Multiple sequence alignment - TraesCS2B01G046900

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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 TraesCS2B01G046900 chr2B 100.000 2186 0 0 1 2186 23539277 23537092 0.000000e+00 4037
1 TraesCS2B01G046900 chr1A 91.714 700 22 4 1 664 319189406 319190105 0.000000e+00 939
2 TraesCS2B01G046900 chr2D 89.744 507 28 8 714 1220 12788569 12788087 5.120000e-176 627
3 TraesCS2B01G046900 chr2D 87.209 344 20 11 1856 2186 12787564 12787232 9.530000e-99 370
4 TraesCS2B01G046900 chr2D 82.152 381 31 20 1310 1678 12787950 12787595 2.120000e-75 292
5 TraesCS2B01G046900 chr2D 89.051 137 8 5 751 884 12866032 12865900 1.740000e-36 163
6 TraesCS2B01G046900 chr6B 92.099 405 2 3 1 377 120837480 120837882 5.310000e-151 544
7 TraesCS2B01G046900 chr6B 98.630 292 3 1 374 664 120837840 120838131 1.160000e-142 516
8 TraesCS2B01G046900 chr6B 98.507 134 1 1 1 134 171694750 171694618 3.630000e-58 235
9 TraesCS2B01G046900 chr6B 98.507 134 1 1 1 134 174564854 174564722 3.630000e-58 235
10 TraesCS2B01G046900 chr3A 92.099 405 2 6 1 377 658803581 658803179 5.310000e-151 544
11 TraesCS2B01G046900 chr3A 91.832 404 4 4 1 377 362552907 362552506 8.880000e-149 536
12 TraesCS2B01G046900 chr3A 98.625 291 4 0 375 665 6770999 6770709 1.160000e-142 516
13 TraesCS2B01G046900 chr3A 98.400 250 1 1 128 377 6771205 6770959 9.270000e-119 436
14 TraesCS2B01G046900 chr3A 99.237 131 0 1 1 131 355268473 355268602 3.630000e-58 235
15 TraesCS2B01G046900 chr6A 91.852 405 4 2 1 377 560645446 560645849 2.470000e-149 538
16 TraesCS2B01G046900 chr6A 92.962 341 14 8 375 712 560645809 560646142 2.520000e-134 488
17 TraesCS2B01G046900 chr2A 91.832 404 2 5 1 377 218119556 218119955 3.190000e-148 534
18 TraesCS2B01G046900 chr2A 91.605 405 3 8 1 377 205912448 205912047 4.130000e-147 531
19 TraesCS2B01G046900 chr2A 97.306 297 7 1 375 671 177896159 177895864 9.010000e-139 503
20 TraesCS2B01G046900 chr2A 84.725 491 40 18 751 1220 14954374 14953898 1.980000e-125 459
21 TraesCS2B01G046900 chr2A 82.996 494 39 21 1732 2186 14953317 14952830 2.610000e-109 405
22 TraesCS2B01G046900 chr2A 84.179 335 35 7 1411 1733 14953682 14953354 2.110000e-80 309
23 TraesCS2B01G046900 chr2A 88.235 102 9 2 1214 1313 14953866 14953766 3.810000e-23 119
24 TraesCS2B01G046900 chrUn 91.605 405 3 5 1 377 13811096 13810695 4.130000e-147 531
25 TraesCS2B01G046900 chrUn 97.306 297 7 1 375 671 13810735 13810440 9.010000e-139 503
26 TraesCS2B01G046900 chrUn 97.306 297 7 1 375 671 362508318 362508023 9.010000e-139 503
27 TraesCS2B01G046900 chr3B 94.737 342 12 6 375 712 814438093 814438432 5.350000e-146 527
28 TraesCS2B01G046900 chr3B 97.674 301 5 2 375 675 766700147 766700445 1.160000e-142 516
29 TraesCS2B01G046900 chr3B 100.000 131 0 0 1 131 766699578 766699708 2.170000e-60 243
30 TraesCS2B01G046900 chr4B 96.309 298 9 2 375 672 673381925 673381630 2.520000e-134 488


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 TraesCS2B01G046900 chr2B 23537092 23539277 2185 True 4037.000000 4037 100.000000 1 2186 1 chr2B.!!$R1 2185
1 TraesCS2B01G046900 chr1A 319189406 319190105 699 False 939.000000 939 91.714000 1 664 1 chr1A.!!$F1 663
2 TraesCS2B01G046900 chr2D 12787232 12788569 1337 True 429.666667 627 86.368333 714 2186 3 chr2D.!!$R2 1472
3 TraesCS2B01G046900 chr6B 120837480 120838131 651 False 530.000000 544 95.364500 1 664 2 chr6B.!!$F1 663
4 TraesCS2B01G046900 chr6A 560645446 560646142 696 False 513.000000 538 92.407000 1 712 2 chr6A.!!$F1 711
5 TraesCS2B01G046900 chr2A 14952830 14954374 1544 True 323.000000 459 85.033750 751 2186 4 chr2A.!!$R3 1435
6 TraesCS2B01G046900 chrUn 13810440 13811096 656 True 517.000000 531 94.455500 1 671 2 chrUn.!!$R2 670
7 TraesCS2B01G046900 chr3B 766699578 766700445 867 False 379.500000 516 98.837000 1 675 2 chr3B.!!$F2 674

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
982 1256 0.248843 GCCAGTCTCTGAGGTGAAGG 59.751 60.0 4.59 2.06 32.44 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2142 2607 0.032952 TAGCGAAAGGTGACGTTGCT 59.967 50.0 7.76 7.76 44.53 3.91 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
377 613 4.329545 TGGAAGACCTGCGTGGCC 62.330 66.667 0.00 0.00 40.22 5.36
385 621 4.856801 CTGCGTGGCCGGCCTATT 62.857 66.667 43.34 0.00 36.94 1.73
386 622 3.454587 CTGCGTGGCCGGCCTATTA 62.455 63.158 43.34 26.25 36.94 0.98
387 623 2.665185 GCGTGGCCGGCCTATTAG 60.665 66.667 43.34 28.83 36.94 1.73
388 624 2.665185 CGTGGCCGGCCTATTAGC 60.665 66.667 43.34 24.33 36.94 3.09
390 626 4.619227 TGGCCGGCCTATTAGCGC 62.619 66.667 43.34 16.73 36.94 5.92
398 634 4.295119 CTATTAGCGCGCGGGGGT 62.295 66.667 33.06 10.67 0.00 4.95
399 635 4.595538 TATTAGCGCGCGGGGGTG 62.596 66.667 33.06 1.90 0.00 4.61
592 836 1.526575 GGATGGCATGGCGGGTAATG 61.527 60.000 15.27 0.00 0.00 1.90
637 881 2.879462 GACGTACGGGCAGAAGCG 60.879 66.667 21.06 0.00 43.41 4.68
745 989 4.085107 GCAATGTTTTCTTGCTGTTAACCG 60.085 41.667 2.48 0.00 44.36 4.44
748 992 3.942748 TGTTTTCTTGCTGTTAACCGTCT 59.057 39.130 2.48 0.00 0.00 4.18
887 1134 3.244215 TGCTAGTAAACAAGTGCTCTGCT 60.244 43.478 0.00 0.00 0.00 4.24
891 1138 2.057137 AAACAAGTGCTCTGCTTCCA 57.943 45.000 0.00 0.00 0.00 3.53
940 1209 6.164876 ACAGAACATCACAAGATTCAGAGAG 58.835 40.000 0.00 0.00 30.20 3.20
941 1210 6.014755 ACAGAACATCACAAGATTCAGAGAGA 60.015 38.462 0.00 0.00 30.20 3.10
942 1211 7.042950 CAGAACATCACAAGATTCAGAGAGAT 58.957 38.462 0.00 0.00 30.20 2.75
943 1212 7.223193 CAGAACATCACAAGATTCAGAGAGATC 59.777 40.741 0.00 0.00 30.20 2.75
948 1217 5.128991 TCACAAGATTCAGAGAGATCAGCAT 59.871 40.000 0.00 0.00 0.00 3.79
968 1242 0.757188 CTCTATCTCCCGGTGCCAGT 60.757 60.000 0.00 0.00 0.00 4.00
973 1247 2.997315 TCCCGGTGCCAGTCTCTG 60.997 66.667 0.00 0.00 0.00 3.35
974 1248 2.997315 CCCGGTGCCAGTCTCTGA 60.997 66.667 0.00 0.00 32.44 3.27
982 1256 0.248843 GCCAGTCTCTGAGGTGAAGG 59.751 60.000 4.59 2.06 32.44 3.46
984 1258 1.551099 CCAGTCTCTGAGGTGAAGGGA 60.551 57.143 4.59 0.00 32.44 4.20
985 1259 2.251818 CAGTCTCTGAGGTGAAGGGAA 58.748 52.381 4.59 0.00 32.44 3.97
986 1260 2.634940 CAGTCTCTGAGGTGAAGGGAAA 59.365 50.000 4.59 0.00 32.44 3.13
987 1261 2.903135 AGTCTCTGAGGTGAAGGGAAAG 59.097 50.000 4.59 0.00 0.00 2.62
989 1263 1.280421 CTCTGAGGTGAAGGGAAAGGG 59.720 57.143 0.00 0.00 0.00 3.95
990 1264 0.329596 CTGAGGTGAAGGGAAAGGGG 59.670 60.000 0.00 0.00 0.00 4.79
991 1265 1.140134 TGAGGTGAAGGGAAAGGGGG 61.140 60.000 0.00 0.00 0.00 5.40
992 1266 2.037367 GGTGAAGGGAAAGGGGGC 59.963 66.667 0.00 0.00 0.00 5.80
993 1267 2.037367 GTGAAGGGAAAGGGGGCC 59.963 66.667 0.00 0.00 0.00 5.80
994 1268 3.657350 TGAAGGGAAAGGGGGCCG 61.657 66.667 0.00 0.00 0.00 6.13
995 1269 3.658422 GAAGGGAAAGGGGGCCGT 61.658 66.667 0.00 0.00 0.00 5.68
1168 1448 3.428282 CCCGCCGCAACAACTACC 61.428 66.667 0.00 0.00 0.00 3.18
1204 1486 2.273449 CAGCCACCCACCCAGATC 59.727 66.667 0.00 0.00 0.00 2.75
1300 1647 2.094170 AAAAGGTCCCCTTCCCTGCC 62.094 60.000 0.00 0.00 43.92 4.85
1303 1650 3.412408 GTCCCCTTCCCTGCCCTC 61.412 72.222 0.00 0.00 0.00 4.30
1304 1651 3.626596 TCCCCTTCCCTGCCCTCT 61.627 66.667 0.00 0.00 0.00 3.69
1357 1728 7.736447 ACATAATTAGCTGAGATTTACTGCC 57.264 36.000 0.00 0.00 33.78 4.85
1358 1729 6.425114 ACATAATTAGCTGAGATTTACTGCCG 59.575 38.462 0.00 0.00 33.78 5.69
1359 1730 2.225068 TAGCTGAGATTTACTGCCGC 57.775 50.000 0.00 0.00 33.78 6.53
1377 1748 1.871772 CTGCTCTGAAGTTTGGCCG 59.128 57.895 0.00 0.00 0.00 6.13
1428 1799 0.247814 CACGATAAGCAAGCAAGCGG 60.248 55.000 9.27 0.00 40.15 5.52
1491 1866 1.228552 TGCTTGTTCCCCTGCCTTC 60.229 57.895 0.00 0.00 0.00 3.46
1502 1877 2.040412 CCCCTGCCTTCTTCTTGTAGTT 59.960 50.000 0.00 0.00 0.00 2.24
1503 1878 3.498661 CCCCTGCCTTCTTCTTGTAGTTT 60.499 47.826 0.00 0.00 0.00 2.66
1504 1879 3.503748 CCCTGCCTTCTTCTTGTAGTTTG 59.496 47.826 0.00 0.00 0.00 2.93
1505 1880 3.057946 CCTGCCTTCTTCTTGTAGTTTGC 60.058 47.826 0.00 0.00 0.00 3.68
1506 1881 3.550820 TGCCTTCTTCTTGTAGTTTGCA 58.449 40.909 0.00 0.00 0.00 4.08
1507 1882 3.315191 TGCCTTCTTCTTGTAGTTTGCAC 59.685 43.478 0.00 0.00 0.00 4.57
1508 1883 3.565902 GCCTTCTTCTTGTAGTTTGCACT 59.434 43.478 0.00 0.00 36.99 4.40
1509 1884 4.555511 GCCTTCTTCTTGTAGTTTGCACTG 60.556 45.833 0.00 0.00 34.06 3.66
1537 1912 3.627577 TGTGCACAAGAAAGAGAACCTTC 59.372 43.478 19.28 0.00 33.02 3.46
1570 1945 1.676006 CGTGGTTGCACCTTCTTTCTT 59.324 47.619 6.83 0.00 39.58 2.52
1590 1969 5.378332 TCTTTTTCTTCGGAAACCATGGTA 58.622 37.500 20.12 0.00 42.77 3.25
1609 1988 7.382488 CCATGGTATAGTTTGATTCAGTCTACG 59.618 40.741 2.57 0.00 0.00 3.51
1612 1991 7.338703 TGGTATAGTTTGATTCAGTCTACGACT 59.661 37.037 0.00 0.00 44.44 4.18
1646 2025 3.884895 TGATTTGATGATACGCCCAACT 58.115 40.909 0.00 0.00 0.00 3.16
1666 2049 5.373812 ACTTAGGGATGGACGAATGAATT 57.626 39.130 0.00 0.00 0.00 2.17
1667 2050 5.126067 ACTTAGGGATGGACGAATGAATTG 58.874 41.667 0.00 0.00 0.00 2.32
1669 2052 4.443978 AGGGATGGACGAATGAATTGAT 57.556 40.909 0.00 0.00 0.00 2.57
1671 2054 3.503748 GGGATGGACGAATGAATTGATCC 59.496 47.826 0.00 0.00 0.00 3.36
1678 2061 3.379372 ACGAATGAATTGATCCAGCAAGG 59.621 43.478 0.00 0.00 39.47 3.61
1679 2062 3.243301 CGAATGAATTGATCCAGCAAGGG 60.243 47.826 0.00 0.00 38.24 3.95
1683 2068 4.355549 TGAATTGATCCAGCAAGGGAAAT 58.644 39.130 0.00 0.00 41.12 2.17
1697 2087 9.090692 CAGCAAGGGAAATAAAGATGTTAATTG 57.909 33.333 0.00 0.00 0.00 2.32
1748 2176 6.708054 CCTATTTTATAGTGCTCCTGACCAAG 59.292 42.308 0.00 0.00 0.00 3.61
1764 2192 5.573219 TGACCAAGAGAAATGGATGTTGAT 58.427 37.500 0.00 0.00 40.56 2.57
1766 2194 4.159135 ACCAAGAGAAATGGATGTTGATGC 59.841 41.667 0.00 0.00 40.56 3.91
1797 2225 4.385358 ACGCTAAATTAAATGGCTTGGG 57.615 40.909 0.00 0.00 0.00 4.12
1806 2234 0.906775 AATGGCTTGGGAATTGCCTG 59.093 50.000 17.69 10.87 46.23 4.85
1807 2235 0.979187 ATGGCTTGGGAATTGCCTGG 60.979 55.000 17.69 10.48 46.23 4.45
1808 2236 2.361567 GGCTTGGGAATTGCCTGGG 61.362 63.158 17.69 8.10 43.05 4.45
1830 2262 5.204101 GGAATTTGTTTTGTTCGGCAAATG 58.796 37.500 6.84 0.00 45.38 2.32
1831 2263 5.007136 GGAATTTGTTTTGTTCGGCAAATGA 59.993 36.000 6.84 0.00 45.38 2.57
1832 2264 6.428385 AATTTGTTTTGTTCGGCAAATGAA 57.572 29.167 6.84 4.15 45.38 2.57
1835 2267 7.539712 TTTGTTTTGTTCGGCAAATGAATTA 57.460 28.000 6.84 0.00 45.38 1.40
1836 2268 7.721286 TTGTTTTGTTCGGCAAATGAATTAT 57.279 28.000 6.84 0.00 45.38 1.28
1838 2270 7.571026 TGTTTTGTTCGGCAAATGAATTATTG 58.429 30.769 6.84 0.00 45.38 1.90
1841 2273 5.788450 TGTTCGGCAAATGAATTATTGGTT 58.212 33.333 0.00 0.00 0.00 3.67
1842 2274 6.226787 TGTTCGGCAAATGAATTATTGGTTT 58.773 32.000 0.00 0.00 0.00 3.27
1844 2276 5.098893 TCGGCAAATGAATTATTGGTTTCG 58.901 37.500 0.00 0.00 0.00 3.46
1849 2281 6.560251 GCAAATGAATTATTGGTTTCGCGATC 60.560 38.462 10.88 6.44 0.00 3.69
1929 2371 1.566018 GAGGTTGTGAAAGGCGACGG 61.566 60.000 0.00 0.00 0.00 4.79
1958 2405 0.677288 TTACTCTGTCCACACACGGG 59.323 55.000 0.00 0.00 0.00 5.28
1974 2421 0.179234 CGGGCACACCACACCATATA 59.821 55.000 0.00 0.00 40.22 0.86
1975 2422 1.202758 CGGGCACACCACACCATATAT 60.203 52.381 0.00 0.00 40.22 0.86
1976 2423 2.037902 CGGGCACACCACACCATATATA 59.962 50.000 0.00 0.00 40.22 0.86
1977 2424 3.307410 CGGGCACACCACACCATATATAT 60.307 47.826 0.00 0.00 40.22 0.86
1980 2427 6.183360 CGGGCACACCACACCATATATATATA 60.183 42.308 4.90 4.92 40.22 0.86
1981 2428 7.472804 CGGGCACACCACACCATATATATATAT 60.473 40.741 9.12 9.12 40.22 0.86
1982 2429 8.876181 GGGCACACCACACCATATATATATATA 58.124 37.037 13.72 13.60 39.85 0.86
2139 2604 0.811219 GCATATGCACCTCGCTGTCA 60.811 55.000 22.84 0.00 43.06 3.58
2142 2607 0.894835 TATGCACCTCGCTGTCAAGA 59.105 50.000 0.00 0.00 43.06 3.02
2143 2608 0.390866 ATGCACCTCGCTGTCAAGAG 60.391 55.000 0.00 0.00 43.06 2.85
2144 2609 2.386660 GCACCTCGCTGTCAAGAGC 61.387 63.158 0.00 0.00 37.77 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
381 617 4.295119 ACCCCCGCGCGCTAATAG 62.295 66.667 30.48 15.91 0.00 1.73
382 618 4.595538 CACCCCCGCGCGCTAATA 62.596 66.667 30.48 0.00 0.00 0.98
398 634 2.616797 TTTGCCACGCAGGTCTTCCA 62.617 55.000 0.00 0.00 40.61 3.53
399 635 1.452145 TTTTGCCACGCAGGTCTTCC 61.452 55.000 0.00 0.00 40.61 3.46
400 636 0.383949 TTTTTGCCACGCAGGTCTTC 59.616 50.000 0.00 0.00 40.61 2.87
401 637 0.385390 CTTTTTGCCACGCAGGTCTT 59.615 50.000 0.00 0.00 40.61 3.01
403 639 1.007387 CCTTTTTGCCACGCAGGTC 60.007 57.895 0.00 0.00 40.61 3.85
404 640 1.756561 ACCTTTTTGCCACGCAGGT 60.757 52.632 0.00 0.00 40.61 4.00
745 989 0.678048 GGGCCCACATGTCAGAAGAC 60.678 60.000 19.95 0.00 45.19 3.01
748 992 2.763215 GGGGCCCACATGTCAGAA 59.237 61.111 26.86 0.00 0.00 3.02
887 1134 0.699577 TGTGGAGAAAGGGGGTGGAA 60.700 55.000 0.00 0.00 0.00 3.53
891 1138 1.481056 CGACTGTGGAGAAAGGGGGT 61.481 60.000 0.00 0.00 0.00 4.95
940 1209 2.426738 CCGGGAGATAGAGATGCTGATC 59.573 54.545 0.00 0.00 0.00 2.92
941 1210 2.225242 ACCGGGAGATAGAGATGCTGAT 60.225 50.000 6.32 0.00 0.00 2.90
942 1211 1.145945 ACCGGGAGATAGAGATGCTGA 59.854 52.381 6.32 0.00 0.00 4.26
943 1212 1.271934 CACCGGGAGATAGAGATGCTG 59.728 57.143 6.32 0.00 0.00 4.41
948 1217 0.468214 CTGGCACCGGGAGATAGAGA 60.468 60.000 6.32 0.00 0.00 3.10
968 1242 2.260822 CCTTTCCCTTCACCTCAGAGA 58.739 52.381 0.00 0.00 0.00 3.10
973 1247 1.691823 CCCCCTTTCCCTTCACCTC 59.308 63.158 0.00 0.00 0.00 3.85
974 1248 2.548547 GCCCCCTTTCCCTTCACCT 61.549 63.158 0.00 0.00 0.00 4.00
1193 1475 1.379044 GCTGGTTGATCTGGGTGGG 60.379 63.158 0.00 0.00 0.00 4.61
1224 1546 1.283793 GTCGACGGTCAAACCTCGA 59.716 57.895 9.10 13.14 41.79 4.04
1249 1571 4.737649 GCATCATCGATCTTCCACAGTACA 60.738 45.833 0.00 0.00 0.00 2.90
1293 1640 0.117140 TGAGAGAAAGAGGGCAGGGA 59.883 55.000 0.00 0.00 0.00 4.20
1295 1642 2.504996 AGATTGAGAGAAAGAGGGCAGG 59.495 50.000 0.00 0.00 0.00 4.85
1335 1706 5.409826 GCGGCAGTAAATCTCAGCTAATTAT 59.590 40.000 0.00 0.00 0.00 1.28
1357 1728 1.208614 GCCAAACTTCAGAGCAGCG 59.791 57.895 0.00 0.00 0.00 5.18
1358 1729 1.583477 GGCCAAACTTCAGAGCAGC 59.417 57.895 0.00 0.00 0.00 5.25
1359 1730 0.886490 ACGGCCAAACTTCAGAGCAG 60.886 55.000 2.24 0.00 0.00 4.24
1377 1748 2.260869 ACTTGTGTGGCATGGCGAC 61.261 57.895 15.27 13.83 37.76 5.19
1436 1807 3.561503 TCTGCATTTATATCGTCGACCG 58.438 45.455 10.58 5.50 38.13 4.79
1470 1845 3.365265 GCAGGGGAACAAGCACGG 61.365 66.667 0.00 0.00 0.00 4.94
1472 1847 1.527433 GAAGGCAGGGGAACAAGCAC 61.527 60.000 0.00 0.00 33.82 4.40
1491 1866 4.274459 AGAAGCAGTGCAAACTACAAGAAG 59.726 41.667 19.20 0.00 0.00 2.85
1530 1905 4.446051 CACGAAGAACTCAGAAGAAGGTTC 59.554 45.833 0.00 0.00 38.51 3.62
1531 1906 4.372656 CACGAAGAACTCAGAAGAAGGTT 58.627 43.478 0.00 0.00 0.00 3.50
1537 1912 2.221981 GCAACCACGAAGAACTCAGAAG 59.778 50.000 0.00 0.00 0.00 2.85
1570 1945 6.478129 ACTATACCATGGTTTCCGAAGAAAA 58.522 36.000 25.38 0.00 43.48 2.29
1629 2008 3.433031 CCCTAAGTTGGGCGTATCATCAA 60.433 47.826 0.00 0.00 40.84 2.57
1639 2018 0.463833 CGTCCATCCCTAAGTTGGGC 60.464 60.000 0.00 0.00 46.67 5.36
1646 2025 5.366482 TCAATTCATTCGTCCATCCCTAA 57.634 39.130 0.00 0.00 0.00 2.69
1651 2030 4.320057 GCTGGATCAATTCATTCGTCCATC 60.320 45.833 0.00 0.00 35.41 3.51
1666 2049 5.191727 TCTTTATTTCCCTTGCTGGATCA 57.808 39.130 0.00 0.00 38.35 2.92
1667 2050 5.595952 ACATCTTTATTTCCCTTGCTGGATC 59.404 40.000 0.00 0.00 38.35 3.36
1669 2052 4.934356 ACATCTTTATTTCCCTTGCTGGA 58.066 39.130 0.00 0.00 38.35 3.86
1671 2054 9.090692 CAATTAACATCTTTATTTCCCTTGCTG 57.909 33.333 0.00 0.00 0.00 4.41
1683 2068 7.487822 TGGGCCATTTCAATTAACATCTTTA 57.512 32.000 0.00 0.00 0.00 1.85
1697 2087 1.737735 GTGCGCTTTGGGCCATTTC 60.738 57.895 7.26 0.00 40.86 2.17
1703 2093 2.566529 GGTAAGTGCGCTTTGGGC 59.433 61.111 19.18 6.44 41.94 5.36
1704 2094 2.340328 GGGGTAAGTGCGCTTTGGG 61.340 63.158 19.18 0.00 36.22 4.12
1738 2166 3.588842 ACATCCATTTCTCTTGGTCAGGA 59.411 43.478 0.00 0.00 35.64 3.86
1748 2176 6.161381 ACAAAAGCATCAACATCCATTTCTC 58.839 36.000 0.00 0.00 0.00 2.87
1764 2192 8.695284 CATTTAATTTAGCGTACAACAAAAGCA 58.305 29.630 0.00 0.00 0.00 3.91
1766 2194 8.159709 GCCATTTAATTTAGCGTACAACAAAAG 58.840 33.333 0.00 0.00 0.00 2.27
1797 2225 4.821260 ACAAAACAAATTCCCAGGCAATTC 59.179 37.500 0.00 0.00 0.00 2.17
1806 2234 2.827652 TGCCGAACAAAACAAATTCCC 58.172 42.857 0.00 0.00 0.00 3.97
1807 2235 4.866682 TTTGCCGAACAAAACAAATTCC 57.133 36.364 1.65 0.00 45.22 3.01
1830 2262 4.446857 TCGATCGCGAAACCAATAATTC 57.553 40.909 15.24 0.09 44.78 2.17
1842 2274 1.068402 TGTAGTTTGGTTCGATCGCGA 60.068 47.619 13.09 13.09 46.33 5.87
1844 2276 2.063266 TGTGTAGTTTGGTTCGATCGC 58.937 47.619 11.09 0.00 0.00 4.58
1849 2281 3.122948 CGAGGAATGTGTAGTTTGGTTCG 59.877 47.826 0.00 0.00 0.00 3.95
1914 2355 3.342627 CGCCGTCGCCTTTCACAA 61.343 61.111 0.00 0.00 0.00 3.33
1929 2371 1.050767 GACAGAGTAACACACGTCGC 58.949 55.000 0.00 0.00 0.00 5.19
1989 2436 9.941664 CTGAATCGATAAGTTGCATTTTCTATT 57.058 29.630 0.00 0.00 0.00 1.73
1990 2437 8.072567 GCTGAATCGATAAGTTGCATTTTCTAT 58.927 33.333 0.00 0.00 0.00 1.98
1992 2439 6.261118 GCTGAATCGATAAGTTGCATTTTCT 58.739 36.000 0.00 0.00 0.00 2.52
1993 2440 5.456822 GGCTGAATCGATAAGTTGCATTTTC 59.543 40.000 0.00 0.00 0.00 2.29
1994 2441 5.343249 GGCTGAATCGATAAGTTGCATTTT 58.657 37.500 0.00 0.00 0.00 1.82
2084 2545 5.717038 TCTGACGTATGCATTGTGTTATG 57.283 39.130 3.54 0.00 0.00 1.90
2085 2546 5.175673 CGATCTGACGTATGCATTGTGTTAT 59.824 40.000 3.54 0.00 0.00 1.89
2086 2547 4.502645 CGATCTGACGTATGCATTGTGTTA 59.497 41.667 3.54 0.00 0.00 2.41
2087 2548 3.306973 CGATCTGACGTATGCATTGTGTT 59.693 43.478 3.54 0.00 0.00 3.32
2088 2549 2.860136 CGATCTGACGTATGCATTGTGT 59.140 45.455 3.54 0.48 0.00 3.72
2139 2604 1.217882 CGAAAGGTGACGTTGCTCTT 58.782 50.000 0.00 0.00 29.98 2.85
2142 2607 0.032952 TAGCGAAAGGTGACGTTGCT 59.967 50.000 7.76 7.76 44.53 3.91
2143 2608 0.863144 TTAGCGAAAGGTGACGTTGC 59.137 50.000 0.00 0.00 44.53 4.17
2144 2609 3.246699 TCTTTTAGCGAAAGGTGACGTTG 59.753 43.478 13.36 0.00 44.00 4.10


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

AutoCloner maintained by Alex Coulton.