AutoCloner

Multiple sequence alignment - TraesCS2A01G324100

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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	TraesCS2A01G324100	chr2A	100.000	3092	0	0	1	3092	554427345	554430436	0.000000e+00	5710.0
1	TraesCS2A01G324100	chr2A	92.609	893	53	9	6	893	634094601	634095485	0.000000e+00	1271.0
2	TraesCS2A01G324100	chr2A	91.686	866	57	13	4	860	24526770	24525911	0.000000e+00	1186.0
3	TraesCS2A01G324100	chr2A	91.078	807	39	14	33	833	53592787	53592008	0.000000e+00	1061.0
4	TraesCS2A01G324100	chr2A	76.781	702	113	37	217	893	182295887	182296563	6.350000e-92	348.0
5	TraesCS2A01G324100	chr2D	91.627	1469	80	30	944	2405	432037238	432035806	0.000000e+00	1991.0
6	TraesCS2A01G324100	chr2B	86.510	1364	93	42	933	2271	510799842	510798545	0.000000e+00	1415.0
7	TraesCS2A01G324100	chr2B	87.719	114	6	3	2293	2405	510798421	510798315	3.240000e-25	126.0
8	TraesCS2A01G324100	chr1A	92.546	872	53	9	30	893	108759375	108758508	0.000000e+00	1240.0
9	TraesCS2A01G324100	chr1A	90.990	899	50	14	4	893	128044997	128044121	0.000000e+00	1182.0
10	TraesCS2A01G324100	chr3A	91.109	911	58	11	1	893	734754670	734755575	0.000000e+00	1212.0
11	TraesCS2A01G324100	chr7A	91.995	812	53	8	87	895	610716634	610715832	0.000000e+00	1129.0
12	TraesCS2A01G324100	chrUn	94.986	698	18	4	2409	3092	81473283	81472589	0.000000e+00	1079.0
13	TraesCS2A01G324100	chrUn	100.000	39	0	0	2406	2444	297720572	297720534	4.280000e-09	73.1
14	TraesCS2A01G324100	chr6A	92.297	740	48	7	4	737	496364545	496363809	0.000000e+00	1042.0
15	TraesCS2A01G324100	chr6A	91.304	161	13	1	734	894	496353162	496353003	5.190000e-53	219.0
16	TraesCS2A01G324100	chr5A	95.192	624	18	1	2406	3017	444888593	444889216	0.000000e+00	976.0
17	TraesCS2A01G324100	chr5A	97.674	43	0	1	2401	2443	612787667	612787708	4.280000e-09	73.1
18	TraesCS2A01G324100	chr6B	92.000	700	22	5	2406	3092	2799045	2798367	0.000000e+00	952.0
19	TraesCS2A01G324100	chr6B	83.180	327	37	7	2450	2769	663858241	663857926	1.820000e-72	283.0
20	TraesCS2A01G324100	chr7D	85.620	911	75	23	1	893	602028984	602029856	0.000000e+00	905.0
21	TraesCS2A01G324100	chr7D	80.029	691	95	29	2406	3090	277503225	277503878	3.610000e-129	472.0
22	TraesCS2A01G324100	chr7D	75.622	201	26	10	2682	2868	478314941	478314750	9.190000e-11	78.7
23	TraesCS2A01G324100	chr6D	80.417	623	87	22	2406	3024	428665738	428665147	2.830000e-120	442.0
24	TraesCS2A01G324100	chr4D	86.184	152	16	3	2619	2769	258908886	258908739	3.190000e-35	159.0
25	TraesCS2A01G324100	chr4D	100.000	40	0	0	2405	2444	494058671	494058632	1.190000e-09	75.0
26	TraesCS2A01G324100	chr4B	85.526	152	17	3	2619	2769	235396520	235396373	1.480000e-33	154.0
27	TraesCS2A01G324100	chr3B	100.000	40	0	0	2406	2445	768577601	768577640	1.190000e-09	75.0

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	TraesCS2A01G324100	chr2A	554427345	554430436	3091	False	5710.0	5710	100.0000	1	3092	1	chr2A.!!$F2	3091
1	TraesCS2A01G324100	chr2A	634094601	634095485	884	False	1271.0	1271	92.6090	6	893	1	chr2A.!!$F3	887
2	TraesCS2A01G324100	chr2A	24525911	24526770	859	True	1186.0	1186	91.6860	4	860	1	chr2A.!!$R1	856
3	TraesCS2A01G324100	chr2A	53592008	53592787	779	True	1061.0	1061	91.0780	33	833	1	chr2A.!!$R2	800
4	TraesCS2A01G324100	chr2A	182295887	182296563	676	False	348.0	348	76.7810	217	893	1	chr2A.!!$F1	676
5	TraesCS2A01G324100	chr2D	432035806	432037238	1432	True	1991.0	1991	91.6270	944	2405	1	chr2D.!!$R1	1461
6	TraesCS2A01G324100	chr2B	510798315	510799842	1527	True	770.5	1415	87.1145	933	2405	2	chr2B.!!$R1	1472
7	TraesCS2A01G324100	chr1A	108758508	108759375	867	True	1240.0	1240	92.5460	30	893	1	chr1A.!!$R1	863
8	TraesCS2A01G324100	chr1A	128044121	128044997	876	True	1182.0	1182	90.9900	4	893	1	chr1A.!!$R2	889
9	TraesCS2A01G324100	chr3A	734754670	734755575	905	False	1212.0	1212	91.1090	1	893	1	chr3A.!!$F1	892
10	TraesCS2A01G324100	chr7A	610715832	610716634	802	True	1129.0	1129	91.9950	87	895	1	chr7A.!!$R1	808
11	TraesCS2A01G324100	chrUn	81472589	81473283	694	True	1079.0	1079	94.9860	2409	3092	1	chrUn.!!$R1	683
12	TraesCS2A01G324100	chr6A	496363809	496364545	736	True	1042.0	1042	92.2970	4	737	1	chr6A.!!$R2	733
13	TraesCS2A01G324100	chr5A	444888593	444889216	623	False	976.0	976	95.1920	2406	3017	1	chr5A.!!$F1	611
14	TraesCS2A01G324100	chr6B	2798367	2799045	678	True	952.0	952	92.0000	2406	3092	1	chr6B.!!$R1	686
15	TraesCS2A01G324100	chr7D	602028984	602029856	872	False	905.0	905	85.6200	1	893	1	chr7D.!!$F2	892
16	TraesCS2A01G324100	chr7D	277503225	277503878	653	False	472.0	472	80.0290	2406	3090	1	chr7D.!!$F1	684
17	TraesCS2A01G324100	chr6D	428665147	428665738	591	True	442.0	442	80.4170	2406	3024	1	chr6D.!!$R1	618

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
896	1035	0.398098	CCGGTTAGGAGCTCCCCTAA	60.398	60.0	29.54	18.75	44.21	2.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2121	2291	0.034059	GGCTATCCATCTGTGTCCGG	59.966	60.0	0.0	0.0	0.0	5.14	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
66	73	4.363999	CTGCTAGGATTCGAACCAAGTAG	58.636	47.826	15.94	7.06	0.00	2.57
99	107	0.877213	GAACGCCAGTGTAACCACGT	60.877	55.000	0.00	0.00	46.56	4.49
227	236	5.433855	GTTCGCAAGTACATGAACGTTTTA	58.566	37.500	0.46	0.00	37.60	1.52
657	756	7.566858	AATTAAAAATCAAAGCGCTACAGTG	57.433	32.000	12.05	7.19	0.00	3.66
665	783	0.526662	AGCGCTACAGTGGTGTACTC	59.473	55.000	8.99	0.00	37.60	2.59
727	849	3.191371	CAGGTGGTTAGCATTCTTGTTCC	59.809	47.826	0.00	0.00	0.00	3.62
749	871	1.068055	TGTTCTAACGCCGAGAGTTCC	60.068	52.381	0.00	0.00	33.42	3.62
778	901	3.125316	GCTGAGAACGAATTTAGGGTGTG	59.875	47.826	0.00	0.00	0.00	3.82
824	963	0.403655	TGTAGATTGTTGCTGGGCCA	59.596	50.000	5.85	5.85	0.00	5.36
895	1034	1.232216	CCGGTTAGGAGCTCCCCTA	59.768	63.158	29.54	13.48	45.00	3.53
896	1035	0.398098	CCGGTTAGGAGCTCCCCTAA	60.398	60.000	29.54	18.75	44.21	2.69
903	1042	3.722908	AGGAGCTCCCCTAACTTTTTC	57.277	47.619	29.54	0.00	34.07	2.29
904	1043	3.261083	AGGAGCTCCCCTAACTTTTTCT	58.739	45.455	29.54	2.46	34.07	2.52
905	1044	3.264706	AGGAGCTCCCCTAACTTTTTCTC	59.735	47.826	29.54	0.00	34.07	2.87
906	1045	3.009143	GGAGCTCCCCTAACTTTTTCTCA	59.991	47.826	23.19	0.00	0.00	3.27
907	1046	4.506802	GGAGCTCCCCTAACTTTTTCTCAA	60.507	45.833	23.19	0.00	0.00	3.02
908	1047	5.061721	AGCTCCCCTAACTTTTTCTCAAA	57.938	39.130	0.00	0.00	0.00	2.69
909	1048	5.454966	AGCTCCCCTAACTTTTTCTCAAAA	58.545	37.500	0.00	0.00	0.00	2.44
910	1049	5.897250	AGCTCCCCTAACTTTTTCTCAAAAA	59.103	36.000	0.00	0.00	37.99	1.94
942	1081	1.331399	AAGGAGCTCCCCTAACTCGC	61.331	60.000	29.54	0.00	34.95	5.03
943	1082	2.798364	GGAGCTCCCCTAACTCGCC	61.798	68.421	23.19	0.00	0.00	5.54
944	1083	2.764547	AGCTCCCCTAACTCGCCC	60.765	66.667	0.00	0.00	0.00	6.13
947	1086	3.691326	TCCCCTAACTCGCCCCCT	61.691	66.667	0.00	0.00	0.00	4.79
1091	1230	2.187958	TCAGTTCCTCCATCGGATGTT	58.812	47.619	16.29	0.00	32.02	2.71
1104	1243	2.637872	TCGGATGTTCCCTTTTCTCTGT	59.362	45.455	0.00	0.00	31.13	3.41
1147	1286	2.569853	TGGATTTTAAGAGCTGTCGGGA	59.430	45.455	0.00	0.00	0.00	5.14
1276	1415	6.873076	GGTCCAATCTAATCTCAGATGCTTAG	59.127	42.308	0.00	0.00	35.42	2.18
1286	1425	5.555017	TCTCAGATGCTTAGCTTTTCTGTT	58.445	37.500	21.84	0.00	34.74	3.16
1297	1446	2.224892	GCTTTTCTGTTCCCTTCCTCCT	60.225	50.000	0.00	0.00	0.00	3.69
1302	1451	0.253020	TGTTCCCTTCCTCCTACCCC	60.253	60.000	0.00	0.00	0.00	4.95
1312	1461	1.702957	CCTCCTACCCCAAACTGTTCA	59.297	52.381	0.00	0.00	0.00	3.18
1484	1646	4.997395	TCTTGGAAATTCAGTAGCACTGTC	59.003	41.667	13.59	6.28	46.03	3.51
1532	1694	6.095377	GCAAATTAAACTGATGGAGTCCTTG	58.905	40.000	11.33	3.01	31.73	3.61
1550	1712	1.309006	GGGTCCTTCCTAGTCCGGA	59.691	63.158	0.00	0.00	36.25	5.14
1573	1740	6.127310	GGATTCTCTGTCTTTCCAAGCTAGTA	60.127	42.308	0.00	0.00	0.00	1.82
1574	1741	5.906113	TCTCTGTCTTTCCAAGCTAGTAG	57.094	43.478	0.00	0.00	0.00	2.57
1575	1742	5.326069	TCTCTGTCTTTCCAAGCTAGTAGT	58.674	41.667	0.00	0.00	0.00	2.73
1700	1867	5.260424	TCAATCCCTTGATCGAAAATGGAA	58.740	37.500	10.75	0.00	36.46	3.53
1701	1868	5.714333	TCAATCCCTTGATCGAAAATGGAAA	59.286	36.000	10.75	1.02	36.46	3.13
1760	1927	5.077564	GGTTCCTTTGGATAACTCAAACCT	58.922	41.667	0.00	0.00	31.71	3.50
1795	1963	1.995376	TTTCCAACAGAAGCCTTCCC	58.005	50.000	0.00	0.00	35.40	3.97
1828	1996	8.549548	TGTTCATGATGCTTTGTTTGTTTAATG	58.450	29.630	0.00	0.00	0.00	1.90
1830	1998	8.659925	TCATGATGCTTTGTTTGTTTAATGTT	57.340	26.923	0.00	0.00	0.00	2.71
1837	2005	5.476752	TTGTTTGTTTAATGTTTGCAGCC	57.523	34.783	0.00	0.00	0.00	4.85
1941	2109	7.120579	CACCACCTCATGCTAATAACAAGTAAA	59.879	37.037	0.00	0.00	0.00	2.01
1964	2134	4.218417	ACATTTGGTTCCACTTATGCAGTC	59.782	41.667	0.00	0.00	30.92	3.51
1979	2149	3.405831	TGCAGTCAACCTCTGAATTCTG	58.594	45.455	7.05	6.50	35.22	3.02
2064	2234	2.526873	ACCCACCTGGAGCGAGTT	60.527	61.111	0.00	0.00	37.39	3.01
2070	2240	2.680913	CCTGGAGCGAGTTTTGCCG	61.681	63.158	0.00	0.00	0.00	5.69
2105	2275	3.445987	ACTTCTAGCTAGCCTTCTTGGT	58.554	45.455	16.35	0.00	38.35	3.67
2106	2276	4.611367	ACTTCTAGCTAGCCTTCTTGGTA	58.389	43.478	16.35	0.00	38.35	3.25
2107	2277	4.403113	ACTTCTAGCTAGCCTTCTTGGTAC	59.597	45.833	16.35	0.00	38.35	3.34
2108	2278	2.950309	TCTAGCTAGCCTTCTTGGTACG	59.050	50.000	16.35	0.00	38.35	3.67
2109	2279	0.824759	AGCTAGCCTTCTTGGTACGG	59.175	55.000	12.13	0.00	38.35	4.02
2110	2280	0.535797	GCTAGCCTTCTTGGTACGGT	59.464	55.000	2.29	0.00	38.35	4.83
2111	2281	1.739371	GCTAGCCTTCTTGGTACGGTG	60.739	57.143	2.29	0.00	38.35	4.94
2112	2282	0.899720	TAGCCTTCTTGGTACGGTGG	59.100	55.000	0.00	0.00	38.35	4.61
2163	2333	0.590195	GCGCCTGAAGCAATCCATAG	59.410	55.000	0.00	0.00	44.04	2.23
2200	2370	3.885297	AGAATGTTGTTTCTGTCACCCTG	59.115	43.478	0.00	0.00	34.68	4.45
2222	2392	7.176690	CCCTGACAAACCAGTTCAGTTAAATAT	59.823	37.037	0.00	0.00	32.43	1.28
2223	2393	9.226606	CCTGACAAACCAGTTCAGTTAAATATA	57.773	33.333	0.00	0.00	32.43	0.86
2249	2419	0.321564	CCGCCCTGATTCACAAGTCA	60.322	55.000	0.00	0.00	0.00	3.41
2255	2425	4.702131	GCCCTGATTCACAAGTCAGTAAAT	59.298	41.667	0.00	0.00	40.12	1.40
2270	2440	4.962995	TCAGTAAATTGGGGTTTTGTTCCA	59.037	37.500	0.00	0.00	0.00	3.53
2291	2462	0.877071	AAGTCTGCAGCCAATTCGTG	59.123	50.000	9.47	0.00	0.00	4.35
2298	2583	1.391144	GCAGCCAATTCGTGCAATTTC	59.609	47.619	0.00	0.00	37.16	2.17
2301	2586	1.627879	CCAATTCGTGCAATTTCCCG	58.372	50.000	0.00	0.00	31.79	5.14
2302	2587	1.067915	CCAATTCGTGCAATTTCCCGT	60.068	47.619	0.00	0.00	31.79	5.28
2303	2588	1.984990	CAATTCGTGCAATTTCCCGTG	59.015	47.619	0.00	0.00	31.79	4.94
2305	2590	0.535328	TTCGTGCAATTTCCCGTGGA	60.535	50.000	0.00	0.00	0.00	4.02
2321	2606	3.190535	CCGTGGAATTTTACTGTCCTTGG	59.809	47.826	0.00	0.00	32.28	3.61
2385	2671	1.064758	AGTGTGACTGGCCTGTGAAAA	60.065	47.619	21.29	0.63	0.00	2.29
2517	2805	5.224821	TCATCTCTTGGATTAGCTGGATG	57.775	43.478	0.00	0.00	31.27	3.51
2520	2808	5.441718	TCTCTTGGATTAGCTGGATGTTT	57.558	39.130	0.00	0.00	0.00	2.83
2559	2847	2.965805	ACGTAGTGTTGGATCCCGA	58.034	52.632	9.90	0.00	42.51	5.14
2627	2915	2.017138	TATTGTTGCGGCATCGAAGA	57.983	45.000	2.28	0.00	45.75	2.87
2655	2943	1.608590	CCGTGTTGCTCAAATTCCAGT	59.391	47.619	0.00	0.00	0.00	4.00
2739	3027	4.024048	TCAACTGAATCGCCTCACTTTTTC	60.024	41.667	0.00	0.00	0.00	2.29
3026	3327	1.077169	TCAGGACTCAGCAGGTAGGAA	59.923	52.381	0.00	0.00	0.00	3.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
2	3	6.671614	AAGACACAAATGAAGACACGTTAA	57.328	33.333	0.00	0.00	0.00	2.01
66	73	1.627550	GCGTTCTTTGACGGGAGAGC	61.628	60.000	0.00	0.00	42.98	4.09
137	145	8.996651	AATGGGAGGAGAACGAATAATAAATT	57.003	30.769	0.00	0.00	0.00	1.82
140	148	8.817092	AAAAATGGGAGGAGAACGAATAATAA	57.183	30.769	0.00	0.00	0.00	1.40
460	550	5.588648	ACGAATCTGGAGAAAAAGTTCACAA	59.411	36.000	0.00	0.00	36.09	3.33
657	756	3.883489	AGGCAAAAGACTTTGAGTACACC	59.117	43.478	0.06	0.00	44.03	4.16
665	783	5.600696	ACCAAATACAGGCAAAAGACTTTG	58.399	37.500	0.06	0.00	44.11	2.77
727	849	0.526662	ACTCTCGGCGTTAGAACAGG	59.473	55.000	6.85	0.00	0.00	4.00
749	871	6.238211	CCCTAAATTCGTTCTCAGCAAGTATG	60.238	42.308	0.00	0.00	0.00	2.39
920	1059	2.027100	CGAGTTAGGGGAGCTCCTTTTT	60.027	50.000	31.36	16.54	38.30	1.94
921	1060	1.555533	CGAGTTAGGGGAGCTCCTTTT	59.444	52.381	31.36	18.89	38.30	2.27
922	1061	1.196012	CGAGTTAGGGGAGCTCCTTT	58.804	55.000	31.36	21.28	38.30	3.11
923	1062	1.331399	GCGAGTTAGGGGAGCTCCTT	61.331	60.000	31.36	21.62	38.30	3.36
924	1063	1.758906	GCGAGTTAGGGGAGCTCCT	60.759	63.158	31.36	16.10	40.79	3.69
925	1064	2.798364	GGCGAGTTAGGGGAGCTCC	61.798	68.421	25.59	25.59	0.00	4.70
926	1065	2.798364	GGGCGAGTTAGGGGAGCTC	61.798	68.421	4.71	4.71	0.00	4.09
927	1066	2.764547	GGGCGAGTTAGGGGAGCT	60.765	66.667	0.00	0.00	0.00	4.09
928	1067	3.862991	GGGGCGAGTTAGGGGAGC	61.863	72.222	0.00	0.00	0.00	4.70
929	1068	3.162154	GGGGGCGAGTTAGGGGAG	61.162	72.222	0.00	0.00	0.00	4.30
930	1069	3.262778	AAGGGGGCGAGTTAGGGGA	62.263	63.158	0.00	0.00	0.00	4.81
931	1070	2.691252	AAGGGGGCGAGTTAGGGG	60.691	66.667	0.00	0.00	0.00	4.79
943	1082	4.506255	GTGGGCGGGATGAAGGGG	62.506	72.222	0.00	0.00	0.00	4.79
944	1083	4.506255	GGTGGGCGGGATGAAGGG	62.506	72.222	0.00	0.00	0.00	3.95
947	1086	3.407967	GAGGGTGGGCGGGATGAA	61.408	66.667	0.00	0.00	0.00	2.57
1035	1174	0.179108	CCGGATTGAAGGTCTCGTCC	60.179	60.000	0.00	0.00	0.00	4.79
1091	1230	4.867086	ACAAAAAGGACAGAGAAAAGGGA	58.133	39.130	0.00	0.00	0.00	4.20
1104	1243	3.827722	ACATCCGGAAGAACAAAAAGGA	58.172	40.909	14.76	0.00	0.00	3.36
1235	1374	0.458025	GACCACGGAATCACCTCGAC	60.458	60.000	0.00	0.00	36.31	4.20
1276	1415	2.163509	GGAGGAAGGGAACAGAAAAGC	58.836	52.381	0.00	0.00	0.00	3.51
1286	1425	0.499147	TTTGGGGTAGGAGGAAGGGA	59.501	55.000	0.00	0.00	0.00	4.20
1484	1646	2.202440	ACGCGGAATCGACAGTCG	60.202	61.111	17.33	17.33	42.10	4.18
1532	1694	0.105607	ATCCGGACTAGGAAGGACCC	60.106	60.000	6.12	0.00	44.50	4.46
1573	1740	0.248054	CGAAAACTGTGCACGCAACT	60.248	50.000	13.13	0.00	0.00	3.16
1574	1741	0.522495	ACGAAAACTGTGCACGCAAC	60.522	50.000	13.13	0.67	0.00	4.17
1575	1742	0.522286	CACGAAAACTGTGCACGCAA	60.522	50.000	13.13	0.00	0.00	4.85
1795	1963	0.806868	AGCATCATGAACAAGGTGCG	59.193	50.000	10.25	0.00	37.63	5.34
1852	2020	1.069204	AGAAGTTCGCAGCTCACTTGA	59.931	47.619	10.14	0.00	30.71	3.02
1895	2063	7.643764	GGTGGTGTGATATTTTTCGTCAATATG	59.356	37.037	0.00	0.00	28.71	1.78
1941	2109	4.151883	ACTGCATAAGTGGAACCAAATGT	58.848	39.130	0.00	0.00	37.88	2.71
1964	2134	3.817084	TGCAAGACAGAATTCAGAGGTTG	59.183	43.478	8.44	7.52	0.00	3.77
1979	2149	0.673022	CTGGACAGCCTCTGCAAGAC	60.673	60.000	0.00	0.00	38.67	3.01
2001	2171	1.201965	GCTTCAGCGATAACAGCACAC	60.202	52.381	0.00	0.00	37.01	3.82
2064	2234	1.518056	CCAGAAGAAGCTGCGGCAAA	61.518	55.000	21.93	0.00	41.70	3.68
2070	2240	2.470983	AGAAGTCCAGAAGAAGCTGC	57.529	50.000	0.00	0.00	34.56	5.25
2105	2275	1.678635	CGGGACAGGTACCACCGTA	60.679	63.158	21.78	0.00	44.90	4.02
2106	2276	2.993264	CGGGACAGGTACCACCGT	60.993	66.667	21.78	13.43	44.90	4.83
2107	2277	3.766691	CCGGGACAGGTACCACCG	61.767	72.222	22.62	22.62	44.90	4.94
2108	2278	2.284112	TCCGGGACAGGTACCACC	60.284	66.667	15.94	13.84	38.99	4.61
2109	2279	1.909781	TGTCCGGGACAGGTACCAC	60.910	63.158	25.53	4.94	37.67	4.16
2110	2280	1.909781	GTGTCCGGGACAGGTACCA	60.910	63.158	29.42	3.47	43.57	3.25
2111	2281	1.885163	CTGTGTCCGGGACAGGTACC	61.885	65.000	29.42	17.54	43.57	3.34
2112	2282	0.896940	TCTGTGTCCGGGACAGGTAC	60.897	60.000	29.42	17.91	43.57	3.34
2121	2291	0.034059	GGCTATCCATCTGTGTCCGG	59.966	60.000	0.00	0.00	0.00	5.14
2222	2392	0.392461	GAATCAGGGCGGCAGTGTTA	60.392	55.000	12.47	0.00	0.00	2.41
2223	2393	1.675641	GAATCAGGGCGGCAGTGTT	60.676	57.895	12.47	4.89	0.00	3.32
2249	2419	5.284861	GTGGAACAAAACCCCAATTTACT	57.715	39.130	0.00	0.00	44.16	2.24
2270	2440	0.877071	CGAATTGGCTGCAGACTTGT	59.123	50.000	22.80	4.98	0.00	3.16
2291	2462	4.625311	CAGTAAAATTCCACGGGAAATTGC	59.375	41.667	9.07	10.29	45.41	3.56
2298	2583	3.067684	AGGACAGTAAAATTCCACGGG	57.932	47.619	0.00	0.00	0.00	5.28
2301	2586	6.399639	TTTCCAAGGACAGTAAAATTCCAC	57.600	37.500	0.00	0.00	0.00	4.02
2302	2587	7.256154	GGATTTTCCAAGGACAGTAAAATTCCA	60.256	37.037	0.00	0.00	36.28	3.53
2303	2588	7.039011	AGGATTTTCCAAGGACAGTAAAATTCC	60.039	37.037	0.00	0.00	39.61	3.01
2305	2590	7.039011	GGAGGATTTTCCAAGGACAGTAAAATT	60.039	37.037	0.00	0.00	39.61	1.82
2321	2606	2.472909	CCCAGCGCGGAGGATTTTC	61.473	63.158	17.96	0.00	36.56	2.29
2362	2648	0.882042	CACAGGCCAGTCACACTCAC	60.882	60.000	5.01	0.00	0.00	3.51
2363	2649	1.048160	TCACAGGCCAGTCACACTCA	61.048	55.000	5.01	0.00	0.00	3.41
2364	2650	0.106708	TTCACAGGCCAGTCACACTC	59.893	55.000	5.01	0.00	0.00	3.51
2365	2651	0.546122	TTTCACAGGCCAGTCACACT	59.454	50.000	5.01	0.00	0.00	3.55
2366	2652	1.388547	TTTTCACAGGCCAGTCACAC	58.611	50.000	5.01	0.00	0.00	3.82
2367	2653	2.136298	TTTTTCACAGGCCAGTCACA	57.864	45.000	5.01	0.00	0.00	3.58
2385	2671	0.535102	CAGAGACCACCACGCCTTTT	60.535	55.000	0.00	0.00	0.00	2.27
2389	2676	4.314440	TGCAGAGACCACCACGCC	62.314	66.667	0.00	0.00	0.00	5.68
2391	2678	1.665916	CACTGCAGAGACCACCACG	60.666	63.158	23.35	0.00	0.00	4.94
2517	2805	6.195798	GTGTCTACGTCCACAAATTTGAAAAC	59.804	38.462	24.64	15.80	0.00	2.43
2520	2808	4.025563	CGTGTCTACGTCCACAAATTTGAA	60.026	41.667	24.64	6.86	44.99	2.69
2559	2847	9.169592	CTATTTTGAGGGATTGAATTTTTGCAT	57.830	29.630	0.00	0.00	0.00	3.96
2587	2875	3.323751	AGGCCATCAAACAAATGAAGC	57.676	42.857	5.01	0.00	33.97	3.86
2627	2915	0.179032	TGAGCAACACGGACCACATT	60.179	50.000	0.00	0.00	0.00	2.71
2655	2943	2.703536	TGTTCAGCCTCCTCTGTTGTTA	59.296	45.455	0.00	0.00	35.63	2.41
3026	3327	1.468985	CTGGTCAGAGACATCTCCGT	58.531	55.000	5.25	0.00	43.88	4.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.