60.0 0.0 0.0 40.44 3.51 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
709 717 5.700832 GTGTGTCTGTATGAAATTGACCTGA 59.299 40.000 0.00 0.00 0.00 3.86
811 819 2.267961 GCTCCCCATTCCGTCGTT 59.732 61.111 0.00 0.00 0.00 3.85
844 852 1.340248 CGTAGTGGGTGAACTGTGTCT 59.660 52.381 0.00 0.00 0.00 3.41
885 893 3.404224 ACGTCTCTCTGTGACTCTGTA 57.596 47.619 0.00 0.00 32.70 2.74
886 894 3.331150 ACGTCTCTCTGTGACTCTGTAG 58.669 50.000 0.00 0.00 32.70 2.74
887 895 3.244284 ACGTCTCTCTGTGACTCTGTAGT 60.244 47.826 0.00 0.00 39.21 2.73
888 896 3.124466 CGTCTCTCTGTGACTCTGTAGTG 59.876 52.174 0.00 0.00 35.56 2.74
889 897 3.438781 GTCTCTCTGTGACTCTGTAGTGG 59.561 52.174 0.00 0.00 35.56 4.00
909 917 1.064979 GGTGTACACATTGGTAGGGGG 60.065 57.143 26.51 0.00 0.00 5.40
945 953 1.380515 CCCAACCACCAACACACCA 60.381 57.895 0.00 0.00 0.00 4.17
946 954 1.671901 CCCAACCACCAACACACCAC 61.672 60.000 0.00 0.00 0.00 4.16
947 955 0.967887 CCAACCACCAACACACCACA 60.968 55.000 0.00 0.00 0.00 4.17
948 956 0.172352 CAACCACCAACACACCACAC 59.828 55.000 0.00 0.00 0.00 3.82
949 957 0.968393 AACCACCAACACACCACACC 60.968 55.000 0.00 0.00 0.00 4.16
950 958 1.379176 CCACCAACACACCACACCA 60.379 57.895 0.00 0.00 0.00 4.17
1302 1326 4.521062 ATGCTCGAGCTGTCCCGC 62.521 66.667 35.27 10.52 42.66 6.13
1419 1443 2.203070 GCCGCCGTGGATCTGAAT 60.203 61.111 0.88 0.00 42.00 2.57
1422 1446 0.250038 CCGCCGTGGATCTGAATGAT 60.250 55.000 0.00 0.00 42.00 2.45
1446 1470 1.227674 GTCCATGGATCTGTCGGCC 60.228 63.158 19.62 0.00 0.00 6.13
1830 1854 2.722201 GGGCATCGAGGAGAACCGT 61.722 63.158 0.00 0.00 41.83 4.83
2317 2343 4.518278 TCCCCTTGCAAATCTTATGCTA 57.482 40.909 0.00 0.00 44.14 3.49
2324 2350 7.550196 CCCTTGCAAATCTTATGCTAAAATTGT 59.450 33.333 0.00 0.00 44.14 2.71
2435 3595 3.809832 ACTGTCATTGTACTGAACAGTGC 59.190 43.478 16.37 15.28 43.56 4.40
2589 3750 2.172851 AGACCCAAATCAACGCGTAA 57.827 45.000 14.46 3.98 0.00 3.18
2599 3783 2.330286 TCAACGCGTAATTCGTCATGT 58.670 42.857 14.46 0.00 39.48 3.21
2640 3824 5.992217 GGTGTTGACTTGTAGATTCAGTTCT 59.008 40.000 0.00 0.00 0.00 3.01
2642 3826 6.926272 GTGTTGACTTGTAGATTCAGTTCTCT 59.074 38.462 0.00 0.00 0.00 3.10
2677 3861 7.698836 ATGCACTTGTTTAATTTCACACTTC 57.301 32.000 0.00 0.00 0.00 3.01
2692 3883 5.839621 TCACACTTCTTAAGTACAGTCCAC 58.160 41.667 1.63 0.00 40.46 4.02
2693 3884 5.361571 TCACACTTCTTAAGTACAGTCCACA 59.638 40.000 1.63 0.00 40.46 4.17
2694 3885 5.692204 CACACTTCTTAAGTACAGTCCACAG 59.308 44.000 1.63 0.00 40.46 3.66
2695 3886 5.363005 ACACTTCTTAAGTACAGTCCACAGT 59.637 40.000 1.63 0.00 40.46 3.55
2696 3887 5.921408 CACTTCTTAAGTACAGTCCACAGTC 59.079 44.000 1.63 0.00 40.46 3.51
2697 3888 5.010820 ACTTCTTAAGTACAGTCCACAGTCC 59.989 44.000 1.63 0.00 40.69 3.85
2698 3889 4.476297 TCTTAAGTACAGTCCACAGTCCA 58.524 43.478 1.63 0.00 0.00 4.02
2699 3890 4.897076 TCTTAAGTACAGTCCACAGTCCAA 59.103 41.667 1.63 0.00 0.00 3.53
2736 3927 2.159028 GGAAGTACAGGAGGATGAGTGC 60.159 54.545 0.00 0.00 0.00 4.40
2737 3928 1.107114 AGTACAGGAGGATGAGTGCG 58.893 55.000 0.00 0.00 0.00 5.34
2743 3941 1.067250 GAGGATGAGTGCGCTCTCC 59.933 63.158 30.45 26.13 42.13 3.71
2751 3949 3.461773 TGCGCTCTCCCCTACAGC 61.462 66.667 9.73 0.00 0.00 4.40
2786 3984 5.751586 TCCAGGTCAAAACTACAGTTCTTT 58.248 37.500 0.00 0.00 37.25 2.52
2787 3985 6.184789 TCCAGGTCAAAACTACAGTTCTTTT 58.815 36.000 0.00 0.00 37.25 2.27
2788 3986 6.094881 TCCAGGTCAAAACTACAGTTCTTTTG 59.905 38.462 8.26 8.26 37.25 2.44
2789 3987 5.743872 CAGGTCAAAACTACAGTTCTTTTGC 59.256 40.000 9.22 6.16 37.25 3.68
2881 4104 2.879103 TTCCCACTGAAATCTCCCAC 57.121 50.000 0.00 0.00 0.00 4.61
2883 4106 1.630369 TCCCACTGAAATCTCCCACTG 59.370 52.381 0.00 0.00 0.00 3.66
2884 4107 1.630369 CCCACTGAAATCTCCCACTGA 59.370 52.381 0.00 0.00 0.00 3.41
2886 4109 3.498481 CCCACTGAAATCTCCCACTGAAA 60.498 47.826 0.00 0.00 0.00 2.69
2887 4110 3.503748 CCACTGAAATCTCCCACTGAAAC 59.496 47.826 0.00 0.00 0.00 2.78
2888 4111 4.392940 CACTGAAATCTCCCACTGAAACT 58.607 43.478 0.00 0.00 0.00 2.66
2890 4113 5.997746 CACTGAAATCTCCCACTGAAACTTA 59.002 40.000 0.00 0.00 0.00 2.24
2891 4114 6.486657 CACTGAAATCTCCCACTGAAACTTAA 59.513 38.462 0.00 0.00 0.00 1.85
2893 4116 7.013369 ACTGAAATCTCCCACTGAAACTTAAAC 59.987 37.037 0.00 0.00 0.00 2.01
2896 4129 7.898014 AATCTCCCACTGAAACTTAAACTTT 57.102 32.000 0.00 0.00 0.00 2.66
2926 4161 6.656632 AGAGTCTGTCTACTTTGTCATGAA 57.343 37.500 0.00 0.00 31.71 2.57
2927 4162 6.451393 AGAGTCTGTCTACTTTGTCATGAAC 58.549 40.000 0.00 0.00 31.71 3.18
2928 4163 6.266558 AGAGTCTGTCTACTTTGTCATGAACT 59.733 38.462 0.00 0.00 31.71 3.01
2932 4167 7.539366 GTCTGTCTACTTTGTCATGAACTAGTC 59.461 40.741 0.00 0.00 0.00 2.59
2933 4168 7.448777 TCTGTCTACTTTGTCATGAACTAGTCT 59.551 37.037 0.00 0.00 0.00 3.24
2934 4169 7.371159 TGTCTACTTTGTCATGAACTAGTCTG 58.629 38.462 0.00 0.00 0.00 3.51
2935 4170 7.230712 TGTCTACTTTGTCATGAACTAGTCTGA 59.769 37.037 0.00 0.00 0.00 3.27
2950 4212 5.782845 ACTAGTCTGACAAAAAGAGGGATCT 59.217 40.000 10.88 0.00 0.00 2.75
2954 4216 4.594920 TCTGACAAAAAGAGGGATCTCACT 59.405 41.667 0.00 0.00 42.34 3.41
2968 4230 1.001764 TCACTCCATGCCTGCCTTG 60.002 57.895 0.00 0.00 0.00 3.61
3004 4266 3.748048 TCAAGCTGAAAATCGTTCCTGAG 59.252 43.478 0.00 0.00 0.00 3.35
3045 4308 0.675633 AGTTGTGTGATTTGCAGGCC 59.324 50.000 0.00 0.00 0.00 5.19
3051 4314 0.674895 GTGATTTGCAGGCCGAGACT 60.675 55.000 0.00 0.00 0.00 3.24
3142 4405 1.394618 GAGTATGGCTCGGTGACTCT 58.605 55.000 0.00 0.00 34.88 3.24
3143 4406 1.751924 GAGTATGGCTCGGTGACTCTT 59.248 52.381 0.00 0.00 34.88 2.85
3157 4420 1.291877 ACTCTTTGGTCATGCGACGC 61.292 55.000 14.19 14.19 43.61 5.19
3239 4503 2.199236 GTTTGTCTTTCACCTCGTCGT 58.801 47.619 0.00 0.00 0.00 4.34
3282 4547 2.287909 CGAGAACAGAGCAGCCCTATAC 60.288 54.545 0.00 0.00 0.00 1.47
3377 4647 0.109086 CGACTGCGAGTGATGGAAGT 60.109 55.000 0.00 0.00 40.82 3.01
3406 4676 2.744202 GCTGGTCACTAACATCAGTTGG 59.256 50.000 0.00 0.00 41.49 3.77
3675 4959 1.194781 TCTCCTGCTCCAGTTGGTCC 61.195 60.000 0.00 0.00 36.34 4.46
3706 4990 2.169832 TTTGTAGCTCAGGCACTCAC 57.830 50.000 0.00 0.00 41.70 3.51
3719 5003 2.884639 GGCACTCACACCATTTAACACT 59.115 45.455 0.00 0.00 0.00 3.55
3726 5010 6.643770 ACTCACACCATTTAACACTTACTACG 59.356 38.462 0.00 0.00 0.00 3.51
3835 5119 4.719711 ACCCATATGGAAGCTGCTGCTC 62.720 54.545 24.00 11.75 43.11 4.26
3890 5175 3.007831 TGGTCATGATCACTAACACAGCA 59.992 43.478 4.01 0.00 0.00 4.41
3895 5180 3.925379 TGATCACTAACACAGCAATCGT 58.075 40.909 0.00 0.00 0.00 3.73
3921 5206 2.950975 CAATGCATGCCAGTGTGGTATA 59.049 45.455 16.68 0.00 41.03 1.47
3950 5235 5.403466 GGTTGCACTCAAGAATTCATTCAAC 59.597 40.000 8.44 10.54 39.23 3.18
3960 5245 8.579006 TCAAGAATTCATTCAACATTAAGCTGT 58.421 29.630 8.44 0.00 39.23 4.40
3979 5264 4.428209 CTGTCTGGCTGTCATAACTAGTG 58.572 47.826 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
556 563 1.962822 CAGGCAGCAAAGCAGTCGA 60.963 57.895 0.00 0.00 35.83 4.20
825 833 2.755650 CAGACACAGTTCACCCACTAC 58.244 52.381 0.00 0.00 0.00 2.73
885 893 2.304761 CCTACCAATGTGTACACCCACT 59.695 50.000 22.91 2.79 36.30 4.00
886 894 2.617021 CCCTACCAATGTGTACACCCAC 60.617 54.545 22.91 0.00 35.86 4.61
887 895 1.631388 CCCTACCAATGTGTACACCCA 59.369 52.381 22.91 6.07 0.00 4.51
888 896 1.064979 CCCCTACCAATGTGTACACCC 60.065 57.143 22.91 0.00 0.00 4.61
889 897 1.064979 CCCCCTACCAATGTGTACACC 60.065 57.143 22.91 6.06 0.00 4.16
909 917 2.424733 GCTGGGAGACGTCCTACCC 61.425 68.421 26.13 26.13 46.01 3.69
910 918 2.424733 GGCTGGGAGACGTCCTACC 61.425 68.421 13.01 12.65 46.81 3.18
911 919 2.424733 GGGCTGGGAGACGTCCTAC 61.425 68.421 13.01 4.16 43.36 3.18
918 926 2.034221 GTGGTTGGGCTGGGAGAC 59.966 66.667 0.00 0.00 0.00 3.36
945 953 0.475632 TGATGAAGGGAGGGTGGTGT 60.476 55.000 0.00 0.00 0.00 4.16
946 954 0.921896 ATGATGAAGGGAGGGTGGTG 59.078 55.000 0.00 0.00 0.00 4.17
947 955 1.216990 GATGATGAAGGGAGGGTGGT 58.783 55.000 0.00 0.00 0.00 4.16
948 956 1.133976 GTGATGATGAAGGGAGGGTGG 60.134 57.143 0.00 0.00 0.00 4.61
949 957 1.842562 AGTGATGATGAAGGGAGGGTG 59.157 52.381 0.00 0.00 0.00 4.61
950 958 2.122768 GAGTGATGATGAAGGGAGGGT 58.877 52.381 0.00 0.00 0.00 4.34
1302 1326 1.666700 CTGGAGTAGTCGGAGAAGTCG 59.333 57.143 0.00 0.00 39.69 4.18
1419 1443 2.889678 CAGATCCATGGACTCGAGATCA 59.110 50.000 18.99 16.41 36.61 2.92
1422 1446 2.302260 GACAGATCCATGGACTCGAGA 58.698 52.381 18.99 0.00 0.00 4.04
1572 1596 3.449227 AGCTCGCGGATGTCGGAA 61.449 61.111 6.13 0.00 39.69 4.30
1807 1831 1.254975 TTCTCCTCGATGCCCGACAA 61.255 55.000 0.00 0.00 43.23 3.18
2115 2139 2.122167 GCCGTCCTCGATGGTCTCT 61.122 63.158 2.02 0.00 40.59 3.10
2208 2232 2.184579 GCCCCTTCTCGAACGAGG 59.815 66.667 21.17 9.21 42.20 4.63
2238 2262 1.300931 GGACTGTGAGAGCGCAACA 60.301 57.895 11.47 7.64 33.47 3.33
2486 3646 7.191593 ACCGGTCCAGAGTTAATATACTTTT 57.808 36.000 0.00 0.00 0.00 2.27
2490 3650 7.516198 TTCTACCGGTCCAGAGTTAATATAC 57.484 40.000 12.40 0.00 0.00 1.47
2589 3750 6.477033 GCTTGATCAGTACTAACATGACGAAT 59.523 38.462 0.00 0.00 0.00 3.34
2599 3783 5.011635 TCAACACCTGCTTGATCAGTACTAA 59.988 40.000 0.00 0.00 32.32 2.24
2640 3824 3.195610 ACAAGTGCATATCTCGACCAAGA 59.804 43.478 0.00 0.00 0.00 3.02
2642 3826 3.610040 ACAAGTGCATATCTCGACCAA 57.390 42.857 0.00 0.00 0.00 3.67
2677 3861 4.866508 TGGACTGTGGACTGTACTTAAG 57.133 45.455 0.00 0.00 30.86 1.85
2692 3883 4.213564 AGGTTTAGCAGATCTTGGACTG 57.786 45.455 0.00 0.00 37.22 3.51
2693 3884 4.583871 CAAGGTTTAGCAGATCTTGGACT 58.416 43.478 0.00 0.00 33.32 3.85
2694 3885 4.954092 CAAGGTTTAGCAGATCTTGGAC 57.046 45.455 0.00 0.00 33.32 4.02
2697 3888 5.006386 ACTTCCAAGGTTTAGCAGATCTTG 58.994 41.667 0.00 0.00 35.80 3.02
2698 3889 5.248380 ACTTCCAAGGTTTAGCAGATCTT 57.752 39.130 0.00 0.00 0.00 2.40
2699 3890 4.917906 ACTTCCAAGGTTTAGCAGATCT 57.082 40.909 0.00 0.00 0.00 2.75
2737 3928 0.396417 TCTGAGCTGTAGGGGAGAGC 60.396 60.000 0.00 0.00 44.92 4.09
2743 3941 1.398958 GGCCTCTCTGAGCTGTAGGG 61.399 65.000 10.97 0.00 0.00 3.53
2751 3949 1.001503 ACCTGGAGGCCTCTCTGAG 59.998 63.158 31.36 20.27 39.86 3.35
2875 4098 5.281727 GCAAAGTTTAAGTTTCAGTGGGAG 58.718 41.667 0.00 0.00 0.00 4.30
2876 4099 4.098807 GGCAAAGTTTAAGTTTCAGTGGGA 59.901 41.667 0.00 0.00 0.00 4.37
2877 4100 4.142049 TGGCAAAGTTTAAGTTTCAGTGGG 60.142 41.667 0.00 0.00 0.00 4.61
2879 4102 5.650543 AGTGGCAAAGTTTAAGTTTCAGTG 58.349 37.500 0.00 0.00 0.00 3.66
2880 4103 5.914898 AGTGGCAAAGTTTAAGTTTCAGT 57.085 34.783 0.00 0.00 0.00 3.41
2881 4104 7.012421 ACTCTAGTGGCAAAGTTTAAGTTTCAG 59.988 37.037 0.00 0.00 0.00 3.02
2883 4106 7.226918 AGACTCTAGTGGCAAAGTTTAAGTTTC 59.773 37.037 0.00 0.00 0.00 2.78
2884 4107 7.012421 CAGACTCTAGTGGCAAAGTTTAAGTTT 59.988 37.037 0.00 0.00 0.00 2.66
2886 4109 5.992217 CAGACTCTAGTGGCAAAGTTTAAGT 59.008 40.000 0.00 0.00 0.00 2.24
2887 4110 5.992217 ACAGACTCTAGTGGCAAAGTTTAAG 59.008 40.000 0.00 0.00 0.00 1.85
2888 4111 5.925509 ACAGACTCTAGTGGCAAAGTTTAA 58.074 37.500 0.00 0.00 0.00 1.52
2890 4113 4.101741 AGACAGACTCTAGTGGCAAAGTTT 59.898 41.667 0.00 0.00 0.00 2.66
2891 4114 3.643792 AGACAGACTCTAGTGGCAAAGTT 59.356 43.478 0.00 0.00 0.00 2.66
2893 4116 3.951775 AGACAGACTCTAGTGGCAAAG 57.048 47.619 0.00 0.00 0.00 2.77
2896 4129 3.722908 AGTAGACAGACTCTAGTGGCA 57.277 47.619 0.00 0.00 34.29 4.92
2926 4161 5.782845 AGATCCCTCTTTTTGTCAGACTAGT 59.217 40.000 0.00 0.00 0.00 2.57
2927 4162 6.071108 TGAGATCCCTCTTTTTGTCAGACTAG 60.071 42.308 1.31 0.00 40.10 2.57
2928 4163 5.780282 TGAGATCCCTCTTTTTGTCAGACTA 59.220 40.000 1.31 0.00 40.10 2.59
2932 4167 4.904241 AGTGAGATCCCTCTTTTTGTCAG 58.096 43.478 0.00 0.00 40.10 3.51
2933 4168 4.263068 GGAGTGAGATCCCTCTTTTTGTCA 60.263 45.833 0.00 0.00 40.10 3.58
2934 4169 4.257731 GGAGTGAGATCCCTCTTTTTGTC 58.742 47.826 0.00 0.00 40.10 3.18
2935 4170 3.652869 TGGAGTGAGATCCCTCTTTTTGT 59.347 43.478 0.00 0.00 40.10 2.83
2950 4212 1.001764 CAAGGCAGGCATGGAGTGA 60.002 57.895 0.00 0.00 0.00 3.41
2954 4216 2.530460 AAATACAAGGCAGGCATGGA 57.470 45.000 0.00 0.00 0.00 3.41
2960 4222 7.333528 TGAGCTAAATTAAATACAAGGCAGG 57.666 36.000 0.00 0.00 0.00 4.85
3004 4266 5.648092 ACTGAACATATAAGTGGCTTGGAAC 59.352 40.000 0.00 0.00 0.00 3.62
3045 4308 3.368236 GCAAGTAACCTAGCAAAGTCTCG 59.632 47.826 0.00 0.00 0.00 4.04
3126 4389 1.207089 CCAAAGAGTCACCGAGCCATA 59.793 52.381 0.00 0.00 0.00 2.74
3140 4403 1.291184 CTGCGTCGCATGACCAAAGA 61.291 55.000 22.03 0.00 42.37 2.52
3142 4405 1.565156 GACTGCGTCGCATGACCAAA 61.565 55.000 22.03 0.00 42.37 3.28
3143 4406 2.027073 GACTGCGTCGCATGACCAA 61.027 57.895 22.03 0.00 42.37 3.67
3157 4420 0.459237 CCTAGCCAAGCTCGTGACTG 60.459 60.000 0.00 0.00 40.44 3.51
3239 4503 1.404181 CGCCCGAATCAAGAACAGAGA 60.404 52.381 0.00 0.00 0.00 3.10
3282 4547 4.687215 ATCATCGCGCCCCATCCG 62.687 66.667 0.00 0.00 0.00 4.18
3377 4647 4.901197 TGTTAGTGACCAGCCATCTAAA 57.099 40.909 0.00 0.00 0.00 1.85
3406 4676 2.334023 AGATAACCTGGATGCTCCTCC 58.666 52.381 0.00 0.00 37.46 4.30
3501 4776 2.373836 AGCCGGCATTACCATATTACCA 59.626 45.455 31.54 0.00 39.03 3.25
3639 4920 3.320826 AGGAGAAACCGGGAAACATTTTG 59.679 43.478 6.32 0.00 44.74 2.44
3675 4959 3.737266 TGAGCTACAAAACGGTAGAAACG 59.263 43.478 4.63 0.00 42.68 3.60
3706 4990 6.161381 AGGTCGTAGTAAGTGTTAAATGGTG 58.839 40.000 0.00 0.00 0.00 4.17
3855 5139 0.253044 ATGACCACACCGCAGCTATT 59.747 50.000 0.00 0.00 0.00 1.73
3890 5175 1.135024 GGCATGCATTGGTTCACGATT 60.135 47.619 21.36 0.00 0.00 3.34
3895 5180 0.604073 CACTGGCATGCATTGGTTCA 59.396 50.000 21.36 5.16 0.00 3.18
3921 5206 2.363306 TTCTTGAGTGCAACCATGGT 57.637 45.000 13.00 13.00 37.80 3.55
3950 5235 2.703416 TGACAGCCAGACAGCTTAATG 58.297 47.619 0.00 0.00 42.61 1.90
3960 5245 2.766263 CCCACTAGTTATGACAGCCAGA 59.234 50.000 0.00 0.00 0.00 3.86
4014 5300 1.476891 GCATCAGGAACCAGTAGTCGA 59.523 52.381 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.