Multiple sequence alignment - TraesCS6B01G397500

Loading Multiple Alignment...

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 TraesCS6B01G397500 chr6B 100.000 4109 0 0 1 4109 673014620 673018728 0.000000e+00 7589.0
1 TraesCS6B01G397500 chr6B 95.783 664 26 1 3448 4109 545324594 545325257 0.000000e+00 1070.0
2 TraesCS6B01G397500 chr6B 95.783 664 26 1 3448 4109 673003542 673004205 0.000000e+00 1070.0
3 TraesCS6B01G397500 chr6B 77.908 765 111 38 126 852 59735568 59734824 1.370000e-114 424.0
4 TraesCS6B01G397500 chr6B 77.204 658 113 26 123 767 662109081 662108448 2.350000e-92 350.0
5 TraesCS6B01G397500 chr6B 100.000 125 0 0 1 125 673003424 673003548 8.880000e-57 231.0
6 TraesCS6B01G397500 chr6B 99.206 126 1 0 1 126 17757036 17756911 1.150000e-55 228.0
7 TraesCS6B01G397500 chr6B 95.833 48 2 0 125 172 61808040 61808087 1.220000e-10 78.7
8 TraesCS6B01G397500 chr1A 97.411 1622 38 3 126 1744 382098048 382099668 0.000000e+00 2760.0
9 TraesCS6B01G397500 chr1A 97.543 1465 27 4 1742 3204 382100262 382101719 0.000000e+00 2497.0
10 TraesCS6B01G397500 chr1A 95.861 918 30 3 831 1744 462342251 462343164 0.000000e+00 1478.0
11 TraesCS6B01G397500 chr1A 91.818 660 46 4 1745 2397 462343867 462344525 0.000000e+00 913.0
12 TraesCS6B01G397500 chr1A 97.417 271 5 2 3183 3451 382101759 382102029 1.040000e-125 460.0
13 TraesCS6B01G397500 chr1A 78.255 768 109 33 126 855 329177840 329178587 1.360000e-119 440.0
14 TraesCS6B01G397500 chr1A 79.504 605 76 31 166 748 34158515 34159093 1.790000e-103 387.0
15 TraesCS6B01G397500 chr1A 83.125 160 23 4 126 283 562448339 562448182 4.280000e-30 143.0
16 TraesCS6B01G397500 chr1D 96.514 918 25 3 831 1744 327011836 327012750 0.000000e+00 1511.0
17 TraesCS6B01G397500 chr1D 95.545 808 33 3 2398 3204 327013902 327014707 0.000000e+00 1290.0
18 TraesCS6B01G397500 chr1D 93.727 271 15 2 3183 3451 327014747 327015017 4.950000e-109 405.0
19 TraesCS6B01G397500 chr5A 95.752 918 30 4 831 1744 354272990 354273902 0.000000e+00 1471.0
20 TraesCS6B01G397500 chr5A 95.783 664 25 2 3448 4109 643349795 643350457 0.000000e+00 1068.0
21 TraesCS6B01G397500 chr5A 90.382 811 71 4 2401 3211 354275336 354276139 0.000000e+00 1059.0
22 TraesCS6B01G397500 chr5A 90.923 661 48 8 1745 2397 354274604 354275260 0.000000e+00 878.0
23 TraesCS6B01G397500 chr4D 95.207 918 35 5 831 1744 349940615 349941527 0.000000e+00 1443.0
24 TraesCS6B01G397500 chr4D 90.875 811 72 2 2401 3211 79009917 79010725 0.000000e+00 1086.0
25 TraesCS6B01G397500 chr4D 92.018 664 43 6 1742 2397 349959034 349959695 0.000000e+00 924.0
26 TraesCS6B01G397500 chr4D 90.396 656 53 6 1750 2397 79009188 79009841 0.000000e+00 854.0
27 TraesCS6B01G397500 chr5B 95.539 807 33 2 2400 3204 524503126 524503931 0.000000e+00 1288.0
28 TraesCS6B01G397500 chr5B 92.889 886 60 3 860 1744 345809674 345810557 0.000000e+00 1284.0
29 TraesCS6B01G397500 chr5B 96.515 660 21 1 3452 4109 681089987 681089328 0.000000e+00 1090.0
30 TraesCS6B01G397500 chr5B 91.114 664 49 6 1742 2397 524502390 524503051 0.000000e+00 891.0
31 TraesCS6B01G397500 chr5B 78.023 769 110 36 126 855 710172598 710173346 2.930000e-116 429.0
32 TraesCS6B01G397500 chr4B 93.010 887 53 8 860 1744 2733204 2732325 0.000000e+00 1286.0
33 TraesCS6B01G397500 chr4B 94.919 807 39 2 2398 3204 11609814 11610618 0.000000e+00 1262.0
34 TraesCS6B01G397500 chr4B 95.783 664 26 1 3448 4109 349597247 349597910 0.000000e+00 1070.0
35 TraesCS6B01G397500 chr4B 90.363 633 54 3 1742 2367 11609183 11609815 0.000000e+00 824.0
36 TraesCS6B01G397500 chr4B 83.519 540 50 17 499 1009 94946604 94947133 6.220000e-128 468.0
37 TraesCS6B01G397500 chr4B 92.620 271 18 2 3183 3451 11610655 11610925 4.980000e-104 388.0
38 TraesCS6B01G397500 chr7A 92.905 888 56 7 860 1744 606191920 606192803 0.000000e+00 1284.0
39 TraesCS6B01G397500 chr7A 78.882 161 28 6 120 277 662414391 662414548 2.020000e-18 104.0
40 TraesCS6B01G397500 chr2A 92.897 887 57 6 860 1744 572843154 572844036 0.000000e+00 1284.0
41 TraesCS6B01G397500 chr2A 90.050 794 73 4 2398 3190 779702862 779703650 0.000000e+00 1024.0
42 TraesCS6B01G397500 chr7B 93.035 804 52 4 2402 3204 88977538 88976738 0.000000e+00 1171.0
43 TraesCS6B01G397500 chr7B 86.826 668 73 6 1742 2397 88978279 88977615 0.000000e+00 732.0
44 TraesCS6B01G397500 chr2B 96.067 661 24 1 3451 4109 785937296 785936636 0.000000e+00 1075.0
45 TraesCS6B01G397500 chr2B 81.818 154 25 3 126 278 795095978 795096129 4.310000e-25 126.0
46 TraesCS6B01G397500 chr3B 95.783 664 26 1 3448 4109 29508817 29509480 0.000000e+00 1070.0
47 TraesCS6B01G397500 chr3B 80.645 155 25 5 126 278 242294469 242294318 9.330000e-22 115.0
48 TraesCS6B01G397500 chr5D 95.633 664 27 1 3448 4109 424071338 424072001 0.000000e+00 1064.0
49 TraesCS6B01G397500 chr5D 93.554 605 33 2 163 762 182935894 182936497 0.000000e+00 896.0
50 TraesCS6B01G397500 chr5D 94.096 271 14 2 3183 3451 47010489 47010759 1.060000e-110 411.0
51 TraesCS6B01G397500 chr5D 99.200 125 1 0 1 125 447843019 447843143 4.130000e-55 226.0
52 TraesCS6B01G397500 chr1B 95.633 664 27 1 3448 4109 435136931 435137594 0.000000e+00 1064.0
53 TraesCS6B01G397500 chrUn 90.050 794 73 4 2398 3190 352325314 352326102 0.000000e+00 1024.0
54 TraesCS6B01G397500 chrUn 99.200 125 1 0 1 125 310181859 310181983 4.130000e-55 226.0
55 TraesCS6B01G397500 chrUn 99.200 125 1 0 1 125 311417333 311417457 4.130000e-55 226.0
56 TraesCS6B01G397500 chrUn 99.200 125 1 0 1 125 349143787 349143663 4.130000e-55 226.0
57 TraesCS6B01G397500 chrUn 99.200 125 1 0 1 125 442104010 442104134 4.130000e-55 226.0
58 TraesCS6B01G397500 chr6D 91.483 634 46 4 1771 2397 208550450 208549818 0.000000e+00 865.0
59 TraesCS6B01G397500 chr6D 93.727 271 15 2 3183 3451 143474640 143474910 4.950000e-109 405.0
60 TraesCS6B01G397500 chr6D 90.545 275 23 3 3183 3455 437344647 437344374 1.090000e-95 361.0
61 TraesCS6B01G397500 chr6D 99.200 125 1 0 1 125 56337754 56337878 4.130000e-55 226.0
62 TraesCS6B01G397500 chr2D 94.570 442 20 2 324 762 407209787 407209347 0.000000e+00 680.0
63 TraesCS6B01G397500 chr2D 93.605 172 10 1 140 311 407210675 407210505 5.270000e-64 255.0
64 TraesCS6B01G397500 chr6A 78.182 770 110 33 124 855 569693990 569694739 4.880000e-119 438.0
65 TraesCS6B01G397500 chr6A 91.321 265 21 2 3183 3445 585576798 585576534 1.090000e-95 361.0
66 TraesCS6B01G397500 chr6A 88.525 122 12 2 126 246 26484969 26485089 3.310000e-31 147.0
67 TraesCS6B01G397500 chr7D 78.141 796 98 44 126 877 3671945 3671182 1.750000e-118 436.0
68 TraesCS6B01G397500 chr3D 92.989 271 17 2 3183 3451 91381478 91381208 1.070000e-105 394.0
69 TraesCS6B01G397500 chr4A 89.299 271 27 2 3183 3451 340511538 340511808 5.090000e-89 339.0
70 TraesCS6B01G397500 chr4A 100.000 125 0 0 1 125 651830614 651830738 8.880000e-57 231.0


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 TraesCS6B01G397500 chr6B 673014620 673018728 4108 False 7589.000000 7589 100.000000 1 4109 1 chr6B.!!$F3 4108
1 TraesCS6B01G397500 chr6B 545324594 545325257 663 False 1070.000000 1070 95.783000 3448 4109 1 chr6B.!!$F2 661
2 TraesCS6B01G397500 chr6B 673003424 673004205 781 False 650.500000 1070 97.891500 1 4109 2 chr6B.!!$F4 4108
3 TraesCS6B01G397500 chr6B 59734824 59735568 744 True 424.000000 424 77.908000 126 852 1 chr6B.!!$R2 726
4 TraesCS6B01G397500 chr6B 662108448 662109081 633 True 350.000000 350 77.204000 123 767 1 chr6B.!!$R3 644
5 TraesCS6B01G397500 chr1A 382098048 382102029 3981 False 1905.666667 2760 97.457000 126 3451 3 chr1A.!!$F3 3325
6 TraesCS6B01G397500 chr1A 462342251 462344525 2274 False 1195.500000 1478 93.839500 831 2397 2 chr1A.!!$F4 1566
7 TraesCS6B01G397500 chr1A 329177840 329178587 747 False 440.000000 440 78.255000 126 855 1 chr1A.!!$F2 729
8 TraesCS6B01G397500 chr1A 34158515 34159093 578 False 387.000000 387 79.504000 166 748 1 chr1A.!!$F1 582
9 TraesCS6B01G397500 chr1D 327011836 327015017 3181 False 1068.666667 1511 95.262000 831 3451 3 chr1D.!!$F1 2620
10 TraesCS6B01G397500 chr5A 354272990 354276139 3149 False 1136.000000 1471 92.352333 831 3211 3 chr5A.!!$F2 2380
11 TraesCS6B01G397500 chr5A 643349795 643350457 662 False 1068.000000 1068 95.783000 3448 4109 1 chr5A.!!$F1 661
12 TraesCS6B01G397500 chr4D 349940615 349941527 912 False 1443.000000 1443 95.207000 831 1744 1 chr4D.!!$F1 913
13 TraesCS6B01G397500 chr4D 79009188 79010725 1537 False 970.000000 1086 90.635500 1750 3211 2 chr4D.!!$F3 1461
14 TraesCS6B01G397500 chr4D 349959034 349959695 661 False 924.000000 924 92.018000 1742 2397 1 chr4D.!!$F2 655
15 TraesCS6B01G397500 chr5B 345809674 345810557 883 False 1284.000000 1284 92.889000 860 1744 1 chr5B.!!$F1 884
16 TraesCS6B01G397500 chr5B 681089328 681089987 659 True 1090.000000 1090 96.515000 3452 4109 1 chr5B.!!$R1 657
17 TraesCS6B01G397500 chr5B 524502390 524503931 1541 False 1089.500000 1288 93.326500 1742 3204 2 chr5B.!!$F3 1462
18 TraesCS6B01G397500 chr5B 710172598 710173346 748 False 429.000000 429 78.023000 126 855 1 chr5B.!!$F2 729
19 TraesCS6B01G397500 chr4B 2732325 2733204 879 True 1286.000000 1286 93.010000 860 1744 1 chr4B.!!$R1 884
20 TraesCS6B01G397500 chr4B 349597247 349597910 663 False 1070.000000 1070 95.783000 3448 4109 1 chr4B.!!$F2 661
21 TraesCS6B01G397500 chr4B 11609183 11610925 1742 False 824.666667 1262 92.634000 1742 3451 3 chr4B.!!$F3 1709
22 TraesCS6B01G397500 chr4B 94946604 94947133 529 False 468.000000 468 83.519000 499 1009 1 chr4B.!!$F1 510
23 TraesCS6B01G397500 chr7A 606191920 606192803 883 False 1284.000000 1284 92.905000 860 1744 1 chr7A.!!$F1 884
24 TraesCS6B01G397500 chr2A 572843154 572844036 882 False 1284.000000 1284 92.897000 860 1744 1 chr2A.!!$F1 884
25 TraesCS6B01G397500 chr2A 779702862 779703650 788 False 1024.000000 1024 90.050000 2398 3190 1 chr2A.!!$F2 792
26 TraesCS6B01G397500 chr7B 88976738 88978279 1541 True 951.500000 1171 89.930500 1742 3204 2 chr7B.!!$R1 1462
27 TraesCS6B01G397500 chr2B 785936636 785937296 660 True 1075.000000 1075 96.067000 3451 4109 1 chr2B.!!$R1 658
28 TraesCS6B01G397500 chr3B 29508817 29509480 663 False 1070.000000 1070 95.783000 3448 4109 1 chr3B.!!$F1 661
29 TraesCS6B01G397500 chr5D 424071338 424072001 663 False 1064.000000 1064 95.633000 3448 4109 1 chr5D.!!$F3 661
30 TraesCS6B01G397500 chr5D 182935894 182936497 603 False 896.000000 896 93.554000 163 762 1 chr5D.!!$F2 599
31 TraesCS6B01G397500 chr1B 435136931 435137594 663 False 1064.000000 1064 95.633000 3448 4109 1 chr1B.!!$F1 661
32 TraesCS6B01G397500 chrUn 352325314 352326102 788 False 1024.000000 1024 90.050000 2398 3190 1 chrUn.!!$F3 792
33 TraesCS6B01G397500 chr6D 208549818 208550450 632 True 865.000000 865 91.483000 1771 2397 1 chr6D.!!$R1 626
34 TraesCS6B01G397500 chr2D 407209347 407210675 1328 True 467.500000 680 94.087500 140 762 2 chr2D.!!$R1 622
35 TraesCS6B01G397500 chr6A 569693990 569694739 749 False 438.000000 438 78.182000 124 855 1 chr6A.!!$F2 731
36 TraesCS6B01G397500 chr7D 3671182 3671945 763 True 436.000000 436 78.141000 126 877 1 chr7D.!!$R1 751

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
422 1136 0.679640 CATCCAAACCTAGCCGCCAA 60.680 55.000 0.00 0.0 0.0 4.52 F
1624 2378 1.505807 CAAAATGTGATGGCCGCGA 59.494 52.632 8.23 0.0 0.0 5.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1971 3564 0.712380 AATTCATGACCTTGGGGGCT 59.288 50.000 0.0 0.0 42.43 5.19 R
3261 4997 1.227823 TGAGACGGTGTTTGGCAGG 60.228 57.895 0.0 0.0 0.00 4.85 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
104 105 2.860735 GTCGCTTTGGCTATAGTGACTG 59.139 50.000 21.26 0.00 44.49 3.51
105 106 1.594862 CGCTTTGGCTATAGTGACTGC 59.405 52.381 0.84 0.00 36.09 4.40
106 107 2.632377 GCTTTGGCTATAGTGACTGCA 58.368 47.619 0.84 0.00 35.22 4.41
107 108 3.009723 GCTTTGGCTATAGTGACTGCAA 58.990 45.455 0.84 0.00 35.22 4.08
108 109 3.064545 GCTTTGGCTATAGTGACTGCAAG 59.935 47.826 0.84 0.00 36.06 4.01
109 110 2.315925 TGGCTATAGTGACTGCAAGC 57.684 50.000 0.84 1.10 37.60 4.01
110 111 1.587547 GGCTATAGTGACTGCAAGCC 58.412 55.000 15.64 15.64 42.40 4.35
111 112 1.587547 GCTATAGTGACTGCAAGCCC 58.412 55.000 0.84 0.00 37.60 5.19
112 113 1.139853 GCTATAGTGACTGCAAGCCCT 59.860 52.381 0.84 0.00 37.60 5.19
113 114 2.804933 GCTATAGTGACTGCAAGCCCTC 60.805 54.545 0.84 0.00 37.60 4.30
114 115 1.577736 ATAGTGACTGCAAGCCCTCT 58.422 50.000 0.00 0.00 37.60 3.69
115 116 0.898320 TAGTGACTGCAAGCCCTCTC 59.102 55.000 0.00 0.00 37.60 3.20
116 117 1.376553 GTGACTGCAAGCCCTCTCC 60.377 63.158 0.00 0.00 37.60 3.71
117 118 1.842920 TGACTGCAAGCCCTCTCCA 60.843 57.895 0.00 0.00 37.60 3.86
118 119 1.376466 GACTGCAAGCCCTCTCCAA 59.624 57.895 0.00 0.00 37.60 3.53
119 120 0.957888 GACTGCAAGCCCTCTCCAAC 60.958 60.000 0.00 0.00 37.60 3.77
120 121 1.073722 CTGCAAGCCCTCTCCAACA 59.926 57.895 0.00 0.00 0.00 3.33
121 122 1.228245 TGCAAGCCCTCTCCAACAC 60.228 57.895 0.00 0.00 0.00 3.32
122 123 1.973812 GCAAGCCCTCTCCAACACC 60.974 63.158 0.00 0.00 0.00 4.16
202 203 3.118920 ACCCACTTTTTGCTGTTTGGTAC 60.119 43.478 0.00 0.00 0.00 3.34
277 278 2.107141 CTCGATCGAAGCACCCCC 59.893 66.667 19.92 0.00 0.00 5.40
347 1054 2.535331 CCCCCGACCCACTTTCCTT 61.535 63.158 0.00 0.00 0.00 3.36
351 1058 1.271926 CCCGACCCACTTTCCTTGAAT 60.272 52.381 0.00 0.00 0.00 2.57
422 1136 0.679640 CATCCAAACCTAGCCGCCAA 60.680 55.000 0.00 0.00 0.00 4.52
696 1422 2.286523 CCTGTCCTTCCTGCCTCGT 61.287 63.158 0.00 0.00 0.00 4.18
743 1469 1.604604 GAGCCCTTGTTGCTGTACAA 58.395 50.000 0.00 0.00 39.69 2.41
973 1726 3.869912 GCAACTAATTGTGAGAGGAGCCA 60.870 47.826 0.00 0.00 38.17 4.75
1624 2378 1.505807 CAAAATGTGATGGCCGCGA 59.494 52.632 8.23 0.00 0.00 5.87
1676 2430 3.339093 GGGTTGGGAGGGGTCAGG 61.339 72.222 0.00 0.00 0.00 3.86
1737 2491 3.939066 AGATGGGTTGAAAGTTCCTACG 58.061 45.455 0.00 0.00 0.00 3.51
1801 3306 5.125417 GCTGGAATGTCATTTTTAGGTGCTA 59.875 40.000 0.00 0.00 0.00 3.49
1806 3311 8.131731 GGAATGTCATTTTTAGGTGCTAGAATC 58.868 37.037 0.00 0.00 0.00 2.52
1822 3350 6.654582 TGCTAGAATCTGTTTTTATGTGCTGA 59.345 34.615 0.00 0.00 0.00 4.26
1827 3355 9.846248 AGAATCTGTTTTTATGTGCTGAAATAC 57.154 29.630 0.00 0.00 0.00 1.89
1828 3356 9.624697 GAATCTGTTTTTATGTGCTGAAATACA 57.375 29.630 0.00 0.00 0.00 2.29
1971 3564 0.106268 TTGGTGCTCTGCCCAAGAAA 60.106 50.000 7.90 0.00 35.26 2.52
2088 3681 4.999311 GGATTCAAAGAGGCTGCAAAATTT 59.001 37.500 0.50 0.00 0.00 1.82
2568 4241 4.114997 GTGCCATTGGGAACGCCG 62.115 66.667 4.53 0.00 31.39 6.46
2923 4596 3.256631 CACAGAACATAAGGCAAAAGGCT 59.743 43.478 0.00 0.00 44.01 4.58
3105 4780 9.301897 TGTACTATGAATCTACTGATGCAGTAT 57.698 33.333 7.65 0.00 44.49 2.12
3261 4997 2.185494 GCAGCCTACCTCATGCAGC 61.185 63.158 0.00 0.00 38.54 5.25
3445 5182 2.285977 GGTGGGAATAGCTACCAAACG 58.714 52.381 3.26 0.00 35.77 3.60
3544 5281 4.994907 TTGGCTCGCTTATGTACTTAGA 57.005 40.909 0.00 0.00 0.00 2.10
3756 5493 2.245159 TGCTGATGAGATAAAGGCCG 57.755 50.000 0.00 0.00 0.00 6.13
3790 5527 1.480212 TTCACTCATGGAGGTGGCGT 61.480 55.000 12.05 0.00 33.35 5.68
3804 5541 1.028905 TGGCGTTGTTTCTTGGAAGG 58.971 50.000 0.00 0.00 0.00 3.46
3867 5604 5.098893 CAGAACTCACAGCACTAGATACAC 58.901 45.833 0.00 0.00 0.00 2.90
3872 5609 4.595986 TCACAGCACTAGATACACCTACA 58.404 43.478 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
104 105 1.973812 GGTGTTGGAGAGGGCTTGC 60.974 63.158 0.00 0.00 0.00 4.01
105 106 0.038744 ATGGTGTTGGAGAGGGCTTG 59.961 55.000 0.00 0.00 0.00 4.01
106 107 0.038744 CATGGTGTTGGAGAGGGCTT 59.961 55.000 0.00 0.00 0.00 4.35
107 108 1.687612 CATGGTGTTGGAGAGGGCT 59.312 57.895 0.00 0.00 0.00 5.19
108 109 1.379044 CCATGGTGTTGGAGAGGGC 60.379 63.158 2.57 0.00 39.25 5.19
109 110 1.304282 CCCATGGTGTTGGAGAGGG 59.696 63.158 11.73 0.00 39.25 4.30
110 111 2.078452 ACCCATGGTGTTGGAGAGG 58.922 57.895 11.73 0.00 39.25 3.69
121 122 0.887933 GCTACCAAACACACCCATGG 59.112 55.000 4.14 4.14 38.91 3.66
122 123 0.887933 GGCTACCAAACACACCCATG 59.112 55.000 0.00 0.00 0.00 3.66
202 203 3.953775 AACAGAGCCCACCCACCG 61.954 66.667 0.00 0.00 0.00 4.94
247 248 0.887387 GATCGAGCCTAGCGGAGAGT 60.887 60.000 0.00 0.00 0.00 3.24
258 259 2.586357 GGGTGCTTCGATCGAGCC 60.586 66.667 25.96 21.35 0.00 4.70
277 278 2.262915 GACTCGGCAGGTCTGTGG 59.737 66.667 0.00 0.00 0.00 4.17
347 1054 2.034999 GGCCGGGTTGGTCATTCA 59.965 61.111 2.18 0.00 44.04 2.57
696 1422 0.771127 CCCTGTTCAAGGTTGGGAGA 59.229 55.000 0.00 0.00 45.78 3.71
743 1469 6.942576 ACAATCATACTAGGCTGTGTTTTCTT 59.057 34.615 0.00 0.00 0.00 2.52
858 1607 2.089201 TCCAGCATGACAAGCAATGAG 58.911 47.619 5.34 0.00 39.69 2.90
973 1726 3.181461 GCATACAATCCAGCCACTAGACT 60.181 47.826 0.00 0.00 0.00 3.24
1511 2265 3.270027 TCTATTGCTCCAACACAATCCG 58.730 45.455 0.00 0.00 37.63 4.18
1676 2430 4.136796 TGCAAGTATAAGGGCATCATGAC 58.863 43.478 0.00 0.00 0.00 3.06
1737 2491 7.556635 AGTCTAGCACCTAAAAATGAATTACCC 59.443 37.037 0.00 0.00 0.00 3.69
1801 3306 9.846248 GTATTTCAGCACATAAAAACAGATTCT 57.154 29.630 0.00 0.00 0.00 2.40
1822 3350 9.309516 CATATTTCAGCAGCTCAAAATGTATTT 57.690 29.630 17.30 0.00 0.00 1.40
1827 3355 7.591006 AAACATATTTCAGCAGCTCAAAATG 57.409 32.000 17.30 13.75 0.00 2.32
1828 3356 8.500773 CAAAAACATATTTCAGCAGCTCAAAAT 58.499 29.630 14.08 14.08 0.00 1.82
1971 3564 0.712380 AATTCATGACCTTGGGGGCT 59.288 50.000 0.00 0.00 42.43 5.19
2088 3681 8.792830 AAGCAGATATAGACTTTGCAACTTTA 57.207 30.769 0.00 0.00 37.24 1.85
2568 4241 7.595130 GGTTTATCTTTGTCTTCCACAACAATC 59.405 37.037 0.00 0.00 45.12 2.67
2760 4433 3.064408 CACGCATAGCATCAGTCATGTTT 59.936 43.478 0.00 0.00 34.56 2.83
2923 4596 8.168790 TCATCATTCATCTTCACAAAGTTGAA 57.831 30.769 11.82 11.82 46.99 2.69
3261 4997 1.227823 TGAGACGGTGTTTGGCAGG 60.228 57.895 0.00 0.00 0.00 4.85
3445 5182 1.457346 GCTAGCATCATATGGGGTGC 58.543 55.000 10.63 16.05 37.84 5.01
3544 5281 2.039418 TGTCAGGTCTTGTAGCACTGT 58.961 47.619 0.00 0.00 0.00 3.55
3756 5493 2.917971 GAGTGAATACATATCCGCTCGC 59.082 50.000 0.00 0.00 0.00 5.03
3790 5527 2.106566 TGCAAGCCTTCCAAGAAACAA 58.893 42.857 0.00 0.00 0.00 2.83
3867 5604 2.544685 CCAATCTGCTTCGACTGTAGG 58.455 52.381 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.