AutoCloner

Multiple sequence alignment - TraesCS2B01G129000

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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	TraesCS2B01G129000	chr2B	100.000	2534	0	0	1	2534	96260381	96262914	0.000000e+00	4680.0
1	TraesCS2B01G129000	chr2B	93.831	697	23	1	625	1301	96150895	96151591	0.000000e+00	1031.0
2	TraesCS2B01G129000	chr2B	93.262	564	28	6	7	568	96150129	96150684	0.000000e+00	822.0
3	TraesCS2B01G129000	chr2B	87.224	634	58	8	1296	1926	96218121	96218734	0.000000e+00	701.0
4	TraesCS2B01G129000	chr2B	80.556	540	32	24	1915	2418	96227415	96227917	5.190000e-92	348.0
5	TraesCS2B01G129000	chr2D	89.730	1558	113	24	893	2418	61759713	61761255	0.000000e+00	1947.0
6	TraesCS2B01G129000	chr2D	88.870	584	32	12	419	976	61373290	61373866	0.000000e+00	688.0
7	TraesCS2B01G129000	chr2D	90.080	373	28	8	12	378	61372926	61373295	2.280000e-130	475.0
8	TraesCS2B01G129000	chr2D	87.569	362	35	7	1844	2200	61449488	61449844	6.520000e-111	411.0
9	TraesCS2B01G129000	chr2D	93.182	176	12	0	969	1144	61448910	61449085	2.500000e-65	259.0
10	TraesCS2B01G129000	chr2D	94.505	91	4	1	2445	2534	424682137	424682227	3.400000e-29	139.0
11	TraesCS2B01G129000	chr2D	80.870	115	20	2	144	256	25850148	25850262	3.470000e-14	89.8
12	TraesCS2B01G129000	chr2A	88.889	1422	105	26	379	1762	61975729	61977135	0.000000e+00	1701.0
13	TraesCS2B01G129000	chr2A	91.389	929	59	7	892	1805	62099931	62100853	0.000000e+00	1253.0
14	TraesCS2B01G129000	chr2A	86.197	710	37	22	1758	2417	62015744	62016442	0.000000e+00	712.0
15	TraesCS2B01G129000	chr2A	91.241	274	12	4	1875	2141	62100880	62101148	1.850000e-96	363.0
16	TraesCS2B01G129000	chr2A	85.333	75	10	1	213	286	774858182	774858108	2.700000e-10	76.8
17	TraesCS2B01G129000	chr1A	94.565	92	4	1	2444	2534	589653961	589653870	9.450000e-30	141.0
18	TraesCS2B01G129000	chrUn	94.505	91	4	1	2445	2534	46198772	46198682	3.400000e-29	139.0
19	TraesCS2B01G129000	chr7B	94.505	91	4	1	2445	2534	73483592	73483682	3.400000e-29	139.0
20	TraesCS2B01G129000	chr7B	94.505	91	3	2	2445	2534	147601963	147601874	3.400000e-29	139.0
21	TraesCS2B01G129000	chr7B	85.246	61	9	0	360	420	94580873	94580813	2.100000e-06	63.9
22	TraesCS2B01G129000	chr6B	94.444	90	5	0	2445	2534	94143145	94143056	3.400000e-29	139.0
23	TraesCS2B01G129000	chr5D	94.444	90	5	0	2445	2534	24884235	24884324	3.400000e-29	139.0
24	TraesCS2B01G129000	chr5D	91.667	60	3	2	505	563	541941703	541941761	5.810000e-12	82.4
25	TraesCS2B01G129000	chr4D	94.505	91	4	1	2445	2534	342521114	342521204	3.400000e-29	139.0
26	TraesCS2B01G129000	chr4D	84.043	94	14	1	357	449	469168065	469168158	3.470000e-14	89.8
27	TraesCS2B01G129000	chr4A	94.505	91	4	1	2445	2534	618921519	618921609	3.400000e-29	139.0
28	TraesCS2B01G129000	chr4A	80.000	90	17	1	360	449	2552895	2552807	5.850000e-07	65.8
29	TraesCS2B01G129000	chr7D	89.744	78	7	1	495	571	474408968	474408891	5.770000e-17	99.0
30	TraesCS2B01G129000	chr7D	87.324	71	9	0	505	575	64744389	64744459	5.810000e-12	82.4
31	TraesCS2B01G129000	chr3A	88.406	69	8	0	510	578	63031396	63031328	1.620000e-12	84.2
32	TraesCS2B01G129000	chr6A	88.235	68	8	0	508	575	598640810	598640743	5.810000e-12	82.4
33	TraesCS2B01G129000	chr6A	94.595	37	2	0	353	389	459598252	459598216	9.790000e-05	58.4
34	TraesCS2B01G129000	chr7A	88.060	67	7	1	509	575	84029431	84029366	7.520000e-11	78.7
35	TraesCS2B01G129000	chr6D	88.889	63	7	0	360	422	393415822	393415760	7.520000e-11	78.7
36	TraesCS2B01G129000	chr6D	85.938	64	9	0	361	424	15814637	15814700	4.520000e-08	69.4
37	TraesCS2B01G129000	chr3D	86.957	69	9	0	504	572	33207974	33207906	7.520000e-11	78.7

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	TraesCS2B01G129000	chr2B	96260381	96262914	2533	False	4680.0	4680	100.0000	1	2534	1	chr2B.!!$F3	2533
1	TraesCS2B01G129000	chr2B	96150129	96151591	1462	False	926.5	1031	93.5465	7	1301	2	chr2B.!!$F4	1294
2	TraesCS2B01G129000	chr2B	96218121	96218734	613	False	701.0	701	87.2240	1296	1926	1	chr2B.!!$F1	630
3	TraesCS2B01G129000	chr2B	96227415	96227917	502	False	348.0	348	80.5560	1915	2418	1	chr2B.!!$F2	503
4	TraesCS2B01G129000	chr2D	61759713	61761255	1542	False	1947.0	1947	89.7300	893	2418	1	chr2D.!!$F2	1525
5	TraesCS2B01G129000	chr2D	61372926	61373866	940	False	581.5	688	89.4750	12	976	2	chr2D.!!$F4	964
6	TraesCS2B01G129000	chr2D	61448910	61449844	934	False	335.0	411	90.3755	969	2200	2	chr2D.!!$F5	1231
7	TraesCS2B01G129000	chr2A	61975729	61977135	1406	False	1701.0	1701	88.8890	379	1762	1	chr2A.!!$F1	1383
8	TraesCS2B01G129000	chr2A	62099931	62101148	1217	False	808.0	1253	91.3150	892	2141	2	chr2A.!!$F3	1249
9	TraesCS2B01G129000	chr2A	62015744	62016442	698	False	712.0	712	86.1970	1758	2417	1	chr2A.!!$F2	659

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
779	947	0.391793	GGAGGGAGAAAAGGCGTCAG	60.392	60.0	0.0	0.0	0.0	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2450	2938	0.104934	AAGGGTGACACAGGAGGAGT	60.105	55.0	8.08	0.0	0.0	3.85	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
180	185	3.810373	CACAGTTATGCCTCACGAAAAC	58.190	45.455	0.00	0.00	0.00	2.43
183	188	1.129811	GTTATGCCTCACGAAAACGGG	59.870	52.381	0.00	0.00	0.00	5.28
195	200	4.327627	CACGAAAACGGGAAAACACATTTT	59.672	37.500	0.00	0.00	40.83	1.82
298	305	8.683774	CGAAAAAGGAAAAATGCATTTGATTTG	58.316	29.630	24.74	11.70	0.00	2.32
435	442	3.604582	GAGAAGCACAACTATGCCTCTT	58.395	45.455	0.72	0.00	44.61	2.85
477	488	0.467290	AAAACCTGCTTTCGGCTCCA	60.467	50.000	0.00	0.00	42.39	3.86
779	947	0.391793	GGAGGGAGAAAAGGCGTCAG	60.392	60.000	0.00	0.00	0.00	3.51
1507	1711	0.535780	ACCTGTACCTGACGACGACA	60.536	55.000	0.00	0.00	0.00	4.35
1509	1713	1.665161	CCTGTACCTGACGACGACAAC	60.665	57.143	0.00	0.00	0.00	3.32
1510	1714	0.311790	TGTACCTGACGACGACAACC	59.688	55.000	0.00	0.00	0.00	3.77
1511	1715	0.311790	GTACCTGACGACGACAACCA	59.688	55.000	0.00	0.00	0.00	3.67
1512	1716	0.311790	TACCTGACGACGACAACCAC	59.688	55.000	0.00	0.00	0.00	4.16
1529	1733	0.389948	CACGACGAGGAAAAGGAGGG	60.390	60.000	0.00	0.00	0.00	4.30
1530	1734	1.218316	CGACGAGGAAAAGGAGGGG	59.782	63.158	0.00	0.00	0.00	4.79
1643	1850	4.821589	GACGGCAGGAGAAGCGGG	62.822	72.222	0.00	0.00	36.73	6.13
1729	2119	0.884704	GCCGCACAAAGACAAGGAGA	60.885	55.000	0.00	0.00	0.00	3.71
1743	2133	3.371063	GAGAGGCCGTCGTCACCA	61.371	66.667	0.00	0.00	0.00	4.17
1879	2283	0.170561	AGTGATGAGCGTCCGTGTAC	59.829	55.000	0.00	0.00	0.00	2.90
1952	2359	3.513119	TGCACCAAATTAAAGCTGGCATA	59.487	39.130	0.00	0.00	33.19	3.14
1953	2360	4.161942	TGCACCAAATTAAAGCTGGCATAT	59.838	37.500	0.00	0.00	33.19	1.78
2020	2445	4.065281	GCAGGCAGGCTGGCAAAG	62.065	66.667	37.80	27.68	46.46	2.77
2021	2446	2.599578	CAGGCAGGCTGGCAAAGT	60.600	61.111	37.80	18.45	46.46	2.66
2061	2489	6.255453	ACAAACATGAACCGTTTCAATTTCAG	59.745	34.615	0.00	0.00	45.01	3.02
2072	2500	7.440856	ACCGTTTCAATTTCAGTTGCATTAATT	59.559	29.630	0.00	0.00	0.00	1.40
2073	2501	8.281893	CCGTTTCAATTTCAGTTGCATTAATTT	58.718	29.630	0.00	0.00	0.00	1.82
2097	2527	4.134379	TGCAACAACACCACATCAAATT	57.866	36.364	0.00	0.00	0.00	1.82
2205	2657	1.053048	CTGTACTGAAGACACACGCG	58.947	55.000	3.53	3.53	0.00	6.01
2222	2699	2.502510	GCACGCGAACAATGCCAG	60.503	61.111	15.93	0.00	33.06	4.85
2268	2751	1.273327	CTGAATGAACCCTGCAAACCC	59.727	52.381	0.00	0.00	0.00	4.11
2269	2752	0.608130	GAATGAACCCTGCAAACCCC	59.392	55.000	0.00	0.00	0.00	4.95
2330	2813	3.093814	TGTCAATTACACCGAGCCTCTA	58.906	45.455	0.00	0.00	31.43	2.43
2334	2817	0.806868	TTACACCGAGCCTCTACACG	59.193	55.000	0.00	0.00	0.00	4.49
2349	2832	5.522460	CCTCTACACGAAACTGACTCAAAAA	59.478	40.000	0.00	0.00	0.00	1.94
2361	2844	6.049790	ACTGACTCAAAAACTACTCAAGACC	58.950	40.000	0.00	0.00	0.00	3.85
2386	2870	4.156922	CGAGGGCACATAACCAAATTGTTA	59.843	41.667	0.00	0.00	35.33	2.41
2418	2906	5.010282	AGAAAAAGTGACCAACAGAACAGT	58.990	37.500	0.00	0.00	0.00	3.55
2419	2907	5.476945	AGAAAAAGTGACCAACAGAACAGTT	59.523	36.000	0.00	0.00	0.00	3.16
2420	2908	4.701956	AAAGTGACCAACAGAACAGTTG	57.298	40.909	0.00	0.00	46.44	3.16
2421	2909	3.350219	AGTGACCAACAGAACAGTTGT	57.650	42.857	8.70	0.00	45.66	3.32
2422	2910	4.481368	AGTGACCAACAGAACAGTTGTA	57.519	40.909	8.70	0.00	45.66	2.41
2423	2911	4.442706	AGTGACCAACAGAACAGTTGTAG	58.557	43.478	8.70	0.00	45.66	2.74
2424	2912	4.081087	AGTGACCAACAGAACAGTTGTAGT	60.081	41.667	8.70	1.96	45.66	2.73
2425	2913	4.034048	GTGACCAACAGAACAGTTGTAGTG	59.966	45.833	8.70	0.00	45.66	2.74
2426	2914	4.081365	TGACCAACAGAACAGTTGTAGTGA	60.081	41.667	8.70	0.00	45.66	3.41
2427	2915	5.036117	ACCAACAGAACAGTTGTAGTGAT	57.964	39.130	8.70	0.00	45.66	3.06
2428	2916	5.057149	ACCAACAGAACAGTTGTAGTGATC	58.943	41.667	8.70	0.00	45.66	2.92
2429	2917	5.163301	ACCAACAGAACAGTTGTAGTGATCT	60.163	40.000	8.70	0.00	45.66	2.75
2432	2920	5.835911	CAGAACAGTTGTAGTGATCTGTG	57.164	43.478	11.48	0.00	41.05	3.66
2433	2921	5.292765	CAGAACAGTTGTAGTGATCTGTGT	58.707	41.667	11.48	0.00	41.05	3.72
2434	2922	6.447162	CAGAACAGTTGTAGTGATCTGTGTA	58.553	40.000	11.48	0.00	41.05	2.90
2435	2923	6.584184	CAGAACAGTTGTAGTGATCTGTGTAG	59.416	42.308	11.48	0.00	41.05	2.74
2436	2924	5.392767	ACAGTTGTAGTGATCTGTGTAGG	57.607	43.478	0.00	0.00	39.27	3.18
2437	2925	4.177026	CAGTTGTAGTGATCTGTGTAGGC	58.823	47.826	0.00	0.00	0.00	3.93
2438	2926	3.832490	AGTTGTAGTGATCTGTGTAGGCA	59.168	43.478	0.00	0.00	0.00	4.75
2439	2927	4.081972	AGTTGTAGTGATCTGTGTAGGCAG	60.082	45.833	0.00	0.00	37.81	4.85
2440	2928	2.166459	TGTAGTGATCTGTGTAGGCAGC	59.834	50.000	0.00	0.00	36.49	5.25
2441	2929	0.174389	AGTGATCTGTGTAGGCAGCG	59.826	55.000	0.00	0.00	36.49	5.18
2442	2930	0.807667	GTGATCTGTGTAGGCAGCGG	60.808	60.000	0.00	0.00	36.49	5.52
2443	2931	1.227380	GATCTGTGTAGGCAGCGGG	60.227	63.158	0.00	0.00	36.49	6.13
2444	2932	3.391665	ATCTGTGTAGGCAGCGGGC	62.392	63.158	1.08	1.08	43.74	6.13
2458	2946	4.467107	GGGCTCCCGACTCCTCCT	62.467	72.222	0.00	0.00	0.00	3.69
2459	2947	3.151022	GGCTCCCGACTCCTCCTG	61.151	72.222	0.00	0.00	0.00	3.86
2460	2948	2.363147	GCTCCCGACTCCTCCTGT	60.363	66.667	0.00	0.00	0.00	4.00
2461	2949	2.716017	GCTCCCGACTCCTCCTGTG	61.716	68.421	0.00	0.00	0.00	3.66
2462	2950	1.304547	CTCCCGACTCCTCCTGTGT	60.305	63.158	0.00	0.00	0.00	3.72
2463	2951	1.304217	TCCCGACTCCTCCTGTGTC	60.304	63.158	0.00	0.00	34.78	3.67
2464	2952	1.606601	CCCGACTCCTCCTGTGTCA	60.607	63.158	0.00	0.00	37.33	3.58
2465	2953	1.587054	CCGACTCCTCCTGTGTCAC	59.413	63.158	0.00	0.00	37.33	3.67
2466	2954	1.587054	CGACTCCTCCTGTGTCACC	59.413	63.158	0.00	0.00	37.33	4.02
2467	2955	1.878656	CGACTCCTCCTGTGTCACCC	61.879	65.000	0.00	0.00	37.33	4.61
2468	2956	0.543174	GACTCCTCCTGTGTCACCCT	60.543	60.000	0.00	0.00	37.41	4.34
2469	2957	0.104934	ACTCCTCCTGTGTCACCCTT	60.105	55.000	0.00	0.00	0.00	3.95
2470	2958	0.322975	CTCCTCCTGTGTCACCCTTG	59.677	60.000	0.00	0.00	0.00	3.61
2471	2959	1.302832	CCTCCTGTGTCACCCTTGC	60.303	63.158	0.00	0.00	0.00	4.01
2472	2960	1.669115	CTCCTGTGTCACCCTTGCG	60.669	63.158	0.00	0.00	0.00	4.85
2473	2961	3.357079	CCTGTGTCACCCTTGCGC	61.357	66.667	0.00	0.00	0.00	6.09
2474	2962	3.716006	CTGTGTCACCCTTGCGCG	61.716	66.667	0.00	0.00	0.00	6.86
2518	3006	3.519930	GCGTCCTCGTCCCTCCTC	61.520	72.222	0.00	0.00	39.49	3.71
2519	3007	2.829458	CGTCCTCGTCCCTCCTCC	60.829	72.222	0.00	0.00	0.00	4.30
2520	3008	2.829458	GTCCTCGTCCCTCCTCCG	60.829	72.222	0.00	0.00	0.00	4.63
2521	3009	3.013327	TCCTCGTCCCTCCTCCGA	61.013	66.667	0.00	0.00	0.00	4.55
2522	3010	2.829458	CCTCGTCCCTCCTCCGAC	60.829	72.222	0.00	0.00	0.00	4.79
2523	3011	2.829458	CTCGTCCCTCCTCCGACC	60.829	72.222	0.00	0.00	0.00	4.79
2524	3012	3.336568	TCGTCCCTCCTCCGACCT	61.337	66.667	0.00	0.00	0.00	3.85
2525	3013	2.829458	CGTCCCTCCTCCGACCTC	60.829	72.222	0.00	0.00	0.00	3.85
2526	3014	2.684735	GTCCCTCCTCCGACCTCT	59.315	66.667	0.00	0.00	0.00	3.69
2527	3015	1.454295	GTCCCTCCTCCGACCTCTC	60.454	68.421	0.00	0.00	0.00	3.20
2528	3016	2.123640	CCCTCCTCCGACCTCTCC	60.124	72.222	0.00	0.00	0.00	3.71
2529	3017	2.695970	CCCTCCTCCGACCTCTCCT	61.696	68.421	0.00	0.00	0.00	3.69
2530	3018	1.152839	CCTCCTCCGACCTCTCCTC	60.153	68.421	0.00	0.00	0.00	3.71
2531	3019	1.152839	CTCCTCCGACCTCTCCTCC	60.153	68.421	0.00	0.00	0.00	4.30
2532	3020	1.619975	TCCTCCGACCTCTCCTCCT	60.620	63.158	0.00	0.00	0.00	3.69
2533	3021	1.152839	CCTCCGACCTCTCCTCCTC	60.153	68.421	0.00	0.00	0.00	3.71

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
22	23	3.256136	ACCGGGCGAAAATGAAAATGTTA	59.744	39.130	6.32	0.00	0.00	2.41
180	185	6.364976	GTGGAAGAATAAAATGTGTTTTCCCG	59.635	38.462	0.00	0.00	38.44	5.14
183	188	8.073768	TCTCGTGGAAGAATAAAATGTGTTTTC	58.926	33.333	0.00	0.00	38.44	2.29
195	200	6.961360	ATATGTGACTCTCGTGGAAGAATA	57.039	37.500	0.00	0.00	0.00	1.75
298	305	4.474226	AAATCTGTGCTTCTCGTGAAAC	57.526	40.909	1.12	0.00	0.00	2.78
342	349	5.584251	TGGAAGCAAAAGAAACATGTTTTCC	59.416	36.000	24.02	21.81	33.94	3.13
389	396	4.554723	CGGAAGAAAATCTGTGTGTCCAAC	60.555	45.833	0.00	0.00	0.00	3.77
390	397	3.563808	CGGAAGAAAATCTGTGTGTCCAA	59.436	43.478	0.00	0.00	0.00	3.53
435	442	3.052490	TCCCTCACTTTTTCCCCTTTTCA	60.052	43.478	0.00	0.00	0.00	2.69
506	520	9.202273	CTGAAACTAGATCTCATGTTAATAGGC	57.798	37.037	0.00	0.00	0.00	3.93
738	906	4.567327	CCCAGGAATTCTTCTCTTCAAGCT	60.567	45.833	5.23	0.00	0.00	3.74
779	947	6.507023	TCTTTCCAGTTTCATTCTTCTTTGC	58.493	36.000	0.00	0.00	0.00	3.68
861	1029	5.317733	CCGGCTGGTTTTGTAATCAATTA	57.682	39.130	2.29	0.00	33.32	1.40
1270	1459	2.908428	CACCAGCAGCAACAGCCA	60.908	61.111	0.00	0.00	0.00	4.75
1507	1711	0.754472	TCCTTTTCCTCGTCGTGGTT	59.246	50.000	12.76	0.00	0.00	3.67
1509	1713	0.389948	CCTCCTTTTCCTCGTCGTGG	60.390	60.000	7.02	7.02	0.00	4.94
1510	1714	0.389948	CCCTCCTTTTCCTCGTCGTG	60.390	60.000	0.00	0.00	0.00	4.35
1511	1715	1.542187	CCCCTCCTTTTCCTCGTCGT	61.542	60.000	0.00	0.00	0.00	4.34
1512	1716	1.218316	CCCCTCCTTTTCCTCGTCG	59.782	63.158	0.00	0.00	0.00	5.12
1529	1733	0.737715	CTCGGCTGCAACTAGTCACC	60.738	60.000	0.50	0.00	0.00	4.02
1530	1734	0.737715	CCTCGGCTGCAACTAGTCAC	60.738	60.000	0.50	0.00	0.00	3.67
1596	1800	3.997400	CTCCTCCTCCTCGCCGTCA	62.997	68.421	0.00	0.00	0.00	4.35
1600	1804	2.364448	AACCTCCTCCTCCTCGCC	60.364	66.667	0.00	0.00	0.00	5.54
1603	1807	1.484240	CACATCAACCTCCTCCTCCTC	59.516	57.143	0.00	0.00	0.00	3.71
1685	2069	4.787280	CTCCCACCCCGAGGAGCT	62.787	72.222	0.00	0.00	43.11	4.09
1743	2133	4.787280	CCTCCCTCTCCCACCGCT	62.787	72.222	0.00	0.00	0.00	5.52
1952	2359	2.104967	CTGACCAAATGACCATGCCAT	58.895	47.619	0.00	0.00	0.00	4.40
1953	2360	1.075212	TCTGACCAAATGACCATGCCA	59.925	47.619	0.00	0.00	0.00	4.92
2019	2444	1.183030	TGTGCTGGTGGCGTACTACT	61.183	55.000	0.00	0.00	45.43	2.57
2020	2445	0.320073	TTGTGCTGGTGGCGTACTAC	60.320	55.000	0.00	0.00	45.43	2.73
2021	2446	0.393448	TTTGTGCTGGTGGCGTACTA	59.607	50.000	0.00	0.00	45.43	1.82
2072	2500	2.232208	TGATGTGGTGTTGTTGCAACAA	59.768	40.909	35.10	35.10	45.88	2.83
2073	2501	1.821136	TGATGTGGTGTTGTTGCAACA	59.179	42.857	27.96	27.96	37.08	3.33
2090	2518	4.262592	GCCTGTTGAGGTGGAAAATTTGAT	60.263	41.667	0.00	0.00	42.15	2.57
2097	2527	0.178992	CCTGCCTGTTGAGGTGGAAA	60.179	55.000	0.00	0.00	42.15	3.13
2205	2657	2.502510	CTGGCATTGTTCGCGTGC	60.503	61.111	5.77	8.22	38.12	5.34
2236	2713	5.541484	AGGGTTCATTCAGATTGCTCTTTTT	59.459	36.000	0.00	0.00	0.00	1.94
2302	2785	4.631813	GCTCGGTGTAATTGACATCTTCTT	59.368	41.667	0.00	0.00	41.14	2.52
2310	2793	2.674796	AGAGGCTCGGTGTAATTGAC	57.325	50.000	9.22	0.00	0.00	3.18
2330	2813	5.873164	AGTAGTTTTTGAGTCAGTTTCGTGT	59.127	36.000	0.00	0.00	0.00	4.49
2334	2817	8.117370	GTCTTGAGTAGTTTTTGAGTCAGTTTC	58.883	37.037	0.00	0.00	0.00	2.78
2349	2832	1.956159	GCCCTCGAGGTCTTGAGTAGT	60.956	57.143	29.25	0.00	39.04	2.73
2361	2844	2.107950	TTTGGTTATGTGCCCTCGAG	57.892	50.000	5.13	5.13	0.00	4.04
2386	2870	7.213678	TGTTGGTCACTTTTTCTTTCTTTTGT	58.786	30.769	0.00	0.00	0.00	2.83
2396	2880	5.310720	ACTGTTCTGTTGGTCACTTTTTC	57.689	39.130	0.00	0.00	0.00	2.29
2418	2906	3.368427	GCTGCCTACACAGATCACTACAA	60.368	47.826	0.00	0.00	40.25	2.41
2419	2907	2.166459	GCTGCCTACACAGATCACTACA	59.834	50.000	0.00	0.00	40.25	2.74
2420	2908	2.796383	CGCTGCCTACACAGATCACTAC	60.796	54.545	0.00	0.00	40.25	2.73
2421	2909	1.405463	CGCTGCCTACACAGATCACTA	59.595	52.381	0.00	0.00	40.25	2.74
2422	2910	0.174389	CGCTGCCTACACAGATCACT	59.826	55.000	0.00	0.00	40.25	3.41
2423	2911	0.807667	CCGCTGCCTACACAGATCAC	60.808	60.000	0.00	0.00	40.25	3.06
2424	2912	1.517361	CCGCTGCCTACACAGATCA	59.483	57.895	0.00	0.00	40.25	2.92
2425	2913	1.227380	CCCGCTGCCTACACAGATC	60.227	63.158	0.00	0.00	40.25	2.75
2426	2914	2.903357	CCCGCTGCCTACACAGAT	59.097	61.111	0.00	0.00	40.25	2.90
2427	2915	4.082523	GCCCGCTGCCTACACAGA	62.083	66.667	0.00	0.00	40.25	3.41
2428	2916	4.087892	AGCCCGCTGCCTACACAG	62.088	66.667	0.00	0.00	42.71	3.66
2429	2917	4.082523	GAGCCCGCTGCCTACACA	62.083	66.667	0.00	0.00	42.71	3.72
2430	2918	4.840005	GGAGCCCGCTGCCTACAC	62.840	72.222	0.00	0.00	42.71	2.90
2441	2929	4.467107	AGGAGGAGTCGGGAGCCC	62.467	72.222	0.00	0.00	0.00	5.19
2442	2930	3.151022	CAGGAGGAGTCGGGAGCC	61.151	72.222	0.00	0.00	0.00	4.70
2443	2931	2.363147	ACAGGAGGAGTCGGGAGC	60.363	66.667	0.00	0.00	0.00	4.70
2444	2932	1.304547	ACACAGGAGGAGTCGGGAG	60.305	63.158	0.00	0.00	0.00	4.30
2445	2933	1.304217	GACACAGGAGGAGTCGGGA	60.304	63.158	0.00	0.00	0.00	5.14
2446	2934	1.606601	TGACACAGGAGGAGTCGGG	60.607	63.158	0.00	0.00	35.09	5.14
2447	2935	1.587054	GTGACACAGGAGGAGTCGG	59.413	63.158	0.00	0.00	35.09	4.79
2448	2936	1.587054	GGTGACACAGGAGGAGTCG	59.413	63.158	8.08	0.00	35.09	4.18
2449	2937	0.543174	AGGGTGACACAGGAGGAGTC	60.543	60.000	8.08	0.00	0.00	3.36
2450	2938	0.104934	AAGGGTGACACAGGAGGAGT	60.105	55.000	8.08	0.00	0.00	3.85
2451	2939	0.322975	CAAGGGTGACACAGGAGGAG	59.677	60.000	8.08	0.00	0.00	3.69
2452	2940	1.768684	GCAAGGGTGACACAGGAGGA	61.769	60.000	8.08	0.00	0.00	3.71
2453	2941	1.302832	GCAAGGGTGACACAGGAGG	60.303	63.158	8.08	0.00	0.00	4.30
2454	2942	1.669115	CGCAAGGGTGACACAGGAG	60.669	63.158	8.08	0.00	0.00	3.69
2455	2943	2.425592	CGCAAGGGTGACACAGGA	59.574	61.111	8.08	0.00	0.00	3.86
2456	2944	3.357079	GCGCAAGGGTGACACAGG	61.357	66.667	0.30	0.00	38.28	4.00
2457	2945	3.716006	CGCGCAAGGGTGACACAG	61.716	66.667	8.75	0.00	46.48	3.66
2501	2989	3.519930	GAGGAGGGACGAGGACGC	61.520	72.222	0.00	0.00	43.96	5.19
2502	2990	2.829458	GGAGGAGGGACGAGGACG	60.829	72.222	0.00	0.00	45.75	4.79
2503	2991	2.829458	CGGAGGAGGGACGAGGAC	60.829	72.222	0.00	0.00	0.00	3.85
2504	2992	3.013327	TCGGAGGAGGGACGAGGA	61.013	66.667	0.00	0.00	32.29	3.71
2505	2993	2.829458	GTCGGAGGAGGGACGAGG	60.829	72.222	0.00	0.00	37.30	4.63
2506	2994	2.829458	GGTCGGAGGAGGGACGAG	60.829	72.222	0.00	0.00	37.30	4.18
2507	2995	3.336568	AGGTCGGAGGAGGGACGA	61.337	66.667	0.00	0.00	33.99	4.20
2508	2996	2.829458	GAGGTCGGAGGAGGGACG	60.829	72.222	0.00	0.00	33.99	4.79
2509	2997	1.454295	GAGAGGTCGGAGGAGGGAC	60.454	68.421	0.00	0.00	0.00	4.46
2510	2998	2.691779	GGAGAGGTCGGAGGAGGGA	61.692	68.421	0.00	0.00	0.00	4.20
2511	2999	2.123640	GGAGAGGTCGGAGGAGGG	60.124	72.222	0.00	0.00	0.00	4.30
2512	3000	1.152839	GAGGAGAGGTCGGAGGAGG	60.153	68.421	0.00	0.00	0.00	4.30
2513	3001	1.152839	GGAGGAGAGGTCGGAGGAG	60.153	68.421	0.00	0.00	0.00	3.69
2514	3002	1.619975	AGGAGGAGAGGTCGGAGGA	60.620	63.158	0.00	0.00	0.00	3.71
2515	3003	1.152839	GAGGAGGAGAGGTCGGAGG	60.153	68.421	0.00	0.00	0.00	4.30
2516	3004	4.571243	GAGGAGGAGAGGTCGGAG	57.429	66.667	0.00	0.00	0.00	4.63

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.