Multiple sequence alignment - TraesCS5B01G081400

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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 TraesCS5B01G081400 chr5B 100.000 3818 0 0 1 3818 101844591 101848408 0.000000e+00 7051.0
1 TraesCS5B01G081400 chr5B 80.488 615 77 26 2945 3540 539315109 539314519 7.580000e-117 431.0
2 TraesCS5B01G081400 chr5B 87.629 194 21 2 1470 1661 539315497 539315305 4.960000e-54 222.0
3 TraesCS5B01G081400 chr5A 97.804 3006 55 7 816 3816 88988633 88991632 0.000000e+00 5175.0
4 TraesCS5B01G081400 chr5A 91.325 634 34 3 1 614 88988004 88988636 0.000000e+00 846.0
5 TraesCS5B01G081400 chr5A 78.896 1123 138 48 2574 3675 559097917 559096873 0.000000e+00 669.0
6 TraesCS5B01G081400 chr5A 86.667 195 23 2 1469 1661 559098108 559097915 2.990000e-51 213.0
7 TraesCS5B01G081400 chr5D 97.231 2925 73 6 809 3728 94499839 94502760 0.000000e+00 4946.0
8 TraesCS5B01G081400 chr5D 92.693 479 24 2 3 471 94498705 94499182 0.000000e+00 680.0
9 TraesCS5B01G081400 chr5D 92.105 114 5 3 466 576 94499728 94499840 1.420000e-34 158.0
10 TraesCS5B01G081400 chr5D 87.143 140 12 4 1470 1605 443071187 443071050 1.840000e-33 154.0
11 TraesCS5B01G081400 chr5D 91.429 105 4 3 3715 3818 94502777 94502877 5.140000e-29 139.0
12 TraesCS5B01G081400 chr4B 94.944 178 7 1 630 805 373995883 373995706 1.040000e-70 278.0
13 TraesCS5B01G081400 chr4B 93.407 182 9 3 630 809 618348897 618349077 2.260000e-67 267.0
14 TraesCS5B01G081400 chr7B 94.444 180 9 1 630 808 435855799 435855620 3.760000e-70 276.0
15 TraesCS5B01G081400 chr7B 94.413 179 9 1 630 807 10921984 10922162 1.350000e-69 274.0
16 TraesCS5B01G081400 chr7B 94.886 176 8 1 630 804 529726164 529726339 1.350000e-69 274.0
17 TraesCS5B01G081400 chr4A 94.444 180 7 3 630 806 543608253 543608432 1.350000e-69 274.0
18 TraesCS5B01G081400 chr3B 94.382 178 8 1 630 805 796656635 796656458 4.860000e-69 272.0
19 TraesCS5B01G081400 chr1A 94.350 177 9 1 630 805 12264524 12264348 1.750000e-68 270.0
20 TraesCS5B01G081400 chr1A 93.011 186 9 4 630 812 530170010 530170194 6.290000e-68 268.0
21 TraesCS5B01G081400 chr1D 79.286 140 28 1 261 399 484191903 484191764 3.140000e-16 97.1


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 TraesCS5B01G081400 chr5B 101844591 101848408 3817 False 7051.00 7051 100.0000 1 3818 1 chr5B.!!$F1 3817
1 TraesCS5B01G081400 chr5B 539314519 539315497 978 True 326.50 431 84.0585 1470 3540 2 chr5B.!!$R1 2070
2 TraesCS5B01G081400 chr5A 88988004 88991632 3628 False 3010.50 5175 94.5645 1 3816 2 chr5A.!!$F1 3815
3 TraesCS5B01G081400 chr5A 559096873 559098108 1235 True 441.00 669 82.7815 1469 3675 2 chr5A.!!$R1 2206
4 TraesCS5B01G081400 chr5D 94498705 94502877 4172 False 1480.75 4946 93.3645 3 3818 4 chr5D.!!$F1 3815

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
765 1330 0.033228 CATCCATCAGAGCGGGTCTC 59.967 60.0 6.76 0.0 42.21 3.36 F
774 1339 0.250338 GAGCGGGTCTCACCTGTTTT 60.250 55.0 0.00 0.0 46.46 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1600 2167 2.249413 ATCCTCCTCGCACTTGCCAG 62.249 60.000 0.00 0.00 37.91 4.85 R
3163 3765 7.262048 GGTTTCAATTAACCAGTTGAGTGAAA 58.738 34.615 20.09 20.09 44.66 2.69 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
74 75 6.395426 TGATGCTTTTGAGTCAAATTGAGT 57.605 33.333 18.69 2.51 33.19 3.41
108 109 2.498078 ACCTTTTTGGGCTGTTTTTCGA 59.502 40.909 0.00 0.00 41.11 3.71
241 242 0.251916 CGTAGACCTGGCCAAATGGA 59.748 55.000 16.13 0.00 37.39 3.41
246 247 2.023695 AGACCTGGCCAAATGGATCAAT 60.024 45.455 16.13 0.00 37.39 2.57
254 255 3.750371 CCAAATGGATCAATACGGCCTA 58.250 45.455 0.00 0.00 37.39 3.93
266 267 0.036671 ACGGCCTAACCTGTGCTAAC 60.037 55.000 0.00 0.00 35.61 2.34
304 305 2.262211 GACCCGTACATCCACGTTTAC 58.738 52.381 0.00 0.00 40.31 2.01
315 316 1.541147 CCACGTTTACTAGACGGGTCA 59.459 52.381 0.00 0.00 42.11 4.02
368 369 0.447801 CCAGGCACGACACATTTAGC 59.552 55.000 0.00 0.00 0.00 3.09
371 372 2.162208 CAGGCACGACACATTTAGCAAT 59.838 45.455 0.00 0.00 0.00 3.56
397 398 0.955905 ACCCGTGGCACATTTAACAC 59.044 50.000 19.09 0.00 44.52 3.32
418 419 1.391157 TTTGGGCTGCGTGCTTTTCT 61.391 50.000 0.00 0.00 42.39 2.52
541 1105 0.937699 TGTGTCGTGCGTGCTTCTAC 60.938 55.000 0.00 0.00 0.00 2.59
624 1189 8.919777 GGCTATACCTTGTAGTGGAAAATAAT 57.080 34.615 0.00 0.00 34.51 1.28
625 1190 9.350951 GGCTATACCTTGTAGTGGAAAATAATT 57.649 33.333 0.00 0.00 34.51 1.40
635 1200 9.832445 TGTAGTGGAAAATAATTCTATGAGACC 57.168 33.333 0.00 0.00 0.00 3.85
636 1201 9.274206 GTAGTGGAAAATAATTCTATGAGACCC 57.726 37.037 0.00 0.00 0.00 4.46
637 1202 7.872138 AGTGGAAAATAATTCTATGAGACCCA 58.128 34.615 0.00 0.00 0.00 4.51
638 1203 8.506083 AGTGGAAAATAATTCTATGAGACCCAT 58.494 33.333 0.00 0.00 39.25 4.00
639 1204 8.787852 GTGGAAAATAATTCTATGAGACCCATC 58.212 37.037 0.00 0.00 36.71 3.51
640 1205 7.944554 TGGAAAATAATTCTATGAGACCCATCC 59.055 37.037 0.00 0.00 36.71 3.51
641 1206 8.166726 GGAAAATAATTCTATGAGACCCATCCT 58.833 37.037 0.00 0.00 36.71 3.24
642 1207 8.930846 AAAATAATTCTATGAGACCCATCCTG 57.069 34.615 0.00 0.00 36.71 3.86
643 1208 7.878621 AATAATTCTATGAGACCCATCCTGA 57.121 36.000 0.00 0.00 36.71 3.86
644 1209 8.460317 AATAATTCTATGAGACCCATCCTGAT 57.540 34.615 0.00 0.00 36.71 2.90
645 1210 5.758790 ATTCTATGAGACCCATCCTGATG 57.241 43.478 0.00 0.00 36.71 3.07
658 1223 1.409064 TCCTGATGGATGACACGTAGC 59.591 52.381 0.00 0.00 37.46 3.58
659 1224 1.136891 CCTGATGGATGACACGTAGCA 59.863 52.381 0.00 0.00 34.57 3.49
660 1225 2.224137 CCTGATGGATGACACGTAGCAT 60.224 50.000 2.33 2.33 34.57 3.79
661 1226 3.461061 CTGATGGATGACACGTAGCATT 58.539 45.455 4.12 0.00 0.00 3.56
662 1227 3.457234 TGATGGATGACACGTAGCATTC 58.543 45.455 4.12 3.06 0.00 2.67
663 1228 3.118811 TGATGGATGACACGTAGCATTCA 60.119 43.478 11.79 11.79 34.69 2.57
664 1229 2.616960 TGGATGACACGTAGCATTCAC 58.383 47.619 6.68 1.75 0.00 3.18
665 1230 2.028567 TGGATGACACGTAGCATTCACA 60.029 45.455 6.68 3.79 0.00 3.58
666 1231 3.000041 GGATGACACGTAGCATTCACAA 59.000 45.455 4.12 0.00 0.00 3.33
667 1232 3.435327 GGATGACACGTAGCATTCACAAA 59.565 43.478 4.12 0.00 0.00 2.83
668 1233 4.094887 GGATGACACGTAGCATTCACAAAT 59.905 41.667 4.12 0.00 0.00 2.32
669 1234 4.661993 TGACACGTAGCATTCACAAATC 57.338 40.909 0.00 0.00 0.00 2.17
670 1235 4.061596 TGACACGTAGCATTCACAAATCA 58.938 39.130 0.00 0.00 0.00 2.57
671 1236 4.084066 TGACACGTAGCATTCACAAATCAC 60.084 41.667 0.00 0.00 0.00 3.06
672 1237 3.812609 ACACGTAGCATTCACAAATCACA 59.187 39.130 0.00 0.00 0.00 3.58
673 1238 4.274705 ACACGTAGCATTCACAAATCACAA 59.725 37.500 0.00 0.00 0.00 3.33
674 1239 5.211454 CACGTAGCATTCACAAATCACAAA 58.789 37.500 0.00 0.00 0.00 2.83
675 1240 5.340403 CACGTAGCATTCACAAATCACAAAG 59.660 40.000 0.00 0.00 0.00 2.77
676 1241 4.321745 CGTAGCATTCACAAATCACAAAGC 59.678 41.667 0.00 0.00 0.00 3.51
677 1242 4.325028 AGCATTCACAAATCACAAAGCA 57.675 36.364 0.00 0.00 0.00 3.91
678 1243 4.890088 AGCATTCACAAATCACAAAGCAT 58.110 34.783 0.00 0.00 0.00 3.79
679 1244 4.927425 AGCATTCACAAATCACAAAGCATC 59.073 37.500 0.00 0.00 0.00 3.91
680 1245 4.927425 GCATTCACAAATCACAAAGCATCT 59.073 37.500 0.00 0.00 0.00 2.90
681 1246 6.071784 AGCATTCACAAATCACAAAGCATCTA 60.072 34.615 0.00 0.00 0.00 1.98
682 1247 6.034256 GCATTCACAAATCACAAAGCATCTAC 59.966 38.462 0.00 0.00 0.00 2.59
683 1248 6.882610 TTCACAAATCACAAAGCATCTACT 57.117 33.333 0.00 0.00 0.00 2.57
684 1249 6.486253 TCACAAATCACAAAGCATCTACTC 57.514 37.500 0.00 0.00 0.00 2.59
685 1250 5.412594 TCACAAATCACAAAGCATCTACTCC 59.587 40.000 0.00 0.00 0.00 3.85
686 1251 5.181811 CACAAATCACAAAGCATCTACTCCA 59.818 40.000 0.00 0.00 0.00 3.86
687 1252 5.182001 ACAAATCACAAAGCATCTACTCCAC 59.818 40.000 0.00 0.00 0.00 4.02
688 1253 3.334583 TCACAAAGCATCTACTCCACC 57.665 47.619 0.00 0.00 0.00 4.61
689 1254 2.027192 TCACAAAGCATCTACTCCACCC 60.027 50.000 0.00 0.00 0.00 4.61
690 1255 1.282157 ACAAAGCATCTACTCCACCCC 59.718 52.381 0.00 0.00 0.00 4.95
691 1256 0.919710 AAAGCATCTACTCCACCCCC 59.080 55.000 0.00 0.00 0.00 5.40
692 1257 0.253160 AAGCATCTACTCCACCCCCA 60.253 55.000 0.00 0.00 0.00 4.96
693 1258 0.983378 AGCATCTACTCCACCCCCAC 60.983 60.000 0.00 0.00 0.00 4.61
694 1259 1.984288 GCATCTACTCCACCCCCACC 61.984 65.000 0.00 0.00 0.00 4.61
695 1260 0.326618 CATCTACTCCACCCCCACCT 60.327 60.000 0.00 0.00 0.00 4.00
696 1261 0.326618 ATCTACTCCACCCCCACCTG 60.327 60.000 0.00 0.00 0.00 4.00
697 1262 1.080354 CTACTCCACCCCCACCTGA 59.920 63.158 0.00 0.00 0.00 3.86
698 1263 0.546747 CTACTCCACCCCCACCTGAA 60.547 60.000 0.00 0.00 0.00 3.02
699 1264 0.104356 TACTCCACCCCCACCTGAAA 60.104 55.000 0.00 0.00 0.00 2.69
700 1265 0.776080 ACTCCACCCCCACCTGAAAT 60.776 55.000 0.00 0.00 0.00 2.17
701 1266 0.034089 CTCCACCCCCACCTGAAATC 60.034 60.000 0.00 0.00 0.00 2.17
702 1267 0.774096 TCCACCCCCACCTGAAATCA 60.774 55.000 0.00 0.00 0.00 2.57
703 1268 0.323725 CCACCCCCACCTGAAATCAG 60.324 60.000 3.37 3.37 43.40 2.90
727 1292 5.888982 GGGGGAGATTAGATACTTTGTGA 57.111 43.478 0.00 0.00 0.00 3.58
728 1293 6.441088 GGGGGAGATTAGATACTTTGTGAT 57.559 41.667 0.00 0.00 0.00 3.06
729 1294 6.842676 GGGGGAGATTAGATACTTTGTGATT 58.157 40.000 0.00 0.00 0.00 2.57
730 1295 7.290813 GGGGGAGATTAGATACTTTGTGATTT 58.709 38.462 0.00 0.00 0.00 2.17
731 1296 7.229506 GGGGGAGATTAGATACTTTGTGATTTG 59.770 40.741 0.00 0.00 0.00 2.32
732 1297 7.775561 GGGGAGATTAGATACTTTGTGATTTGT 59.224 37.037 0.00 0.00 0.00 2.83
733 1298 8.616076 GGGAGATTAGATACTTTGTGATTTGTG 58.384 37.037 0.00 0.00 0.00 3.33
734 1299 9.383519 GGAGATTAGATACTTTGTGATTTGTGA 57.616 33.333 0.00 0.00 0.00 3.58
738 1303 9.793252 ATTAGATACTTTGTGATTTGTGAATGC 57.207 29.630 0.00 0.00 0.00 3.56
739 1304 6.624423 AGATACTTTGTGATTTGTGAATGCC 58.376 36.000 0.00 0.00 0.00 4.40
740 1305 4.669206 ACTTTGTGATTTGTGAATGCCA 57.331 36.364 0.00 0.00 0.00 4.92
741 1306 4.370917 ACTTTGTGATTTGTGAATGCCAC 58.629 39.130 0.00 0.00 45.88 5.01
750 1315 2.857592 GTGAATGCCACATGTCATCC 57.142 50.000 0.00 0.00 45.03 3.51
751 1316 2.093890 GTGAATGCCACATGTCATCCA 58.906 47.619 0.00 0.00 45.03 3.41
752 1317 2.691526 GTGAATGCCACATGTCATCCAT 59.308 45.455 0.00 0.00 45.03 3.41
753 1318 2.953648 TGAATGCCACATGTCATCCATC 59.046 45.455 0.00 0.00 0.00 3.51
754 1319 2.740506 ATGCCACATGTCATCCATCA 57.259 45.000 0.00 0.00 0.00 3.07
755 1320 2.047002 TGCCACATGTCATCCATCAG 57.953 50.000 0.00 0.00 0.00 2.90
756 1321 1.560611 TGCCACATGTCATCCATCAGA 59.439 47.619 0.00 0.00 0.00 3.27
757 1322 2.219458 GCCACATGTCATCCATCAGAG 58.781 52.381 0.00 0.00 0.00 3.35
758 1323 2.219458 CCACATGTCATCCATCAGAGC 58.781 52.381 0.00 0.00 0.00 4.09
759 1324 1.865340 CACATGTCATCCATCAGAGCG 59.135 52.381 0.00 0.00 0.00 5.03
760 1325 1.202615 ACATGTCATCCATCAGAGCGG 60.203 52.381 0.00 0.00 0.00 5.52
761 1326 0.395686 ATGTCATCCATCAGAGCGGG 59.604 55.000 0.00 0.00 0.00 6.13
762 1327 0.977627 TGTCATCCATCAGAGCGGGT 60.978 55.000 0.00 0.00 0.00 5.28
763 1328 0.249657 GTCATCCATCAGAGCGGGTC 60.250 60.000 0.00 0.00 0.00 4.46
764 1329 0.397675 TCATCCATCAGAGCGGGTCT 60.398 55.000 3.41 3.41 35.00 3.85
765 1330 0.033228 CATCCATCAGAGCGGGTCTC 59.967 60.000 6.76 0.00 42.21 3.36
766 1331 0.397675 ATCCATCAGAGCGGGTCTCA 60.398 55.000 6.76 0.00 44.35 3.27
767 1332 1.142748 CCATCAGAGCGGGTCTCAC 59.857 63.158 6.76 0.00 44.35 3.51
768 1333 1.142748 CATCAGAGCGGGTCTCACC 59.857 63.158 6.76 0.00 44.35 4.02
769 1334 1.000993 ATCAGAGCGGGTCTCACCT 59.999 57.895 6.76 0.00 44.35 4.00
771 1336 2.118513 AGAGCGGGTCTCACCTGT 59.881 61.111 3.41 0.00 46.46 4.00
772 1337 1.534235 AGAGCGGGTCTCACCTGTT 60.534 57.895 3.41 0.00 46.46 3.16
773 1338 1.122019 AGAGCGGGTCTCACCTGTTT 61.122 55.000 3.41 0.00 46.46 2.83
774 1339 0.250338 GAGCGGGTCTCACCTGTTTT 60.250 55.000 0.00 0.00 46.46 2.43
775 1340 1.001633 GAGCGGGTCTCACCTGTTTTA 59.998 52.381 0.00 0.00 46.46 1.52
776 1341 1.628846 AGCGGGTCTCACCTGTTTTAT 59.371 47.619 3.45 0.00 46.46 1.40
777 1342 2.835764 AGCGGGTCTCACCTGTTTTATA 59.164 45.455 3.45 0.00 46.46 0.98
778 1343 3.454812 AGCGGGTCTCACCTGTTTTATAT 59.545 43.478 3.45 0.00 46.46 0.86
779 1344 3.560068 GCGGGTCTCACCTGTTTTATATG 59.440 47.826 3.45 0.00 46.46 1.78
780 1345 4.682320 GCGGGTCTCACCTGTTTTATATGA 60.682 45.833 3.45 0.00 46.46 2.15
781 1346 5.050490 CGGGTCTCACCTGTTTTATATGAG 58.950 45.833 0.00 0.00 39.82 2.90
782 1347 5.163447 CGGGTCTCACCTGTTTTATATGAGA 60.163 44.000 0.00 0.00 42.63 3.27
786 1351 6.878317 TCTCACCTGTTTTATATGAGACCTG 58.122 40.000 0.00 0.00 40.59 4.00
787 1352 5.989477 TCACCTGTTTTATATGAGACCTGG 58.011 41.667 0.00 0.00 0.00 4.45
788 1353 5.487488 TCACCTGTTTTATATGAGACCTGGT 59.513 40.000 0.00 0.00 0.00 4.00
789 1354 5.817816 CACCTGTTTTATATGAGACCTGGTC 59.182 44.000 19.20 19.20 0.00 4.02
790 1355 5.726793 ACCTGTTTTATATGAGACCTGGTCT 59.273 40.000 28.70 28.70 46.42 3.85
822 1387 4.440826 TTTTTCCCCTTGTAGTAGCACA 57.559 40.909 0.00 0.00 0.00 4.57
823 1388 3.412237 TTTCCCCTTGTAGTAGCACAC 57.588 47.619 0.00 0.00 0.00 3.82
824 1389 2.320681 TCCCCTTGTAGTAGCACACT 57.679 50.000 0.00 0.00 41.62 3.55
825 1390 1.899814 TCCCCTTGTAGTAGCACACTG 59.100 52.381 1.48 0.00 38.24 3.66
826 1391 1.676014 CCCCTTGTAGTAGCACACTGC 60.676 57.143 1.48 0.97 45.46 4.40
827 1392 1.676014 CCCTTGTAGTAGCACACTGCC 60.676 57.143 1.48 0.00 46.52 4.85
832 1397 1.207089 GTAGTAGCACACTGCCATCCA 59.793 52.381 1.48 0.00 46.52 3.41
1253 1818 2.203070 CGCCTCCTTCCCCAATCG 60.203 66.667 0.00 0.00 0.00 3.34
1406 1971 4.082523 CTCCTCCGCGGGCTTGAA 62.083 66.667 27.83 2.94 0.00 2.69
1416 1981 2.231380 GGGCTTGAACCCCCTCAGA 61.231 63.158 0.00 0.00 45.00 3.27
1644 2211 0.757188 ACGAGATGCCGGAGAAGGAT 60.757 55.000 5.05 0.00 0.00 3.24
3114 3709 4.505039 GGATGGACTGACAAAACACTACCT 60.505 45.833 0.00 0.00 0.00 3.08
3130 3725 6.666678 ACACTACCTATACAGTGCTAGGTTA 58.333 40.000 23.13 12.43 44.20 2.85
3287 3897 8.094548 TGATTTCTGTAGTTACATTGTAGCAGT 58.905 33.333 12.41 0.00 35.36 4.40
3623 4239 3.181493 CCTGATTTAGGTTGCTGTGATGC 60.181 47.826 0.00 0.00 42.00 3.91
3640 4256 9.770503 GCTGTGATGCTTATGATAAATATTCAG 57.229 33.333 0.00 0.00 0.00 3.02
3798 4450 8.409358 AGAAATGGCTTGTAAGATGTTTTAGT 57.591 30.769 0.00 0.00 0.00 2.24
3799 4451 8.860088 AGAAATGGCTTGTAAGATGTTTTAGTT 58.140 29.630 0.00 0.00 0.00 2.24
3804 4456 9.344772 TGGCTTGTAAGATGTTTTAGTTAGAAA 57.655 29.630 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
130 131 8.898983 GCGCCCGCTTATTTTATATTTATTAA 57.101 30.769 5.27 0.00 38.26 1.40
241 242 2.745152 GCACAGGTTAGGCCGTATTGAT 60.745 50.000 0.00 0.00 43.70 2.57
246 247 1.205417 GTTAGCACAGGTTAGGCCGTA 59.795 52.381 0.00 0.00 43.70 4.02
254 255 1.673920 CAAACACGGTTAGCACAGGTT 59.326 47.619 0.00 0.00 0.00 3.50
290 291 3.378112 CCCGTCTAGTAAACGTGGATGTA 59.622 47.826 0.00 0.00 38.44 2.29
418 419 5.376625 CCCAAAAATATAGCCTAGCAGACA 58.623 41.667 0.00 0.00 0.00 3.41
516 1080 1.446099 CACGCACGACACAGCCTAT 60.446 57.895 0.00 0.00 0.00 2.57
526 1090 1.372499 GTGGTAGAAGCACGCACGA 60.372 57.895 0.00 0.00 36.84 4.35
541 1105 4.379243 AGGCCGTGCTTCTCGTGG 62.379 66.667 0.00 0.00 0.00 4.94
599 1164 8.919777 ATTATTTTCCACTACAAGGTATAGCC 57.080 34.615 0.00 0.00 37.58 3.93
614 1179 7.944554 GGATGGGTCTCATAGAATTATTTTCCA 59.055 37.037 0.00 0.00 35.97 3.53
615 1180 8.166726 AGGATGGGTCTCATAGAATTATTTTCC 58.833 37.037 0.00 0.00 35.97 3.13
616 1181 9.007901 CAGGATGGGTCTCATAGAATTATTTTC 57.992 37.037 0.00 0.00 35.97 2.29
618 1183 8.280258 TCAGGATGGGTCTCATAGAATTATTT 57.720 34.615 0.00 0.00 35.97 1.40
619 1184 7.878621 TCAGGATGGGTCTCATAGAATTATT 57.121 36.000 0.00 0.00 35.97 1.40
620 1185 7.859540 CATCAGGATGGGTCTCATAGAATTAT 58.140 38.462 1.25 0.00 35.97 1.28
621 1186 7.250032 CATCAGGATGGGTCTCATAGAATTA 57.750 40.000 1.25 0.00 35.97 1.40
622 1187 6.124316 CATCAGGATGGGTCTCATAGAATT 57.876 41.667 1.25 0.00 35.97 2.17
623 1188 5.758790 CATCAGGATGGGTCTCATAGAAT 57.241 43.478 1.25 0.00 35.97 2.40
639 1204 1.136891 TGCTACGTGTCATCCATCAGG 59.863 52.381 0.00 0.00 0.00 3.86
640 1205 2.584492 TGCTACGTGTCATCCATCAG 57.416 50.000 0.00 0.00 0.00 2.90
641 1206 3.118811 TGAATGCTACGTGTCATCCATCA 60.119 43.478 0.00 0.00 0.00 3.07
642 1207 3.246226 GTGAATGCTACGTGTCATCCATC 59.754 47.826 0.00 0.00 0.00 3.51
643 1208 3.198068 GTGAATGCTACGTGTCATCCAT 58.802 45.455 0.00 0.00 0.00 3.41
644 1209 2.028567 TGTGAATGCTACGTGTCATCCA 60.029 45.455 0.00 0.00 0.00 3.41
645 1210 2.616960 TGTGAATGCTACGTGTCATCC 58.383 47.619 0.00 0.00 0.00 3.51
646 1211 4.661993 TTTGTGAATGCTACGTGTCATC 57.338 40.909 0.00 0.00 0.00 2.92
647 1212 4.694982 TGATTTGTGAATGCTACGTGTCAT 59.305 37.500 0.00 0.00 0.00 3.06
648 1213 4.061596 TGATTTGTGAATGCTACGTGTCA 58.938 39.130 0.00 0.00 0.00 3.58
649 1214 4.084066 TGTGATTTGTGAATGCTACGTGTC 60.084 41.667 0.00 0.00 0.00 3.67
650 1215 3.812609 TGTGATTTGTGAATGCTACGTGT 59.187 39.130 0.00 0.00 0.00 4.49
651 1216 4.403015 TGTGATTTGTGAATGCTACGTG 57.597 40.909 0.00 0.00 0.00 4.49
652 1217 5.431420 TTTGTGATTTGTGAATGCTACGT 57.569 34.783 0.00 0.00 0.00 3.57
653 1218 4.321745 GCTTTGTGATTTGTGAATGCTACG 59.678 41.667 0.00 0.00 0.00 3.51
654 1219 5.221880 TGCTTTGTGATTTGTGAATGCTAC 58.778 37.500 0.00 0.00 0.00 3.58
655 1220 5.450592 TGCTTTGTGATTTGTGAATGCTA 57.549 34.783 0.00 0.00 0.00 3.49
656 1221 4.325028 TGCTTTGTGATTTGTGAATGCT 57.675 36.364 0.00 0.00 0.00 3.79
657 1222 4.927425 AGATGCTTTGTGATTTGTGAATGC 59.073 37.500 0.00 0.00 0.00 3.56
658 1223 7.310664 AGTAGATGCTTTGTGATTTGTGAATG 58.689 34.615 0.00 0.00 0.00 2.67
659 1224 7.362401 GGAGTAGATGCTTTGTGATTTGTGAAT 60.362 37.037 0.00 0.00 0.00 2.57
660 1225 6.072508 GGAGTAGATGCTTTGTGATTTGTGAA 60.073 38.462 0.00 0.00 0.00 3.18
661 1226 5.412594 GGAGTAGATGCTTTGTGATTTGTGA 59.587 40.000 0.00 0.00 0.00 3.58
662 1227 5.181811 TGGAGTAGATGCTTTGTGATTTGTG 59.818 40.000 0.00 0.00 0.00 3.33
663 1228 5.182001 GTGGAGTAGATGCTTTGTGATTTGT 59.818 40.000 0.00 0.00 0.00 2.83
664 1229 5.392380 GGTGGAGTAGATGCTTTGTGATTTG 60.392 44.000 0.00 0.00 0.00 2.32
665 1230 4.702131 GGTGGAGTAGATGCTTTGTGATTT 59.298 41.667 0.00 0.00 0.00 2.17
666 1231 4.265073 GGTGGAGTAGATGCTTTGTGATT 58.735 43.478 0.00 0.00 0.00 2.57
667 1232 3.370953 GGGTGGAGTAGATGCTTTGTGAT 60.371 47.826 0.00 0.00 0.00 3.06
668 1233 2.027192 GGGTGGAGTAGATGCTTTGTGA 60.027 50.000 0.00 0.00 0.00 3.58
669 1234 2.359900 GGGTGGAGTAGATGCTTTGTG 58.640 52.381 0.00 0.00 0.00 3.33
670 1235 1.282157 GGGGTGGAGTAGATGCTTTGT 59.718 52.381 0.00 0.00 0.00 2.83
671 1236 1.408822 GGGGGTGGAGTAGATGCTTTG 60.409 57.143 0.00 0.00 0.00 2.77
672 1237 0.919710 GGGGGTGGAGTAGATGCTTT 59.080 55.000 0.00 0.00 0.00 3.51
673 1238 0.253160 TGGGGGTGGAGTAGATGCTT 60.253 55.000 0.00 0.00 0.00 3.91
674 1239 0.983378 GTGGGGGTGGAGTAGATGCT 60.983 60.000 0.00 0.00 0.00 3.79
675 1240 1.527370 GTGGGGGTGGAGTAGATGC 59.473 63.158 0.00 0.00 0.00 3.91
676 1241 0.326618 AGGTGGGGGTGGAGTAGATG 60.327 60.000 0.00 0.00 0.00 2.90
677 1242 0.326618 CAGGTGGGGGTGGAGTAGAT 60.327 60.000 0.00 0.00 0.00 1.98
678 1243 1.080354 CAGGTGGGGGTGGAGTAGA 59.920 63.158 0.00 0.00 0.00 2.59
679 1244 0.546747 TTCAGGTGGGGGTGGAGTAG 60.547 60.000 0.00 0.00 0.00 2.57
680 1245 0.104356 TTTCAGGTGGGGGTGGAGTA 60.104 55.000 0.00 0.00 0.00 2.59
681 1246 0.776080 ATTTCAGGTGGGGGTGGAGT 60.776 55.000 0.00 0.00 0.00 3.85
682 1247 0.034089 GATTTCAGGTGGGGGTGGAG 60.034 60.000 0.00 0.00 0.00 3.86
683 1248 0.774096 TGATTTCAGGTGGGGGTGGA 60.774 55.000 0.00 0.00 0.00 4.02
684 1249 0.323725 CTGATTTCAGGTGGGGGTGG 60.324 60.000 0.00 0.00 40.20 4.61
685 1250 3.271250 CTGATTTCAGGTGGGGGTG 57.729 57.895 0.00 0.00 40.20 4.61
705 1270 5.888982 TCACAAAGTATCTAATCTCCCCC 57.111 43.478 0.00 0.00 0.00 5.40
706 1271 7.775561 ACAAATCACAAAGTATCTAATCTCCCC 59.224 37.037 0.00 0.00 0.00 4.81
707 1272 8.616076 CACAAATCACAAAGTATCTAATCTCCC 58.384 37.037 0.00 0.00 0.00 4.30
708 1273 9.383519 TCACAAATCACAAAGTATCTAATCTCC 57.616 33.333 0.00 0.00 0.00 3.71
712 1277 9.793252 GCATTCACAAATCACAAAGTATCTAAT 57.207 29.630 0.00 0.00 0.00 1.73
713 1278 8.243426 GGCATTCACAAATCACAAAGTATCTAA 58.757 33.333 0.00 0.00 0.00 2.10
714 1279 7.392953 TGGCATTCACAAATCACAAAGTATCTA 59.607 33.333 0.00 0.00 0.00 1.98
715 1280 6.209192 TGGCATTCACAAATCACAAAGTATCT 59.791 34.615 0.00 0.00 0.00 1.98
716 1281 6.308766 GTGGCATTCACAAATCACAAAGTATC 59.691 38.462 0.00 0.00 45.39 2.24
717 1282 6.158598 GTGGCATTCACAAATCACAAAGTAT 58.841 36.000 0.00 0.00 45.39 2.12
718 1283 5.527951 GTGGCATTCACAAATCACAAAGTA 58.472 37.500 0.00 0.00 45.39 2.24
719 1284 4.370917 GTGGCATTCACAAATCACAAAGT 58.629 39.130 0.00 0.00 45.39 2.66
720 1285 4.977741 GTGGCATTCACAAATCACAAAG 57.022 40.909 0.00 0.00 45.39 2.77
731 1296 2.093890 TGGATGACATGTGGCATTCAC 58.906 47.619 1.15 0.00 43.95 3.18
732 1297 2.510928 TGGATGACATGTGGCATTCA 57.489 45.000 1.15 5.70 46.54 2.57
733 1298 2.953648 TGATGGATGACATGTGGCATTC 59.046 45.455 1.15 1.06 45.42 2.67
734 1299 2.956333 CTGATGGATGACATGTGGCATT 59.044 45.455 1.15 0.00 45.42 3.56
736 1301 1.560611 TCTGATGGATGACATGTGGCA 59.439 47.619 1.15 0.00 40.72 4.92
737 1302 2.219458 CTCTGATGGATGACATGTGGC 58.781 52.381 1.15 0.00 40.72 5.01
738 1303 2.219458 GCTCTGATGGATGACATGTGG 58.781 52.381 1.15 0.00 40.72 4.17
739 1304 1.865340 CGCTCTGATGGATGACATGTG 59.135 52.381 1.15 0.00 40.72 3.21
740 1305 1.202615 CCGCTCTGATGGATGACATGT 60.203 52.381 0.00 0.00 40.72 3.21
741 1306 1.509703 CCGCTCTGATGGATGACATG 58.490 55.000 0.00 0.00 40.72 3.21
742 1307 0.395686 CCCGCTCTGATGGATGACAT 59.604 55.000 0.00 0.00 44.18 3.06
743 1308 0.977627 ACCCGCTCTGATGGATGACA 60.978 55.000 0.00 0.00 0.00 3.58
744 1309 0.249657 GACCCGCTCTGATGGATGAC 60.250 60.000 0.00 0.00 0.00 3.06
745 1310 0.397675 AGACCCGCTCTGATGGATGA 60.398 55.000 0.00 0.00 0.00 2.92
746 1311 0.033228 GAGACCCGCTCTGATGGATG 59.967 60.000 0.00 0.00 40.61 3.51
747 1312 0.397675 TGAGACCCGCTCTGATGGAT 60.398 55.000 0.00 0.00 44.27 3.41
748 1313 1.000359 TGAGACCCGCTCTGATGGA 60.000 57.895 0.00 0.00 44.27 3.41
749 1314 1.142748 GTGAGACCCGCTCTGATGG 59.857 63.158 0.00 0.00 44.27 3.51
750 1315 1.142748 GGTGAGACCCGCTCTGATG 59.857 63.158 0.00 0.00 44.27 3.07
751 1316 1.000993 AGGTGAGACCCGCTCTGAT 59.999 57.895 0.00 0.00 44.27 2.90
752 1317 1.979155 CAGGTGAGACCCGCTCTGA 60.979 63.158 0.00 0.00 44.27 3.27
753 1318 1.821061 AACAGGTGAGACCCGCTCTG 61.821 60.000 0.00 0.00 44.27 3.35
754 1319 1.122019 AAACAGGTGAGACCCGCTCT 61.122 55.000 0.00 0.00 44.27 4.09
755 1320 0.250338 AAAACAGGTGAGACCCGCTC 60.250 55.000 0.00 0.00 39.75 5.03
756 1321 1.053424 TAAAACAGGTGAGACCCGCT 58.947 50.000 0.00 0.00 39.75 5.52
757 1322 2.109425 ATAAAACAGGTGAGACCCGC 57.891 50.000 0.00 0.00 39.75 6.13
758 1323 5.018539 TCATATAAAACAGGTGAGACCCG 57.981 43.478 0.00 0.00 39.75 5.28
759 1324 6.235231 TCTCATATAAAACAGGTGAGACCC 57.765 41.667 0.00 0.00 40.06 4.46
762 1327 6.127054 CCAGGTCTCATATAAAACAGGTGAGA 60.127 42.308 0.00 0.00 41.99 3.27
763 1328 6.051717 CCAGGTCTCATATAAAACAGGTGAG 58.948 44.000 0.00 0.00 38.07 3.51
764 1329 5.487488 ACCAGGTCTCATATAAAACAGGTGA 59.513 40.000 0.00 0.00 0.00 4.02
765 1330 5.745227 ACCAGGTCTCATATAAAACAGGTG 58.255 41.667 0.00 0.00 0.00 4.00
766 1331 5.726793 AGACCAGGTCTCATATAAAACAGGT 59.273 40.000 17.31 0.00 38.71 4.00
767 1332 6.240549 AGACCAGGTCTCATATAAAACAGG 57.759 41.667 17.31 0.00 38.71 4.00
801 1366 4.139038 GTGTGCTACTACAAGGGGAAAAA 58.861 43.478 0.00 0.00 31.36 1.94
802 1367 3.393278 AGTGTGCTACTACAAGGGGAAAA 59.607 43.478 0.00 0.00 38.04 2.29
803 1368 2.976882 AGTGTGCTACTACAAGGGGAAA 59.023 45.455 0.00 0.00 38.04 3.13
804 1369 2.301870 CAGTGTGCTACTACAAGGGGAA 59.698 50.000 0.00 0.00 37.60 3.97
805 1370 1.899814 CAGTGTGCTACTACAAGGGGA 59.100 52.381 0.00 0.00 37.60 4.81
806 1371 1.676014 GCAGTGTGCTACTACAAGGGG 60.676 57.143 0.00 0.00 40.96 4.79
807 1372 1.676014 GGCAGTGTGCTACTACAAGGG 60.676 57.143 0.00 0.00 44.28 3.95
808 1373 1.001974 TGGCAGTGTGCTACTACAAGG 59.998 52.381 0.00 0.00 44.28 3.61
809 1374 2.455674 TGGCAGTGTGCTACTACAAG 57.544 50.000 0.00 0.00 44.28 3.16
810 1375 2.354704 GGATGGCAGTGTGCTACTACAA 60.355 50.000 0.00 0.00 44.28 2.41
811 1376 1.207089 GGATGGCAGTGTGCTACTACA 59.793 52.381 0.00 0.00 44.28 2.74
812 1377 1.207089 TGGATGGCAGTGTGCTACTAC 59.793 52.381 0.00 0.00 44.28 2.73
813 1378 1.482182 CTGGATGGCAGTGTGCTACTA 59.518 52.381 0.00 0.00 44.28 1.82
814 1379 0.251354 CTGGATGGCAGTGTGCTACT 59.749 55.000 0.00 0.00 44.28 2.57
815 1380 0.745845 CCTGGATGGCAGTGTGCTAC 60.746 60.000 0.00 0.00 44.28 3.58
816 1381 1.603842 CCTGGATGGCAGTGTGCTA 59.396 57.895 0.00 0.00 44.28 3.49
817 1382 2.353958 CCTGGATGGCAGTGTGCT 59.646 61.111 0.00 0.00 44.28 4.40
818 1383 2.753043 CCCTGGATGGCAGTGTGC 60.753 66.667 0.00 0.00 44.08 4.57
819 1384 1.077930 CTCCCTGGATGGCAGTGTG 60.078 63.158 0.00 0.00 0.00 3.82
820 1385 0.842030 TTCTCCCTGGATGGCAGTGT 60.842 55.000 0.00 0.00 0.00 3.55
821 1386 0.107312 CTTCTCCCTGGATGGCAGTG 60.107 60.000 0.00 0.00 0.00 3.66
822 1387 1.277580 CCTTCTCCCTGGATGGCAGT 61.278 60.000 0.00 0.00 0.00 4.40
823 1388 1.277580 ACCTTCTCCCTGGATGGCAG 61.278 60.000 0.00 0.00 34.93 4.85
824 1389 0.846427 AACCTTCTCCCTGGATGGCA 60.846 55.000 0.00 0.00 34.93 4.92
825 1390 0.332972 AAACCTTCTCCCTGGATGGC 59.667 55.000 0.00 0.00 34.93 4.40
826 1391 2.827921 CAAAAACCTTCTCCCTGGATGG 59.172 50.000 0.00 0.00 36.82 3.51
827 1392 2.827921 CCAAAAACCTTCTCCCTGGATG 59.172 50.000 0.00 0.00 0.00 3.51
832 1397 1.179174 GCGCCAAAAACCTTCTCCCT 61.179 55.000 0.00 0.00 0.00 4.20
1068 1633 4.687215 GACGCCAGGTGCTGCTCA 62.687 66.667 0.00 0.00 38.05 4.26
1221 1786 4.208686 GCGAAGACGAGGCGGGAT 62.209 66.667 0.00 0.00 42.66 3.85
1253 1818 2.668550 GGAAGGTGGTGGCGTGAC 60.669 66.667 0.00 0.00 0.00 3.67
1600 2167 2.249413 ATCCTCCTCGCACTTGCCAG 62.249 60.000 0.00 0.00 37.91 4.85
3163 3765 7.262048 GGTTTCAATTAACCAGTTGAGTGAAA 58.738 34.615 20.09 20.09 44.66 2.69
3287 3897 9.802039 ATTCTACTTTTCCAACATAACCACTTA 57.198 29.630 0.00 0.00 0.00 2.24
3490 4103 8.700051 AGCATGACACTAACATATCTAAGAAGT 58.300 33.333 0.00 0.00 0.00 3.01
3696 4317 8.096414 CCAATTATTGAAGTTCCAAACATTCCT 58.904 33.333 6.50 0.00 0.00 3.36
3732 4384 3.409026 AAAGACATGGACCAGTCTGAC 57.591 47.619 20.52 0.00 43.88 3.51


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

AutoCloner maintained by Alex Coulton.