Multiple sequence alignment - TraesCS2A01G191400

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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 TraesCS2A01G191400 chr2A 100.000 2993 0 0 1 2993 158451418 158454410 0.000000e+00 5528.0
1 TraesCS2A01G191400 chr2A 100.000 33 0 0 2413 2445 158453799 158453831 8.960000e-06 62.1
2 TraesCS2A01G191400 chr2A 100.000 33 0 0 2382 2414 158453830 158453862 8.960000e-06 62.1
3 TraesCS2A01G191400 chr2B 92.381 2848 106 37 3 2823 200574798 200572035 0.000000e+00 3954.0
4 TraesCS2A01G191400 chr2B 91.304 46 0 1 2952 2993 200572026 200571981 3.220000e-05 60.2
5 TraesCS2A01G191400 chr2D 94.058 2474 98 20 375 2823 142668852 142666403 0.000000e+00 3709.0
6 TraesCS2A01G191400 chr2D 93.963 381 12 6 1 377 142669415 142669042 1.560000e-157 566.0
7 TraesCS2A01G191400 chr2D 92.481 133 8 2 2828 2959 622315784 622315653 3.940000e-44 189.0
8 TraesCS2A01G191400 chr5B 94.615 130 6 1 2826 2954 454871586 454871457 1.820000e-47 200.0
9 TraesCS2A01G191400 chr5B 93.130 131 8 1 2828 2957 18076962 18077092 1.100000e-44 191.0
10 TraesCS2A01G191400 chr5A 92.086 139 9 2 2825 2961 508283651 508283789 8.470000e-46 195.0
11 TraesCS2A01G191400 chr7D 91.971 137 9 2 2818 2953 443413238 443413373 1.100000e-44 191.0
12 TraesCS2A01G191400 chr4A 91.971 137 9 2 2819 2954 732973412 732973547 1.100000e-44 191.0
13 TraesCS2A01G191400 chr4A 91.304 138 10 2 2817 2953 477881892 477881756 1.420000e-43 187.0
14 TraesCS2A01G191400 chr1B 92.537 134 9 1 2821 2953 659725896 659726029 1.100000e-44 191.0
15 TraesCS2A01G191400 chr6B 90.210 143 11 3 2827 2968 68120702 68120842 1.830000e-42 183.0


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 TraesCS2A01G191400 chr2A 158451418 158454410 2992 False 1884.066667 5528 100.0000 1 2993 3 chr2A.!!$F1 2992
1 TraesCS2A01G191400 chr2B 200571981 200574798 2817 True 2007.100000 3954 91.8425 3 2993 2 chr2B.!!$R1 2990
2 TraesCS2A01G191400 chr2D 142666403 142669415 3012 True 2137.500000 3709 94.0105 1 2823 2 chr2D.!!$R2 2822

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
73 77 0.459585 AGGTACGTAATGCGGTGCTG 60.460 55.000 0.0 0.0 46.52 4.41 F
658 854 1.301716 GACACGAAGCTTGGAGGCA 60.302 57.895 16.0 0.0 34.17 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1419 1640 1.292941 CCTCCTCCTCCTCCTCCTCA 61.293 65.0 0.0 0.0 0.0 3.86 R
2127 2349 0.248289 CCATGCAGGCTTCCCAAAAG 59.752 55.0 0.0 0.0 0.0 2.27 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
73 77 0.459585 AGGTACGTAATGCGGTGCTG 60.460 55.000 0.00 0.00 46.52 4.41
260 264 2.106566 TGGTTGTTGGTGAGCAATGTT 58.893 42.857 0.00 0.00 0.00 2.71
261 265 3.291584 TGGTTGTTGGTGAGCAATGTTA 58.708 40.909 0.00 0.00 0.00 2.41
262 266 3.067461 TGGTTGTTGGTGAGCAATGTTAC 59.933 43.478 0.00 0.00 0.00 2.50
301 305 7.349598 ACGTATACCATACCTAATACCCCTAG 58.650 42.308 0.00 0.00 0.00 3.02
302 306 6.264067 CGTATACCATACCTAATACCCCTAGC 59.736 46.154 0.00 0.00 0.00 3.42
303 307 4.497100 ACCATACCTAATACCCCTAGCA 57.503 45.455 0.00 0.00 0.00 3.49
305 309 5.421356 ACCATACCTAATACCCCTAGCATT 58.579 41.667 0.00 0.00 0.00 3.56
306 310 5.855600 ACCATACCTAATACCCCTAGCATTT 59.144 40.000 0.00 0.00 0.00 2.32
309 313 9.220906 CCATACCTAATACCCCTAGCATTTATA 57.779 37.037 0.00 0.00 0.00 0.98
464 660 2.876091 TCCTTAGCACGAAACATCGAG 58.124 47.619 5.11 0.00 36.85 4.04
653 849 2.357517 AGGCGACACGAAGCTTGG 60.358 61.111 2.10 4.94 0.00 3.61
658 854 1.301716 GACACGAAGCTTGGAGGCA 60.302 57.895 16.00 0.00 34.17 4.75
659 855 1.569479 GACACGAAGCTTGGAGGCAC 61.569 60.000 16.00 0.59 34.17 5.01
660 856 2.357517 ACGAAGCTTGGAGGCACG 60.358 61.111 16.00 7.67 38.97 5.34
661 857 3.793144 CGAAGCTTGGAGGCACGC 61.793 66.667 2.10 0.00 34.17 5.34
662 858 2.669569 GAAGCTTGGAGGCACGCA 60.670 61.111 2.10 0.00 34.17 5.24
987 1205 3.197614 TCGGCAGACATCGACTCC 58.802 61.111 0.00 0.00 0.00 3.85
1435 1656 0.539438 CGATGAGGAGGAGGAGGAGG 60.539 65.000 0.00 0.00 0.00 4.30
1436 1657 0.856982 GATGAGGAGGAGGAGGAGGA 59.143 60.000 0.00 0.00 0.00 3.71
1446 1667 0.330431 AGGAGGAGGAGGAGAGGGAT 60.330 60.000 0.00 0.00 0.00 3.85
1447 1668 1.059364 AGGAGGAGGAGGAGAGGGATA 60.059 57.143 0.00 0.00 0.00 2.59
1939 2160 4.735132 TCGCCTGGAGGTTTCGCG 62.735 66.667 0.00 0.00 44.00 5.87
2004 2225 2.159128 CGAAGCATGAGACACTCAGGAT 60.159 50.000 15.75 7.84 42.60 3.24
2007 2229 1.537776 GCATGAGACACTCAGGATCCG 60.538 57.143 15.75 1.36 43.80 4.18
2011 2233 0.033601 AGACACTCAGGATCCGAGCT 60.034 55.000 24.51 15.29 33.58 4.09
2071 2293 6.019398 GGTGCATGTTTTGTTACTGTTAAACC 60.019 38.462 0.00 0.00 31.25 3.27
2127 2349 4.353383 AACCTAGGTGAACTGTTTCCTC 57.647 45.455 17.14 0.00 0.00 3.71
2190 2412 3.938963 ACATATGATGTTGACCGGACAAC 59.061 43.478 33.54 33.54 46.83 3.32
2218 2440 4.621034 GGGAAAAATATGACGTGTGCTTTG 59.379 41.667 0.00 0.00 0.00 2.77
2234 2456 3.243501 TGCTTTGGTGAATTGCACTTCTC 60.244 43.478 16.65 13.05 46.86 2.87
2239 2461 1.200948 GTGAATTGCACTTCTCCTGGC 59.799 52.381 16.65 0.00 44.27 4.85
2271 2493 3.193691 GCTAGTGAGCTTCTTGTACTCCA 59.806 47.826 0.00 0.00 45.98 3.86
2299 2522 0.391130 TGACTGGTGATTGCCTACGC 60.391 55.000 0.00 0.00 0.00 4.42
2323 2546 0.029681 AGGGACAGGGCAGGATGTAT 60.030 55.000 0.00 0.00 39.31 2.29
2381 2604 2.050077 GGCCTTCTTTGCGTGCAC 60.050 61.111 6.82 6.82 0.00 4.57
2382 2605 2.555547 GGCCTTCTTTGCGTGCACT 61.556 57.895 16.19 0.00 0.00 4.40
2383 2606 1.234615 GGCCTTCTTTGCGTGCACTA 61.235 55.000 16.19 0.30 0.00 2.74
2384 2607 0.591170 GCCTTCTTTGCGTGCACTAA 59.409 50.000 16.19 7.29 0.00 2.24
2385 2608 1.400242 GCCTTCTTTGCGTGCACTAAG 60.400 52.381 16.19 14.72 0.00 2.18
2386 2609 1.873591 CCTTCTTTGCGTGCACTAAGT 59.126 47.619 16.19 0.00 0.00 2.24
2387 2610 2.290641 CCTTCTTTGCGTGCACTAAGTT 59.709 45.455 16.19 0.00 0.00 2.66
2388 2611 3.291585 CTTCTTTGCGTGCACTAAGTTG 58.708 45.455 16.19 0.00 0.00 3.16
2389 2612 2.556257 TCTTTGCGTGCACTAAGTTGA 58.444 42.857 16.19 3.41 0.00 3.18
2390 2613 2.286833 TCTTTGCGTGCACTAAGTTGAC 59.713 45.455 16.19 0.00 0.00 3.18
2391 2614 1.657822 TTGCGTGCACTAAGTTGACA 58.342 45.000 16.19 0.00 0.00 3.58
2392 2615 1.657822 TGCGTGCACTAAGTTGACAA 58.342 45.000 16.19 0.00 0.00 3.18
2393 2616 2.010497 TGCGTGCACTAAGTTGACAAA 58.990 42.857 16.19 0.00 0.00 2.83
2394 2617 2.616376 TGCGTGCACTAAGTTGACAAAT 59.384 40.909 16.19 0.00 0.00 2.32
2395 2618 3.810386 TGCGTGCACTAAGTTGACAAATA 59.190 39.130 16.19 0.00 0.00 1.40
2396 2619 4.454161 TGCGTGCACTAAGTTGACAAATAT 59.546 37.500 16.19 0.00 0.00 1.28
2397 2620 5.639931 TGCGTGCACTAAGTTGACAAATATA 59.360 36.000 16.19 0.00 0.00 0.86
2398 2621 6.183360 TGCGTGCACTAAGTTGACAAATATAG 60.183 38.462 16.19 0.00 0.00 1.31
2399 2622 6.183360 GCGTGCACTAAGTTGACAAATATAGT 60.183 38.462 16.19 0.00 0.00 2.12
2400 2623 7.009815 GCGTGCACTAAGTTGACAAATATAGTA 59.990 37.037 16.19 0.00 0.00 1.82
2401 2624 8.532341 CGTGCACTAAGTTGACAAATATAGTAG 58.468 37.037 16.19 1.20 0.00 2.57
2402 2625 8.328864 GTGCACTAAGTTGACAAATATAGTAGC 58.671 37.037 10.32 12.01 0.00 3.58
2403 2626 7.494625 TGCACTAAGTTGACAAATATAGTAGCC 59.505 37.037 16.70 8.84 0.00 3.93
2404 2627 7.494625 GCACTAAGTTGACAAATATAGTAGCCA 59.505 37.037 7.91 0.00 0.00 4.75
2405 2628 9.378551 CACTAAGTTGACAAATATAGTAGCCAA 57.621 33.333 7.91 0.00 0.00 4.52
2406 2629 9.601217 ACTAAGTTGACAAATATAGTAGCCAAG 57.399 33.333 6.90 0.00 0.00 3.61
2407 2630 9.817809 CTAAGTTGACAAATATAGTAGCCAAGA 57.182 33.333 0.00 0.00 0.00 3.02
2409 2632 9.515226 AAGTTGACAAATATAGTAGCCAAGAAA 57.485 29.630 0.00 0.00 0.00 2.52
2410 2633 9.686683 AGTTGACAAATATAGTAGCCAAGAAAT 57.313 29.630 0.00 0.00 0.00 2.17
2452 2681 4.574599 AGCCAAGAAATTCTGTGTGAAC 57.425 40.909 0.00 0.00 37.52 3.18
2459 2688 4.216257 AGAAATTCTGTGTGAACGGGAATG 59.784 41.667 0.00 0.00 37.52 2.67
2460 2689 2.920724 TTCTGTGTGAACGGGAATGA 57.079 45.000 0.00 0.00 0.00 2.57
2461 2690 2.920724 TCTGTGTGAACGGGAATGAA 57.079 45.000 0.00 0.00 0.00 2.57
2462 2691 2.489971 TCTGTGTGAACGGGAATGAAC 58.510 47.619 0.00 0.00 0.00 3.18
2463 2692 2.158885 TCTGTGTGAACGGGAATGAACA 60.159 45.455 0.00 0.00 0.00 3.18
2464 2693 2.813754 CTGTGTGAACGGGAATGAACAT 59.186 45.455 0.00 0.00 0.00 2.71
2465 2694 3.218453 TGTGTGAACGGGAATGAACATT 58.782 40.909 0.00 0.00 0.00 2.71
2466 2695 3.634448 TGTGTGAACGGGAATGAACATTT 59.366 39.130 1.56 0.00 0.00 2.32
2516 2767 4.331992 ACATTTTGATGAGATGAGCGACAG 59.668 41.667 0.00 0.00 0.00 3.51
2797 3049 6.951198 ACCAATCCAATCCTGTAAATACACAA 59.049 34.615 0.00 0.00 31.93 3.33
2843 3095 9.502035 AATTATATTATACTCCCTTCATCCGGA 57.498 33.333 6.61 6.61 0.00 5.14
2844 3096 8.904648 TTATATTATACTCCCTTCATCCGGAA 57.095 34.615 9.01 0.00 0.00 4.30
2845 3097 7.808279 ATATTATACTCCCTTCATCCGGAAA 57.192 36.000 9.01 0.00 34.44 3.13
2846 3098 6.704056 ATTATACTCCCTTCATCCGGAAAT 57.296 37.500 9.01 0.00 34.44 2.17
2847 3099 7.808279 ATTATACTCCCTTCATCCGGAAATA 57.192 36.000 9.01 0.00 34.44 1.40
2848 3100 3.840124 ACTCCCTTCATCCGGAAATAC 57.160 47.619 9.01 0.00 34.44 1.89
2849 3101 3.385115 ACTCCCTTCATCCGGAAATACT 58.615 45.455 9.01 0.00 34.44 2.12
2850 3102 3.780850 ACTCCCTTCATCCGGAAATACTT 59.219 43.478 9.01 0.00 34.44 2.24
2851 3103 4.130118 CTCCCTTCATCCGGAAATACTTG 58.870 47.826 9.01 0.00 34.44 3.16
2852 3104 3.521937 TCCCTTCATCCGGAAATACTTGT 59.478 43.478 9.01 0.00 34.44 3.16
2853 3105 4.717778 TCCCTTCATCCGGAAATACTTGTA 59.282 41.667 9.01 0.00 34.44 2.41
2854 3106 5.190132 TCCCTTCATCCGGAAATACTTGTAA 59.810 40.000 9.01 0.00 34.44 2.41
2855 3107 6.062095 CCCTTCATCCGGAAATACTTGTAAT 58.938 40.000 9.01 0.00 34.44 1.89
2856 3108 6.204882 CCCTTCATCCGGAAATACTTGTAATC 59.795 42.308 9.01 0.00 34.44 1.75
2857 3109 6.765989 CCTTCATCCGGAAATACTTGTAATCA 59.234 38.462 9.01 0.00 34.44 2.57
2858 3110 7.282224 CCTTCATCCGGAAATACTTGTAATCAA 59.718 37.037 9.01 0.00 34.44 2.57
2859 3111 8.568676 TTCATCCGGAAATACTTGTAATCAAA 57.431 30.769 9.01 0.00 30.55 2.69
2860 3112 8.568676 TCATCCGGAAATACTTGTAATCAAAA 57.431 30.769 9.01 0.00 32.87 2.44
2861 3113 9.184523 TCATCCGGAAATACTTGTAATCAAAAT 57.815 29.630 9.01 0.00 32.87 1.82
2862 3114 9.236691 CATCCGGAAATACTTGTAATCAAAATG 57.763 33.333 9.01 0.00 32.87 2.32
2863 3115 8.568676 TCCGGAAATACTTGTAATCAAAATGA 57.431 30.769 0.00 0.00 32.87 2.57
2864 3116 9.015367 TCCGGAAATACTTGTAATCAAAATGAA 57.985 29.630 0.00 0.00 32.87 2.57
2865 3117 9.801873 CCGGAAATACTTGTAATCAAAATGAAT 57.198 29.630 0.00 0.00 32.87 2.57
2873 3125 9.942850 ACTTGTAATCAAAATGAATAAAAGGGG 57.057 29.630 9.18 0.00 33.43 4.79
2881 3133 9.713684 TCAAAATGAATAAAAGGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
2887 3139 9.170890 TGAATAAAAGGGGATGTATCTAGATGT 57.829 33.333 15.79 1.25 0.00 3.06
2940 3192 8.915871 ATCCATTTTGATGACAACTATTTTCG 57.084 30.769 0.00 0.00 35.63 3.46
2941 3193 7.312154 TCCATTTTGATGACAACTATTTTCGG 58.688 34.615 0.00 0.00 35.63 4.30
2942 3194 7.175816 TCCATTTTGATGACAACTATTTTCGGA 59.824 33.333 0.00 0.00 35.63 4.55
2943 3195 7.273381 CCATTTTGATGACAACTATTTTCGGAC 59.727 37.037 0.00 0.00 35.63 4.79
2944 3196 5.873179 TTGATGACAACTATTTTCGGACC 57.127 39.130 0.00 0.00 0.00 4.46
2945 3197 3.930229 TGATGACAACTATTTTCGGACCG 59.070 43.478 7.84 7.84 0.00 4.79
2946 3198 3.663995 TGACAACTATTTTCGGACCGA 57.336 42.857 13.88 13.88 0.00 4.69
2947 3199 3.581755 TGACAACTATTTTCGGACCGAG 58.418 45.455 17.51 7.62 37.14 4.63
2948 3200 2.928116 GACAACTATTTTCGGACCGAGG 59.072 50.000 17.51 8.68 37.14 4.63
2949 3201 2.564062 ACAACTATTTTCGGACCGAGGA 59.436 45.455 17.51 10.11 37.14 3.71
2950 3202 3.187700 CAACTATTTTCGGACCGAGGAG 58.812 50.000 17.51 14.33 37.14 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
90 94 1.140816 GCTGGTGACGAAACACTCTC 58.859 55.000 0.00 0.00 40.22 3.20
280 284 6.175003 TGCTAGGGGTATTAGGTATGGTAT 57.825 41.667 0.00 0.00 0.00 2.73
309 313 8.348354 TGGGGGTACTTTTTCCAATCTTTATAT 58.652 33.333 0.00 0.00 0.00 0.86
314 318 4.479156 TGGGGGTACTTTTTCCAATCTT 57.521 40.909 0.00 0.00 0.00 2.40
322 326 6.981737 AGATAATAGCTTGGGGGTACTTTTT 58.018 36.000 0.00 0.00 0.00 1.94
331 335 5.310409 TCCTTTGAGATAATAGCTTGGGG 57.690 43.478 0.00 0.00 0.00 4.96
388 584 5.008217 TGTTGTTCAGGTGCAATGTACTTAC 59.992 40.000 0.87 8.84 0.00 2.34
972 1190 1.520342 GCAGGAGTCGATGTCTGCC 60.520 63.158 19.37 7.56 44.70 4.85
979 1197 2.125912 GTGCACGCAGGAGTCGAT 60.126 61.111 0.00 0.00 0.00 3.59
1419 1640 1.292941 CCTCCTCCTCCTCCTCCTCA 61.293 65.000 0.00 0.00 0.00 3.86
1642 1863 1.583495 TTGCTCGAGTCCGTGACGAT 61.583 55.000 15.13 0.00 37.67 3.73
1867 2088 3.197790 GTCGCACGCTGCATGGAT 61.198 61.111 0.00 0.00 45.36 3.41
1986 2207 1.761784 GGATCCTGAGTGTCTCATGCT 59.238 52.381 3.84 0.00 39.92 3.79
2004 2225 4.656117 TTTCGCACGCAGCTCGGA 62.656 61.111 9.75 0.00 43.86 4.55
2007 2229 2.770587 CTTGGTTTCGCACGCAGCTC 62.771 60.000 0.00 0.00 42.61 4.09
2011 2233 2.712539 CACTTGGTTTCGCACGCA 59.287 55.556 0.00 0.00 0.00 5.24
2023 2245 5.295292 CCTTAATCTATGACCTGTGCACTTG 59.705 44.000 19.41 11.38 0.00 3.16
2031 2253 5.371526 ACATGCACCTTAATCTATGACCTG 58.628 41.667 0.00 0.00 0.00 4.00
2071 2293 5.938125 ACTAAACATGCACCTTAACCTAGTG 59.062 40.000 0.00 0.00 34.58 2.74
2127 2349 0.248289 CCATGCAGGCTTCCCAAAAG 59.752 55.000 0.00 0.00 0.00 2.27
2190 2412 3.119990 ACACGTCATATTTTTCCCTTGCG 60.120 43.478 0.00 0.00 0.00 4.85
2218 2440 1.815003 CCAGGAGAAGTGCAATTCACC 59.185 52.381 28.70 28.70 46.81 4.02
2230 2452 0.318441 CTCAGAACACGCCAGGAGAA 59.682 55.000 0.00 0.00 0.00 2.87
2234 2456 0.459237 CTAGCTCAGAACACGCCAGG 60.459 60.000 0.00 0.00 0.00 4.45
2239 2461 1.623359 GCTCACTAGCTCAGAACACG 58.377 55.000 0.00 0.00 45.85 4.49
2271 2493 5.895534 AGGCAATCACCAGTCATTATCAAAT 59.104 36.000 0.00 0.00 0.00 2.32
2299 2522 0.982852 TCCTGCCCTGTCCCTACATG 60.983 60.000 0.00 0.00 34.37 3.21
2323 2546 2.027192 CCAGTCTGTGGCTAGGCTTTTA 60.027 50.000 18.18 0.00 40.39 1.52
2381 2604 9.817809 TCTTGGCTACTATATTTGTCAACTTAG 57.182 33.333 0.00 0.00 0.00 2.18
2383 2606 9.515226 TTTCTTGGCTACTATATTTGTCAACTT 57.485 29.630 0.00 0.00 0.00 2.66
2384 2607 9.686683 ATTTCTTGGCTACTATATTTGTCAACT 57.313 29.630 0.00 0.00 0.00 3.16
2387 2610 9.905713 AGAATTTCTTGGCTACTATATTTGTCA 57.094 29.630 0.00 0.00 0.00 3.58
2395 2618 9.384764 GTCAACTTAGAATTTCTTGGCTACTAT 57.615 33.333 3.86 0.00 0.00 2.12
2396 2619 8.372459 TGTCAACTTAGAATTTCTTGGCTACTA 58.628 33.333 3.86 0.00 0.00 1.82
2397 2620 7.224297 TGTCAACTTAGAATTTCTTGGCTACT 58.776 34.615 3.86 0.00 0.00 2.57
2398 2621 7.435068 TGTCAACTTAGAATTTCTTGGCTAC 57.565 36.000 3.86 0.00 0.00 3.58
2399 2622 8.458573 TTTGTCAACTTAGAATTTCTTGGCTA 57.541 30.769 3.86 0.00 0.00 3.93
2400 2623 6.959639 TTGTCAACTTAGAATTTCTTGGCT 57.040 33.333 3.86 0.00 0.00 4.75
2401 2624 9.860898 ATATTTGTCAACTTAGAATTTCTTGGC 57.139 29.630 3.86 0.00 0.00 4.52
2411 2634 9.817809 CTTGGCTACTATATTTGTCAACTTAGA 57.182 33.333 0.00 0.00 0.00 2.10
2452 2681 3.761752 ACAGGGTAAAATGTTCATTCCCG 59.238 43.478 12.17 10.45 38.52 5.14
2481 2732 7.657336 TCTCATCAAAATGTTTGTTAACTCCC 58.343 34.615 7.22 0.00 35.24 4.30
2516 2767 2.800096 CACGCATTGCAACTGAACC 58.200 52.632 0.00 0.00 0.00 3.62
2761 3013 7.673926 ACAGGATTGGATTGGTTGTTATACTTT 59.326 33.333 0.00 0.00 0.00 2.66
2823 3075 6.704056 ATTTCCGGATGAAGGGAGTATAAT 57.296 37.500 4.15 0.00 33.63 1.28
2824 3076 6.785963 AGTATTTCCGGATGAAGGGAGTATAA 59.214 38.462 4.15 0.00 33.63 0.98
2826 3078 5.155905 AGTATTTCCGGATGAAGGGAGTAT 58.844 41.667 4.15 0.00 33.63 2.12
2827 3079 4.553678 AGTATTTCCGGATGAAGGGAGTA 58.446 43.478 4.15 0.00 33.63 2.59
2828 3080 3.385115 AGTATTTCCGGATGAAGGGAGT 58.615 45.455 4.15 0.00 33.63 3.85
2829 3081 4.130118 CAAGTATTTCCGGATGAAGGGAG 58.870 47.826 4.15 0.00 33.63 4.30
2830 3082 3.521937 ACAAGTATTTCCGGATGAAGGGA 59.478 43.478 4.15 0.00 33.63 4.20
2831 3083 3.886123 ACAAGTATTTCCGGATGAAGGG 58.114 45.455 4.15 0.00 33.63 3.95
2832 3084 6.765989 TGATTACAAGTATTTCCGGATGAAGG 59.234 38.462 4.15 0.00 33.63 3.46
2833 3085 7.786178 TGATTACAAGTATTTCCGGATGAAG 57.214 36.000 4.15 0.00 33.63 3.02
2834 3086 8.568676 TTTGATTACAAGTATTTCCGGATGAA 57.431 30.769 4.15 0.00 37.32 2.57
2835 3087 8.568676 TTTTGATTACAAGTATTTCCGGATGA 57.431 30.769 4.15 0.00 37.32 2.92
2836 3088 9.236691 CATTTTGATTACAAGTATTTCCGGATG 57.763 33.333 4.15 0.97 37.32 3.51
2837 3089 9.184523 TCATTTTGATTACAAGTATTTCCGGAT 57.815 29.630 4.15 0.00 37.32 4.18
2838 3090 8.568676 TCATTTTGATTACAAGTATTTCCGGA 57.431 30.769 0.00 0.00 37.32 5.14
2839 3091 9.801873 ATTCATTTTGATTACAAGTATTTCCGG 57.198 29.630 0.00 0.00 37.32 5.14
2847 3099 9.942850 CCCCTTTTATTCATTTTGATTACAAGT 57.057 29.630 0.00 0.00 37.32 3.16
2855 3107 9.713684 AGATACATCCCCTTTTATTCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
2861 3113 9.170890 ACATCTAGATACATCCCCTTTTATTCA 57.829 33.333 4.54 0.00 0.00 2.57
2915 3167 7.975616 CCGAAAATAGTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 35.20 3.41
2916 3168 7.175816 TCCGAAAATAGTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 35.20 3.41
2917 3169 7.273381 GTCCGAAAATAGTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 35.20 3.16
2918 3170 7.273381 GGTCCGAAAATAGTTGTCATCAAAATG 59.727 37.037 0.00 0.00 35.20 2.32
2919 3171 7.312899 GGTCCGAAAATAGTTGTCATCAAAAT 58.687 34.615 0.00 0.00 35.20 1.82
2920 3172 6.566942 CGGTCCGAAAATAGTTGTCATCAAAA 60.567 38.462 4.91 0.00 35.20 2.44
2921 3173 5.106869 CGGTCCGAAAATAGTTGTCATCAAA 60.107 40.000 4.91 0.00 35.20 2.69
2922 3174 4.390603 CGGTCCGAAAATAGTTGTCATCAA 59.609 41.667 4.91 0.00 0.00 2.57
2923 3175 3.930229 CGGTCCGAAAATAGTTGTCATCA 59.070 43.478 4.91 0.00 0.00 3.07
2924 3176 4.178540 TCGGTCCGAAAATAGTTGTCATC 58.821 43.478 12.68 0.00 31.06 2.92
2925 3177 4.181578 CTCGGTCCGAAAATAGTTGTCAT 58.818 43.478 16.23 0.00 34.74 3.06
2926 3178 3.581755 CTCGGTCCGAAAATAGTTGTCA 58.418 45.455 16.23 0.00 34.74 3.58
2927 3179 2.928116 CCTCGGTCCGAAAATAGTTGTC 59.072 50.000 16.23 0.00 34.74 3.18
2928 3180 2.564062 TCCTCGGTCCGAAAATAGTTGT 59.436 45.455 16.23 0.00 34.74 3.32
2929 3181 3.187700 CTCCTCGGTCCGAAAATAGTTG 58.812 50.000 16.23 0.47 34.74 3.16
2930 3182 2.830321 ACTCCTCGGTCCGAAAATAGTT 59.170 45.455 16.23 0.00 34.74 2.24
2931 3183 2.454538 ACTCCTCGGTCCGAAAATAGT 58.545 47.619 16.23 12.58 34.74 2.12
2932 3184 3.243334 GGTACTCCTCGGTCCGAAAATAG 60.243 52.174 16.23 11.97 34.74 1.73
2933 3185 2.689983 GGTACTCCTCGGTCCGAAAATA 59.310 50.000 16.23 2.96 34.74 1.40
2934 3186 1.479730 GGTACTCCTCGGTCCGAAAAT 59.520 52.381 16.23 3.95 34.74 1.82
2935 3187 0.890683 GGTACTCCTCGGTCCGAAAA 59.109 55.000 16.23 5.27 34.74 2.29
2936 3188 0.251297 TGGTACTCCTCGGTCCGAAA 60.251 55.000 16.23 5.65 34.74 3.46
2937 3189 0.251297 TTGGTACTCCTCGGTCCGAA 60.251 55.000 16.23 0.00 34.74 4.30
2938 3190 0.251297 TTTGGTACTCCTCGGTCCGA 60.251 55.000 14.54 14.54 34.23 4.55
2939 3191 0.172803 CTTTGGTACTCCTCGGTCCG 59.827 60.000 4.39 4.39 34.23 4.79
2940 3192 1.264295 ACTTTGGTACTCCTCGGTCC 58.736 55.000 0.00 0.00 34.23 4.46
2941 3193 3.243002 CGATACTTTGGTACTCCTCGGTC 60.243 52.174 0.00 0.00 34.23 4.79
2942 3194 2.686915 CGATACTTTGGTACTCCTCGGT 59.313 50.000 0.00 0.00 34.23 4.69
2943 3195 2.686915 ACGATACTTTGGTACTCCTCGG 59.313 50.000 0.00 0.00 33.58 4.63
2944 3196 3.128242 ACACGATACTTTGGTACTCCTCG 59.872 47.826 0.00 0.00 34.70 4.63
2945 3197 4.715527 ACACGATACTTTGGTACTCCTC 57.284 45.455 0.00 0.00 34.23 3.71
2946 3198 5.713861 ACTAACACGATACTTTGGTACTCCT 59.286 40.000 0.00 0.00 34.23 3.69
2947 3199 5.958955 ACTAACACGATACTTTGGTACTCC 58.041 41.667 0.00 0.00 0.00 3.85
2948 3200 6.529477 GGAACTAACACGATACTTTGGTACTC 59.471 42.308 0.00 0.00 0.00 2.59
2949 3201 6.015180 TGGAACTAACACGATACTTTGGTACT 60.015 38.462 0.00 0.00 0.00 2.73
2950 3202 6.158598 TGGAACTAACACGATACTTTGGTAC 58.841 40.000 0.00 0.00 0.00 3.34


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

AutoCloner maintained by Alex Coulton.