Multiple sequence alignment - TraesCS7B01G497800

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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 TraesCS7B01G497800 chr7B 100.000 3095 0 0 1 3095 748500963 748504057 0.000000e+00 5716.0
1 TraesCS7B01G497800 chr7B 93.846 2275 78 13 858 3095 747235243 747237492 0.000000e+00 3369.0
2 TraesCS7B01G497800 chr7B 89.626 1629 152 9 920 2539 746424205 746422585 0.000000e+00 2056.0
3 TraesCS7B01G497800 chr7B 90.238 1598 101 25 603 2172 747840140 747838570 0.000000e+00 2036.0
4 TraesCS7B01G497800 chr7B 86.649 1513 152 28 1368 2857 694892048 694893533 0.000000e+00 1629.0
5 TraesCS7B01G497800 chr7B 85.298 1374 178 10 929 2298 746172622 746173975 0.000000e+00 1397.0
6 TraesCS7B01G497800 chr7B 84.903 1391 175 15 915 2298 747332033 747333395 0.000000e+00 1373.0
7 TraesCS7B01G497800 chr7B 79.203 1154 201 26 1232 2359 744032717 744033857 0.000000e+00 765.0
8 TraesCS7B01G497800 chr7B 78.984 1142 218 11 959 2098 749162828 749161707 0.000000e+00 760.0
9 TraesCS7B01G497800 chr7B 81.029 875 122 23 1693 2529 745661679 745660811 0.000000e+00 656.0
10 TraesCS7B01G497800 chr7B 80.812 714 131 4 985 1695 745673056 745672346 3.490000e-154 555.0
11 TraesCS7B01G497800 chr7B 82.010 617 68 21 2278 2857 747333485 747334095 4.640000e-133 484.0
12 TraesCS7B01G497800 chr7B 82.616 604 49 13 2538 3095 746422369 746421776 1.670000e-132 483.0
13 TraesCS7B01G497800 chr7B 81.699 612 70 25 2282 2857 746174070 746174675 3.610000e-129 472.0
14 TraesCS7B01G497800 chr7B 84.058 276 18 7 1 276 746434579 746434330 3.080000e-60 243.0
15 TraesCS7B01G497800 chr7B 82.508 303 28 10 275 559 747840441 747840146 3.080000e-60 243.0
16 TraesCS7B01G497800 chr7B 80.556 324 33 11 277 589 694889172 694889476 4.020000e-54 222.0
17 TraesCS7B01G497800 chr7B 84.038 213 19 6 569 773 694891839 694892044 1.130000e-44 191.0
18 TraesCS7B01G497800 chr7B 90.000 140 9 5 2859 2993 694895554 694895693 3.170000e-40 176.0
19 TraesCS7B01G497800 chr7B 79.675 246 22 21 2869 3092 747228190 747228429 5.350000e-33 152.0
20 TraesCS7B01G497800 chr7B 95.745 47 2 0 2386 2432 746701431 746701385 3.310000e-10 76.8
21 TraesCS7B01G497800 chr6A 77.532 1264 244 28 984 2236 540829514 540828280 0.000000e+00 725.0
22 TraesCS7B01G497800 chrUn 91.876 517 39 2 1418 1933 474629392 474629906 0.000000e+00 719.0
23 TraesCS7B01G497800 chrUn 82.314 752 95 18 2114 2833 427906031 427906776 4.380000e-173 617.0
24 TraesCS7B01G497800 chrUn 88.328 317 18 1 1 317 319027734 319028031 2.270000e-96 363.0
25 TraesCS7B01G497800 chrUn 88.535 314 17 1 4 317 350240375 350240081 2.270000e-96 363.0
26 TraesCS7B01G497800 chrUn 87.898 314 19 1 4 317 244856146 244855852 4.910000e-93 351.0
27 TraesCS7B01G497800 chrUn 87.898 314 19 1 4 317 412481328 412481034 4.910000e-93 351.0
28 TraesCS7B01G497800 chrUn 80.920 435 22 16 387 813 244855679 244855298 1.400000e-73 287.0
29 TraesCS7B01G497800 chrUn 80.505 436 23 17 387 813 439064029 439064411 8.450000e-71 278.0
30 TraesCS7B01G497800 chrUn 78.415 366 20 14 387 744 319028204 319028518 1.900000e-42 183.0
31 TraesCS7B01G497800 chrUn 78.415 366 20 14 387 744 350239908 350239594 1.900000e-42 183.0
32 TraesCS7B01G497800 chrUn 78.415 366 20 14 387 744 412480861 412480547 1.900000e-42 183.0
33 TraesCS7B01G497800 chrUn 75.581 172 42 0 978 1149 257136935 257136764 5.500000e-13 86.1
34 TraesCS7B01G497800 chr7A 84.193 601 75 7 1229 1829 734551881 734551301 1.610000e-157 566.0
35 TraesCS7B01G497800 chr7A 79.663 772 98 20 2277 2995 734547473 734546708 4.610000e-138 501.0
36 TraesCS7B01G497800 chr7A 90.196 51 5 0 2382 2432 734684441 734684491 1.990000e-07 67.6
37 TraesCS7B01G497800 chr7A 95.000 40 2 0 711 750 726527375 726527414 2.580000e-06 63.9
38 TraesCS7B01G497800 chr7D 84.589 292 26 8 2581 2857 633185775 633185488 3.930000e-69 272.0
39 TraesCS7B01G497800 chr7D 87.879 198 14 4 181 378 633158668 633158855 1.120000e-54 224.0
40 TraesCS7B01G497800 chr7D 93.836 146 8 1 1 146 633158524 633158668 5.200000e-53 219.0
41 TraesCS7B01G497800 chr7D 82.759 116 9 4 2858 2963 633183382 633183268 3.290000e-15 93.5
42 TraesCS7B01G497800 chr7D 94.737 38 2 0 713 750 630609654 630609691 3.330000e-05 60.2


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 TraesCS7B01G497800 chr7B 748500963 748504057 3094 False 5716.0 5716 100.00000 1 3095 1 chr7B.!!$F4 3094
1 TraesCS7B01G497800 chr7B 747235243 747237492 2249 False 3369.0 3369 93.84600 858 3095 1 chr7B.!!$F3 2237
2 TraesCS7B01G497800 chr7B 746421776 746424205 2429 True 1269.5 2056 86.12100 920 3095 2 chr7B.!!$R6 2175
3 TraesCS7B01G497800 chr7B 747838570 747840441 1871 True 1139.5 2036 86.37300 275 2172 2 chr7B.!!$R7 1897
4 TraesCS7B01G497800 chr7B 746172622 746174675 2053 False 934.5 1397 83.49850 929 2857 2 chr7B.!!$F6 1928
5 TraesCS7B01G497800 chr7B 747332033 747334095 2062 False 928.5 1373 83.45650 915 2857 2 chr7B.!!$F7 1942
6 TraesCS7B01G497800 chr7B 744032717 744033857 1140 False 765.0 765 79.20300 1232 2359 1 chr7B.!!$F1 1127
7 TraesCS7B01G497800 chr7B 749161707 749162828 1121 True 760.0 760 78.98400 959 2098 1 chr7B.!!$R5 1139
8 TraesCS7B01G497800 chr7B 745660811 745661679 868 True 656.0 656 81.02900 1693 2529 1 chr7B.!!$R1 836
9 TraesCS7B01G497800 chr7B 745672346 745673056 710 True 555.0 555 80.81200 985 1695 1 chr7B.!!$R2 710
10 TraesCS7B01G497800 chr7B 694889172 694895693 6521 False 554.5 1629 85.31075 277 2993 4 chr7B.!!$F5 2716
11 TraesCS7B01G497800 chr6A 540828280 540829514 1234 True 725.0 725 77.53200 984 2236 1 chr6A.!!$R1 1252
12 TraesCS7B01G497800 chrUn 474629392 474629906 514 False 719.0 719 91.87600 1418 1933 1 chrUn.!!$F3 515
13 TraesCS7B01G497800 chrUn 427906031 427906776 745 False 617.0 617 82.31400 2114 2833 1 chrUn.!!$F1 719
14 TraesCS7B01G497800 chrUn 244855298 244856146 848 True 319.0 351 84.40900 4 813 2 chrUn.!!$R2 809
15 TraesCS7B01G497800 chrUn 319027734 319028518 784 False 273.0 363 83.37150 1 744 2 chrUn.!!$F4 743
16 TraesCS7B01G497800 chrUn 350239594 350240375 781 True 273.0 363 83.47500 4 744 2 chrUn.!!$R3 740
17 TraesCS7B01G497800 chrUn 412480547 412481328 781 True 267.0 351 83.15650 4 744 2 chrUn.!!$R4 740
18 TraesCS7B01G497800 chr7A 734546708 734551881 5173 True 533.5 566 81.92800 1229 2995 2 chr7A.!!$R1 1766

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
837 3354 0.170561 CCAGGAGACGAACGAACGAT 59.829 55.0 11.97 0.0 37.03 3.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2705 9045 1.141234 GCGCCGGTTAGCTAGTCTT 59.859 57.895 1.9 0.0 0.0 3.01 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
31 32 2.156098 GTGGGGAAAACGAGCAATACA 58.844 47.619 0.00 0.00 0.00 2.29
99 100 5.368145 AGTTCACTTGCTGTAACATGAAGA 58.632 37.500 0.00 0.00 0.00 2.87
145 146 2.169352 GTGCATGGAGACTATCTGTGGT 59.831 50.000 0.00 0.00 0.00 4.16
148 149 3.624861 GCATGGAGACTATCTGTGGTTTG 59.375 47.826 0.00 0.00 0.00 2.93
166 167 7.505585 TGTGGTTTGTAAATCCTTGAATCTCTT 59.494 33.333 0.00 0.00 36.63 2.85
167 168 7.809806 GTGGTTTGTAAATCCTTGAATCTCTTG 59.190 37.037 0.00 0.00 36.63 3.02
169 170 7.309438 GGTTTGTAAATCCTTGAATCTCTTGCT 60.309 37.037 0.00 0.00 32.86 3.91
183 184 0.809385 CTTGCTGCAACCTCCATGAG 59.191 55.000 11.69 0.00 0.00 2.90
198 199 3.055530 TCCATGAGAAGAGACTCTTTGGC 60.056 47.826 21.58 13.99 36.73 4.52
221 222 4.431809 CTCCATGAGTAGAGCAGAGTTTG 58.568 47.826 0.00 0.00 0.00 2.93
234 235 2.993899 CAGAGTTTGCTGTTACGGTAGG 59.006 50.000 0.00 0.00 0.00 3.18
235 236 2.631545 AGAGTTTGCTGTTACGGTAGGT 59.368 45.455 0.00 0.00 0.00 3.08
236 237 2.735134 GAGTTTGCTGTTACGGTAGGTG 59.265 50.000 0.00 0.00 0.00 4.00
237 238 2.103601 AGTTTGCTGTTACGGTAGGTGT 59.896 45.455 0.00 0.00 0.00 4.16
238 239 2.874086 GTTTGCTGTTACGGTAGGTGTT 59.126 45.455 0.00 0.00 0.00 3.32
239 240 2.914695 TGCTGTTACGGTAGGTGTTT 57.085 45.000 0.00 0.00 0.00 2.83
257 258 3.896888 TGTTTGGGCATGATTCAGTTTCT 59.103 39.130 0.00 0.00 0.00 2.52
280 281 4.222810 TGTTGTAGCAGATGGTCTGTATGT 59.777 41.667 8.58 0.00 45.94 2.29
304 305 7.124901 TGTTTATAGAAGAGCAGAGTTGGAGAT 59.875 37.037 0.00 0.00 0.00 2.75
319 320 2.361119 TGGAGATATGACAGTGGTACGC 59.639 50.000 0.00 0.00 40.45 4.42
342 425 5.406175 GCGTAGTACAGTGTTTTGTGGATTA 59.594 40.000 0.00 0.00 32.56 1.75
371 454 3.189080 TCAACTGACTGATTTGGCATTCG 59.811 43.478 0.00 0.00 0.00 3.34
447 561 6.040955 AGTTTGTTCAGACTAGTCAGTGATCA 59.959 38.462 24.44 19.59 34.21 2.92
448 562 5.635417 TGTTCAGACTAGTCAGTGATCAG 57.365 43.478 24.44 0.00 34.21 2.90
455 569 3.766591 ACTAGTCAGTGATCAGACCTTGG 59.233 47.826 10.60 0.51 35.38 3.61
478 592 4.406648 TCAGAGTTCAGACTTTCAAGCA 57.593 40.909 0.00 0.00 35.88 3.91
585 699 9.650539 ATGAATATCATAGTGATTGACTAGTGC 57.349 33.333 0.00 0.00 40.63 4.40
601 3098 2.306847 AGTGCCCCAAAAGTACTTGTG 58.693 47.619 17.60 17.60 0.00 3.33
609 3106 0.478507 AAAGTACTTGTGGGCCTGCT 59.521 50.000 9.34 0.00 0.00 4.24
629 3126 1.613630 AGGTTGTCCGAGCCTGGAT 60.614 57.895 0.00 0.00 40.91 3.41
636 3133 2.238646 TGTCCGAGCCTGGATGTAAATT 59.761 45.455 0.00 0.00 40.91 1.82
653 3160 7.581213 TGTAAATTGGGCCTACATTAGAATG 57.419 36.000 4.53 0.61 42.10 2.67
694 3201 3.537388 GCCAAGTGCCAACTGGTT 58.463 55.556 0.00 0.00 36.51 3.67
793 3310 0.680921 AACTGATGGGCCATGTTCCG 60.681 55.000 26.77 9.71 0.00 4.30
794 3311 1.077501 CTGATGGGCCATGTTCCGT 60.078 57.895 26.77 0.00 0.00 4.69
796 3313 1.077787 GATGGGCCATGTTCCGTGA 60.078 57.895 26.77 0.00 0.00 4.35
797 3314 0.466189 GATGGGCCATGTTCCGTGAT 60.466 55.000 26.77 0.00 0.00 3.06
814 3331 0.465278 GATTGGCCTCTTCCTGAGCC 60.465 60.000 3.32 0.00 41.35 4.70
815 3332 2.262774 ATTGGCCTCTTCCTGAGCCG 62.263 60.000 3.32 0.00 41.35 5.52
816 3333 4.847444 GGCCTCTTCCTGAGCCGC 62.847 72.222 0.00 0.00 41.35 6.53
817 3334 4.847444 GCCTCTTCCTGAGCCGCC 62.847 72.222 0.00 0.00 41.35 6.13
819 3336 4.168291 CTCTTCCTGAGCCGCCCC 62.168 72.222 0.00 0.00 35.84 5.80
821 3338 4.479993 CTTCCTGAGCCGCCCCAG 62.480 72.222 3.96 3.96 0.00 4.45
830 3347 4.452733 CCGCCCCAGGAGACGAAC 62.453 72.222 0.00 0.00 0.00 3.95
831 3348 4.796231 CGCCCCAGGAGACGAACG 62.796 72.222 0.00 0.00 0.00 3.95
832 3349 3.379445 GCCCCAGGAGACGAACGA 61.379 66.667 0.14 0.00 0.00 3.85
833 3350 2.939261 GCCCCAGGAGACGAACGAA 61.939 63.158 0.14 0.00 0.00 3.85
834 3351 1.080025 CCCCAGGAGACGAACGAAC 60.080 63.158 0.14 0.00 0.00 3.95
835 3352 1.443872 CCCAGGAGACGAACGAACG 60.444 63.158 0.14 0.00 39.31 3.95
836 3353 1.577922 CCAGGAGACGAACGAACGA 59.422 57.895 11.97 0.00 37.03 3.85
837 3354 0.170561 CCAGGAGACGAACGAACGAT 59.829 55.000 11.97 0.00 37.03 3.73
838 3355 1.399440 CCAGGAGACGAACGAACGATA 59.601 52.381 11.97 0.00 37.03 2.92
839 3356 2.438583 CAGGAGACGAACGAACGATAC 58.561 52.381 11.97 2.74 37.03 2.24
840 3357 1.399791 AGGAGACGAACGAACGATACC 59.600 52.381 11.97 10.57 37.03 2.73
841 3358 1.532713 GGAGACGAACGAACGATACCC 60.533 57.143 11.97 5.03 37.03 3.69
848 3365 0.978907 ACGAACGATACCCCCACTTT 59.021 50.000 0.14 0.00 0.00 2.66
849 3366 1.338389 ACGAACGATACCCCCACTTTG 60.338 52.381 0.14 0.00 0.00 2.77
897 3415 1.376812 CGCCTCAAACCCCCAGTAC 60.377 63.158 0.00 0.00 0.00 2.73
900 3418 1.479757 GCCTCAAACCCCCAGTACAAA 60.480 52.381 0.00 0.00 0.00 2.83
902 3420 2.158519 CCTCAAACCCCCAGTACAAAGT 60.159 50.000 0.00 0.00 0.00 2.66
903 3421 3.562182 CTCAAACCCCCAGTACAAAGTT 58.438 45.455 0.00 0.00 0.00 2.66
904 3422 3.558033 TCAAACCCCCAGTACAAAGTTC 58.442 45.455 0.00 0.00 0.00 3.01
905 3423 3.203487 TCAAACCCCCAGTACAAAGTTCT 59.797 43.478 0.00 0.00 0.00 3.01
907 3425 2.414612 ACCCCCAGTACAAAGTTCTCA 58.585 47.619 0.00 0.00 0.00 3.27
908 3426 2.781174 ACCCCCAGTACAAAGTTCTCAA 59.219 45.455 0.00 0.00 0.00 3.02
909 3427 3.203487 ACCCCCAGTACAAAGTTCTCAAA 59.797 43.478 0.00 0.00 0.00 2.69
996 3515 0.676782 CCTCCCCGCTTGAAAACGAT 60.677 55.000 0.00 0.00 0.00 3.73
1132 3651 3.529341 TTCTGCACGCATCACCGGT 62.529 57.895 0.00 0.00 0.00 5.28
1134 3653 1.521457 CTGCACGCATCACCGGTAT 60.521 57.895 6.87 0.00 0.00 2.73
1245 3767 1.669760 CCTGCCAAACCGCGACTTA 60.670 57.895 8.23 0.00 0.00 2.24
1388 3910 5.300286 AGTTCAACTTGGGCTATATCAATGC 59.700 40.000 0.00 0.00 0.00 3.56
1481 4006 1.428370 TTGCTGCTTATGCGCCGTAG 61.428 55.000 4.18 0.00 43.34 3.51
1504 4029 1.748122 GGTCGACCACTCGCCTCTA 60.748 63.158 29.75 0.00 39.96 2.43
1557 4082 0.820226 TCATCTCAGCAGAGGTTCCG 59.180 55.000 6.25 0.00 42.34 4.30
1754 4279 1.341852 TGATGAAACGGTTGGTCTCGA 59.658 47.619 0.00 0.00 0.00 4.04
1875 6372 0.470341 AAATTCTAGGGCTCCCTCGC 59.530 55.000 11.41 0.00 44.43 5.03
2027 6537 7.360946 GCTTTTTGAAGTCTCCAATACACGTAT 60.361 37.037 0.00 0.00 0.00 3.06
2231 6756 7.250569 AGCGTAAGACATCACCAATATTTTTG 58.749 34.615 0.00 0.00 43.02 2.44
2234 6759 9.702726 CGTAAGACATCACCAATATTTTTGTAG 57.297 33.333 0.00 0.00 43.02 2.74
2434 8531 2.790433 TCCCTTGGTGATTGTGTTAGC 58.210 47.619 0.00 0.00 0.00 3.09
2436 8533 2.489329 CCCTTGGTGATTGTGTTAGCTG 59.511 50.000 0.00 0.00 0.00 4.24
2438 8535 4.012374 CCTTGGTGATTGTGTTAGCTGAT 58.988 43.478 0.00 0.00 0.00 2.90
2439 8536 5.185454 CCTTGGTGATTGTGTTAGCTGATA 58.815 41.667 0.00 0.00 0.00 2.15
2441 8538 6.319658 CCTTGGTGATTGTGTTAGCTGATATT 59.680 38.462 0.00 0.00 0.00 1.28
2443 8540 6.179756 TGGTGATTGTGTTAGCTGATATTGT 58.820 36.000 0.00 0.00 0.00 2.71
2444 8541 6.093909 TGGTGATTGTGTTAGCTGATATTGTG 59.906 38.462 0.00 0.00 0.00 3.33
2445 8542 5.967674 GTGATTGTGTTAGCTGATATTGTGC 59.032 40.000 0.00 0.00 0.00 4.57
2446 8543 5.882000 TGATTGTGTTAGCTGATATTGTGCT 59.118 36.000 0.00 0.00 40.43 4.40
2564 8895 5.662674 TCAAATGGCATGTCATGATTTGA 57.337 34.783 24.86 24.86 39.30 2.69
2681 9014 7.093988 GCATAGTCACATACAGTATCTCATCCT 60.094 40.741 0.00 0.00 0.00 3.24
2705 9045 0.035152 AAATCATGCAGGTGCGAGGA 60.035 50.000 0.00 0.00 45.83 3.71
2709 9057 1.078848 ATGCAGGTGCGAGGAAGAC 60.079 57.895 0.00 0.00 45.83 3.01
2710 9058 1.548357 ATGCAGGTGCGAGGAAGACT 61.548 55.000 0.00 0.00 45.83 3.24
2711 9059 0.898326 TGCAGGTGCGAGGAAGACTA 60.898 55.000 0.00 0.00 45.83 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.202245 CGTTTTCCCCACACAACACAG 60.202 52.381 0.00 0.00 0.00 3.66
31 32 0.695462 TCCATCCCCATGCAGCTACT 60.695 55.000 0.00 0.00 0.00 2.57
116 117 0.320771 GTCTCCATGCACACTTCCGT 60.321 55.000 0.00 0.00 0.00 4.69
117 118 0.036952 AGTCTCCATGCACACTTCCG 60.037 55.000 0.00 0.00 0.00 4.30
123 124 2.169144 CCACAGATAGTCTCCATGCACA 59.831 50.000 0.00 0.00 0.00 4.57
127 128 4.836825 ACAAACCACAGATAGTCTCCATG 58.163 43.478 0.00 0.00 0.00 3.66
145 146 7.596494 CAGCAAGAGATTCAAGGATTTACAAA 58.404 34.615 0.00 0.00 0.00 2.83
148 149 5.124457 TGCAGCAAGAGATTCAAGGATTTAC 59.876 40.000 0.00 0.00 0.00 2.01
166 167 0.401356 TTCTCATGGAGGTTGCAGCA 59.599 50.000 2.05 0.00 0.00 4.41
167 168 1.093159 CTTCTCATGGAGGTTGCAGC 58.907 55.000 0.00 0.00 0.00 5.25
169 170 2.027745 GTCTCTTCTCATGGAGGTTGCA 60.028 50.000 0.00 0.00 0.00 4.08
183 184 1.625818 TGGAGGCCAAAGAGTCTCTTC 59.374 52.381 15.51 3.60 35.27 2.87
198 199 2.665165 ACTCTGCTCTACTCATGGAGG 58.335 52.381 0.00 0.00 34.08 4.30
221 222 1.802365 CCAAACACCTACCGTAACAGC 59.198 52.381 0.00 0.00 0.00 4.40
222 223 2.419667 CCCAAACACCTACCGTAACAG 58.580 52.381 0.00 0.00 0.00 3.16
223 224 1.542987 GCCCAAACACCTACCGTAACA 60.543 52.381 0.00 0.00 0.00 2.41
224 225 1.159285 GCCCAAACACCTACCGTAAC 58.841 55.000 0.00 0.00 0.00 2.50
225 226 0.763652 TGCCCAAACACCTACCGTAA 59.236 50.000 0.00 0.00 0.00 3.18
226 227 0.985760 ATGCCCAAACACCTACCGTA 59.014 50.000 0.00 0.00 0.00 4.02
227 228 0.608035 CATGCCCAAACACCTACCGT 60.608 55.000 0.00 0.00 0.00 4.83
228 229 0.322098 TCATGCCCAAACACCTACCG 60.322 55.000 0.00 0.00 0.00 4.02
229 230 2.143876 ATCATGCCCAAACACCTACC 57.856 50.000 0.00 0.00 0.00 3.18
230 231 3.088532 TGAATCATGCCCAAACACCTAC 58.911 45.455 0.00 0.00 0.00 3.18
231 232 3.245229 ACTGAATCATGCCCAAACACCTA 60.245 43.478 0.00 0.00 0.00 3.08
232 233 2.173519 CTGAATCATGCCCAAACACCT 58.826 47.619 0.00 0.00 0.00 4.00
233 234 1.895131 ACTGAATCATGCCCAAACACC 59.105 47.619 0.00 0.00 0.00 4.16
234 235 3.665745 AACTGAATCATGCCCAAACAC 57.334 42.857 0.00 0.00 0.00 3.32
235 236 3.896888 AGAAACTGAATCATGCCCAAACA 59.103 39.130 0.00 0.00 0.00 2.83
236 237 4.240096 CAGAAACTGAATCATGCCCAAAC 58.760 43.478 0.00 0.00 32.44 2.93
237 238 3.896888 ACAGAAACTGAATCATGCCCAAA 59.103 39.130 5.76 0.00 35.18 3.28
238 239 3.499338 ACAGAAACTGAATCATGCCCAA 58.501 40.909 5.76 0.00 35.18 4.12
239 240 3.159213 ACAGAAACTGAATCATGCCCA 57.841 42.857 5.76 0.00 35.18 5.36
280 281 7.667575 ATCTCCAACTCTGCTCTTCTATAAA 57.332 36.000 0.00 0.00 0.00 1.40
304 305 2.358957 ACTACGCGTACCACTGTCATA 58.641 47.619 16.41 0.00 0.00 2.15
319 320 5.917541 AATCCACAAAACACTGTACTACG 57.082 39.130 0.00 0.00 0.00 3.51
326 327 5.666969 TCGTCTTAATCCACAAAACACTG 57.333 39.130 0.00 0.00 0.00 3.66
342 425 4.692625 CCAAATCAGTCAGTTGATCGTCTT 59.307 41.667 0.00 0.00 36.81 3.01
371 454 1.360192 GCATGCATTTCGGGTAGGC 59.640 57.895 14.21 0.00 0.00 3.93
447 561 3.070302 GTCTGAACTCTGAACCAAGGTCT 59.930 47.826 0.00 0.00 30.30 3.85
448 562 3.070302 AGTCTGAACTCTGAACCAAGGTC 59.930 47.826 0.00 0.00 0.00 3.85
455 569 4.572389 TGCTTGAAAGTCTGAACTCTGAAC 59.428 41.667 0.00 0.00 33.48 3.18
478 592 5.084818 TCGTGTTGTTGATGTATGATCCT 57.915 39.130 0.00 0.00 0.00 3.24
629 3126 6.040391 GCATTCTAATGTAGGCCCAATTTACA 59.960 38.462 0.00 0.77 38.65 2.41
636 3133 1.488812 ACGCATTCTAATGTAGGCCCA 59.511 47.619 0.00 0.00 38.65 5.36
653 3160 3.445857 GATTACCTGGTCACTAGAACGC 58.554 50.000 0.63 0.00 32.76 4.84
793 3310 2.016096 GCTCAGGAAGAGGCCAATCAC 61.016 57.143 5.01 0.00 44.86 3.06
794 3311 0.254178 GCTCAGGAAGAGGCCAATCA 59.746 55.000 5.01 0.00 44.86 2.57
814 3331 4.796231 CGTTCGTCTCCTGGGGCG 62.796 72.222 4.34 4.34 0.00 6.13
815 3332 2.939261 TTCGTTCGTCTCCTGGGGC 61.939 63.158 0.00 0.00 0.00 5.80
816 3333 1.080025 GTTCGTTCGTCTCCTGGGG 60.080 63.158 0.00 0.00 0.00 4.96
817 3334 1.443872 CGTTCGTTCGTCTCCTGGG 60.444 63.158 0.00 0.00 0.00 4.45
819 3336 2.438583 GTATCGTTCGTTCGTCTCCTG 58.561 52.381 2.67 0.00 0.00 3.86
820 3337 1.399791 GGTATCGTTCGTTCGTCTCCT 59.600 52.381 2.67 0.00 0.00 3.69
821 3338 1.532713 GGGTATCGTTCGTTCGTCTCC 60.533 57.143 2.67 0.00 0.00 3.71
822 3339 1.532713 GGGGTATCGTTCGTTCGTCTC 60.533 57.143 2.67 0.00 0.00 3.36
823 3340 0.453390 GGGGTATCGTTCGTTCGTCT 59.547 55.000 2.67 0.00 0.00 4.18
824 3341 0.526310 GGGGGTATCGTTCGTTCGTC 60.526 60.000 2.67 0.00 0.00 4.20
825 3342 1.250154 TGGGGGTATCGTTCGTTCGT 61.250 55.000 2.67 0.00 0.00 3.85
826 3343 0.803380 GTGGGGGTATCGTTCGTTCG 60.803 60.000 0.00 0.00 0.00 3.95
827 3344 0.533951 AGTGGGGGTATCGTTCGTTC 59.466 55.000 0.00 0.00 0.00 3.95
828 3345 0.978907 AAGTGGGGGTATCGTTCGTT 59.021 50.000 0.00 0.00 0.00 3.85
829 3346 0.978907 AAAGTGGGGGTATCGTTCGT 59.021 50.000 0.00 0.00 0.00 3.85
830 3347 1.066716 TCAAAGTGGGGGTATCGTTCG 60.067 52.381 0.00 0.00 0.00 3.95
831 3348 2.773993 TCAAAGTGGGGGTATCGTTC 57.226 50.000 0.00 0.00 0.00 3.95
832 3349 3.265995 AGAATCAAAGTGGGGGTATCGTT 59.734 43.478 0.00 0.00 0.00 3.85
833 3350 2.844348 AGAATCAAAGTGGGGGTATCGT 59.156 45.455 0.00 0.00 0.00 3.73
834 3351 3.467803 GAGAATCAAAGTGGGGGTATCG 58.532 50.000 0.00 0.00 33.17 2.92
835 3352 3.435169 GGGAGAATCAAAGTGGGGGTATC 60.435 52.174 0.00 0.00 36.25 2.24
836 3353 2.514160 GGGAGAATCAAAGTGGGGGTAT 59.486 50.000 0.00 0.00 36.25 2.73
837 3354 1.920351 GGGAGAATCAAAGTGGGGGTA 59.080 52.381 0.00 0.00 36.25 3.69
838 3355 0.704664 GGGAGAATCAAAGTGGGGGT 59.295 55.000 0.00 0.00 36.25 4.95
839 3356 0.033109 GGGGAGAATCAAAGTGGGGG 60.033 60.000 0.00 0.00 36.25 5.40
840 3357 0.394352 CGGGGAGAATCAAAGTGGGG 60.394 60.000 0.00 0.00 36.25 4.96
841 3358 0.328258 ACGGGGAGAATCAAAGTGGG 59.672 55.000 0.00 0.00 36.25 4.61
848 3365 2.366435 GGGGGACGGGGAGAATCA 60.366 66.667 0.00 0.00 36.25 2.57
849 3366 3.547513 CGGGGGACGGGGAGAATC 61.548 72.222 0.00 0.00 39.42 2.52
912 3430 3.126073 GGACGTCGTTCTACTGGTTTTT 58.874 45.455 9.92 0.00 0.00 1.94
913 3431 2.546584 GGGACGTCGTTCTACTGGTTTT 60.547 50.000 9.92 0.00 0.00 2.43
915 3433 0.600057 GGGACGTCGTTCTACTGGTT 59.400 55.000 9.92 0.00 0.00 3.67
916 3434 0.538057 TGGGACGTCGTTCTACTGGT 60.538 55.000 9.92 0.00 0.00 4.00
917 3435 0.109412 GTGGGACGTCGTTCTACTGG 60.109 60.000 12.58 0.00 0.00 4.00
918 3436 0.453950 CGTGGGACGTCGTTCTACTG 60.454 60.000 16.98 7.84 36.74 2.74
931 3449 4.688419 GCGTTCGTCGACGTGGGA 62.688 66.667 34.40 15.32 44.50 4.37
996 3515 0.461548 GGATCTCCGTGAGCATGTCA 59.538 55.000 0.00 0.00 31.67 3.58
1125 3644 1.232216 GAGGGGAGGATACCGGTGA 59.768 63.158 19.93 1.17 37.17 4.02
1132 3651 2.526628 GCCGAGGAGGGGAGGATA 59.473 66.667 0.00 0.00 41.48 2.59
1245 3767 3.402681 CCCAGCAGTCGGACCCAT 61.403 66.667 4.14 0.00 0.00 4.00
1504 4029 4.466370 TGTGTCGGTCTCAGAGGAATAAAT 59.534 41.667 0.00 0.00 0.00 1.40
1557 4082 5.064707 ACAAGTGCCATAACAATGTCGATAC 59.935 40.000 0.00 0.00 0.00 2.24
1739 4264 1.939838 GCATCTCGAGACCAACCGTTT 60.940 52.381 19.30 0.00 0.00 3.60
1754 4279 4.443621 CTGATCATTGTCAGACAGCATCT 58.556 43.478 2.82 0.00 46.77 2.90
1779 4304 4.202716 ACCTTCCTCTCCCACATTTGAATT 60.203 41.667 0.00 0.00 0.00 2.17
1875 6372 1.339535 GCCTTCTCTCCTTCAACCTGG 60.340 57.143 0.00 0.00 0.00 4.45
2027 6537 7.556275 AGAAACACCTGAAAGAATGACAGTAAA 59.444 33.333 0.00 0.00 34.07 2.01
2231 6756 4.755266 ATCAAGTGGTGATGGTACCTAC 57.245 45.455 14.36 9.48 45.69 3.18
2434 8531 5.571741 CAGCTTTGTTTCAGCACAATATCAG 59.428 40.000 0.00 0.00 39.99 2.90
2436 8533 5.702865 TCAGCTTTGTTTCAGCACAATATC 58.297 37.500 0.00 0.00 39.99 1.63
2438 8535 5.617529 CGATCAGCTTTGTTTCAGCACAATA 60.618 40.000 0.00 0.00 39.99 1.90
2439 8536 4.553323 GATCAGCTTTGTTTCAGCACAAT 58.447 39.130 0.00 0.00 39.99 2.71
2441 8538 2.031769 CGATCAGCTTTGTTTCAGCACA 60.032 45.455 0.00 0.00 39.99 4.57
2443 8540 2.493035 TCGATCAGCTTTGTTTCAGCA 58.507 42.857 0.00 0.00 39.99 4.41
2444 8541 3.754188 ATCGATCAGCTTTGTTTCAGC 57.246 42.857 0.00 0.00 37.56 4.26
2445 8542 6.024049 GGTTTATCGATCAGCTTTGTTTCAG 58.976 40.000 0.00 0.00 0.00 3.02
2446 8543 5.705441 AGGTTTATCGATCAGCTTTGTTTCA 59.295 36.000 0.00 0.00 0.00 2.69
2564 8895 7.099120 GGAGTGGAGCAAATCAATTAATTGTT 58.901 34.615 23.95 15.34 38.84 2.83
2622 8955 4.895668 TGAGTTGGGTTTAACCGTATCT 57.104 40.909 8.14 4.47 39.83 1.98
2681 9014 2.816672 TCGCACCTGCATGATTTAAACA 59.183 40.909 0.00 0.00 42.21 2.83
2705 9045 1.141234 GCGCCGGTTAGCTAGTCTT 59.859 57.895 1.90 0.00 0.00 3.01
2709 9057 1.153628 AACAGCGCCGGTTAGCTAG 60.154 57.895 18.08 14.84 42.52 3.42
2710 9058 1.447140 CAACAGCGCCGGTTAGCTA 60.447 57.895 18.08 0.00 42.52 3.32
2711 9059 2.521958 ATCAACAGCGCCGGTTAGCT 62.522 55.000 13.85 13.96 45.74 3.32
3046 11471 3.017442 AGTAGTGCAGAATAGCGACAGA 58.983 45.455 0.00 0.00 37.31 3.41


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

AutoCloner maintained by Alex Coulton.