Multiple sequence alignment - TraesCS1B01G429000

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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 TraesCS1B01G429000 chr1B 100.000 3110 0 0 1 3110 653891558 653888449 0.000000e+00 5744.0
1 TraesCS1B01G429000 chr1B 84.126 1367 150 20 891 2206 653938932 653937582 0.000000e+00 1260.0
2 TraesCS1B01G429000 chr1B 86.184 304 18 6 386 672 653939283 653938987 1.080000e-79 307.0
3 TraesCS1B01G429000 chr1B 76.344 558 118 12 943 1492 654240313 654240864 1.410000e-73 287.0
4 TraesCS1B01G429000 chr1B 83.871 310 27 7 2175 2473 653937574 653937277 1.100000e-69 274.0
5 TraesCS1B01G429000 chr1B 98.864 88 1 0 2730 2817 49830929 49831016 1.150000e-34 158.0
6 TraesCS1B01G429000 chr1B 88.462 104 6 5 736 836 610174441 610174341 1.510000e-23 121.0
7 TraesCS1B01G429000 chr1B 78.142 183 30 9 2931 3110 653876221 653876046 1.180000e-19 108.0
8 TraesCS1B01G429000 chr1B 100.000 49 0 0 3062 3110 580437256 580437208 1.190000e-14 91.6
9 TraesCS1B01G429000 chr1B 98.077 52 1 0 3059 3110 653968609 653968558 1.190000e-14 91.6
10 TraesCS1B01G429000 chr1B 96.296 54 2 0 3057 3110 22073990 22073937 4.270000e-14 89.8
11 TraesCS1B01G429000 chr1B 97.143 35 1 0 2036 2070 653974783 653974749 3.350000e-05 60.2
12 TraesCS1B01G429000 chr1D 93.855 2311 91 11 832 3110 470625937 470623646 0.000000e+00 3434.0
13 TraesCS1B01G429000 chr1D 84.649 1622 173 31 897 2461 470648549 470646947 0.000000e+00 1546.0
14 TraesCS1B01G429000 chr1D 92.157 765 27 12 1 752 470626680 470625936 0.000000e+00 1050.0
15 TraesCS1B01G429000 chr1D 77.565 1199 200 40 924 2070 470657136 470655955 0.000000e+00 660.0
16 TraesCS1B01G429000 chr1D 80.952 252 34 10 377 620 470649378 470649133 1.470000e-43 187.0
17 TraesCS1B01G429000 chr1D 85.714 112 12 4 746 854 209139365 209139255 7.050000e-22 115.0
18 TraesCS1B01G429000 chr1D 100.000 49 0 0 3062 3110 428611683 428611635 1.190000e-14 91.6
19 TraesCS1B01G429000 chr1A 91.513 1685 85 12 836 2476 564334813 564333143 0.000000e+00 2266.0
20 TraesCS1B01G429000 chr1A 85.053 1619 176 18 897 2461 564345896 564344290 0.000000e+00 1589.0
21 TraesCS1B01G429000 chr1A 87.987 949 88 12 1545 2472 564313214 564312271 0.000000e+00 1098.0
22 TraesCS1B01G429000 chr1A 84.918 610 72 9 891 1486 564313908 564313305 1.600000e-167 599.0
23 TraesCS1B01G429000 chr1A 88.186 237 18 7 481 716 564314350 564314123 1.100000e-69 274.0
24 TraesCS1B01G429000 chr1A 78.313 415 84 6 982 1393 564573415 564573826 2.380000e-66 263.0
25 TraesCS1B01G429000 chr1A 80.665 331 33 7 9 310 564335505 564335177 8.680000e-56 228.0
26 TraesCS1B01G429000 chr1A 87.179 195 12 5 171 355 564314611 564314420 3.140000e-50 209.0
27 TraesCS1B01G429000 chr1A 89.349 169 6 4 9 171 564314802 564314640 5.260000e-48 202.0
28 TraesCS1B01G429000 chr1A 85.024 207 21 4 548 750 564335020 564334820 5.260000e-48 202.0
29 TraesCS1B01G429000 chr1A 77.749 382 39 14 360 718 564346897 564346539 3.170000e-45 193.0
30 TraesCS1B01G429000 chr7D 98.864 88 1 0 2730 2817 307072988 307072901 1.150000e-34 158.0
31 TraesCS1B01G429000 chr7D 98.864 88 1 0 2730 2817 349192998 349192911 1.150000e-34 158.0
32 TraesCS1B01G429000 chr7D 98.864 88 1 0 2730 2817 382021550 382021463 1.150000e-34 158.0
33 TraesCS1B01G429000 chr7D 93.103 87 2 3 750 833 27810415 27810500 1.170000e-24 124.0
34 TraesCS1B01G429000 chr7D 95.238 63 2 1 2805 2866 307192318 307192256 7.100000e-17 99.0
35 TraesCS1B01G429000 chr7D 95.161 62 2 1 2805 2866 306582787 306582727 2.550000e-16 97.1
36 TraesCS1B01G429000 chr4D 98.864 88 1 0 2730 2817 123358765 123358852 1.150000e-34 158.0
37 TraesCS1B01G429000 chr4D 98.864 88 1 0 2730 2817 123569707 123569794 1.150000e-34 158.0
38 TraesCS1B01G429000 chr4D 95.082 61 2 1 2805 2864 123500395 123500335 9.180000e-16 95.3
39 TraesCS1B01G429000 chr3D 98.864 88 1 0 2730 2817 202603069 202603156 1.150000e-34 158.0
40 TraesCS1B01G429000 chr3D 90.909 99 4 4 751 846 81200922 81201018 9.050000e-26 128.0
41 TraesCS1B01G429000 chr3D 87.500 112 4 8 751 854 6467004 6467113 1.510000e-23 121.0
42 TraesCS1B01G429000 chr2D 98.864 88 1 0 2730 2817 635026656 635026743 1.150000e-34 158.0
43 TraesCS1B01G429000 chr2D 93.651 63 3 1 2805 2866 306150372 306150310 3.300000e-15 93.5
44 TraesCS1B01G429000 chr7B 92.391 92 3 3 750 838 447011656 447011566 9.050000e-26 128.0
45 TraesCS1B01G429000 chr7B 93.182 88 4 1 750 835 731020472 731020559 9.050000e-26 128.0
46 TraesCS1B01G429000 chr6A 90.323 93 5 3 756 845 358572284 358572193 5.450000e-23 119.0
47 TraesCS1B01G429000 chr2A 91.765 85 5 1 751 833 196359583 196359667 1.960000e-22 117.0
48 TraesCS1B01G429000 chr7A 95.238 63 2 1 2805 2866 4911203 4911141 7.100000e-17 99.0
49 TraesCS1B01G429000 chr5A 95.238 63 2 1 2805 2866 667827547 667827609 7.100000e-17 99.0
50 TraesCS1B01G429000 chr5A 93.651 63 3 1 2805 2866 19819509 19819447 3.300000e-15 93.5
51 TraesCS1B01G429000 chr4A 95.238 63 2 1 2805 2866 67505509 67505571 7.100000e-17 99.0
52 TraesCS1B01G429000 chr3A 96.296 54 1 1 3057 3110 456447321 456447373 1.540000e-13 87.9
53 TraesCS1B01G429000 chr2B 93.220 59 2 2 3054 3110 484604145 484604203 5.530000e-13 86.1
54 TraesCS1B01G429000 chr5B 100.000 45 0 0 3066 3110 597214865 597214821 1.990000e-12 84.2


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 TraesCS1B01G429000 chr1B 653888449 653891558 3109 True 5744.000000 5744 100.0000 1 3110 1 chr1B.!!$R5 3109
1 TraesCS1B01G429000 chr1B 653937277 653939283 2006 True 613.666667 1260 84.7270 386 2473 3 chr1B.!!$R8 2087
2 TraesCS1B01G429000 chr1B 654240313 654240864 551 False 287.000000 287 76.3440 943 1492 1 chr1B.!!$F2 549
3 TraesCS1B01G429000 chr1D 470623646 470626680 3034 True 2242.000000 3434 93.0060 1 3110 2 chr1D.!!$R4 3109
4 TraesCS1B01G429000 chr1D 470646947 470649378 2431 True 866.500000 1546 82.8005 377 2461 2 chr1D.!!$R5 2084
5 TraesCS1B01G429000 chr1D 470655955 470657136 1181 True 660.000000 660 77.5650 924 2070 1 chr1D.!!$R3 1146
6 TraesCS1B01G429000 chr1A 564333143 564335505 2362 True 898.666667 2266 85.7340 9 2476 3 chr1A.!!$R2 2467
7 TraesCS1B01G429000 chr1A 564344290 564346897 2607 True 891.000000 1589 81.4010 360 2461 2 chr1A.!!$R3 2101
8 TraesCS1B01G429000 chr1A 564312271 564314802 2531 True 476.400000 1098 87.5238 9 2472 5 chr1A.!!$R1 2463

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
687 972 0.930726 CCTATAAAGGGGGTGGGCAA 59.069 55.0 0.00 0.0 39.48 4.52 F
1473 2348 0.255604 ATCCATCATGGTCGGCACAA 59.744 50.0 2.79 0.0 39.03 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1689 2600 0.243907 ATACGAGATCCGAATGGCCG 59.756 55.000 10.05 0.0 41.76 6.13 R
2557 3546 1.267806 ACAAATGCTTTCCTCGCACTG 59.732 47.619 0.00 0.0 40.65 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
91 98 4.335647 CCTTGGTGCGTGCTCCCT 62.336 66.667 10.19 0.00 0.00 4.20
92 99 3.052082 CTTGGTGCGTGCTCCCTG 61.052 66.667 10.19 0.16 0.00 4.45
93 100 3.535629 CTTGGTGCGTGCTCCCTGA 62.536 63.158 10.19 0.00 0.00 3.86
162 214 7.510685 AGCAGATCCACTTAAGACCAAGATATA 59.489 37.037 10.09 0.00 0.00 0.86
163 215 7.600752 GCAGATCCACTTAAGACCAAGATATAC 59.399 40.741 10.09 0.00 0.00 1.47
164 216 8.865090 CAGATCCACTTAAGACCAAGATATACT 58.135 37.037 10.09 0.00 0.00 2.12
165 217 9.084533 AGATCCACTTAAGACCAAGATATACTC 57.915 37.037 10.09 0.00 0.00 2.59
166 218 7.598759 TCCACTTAAGACCAAGATATACTCC 57.401 40.000 10.09 0.00 0.00 3.85
167 219 7.130099 TCCACTTAAGACCAAGATATACTCCA 58.870 38.462 10.09 0.00 0.00 3.86
168 220 7.789831 TCCACTTAAGACCAAGATATACTCCAT 59.210 37.037 10.09 0.00 0.00 3.41
169 221 8.432805 CCACTTAAGACCAAGATATACTCCATT 58.567 37.037 10.09 0.00 0.00 3.16
240 295 1.588404 CTGGTTCGTAGCAAGCGTATG 59.412 52.381 0.00 0.00 0.00 2.39
514 640 6.495181 TCCATAGCTAGAACATTAGAGAAGGG 59.505 42.308 0.00 0.00 0.00 3.95
655 928 3.011119 ACTTGCGTGTCACCTTTTGTTA 58.989 40.909 0.00 0.00 0.00 2.41
680 953 2.224305 CGAACAGCTCCTATAAAGGGGG 60.224 54.545 0.00 0.00 44.57 5.40
687 972 0.930726 CCTATAAAGGGGGTGGGCAA 59.069 55.000 0.00 0.00 39.48 4.52
719 1004 3.252944 GTCGGGTGGCTCTAGAATACTAC 59.747 52.174 0.00 0.00 0.00 2.73
720 1005 3.137913 TCGGGTGGCTCTAGAATACTACT 59.862 47.826 0.00 0.00 0.00 2.57
721 1006 3.253677 CGGGTGGCTCTAGAATACTACTG 59.746 52.174 0.00 0.00 0.00 2.74
729 1020 7.147248 TGGCTCTAGAATACTACTGGGTTACTA 60.147 40.741 0.00 0.00 0.00 1.82
760 1061 9.567776 ACATATACTAGATCGATAATCCCTCTG 57.432 37.037 0.00 0.00 34.67 3.35
761 1062 9.567776 CATATACTAGATCGATAATCCCTCTGT 57.432 37.037 0.00 0.00 34.67 3.41
764 1065 9.976776 ATACTAGATCGATAATCCCTCTGTAAA 57.023 33.333 0.00 0.00 34.67 2.01
765 1066 8.113173 ACTAGATCGATAATCCCTCTGTAAAC 57.887 38.462 0.00 0.00 34.67 2.01
766 1067 7.945664 ACTAGATCGATAATCCCTCTGTAAACT 59.054 37.037 0.00 0.00 34.67 2.66
769 1070 9.315363 AGATCGATAATCCCTCTGTAAACTAAT 57.685 33.333 0.00 0.00 34.67 1.73
777 1078 8.611051 ATCCCTCTGTAAACTAATAAGAGTGT 57.389 34.615 0.00 0.00 33.94 3.55
778 1079 8.431910 TCCCTCTGTAAACTAATAAGAGTGTT 57.568 34.615 0.00 0.00 33.94 3.32
779 1080 8.877195 TCCCTCTGTAAACTAATAAGAGTGTTT 58.123 33.333 0.00 0.00 33.94 2.83
828 1129 8.822652 ACGTTCTTATATTAATTTACGGAGGG 57.177 34.615 0.00 0.00 32.54 4.30
829 1130 8.641541 ACGTTCTTATATTAATTTACGGAGGGA 58.358 33.333 0.00 0.00 32.54 4.20
830 1131 9.136952 CGTTCTTATATTAATTTACGGAGGGAG 57.863 37.037 0.00 0.00 0.00 4.30
848 1562 6.097839 GGAGGGAGTACATGTGAAATACAGTA 59.902 42.308 9.11 0.00 43.80 2.74
871 1585 8.407064 AGTAATTTTCCACGTACACAATCAAAA 58.593 29.630 0.00 0.00 0.00 2.44
875 1589 4.958509 TCCACGTACACAATCAAAACCTA 58.041 39.130 0.00 0.00 0.00 3.08
994 1850 3.018856 TGCCTTTCAGTATTCTGCCATG 58.981 45.455 0.00 0.00 41.10 3.66
1010 1867 3.452990 TGCCATGCAAAGATGGATTCAAT 59.547 39.130 8.28 0.00 45.24 2.57
1028 1885 4.081406 TCAATTAAGGTGATTGCTGCTGT 58.919 39.130 0.00 0.00 35.10 4.40
1221 2084 2.158593 TGTTGCCCAACTTGTTAGCCTA 60.159 45.455 11.91 0.00 41.67 3.93
1310 2173 1.202452 GGATTGTTGCAATGGCCTAGC 60.202 52.381 0.59 5.94 40.13 3.42
1411 2280 4.162320 GGAGGTCACTTCCTGATATTCACA 59.838 45.833 0.00 0.00 38.02 3.58
1418 2287 2.849942 TCCTGATATTCACATTGGCCG 58.150 47.619 0.00 0.00 0.00 6.13
1421 2290 3.470709 CTGATATTCACATTGGCCGAGT 58.529 45.455 0.00 0.00 0.00 4.18
1431 2300 2.357034 GGCCGAGTTGACTTCGCA 60.357 61.111 0.00 0.00 0.00 5.10
1473 2348 0.255604 ATCCATCATGGTCGGCACAA 59.744 50.000 2.79 0.00 39.03 3.33
1498 2385 9.874205 AATTCCATGTATTTAAGTTTGATGGTG 57.126 29.630 0.00 0.00 32.36 4.17
1505 2392 2.649531 AAGTTTGATGGTGTTCGGGA 57.350 45.000 0.00 0.00 0.00 5.14
1543 2454 0.598562 TCAGGTGTTCTCGTCTGCTC 59.401 55.000 0.00 0.00 0.00 4.26
1689 2600 0.941542 TTACTGTGAAGTTGCCGCAC 59.058 50.000 0.00 0.00 0.00 5.34
1710 2621 1.404315 GGCCATTCGGATCTCGTATCC 60.404 57.143 0.00 8.86 40.32 2.59
2031 2956 5.147330 AGATCAAAGATGGTTGTCGTACA 57.853 39.130 0.00 0.00 0.00 2.90
2070 2995 2.159517 GGCATGCTACTCAAAACTTCCG 60.160 50.000 18.92 0.00 0.00 4.30
2326 3298 6.636454 TGTTCTTACCAGAATGTTAGGGAT 57.364 37.500 0.00 0.00 41.26 3.85
2486 3475 1.970447 TTTTTGACACGTGCACACAC 58.030 45.000 17.22 5.56 43.76 3.82
2521 3510 7.441836 TCATATCTGTACAGTTTCACACTTGT 58.558 34.615 21.99 0.00 30.92 3.16
2557 3546 9.846248 ACAGATGCTCTTATCAAAAATGTTAAC 57.154 29.630 0.00 0.00 0.00 2.01
2572 3561 1.871039 GTTAACAGTGCGAGGAAAGCA 59.129 47.619 0.00 0.00 42.99 3.91
2656 3645 1.545428 GCAGTGTGGGGAATTGACTCA 60.545 52.381 0.00 0.00 0.00 3.41
2669 3658 7.013369 GGGGAATTGACTCACACTATTTATTCC 59.987 40.741 0.00 0.00 37.53 3.01
2737 3726 2.440409 AGCTGCGACAATTCCAAATCT 58.560 42.857 0.00 0.00 0.00 2.40
2771 3760 0.526662 ACTCGTCAAAGGCCTCGTAG 59.473 55.000 5.23 7.52 0.00 3.51
2812 3801 4.454678 TGTGGGCTATCTGCTCTTTATTG 58.545 43.478 0.00 0.00 44.09 1.90
2817 3806 4.693095 GGCTATCTGCTCTTTATTGTAGGC 59.307 45.833 0.00 0.00 42.39 3.93
2877 3866 0.675837 CAGGCAGCATATGGATCCGG 60.676 60.000 7.39 0.00 0.00 5.14
2988 3977 4.137849 CACACTTACATGTGCTGTTGAG 57.862 45.455 9.11 0.00 43.29 3.02
3055 4044 0.817013 AACTTGTGTGTGCCACCAAG 59.183 50.000 21.06 21.06 43.85 3.61
3061 4050 4.234019 TGTGCCACCAAGTCACAC 57.766 55.556 0.00 0.00 35.99 3.82
3063 4052 0.747644 TGTGCCACCAAGTCACACAG 60.748 55.000 0.00 0.00 36.39 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
88 95 1.522569 GGAACGATCAGGGTCAGGG 59.477 63.158 0.00 0.00 0.00 4.45
89 96 0.978146 AGGGAACGATCAGGGTCAGG 60.978 60.000 0.00 0.00 0.00 3.86
90 97 0.176680 CAGGGAACGATCAGGGTCAG 59.823 60.000 0.00 0.00 0.00 3.51
91 98 1.264749 CCAGGGAACGATCAGGGTCA 61.265 60.000 0.00 0.00 0.00 4.02
92 99 1.265454 ACCAGGGAACGATCAGGGTC 61.265 60.000 0.00 0.00 0.00 4.46
93 100 0.840722 AACCAGGGAACGATCAGGGT 60.841 55.000 0.00 0.00 0.00 4.34
162 214 8.329502 GGCCAATTAGTTAGGATATAATGGAGT 58.670 37.037 0.00 0.00 0.00 3.85
163 215 8.328758 TGGCCAATTAGTTAGGATATAATGGAG 58.671 37.037 0.61 0.00 0.00 3.86
164 216 8.225863 TGGCCAATTAGTTAGGATATAATGGA 57.774 34.615 0.61 0.00 0.00 3.41
165 217 8.877864 TTGGCCAATTAGTTAGGATATAATGG 57.122 34.615 16.05 0.00 0.00 3.16
169 221 9.515226 GTTGATTGGCCAATTAGTTAGGATATA 57.485 33.333 31.13 6.15 0.00 0.86
170 222 7.174946 CGTTGATTGGCCAATTAGTTAGGATAT 59.825 37.037 31.13 5.69 0.00 1.63
171 223 6.485313 CGTTGATTGGCCAATTAGTTAGGATA 59.515 38.462 31.13 7.62 0.00 2.59
172 224 5.299279 CGTTGATTGGCCAATTAGTTAGGAT 59.701 40.000 31.13 6.51 0.00 3.24
173 225 4.638421 CGTTGATTGGCCAATTAGTTAGGA 59.362 41.667 31.13 9.10 0.00 2.94
193 245 2.006888 CATGGGCTGAATAACGACGTT 58.993 47.619 18.47 18.47 0.00 3.99
240 295 0.103937 CTTCAGATCTCTCGGGGTGC 59.896 60.000 0.00 0.00 0.00 5.01
271 329 9.959749 GTGGTTTCTCAACAAACTATTCATTAA 57.040 29.630 0.00 0.00 36.62 1.40
280 338 3.447229 CCCTTGTGGTTTCTCAACAAACT 59.553 43.478 0.00 0.00 36.62 2.66
655 928 4.514401 CCTTTATAGGAGCTGTTCGGTTT 58.486 43.478 0.00 0.00 45.05 3.27
680 953 0.447801 GACACACATCGATTGCCCAC 59.552 55.000 0.00 0.00 0.00 4.61
687 972 1.218047 CCACCCGACACACATCGAT 59.782 57.895 0.00 0.00 45.13 3.59
751 1052 9.047947 ACACTCTTATTAGTTTACAGAGGGATT 57.952 33.333 3.77 0.00 37.21 3.01
803 1104 8.641541 TCCCTCCGTAAATTAATATAAGAACGT 58.358 33.333 0.00 0.00 0.00 3.99
804 1105 9.136952 CTCCCTCCGTAAATTAATATAAGAACG 57.863 37.037 0.00 0.00 0.00 3.95
811 1112 8.877195 ACATGTACTCCCTCCGTAAATTAATAT 58.123 33.333 0.00 0.00 0.00 1.28
812 1113 8.145767 CACATGTACTCCCTCCGTAAATTAATA 58.854 37.037 0.00 0.00 0.00 0.98
813 1114 6.990349 CACATGTACTCCCTCCGTAAATTAAT 59.010 38.462 0.00 0.00 0.00 1.40
814 1115 6.154877 TCACATGTACTCCCTCCGTAAATTAA 59.845 38.462 0.00 0.00 0.00 1.40
815 1116 5.657745 TCACATGTACTCCCTCCGTAAATTA 59.342 40.000 0.00 0.00 0.00 1.40
816 1117 4.468510 TCACATGTACTCCCTCCGTAAATT 59.531 41.667 0.00 0.00 0.00 1.82
817 1118 4.028131 TCACATGTACTCCCTCCGTAAAT 58.972 43.478 0.00 0.00 0.00 1.40
818 1119 3.433343 TCACATGTACTCCCTCCGTAAA 58.567 45.455 0.00 0.00 0.00 2.01
819 1120 3.090210 TCACATGTACTCCCTCCGTAA 57.910 47.619 0.00 0.00 0.00 3.18
821 1122 1.933021 TTCACATGTACTCCCTCCGT 58.067 50.000 0.00 0.00 0.00 4.69
822 1123 3.543680 ATTTCACATGTACTCCCTCCG 57.456 47.619 0.00 0.00 0.00 4.63
823 1124 5.104900 ACTGTATTTCACATGTACTCCCTCC 60.105 44.000 0.00 0.00 36.29 4.30
824 1125 5.978814 ACTGTATTTCACATGTACTCCCTC 58.021 41.667 0.00 0.00 36.29 4.30
848 1562 6.477360 GGTTTTGATTGTGTACGTGGAAAATT 59.523 34.615 0.00 0.00 0.00 1.82
871 1585 5.977533 TCAATACCTCCATCCTACATAGGT 58.022 41.667 4.86 0.00 44.02 3.08
875 1589 7.392766 TTCATTCAATACCTCCATCCTACAT 57.607 36.000 0.00 0.00 0.00 2.29
994 1850 6.866480 TCACCTTAATTGAATCCATCTTTGC 58.134 36.000 0.00 0.00 0.00 3.68
1010 1867 4.651778 ACTAACAGCAGCAATCACCTTAA 58.348 39.130 0.00 0.00 0.00 1.85
1028 1885 7.824289 CCACCAAAAGATCATCAGTTAGACTAA 59.176 37.037 0.00 0.00 0.00 2.24
1123 1980 2.419297 GGTAGTGTGGATCAGAGGCAAG 60.419 54.545 0.00 0.00 0.00 4.01
1191 2048 2.450476 AGTTGGGCAACAGATGAATCC 58.550 47.619 0.00 0.00 43.47 3.01
1335 2198 1.401931 CGGCAAGCTTCTGGACAAATG 60.402 52.381 0.00 0.00 0.00 2.32
1411 2280 1.298859 GCGAAGTCAACTCGGCCAAT 61.299 55.000 2.24 0.00 0.00 3.16
1418 2287 3.380486 CATCACATGCGAAGTCAACTC 57.620 47.619 0.00 0.00 0.00 3.01
1473 2348 9.034800 ACACCATCAAACTTAAATACATGGAAT 57.965 29.630 0.00 0.00 34.55 3.01
1543 2454 7.557719 ACAAATGTCTATAAAAGGACTCCATGG 59.442 37.037 4.97 4.97 34.01 3.66
1689 2600 0.243907 ATACGAGATCCGAATGGCCG 59.756 55.000 10.05 0.00 41.76 6.13
1710 2621 4.229096 CTGATGATTGACCAAAACAACCG 58.771 43.478 0.00 0.00 0.00 4.44
1856 2775 2.357517 CGTGAAGCAACTCGCCCT 60.358 61.111 0.00 0.00 44.04 5.19
1991 2910 3.140325 TCTTGCTAAGTTTCCCAGTGG 57.860 47.619 0.63 0.63 0.00 4.00
2031 2956 5.765182 GCATGCCACATAATAAAGGTAGTCT 59.235 40.000 6.36 0.00 0.00 3.24
2434 3423 2.079925 GGACACAAGAATGAGGAGTGC 58.920 52.381 0.00 0.00 33.69 4.40
2483 3472 6.871492 TGTACAGATATGAACGAAACATGTGT 59.129 34.615 0.00 0.00 0.00 3.72
2486 3475 7.525688 ACTGTACAGATATGAACGAAACATG 57.474 36.000 29.30 0.00 0.00 3.21
2521 3510 2.609427 GAGCATCTGTGACCTATGCA 57.391 50.000 17.74 0.00 46.66 3.96
2557 3546 1.267806 ACAAATGCTTTCCTCGCACTG 59.732 47.619 0.00 0.00 40.65 3.66
2572 3561 5.190726 TCCTGAAACCCAAAAGGAAACAAAT 59.809 36.000 0.00 0.00 35.88 2.32
2656 3645 4.584638 TGGGCACAGGAATAAATAGTGT 57.415 40.909 0.00 0.00 32.99 3.55
2669 3658 8.585471 AAGGATATGAAATATATTGGGCACAG 57.415 34.615 0.00 0.00 40.26 3.66
2700 3689 3.660865 CAGCTTTAGTACAACTTCCCGT 58.339 45.455 0.00 0.00 0.00 5.28
2705 3694 3.724374 TGTCGCAGCTTTAGTACAACTT 58.276 40.909 0.00 0.00 0.00 2.66
2737 3726 4.637276 TGACGAGTAAAGGAGAAATGCAA 58.363 39.130 0.00 0.00 0.00 4.08
2812 3801 1.339151 CCTGGGAACTTCACAGCCTAC 60.339 57.143 14.77 0.00 46.30 3.18
3023 4012 3.124636 CACACAAGTTACAATACTCGGCC 59.875 47.826 0.00 0.00 0.00 6.13
3061 4050 2.469465 ATTGGGCCACGGAGTCACTG 62.469 60.000 5.23 0.00 41.61 3.66
3063 4052 2.040544 CATTGGGCCACGGAGTCAC 61.041 63.158 5.23 0.00 41.61 3.67


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

AutoCloner maintained by Alex Coulton.