Multiple sequence alignment - TraesCS1A01G127200

Loading Multiple Alignment...

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 TraesCS1A01G127200 chr1A 100.000 2446 0 0 1 2446 154075729 154078174 0.000000e+00 4518.0
1 TraesCS1A01G127200 chr1A 95.746 1481 58 5 924 2401 554468375 554466897 0.000000e+00 2381.0
2 TraesCS1A01G127200 chr5D 95.878 1480 53 5 925 2401 483798902 483797428 0.000000e+00 2388.0
3 TraesCS1A01G127200 chr5D 95.003 1481 66 7 924 2401 6210993 6209518 0.000000e+00 2318.0
4 TraesCS1A01G127200 chr5D 93.868 897 36 5 1 896 6167822 6166944 0.000000e+00 1334.0
5 TraesCS1A01G127200 chr5D 93.563 901 36 5 1 896 6266856 6265973 0.000000e+00 1323.0
6 TraesCS1A01G127200 chr5D 93.088 897 41 10 1 896 329158852 329157976 0.000000e+00 1293.0
7 TraesCS1A01G127200 chr5D 95.924 736 28 2 1 734 503301028 503301763 0.000000e+00 1192.0
8 TraesCS1A01G127200 chr3B 95.679 1481 56 7 924 2401 201503228 201504703 0.000000e+00 2374.0
9 TraesCS1A01G127200 chr3B 91.610 1478 101 13 930 2401 460161730 460160270 0.000000e+00 2021.0
10 TraesCS1A01G127200 chr3B 94.203 897 34 3 1 896 101911057 101910178 0.000000e+00 1352.0
11 TraesCS1A01G127200 chr2D 94.936 1481 54 6 924 2401 28723771 28725233 0.000000e+00 2300.0
12 TraesCS1A01G127200 chr2D 94.245 139 8 0 758 896 246163294 246163156 1.910000e-51 213.0
13 TraesCS1A01G127200 chr1D 92.770 1480 79 12 924 2401 244405306 244406759 0.000000e+00 2115.0
14 TraesCS1A01G127200 chr1D 93.423 897 39 6 1 896 246421609 246422486 0.000000e+00 1312.0
15 TraesCS1A01G127200 chr1D 91.805 903 48 4 1 896 51862948 51862065 0.000000e+00 1234.0
16 TraesCS1A01G127200 chr1D 89.937 318 15 1 579 896 254444708 254445008 6.340000e-106 394.0
17 TraesCS1A01G127200 chr6B 96.376 1214 37 4 1064 2274 579206857 579205648 0.000000e+00 1991.0
18 TraesCS1A01G127200 chr1B 95.389 1106 46 5 924 2026 633725721 633726824 0.000000e+00 1755.0
19 TraesCS1A01G127200 chr5A 94.981 1076 46 5 1332 2401 684322666 684323739 0.000000e+00 1681.0
20 TraesCS1A01G127200 chr6A 93.757 897 38 4 1 896 592504253 592505132 0.000000e+00 1330.0
21 TraesCS1A01G127200 chr3A 93.088 897 41 6 1 896 69384591 69383715 0.000000e+00 1293.0
22 TraesCS1A01G127200 chr4A 92.650 898 46 6 1 896 309480913 309480034 0.000000e+00 1275.0
23 TraesCS1A01G127200 chr4A 93.197 147 10 0 750 896 43730328 43730474 1.470000e-52 217.0
24 TraesCS1A01G127200 chr6D 100.000 37 0 0 2410 2446 78092940 78092904 4.360000e-08 69.4


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 TraesCS1A01G127200 chr1A 154075729 154078174 2445 False 4518 4518 100.000 1 2446 1 chr1A.!!$F1 2445
1 TraesCS1A01G127200 chr1A 554466897 554468375 1478 True 2381 2381 95.746 924 2401 1 chr1A.!!$R1 1477
2 TraesCS1A01G127200 chr5D 483797428 483798902 1474 True 2388 2388 95.878 925 2401 1 chr5D.!!$R5 1476
3 TraesCS1A01G127200 chr5D 6209518 6210993 1475 True 2318 2318 95.003 924 2401 1 chr5D.!!$R2 1477
4 TraesCS1A01G127200 chr5D 6166944 6167822 878 True 1334 1334 93.868 1 896 1 chr5D.!!$R1 895
5 TraesCS1A01G127200 chr5D 6265973 6266856 883 True 1323 1323 93.563 1 896 1 chr5D.!!$R3 895
6 TraesCS1A01G127200 chr5D 329157976 329158852 876 True 1293 1293 93.088 1 896 1 chr5D.!!$R4 895
7 TraesCS1A01G127200 chr5D 503301028 503301763 735 False 1192 1192 95.924 1 734 1 chr5D.!!$F1 733
8 TraesCS1A01G127200 chr3B 201503228 201504703 1475 False 2374 2374 95.679 924 2401 1 chr3B.!!$F1 1477
9 TraesCS1A01G127200 chr3B 460160270 460161730 1460 True 2021 2021 91.610 930 2401 1 chr3B.!!$R2 1471
10 TraesCS1A01G127200 chr3B 101910178 101911057 879 True 1352 1352 94.203 1 896 1 chr3B.!!$R1 895
11 TraesCS1A01G127200 chr2D 28723771 28725233 1462 False 2300 2300 94.936 924 2401 1 chr2D.!!$F1 1477
12 TraesCS1A01G127200 chr1D 244405306 244406759 1453 False 2115 2115 92.770 924 2401 1 chr1D.!!$F1 1477
13 TraesCS1A01G127200 chr1D 246421609 246422486 877 False 1312 1312 93.423 1 896 1 chr1D.!!$F2 895
14 TraesCS1A01G127200 chr1D 51862065 51862948 883 True 1234 1234 91.805 1 896 1 chr1D.!!$R1 895
15 TraesCS1A01G127200 chr6B 579205648 579206857 1209 True 1991 1991 96.376 1064 2274 1 chr6B.!!$R1 1210
16 TraesCS1A01G127200 chr1B 633725721 633726824 1103 False 1755 1755 95.389 924 2026 1 chr1B.!!$F1 1102
17 TraesCS1A01G127200 chr5A 684322666 684323739 1073 False 1681 1681 94.981 1332 2401 1 chr5A.!!$F1 1069
18 TraesCS1A01G127200 chr6A 592504253 592505132 879 False 1330 1330 93.757 1 896 1 chr6A.!!$F1 895
19 TraesCS1A01G127200 chr3A 69383715 69384591 876 True 1293 1293 93.088 1 896 1 chr3A.!!$R1 895
20 TraesCS1A01G127200 chr4A 309480034 309480913 879 True 1275 1275 92.650 1 896 1 chr4A.!!$R1 895

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
106 107 3.622163 TGTGCAAAAGCAAACCATTTCTG 59.378 39.13 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1874 1905 0.453793 TGCCAAAATAACGGATGCGG 59.546 50.0 12.44 0.0 0.0 5.69 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
106 107 3.622163 TGTGCAAAAGCAAACCATTTCTG 59.378 39.130 0.00 0.00 0.00 3.02
210 211 6.893554 TGCTAAGTCCTGGTATTTACTACTGA 59.106 38.462 0.00 0.00 0.00 3.41
213 214 7.973048 AAGTCCTGGTATTTACTACTGATCA 57.027 36.000 0.00 0.00 0.00 2.92
270 277 8.998957 TTGGGACTATAATATTAGATTGGGGA 57.001 34.615 1.02 0.00 0.00 4.81
286 298 4.021007 TGGGGAGGGAGATCAGAATTAA 57.979 45.455 0.00 0.00 0.00 1.40
429 441 6.613679 ACCCTAAAATTTTCTTGTCTTTCCCA 59.386 34.615 6.72 0.00 0.00 4.37
469 484 8.409371 AGAAGAGGATTGAGTCAAAAGAAAAAC 58.591 33.333 10.14 0.00 0.00 2.43
470 485 7.888250 AGAGGATTGAGTCAAAAGAAAAACT 57.112 32.000 10.14 0.00 0.00 2.66
592 608 5.512942 TGTGAATTAGGAAGGATTGGTCA 57.487 39.130 0.00 0.00 0.00 4.02
605 621 7.922811 GGAAGGATTGGTCAATGAAATATGAAC 59.077 37.037 0.43 0.00 33.81 3.18
692 708 6.369005 CGCTACAGATCATTTGATTGGAATC 58.631 40.000 0.00 0.00 34.37 2.52
751 767 7.945033 TGAATCACTTGAAAAATAAAGGCAC 57.055 32.000 0.00 0.00 0.00 5.01
771 787 8.880878 AGGCACTTGAAAAATAAACGTATTTT 57.119 26.923 3.68 3.68 43.10 1.82
842 858 6.754209 TCGTTTACAACATGCAGTTCAAAAAT 59.246 30.769 0.00 0.00 38.74 1.82
843 859 7.915923 TCGTTTACAACATGCAGTTCAAAAATA 59.084 29.630 0.00 0.00 38.74 1.40
877 893 6.334989 AGTATTCATACGTCAATCGAAACCA 58.665 36.000 0.00 0.00 42.86 3.67
912 928 4.463050 TGGTACAAAACTCCATCCCTTT 57.537 40.909 0.00 0.00 31.92 3.11
913 929 5.586155 TGGTACAAAACTCCATCCCTTTA 57.414 39.130 0.00 0.00 31.92 1.85
914 930 5.318630 TGGTACAAAACTCCATCCCTTTAC 58.681 41.667 0.00 0.00 31.92 2.01
915 931 5.073965 TGGTACAAAACTCCATCCCTTTACT 59.926 40.000 0.00 0.00 31.92 2.24
916 932 6.272792 TGGTACAAAACTCCATCCCTTTACTA 59.727 38.462 0.00 0.00 31.92 1.82
917 933 6.596888 GGTACAAAACTCCATCCCTTTACTAC 59.403 42.308 0.00 0.00 0.00 2.73
918 934 6.195600 ACAAAACTCCATCCCTTTACTACA 57.804 37.500 0.00 0.00 0.00 2.74
919 935 6.607019 ACAAAACTCCATCCCTTTACTACAA 58.393 36.000 0.00 0.00 0.00 2.41
920 936 7.064229 ACAAAACTCCATCCCTTTACTACAAA 58.936 34.615 0.00 0.00 0.00 2.83
921 937 7.728532 ACAAAACTCCATCCCTTTACTACAAAT 59.271 33.333 0.00 0.00 0.00 2.32
922 938 7.703058 AAACTCCATCCCTTTACTACAAATG 57.297 36.000 0.00 0.00 0.00 2.32
992 1008 4.842531 TGTAGAAATTCTGGGATCTGCA 57.157 40.909 5.64 0.00 33.12 4.41
1058 1074 7.324135 GGAACAGATAACTCGATCGATTTCTAC 59.676 40.741 22.05 14.65 0.00 2.59
1062 1078 8.017946 CAGATAACTCGATCGATTTCTACATCA 58.982 37.037 22.05 5.64 0.00 3.07
1141 1157 3.056607 GCAGCAGTGTTATGAAAACCCAT 60.057 43.478 0.00 0.00 0.00 4.00
1153 1169 4.724399 TGAAAACCCATGAGAAGCAACTA 58.276 39.130 0.00 0.00 0.00 2.24
1217 1233 3.194968 GTCGATACTGAAGTTCCCCAAGA 59.805 47.826 0.00 0.00 0.00 3.02
1227 1243 1.075601 TTCCCCAAGATGTGCTTCCT 58.924 50.000 0.00 0.00 33.60 3.36
1244 1260 6.595716 GTGCTTCCTGATACTGTATTTGAAGT 59.404 38.462 22.09 0.00 0.00 3.01
1323 1340 1.682087 GGAGGGTTGAATGTAGGTGCC 60.682 57.143 0.00 0.00 0.00 5.01
1325 1342 1.654023 GGGTTGAATGTAGGTGCCGC 61.654 60.000 0.00 0.00 0.00 6.53
1458 1479 2.265367 TCTTGTGATAGGCCCTGTTCA 58.735 47.619 0.00 0.00 0.00 3.18
1504 1525 2.899303 TTCCCATTCTTTCCCCTGAC 57.101 50.000 0.00 0.00 0.00 3.51
1610 1631 7.390823 TGATGGTAGCAAGAGTAACAATACAA 58.609 34.615 0.00 0.00 34.29 2.41
1736 1764 2.789323 ATTATACCTCCCGGACCAGT 57.211 50.000 0.73 0.00 0.00 4.00
1764 1792 2.654385 TGTTTCAGAGGGGGAATCCATT 59.346 45.455 0.09 0.00 37.22 3.16
1817 1845 0.185175 GTGGGAGGTTTTGGTCAGGT 59.815 55.000 0.00 0.00 0.00 4.00
1866 1897 2.351706 TACGTGTCCAAGGCCTTTTT 57.648 45.000 17.61 0.00 0.00 1.94
1974 2005 4.691326 ATTTCTAGGTCTCGGGATTTCC 57.309 45.455 0.00 0.00 0.00 3.13
2006 2037 7.858879 TCAAGTTGGTAAAAAGCTTCGATTTAC 59.141 33.333 18.05 18.05 38.29 2.01
2015 2046 6.509418 AAAGCTTCGATTTACTGGCAATTA 57.491 33.333 0.00 0.00 0.00 1.40
2134 2181 6.461640 CAAAAGAAGAGAATCCAAGGCAAAT 58.538 36.000 0.00 0.00 33.66 2.32
2150 2197 4.923281 AGGCAAATGCGAGAACAATAAAAC 59.077 37.500 0.00 0.00 43.26 2.43
2179 2226 5.860648 TTCTTCCTTTTAGGAGGGATTGT 57.139 39.130 5.18 0.00 46.73 2.71
2189 2236 3.379452 AGGAGGGATTGTAGGTCTTCTG 58.621 50.000 0.00 0.00 0.00 3.02
2369 2416 1.975680 GGTAGTGGACAAACAGAGGGA 59.024 52.381 0.00 0.00 0.00 4.20
2386 2433 1.686587 GGGAAAGAAAATATGGCGGGG 59.313 52.381 0.00 0.00 0.00 5.73
2409 2456 8.762481 GGGGGACAAATTTATTGAGTATTACT 57.238 34.615 0.00 0.00 0.00 2.24
2410 2457 9.856162 GGGGGACAAATTTATTGAGTATTACTA 57.144 33.333 0.00 0.00 0.00 1.82
2427 2474 9.819267 AGTATTACTATTGCTTGAGTTACTTCC 57.181 33.333 0.00 0.00 0.00 3.46
2428 2475 9.819267 GTATTACTATTGCTTGAGTTACTTCCT 57.181 33.333 0.00 0.00 0.00 3.36
2429 2476 8.950208 ATTACTATTGCTTGAGTTACTTCCTC 57.050 34.615 0.00 0.00 0.00 3.71
2430 2477 6.613153 ACTATTGCTTGAGTTACTTCCTCT 57.387 37.500 0.00 0.00 0.00 3.69
2431 2478 7.719871 ACTATTGCTTGAGTTACTTCCTCTA 57.280 36.000 0.00 0.00 0.00 2.43
2432 2479 7.548967 ACTATTGCTTGAGTTACTTCCTCTAC 58.451 38.462 0.00 0.00 0.00 2.59
2433 2480 4.436242 TGCTTGAGTTACTTCCTCTACG 57.564 45.455 0.00 0.00 0.00 3.51
2434 2481 3.825014 TGCTTGAGTTACTTCCTCTACGT 59.175 43.478 0.00 0.00 0.00 3.57
2435 2482 4.082895 TGCTTGAGTTACTTCCTCTACGTC 60.083 45.833 0.00 0.00 0.00 4.34
2436 2483 4.082895 GCTTGAGTTACTTCCTCTACGTCA 60.083 45.833 0.00 0.00 0.00 4.35
2437 2484 5.393243 GCTTGAGTTACTTCCTCTACGTCAT 60.393 44.000 0.00 0.00 0.00 3.06
2438 2485 5.562506 TGAGTTACTTCCTCTACGTCATG 57.437 43.478 0.00 0.00 0.00 3.07
2439 2486 5.008331 TGAGTTACTTCCTCTACGTCATGT 58.992 41.667 0.00 0.00 0.00 3.21
2440 2487 5.123502 TGAGTTACTTCCTCTACGTCATGTC 59.876 44.000 0.00 0.00 0.00 3.06
2441 2488 5.008331 AGTTACTTCCTCTACGTCATGTCA 58.992 41.667 0.00 0.00 0.00 3.58
2442 2489 5.652891 AGTTACTTCCTCTACGTCATGTCAT 59.347 40.000 0.00 0.00 0.00 3.06
2443 2490 4.640789 ACTTCCTCTACGTCATGTCATC 57.359 45.455 0.00 0.00 0.00 2.92
2444 2491 4.274147 ACTTCCTCTACGTCATGTCATCT 58.726 43.478 0.00 0.00 0.00 2.90
2445 2492 4.707448 ACTTCCTCTACGTCATGTCATCTT 59.293 41.667 0.00 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 5.677319 TCGGAAGAATAGGTGAGTGATTT 57.323 39.130 0.00 0.00 37.03 2.17
260 261 2.797765 TCTGATCTCCCTCCCCAATCTA 59.202 50.000 0.00 0.00 0.00 1.98
359 371 5.598830 TCTCTTAGATTCGAACCCATAGCTT 59.401 40.000 0.00 0.00 0.00 3.74
429 441 6.573712 ATCCTCTTCTTCTCCTTAGCATTT 57.426 37.500 0.00 0.00 0.00 2.32
605 621 9.083422 TGAGGTATATCAAGATTAAGTCTCTGG 57.917 37.037 0.00 0.00 35.67 3.86
692 708 6.972328 CGTCAAGTATACCCATTCCAAATTTG 59.028 38.462 11.40 11.40 0.00 2.32
703 719 3.281158 TCGTCATCGTCAAGTATACCCA 58.719 45.455 0.00 0.00 38.33 4.51
770 786 6.876789 TCTTGTAATAGATCTGCAACCGAAAA 59.123 34.615 5.18 0.00 0.00 2.29
771 787 6.403049 TCTTGTAATAGATCTGCAACCGAAA 58.597 36.000 5.18 0.00 0.00 3.46
787 803 7.778853 AGAGCCAATCTGAATTGATCTTGTAAT 59.221 33.333 0.00 0.00 44.25 1.89
803 819 2.568623 AAACGACCAAGAGCCAATCT 57.431 45.000 0.00 0.00 41.27 2.40
896 912 7.519032 TTTGTAGTAAAGGGATGGAGTTTTG 57.481 36.000 0.00 0.00 0.00 2.44
897 913 7.178451 CCATTTGTAGTAAAGGGATGGAGTTTT 59.822 37.037 0.00 0.00 35.68 2.43
898 914 6.663523 CCATTTGTAGTAAAGGGATGGAGTTT 59.336 38.462 0.00 0.00 35.68 2.66
899 915 6.011981 TCCATTTGTAGTAAAGGGATGGAGTT 60.012 38.462 2.03 0.00 37.30 3.01
900 916 5.491078 TCCATTTGTAGTAAAGGGATGGAGT 59.509 40.000 2.03 0.00 37.30 3.85
901 917 6.001449 TCCATTTGTAGTAAAGGGATGGAG 57.999 41.667 2.03 0.00 37.30 3.86
902 918 6.590656 ATCCATTTGTAGTAAAGGGATGGA 57.409 37.500 15.29 4.81 45.67 3.41
903 919 6.833416 TGAATCCATTTGTAGTAAAGGGATGG 59.167 38.462 16.36 2.37 46.40 3.51
904 920 7.880160 TGAATCCATTTGTAGTAAAGGGATG 57.120 36.000 16.36 0.00 46.40 3.51
906 922 7.410174 ACATGAATCCATTTGTAGTAAAGGGA 58.590 34.615 8.03 8.03 43.16 4.20
907 923 7.645058 ACATGAATCCATTTGTAGTAAAGGG 57.355 36.000 0.00 0.00 32.77 3.95
912 928 9.387397 TCCCTATACATGAATCCATTTGTAGTA 57.613 33.333 0.00 0.00 28.28 1.82
913 929 8.275187 TCCCTATACATGAATCCATTTGTAGT 57.725 34.615 0.00 0.00 28.28 2.73
914 930 9.003658 GTTCCCTATACATGAATCCATTTGTAG 57.996 37.037 0.00 0.00 29.41 2.74
915 931 8.723365 AGTTCCCTATACATGAATCCATTTGTA 58.277 33.333 0.00 0.00 0.00 2.41
916 932 7.586349 AGTTCCCTATACATGAATCCATTTGT 58.414 34.615 0.00 0.00 0.00 2.83
917 933 9.224267 CTAGTTCCCTATACATGAATCCATTTG 57.776 37.037 0.00 0.00 0.00 2.32
918 934 9.170890 TCTAGTTCCCTATACATGAATCCATTT 57.829 33.333 0.00 0.00 0.00 2.32
919 935 8.742125 TCTAGTTCCCTATACATGAATCCATT 57.258 34.615 0.00 0.00 0.00 3.16
920 936 8.923838 ATCTAGTTCCCTATACATGAATCCAT 57.076 34.615 0.00 0.00 0.00 3.41
921 937 8.742125 AATCTAGTTCCCTATACATGAATCCA 57.258 34.615 0.00 0.00 0.00 3.41
966 982 7.500227 TGCAGATCCCAGAATTTCTACAATAAG 59.500 37.037 0.00 0.00 0.00 1.73
1081 1097 7.984422 ATGCATTTGAAATATATGTCCGAGA 57.016 32.000 0.00 0.00 0.00 4.04
1126 1142 5.076182 TGCTTCTCATGGGTTTTCATAACA 58.924 37.500 0.00 0.00 0.00 2.41
1141 1157 4.883083 ACAATTCGTCTAGTTGCTTCTCA 58.117 39.130 0.00 0.00 0.00 3.27
1153 1169 4.675146 GCAATTGGCACATACAATTCGTCT 60.675 41.667 7.72 0.00 44.29 4.18
1217 1233 6.653020 TCAAATACAGTATCAGGAAGCACAT 58.347 36.000 0.00 0.00 0.00 3.21
1244 1260 9.424319 GCATATCATAAGGAATTCGAAGAACTA 57.576 33.333 3.35 0.00 45.90 2.24
1323 1340 0.657840 CCTCGGGCAAAATAAGAGCG 59.342 55.000 0.00 0.00 0.00 5.03
1325 1342 3.248602 CGAATCCTCGGGCAAAATAAGAG 59.751 47.826 0.00 0.00 41.57 2.85
1430 1451 4.706962 AGGGCCTATCACAAGAATGTTTTC 59.293 41.667 2.82 0.00 37.82 2.29
1458 1479 9.886132 AGACAATTTCACTATATTTCTTACCGT 57.114 29.630 0.00 0.00 0.00 4.83
1504 1525 1.936547 GCATCTTTCTTCGTAGCAGGG 59.063 52.381 0.00 0.00 0.00 4.45
1736 1764 3.593942 TCCCCCTCTGAAACAAGAAGTA 58.406 45.455 0.00 0.00 0.00 2.24
1817 1845 0.665835 AAGCACGATTTTTGCGTCCA 59.334 45.000 0.00 0.00 45.15 4.02
1866 1897 3.536956 ATAACGGATGCGGAGAAGAAA 57.463 42.857 12.44 0.00 0.00 2.52
1874 1905 0.453793 TGCCAAAATAACGGATGCGG 59.546 50.000 12.44 0.00 0.00 5.69
2086 2133 9.599056 TTGCATGGGATATAAATAAGGAATTCA 57.401 29.630 7.93 0.00 0.00 2.57
2134 2181 9.959749 AGAAATTTTAGTTTTATTGTTCTCGCA 57.040 25.926 0.00 0.00 0.00 5.10
2150 2197 8.879427 TCCCTCCTAAAAGGAAGAAATTTTAG 57.121 34.615 9.43 9.43 45.28 1.85
2168 2215 3.012959 TCAGAAGACCTACAATCCCTCCT 59.987 47.826 0.00 0.00 0.00 3.69
2179 2226 5.238868 CCGAATAGACGATTCAGAAGACCTA 59.761 44.000 8.72 0.00 43.76 3.08
2189 2236 3.444916 TCTTGTGCCGAATAGACGATTC 58.555 45.455 0.00 0.00 40.65 2.52
2284 2331 8.491958 ACATACCCGAATAAAGGAGAAATAGTT 58.508 33.333 0.00 0.00 0.00 2.24
2294 2341 5.057149 CCAAGAGACATACCCGAATAAAGG 58.943 45.833 0.00 0.00 0.00 3.11
2401 2448 9.819267 GGAAGTAACTCAAGCAATAGTAATACT 57.181 33.333 0.00 0.00 0.00 2.12
2402 2449 9.819267 AGGAAGTAACTCAAGCAATAGTAATAC 57.181 33.333 0.00 0.00 0.00 1.89
2404 2451 8.763601 AGAGGAAGTAACTCAAGCAATAGTAAT 58.236 33.333 0.00 0.00 37.43 1.89
2405 2452 8.135382 AGAGGAAGTAACTCAAGCAATAGTAA 57.865 34.615 0.00 0.00 37.43 2.24
2406 2453 7.719871 AGAGGAAGTAACTCAAGCAATAGTA 57.280 36.000 0.00 0.00 37.43 1.82
2407 2454 6.613153 AGAGGAAGTAACTCAAGCAATAGT 57.387 37.500 0.00 0.00 37.43 2.12
2408 2455 6.693545 CGTAGAGGAAGTAACTCAAGCAATAG 59.306 42.308 0.00 0.00 37.43 1.73
2409 2456 6.152323 ACGTAGAGGAAGTAACTCAAGCAATA 59.848 38.462 0.00 0.00 37.43 1.90
2410 2457 5.047235 ACGTAGAGGAAGTAACTCAAGCAAT 60.047 40.000 0.00 0.00 37.43 3.56
2411 2458 4.280174 ACGTAGAGGAAGTAACTCAAGCAA 59.720 41.667 0.00 0.00 37.43 3.91
2412 2459 3.825014 ACGTAGAGGAAGTAACTCAAGCA 59.175 43.478 0.00 0.00 37.43 3.91
2413 2460 4.082895 TGACGTAGAGGAAGTAACTCAAGC 60.083 45.833 0.00 0.00 37.43 4.01
2414 2461 5.624344 TGACGTAGAGGAAGTAACTCAAG 57.376 43.478 0.00 0.00 37.43 3.02
2415 2462 5.475909 ACATGACGTAGAGGAAGTAACTCAA 59.524 40.000 0.00 0.00 37.43 3.02
2416 2463 5.008331 ACATGACGTAGAGGAAGTAACTCA 58.992 41.667 0.00 0.00 37.43 3.41
2417 2464 5.123502 TGACATGACGTAGAGGAAGTAACTC 59.876 44.000 0.00 0.00 35.20 3.01
2418 2465 5.008331 TGACATGACGTAGAGGAAGTAACT 58.992 41.667 0.00 0.00 0.00 2.24
2419 2466 5.306532 TGACATGACGTAGAGGAAGTAAC 57.693 43.478 0.00 0.00 0.00 2.50
2420 2467 5.886474 AGATGACATGACGTAGAGGAAGTAA 59.114 40.000 0.00 0.00 0.00 2.24
2421 2468 5.437946 AGATGACATGACGTAGAGGAAGTA 58.562 41.667 0.00 0.00 0.00 2.24
2422 2469 4.274147 AGATGACATGACGTAGAGGAAGT 58.726 43.478 0.00 0.00 0.00 3.01
2423 2470 4.909696 AGATGACATGACGTAGAGGAAG 57.090 45.455 0.00 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.