Multiple sequence alignment - TraesCS2A01G119800

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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 TraesCS2A01G119800 chr2A 100.000 2815 0 0 1 2815 70184970 70182156 0.000000e+00 5199.0
1 TraesCS2A01G119800 chr2A 81.567 217 38 2 974 1189 70186672 70186887 8.010000e-41 178.0
2 TraesCS2A01G119800 chr2D 93.645 1432 58 19 841 2247 70821772 70820349 0.000000e+00 2109.0
3 TraesCS2A01G119800 chr2D 94.801 577 19 3 2246 2815 70820259 70819687 0.000000e+00 889.0
4 TraesCS2A01G119800 chr2D 86.900 771 64 21 1 745 70822615 70821856 0.000000e+00 830.0
5 TraesCS2A01G119800 chr2D 80.435 782 115 26 1 755 610498195 610498965 1.890000e-156 562.0
6 TraesCS2A01G119800 chr2D 80.080 753 111 32 1 732 543516225 543516959 8.930000e-145 523.0
7 TraesCS2A01G119800 chr2D 84.238 387 52 7 1 381 610497206 610497589 4.430000e-98 368.0
8 TraesCS2A01G119800 chr2D 79.821 223 40 5 974 1193 71204007 71204227 1.040000e-34 158.0
9 TraesCS2A01G119800 chr2D 87.037 108 6 3 2711 2810 71207655 71207762 6.370000e-22 115.0
10 TraesCS2A01G119800 chr2D 87.755 98 5 3 2719 2810 71389332 71389428 1.070000e-19 108.0
11 TraesCS2A01G119800 chr2D 88.333 60 1 3 840 898 543517022 543517076 1.810000e-07 67.6
12 TraesCS2A01G119800 chr2B 94.086 1285 60 5 974 2247 107118496 107117217 0.000000e+00 1938.0
13 TraesCS2A01G119800 chr2B 94.637 578 23 2 2246 2815 107117134 107116557 0.000000e+00 889.0
14 TraesCS2A01G119800 chr2B 79.556 225 41 5 972 1193 107525071 107525293 3.750000e-34 156.0
15 TraesCS2A01G119800 chr2B 87.671 73 9 0 2543 2615 107526657 107526729 5.000000e-13 86.1
16 TraesCS2A01G119800 chr4B 78.914 792 120 33 1 757 598392662 598393441 7.010000e-136 494.0
17 TraesCS2A01G119800 chr4B 84.156 385 56 4 1 381 598386875 598387258 4.430000e-98 368.0
18 TraesCS2A01G119800 chr6B 77.806 775 136 27 3 757 580303530 580302772 1.990000e-121 446.0
19 TraesCS2A01G119800 chr6B 83.627 397 56 8 1 391 580305969 580305576 5.730000e-97 364.0
20 TraesCS2A01G119800 chr6B 97.368 38 0 1 863 899 661928414 661928451 2.340000e-06 63.9
21 TraesCS2A01G119800 chr7D 78.255 768 98 44 1 732 110603895 110604629 2.000000e-116 429.0
22 TraesCS2A01G119800 chr7A 95.238 42 0 2 860 899 200634853 200634812 6.510000e-07 65.8
23 TraesCS2A01G119800 chr5D 88.136 59 1 3 841 898 104561874 104561927 6.510000e-07 65.8
24 TraesCS2A01G119800 chr1D 87.931 58 1 3 841 897 467368346 467368398 2.340000e-06 63.9
25 TraesCS2A01G119800 chr4D 95.000 40 0 2 863 901 352807671 352807709 8.420000e-06 62.1
26 TraesCS2A01G119800 chr3B 95.000 40 0 2 860 897 675253657 675253696 8.420000e-06 62.1
27 TraesCS2A01G119800 chr1B 97.143 35 1 0 863 897 91384705 91384739 3.030000e-05 60.2


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 TraesCS2A01G119800 chr2A 70182156 70184970 2814 True 5199.0 5199 100.0000 1 2815 1 chr2A.!!$R1 2814
1 TraesCS2A01G119800 chr2D 70819687 70822615 2928 True 1276.0 2109 91.7820 1 2815 3 chr2D.!!$R1 2814
2 TraesCS2A01G119800 chr2D 610497206 610498965 1759 False 465.0 562 82.3365 1 755 2 chr2D.!!$F4 754
3 TraesCS2A01G119800 chr2D 543516225 543517076 851 False 295.3 523 84.2065 1 898 2 chr2D.!!$F3 897
4 TraesCS2A01G119800 chr2B 107116557 107118496 1939 True 1413.5 1938 94.3615 974 2815 2 chr2B.!!$R1 1841
5 TraesCS2A01G119800 chr4B 598392662 598393441 779 False 494.0 494 78.9140 1 757 1 chr4B.!!$F2 756
6 TraesCS2A01G119800 chr6B 580302772 580305969 3197 True 405.0 446 80.7165 1 757 2 chr6B.!!$R1 756
7 TraesCS2A01G119800 chr7D 110603895 110604629 734 False 429.0 429 78.2550 1 732 1 chr7D.!!$F1 731

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
807 2444 0.249238 ACAATTCGCGGCTGCAAAAA 60.249 45.0 19.5 8.88 42.97 1.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2227 3920 0.734889 AATTCAAAGCTGCCCGATCG 59.265 50.0 8.51 8.51 0.0 3.69 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 6.993079 ACATCTTTCATAAAACCCCAAAGAC 58.007 36.000 0.00 0.00 36.24 3.01
96 593 5.538118 ACTTTGGAAATCCCGAACATTTTC 58.462 37.500 0.00 0.00 37.93 2.29
98 595 2.490115 TGGAAATCCCGAACATTTTCCG 59.510 45.455 8.32 0.00 46.53 4.30
104 603 4.231718 TCCCGAACATTTTCCGAAAAAG 57.768 40.909 10.27 8.62 37.76 2.27
119 621 9.511144 TTTCCGAAAAAGAGCTAAGTTTTAAAG 57.489 29.630 0.00 0.00 0.00 1.85
124 626 6.555812 AAAGAGCTAAGTTTTAAAGGACGG 57.444 37.500 0.00 0.00 0.00 4.79
183 1182 5.631512 TGCGAACATTCTTTTAAAATTCCCG 59.368 36.000 0.09 1.46 0.00 5.14
244 1243 9.573133 ACATGAACAAACTTAGAAAACAAGAAG 57.427 29.630 0.00 0.00 0.00 2.85
421 1993 6.730960 ACTTTTCTGAAACTTACGAACACA 57.269 33.333 1.58 0.00 0.00 3.72
426 1998 8.973835 TTTCTGAAACTTACGAACACATTTTT 57.026 26.923 0.00 0.00 0.00 1.94
436 2008 8.858003 TTACGAACACATTTTTGAAATAAGCA 57.142 26.923 0.00 0.00 0.00 3.91
440 2012 7.315407 CGAACACATTTTTGAAATAAGCAAACG 59.685 33.333 0.00 0.00 35.20 3.60
550 2132 8.463456 AAAAAGTGTTGGAAAATGCATTTTTG 57.537 26.923 32.09 0.00 39.86 2.44
573 2156 8.436046 TTGAATTTCTGAACATTTTTGGGAAG 57.564 30.769 0.00 0.00 0.00 3.46
647 2251 7.340122 AGAAAAGGAGAAACAGAAAAAGGAG 57.660 36.000 0.00 0.00 0.00 3.69
648 2252 5.521906 AAAGGAGAAACAGAAAAAGGAGC 57.478 39.130 0.00 0.00 0.00 4.70
649 2253 4.170468 AGGAGAAACAGAAAAAGGAGCA 57.830 40.909 0.00 0.00 0.00 4.26
650 2254 4.140536 AGGAGAAACAGAAAAAGGAGCAG 58.859 43.478 0.00 0.00 0.00 4.24
651 2255 4.137543 GGAGAAACAGAAAAAGGAGCAGA 58.862 43.478 0.00 0.00 0.00 4.26
654 2259 6.405842 GGAGAAACAGAAAAAGGAGCAGAAAA 60.406 38.462 0.00 0.00 0.00 2.29
745 2372 3.526899 TCAGGGAATGTTCTGGAAGGTA 58.473 45.455 0.00 0.00 0.00 3.08
757 2394 1.241165 GGAAGGTACCCAAAACCGTG 58.759 55.000 8.74 0.00 42.15 4.94
759 2396 0.824595 AAGGTACCCAAAACCGTGGC 60.825 55.000 8.74 0.00 42.15 5.01
760 2397 2.619165 GGTACCCAAAACCGTGGCG 61.619 63.158 0.00 0.00 37.34 5.69
761 2398 1.597578 GTACCCAAAACCGTGGCGA 60.598 57.895 0.00 0.00 37.34 5.54
762 2399 1.147824 TACCCAAAACCGTGGCGAA 59.852 52.632 0.00 0.00 37.34 4.70
763 2400 0.250814 TACCCAAAACCGTGGCGAAT 60.251 50.000 0.00 0.00 37.34 3.34
765 2402 0.450184 CCCAAAACCGTGGCGAATAG 59.550 55.000 0.00 0.00 37.34 1.73
766 2403 0.450184 CCAAAACCGTGGCGAATAGG 59.550 55.000 0.00 0.00 0.00 2.57
767 2404 1.161843 CAAAACCGTGGCGAATAGGT 58.838 50.000 0.00 0.00 38.88 3.08
770 2407 1.900245 AACCGTGGCGAATAGGTTTT 58.100 45.000 0.00 0.00 43.72 2.43
771 2408 1.445871 ACCGTGGCGAATAGGTTTTC 58.554 50.000 0.00 0.00 32.17 2.29
772 2409 0.730840 CCGTGGCGAATAGGTTTTCC 59.269 55.000 0.00 0.00 41.05 3.13
773 2410 0.372334 CGTGGCGAATAGGTTTTCCG 59.628 55.000 0.00 0.00 46.35 4.30
774 2411 1.445871 GTGGCGAATAGGTTTTCCGT 58.554 50.000 0.00 0.00 46.35 4.69
775 2412 2.620242 GTGGCGAATAGGTTTTCCGTA 58.380 47.619 0.00 0.00 46.35 4.02
776 2413 3.002102 GTGGCGAATAGGTTTTCCGTAA 58.998 45.455 0.00 0.00 46.35 3.18
777 2414 3.624410 GTGGCGAATAGGTTTTCCGTAAT 59.376 43.478 0.00 0.00 46.35 1.89
778 2415 4.095334 GTGGCGAATAGGTTTTCCGTAATT 59.905 41.667 0.00 0.00 46.35 1.40
779 2416 4.333372 TGGCGAATAGGTTTTCCGTAATTC 59.667 41.667 0.00 0.00 46.35 2.17
781 2418 4.511734 CGAATAGGTTTTCCGTAATTCGC 58.488 43.478 14.16 0.00 45.12 4.70
782 2419 4.551410 CGAATAGGTTTTCCGTAATTCGCC 60.551 45.833 14.16 0.00 45.12 5.54
783 2420 1.081094 AGGTTTTCCGTAATTCGCCG 58.919 50.000 0.00 0.00 46.35 6.46
784 2421 0.798159 GGTTTTCCGTAATTCGCCGT 59.202 50.000 0.00 0.00 38.35 5.68
785 2422 1.201954 GGTTTTCCGTAATTCGCCGTC 60.202 52.381 0.00 0.00 38.35 4.79
786 2423 1.077915 TTTTCCGTAATTCGCCGTCC 58.922 50.000 0.00 0.00 38.35 4.79
787 2424 0.740516 TTTCCGTAATTCGCCGTCCC 60.741 55.000 0.00 0.00 38.35 4.46
788 2425 1.886253 TTCCGTAATTCGCCGTCCCA 61.886 55.000 0.00 0.00 38.35 4.37
789 2426 2.169146 CCGTAATTCGCCGTCCCAC 61.169 63.158 0.00 0.00 38.35 4.61
790 2427 1.446445 CGTAATTCGCCGTCCCACA 60.446 57.895 0.00 0.00 0.00 4.17
791 2428 1.015085 CGTAATTCGCCGTCCCACAA 61.015 55.000 0.00 0.00 0.00 3.33
792 2429 1.375551 GTAATTCGCCGTCCCACAAT 58.624 50.000 0.00 0.00 0.00 2.71
793 2430 1.741145 GTAATTCGCCGTCCCACAATT 59.259 47.619 0.00 0.00 0.00 2.32
794 2431 0.808755 AATTCGCCGTCCCACAATTC 59.191 50.000 0.00 0.00 0.00 2.17
795 2432 1.366111 ATTCGCCGTCCCACAATTCG 61.366 55.000 0.00 0.00 0.00 3.34
796 2433 4.160635 CGCCGTCCCACAATTCGC 62.161 66.667 0.00 0.00 0.00 4.70
797 2434 4.160635 GCCGTCCCACAATTCGCG 62.161 66.667 0.00 0.00 0.00 5.87
798 2435 3.496131 CCGTCCCACAATTCGCGG 61.496 66.667 6.13 0.00 0.00 6.46
799 2436 4.160635 CGTCCCACAATTCGCGGC 62.161 66.667 6.13 0.00 0.00 6.53
800 2437 2.746277 GTCCCACAATTCGCGGCT 60.746 61.111 6.13 0.00 0.00 5.52
801 2438 2.745884 TCCCACAATTCGCGGCTG 60.746 61.111 6.13 3.66 0.00 4.85
802 2439 4.481112 CCCACAATTCGCGGCTGC 62.481 66.667 7.70 7.70 37.91 5.25
803 2440 3.736100 CCACAATTCGCGGCTGCA 61.736 61.111 19.50 0.00 42.97 4.41
804 2441 2.254951 CACAATTCGCGGCTGCAA 59.745 55.556 19.50 11.39 42.97 4.08
805 2442 1.371512 CACAATTCGCGGCTGCAAA 60.372 52.632 19.50 5.64 42.97 3.68
806 2443 0.938637 CACAATTCGCGGCTGCAAAA 60.939 50.000 19.50 11.59 42.97 2.44
807 2444 0.249238 ACAATTCGCGGCTGCAAAAA 60.249 45.000 19.50 8.88 42.97 1.94
808 2445 1.070038 CAATTCGCGGCTGCAAAAAT 58.930 45.000 19.50 10.88 42.97 1.82
809 2446 2.257894 CAATTCGCGGCTGCAAAAATA 58.742 42.857 19.50 0.00 42.97 1.40
810 2447 2.859538 CAATTCGCGGCTGCAAAAATAT 59.140 40.909 19.50 0.00 42.97 1.28
811 2448 2.645730 TTCGCGGCTGCAAAAATATT 57.354 40.000 19.50 0.00 42.97 1.28
812 2449 3.766676 TTCGCGGCTGCAAAAATATTA 57.233 38.095 19.50 0.00 42.97 0.98
813 2450 3.980646 TCGCGGCTGCAAAAATATTAT 57.019 38.095 19.50 0.00 42.97 1.28
814 2451 4.300189 TCGCGGCTGCAAAAATATTATT 57.700 36.364 19.50 0.00 42.97 1.40
815 2452 4.041049 TCGCGGCTGCAAAAATATTATTG 58.959 39.130 19.50 0.00 42.97 1.90
816 2453 3.182173 CGCGGCTGCAAAAATATTATTGG 59.818 43.478 19.50 0.00 42.97 3.16
817 2454 4.367450 GCGGCTGCAAAAATATTATTGGA 58.633 39.130 14.08 0.00 42.15 3.53
818 2455 4.808364 GCGGCTGCAAAAATATTATTGGAA 59.192 37.500 14.08 0.00 42.15 3.53
819 2456 5.293079 GCGGCTGCAAAAATATTATTGGAAA 59.707 36.000 14.08 0.00 42.15 3.13
895 2559 0.300789 CGAGCGGCGAATAGGTTTTC 59.699 55.000 12.98 0.00 44.57 2.29
897 2561 1.087771 AGCGGCGAATAGGTTTTCCG 61.088 55.000 12.98 0.00 46.35 4.30
934 2598 1.905637 CTCCCGCTAAACCCAACTTT 58.094 50.000 0.00 0.00 0.00 2.66
943 2607 4.456911 GCTAAACCCAACTTTACACTACCC 59.543 45.833 0.00 0.00 0.00 3.69
948 2612 2.039879 CCAACTTTACACTACCCAGGCT 59.960 50.000 0.00 0.00 0.00 4.58
952 2616 0.974010 TTACACTACCCAGGCTCCCG 60.974 60.000 0.00 0.00 0.00 5.14
960 2624 1.070445 CCAGGCTCCCGCATCTAAG 59.930 63.158 0.00 0.00 38.10 2.18
966 2630 2.420129 GGCTCCCGCATCTAAGAAAAGA 60.420 50.000 0.00 0.00 38.10 2.52
1083 2748 0.179134 ACGCGCTCATCTTCCTGTAC 60.179 55.000 5.73 0.00 0.00 2.90
1218 2894 0.466124 ACTCCCTTATCTTCGCTGCC 59.534 55.000 0.00 0.00 0.00 4.85
1219 2895 0.598680 CTCCCTTATCTTCGCTGCCG 60.599 60.000 0.00 0.00 0.00 5.69
1325 3001 4.405358 TGTTCCTCTGTTGCCTTTTTCAAT 59.595 37.500 0.00 0.00 0.00 2.57
1380 3056 9.474920 TTTTACAGCAGTTGAAATAGGATTTTG 57.525 29.630 0.00 0.00 0.00 2.44
1416 3094 6.593770 GGTTTAAATAAGTTGCCAATTCCCAG 59.406 38.462 0.00 0.00 0.00 4.45
1419 3097 4.806640 ATAAGTTGCCAATTCCCAGTTG 57.193 40.909 0.00 0.00 0.00 3.16
1463 3141 8.899427 TTTCATGAATTCAAAACTGGCATTTA 57.101 26.923 13.09 0.00 0.00 1.40
1511 3190 8.459635 TCCGTCTAGCTTAAGTGCATATAATAG 58.540 37.037 4.02 0.00 34.99 1.73
1736 3427 5.186215 TGTTCGTTCAGTATTGAGGGATGTA 59.814 40.000 0.00 0.00 34.15 2.29
1752 3443 1.735926 TGTAGGGTCATTGGGTGTCA 58.264 50.000 0.00 0.00 0.00 3.58
1814 3505 2.501723 GAGGCAGTGGAGGATGAAGTAA 59.498 50.000 0.00 0.00 0.00 2.24
1815 3506 3.118531 AGGCAGTGGAGGATGAAGTAAT 58.881 45.455 0.00 0.00 0.00 1.89
1816 3507 4.298626 AGGCAGTGGAGGATGAAGTAATA 58.701 43.478 0.00 0.00 0.00 0.98
1828 3519 8.568617 AGGATGAAGTAATAGAGGGTTATGTT 57.431 34.615 0.00 0.00 0.00 2.71
1961 3654 5.723295 ACTTGTGAGTTTTTCATTTGTGCT 58.277 33.333 0.00 0.00 38.29 4.40
2048 3741 3.512496 TGTGGTACATCCCAGTTAGACA 58.488 45.455 0.00 0.00 44.52 3.41
2155 3848 1.262950 CGTCGCTGTTTGACCAATCAA 59.737 47.619 0.00 0.00 43.28 2.57
2227 3920 6.318648 TGTTCAGTCATTCCCATGCTTATTAC 59.681 38.462 0.00 0.00 0.00 1.89
2406 4690 7.819415 TCCACAGCTAATATATACTTGCATGTC 59.181 37.037 8.74 0.00 0.00 3.06
2500 4784 3.266772 TCTTTCATGGGTTATCAGTGCCT 59.733 43.478 0.00 0.00 0.00 4.75
2750 5416 0.823356 TCTTTTGTGCCCTGTGGAGC 60.823 55.000 0.00 0.00 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 75 4.929211 GGAAAATGTTCGGGATTTCCAAAG 59.071 41.667 10.41 0.00 46.43 2.77
96 593 7.590322 GTCCTTTAAAACTTAGCTCTTTTTCGG 59.410 37.037 0.00 0.00 0.00 4.30
98 595 7.590322 CCGTCCTTTAAAACTTAGCTCTTTTTC 59.410 37.037 0.00 0.00 0.00 2.29
104 603 6.549912 TTTCCGTCCTTTAAAACTTAGCTC 57.450 37.500 0.00 0.00 0.00 4.09
119 621 6.173191 TCGTATTTCAGAAAATTTCCGTCC 57.827 37.500 0.00 0.00 36.49 4.79
169 672 8.491950 CAAAATGTGTACCGGGAATTTTAAAAG 58.508 33.333 6.32 0.00 31.17 2.27
170 673 8.202137 TCAAAATGTGTACCGGGAATTTTAAAA 58.798 29.630 6.32 2.51 31.17 1.52
354 1926 9.190858 GTTTAACATATGAGAAAATGTGCACAA 57.809 29.630 25.72 5.47 36.47 3.33
410 1982 8.963130 TGCTTATTTCAAAAATGTGTTCGTAAG 58.037 29.630 0.00 0.00 0.00 2.34
413 1985 7.763172 TTGCTTATTTCAAAAATGTGTTCGT 57.237 28.000 0.00 0.00 0.00 3.85
426 1998 8.641499 ACTTCAAAAATCGTTTGCTTATTTCA 57.359 26.923 0.00 0.00 0.00 2.69
527 2104 7.388460 TCAAAAATGCATTTTCCAACACTTT 57.612 28.000 31.78 14.35 39.20 2.66
530 2107 8.631676 AAATTCAAAAATGCATTTTCCAACAC 57.368 26.923 31.78 0.00 39.20 3.32
550 2132 8.143835 TCTCTTCCCAAAAATGTTCAGAAATTC 58.856 33.333 0.00 0.00 0.00 2.17
611 2215 9.942850 TGTTTCTCCTTTTCTTTTCTTTTCAAT 57.057 25.926 0.00 0.00 0.00 2.57
612 2216 9.423061 CTGTTTCTCCTTTTCTTTTCTTTTCAA 57.577 29.630 0.00 0.00 0.00 2.69
613 2217 8.802267 TCTGTTTCTCCTTTTCTTTTCTTTTCA 58.198 29.630 0.00 0.00 0.00 2.69
745 2372 0.250814 TATTCGCCACGGTTTTGGGT 60.251 50.000 0.00 0.00 37.10 4.51
757 2394 4.551410 CGAATTACGGAAAACCTATTCGCC 60.551 45.833 0.00 0.00 38.25 5.54
759 2396 4.511734 GCGAATTACGGAAAACCTATTCG 58.488 43.478 7.09 7.09 44.10 3.34
760 2397 4.551410 CGGCGAATTACGGAAAACCTATTC 60.551 45.833 0.00 0.00 42.83 1.75
761 2398 3.310501 CGGCGAATTACGGAAAACCTATT 59.689 43.478 0.00 0.00 42.83 1.73
762 2399 2.867975 CGGCGAATTACGGAAAACCTAT 59.132 45.455 0.00 0.00 42.83 2.57
763 2400 2.270047 CGGCGAATTACGGAAAACCTA 58.730 47.619 0.00 0.00 42.83 3.08
765 2402 0.798159 ACGGCGAATTACGGAAAACC 59.202 50.000 16.62 0.00 42.83 3.27
766 2403 1.201954 GGACGGCGAATTACGGAAAAC 60.202 52.381 16.62 0.00 42.83 2.43
767 2404 1.077915 GGACGGCGAATTACGGAAAA 58.922 50.000 16.62 0.00 42.83 2.29
770 2407 2.349672 TGGGACGGCGAATTACGGA 61.350 57.895 16.62 0.00 42.83 4.69
771 2408 2.169146 GTGGGACGGCGAATTACGG 61.169 63.158 16.62 0.00 42.83 4.02
772 2409 1.015085 TTGTGGGACGGCGAATTACG 61.015 55.000 16.62 0.00 45.66 3.18
773 2410 1.375551 ATTGTGGGACGGCGAATTAC 58.624 50.000 16.62 8.03 0.00 1.89
774 2411 2.011222 GAATTGTGGGACGGCGAATTA 58.989 47.619 16.62 0.00 0.00 1.40
775 2412 0.808755 GAATTGTGGGACGGCGAATT 59.191 50.000 16.62 7.90 0.00 2.17
776 2413 1.366111 CGAATTGTGGGACGGCGAAT 61.366 55.000 16.62 0.00 0.00 3.34
777 2414 2.030401 CGAATTGTGGGACGGCGAA 61.030 57.895 16.62 0.00 0.00 4.70
778 2415 2.433491 CGAATTGTGGGACGGCGA 60.433 61.111 16.62 0.00 0.00 5.54
779 2416 4.160635 GCGAATTGTGGGACGGCG 62.161 66.667 4.80 4.80 0.00 6.46
780 2417 4.160635 CGCGAATTGTGGGACGGC 62.161 66.667 0.00 0.00 0.00 5.68
781 2418 3.496131 CCGCGAATTGTGGGACGG 61.496 66.667 8.23 0.00 44.97 4.79
787 2424 0.938637 TTTTGCAGCCGCGAATTGTG 60.939 50.000 8.23 0.00 41.26 3.33
788 2425 0.249238 TTTTTGCAGCCGCGAATTGT 60.249 45.000 8.23 0.00 41.26 2.71
789 2426 1.070038 ATTTTTGCAGCCGCGAATTG 58.930 45.000 8.23 3.60 41.26 2.32
790 2427 2.645730 TATTTTTGCAGCCGCGAATT 57.354 40.000 8.23 0.00 41.26 2.17
791 2428 2.869233 ATATTTTTGCAGCCGCGAAT 57.131 40.000 8.23 0.00 41.26 3.34
792 2429 2.645730 AATATTTTTGCAGCCGCGAA 57.354 40.000 8.23 0.00 42.97 4.70
793 2430 3.980646 ATAATATTTTTGCAGCCGCGA 57.019 38.095 8.23 0.00 42.97 5.87
794 2431 3.182173 CCAATAATATTTTTGCAGCCGCG 59.818 43.478 11.81 0.00 42.97 6.46
795 2432 4.367450 TCCAATAATATTTTTGCAGCCGC 58.633 39.130 11.81 0.00 39.24 6.53
796 2433 6.900568 TTTCCAATAATATTTTTGCAGCCG 57.099 33.333 11.81 0.96 0.00 5.52
809 2446 9.421399 CCCACTTCTACCTTTATTTCCAATAAT 57.579 33.333 0.00 0.00 0.00 1.28
810 2447 7.340999 GCCCACTTCTACCTTTATTTCCAATAA 59.659 37.037 0.00 0.00 0.00 1.40
811 2448 6.831868 GCCCACTTCTACCTTTATTTCCAATA 59.168 38.462 0.00 0.00 0.00 1.90
812 2449 5.656859 GCCCACTTCTACCTTTATTTCCAAT 59.343 40.000 0.00 0.00 0.00 3.16
813 2450 5.014202 GCCCACTTCTACCTTTATTTCCAA 58.986 41.667 0.00 0.00 0.00 3.53
814 2451 4.569015 GGCCCACTTCTACCTTTATTTCCA 60.569 45.833 0.00 0.00 0.00 3.53
815 2452 3.952323 GGCCCACTTCTACCTTTATTTCC 59.048 47.826 0.00 0.00 0.00 3.13
816 2453 3.626217 CGGCCCACTTCTACCTTTATTTC 59.374 47.826 0.00 0.00 0.00 2.17
817 2454 3.617284 CGGCCCACTTCTACCTTTATTT 58.383 45.455 0.00 0.00 0.00 1.40
818 2455 2.092592 CCGGCCCACTTCTACCTTTATT 60.093 50.000 0.00 0.00 0.00 1.40
819 2456 1.489230 CCGGCCCACTTCTACCTTTAT 59.511 52.381 0.00 0.00 0.00 1.40
843 2480 1.993391 GGGACGGGGGATTCTCACA 60.993 63.158 0.00 0.00 0.00 3.58
844 2481 1.993391 TGGGACGGGGGATTCTCAC 60.993 63.158 0.00 0.00 0.00 3.51
845 2482 1.993391 GTGGGACGGGGGATTCTCA 60.993 63.158 0.00 0.00 0.00 3.27
846 2483 1.559065 TTGTGGGACGGGGGATTCTC 61.559 60.000 0.00 0.00 0.00 2.87
847 2484 0.919289 ATTGTGGGACGGGGGATTCT 60.919 55.000 0.00 0.00 0.00 2.40
849 2486 0.033503 GAATTGTGGGACGGGGGATT 60.034 55.000 0.00 0.00 0.00 3.01
891 2555 4.024545 GAGGGGGACGGCGGAAAA 62.025 66.667 13.24 0.00 0.00 2.29
934 2598 1.380785 CGGGAGCCTGGGTAGTGTA 60.381 63.158 0.00 0.00 0.00 2.90
948 2612 4.906618 AGTTTCTTTTCTTAGATGCGGGA 58.093 39.130 0.00 0.00 0.00 5.14
952 2616 5.182001 TGGCAGAGTTTCTTTTCTTAGATGC 59.818 40.000 0.00 0.00 0.00 3.91
960 2624 2.287849 GCAGGTGGCAGAGTTTCTTTTC 60.288 50.000 0.00 0.00 43.97 2.29
966 2630 2.980233 GCGCAGGTGGCAGAGTTT 60.980 61.111 0.30 0.00 45.17 2.66
1117 2787 3.118454 CGCGATGACCTTGGCGTT 61.118 61.111 0.00 0.00 43.36 4.84
1218 2894 3.656045 GCAACGGGGGTGAACACG 61.656 66.667 0.00 0.00 0.00 4.49
1219 2895 3.292159 GGCAACGGGGGTGAACAC 61.292 66.667 0.00 0.00 0.00 3.32
1313 2989 6.563422 CAAATCGGATCTATTGAAAAAGGCA 58.437 36.000 0.00 0.00 0.00 4.75
1416 3094 9.874205 TGAAAATGATGGATCTTAATTTCCAAC 57.126 29.630 9.79 8.29 44.83 3.77
1463 3141 7.336931 ACGGATGCAGAGACATTTAAATAAAGT 59.663 33.333 0.00 0.00 0.00 2.66
1511 3190 2.545537 AAAAGGTCAGAACGAGGTCC 57.454 50.000 0.00 0.00 0.00 4.46
1736 3427 1.380302 GCTGACACCCAATGACCCT 59.620 57.895 0.00 0.00 0.00 4.34
1752 3443 4.764679 TGATGAAACAAAATACTGCGCT 57.235 36.364 9.73 0.00 0.00 5.92
1814 3505 5.104360 ACAGCACATCAACATAACCCTCTAT 60.104 40.000 0.00 0.00 0.00 1.98
1815 3506 4.225042 ACAGCACATCAACATAACCCTCTA 59.775 41.667 0.00 0.00 0.00 2.43
1816 3507 3.009473 ACAGCACATCAACATAACCCTCT 59.991 43.478 0.00 0.00 0.00 3.69
1828 3519 5.853936 GGTATATACCTCAACAGCACATCA 58.146 41.667 22.56 0.00 43.10 3.07
1898 3591 7.064728 CACCAAACTAGAAACAGTAGGCTTATC 59.935 40.741 0.00 0.00 30.69 1.75
2155 3848 7.681598 TCCACTAATGATCTCTCCATATGGATT 59.318 37.037 24.73 15.85 44.46 3.01
2227 3920 0.734889 AATTCAAAGCTGCCCGATCG 59.265 50.000 8.51 8.51 0.00 3.69
2359 4643 5.476599 TGGATTAAATGAAGGGTGTGTTCTG 59.523 40.000 0.00 0.00 0.00 3.02
2406 4690 8.167806 CGACAAAAATGTCATGGAACAACACG 62.168 42.308 9.39 0.00 38.65 4.49
2500 4784 7.039993 GCTCAAGTTACTTTGGGGAAATAAAGA 60.040 37.037 0.00 0.00 37.35 2.52
2718 5384 6.268847 AGGGCACAAAAGAATGGTATAAACAA 59.731 34.615 0.00 0.00 0.00 2.83
2750 5416 0.798776 GGACAGAACAGCAATCCACG 59.201 55.000 0.00 0.00 0.00 4.94


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

AutoCloner maintained by Alex Coulton.