Multiple sequence alignment - TraesCS7A01G426900

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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 TraesCS7A01G426900 chr7A 100.000 3227 0 0 1 3227 619906022 619909248 0.000000e+00 5960.0
1 TraesCS7A01G426900 chr7A 97.959 1715 26 3 468 2173 619634709 619632995 0.000000e+00 2964.0
2 TraesCS7A01G426900 chr7A 87.675 1501 124 42 712 2169 619577095 619575613 0.000000e+00 1690.0
3 TraesCS7A01G426900 chr7A 86.186 1513 115 54 712 2173 619167382 619165913 0.000000e+00 1550.0
4 TraesCS7A01G426900 chr7A 87.201 836 64 24 886 1711 620171353 620172155 0.000000e+00 911.0
5 TraesCS7A01G426900 chr7A 94.819 579 28 2 2650 3227 304329713 304330290 0.000000e+00 902.0
6 TraesCS7A01G426900 chr7A 86.326 841 70 33 881 1711 620201254 620202059 0.000000e+00 874.0
7 TraesCS7A01G426900 chr7A 95.765 425 18 0 1749 2173 620172243 620172667 0.000000e+00 686.0
8 TraesCS7A01G426900 chr7A 87.167 413 42 10 37 448 619636179 619635777 2.930000e-125 459.0
9 TraesCS7A01G426900 chr7A 92.409 303 22 1 1413 1715 620187020 620187321 6.400000e-117 431.0
10 TraesCS7A01G426900 chr7A 98.958 96 1 0 2450 2545 620197851 620197946 4.280000e-39 172.0
11 TraesCS7A01G426900 chr7A 88.525 122 9 2 2248 2364 620196849 620196970 3.360000e-30 143.0
12 TraesCS7A01G426900 chr7A 89.091 55 5 1 2359 2413 620197734 620197787 2.080000e-07 67.6
13 TraesCS7A01G426900 chr7D 86.891 1396 111 40 890 2246 538594550 538595912 0.000000e+00 1498.0
14 TraesCS7A01G426900 chr7D 89.772 1183 78 21 554 1708 538585638 538586805 0.000000e+00 1474.0
15 TraesCS7A01G426900 chr7D 84.144 1028 92 46 715 1714 538141243 538140259 0.000000e+00 929.0
16 TraesCS7A01G426900 chr7D 85.629 842 77 30 890 1711 538661832 538662649 0.000000e+00 845.0
17 TraesCS7A01G426900 chr7D 92.349 562 40 3 1148 1708 538212120 538211561 0.000000e+00 797.0
18 TraesCS7A01G426900 chr7D 83.882 850 73 31 890 1711 538602423 538603236 0.000000e+00 752.0
19 TraesCS7A01G426900 chr7D 92.829 502 34 2 1747 2246 538603307 538603808 0.000000e+00 726.0
20 TraesCS7A01G426900 chr7D 95.508 423 19 0 1747 2169 538140188 538139766 0.000000e+00 676.0
21 TraesCS7A01G426900 chr7D 88.792 571 28 15 699 1236 538333723 538333156 0.000000e+00 667.0
22 TraesCS7A01G426900 chr7D 94.050 437 25 1 1275 1711 538333165 538332730 0.000000e+00 662.0
23 TraesCS7A01G426900 chr7D 91.039 491 42 1 1719 2209 538586855 538587343 0.000000e+00 662.0
24 TraesCS7A01G426900 chr7D 90.625 416 34 5 35 448 538335365 538334953 6.090000e-152 547.0
25 TraesCS7A01G426900 chr7D 93.137 204 11 3 2447 2649 538604909 538605110 2.430000e-76 296.0
26 TraesCS7A01G426900 chr7D 93.000 200 5 1 2450 2649 538596262 538596452 1.900000e-72 283.0
27 TraesCS7A01G426900 chr7D 80.263 380 43 20 711 1082 538240304 538239949 1.150000e-64 257.0
28 TraesCS7A01G426900 chr7D 96.575 146 4 1 557 702 538333894 538333750 1.160000e-59 241.0
29 TraesCS7A01G426900 chr7D 92.593 162 3 1 2482 2643 538587598 538587750 1.170000e-54 224.0
30 TraesCS7A01G426900 chr7D 95.745 94 2 2 2359 2451 538596126 538596218 2.010000e-32 150.0
31 TraesCS7A01G426900 chr7D 86.885 122 11 4 2248 2364 538595948 538596069 7.260000e-27 132.0
32 TraesCS7A01G426900 chr7D 92.683 82 6 0 471 552 538334020 538333939 5.660000e-23 119.0
33 TraesCS7A01G426900 chr7D 97.674 43 1 0 1 43 538335413 538335371 1.240000e-09 75.0
34 TraesCS7A01G426900 chr7B 90.980 1020 50 20 699 1697 580970750 580969752 0.000000e+00 1336.0
35 TraesCS7A01G426900 chr7B 88.741 826 50 26 881 1697 581333198 581333989 0.000000e+00 970.0
36 TraesCS7A01G426900 chr7B 87.365 831 56 31 890 1711 581313559 581314349 0.000000e+00 907.0
37 TraesCS7A01G426900 chr7B 92.208 462 33 2 1749 2209 581314410 581314869 0.000000e+00 651.0
38 TraesCS7A01G426900 chr7B 91.127 417 28 8 35 448 580972573 580972163 1.010000e-154 556.0
39 TraesCS7A01G426900 chr7B 93.659 205 12 1 2445 2649 581315145 581315348 4.040000e-79 305.0
40 TraesCS7A01G426900 chr7B 98.658 149 2 0 554 702 580970925 580970777 6.860000e-67 265.0
41 TraesCS7A01G426900 chr7B 83.607 305 18 15 554 838 581306621 581306913 1.150000e-64 257.0
42 TraesCS7A01G426900 chr7B 92.958 71 4 1 468 538 580971249 580971180 5.700000e-18 102.0
43 TraesCS7A01G426900 chr7B 95.349 43 2 0 1 43 580972621 580972579 5.780000e-08 69.4
44 TraesCS7A01G426900 chr2B 95.682 579 23 2 2650 3227 682134444 682135021 0.000000e+00 929.0
45 TraesCS7A01G426900 chr2B 95.156 578 24 4 2652 3227 575368956 575369531 0.000000e+00 909.0
46 TraesCS7A01G426900 chr6D 95.345 580 23 3 2650 3227 304920890 304920313 0.000000e+00 918.0
47 TraesCS7A01G426900 chr3B 94.655 580 28 3 2650 3227 187445565 187444987 0.000000e+00 896.0
48 TraesCS7A01G426900 chr5A 94.310 580 30 3 2650 3227 559744414 559743836 0.000000e+00 885.0
49 TraesCS7A01G426900 chr1A 94.310 580 30 3 2649 3227 556762311 556761734 0.000000e+00 885.0
50 TraesCS7A01G426900 chr5B 94.301 579 30 3 2650 3227 410603542 410602966 0.000000e+00 883.0
51 TraesCS7A01G426900 chr6A 94.310 580 25 4 2650 3227 5698592 5698019 0.000000e+00 881.0


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 TraesCS7A01G426900 chr7A 619906022 619909248 3226 False 5960.000000 5960 100.000000 1 3227 1 chr7A.!!$F2 3226
1 TraesCS7A01G426900 chr7A 619632995 619636179 3184 True 1711.500000 2964 92.563000 37 2173 2 chr7A.!!$R3 2136
2 TraesCS7A01G426900 chr7A 619575613 619577095 1482 True 1690.000000 1690 87.675000 712 2169 1 chr7A.!!$R2 1457
3 TraesCS7A01G426900 chr7A 619165913 619167382 1469 True 1550.000000 1550 86.186000 712 2173 1 chr7A.!!$R1 1461
4 TraesCS7A01G426900 chr7A 304329713 304330290 577 False 902.000000 902 94.819000 2650 3227 1 chr7A.!!$F1 577
5 TraesCS7A01G426900 chr7A 620171353 620172667 1314 False 798.500000 911 91.483000 886 2173 2 chr7A.!!$F4 1287
6 TraesCS7A01G426900 chr7A 620196849 620202059 5210 False 314.150000 874 90.725000 881 2545 4 chr7A.!!$F5 1664
7 TraesCS7A01G426900 chr7D 538661832 538662649 817 False 845.000000 845 85.629000 890 1711 1 chr7D.!!$F1 821
8 TraesCS7A01G426900 chr7D 538139766 538141243 1477 True 802.500000 929 89.826000 715 2169 2 chr7D.!!$R3 1454
9 TraesCS7A01G426900 chr7D 538211561 538212120 559 True 797.000000 797 92.349000 1148 1708 1 chr7D.!!$R1 560
10 TraesCS7A01G426900 chr7D 538585638 538587750 2112 False 786.666667 1474 91.134667 554 2643 3 chr7D.!!$F2 2089
11 TraesCS7A01G426900 chr7D 538602423 538605110 2687 False 591.333333 752 89.949333 890 2649 3 chr7D.!!$F4 1759
12 TraesCS7A01G426900 chr7D 538594550 538596452 1902 False 515.750000 1498 90.630250 890 2649 4 chr7D.!!$F3 1759
13 TraesCS7A01G426900 chr7D 538332730 538335413 2683 True 385.166667 667 93.399833 1 1711 6 chr7D.!!$R4 1710
14 TraesCS7A01G426900 chr7B 581333198 581333989 791 False 970.000000 970 88.741000 881 1697 1 chr7B.!!$F2 816
15 TraesCS7A01G426900 chr7B 581313559 581315348 1789 False 621.000000 907 91.077333 890 2649 3 chr7B.!!$F3 1759
16 TraesCS7A01G426900 chr7B 580969752 580972621 2869 True 465.680000 1336 93.814400 1 1697 5 chr7B.!!$R1 1696
17 TraesCS7A01G426900 chr2B 682134444 682135021 577 False 929.000000 929 95.682000 2650 3227 1 chr2B.!!$F2 577
18 TraesCS7A01G426900 chr2B 575368956 575369531 575 False 909.000000 909 95.156000 2652 3227 1 chr2B.!!$F1 575
19 TraesCS7A01G426900 chr6D 304920313 304920890 577 True 918.000000 918 95.345000 2650 3227 1 chr6D.!!$R1 577
20 TraesCS7A01G426900 chr3B 187444987 187445565 578 True 896.000000 896 94.655000 2650 3227 1 chr3B.!!$R1 577
21 TraesCS7A01G426900 chr5A 559743836 559744414 578 True 885.000000 885 94.310000 2650 3227 1 chr5A.!!$R1 577
22 TraesCS7A01G426900 chr1A 556761734 556762311 577 True 885.000000 885 94.310000 2649 3227 1 chr1A.!!$R1 578
23 TraesCS7A01G426900 chr5B 410602966 410603542 576 True 883.000000 883 94.301000 2650 3227 1 chr5B.!!$R1 577
24 TraesCS7A01G426900 chr6A 5698019 5698592 573 True 881.000000 881 94.310000 2650 3227 1 chr6A.!!$R1 577

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
634 1967 1.21693 TCGTCCATCCATCCCTGACTA 59.783 52.381 0.0 0.0 0.0 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2436 7144 0.035317 TGCACTGGACGAAGCAGAAT 59.965 50.0 0.0 0.0 32.48 2.4 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
219 235 7.521910 GCAACTTTGGAATTTTGTAATTGGCAT 60.522 33.333 0.00 0.00 34.16 4.40
225 241 5.177327 GGAATTTTGTAATTGGCATATGGCG 59.823 40.000 22.76 0.00 44.42 5.69
232 248 4.836125 AATTGGCATATGGCGAAGTTAG 57.164 40.909 21.99 0.00 43.68 2.34
273 291 9.260002 TGAAAAGATGGCAAACTTTAAGAATTC 57.740 29.630 18.35 13.21 35.66 2.17
327 346 1.262417 TGTGTTGGATGCTACGAGGA 58.738 50.000 0.00 0.00 0.00 3.71
332 351 3.751175 TGTTGGATGCTACGAGGAAAAAG 59.249 43.478 0.00 0.00 0.00 2.27
430 449 7.869937 TGTACACATAATTTTGGACCATTGTTG 59.130 33.333 0.00 0.00 0.00 3.33
431 450 5.700373 ACACATAATTTTGGACCATTGTTGC 59.300 36.000 0.00 0.00 0.00 4.17
453 1547 5.183713 TGCTGCATTAGTTTTAGTTCATGCT 59.816 36.000 0.00 0.00 38.27 3.79
458 1552 7.083858 GCATTAGTTTTAGTTCATGCTTCACA 58.916 34.615 0.00 0.00 35.25 3.58
459 1553 7.756722 GCATTAGTTTTAGTTCATGCTTCACAT 59.243 33.333 0.00 0.00 40.66 3.21
460 1554 9.282247 CATTAGTTTTAGTTCATGCTTCACATC 57.718 33.333 0.00 0.00 36.64 3.06
463 1557 7.945134 AGTTTTAGTTCATGCTTCACATCTTT 58.055 30.769 0.00 0.00 36.64 2.52
466 1560 3.570975 AGTTCATGCTTCACATCTTTGCA 59.429 39.130 0.00 0.00 36.64 4.08
634 1967 1.216930 TCGTCCATCCATCCCTGACTA 59.783 52.381 0.00 0.00 0.00 2.59
1233 4829 1.080705 GGAGTTCGACGTCACCTGG 60.081 63.158 17.16 0.00 0.00 4.45
1234 4830 1.080705 GAGTTCGACGTCACCTGGG 60.081 63.158 17.16 0.00 0.00 4.45
1235 4831 2.048503 GTTCGACGTCACCTGGGG 60.049 66.667 17.16 0.00 0.00 4.96
1236 4832 2.522436 TTCGACGTCACCTGGGGT 60.522 61.111 17.16 0.00 35.62 4.95
1259 4855 4.873129 GCGCGGCAAGATCCTCGA 62.873 66.667 8.83 0.00 36.51 4.04
1260 4856 2.956964 CGCGGCAAGATCCTCGAC 60.957 66.667 0.00 0.00 36.51 4.20
1261 4857 2.184322 GCGGCAAGATCCTCGACA 59.816 61.111 0.00 0.00 0.00 4.35
1262 4858 1.447838 GCGGCAAGATCCTCGACAA 60.448 57.895 0.00 0.00 0.00 3.18
1263 4859 1.696832 GCGGCAAGATCCTCGACAAC 61.697 60.000 0.00 0.00 0.00 3.32
1264 4860 1.413767 CGGCAAGATCCTCGACAACG 61.414 60.000 0.00 0.00 41.26 4.10
1265 4861 1.084370 GGCAAGATCCTCGACAACGG 61.084 60.000 0.00 0.00 40.21 4.44
1266 4862 1.696832 GCAAGATCCTCGACAACGGC 61.697 60.000 0.00 0.00 40.21 5.68
1267 4863 1.084370 CAAGATCCTCGACAACGGCC 61.084 60.000 0.00 0.00 40.21 6.13
1268 4864 1.541310 AAGATCCTCGACAACGGCCA 61.541 55.000 2.24 0.00 40.21 5.36
1269 4865 1.519455 GATCCTCGACAACGGCCAG 60.519 63.158 2.24 0.00 40.21 4.85
1270 4866 3.665675 ATCCTCGACAACGGCCAGC 62.666 63.158 2.24 0.00 40.21 4.85
1271 4867 4.379243 CCTCGACAACGGCCAGCT 62.379 66.667 2.24 0.00 40.21 4.24
1272 4868 2.811317 CTCGACAACGGCCAGCTC 60.811 66.667 2.24 0.00 40.21 4.09
1273 4869 4.373116 TCGACAACGGCCAGCTCC 62.373 66.667 2.24 0.00 40.21 4.70
1274 4870 4.379243 CGACAACGGCCAGCTCCT 62.379 66.667 2.24 0.00 35.72 3.69
1275 4871 2.435059 GACAACGGCCAGCTCCTC 60.435 66.667 2.24 0.00 0.00 3.71
1276 4872 3.240134 GACAACGGCCAGCTCCTCA 62.240 63.158 2.24 0.00 0.00 3.86
1277 4873 2.743928 CAACGGCCAGCTCCTCAC 60.744 66.667 2.24 0.00 0.00 3.51
1278 4874 4.379243 AACGGCCAGCTCCTCACG 62.379 66.667 2.24 0.00 0.00 4.35
2219 5983 2.814469 CGGTCGGAGATAGGGAAGATGA 60.814 54.545 0.00 0.00 40.67 2.92
2222 5986 1.548269 CGGAGATAGGGAAGATGAGGC 59.452 57.143 0.00 0.00 0.00 4.70
2237 6003 3.469008 TGAGGCCTGTATAAACCGATG 57.531 47.619 12.00 0.00 0.00 3.84
2246 6012 6.482308 GCCTGTATAAACCGATGTCAATAAGT 59.518 38.462 0.00 0.00 0.00 2.24
2247 6013 7.518370 GCCTGTATAAACCGATGTCAATAAGTG 60.518 40.741 0.00 0.00 0.00 3.16
2249 6015 9.524106 CTGTATAAACCGATGTCAATAAGTGTA 57.476 33.333 0.00 0.00 0.00 2.90
2254 6055 6.583912 ACCGATGTCAATAAGTGTAATTCG 57.416 37.500 0.00 0.00 0.00 3.34
2269 6070 7.603651 AGTGTAATTCGTCTCTGTCATTTACT 58.396 34.615 0.00 0.00 0.00 2.24
2277 6078 4.932200 GTCTCTGTCATTTACTCCCAGTTG 59.068 45.833 0.00 0.00 0.00 3.16
2357 6984 1.685517 CCTGTATGCTGCTCTCTGCTA 59.314 52.381 0.00 0.00 43.37 3.49
2400 7089 4.003648 GTGATTGTCCGATGAAAAGACCT 58.996 43.478 0.00 0.00 0.00 3.85
2439 7147 5.653507 TGGCACAAGCAGAATCATTTATTC 58.346 37.500 0.00 0.00 44.61 1.75
2440 7148 5.419788 TGGCACAAGCAGAATCATTTATTCT 59.580 36.000 0.00 0.00 46.08 2.40
2598 7378 2.313172 CGTCTGCACTGCCACACTC 61.313 63.158 0.00 0.00 0.00 3.51
2649 7430 2.936919 TGATCAGGTTGCAGTCTTGT 57.063 45.000 0.00 0.00 0.00 3.16
2650 7431 3.213206 TGATCAGGTTGCAGTCTTGTT 57.787 42.857 0.00 0.00 0.00 2.83
2651 7432 3.554934 TGATCAGGTTGCAGTCTTGTTT 58.445 40.909 0.00 0.00 0.00 2.83
2652 7433 3.953612 TGATCAGGTTGCAGTCTTGTTTT 59.046 39.130 0.00 0.00 0.00 2.43
2653 7434 4.402155 TGATCAGGTTGCAGTCTTGTTTTT 59.598 37.500 0.00 0.00 0.00 1.94
2780 7562 0.108424 CTAAGCTGCTTCGCTCCTGT 60.108 55.000 19.62 0.00 39.86 4.00
2793 7577 1.882623 GCTCCTGTCAAAGTCCAAAGG 59.117 52.381 0.00 0.00 0.00 3.11
2795 7579 3.496160 GCTCCTGTCAAAGTCCAAAGGTA 60.496 47.826 0.00 0.00 0.00 3.08
2828 7612 6.905076 TCTTTGATTTTCGCGATAACAATAGC 59.095 34.615 10.88 0.00 0.00 2.97
2883 7667 3.125316 CGTTGCGCTCCTTCTAAATTTCT 59.875 43.478 9.73 0.00 0.00 2.52
2928 7712 2.034221 GTGGCCTTCCTGTGGTCC 59.966 66.667 3.32 0.00 0.00 4.46
3015 7799 2.290514 TGAGGAGTCAAGAATGCCAAGG 60.291 50.000 0.00 0.00 0.00 3.61
3083 7867 1.871418 AGGAGGTGAGCAGCAGATTA 58.129 50.000 0.00 0.00 0.00 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 115 7.598278 TGCCATGTGTAAATTTTATTTCTCGT 58.402 30.769 0.00 0.00 0.00 4.18
175 190 6.371809 AGTTGCGTTGATTGTTTTAGAGAA 57.628 33.333 0.00 0.00 0.00 2.87
192 207 6.361899 CCAATTACAAAATTCCAAAGTTGCG 58.638 36.000 0.00 0.00 32.87 4.85
301 320 5.908341 TCGTAGCATCCAACACATATACAA 58.092 37.500 0.00 0.00 0.00 2.41
345 364 6.252015 CGCAATCATTAACAAAGATGTGAAGG 59.748 38.462 0.00 0.00 40.46 3.46
398 417 7.721842 TGGTCCAAAATTATGTGTACAAAGAGA 59.278 33.333 0.00 0.00 0.00 3.10
399 418 7.881142 TGGTCCAAAATTATGTGTACAAAGAG 58.119 34.615 0.00 0.00 0.00 2.85
430 449 5.644644 AGCATGAACTAAAACTAATGCAGC 58.355 37.500 0.00 0.00 42.17 5.25
431 450 7.272084 GTGAAGCATGAACTAAAACTAATGCAG 59.728 37.037 0.00 0.00 42.17 4.41
453 1547 2.818130 GCCCTTTGCAAAGATGTGAA 57.182 45.000 35.25 1.68 40.77 3.18
634 1967 7.778083 ACATACATGATGCATGAACAAGAATT 58.222 30.769 12.35 0.00 43.81 2.17
1244 4840 1.447838 TTGTCGAGGATCTTGCCGC 60.448 57.895 0.00 0.00 0.00 6.53
1245 4841 1.413767 CGTTGTCGAGGATCTTGCCG 61.414 60.000 0.00 0.00 39.71 5.69
1246 4842 1.084370 CCGTTGTCGAGGATCTTGCC 61.084 60.000 0.00 0.00 39.71 4.52
1247 4843 1.696832 GCCGTTGTCGAGGATCTTGC 61.697 60.000 0.00 0.00 39.71 4.01
1248 4844 1.084370 GGCCGTTGTCGAGGATCTTG 61.084 60.000 0.00 0.00 39.71 3.02
1249 4845 1.218316 GGCCGTTGTCGAGGATCTT 59.782 57.895 0.00 0.00 39.71 2.40
1250 4846 1.949847 CTGGCCGTTGTCGAGGATCT 61.950 60.000 0.00 0.00 39.71 2.75
1251 4847 1.519455 CTGGCCGTTGTCGAGGATC 60.519 63.158 0.00 0.00 39.71 3.36
1252 4848 2.579201 CTGGCCGTTGTCGAGGAT 59.421 61.111 0.00 0.00 39.71 3.24
1253 4849 4.373116 GCTGGCCGTTGTCGAGGA 62.373 66.667 0.00 0.00 39.71 3.71
1254 4850 4.379243 AGCTGGCCGTTGTCGAGG 62.379 66.667 0.00 0.00 39.71 4.63
1255 4851 2.811317 GAGCTGGCCGTTGTCGAG 60.811 66.667 0.00 0.00 39.71 4.04
1256 4852 4.373116 GGAGCTGGCCGTTGTCGA 62.373 66.667 0.00 0.00 39.71 4.20
1257 4853 4.379243 AGGAGCTGGCCGTTGTCG 62.379 66.667 0.00 0.00 0.00 4.35
1258 4854 2.435059 GAGGAGCTGGCCGTTGTC 60.435 66.667 0.00 0.00 0.00 3.18
1259 4855 3.241530 TGAGGAGCTGGCCGTTGT 61.242 61.111 0.00 0.00 0.00 3.32
1260 4856 2.743928 GTGAGGAGCTGGCCGTTG 60.744 66.667 0.00 0.00 0.00 4.10
1261 4857 4.379243 CGTGAGGAGCTGGCCGTT 62.379 66.667 0.00 0.00 0.00 4.44
1270 4866 4.154347 GAGCCCCAGCGTGAGGAG 62.154 72.222 0.00 0.00 46.67 3.69
1273 4869 2.016393 TTATCGAGCCCCAGCGTGAG 62.016 60.000 0.00 0.00 46.67 3.51
1274 4870 2.016393 CTTATCGAGCCCCAGCGTGA 62.016 60.000 0.00 0.00 46.67 4.35
1275 4871 1.592669 CTTATCGAGCCCCAGCGTG 60.593 63.158 0.00 0.00 46.67 5.34
1276 4872 2.797278 CCTTATCGAGCCCCAGCGT 61.797 63.158 0.00 0.00 46.67 5.07
1277 4873 2.029666 CCTTATCGAGCCCCAGCG 59.970 66.667 0.00 0.00 46.67 5.18
1278 4874 1.069935 GACCTTATCGAGCCCCAGC 59.930 63.158 0.00 0.00 40.32 4.85
1279 4875 0.676736 GAGACCTTATCGAGCCCCAG 59.323 60.000 0.00 0.00 0.00 4.45
1280 4876 0.759436 GGAGACCTTATCGAGCCCCA 60.759 60.000 0.00 0.00 0.00 4.96
1281 4877 1.807495 CGGAGACCTTATCGAGCCCC 61.807 65.000 0.00 0.00 0.00 5.80
2031 5794 1.369692 CTGGTTGTACCACTCGCCA 59.630 57.895 0.00 0.00 44.79 5.69
2201 5965 2.819726 GCCTCATCTTCCCTATCTCCGA 60.820 54.545 0.00 0.00 0.00 4.55
2219 5983 2.769663 TGACATCGGTTTATACAGGCCT 59.230 45.455 0.00 0.00 0.00 5.19
2222 5986 7.494625 ACACTTATTGACATCGGTTTATACAGG 59.505 37.037 0.00 0.00 0.00 4.00
2237 6003 7.541091 TGACAGAGACGAATTACACTTATTGAC 59.459 37.037 0.00 0.00 0.00 3.18
2246 6012 7.033791 GGAGTAAATGACAGAGACGAATTACA 58.966 38.462 0.00 0.00 0.00 2.41
2247 6013 6.476053 GGGAGTAAATGACAGAGACGAATTAC 59.524 42.308 0.00 0.00 0.00 1.89
2249 6015 5.046591 TGGGAGTAAATGACAGAGACGAATT 60.047 40.000 0.00 0.00 0.00 2.17
2254 6055 4.810191 ACTGGGAGTAAATGACAGAGAC 57.190 45.455 0.00 0.00 33.57 3.36
2269 6070 3.755112 TCACGATTACAACAACTGGGA 57.245 42.857 0.00 0.00 0.00 4.37
2427 7116 6.037610 ACTGGACGAAGCAGAATAAATGATTC 59.962 38.462 0.00 0.00 43.89 2.52
2436 7144 0.035317 TGCACTGGACGAAGCAGAAT 59.965 50.000 0.00 0.00 32.48 2.40
2437 7145 1.445518 TGCACTGGACGAAGCAGAA 59.554 52.632 0.00 0.00 32.48 3.02
2439 7147 3.559024 CTGCACTGGACGAAGCAG 58.441 61.111 0.00 0.00 46.98 4.24
2440 7148 2.031012 CCTGCACTGGACGAAGCA 59.969 61.111 0.00 0.00 35.43 3.91
2441 7149 2.743928 CCCTGCACTGGACGAAGC 60.744 66.667 0.00 0.00 0.00 3.86
2442 7150 2.743928 GCCCTGCACTGGACGAAG 60.744 66.667 1.61 0.00 0.00 3.79
2443 7151 2.894257 ATGCCCTGCACTGGACGAA 61.894 57.895 1.61 0.00 43.04 3.85
2447 7227 4.051167 CCCATGCCCTGCACTGGA 62.051 66.667 14.84 0.00 43.04 3.86
2598 7378 2.023181 CGCATTTCACCATCGGCG 59.977 61.111 0.00 0.00 38.45 6.46
2650 7431 8.716909 CAAGTCTTTTGCCTTGTTTAAGAAAAA 58.283 29.630 0.00 0.00 35.92 1.94
2651 7432 7.148490 GCAAGTCTTTTGCCTTGTTTAAGAAAA 60.148 33.333 0.54 0.00 40.13 2.29
2652 7433 6.312672 GCAAGTCTTTTGCCTTGTTTAAGAAA 59.687 34.615 0.54 0.00 40.13 2.52
2653 7434 5.810074 GCAAGTCTTTTGCCTTGTTTAAGAA 59.190 36.000 0.54 0.00 40.13 2.52
2654 7435 5.105554 TGCAAGTCTTTTGCCTTGTTTAAGA 60.106 36.000 9.15 0.00 44.32 2.10
2655 7436 5.108517 TGCAAGTCTTTTGCCTTGTTTAAG 58.891 37.500 9.15 0.00 44.32 1.85
2656 7437 5.078411 TGCAAGTCTTTTGCCTTGTTTAA 57.922 34.783 9.15 0.00 44.32 1.52
2793 7577 4.437524 GCGAAAATCAAAGAGGAGGCTTAC 60.438 45.833 0.00 0.00 0.00 2.34
2795 7579 2.489722 GCGAAAATCAAAGAGGAGGCTT 59.510 45.455 0.00 0.00 0.00 4.35
2828 7612 2.938539 GAATGTCTCCGCTCCGACCG 62.939 65.000 0.00 0.00 0.00 4.79
2875 7659 7.926674 TGATGCTTGTCTCATGAGAAATTTA 57.073 32.000 26.70 13.70 39.48 1.40
2883 7667 4.080751 TCCTTGATGATGCTTGTCTCATGA 60.081 41.667 0.00 0.00 32.36 3.07
2928 7712 3.793888 GCGGTTAGTGGGGGAGGG 61.794 72.222 0.00 0.00 0.00 4.30
3015 7799 5.982465 TTTGGACTAAAATTTGCACTTGC 57.018 34.783 0.00 0.00 42.50 4.01
3137 7921 0.953471 TTGGACAGCCGATCGTTTGG 60.953 55.000 15.09 3.14 36.79 3.28
3198 7983 0.620556 GGAAGATGTGGGCTCCTTCA 59.379 55.000 0.00 0.00 37.38 3.02


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

AutoCloner maintained by Alex Coulton.