Multiple sequence alignment - TraesCS5B01G423100

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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 TraesCS5B01G423100 chr5B 100.000 2602 0 0 1 2602 599652971 599650370 0.000000e+00 4806
1 TraesCS5B01G423100 chr5D 90.630 1729 89 24 1 1684 487288311 487286611 0.000000e+00 2228
2 TraesCS5B01G423100 chr5D 78.006 682 115 20 1928 2580 487283906 487283231 1.880000e-106 396
3 TraesCS5B01G423100 chr5A 88.333 1140 70 21 11 1130 607680995 607679899 0.000000e+00 1310
4 TraesCS5B01G423100 chr5A 92.082 682 47 6 1925 2602 607678597 607677919 0.000000e+00 953
5 TraesCS5B01G423100 chr5A 89.838 679 52 9 1217 1885 607679844 607679173 0.000000e+00 856


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 TraesCS5B01G423100 chr5B 599650370 599652971 2601 True 4806.000000 4806 100.000000 1 2602 1 chr5B.!!$R1 2601
1 TraesCS5B01G423100 chr5D 487283231 487288311 5080 True 1312.000000 2228 84.318000 1 2580 2 chr5D.!!$R1 2579
2 TraesCS5B01G423100 chr5A 607677919 607680995 3076 True 1039.666667 1310 90.084333 11 2602 3 chr5A.!!$R1 2591

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
924 954 0.457853 CGACGACACCCGACATGAAT 60.458 55.0 0.0 0.0 41.76 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2319 5338 0.246635 TCGCAGTAGCCTCAACTTCC 59.753 55.0 0.0 0.0 37.52 3.46 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
86 87 3.392616 ACCCAAGGACATATGACCTCATC 59.607 47.826 24.10 3.91 39.21 2.92
182 183 7.307396 CGGTAGAACTTGTTGGCTGATATTATG 60.307 40.741 0.00 0.00 0.00 1.90
189 190 7.776969 ACTTGTTGGCTGATATTATGTGATCTT 59.223 33.333 0.00 0.00 0.00 2.40
278 286 3.183754 CGCAGTTATAATCCGTGACACA 58.816 45.455 6.37 0.00 0.00 3.72
284 292 6.535150 CAGTTATAATCCGTGACACAGTTGAT 59.465 38.462 6.37 0.00 0.00 2.57
334 342 3.558674 CCATGAGGTGGGAGACAAC 57.441 57.895 0.00 0.00 44.79 3.32
468 476 4.274147 TCTCGCTTCTCTTCAGGATAACT 58.726 43.478 0.00 0.00 0.00 2.24
477 485 5.548056 TCTCTTCAGGATAACTTTTGTCCCT 59.452 40.000 0.00 0.00 41.44 4.20
508 516 3.671459 TCGTTGCAAGTACACATTAGACG 59.329 43.478 0.00 0.00 0.00 4.18
551 562 3.070018 CAAGCCAGTGACAAACTAGAGG 58.930 50.000 0.00 0.00 36.83 3.69
552 563 2.609747 AGCCAGTGACAAACTAGAGGA 58.390 47.619 0.00 0.00 36.83 3.71
553 564 2.564947 AGCCAGTGACAAACTAGAGGAG 59.435 50.000 0.00 0.00 36.83 3.69
554 565 2.563179 GCCAGTGACAAACTAGAGGAGA 59.437 50.000 0.00 0.00 36.83 3.71
555 566 3.367910 GCCAGTGACAAACTAGAGGAGAG 60.368 52.174 0.00 0.00 36.83 3.20
556 567 3.829601 CCAGTGACAAACTAGAGGAGAGT 59.170 47.826 0.00 0.00 36.83 3.24
557 568 5.010933 CCAGTGACAAACTAGAGGAGAGTA 58.989 45.833 0.00 0.00 36.83 2.59
558 569 5.477291 CCAGTGACAAACTAGAGGAGAGTAA 59.523 44.000 0.00 0.00 36.83 2.24
636 647 8.963130 TGCTGTATTCTTGTTTATTTTTGTTCG 58.037 29.630 0.00 0.00 0.00 3.95
661 672 9.694520 CGTGTTGTATCTTAGAAATTCATGAAG 57.305 33.333 14.54 0.00 0.00 3.02
805 833 3.325753 GCTGCCCTCCACCTGTCT 61.326 66.667 0.00 0.00 0.00 3.41
836 864 1.270147 CCAGCGGCCAGGTAGTAATAC 60.270 57.143 2.24 0.00 0.00 1.89
921 951 1.800315 GACGACGACACCCGACATG 60.800 63.158 0.00 0.00 41.76 3.21
922 952 2.191354 GACGACGACACCCGACATGA 62.191 60.000 0.00 0.00 41.76 3.07
924 954 0.457853 CGACGACACCCGACATGAAT 60.458 55.000 0.00 0.00 41.76 2.57
1025 1072 0.535335 GACCAACGTAGAGGCCATCA 59.465 55.000 5.01 0.00 0.00 3.07
1041 1088 2.621998 CCATCATCTCCAATCACAAGGC 59.378 50.000 0.00 0.00 0.00 4.35
1044 1091 2.092753 TCATCTCCAATCACAAGGCCTC 60.093 50.000 5.23 0.00 0.00 4.70
1061 1108 2.677902 GCCTCGGTGATGTTGAAGATGA 60.678 50.000 0.00 0.00 0.00 2.92
1092 1139 1.817099 GGAGCTCCGGCAAGACATG 60.817 63.158 19.06 0.00 41.70 3.21
1108 1155 0.254178 CATGGGTACTGCTCCAGCTT 59.746 55.000 0.00 0.00 42.66 3.74
1148 1203 6.615088 TCTTTCTTGCAGCACTCATAATTTC 58.385 36.000 0.00 0.00 0.00 2.17
1155 1210 5.824429 GCAGCACTCATAATTTCTGCATAA 58.176 37.500 7.10 0.00 44.36 1.90
1171 1226 7.615582 TCTGCATAAACTTGTAAATCCTCTG 57.384 36.000 0.00 0.00 0.00 3.35
1174 1230 6.599244 TGCATAAACTTGTAAATCCTCTGGAG 59.401 38.462 0.00 0.00 34.05 3.86
1184 1240 2.859165 TCCTCTGGAGCGAACAATTT 57.141 45.000 0.00 0.00 0.00 1.82
1191 1247 5.972935 TCTGGAGCGAACAATTTATGACTA 58.027 37.500 0.00 0.00 0.00 2.59
1192 1248 6.042777 TCTGGAGCGAACAATTTATGACTAG 58.957 40.000 0.00 0.00 0.00 2.57
1194 1250 4.570772 GGAGCGAACAATTTATGACTAGCA 59.429 41.667 0.00 0.00 0.00 3.49
1199 1255 5.276395 CGAACAATTTATGACTAGCACCTCG 60.276 44.000 0.00 0.00 0.00 4.63
1215 1273 1.798813 CCTCGACTGTGGTTTGTAAGC 59.201 52.381 0.00 0.00 0.00 3.09
1222 1282 7.718525 TCGACTGTGGTTTGTAAGCATATATA 58.281 34.615 0.00 0.00 41.44 0.86
1230 1290 9.806448 TGGTTTGTAAGCATATATATTGACCAT 57.194 29.630 0.00 0.00 33.29 3.55
1271 1331 0.039165 GGCCGCTTTTGAGGAACTTG 60.039 55.000 0.00 0.00 41.55 3.16
1290 1357 7.917505 GGAACTTGAGCCTAATTATTGTTGATG 59.082 37.037 0.00 0.00 0.00 3.07
1319 1386 9.450807 CTTTGTCCTTGTGTTTGAACTAATTAG 57.549 33.333 11.05 11.05 0.00 1.73
1325 1392 6.909550 TGTGTTTGAACTAATTAGGCCAAT 57.090 33.333 16.73 0.00 0.00 3.16
1326 1393 7.296628 TGTGTTTGAACTAATTAGGCCAATT 57.703 32.000 16.73 11.64 40.10 2.32
1327 1394 8.410673 TGTGTTTGAACTAATTAGGCCAATTA 57.589 30.769 16.73 12.16 37.93 1.40
1357 1424 8.754230 TCAAGCTAATTATCATCATTCTCTCG 57.246 34.615 0.00 0.00 0.00 4.04
1367 1434 4.281941 TCATCATTCTCTCGATTAGGGTGG 59.718 45.833 0.00 0.00 0.00 4.61
1373 1440 0.462047 CTCGATTAGGGTGGTGTGGC 60.462 60.000 0.00 0.00 0.00 5.01
1375 1442 2.045340 ATTAGGGTGGTGTGGCGC 60.045 61.111 0.00 0.00 0.00 6.53
1410 1477 2.662156 GCGGTCGAAAACAAGACTAGAG 59.338 50.000 0.00 0.00 37.52 2.43
1413 1480 3.554337 GGTCGAAAACAAGACTAGAGCCA 60.554 47.826 0.00 0.00 37.52 4.75
1423 1490 3.622630 AGACTAGAGCCATCGTACTTGT 58.377 45.455 0.00 0.00 0.00 3.16
1475 1542 2.831742 CTCTTGGGCGCATGGCAT 60.832 61.111 10.83 0.00 46.16 4.40
1499 1566 2.366972 CGGGTTGGAGGAGGGGAT 60.367 66.667 0.00 0.00 0.00 3.85
1520 1587 4.970662 TTGCATAGCAAGAAGGTTGATC 57.029 40.909 0.00 0.00 43.99 2.92
1559 1626 2.355209 GGTTCTGGAGGGTCTTCATGTC 60.355 54.545 0.00 0.00 0.00 3.06
1577 1644 4.855715 TGTCGAGACTCATCTTGTTCTT 57.144 40.909 2.82 0.00 37.58 2.52
1719 2766 1.454201 TTTGACGGTGTCACAAAGCA 58.546 45.000 5.12 0.00 42.60 3.91
1724 2772 1.877443 ACGGTGTCACAAAGCATAACC 59.123 47.619 5.12 0.00 0.00 2.85
1725 2773 1.876799 CGGTGTCACAAAGCATAACCA 59.123 47.619 5.12 0.00 0.00 3.67
1726 2774 2.487762 CGGTGTCACAAAGCATAACCAT 59.512 45.455 5.12 0.00 0.00 3.55
1812 2868 2.267681 ATCGTGTCGCTCTCGGGAAC 62.268 60.000 0.00 0.00 33.56 3.62
1882 2940 4.012319 GCTAATCATGCCATAGATTGCG 57.988 45.455 10.63 5.38 36.07 4.85
1912 3245 1.683917 CTTGTCCCTCGTATGCTAGCT 59.316 52.381 17.23 4.07 0.00 3.32
1992 4986 3.567663 GGGTCTGGGATAGATGAGGCTAT 60.568 52.174 0.00 0.00 37.83 2.97
2026 5020 2.656560 CTCCGACTTCGATTGGAGTT 57.343 50.000 12.55 0.00 43.15 3.01
2027 5021 2.531206 CTCCGACTTCGATTGGAGTTC 58.469 52.381 12.55 0.00 43.15 3.01
2051 5045 3.986006 GTGGCGTCGTGGAGGTGA 61.986 66.667 0.00 0.00 0.00 4.02
2091 5087 3.610821 CGTGTTAGTTCTCACCATCGTGA 60.611 47.826 0.00 0.00 46.91 4.35
2114 5110 3.006967 TCAAGACACTCTAGGGAAACTGC 59.993 47.826 0.00 0.00 0.00 4.40
2139 5135 5.713861 AGATTTGGTTCTGGATTGGAAGAAG 59.286 40.000 0.00 0.00 33.21 2.85
2186 5182 2.158623 TGTGGAGCACTGTTTTGGAGAT 60.159 45.455 0.00 0.00 35.11 2.75
2206 5202 0.474660 GGATATGGCTGGAGGGACCT 60.475 60.000 0.00 0.00 39.86 3.85
2216 5212 0.618968 GGAGGGACCTGTGACCAGAT 60.619 60.000 0.00 0.00 41.50 2.90
2246 5242 2.016318 CATTGGGAGCTTGCGTATCAA 58.984 47.619 0.00 0.00 0.00 2.57
2259 5255 2.476185 GCGTATCAAAGTTCGCAGCAAT 60.476 45.455 0.00 0.00 46.40 3.56
2318 5337 0.323087 TCGTAGTGTGCCTGCTCCTA 60.323 55.000 0.00 0.00 0.00 2.94
2319 5338 0.101399 CGTAGTGTGCCTGCTCCTAG 59.899 60.000 0.00 0.00 0.00 3.02
2325 5344 0.615850 GTGCCTGCTCCTAGGAAGTT 59.384 55.000 13.77 0.00 40.42 2.66
2328 5347 1.134551 GCCTGCTCCTAGGAAGTTGAG 60.135 57.143 13.77 0.61 40.42 3.02
2336 5355 2.159028 CCTAGGAAGTTGAGGCTACTGC 60.159 54.545 1.05 0.00 38.76 4.40
2369 5388 4.937620 CCAGAGCACATGTTACATGTAGTT 59.062 41.667 27.53 19.49 0.00 2.24
2376 5395 8.932791 AGCACATGTTACATGTAGTTAACTTAC 58.067 33.333 27.53 10.27 0.00 2.34
2380 5399 9.131416 CATGTTACATGTAGTTAACTTACGACA 57.869 33.333 14.49 12.18 37.89 4.35
2440 5460 1.418373 GCCTCCAACAACGAATTTGC 58.582 50.000 0.00 0.00 39.01 3.68
2474 5494 2.020720 TGTGTGGCCAACTGTTTAGTG 58.979 47.619 7.24 0.00 37.19 2.74
2486 5506 7.569226 GCCAACTGTTTAGTGCATAAAACAATG 60.569 37.037 22.25 21.51 43.06 2.82
2499 5519 3.508845 AAACAATGTGGACTAGCAGGT 57.491 42.857 0.00 0.00 0.00 4.00
2506 5526 4.254721 GACTAGCAGGTCCCGCTA 57.745 61.111 6.64 6.64 40.96 4.26
2587 5608 3.998672 GGACCGACACCGCTCCAA 61.999 66.667 0.00 0.00 39.66 3.53
2589 5610 4.309950 ACCGACACCGCTCCAACC 62.310 66.667 0.00 0.00 0.00 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 87 2.002586 CTGAAGACACCGTTAGCATGG 58.997 52.381 0.00 0.00 34.78 3.66
278 286 4.074970 CCACCTTTACAAGAGCATCAACT 58.925 43.478 0.00 0.00 37.82 3.16
284 292 4.431416 TTTCTCCACCTTTACAAGAGCA 57.569 40.909 0.00 0.00 0.00 4.26
468 476 1.452145 GAACGCTGCCAGGGACAAAA 61.452 55.000 16.43 0.00 31.91 2.44
477 485 3.179869 CTTGCAACGAACGCTGCCA 62.180 57.895 17.47 7.90 36.48 4.92
508 516 2.987821 GTTCTTCAGTTCTCTACACGCC 59.012 50.000 0.00 0.00 0.00 5.68
661 672 2.485814 GGAAACAGCAATGTCTCTCCAC 59.514 50.000 0.00 0.00 0.00 4.02
836 864 3.008375 CCCATGGGTGATGTCCACTATAG 59.992 52.174 23.93 0.00 45.03 1.31
878 908 3.710722 AGCCTCCGCTCACCTTGG 61.711 66.667 0.00 0.00 43.95 3.61
916 946 6.149633 GGGGCGTATCAAAAATATTCATGTC 58.850 40.000 0.00 0.00 0.00 3.06
918 948 6.083098 TGGGGCGTATCAAAAATATTCATG 57.917 37.500 0.00 0.00 0.00 3.07
921 951 4.558697 GCCTGGGGCGTATCAAAAATATTC 60.559 45.833 0.00 0.00 39.62 1.75
922 952 3.320826 GCCTGGGGCGTATCAAAAATATT 59.679 43.478 0.00 0.00 39.62 1.28
924 954 2.303175 GCCTGGGGCGTATCAAAAATA 58.697 47.619 0.00 0.00 39.62 1.40
1025 1072 1.134280 CGAGGCCTTGTGATTGGAGAT 60.134 52.381 6.77 0.00 0.00 2.75
1041 1088 2.932614 GTCATCTTCAACATCACCGAGG 59.067 50.000 0.00 0.00 0.00 4.63
1044 1091 1.660607 CGGTCATCTTCAACATCACCG 59.339 52.381 0.00 0.00 39.38 4.94
1092 1139 1.308783 GCAAAGCTGGAGCAGTACCC 61.309 60.000 0.65 0.00 45.16 3.69
1125 1172 6.527023 CAGAAATTATGAGTGCTGCAAGAAAG 59.473 38.462 2.77 0.00 34.07 2.62
1127 1174 5.620654 GCAGAAATTATGAGTGCTGCAAGAA 60.621 40.000 12.66 0.00 45.78 2.52
1129 1176 4.103357 GCAGAAATTATGAGTGCTGCAAG 58.897 43.478 12.66 0.00 45.78 4.01
1148 1203 6.599244 TCCAGAGGATTTACAAGTTTATGCAG 59.401 38.462 0.00 0.00 0.00 4.41
1155 1210 3.260884 TCGCTCCAGAGGATTTACAAGTT 59.739 43.478 0.00 0.00 0.00 2.66
1166 1221 4.034510 GTCATAAATTGTTCGCTCCAGAGG 59.965 45.833 0.00 0.00 0.00 3.69
1167 1222 4.872691 AGTCATAAATTGTTCGCTCCAGAG 59.127 41.667 0.00 0.00 0.00 3.35
1168 1223 4.832248 AGTCATAAATTGTTCGCTCCAGA 58.168 39.130 0.00 0.00 0.00 3.86
1171 1226 4.570772 TGCTAGTCATAAATTGTTCGCTCC 59.429 41.667 0.00 0.00 0.00 4.70
1174 1230 4.332819 AGGTGCTAGTCATAAATTGTTCGC 59.667 41.667 0.00 0.00 0.00 4.70
1184 1240 2.683362 CACAGTCGAGGTGCTAGTCATA 59.317 50.000 4.40 0.00 0.00 2.15
1191 1247 0.532862 CAAACCACAGTCGAGGTGCT 60.533 55.000 10.83 0.00 36.09 4.40
1192 1248 0.814010 ACAAACCACAGTCGAGGTGC 60.814 55.000 10.83 0.00 36.09 5.01
1194 1250 2.805657 GCTTACAAACCACAGTCGAGGT 60.806 50.000 0.00 0.00 37.77 3.85
1215 1273 8.618677 GTGCTGGATTCATGGTCAATATATATG 58.381 37.037 0.00 0.00 0.00 1.78
1222 1282 2.019249 CGTGCTGGATTCATGGTCAAT 58.981 47.619 0.00 0.00 0.00 2.57
1230 1290 1.291184 CGTTCAGCGTGCTGGATTCA 61.291 55.000 20.78 0.00 43.75 2.57
1231 1291 1.421485 CGTTCAGCGTGCTGGATTC 59.579 57.895 20.78 1.54 43.75 2.52
1252 1312 0.039165 CAAGTTCCTCAAAAGCGGCC 60.039 55.000 0.00 0.00 0.00 6.13
1271 1331 9.294030 CAAAGAACATCAACAATAATTAGGCTC 57.706 33.333 0.00 0.00 0.00 4.70
1290 1357 5.709966 AGTTCAAACACAAGGACAAAGAAC 58.290 37.500 0.00 0.00 34.61 3.01
1357 1424 2.112815 GCGCCACACCACCCTAATC 61.113 63.158 0.00 0.00 0.00 1.75
1410 1477 2.612212 CCATAACCACAAGTACGATGGC 59.388 50.000 11.64 0.00 36.96 4.40
1413 1480 5.981315 CGATTACCATAACCACAAGTACGAT 59.019 40.000 0.00 0.00 0.00 3.73
1423 1490 3.649023 ACATAGGCCGATTACCATAACCA 59.351 43.478 0.00 0.00 0.00 3.67
1475 1542 0.821711 CTCCTCCAACCCGTTTTGCA 60.822 55.000 0.00 0.00 0.00 4.08
1499 1566 3.374988 CGATCAACCTTCTTGCTATGCAA 59.625 43.478 4.87 4.87 46.80 4.08
1520 1587 1.442769 CCACACATTTGGTCTCCTCG 58.557 55.000 0.00 0.00 0.00 4.63
1559 1626 3.677121 CACCAAGAACAAGATGAGTCTCG 59.323 47.826 0.00 0.00 32.15 4.04
1577 1644 2.425592 CACGAGGGCTTGTCACCA 59.574 61.111 0.00 0.00 0.00 4.17
1653 1720 2.949177 AACACACCATAGGAGCACAA 57.051 45.000 0.00 0.00 0.00 3.33
1655 1722 6.037172 CACTAAATAACACACCATAGGAGCAC 59.963 42.308 0.00 0.00 0.00 4.40
1719 2766 7.557875 AATATTTGGGCAGCATTATGGTTAT 57.442 32.000 0.00 0.00 0.00 1.89
1724 2772 7.972832 ATTCAAATATTTGGGCAGCATTATG 57.027 32.000 24.40 0.00 38.66 1.90
1725 2773 9.661563 CATATTCAAATATTTGGGCAGCATTAT 57.338 29.630 24.40 9.84 38.66 1.28
1726 2774 8.095792 CCATATTCAAATATTTGGGCAGCATTA 58.904 33.333 24.40 8.29 38.66 1.90
1768 2817 3.900388 ACTCTAGTGACTCAACACGTC 57.100 47.619 0.00 0.00 44.35 4.34
1825 2881 0.322456 GCTACATGTGTGCCCCAAGA 60.322 55.000 9.11 0.00 0.00 3.02
1826 2882 1.315257 GGCTACATGTGTGCCCCAAG 61.315 60.000 25.20 8.21 36.73 3.61
1827 2883 1.304052 GGCTACATGTGTGCCCCAA 60.304 57.895 25.20 0.00 36.73 4.12
1828 2884 2.074113 TTGGCTACATGTGTGCCCCA 62.074 55.000 29.45 19.22 39.68 4.96
1829 2885 1.304052 TTGGCTACATGTGTGCCCC 60.304 57.895 29.45 15.09 39.68 5.80
1833 2889 3.149196 ACTTTCCTTGGCTACATGTGTG 58.851 45.455 9.11 2.27 0.00 3.82
1834 2890 3.508845 ACTTTCCTTGGCTACATGTGT 57.491 42.857 9.11 0.00 0.00 3.72
1835 2891 4.832248 TCTACTTTCCTTGGCTACATGTG 58.168 43.478 9.11 0.00 0.00 3.21
1839 2895 4.101119 GCCTATCTACTTTCCTTGGCTACA 59.899 45.833 0.00 0.00 36.52 2.74
1901 3234 4.424626 TCTTCAAGAACAGCTAGCATACG 58.575 43.478 18.83 4.69 0.00 3.06
1912 3245 2.956333 TCGACTCACCTCTTCAAGAACA 59.044 45.455 0.00 0.00 0.00 3.18
2026 5020 3.687102 ACGACGCCACCATTCCGA 61.687 61.111 0.00 0.00 0.00 4.55
2027 5021 3.487202 CACGACGCCACCATTCCG 61.487 66.667 0.00 0.00 0.00 4.30
2051 5045 3.181458 ACACGACACCTCCAACAAGTTAT 60.181 43.478 0.00 0.00 0.00 1.89
2091 5087 4.323104 GCAGTTTCCCTAGAGTGTCTTGAT 60.323 45.833 0.00 0.00 0.00 2.57
2098 5094 3.902881 ATCTGCAGTTTCCCTAGAGTG 57.097 47.619 14.67 0.00 0.00 3.51
2114 5110 5.012239 TCTTCCAATCCAGAACCAAATCTG 58.988 41.667 0.00 0.00 45.19 2.90
2164 5160 2.023673 CTCCAAAACAGTGCTCCACAA 58.976 47.619 0.00 0.00 36.74 3.33
2174 5170 4.277672 CAGCCATATCCATCTCCAAAACAG 59.722 45.833 0.00 0.00 0.00 3.16
2186 5182 0.768221 GGTCCCTCCAGCCATATCCA 60.768 60.000 0.00 0.00 35.97 3.41
2206 5202 2.092158 TGAAAACCCACATCTGGTCACA 60.092 45.455 0.00 0.00 35.46 3.58
2216 5212 1.133199 AGCTCCCAATGAAAACCCACA 60.133 47.619 0.00 0.00 0.00 4.17
2246 5242 2.287788 CCAGAAACATTGCTGCGAACTT 60.288 45.455 0.00 0.00 0.00 2.66
2259 5255 2.875933 CAAAAGCCGACTACCAGAAACA 59.124 45.455 0.00 0.00 0.00 2.83
2318 5337 0.247736 CGCAGTAGCCTCAACTTCCT 59.752 55.000 0.00 0.00 37.52 3.36
2319 5338 0.246635 TCGCAGTAGCCTCAACTTCC 59.753 55.000 0.00 0.00 37.52 3.46
2325 5344 1.186200 AAGACATCGCAGTAGCCTCA 58.814 50.000 0.00 0.00 37.52 3.86
2328 5347 1.136305 TGGTAAGACATCGCAGTAGCC 59.864 52.381 0.00 0.00 37.52 3.93
2336 5355 2.654749 TGTGCTCTGGTAAGACATCG 57.345 50.000 0.00 0.00 0.00 3.84
2440 5460 2.030805 GCCACACAAGCTAAAGACAAGG 60.031 50.000 0.00 0.00 0.00 3.61
2474 5494 5.309323 TGCTAGTCCACATTGTTTTATGC 57.691 39.130 0.00 0.00 0.00 3.14
2499 5519 1.248785 GGAGTCACACACTAGCGGGA 61.249 60.000 0.00 0.00 34.41 5.14
2502 5522 1.169577 AGAGGAGTCACACACTAGCG 58.830 55.000 0.00 0.00 34.41 4.26
2506 5526 2.563261 TCGTAGAGGAGTCACACACT 57.437 50.000 0.00 0.00 38.45 3.55


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

AutoCloner maintained by Alex Coulton.