Multiple sequence alignment - TraesCS3D01G141200

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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 TraesCS3D01G141200 chr3D 100.000 2735 0 0 1 2735 103620372 103623106 0.000000e+00 5051.0
1 TraesCS3D01G141200 chr3D 94.186 86 1 3 594 678 113456553 113456635 7.950000e-26 128.0
2 TraesCS3D01G141200 chr3B 92.959 2102 86 28 675 2735 154195697 154197777 0.000000e+00 3005.0
3 TraesCS3D01G141200 chr3B 88.679 424 30 10 1 411 154194982 154195400 4.070000e-138 501.0
4 TraesCS3D01G141200 chr3B 92.268 194 10 3 402 593 154195494 154195684 1.250000e-68 270.0
5 TraesCS3D01G141200 chr3B 93.827 81 3 1 594 674 765885943 765886021 1.330000e-23 121.0
6 TraesCS3D01G141200 chr3A 87.581 1844 131 46 696 2467 552641763 552639946 0.000000e+00 2047.0
7 TraesCS3D01G141200 chr3A 86.121 562 49 8 1 549 552642518 552641973 1.830000e-161 579.0
8 TraesCS3D01G141200 chr3A 81.197 117 21 1 2570 2686 552639888 552639773 2.900000e-15 93.5
9 TraesCS3D01G141200 chr2D 84.190 253 28 8 1173 1419 527272546 527272300 4.550000e-58 235.0
10 TraesCS3D01G141200 chr2A 84.127 252 30 7 1173 1419 672265664 672265418 4.550000e-58 235.0
11 TraesCS3D01G141200 chr2B 81.673 251 36 9 1175 1420 623869950 623869705 1.660000e-47 200.0
12 TraesCS3D01G141200 chr4A 80.571 175 25 9 1174 1342 703941884 703941713 2.860000e-25 126.0
13 TraesCS3D01G141200 chr4A 91.765 85 5 2 594 677 728648013 728648096 1.720000e-22 117.0
14 TraesCS3D01G141200 chr4A 81.690 142 17 8 1174 1309 704153888 704153750 2.880000e-20 110.0
15 TraesCS3D01G141200 chr4A 75.581 258 39 23 1174 1414 703932264 703932514 3.720000e-19 106.0
16 TraesCS3D01G141200 chr7D 94.048 84 2 2 594 674 566094445 566094362 1.030000e-24 124.0
17 TraesCS3D01G141200 chr7D 75.486 257 41 20 1174 1414 27453271 27453521 3.720000e-19 106.0
18 TraesCS3D01G141200 chrUn 93.827 81 5 0 594 674 6054476 6054396 3.700000e-24 122.0
19 TraesCS3D01G141200 chr4D 92.771 83 4 2 594 675 488878489 488878570 4.780000e-23 119.0
20 TraesCS3D01G141200 chr4D 91.765 85 5 2 594 678 116821920 116822002 1.720000e-22 117.0
21 TraesCS3D01G141200 chr1A 92.771 83 5 1 594 676 58166701 58166620 4.780000e-23 119.0
22 TraesCS3D01G141200 chr7B 91.860 86 3 3 594 678 430307334 430307416 1.720000e-22 117.0


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 TraesCS3D01G141200 chr3D 103620372 103623106 2734 False 5051.000000 5051 100.000000 1 2735 1 chr3D.!!$F1 2734
1 TraesCS3D01G141200 chr3B 154194982 154197777 2795 False 1258.666667 3005 91.302000 1 2735 3 chr3B.!!$F2 2734
2 TraesCS3D01G141200 chr3A 552639773 552642518 2745 True 906.500000 2047 84.966333 1 2686 3 chr3A.!!$R1 2685

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
214 220 0.105039 CAGGTAAGACTCATCCCCGC 59.895 60.0 0.0 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1737 2046 0.586319 CAAGGTGTTGTACGGCACAG 59.414 55.0 17.5 6.71 38.72 3.66 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
110 115 2.158475 TCTTGCTTTGTCAAGGGATGGT 60.158 45.455 4.00 0.00 42.68 3.55
159 164 9.918630 AAGAAATATGAGTGAAAAATTGGAGTG 57.081 29.630 0.00 0.00 0.00 3.51
163 168 2.293399 GAGTGAAAAATTGGAGTGCGGT 59.707 45.455 0.00 0.00 0.00 5.68
165 170 3.132111 AGTGAAAAATTGGAGTGCGGTTT 59.868 39.130 0.00 0.00 0.00 3.27
171 176 4.499037 AATTGGAGTGCGGTTTTAGTTC 57.501 40.909 0.00 0.00 0.00 3.01
174 179 2.289195 TGGAGTGCGGTTTTAGTTCGAT 60.289 45.455 0.00 0.00 0.00 3.59
176 181 3.251571 GAGTGCGGTTTTAGTTCGATCT 58.748 45.455 0.97 0.97 0.00 2.75
178 183 2.991190 GTGCGGTTTTAGTTCGATCTCA 59.009 45.455 0.00 0.00 0.00 3.27
192 198 0.179045 ATCTCAAAATCTCCCCCGCG 60.179 55.000 0.00 0.00 0.00 6.46
213 219 1.409427 GACAGGTAAGACTCATCCCCG 59.591 57.143 0.00 0.00 0.00 5.73
214 220 0.105039 CAGGTAAGACTCATCCCCGC 59.895 60.000 0.00 0.00 0.00 6.13
215 221 1.067582 GGTAAGACTCATCCCCGCG 59.932 63.158 0.00 0.00 0.00 6.46
216 222 1.067582 GTAAGACTCATCCCCGCGG 59.932 63.158 21.04 21.04 0.00 6.46
217 223 1.076559 TAAGACTCATCCCCGCGGA 60.077 57.895 30.73 8.21 44.33 5.54
233 240 1.294659 CGGAGCTGAGAGCAAACCAC 61.295 60.000 0.00 0.00 45.56 4.16
335 352 4.749099 GTGGCACAATTTTGCTTACATTGA 59.251 37.500 13.86 0.00 44.16 2.57
413 533 8.429237 AAACATGGGGTACAAATAGAATTCAA 57.571 30.769 8.44 0.00 0.00 2.69
418 538 8.893563 TGGGGTACAAATAGAATTCAATCTTT 57.106 30.769 8.44 0.00 0.00 2.52
419 539 9.983024 TGGGGTACAAATAGAATTCAATCTTTA 57.017 29.630 8.44 0.00 0.00 1.85
497 618 6.892691 AGAAAAATGTCGAGTGAGAAATGAC 58.107 36.000 0.00 0.00 0.00 3.06
536 660 7.672738 ACTGTGCTATAGACGTTTTTATTTCG 58.327 34.615 3.21 0.00 0.00 3.46
593 862 0.804989 CAAGTGAATCGTTGGGAGGC 59.195 55.000 0.00 0.00 0.00 4.70
594 863 0.693049 AAGTGAATCGTTGGGAGGCT 59.307 50.000 0.00 0.00 0.00 4.58
595 864 0.250513 AGTGAATCGTTGGGAGGCTC 59.749 55.000 5.78 5.78 0.00 4.70
596 865 0.744771 GTGAATCGTTGGGAGGCTCC 60.745 60.000 25.80 25.80 35.23 4.70
598 867 2.240162 GAATCGTTGGGAGGCTCCGT 62.240 60.000 26.54 5.97 37.43 4.69
599 868 1.838073 AATCGTTGGGAGGCTCCGTT 61.838 55.000 26.54 11.37 37.43 4.44
601 870 2.033194 CGTTGGGAGGCTCCGTTTC 61.033 63.158 26.54 13.59 37.43 2.78
602 871 1.072505 GTTGGGAGGCTCCGTTTCA 59.927 57.895 26.54 16.11 37.43 2.69
603 872 0.536460 GTTGGGAGGCTCCGTTTCAA 60.536 55.000 26.54 20.77 37.43 2.69
604 873 0.183971 TTGGGAGGCTCCGTTTCAAA 59.816 50.000 26.54 11.10 37.43 2.69
606 875 1.203001 TGGGAGGCTCCGTTTCAAAAT 60.203 47.619 26.54 0.00 37.43 1.82
607 876 2.040545 TGGGAGGCTCCGTTTCAAAATA 59.959 45.455 26.54 0.73 37.43 1.40
608 877 2.683362 GGGAGGCTCCGTTTCAAAATAG 59.317 50.000 26.54 0.00 37.43 1.73
609 878 3.606687 GGAGGCTCCGTTTCAAAATAGA 58.393 45.455 19.53 0.00 0.00 1.98
610 879 4.200092 GGAGGCTCCGTTTCAAAATAGAT 58.800 43.478 19.53 0.00 0.00 1.98
611 880 4.035675 GGAGGCTCCGTTTCAAAATAGATG 59.964 45.833 19.53 0.00 0.00 2.90
612 881 4.843728 AGGCTCCGTTTCAAAATAGATGA 58.156 39.130 0.00 0.00 0.00 2.92
613 882 4.636206 AGGCTCCGTTTCAAAATAGATGAC 59.364 41.667 0.00 0.00 0.00 3.06
614 883 4.201920 GGCTCCGTTTCAAAATAGATGACC 60.202 45.833 0.00 0.00 0.00 4.02
615 884 4.201920 GCTCCGTTTCAAAATAGATGACCC 60.202 45.833 0.00 0.00 0.00 4.46
616 885 4.912586 TCCGTTTCAAAATAGATGACCCA 58.087 39.130 0.00 0.00 0.00 4.51
617 886 5.317808 TCCGTTTCAAAATAGATGACCCAA 58.682 37.500 0.00 0.00 0.00 4.12
618 887 5.182380 TCCGTTTCAAAATAGATGACCCAAC 59.818 40.000 0.00 0.00 0.00 3.77
619 888 5.183140 CCGTTTCAAAATAGATGACCCAACT 59.817 40.000 0.00 0.00 0.00 3.16
620 889 6.294508 CCGTTTCAAAATAGATGACCCAACTT 60.295 38.462 0.00 0.00 0.00 2.66
621 890 7.145323 CGTTTCAAAATAGATGACCCAACTTT 58.855 34.615 0.00 0.00 0.00 2.66
622 891 7.114811 CGTTTCAAAATAGATGACCCAACTTTG 59.885 37.037 0.00 0.00 0.00 2.77
623 892 7.595819 TTCAAAATAGATGACCCAACTTTGT 57.404 32.000 0.00 0.00 0.00 2.83
624 893 8.698973 TTCAAAATAGATGACCCAACTTTGTA 57.301 30.769 0.00 0.00 0.00 2.41
625 894 8.106247 TCAAAATAGATGACCCAACTTTGTAC 57.894 34.615 0.00 0.00 0.00 2.90
626 895 7.942341 TCAAAATAGATGACCCAACTTTGTACT 59.058 33.333 0.00 0.00 0.00 2.73
627 896 9.226606 CAAAATAGATGACCCAACTTTGTACTA 57.773 33.333 0.00 0.00 0.00 1.82
628 897 9.975218 AAAATAGATGACCCAACTTTGTACTAT 57.025 29.630 0.00 0.00 0.00 2.12
629 898 9.975218 AAATAGATGACCCAACTTTGTACTATT 57.025 29.630 0.00 0.00 0.00 1.73
630 899 9.975218 AATAGATGACCCAACTTTGTACTATTT 57.025 29.630 0.00 0.00 0.00 1.40
633 902 8.603304 AGATGACCCAACTTTGTACTATTTAGT 58.397 33.333 0.00 0.00 40.24 2.24
634 903 9.880157 GATGACCCAACTTTGTACTATTTAGTA 57.120 33.333 0.00 0.00 37.73 1.82
635 904 9.886132 ATGACCCAACTTTGTACTATTTAGTAG 57.114 33.333 0.00 0.00 39.29 2.57
636 905 8.873144 TGACCCAACTTTGTACTATTTAGTAGT 58.127 33.333 0.00 0.00 45.49 2.73
665 934 7.153217 AGTTGGGTCATCTATTTTAAAACGG 57.847 36.000 1.97 0.00 0.00 4.44
666 935 6.943718 AGTTGGGTCATCTATTTTAAAACGGA 59.056 34.615 1.97 5.09 0.00 4.69
667 936 6.995511 TGGGTCATCTATTTTAAAACGGAG 57.004 37.500 1.97 1.74 0.00 4.63
668 937 5.883673 TGGGTCATCTATTTTAAAACGGAGG 59.116 40.000 1.97 6.55 0.00 4.30
669 938 5.298527 GGGTCATCTATTTTAAAACGGAGGG 59.701 44.000 1.97 2.46 0.00 4.30
670 939 6.117488 GGTCATCTATTTTAAAACGGAGGGA 58.883 40.000 1.97 4.48 0.00 4.20
671 940 6.260271 GGTCATCTATTTTAAAACGGAGGGAG 59.740 42.308 1.97 0.00 0.00 4.30
672 941 6.822170 GTCATCTATTTTAAAACGGAGGGAGT 59.178 38.462 1.97 0.00 0.00 3.85
673 942 7.983484 GTCATCTATTTTAAAACGGAGGGAGTA 59.017 37.037 1.97 0.00 0.00 2.59
674 943 8.542080 TCATCTATTTTAAAACGGAGGGAGTAA 58.458 33.333 1.97 0.00 0.00 2.24
675 944 8.827677 CATCTATTTTAAAACGGAGGGAGTAAG 58.172 37.037 1.97 0.00 0.00 2.34
676 945 7.910584 TCTATTTTAAAACGGAGGGAGTAAGT 58.089 34.615 1.97 0.00 0.00 2.24
770 1045 5.003804 ACCATGCGACCCTAATTATTGATC 58.996 41.667 0.00 0.00 0.00 2.92
880 1162 0.766131 CTCCTCGCTCTACCCCTCTA 59.234 60.000 0.00 0.00 0.00 2.43
898 1180 3.082548 TCTACTTGCTCGCAGTAACTCT 58.917 45.455 0.00 0.00 0.00 3.24
902 1184 3.256136 ACTTGCTCGCAGTAACTCTAGTT 59.744 43.478 0.39 0.39 41.73 2.24
903 1185 3.489180 TGCTCGCAGTAACTCTAGTTC 57.511 47.619 0.00 0.00 39.31 3.01
904 1186 3.082548 TGCTCGCAGTAACTCTAGTTCT 58.917 45.455 0.00 0.00 39.31 3.01
905 1187 4.259356 TGCTCGCAGTAACTCTAGTTCTA 58.741 43.478 0.00 0.00 39.31 2.10
906 1188 4.333095 TGCTCGCAGTAACTCTAGTTCTAG 59.667 45.833 0.00 0.83 39.31 2.43
959 1241 1.535636 CGAGCGCGTGTCATCTCATC 61.536 60.000 8.43 0.00 0.00 2.92
960 1242 0.248825 GAGCGCGTGTCATCTCATCT 60.249 55.000 8.43 0.00 0.00 2.90
967 1249 1.596477 GTCATCTCATCTGGGCGCC 60.596 63.158 21.18 21.18 0.00 6.53
1350 1650 0.543410 TGCTCAACTTCCCGGACCTA 60.543 55.000 0.73 0.00 0.00 3.08
1498 1804 4.585526 CCTCTCCGCGCGGCAATA 62.586 66.667 42.78 25.52 34.68 1.90
1546 1852 2.026879 GAGACGAGCCGGAGCATC 59.973 66.667 5.05 0.00 43.56 3.91
1737 2046 1.802553 TCCTGTGGGAGTATTAGGCC 58.197 55.000 0.00 0.00 36.57 5.19
1740 2049 2.119495 CTGTGGGAGTATTAGGCCTGT 58.881 52.381 17.99 6.62 0.00 4.00
1741 2050 1.837439 TGTGGGAGTATTAGGCCTGTG 59.163 52.381 17.99 0.00 0.00 3.66
1742 2051 0.837272 TGGGAGTATTAGGCCTGTGC 59.163 55.000 17.99 7.80 0.00 4.57
1878 2206 6.002082 GGGTTTGGACTACTTGTAAGTTGAT 58.998 40.000 12.02 0.00 40.37 2.57
1882 2210 7.843490 TTGGACTACTTGTAAGTTGATATGC 57.157 36.000 12.02 0.00 40.37 3.14
1910 2238 5.586243 TGACCAATTTAGCTTAGATGTGAGC 59.414 40.000 0.00 0.00 39.17 4.26
1923 2251 4.649692 AGATGTGAGCTGAGTTTGAACAT 58.350 39.130 0.00 0.00 0.00 2.71
1924 2252 5.798132 AGATGTGAGCTGAGTTTGAACATA 58.202 37.500 0.00 0.00 0.00 2.29
1957 2297 6.713762 AATGTACATGTGAATTATGTGGGG 57.286 37.500 9.63 0.00 39.03 4.96
1963 2303 6.489603 ACATGTGAATTATGTGGGGTTTAGA 58.510 36.000 0.00 0.00 37.38 2.10
1965 2305 7.068593 ACATGTGAATTATGTGGGGTTTAGATG 59.931 37.037 0.00 0.00 37.38 2.90
1991 2331 5.213675 CGCAAAATTACGGGTTTTCTTACA 58.786 37.500 0.00 0.00 0.00 2.41
2112 2452 1.387756 GCAATTGCTTGACAACGATGC 59.612 47.619 23.21 0.00 42.27 3.91
2114 2454 3.670359 GCAATTGCTTGACAACGATGCTA 60.670 43.478 23.21 0.00 42.27 3.49
2118 2458 1.325943 GCTTGACAACGATGCTAGCTC 59.674 52.381 17.23 9.92 32.91 4.09
2138 2478 1.331138 CGCTTGTTTTACAACACGGGA 59.669 47.619 8.96 0.00 43.76 5.14
2140 2480 3.368495 GCTTGTTTTACAACACGGGAAG 58.632 45.455 0.00 0.00 42.87 3.46
2142 2482 1.331138 TGTTTTACAACACGGGAAGCG 59.669 47.619 0.00 0.00 38.03 4.68
2161 2501 3.381908 AGCGTCATCTTTCTCGAACCTAT 59.618 43.478 0.00 0.00 0.00 2.57
2192 2564 6.423862 TCAACAACGGAGAAATTAAAACTCG 58.576 36.000 0.00 0.00 0.00 4.18
2216 2588 7.277098 TCGTTGTGGTATAAGCTATTGACTTTC 59.723 37.037 0.00 0.00 0.00 2.62
2360 2734 2.083774 GTCGTTTGCATGGATCTTGGA 58.916 47.619 0.00 0.00 0.00 3.53
2365 2739 4.563976 CGTTTGCATGGATCTTGGATTTTC 59.436 41.667 0.00 0.00 0.00 2.29
2391 2767 9.931210 CTTTCCGAGTATATTGGTTTCAAATAC 57.069 33.333 0.00 0.00 36.36 1.89
2488 2864 8.408601 TCCCTGTGTAGAAACGATATAAACTAC 58.591 37.037 0.00 0.00 0.00 2.73
2489 2865 8.411683 CCCTGTGTAGAAACGATATAAACTACT 58.588 37.037 0.00 0.00 33.68 2.57
2541 2917 2.245159 TGATATTTCAGGCTGGAGCG 57.755 50.000 15.73 0.00 43.26 5.03
2695 3071 2.042843 ACCTCAGAGGCCCTACCG 60.043 66.667 17.31 0.00 46.52 4.02
2706 3082 2.509964 AGGCCCTACCGAGATTTTTCAT 59.490 45.455 0.00 0.00 46.52 2.57
2727 3103 9.667107 TTTCATAAATGAATCGAAGAAGGTACT 57.333 29.630 6.24 0.00 45.30 2.73
2729 3105 5.803020 AAATGAATCGAAGAAGGTACTGC 57.197 39.130 0.00 0.00 43.58 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
110 115 2.576191 CTCCCCAATTGACAGGTAGGAA 59.424 50.000 7.12 0.00 0.00 3.36
159 164 4.657075 TTTGAGATCGAACTAAAACCGC 57.343 40.909 1.19 0.00 0.00 5.68
163 168 6.598064 GGGGAGATTTTGAGATCGAACTAAAA 59.402 38.462 1.19 1.19 0.00 1.52
165 170 5.396436 GGGGGAGATTTTGAGATCGAACTAA 60.396 44.000 0.00 0.00 0.00 2.24
171 176 1.871080 CGGGGGAGATTTTGAGATCG 58.129 55.000 0.00 0.00 0.00 3.69
174 179 1.220749 CGCGGGGGAGATTTTGAGA 59.779 57.895 0.00 0.00 0.00 3.27
176 181 2.270850 CCGCGGGGGAGATTTTGA 59.729 61.111 20.10 0.00 38.47 2.69
192 198 1.763545 GGGGATGAGTCTTACCTGTCC 59.236 57.143 7.21 0.00 0.00 4.02
213 219 2.394563 GGTTTGCTCTCAGCTCCGC 61.395 63.158 0.00 0.00 42.97 5.54
214 220 1.004560 TGGTTTGCTCTCAGCTCCG 60.005 57.895 0.00 0.00 42.97 4.63
215 221 0.250467 TGTGGTTTGCTCTCAGCTCC 60.250 55.000 0.00 0.00 42.97 4.70
216 222 0.871057 GTGTGGTTTGCTCTCAGCTC 59.129 55.000 0.00 0.00 42.97 4.09
217 223 0.181114 TGTGTGGTTTGCTCTCAGCT 59.819 50.000 0.00 0.00 42.97 4.24
233 240 8.936864 TGGTTTATTTTACTGTTTGGTTTTGTG 58.063 29.630 0.00 0.00 0.00 3.33
291 305 8.986991 TGCCACAAATTATCCCATTTATTTACT 58.013 29.630 0.00 0.00 0.00 2.24
292 306 9.040939 GTGCCACAAATTATCCCATTTATTTAC 57.959 33.333 0.00 0.00 0.00 2.01
384 401 5.882040 TCTATTTGTACCCCATGTTTCACA 58.118 37.500 0.00 0.00 0.00 3.58
447 567 2.574824 AGGGCAACGGTAGGATAAAACT 59.425 45.455 0.00 0.00 37.60 2.66
536 660 5.805486 TCAGAACGCAGTATATGTTGTCTTC 59.195 40.000 0.00 0.00 45.00 2.87
569 837 2.367241 TCCCAACGATTCACTTGACTCA 59.633 45.455 0.00 0.00 0.00 3.41
593 862 4.941263 TGGGTCATCTATTTTGAAACGGAG 59.059 41.667 0.00 0.00 0.00 4.63
594 863 4.912586 TGGGTCATCTATTTTGAAACGGA 58.087 39.130 0.00 0.00 0.00 4.69
595 864 5.183140 AGTTGGGTCATCTATTTTGAAACGG 59.817 40.000 0.00 0.00 0.00 4.44
596 865 6.254281 AGTTGGGTCATCTATTTTGAAACG 57.746 37.500 0.00 0.00 0.00 3.60
598 867 8.017418 ACAAAGTTGGGTCATCTATTTTGAAA 57.983 30.769 0.00 0.00 0.00 2.69
599 868 7.595819 ACAAAGTTGGGTCATCTATTTTGAA 57.404 32.000 0.00 0.00 0.00 2.69
601 870 8.110860 AGTACAAAGTTGGGTCATCTATTTTG 57.889 34.615 0.00 0.00 0.00 2.44
602 871 9.975218 ATAGTACAAAGTTGGGTCATCTATTTT 57.025 29.630 0.00 0.00 0.00 1.82
603 872 9.975218 AATAGTACAAAGTTGGGTCATCTATTT 57.025 29.630 0.00 0.00 0.00 1.40
604 873 9.975218 AAATAGTACAAAGTTGGGTCATCTATT 57.025 29.630 0.00 0.00 0.00 1.73
607 876 8.603304 ACTAAATAGTACAAAGTTGGGTCATCT 58.397 33.333 0.00 0.00 34.13 2.90
608 877 8.788325 ACTAAATAGTACAAAGTTGGGTCATC 57.212 34.615 0.00 0.00 34.13 2.92
609 878 9.886132 CTACTAAATAGTACAAAGTTGGGTCAT 57.114 33.333 0.00 0.00 37.73 3.06
610 879 8.873144 ACTACTAAATAGTACAAAGTTGGGTCA 58.127 33.333 0.00 0.00 42.69 4.02
639 908 8.085909 CCGTTTTAAAATAGATGACCCAACTTT 58.914 33.333 3.52 0.00 0.00 2.66
640 909 7.449086 TCCGTTTTAAAATAGATGACCCAACTT 59.551 33.333 3.52 0.00 0.00 2.66
641 910 6.943718 TCCGTTTTAAAATAGATGACCCAACT 59.056 34.615 3.52 0.00 0.00 3.16
642 911 7.148355 TCCGTTTTAAAATAGATGACCCAAC 57.852 36.000 3.52 0.00 0.00 3.77
643 912 6.376018 CCTCCGTTTTAAAATAGATGACCCAA 59.624 38.462 3.52 0.00 0.00 4.12
644 913 5.883673 CCTCCGTTTTAAAATAGATGACCCA 59.116 40.000 3.52 0.00 0.00 4.51
645 914 5.298527 CCCTCCGTTTTAAAATAGATGACCC 59.701 44.000 3.52 0.00 0.00 4.46
646 915 6.117488 TCCCTCCGTTTTAAAATAGATGACC 58.883 40.000 3.52 0.00 0.00 4.02
647 916 6.822170 ACTCCCTCCGTTTTAAAATAGATGAC 59.178 38.462 3.52 0.00 0.00 3.06
648 917 6.954232 ACTCCCTCCGTTTTAAAATAGATGA 58.046 36.000 3.52 3.96 0.00 2.92
649 918 8.726870 TTACTCCCTCCGTTTTAAAATAGATG 57.273 34.615 3.52 2.01 0.00 2.90
650 919 8.546322 ACTTACTCCCTCCGTTTTAAAATAGAT 58.454 33.333 3.52 0.00 0.00 1.98
651 920 7.910584 ACTTACTCCCTCCGTTTTAAAATAGA 58.089 34.615 3.52 3.61 0.00 1.98
652 921 8.448615 CAACTTACTCCCTCCGTTTTAAAATAG 58.551 37.037 3.52 1.99 0.00 1.73
653 922 7.938490 ACAACTTACTCCCTCCGTTTTAAAATA 59.062 33.333 3.52 0.00 0.00 1.40
654 923 6.774170 ACAACTTACTCCCTCCGTTTTAAAAT 59.226 34.615 3.52 0.00 0.00 1.82
655 924 6.121590 ACAACTTACTCCCTCCGTTTTAAAA 58.878 36.000 0.00 0.00 0.00 1.52
656 925 5.683681 ACAACTTACTCCCTCCGTTTTAAA 58.316 37.500 0.00 0.00 0.00 1.52
657 926 5.294734 ACAACTTACTCCCTCCGTTTTAA 57.705 39.130 0.00 0.00 0.00 1.52
658 927 4.961438 ACAACTTACTCCCTCCGTTTTA 57.039 40.909 0.00 0.00 0.00 1.52
659 928 3.851458 ACAACTTACTCCCTCCGTTTT 57.149 42.857 0.00 0.00 0.00 2.43
660 929 3.306571 GCTACAACTTACTCCCTCCGTTT 60.307 47.826 0.00 0.00 0.00 3.60
661 930 2.233186 GCTACAACTTACTCCCTCCGTT 59.767 50.000 0.00 0.00 0.00 4.44
662 931 1.823610 GCTACAACTTACTCCCTCCGT 59.176 52.381 0.00 0.00 0.00 4.69
663 932 1.822990 TGCTACAACTTACTCCCTCCG 59.177 52.381 0.00 0.00 0.00 4.63
664 933 2.168728 CCTGCTACAACTTACTCCCTCC 59.831 54.545 0.00 0.00 0.00 4.30
665 934 2.168728 CCCTGCTACAACTTACTCCCTC 59.831 54.545 0.00 0.00 0.00 4.30
666 935 2.188817 CCCTGCTACAACTTACTCCCT 58.811 52.381 0.00 0.00 0.00 4.20
667 936 1.407025 GCCCTGCTACAACTTACTCCC 60.407 57.143 0.00 0.00 0.00 4.30
668 937 1.278127 TGCCCTGCTACAACTTACTCC 59.722 52.381 0.00 0.00 0.00 3.85
669 938 2.762535 TGCCCTGCTACAACTTACTC 57.237 50.000 0.00 0.00 0.00 2.59
670 939 2.356125 CCATGCCCTGCTACAACTTACT 60.356 50.000 0.00 0.00 0.00 2.24
671 940 2.017049 CCATGCCCTGCTACAACTTAC 58.983 52.381 0.00 0.00 0.00 2.34
672 941 1.912731 TCCATGCCCTGCTACAACTTA 59.087 47.619 0.00 0.00 0.00 2.24
673 942 0.698238 TCCATGCCCTGCTACAACTT 59.302 50.000 0.00 0.00 0.00 2.66
674 943 0.254178 CTCCATGCCCTGCTACAACT 59.746 55.000 0.00 0.00 0.00 3.16
675 944 0.035056 ACTCCATGCCCTGCTACAAC 60.035 55.000 0.00 0.00 0.00 3.32
676 945 0.253044 GACTCCATGCCCTGCTACAA 59.747 55.000 0.00 0.00 0.00 2.41
725 998 3.866582 CTCAGGGATGGACCGGCC 61.867 72.222 0.00 4.32 40.11 6.13
734 1007 1.422531 GCATGGTCTCTCTCAGGGAT 58.577 55.000 0.00 0.00 0.00 3.85
770 1045 1.364626 GACAGCTGACTCCGCCATTG 61.365 60.000 23.35 0.00 0.00 2.82
880 1162 2.820787 ACTAGAGTTACTGCGAGCAAGT 59.179 45.455 0.00 2.71 0.00 3.16
898 1180 3.288964 GTGCAGGGAGTAGCTAGAACTA 58.711 50.000 0.00 0.00 0.00 2.24
902 1184 0.752009 CCGTGCAGGGAGTAGCTAGA 60.752 60.000 20.97 0.00 35.97 2.43
903 1185 1.038130 ACCGTGCAGGGAGTAGCTAG 61.038 60.000 31.22 2.22 46.96 3.42
904 1186 1.000019 ACCGTGCAGGGAGTAGCTA 60.000 57.895 31.22 0.00 46.96 3.32
905 1187 2.283966 ACCGTGCAGGGAGTAGCT 60.284 61.111 31.22 5.24 46.96 3.32
906 1188 2.184579 GACCGTGCAGGGAGTAGC 59.815 66.667 31.22 11.04 46.96 3.58
972 1254 1.369448 GAGATCGAGCACCGCGTAG 60.369 63.158 4.92 0.00 38.37 3.51
973 1255 1.818363 AGAGATCGAGCACCGCGTA 60.818 57.895 4.92 0.00 38.37 4.42
974 1256 3.134792 AGAGATCGAGCACCGCGT 61.135 61.111 4.92 0.00 38.37 6.01
975 1257 2.653448 CAGAGATCGAGCACCGCG 60.653 66.667 2.38 0.00 38.37 6.46
976 1258 2.959071 GCAGAGATCGAGCACCGC 60.959 66.667 2.38 0.00 38.37 5.68
977 1259 2.653448 CGCAGAGATCGAGCACCG 60.653 66.667 2.38 0.00 40.25 4.94
978 1260 2.959071 GCGCAGAGATCGAGCACC 60.959 66.667 0.30 0.00 0.00 5.01
1023 1305 2.748843 GGACGTCGACGAGGACTCC 61.749 68.421 41.52 31.58 43.02 3.85
1737 2046 0.586319 CAAGGTGTTGTACGGCACAG 59.414 55.000 17.50 6.71 38.72 3.66
1740 2049 2.264005 AATCAAGGTGTTGTACGGCA 57.736 45.000 0.00 0.00 34.98 5.69
1741 2050 2.095415 GGAAATCAAGGTGTTGTACGGC 60.095 50.000 0.00 0.00 34.98 5.68
1742 2051 3.408634 AGGAAATCAAGGTGTTGTACGG 58.591 45.455 0.00 0.00 34.98 4.02
1878 2206 7.109501 TCTAAGCTAAATTGGTCACAAGCATA 58.890 34.615 0.00 0.00 40.49 3.14
1882 2210 7.119699 TCACATCTAAGCTAAATTGGTCACAAG 59.880 37.037 0.00 0.00 40.49 3.16
1953 2293 0.693622 TTGCGGTCATCTAAACCCCA 59.306 50.000 0.00 0.00 32.89 4.96
1991 2331 3.593442 TGAGGTTGGTTCATTTCACCT 57.407 42.857 0.00 0.00 35.07 4.00
2112 2452 4.455124 GTGTTGTAAAACAAGCGAGCTAG 58.545 43.478 0.00 0.00 39.00 3.42
2114 2454 2.286184 CGTGTTGTAAAACAAGCGAGCT 60.286 45.455 0.00 0.00 39.00 4.09
2118 2458 1.331138 TCCCGTGTTGTAAAACAAGCG 59.669 47.619 0.00 0.89 39.00 4.68
2138 2478 2.028930 AGGTTCGAGAAAGATGACGCTT 60.029 45.455 0.00 0.00 0.00 4.68
2140 2480 1.997669 AGGTTCGAGAAAGATGACGC 58.002 50.000 0.00 0.00 0.00 5.19
2142 2482 9.535878 AAATAAGATAGGTTCGAGAAAGATGAC 57.464 33.333 0.00 0.00 0.00 3.06
2192 2564 8.175716 GTGAAAGTCAATAGCTTATACCACAAC 58.824 37.037 0.00 0.00 0.00 3.32
2331 2705 0.687354 ATGCAAACGACAGAGGAGGT 59.313 50.000 0.00 0.00 0.00 3.85
2360 2734 9.238368 TGAAACCAATATACTCGGAAAGAAAAT 57.762 29.630 0.00 0.00 0.00 1.82
2365 2739 9.931210 GTATTTGAAACCAATATACTCGGAAAG 57.069 33.333 0.00 0.00 0.00 2.62
2391 2767 6.499234 TGTTGTGGTTGAATACATGAGATG 57.501 37.500 0.00 0.00 0.00 2.90
2455 2831 4.398358 TCGTTTCTACACAGGGATAGAGTG 59.602 45.833 0.00 0.00 39.12 3.51
2488 2864 8.725148 CATGCCCTGAATAATTAAGCTACTTAG 58.275 37.037 0.00 0.00 0.00 2.18
2489 2865 8.436778 TCATGCCCTGAATAATTAAGCTACTTA 58.563 33.333 0.00 0.00 0.00 2.24
2490 2866 7.290061 TCATGCCCTGAATAATTAAGCTACTT 58.710 34.615 0.00 0.00 0.00 2.24
2491 2867 6.841601 TCATGCCCTGAATAATTAAGCTACT 58.158 36.000 0.00 0.00 0.00 2.57
2587 2963 0.030908 CGATGTAGAGGCCGGAAGTC 59.969 60.000 5.05 0.00 0.00 3.01
2706 3082 6.640518 AGCAGTACCTTCTTCGATTCATTTA 58.359 36.000 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.