AutoCloner

Multiple sequence alignment - TraesCS3D01G272500

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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	TraesCS3D01G272500	chr3D	100.000	3119	0	0	1	3119	378141813	378144931	0.000000e+00	5760.0
1	TraesCS3D01G272500	chr3D	98.039	102	2	0	2998	3099	378144708	378144809	8.890000e-41	178.0
2	TraesCS3D01G272500	chr3D	98.039	102	2	0	2896	2997	378144810	378144911	8.890000e-41	178.0
3	TraesCS3D01G272500	chr3A	96.000	2100	80	3	901	2996	502267710	502269809	0.000000e+00	3410.0
4	TraesCS3D01G272500	chr3A	93.524	911	52	7	1	906	646674610	646673702	0.000000e+00	1349.0
5	TraesCS3D01G272500	chr3A	84.951	206	28	1	1267	1469	38291378	38291173	4.080000e-49	206.0
6	TraesCS3D01G272500	chr3A	94.262	122	7	0	2998	3119	502269709	502269830	1.480000e-43	187.0
7	TraesCS3D01G272500	chr3B	94.717	2082	78	11	900	2950	492751906	492753986	0.000000e+00	3206.0
8	TraesCS3D01G272500	chr3B	97.333	75	2	0	3045	3119	492754588	492754662	9.080000e-26	128.0
9	TraesCS3D01G272500	chr3B	100.000	55	0	0	2943	2997	492754588	492754642	5.500000e-18	102.0
10	TraesCS3D01G272500	chr3B	100.000	51	0	0	3002	3052	492753936	492753986	9.210000e-16	95.3
11	TraesCS3D01G272500	chr5D	94.541	916	35	4	1	902	359054614	359055528	0.000000e+00	1400.0
12	TraesCS3D01G272500	chr5D	94.438	917	35	5	1	902	381790834	381789919	0.000000e+00	1397.0
13	TraesCS3D01G272500	chr5D	94.719	303	4	2	1	291	327218185	327218487	7.880000e-126	460.0
14	TraesCS3D01G272500	chr1D	94.245	921	37	4	1	905	425543195	425542275	0.000000e+00	1393.0
15	TraesCS3D01G272500	chr6A	94.033	905	48	6	1	902	576197878	576196977	0.000000e+00	1367.0
16	TraesCS3D01G272500	chr2D	93.013	916	48	9	1	902	7060960	7060047	0.000000e+00	1323.0
17	TraesCS3D01G272500	chrUn	92.601	919	53	5	1	905	1909965	1909048	0.000000e+00	1306.0
18	TraesCS3D01G272500	chr1A	92.601	919	48	9	1	902	576540240	576541155	0.000000e+00	1303.0
19	TraesCS3D01G272500	chr1A	90.512	938	53	8	1	902	478541238	478540301	0.000000e+00	1206.0
20	TraesCS3D01G272500	chr6D	92.151	930	45	11	1	902	283772986	283772057	0.000000e+00	1288.0
21	TraesCS3D01G272500	chr6D	93.284	819	23	3	1	787	10330466	10331284	0.000000e+00	1179.0
22	TraesCS3D01G272500	chr4D	89.463	949	52	20	1	902	37524246	37525193	0.000000e+00	1155.0

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	TraesCS3D01G272500	chr3D	378141813	378144931	3118	False	2038.666667	5760	98.692667	1	3119	3	chr3D.!!$F1	3118
1	TraesCS3D01G272500	chr3A	502267710	502269830	2120	False	1798.500000	3410	95.131000	901	3119	2	chr3A.!!$F1	2218
2	TraesCS3D01G272500	chr3A	646673702	646674610	908	True	1349.000000	1349	93.524000	1	906	1	chr3A.!!$R2	905
3	TraesCS3D01G272500	chr3B	492751906	492754662	2756	False	882.825000	3206	98.012500	900	3119	4	chr3B.!!$F1	2219
4	TraesCS3D01G272500	chr5D	359054614	359055528	914	False	1400.000000	1400	94.541000	1	902	1	chr5D.!!$F2	901
5	TraesCS3D01G272500	chr5D	381789919	381790834	915	True	1397.000000	1397	94.438000	1	902	1	chr5D.!!$R1	901
6	TraesCS3D01G272500	chr1D	425542275	425543195	920	True	1393.000000	1393	94.245000	1	905	1	chr1D.!!$R1	904
7	TraesCS3D01G272500	chr6A	576196977	576197878	901	True	1367.000000	1367	94.033000	1	902	1	chr6A.!!$R1	901
8	TraesCS3D01G272500	chr2D	7060047	7060960	913	True	1323.000000	1323	93.013000	1	902	1	chr2D.!!$R1	901
9	TraesCS3D01G272500	chrUn	1909048	1909965	917	True	1306.000000	1306	92.601000	1	905	1	chrUn.!!$R1	904
10	TraesCS3D01G272500	chr1A	576540240	576541155	915	False	1303.000000	1303	92.601000	1	902	1	chr1A.!!$F1	901
11	TraesCS3D01G272500	chr1A	478540301	478541238	937	True	1206.000000	1206	90.512000	1	902	1	chr1A.!!$R1	901
12	TraesCS3D01G272500	chr6D	283772057	283772986	929	True	1288.000000	1288	92.151000	1	902	1	chr6D.!!$R1	901
13	TraesCS3D01G272500	chr6D	10330466	10331284	818	False	1179.000000	1179	93.284000	1	787	1	chr6D.!!$F1	786
14	TraesCS3D01G272500	chr4D	37524246	37525193	947	False	1155.000000	1155	89.463000	1	902	1	chr4D.!!$F1	901

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
454	469	0.540454	CAGGCAGAAGGAGATGCTCA	59.460	55.0	0.0	0.0	42.19	4.26	F
972	1039	0.966179	GAAATGGCAACCGAAACCCT	59.034	50.0	0.0	0.0	0.00	4.34	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1752	1820	1.444933	TCACATTCCTTCCCACCAGT	58.555	50.0	0.0	0.0	0.00	4.0	R
2610	2686	0.613777	ACCCACTAGCCAGTAACTGC	59.386	55.0	0.0	0.0	32.21	4.4	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
423	438	2.992114	AGCGACAAGACGAGGGCT	60.992	61.111	0.00	0.00	35.09	5.19
454	469	0.540454	CAGGCAGAAGGAGATGCTCA	59.460	55.000	0.00	0.00	42.19	4.26
503	521	2.725641	GGCGTGGCCGTTCTTTTT	59.274	55.556	0.00	0.00	39.62	1.94
665	705	1.381928	GCCGGAGATGGACGTGTAGA	61.382	60.000	5.05	0.00	0.00	2.59
740	803	4.957372	GCATTTGAAACGTTGCTCTTTTTG	59.043	37.500	8.00	0.00	32.41	2.44
906	973	1.374758	CGGTGGAGTTGCCTCAGAC	60.375	63.158	0.00	0.00	39.64	3.51
910	977	2.038557	GGTGGAGTTGCCTCAGACTTTA	59.961	50.000	0.00	0.00	39.64	1.85
924	991	4.041567	TCAGACTTTAAGCCCATCACTCAA	59.958	41.667	0.00	0.00	0.00	3.02
926	993	3.074412	ACTTTAAGCCCATCACTCAACG	58.926	45.455	0.00	0.00	0.00	4.10
972	1039	0.966179	GAAATGGCAACCGAAACCCT	59.034	50.000	0.00	0.00	0.00	4.34
1011	1079	1.467342	CCTCGTGTCATGTCACTCGTA	59.533	52.381	18.69	3.67	35.34	3.43
1167	1235	1.768077	GCTGGCCCTCCTCCTATGT	60.768	63.158	0.00	0.00	0.00	2.29
1226	1294	2.736682	CGTCCCAAATCGTCGGCAC	61.737	63.158	0.00	0.00	0.00	5.01
1752	1820	0.754217	AGGACTATAAGACGGCCGCA	60.754	55.000	28.58	8.64	0.00	5.69
1919	1987	2.930826	TTCAGTGAGGAAGGGTTCAC	57.069	50.000	0.00	0.00	43.08	3.18
2168	2239	3.551846	TCGTAGCTGTCTGTCATATGGA	58.448	45.455	2.13	0.00	0.00	3.41
2247	2318	2.693074	ACACTGGTTGGTGAAATTGGAC	59.307	45.455	1.52	0.00	40.13	4.02
2306	2377	5.134202	ACATGAATCGACACTGAACTACA	57.866	39.130	0.00	0.00	0.00	2.74
2327	2398	6.441093	ACAGAACATACAGGCATAATGTTG	57.559	37.500	13.91	6.21	42.35	3.33
2457	2528	5.065914	TCTGATCTTTAATGTAGGCCATGC	58.934	41.667	5.01	0.00	32.82	4.06
2530	2603	2.670905	CCAGCATTGCATGAATGTTGTG	59.329	45.455	21.35	14.43	46.54	3.33
2549	2625	2.031191	GTGTGTTTCGTTGAACCATCGT	59.969	45.455	0.00	0.00	0.00	3.73
2823	2922	5.870433	TCATTTTGCTGCAAATATGACAAGG	59.130	36.000	28.55	17.57	33.19	3.61
2851	2950	3.748568	GCAACCTTCGAAATCTTCTCTGT	59.251	43.478	0.00	0.00	0.00	3.41
2950	3049	0.961019	TCATTTGAGCTGGTTGTGGC	59.039	50.000	0.00	0.00	0.00	5.01
2951	3050	0.675083	CATTTGAGCTGGTTGTGGCA	59.325	50.000	0.00	0.00	0.00	4.92
2952	3051	1.274167	CATTTGAGCTGGTTGTGGCAT	59.726	47.619	0.00	0.00	0.00	4.40
2953	3052	0.675083	TTTGAGCTGGTTGTGGCATG	59.325	50.000	0.00	0.00	0.00	4.06
2955	3054	0.467844	TGAGCTGGTTGTGGCATGTT	60.468	50.000	0.00	0.00	0.00	2.71
2956	3055	0.038892	GAGCTGGTTGTGGCATGTTG	60.039	55.000	0.00	0.00	0.00	3.33
2957	3056	0.467844	AGCTGGTTGTGGCATGTTGA	60.468	50.000	0.00	0.00	0.00	3.18
2958	3057	0.388659	GCTGGTTGTGGCATGTTGAA	59.611	50.000	0.00	0.00	0.00	2.69
2959	3058	1.202510	GCTGGTTGTGGCATGTTGAAA	60.203	47.619	0.00	0.00	0.00	2.69
2961	3060	2.101249	CTGGTTGTGGCATGTTGAAACT	59.899	45.455	0.00	0.00	0.00	2.66
2963	3062	3.701542	TGGTTGTGGCATGTTGAAACTTA	59.298	39.130	0.00	0.00	0.00	2.24
2965	3064	4.685628	GGTTGTGGCATGTTGAAACTTATG	59.314	41.667	0.00	0.00	0.00	1.90
2966	3065	4.517952	TGTGGCATGTTGAAACTTATGG	57.482	40.909	0.00	0.00	0.00	2.74
2967	3066	3.257873	TGTGGCATGTTGAAACTTATGGG	59.742	43.478	0.00	0.00	0.00	4.00
2968	3067	2.233431	TGGCATGTTGAAACTTATGGGC	59.767	45.455	0.00	0.00	0.00	5.36
2970	3069	3.306641	GGCATGTTGAAACTTATGGGCAA	60.307	43.478	0.00	0.00	0.00	4.52
2971	3070	4.506758	GCATGTTGAAACTTATGGGCAAT	58.493	39.130	0.00	0.00	0.00	3.56
2972	3071	5.395103	GGCATGTTGAAACTTATGGGCAATA	60.395	40.000	0.00	0.00	0.00	1.90
2973	3072	6.105333	GCATGTTGAAACTTATGGGCAATAA	58.895	36.000	0.00	0.00	0.00	1.40
2975	3074	7.280652	GCATGTTGAAACTTATGGGCAATAAAT	59.719	33.333	0.00	0.00	30.24	1.40
2976	3075	9.165035	CATGTTGAAACTTATGGGCAATAAATT	57.835	29.630	0.00	0.00	30.24	1.82
2977	3076	9.737844	ATGTTGAAACTTATGGGCAATAAATTT	57.262	25.926	0.88	0.88	33.89	1.82
2978	3077	9.566432	TGTTGAAACTTATGGGCAATAAATTTT	57.434	25.926	2.85	2.42	31.93	1.82
2979	3078	9.824534	GTTGAAACTTATGGGCAATAAATTTTG	57.175	29.630	2.85	0.00	31.93	2.44
2980	3079	8.558973	TGAAACTTATGGGCAATAAATTTTGG	57.441	30.769	2.85	0.00	31.93	3.28
2981	3080	7.609532	TGAAACTTATGGGCAATAAATTTTGGG	59.390	33.333	2.85	0.00	31.93	4.12
2982	3081	6.000246	ACTTATGGGCAATAAATTTTGGGG	58.000	37.500	0.00	0.00	30.24	4.96
2983	3082	5.490717	ACTTATGGGCAATAAATTTTGGGGT	59.509	36.000	0.00	0.00	30.24	4.95
2985	3084	4.828072	TGGGCAATAAATTTTGGGGTAC	57.172	40.909	0.00	0.00	0.00	3.34
2986	3085	4.168101	TGGGCAATAAATTTTGGGGTACA	58.832	39.130	0.00	0.00	0.00	2.90
2987	3086	4.597507	TGGGCAATAAATTTTGGGGTACAA	59.402	37.500	0.00	0.00	37.28	2.41
2988	3087	5.251700	TGGGCAATAAATTTTGGGGTACAAT	59.748	36.000	0.00	0.00	39.21	2.71
2989	3088	5.588246	GGGCAATAAATTTTGGGGTACAATG	59.412	40.000	0.00	0.00	39.21	2.82
2992	3091	6.315144	GCAATAAATTTTGGGGTACAATGACC	59.685	38.462	0.00	0.00	39.21	4.02
2993	3092	7.619965	CAATAAATTTTGGGGTACAATGACCT	58.380	34.615	0.00	0.00	39.21	3.85
2994	3093	5.738619	AAATTTTGGGGTACAATGACCTC	57.261	39.130	0.00	0.00	40.81	3.85
2995	3094	4.675063	ATTTTGGGGTACAATGACCTCT	57.325	40.909	0.00	0.00	41.04	3.69
2997	3096	2.642171	TGGGGTACAATGACCTCTCT	57.358	50.000	0.00	0.00	41.04	3.10
2998	3097	2.467880	TGGGGTACAATGACCTCTCTC	58.532	52.381	0.00	0.00	41.04	3.20
3000	3099	2.432510	GGGGTACAATGACCTCTCTCAG	59.567	54.545	0.00	0.00	36.97	3.35
3002	3101	4.279145	GGGTACAATGACCTCTCTCAGTA	58.721	47.826	0.00	0.00	39.66	2.74
3003	3102	4.710375	GGGTACAATGACCTCTCTCAGTAA	59.290	45.833	0.00	0.00	39.66	2.24
3013	3112	7.331026	TGACCTCTCTCAGTAATATGGTTTTG	58.669	38.462	0.00	0.00	0.00	2.44
3014	3113	7.038302	TGACCTCTCTCAGTAATATGGTTTTGT	60.038	37.037	0.00	0.00	0.00	2.83
3017	3116	7.824289	CCTCTCTCAGTAATATGGTTTTGTTGA	59.176	37.037	0.00	0.00	0.00	3.18
3022	3121	8.755696	TCAGTAATATGGTTTTGTTGATTTGC	57.244	30.769	0.00	0.00	0.00	3.68
3023	3122	8.584157	TCAGTAATATGGTTTTGTTGATTTGCT	58.416	29.630	0.00	0.00	0.00	3.91
3025	3124	8.584157	AGTAATATGGTTTTGTTGATTTGCTGA	58.416	29.630	0.00	0.00	0.00	4.26
3028	3127	9.941325	AATATGGTTTTGTTGATTTGCTGATTA	57.059	25.926	0.00	0.00	0.00	1.75
3029	3128	9.941325	ATATGGTTTTGTTGATTTGCTGATTAA	57.059	25.926	0.00	0.00	0.00	1.40
3030	3129	7.712264	TGGTTTTGTTGATTTGCTGATTAAG	57.288	32.000	0.00	0.00	0.00	1.85
3091	3698	6.443849	TGGGCAATAAATTTTGGGGTACAATA	59.556	34.615	0.00	0.00	39.21	1.90
3099	3706	5.586155	TTTTGGGGTACAATAACCTCTCA	57.414	39.130	0.00	0.00	41.01	3.27

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
246	260	0.534412	CCTCTTCCATGTCGAGCTGT	59.466	55.000	0.00	0.00	0.00	4.40
423	438	3.551496	CTGCCTGGCCTCGAACCAA	62.551	63.158	17.53	0.00	36.56	3.67
503	521	4.746309	GCACCCATGCCAGCCTCA	62.746	66.667	0.00	0.00	46.97	3.86
552	570	5.193663	TCCAAAATGAATGTTTTCTCGCA	57.806	34.783	0.00	0.00	32.78	5.10
651	691	0.680280	AGCGGTCTACACGTCCATCT	60.680	55.000	0.00	0.00	0.00	2.90
740	803	2.857592	TCCTGTCCGCGTCTATTTAC	57.142	50.000	4.92	0.00	0.00	2.01
809	875	3.103911	CGTGTTCGGGCGTGTCTC	61.104	66.667	0.00	0.00	0.00	3.36
906	973	2.420022	CCGTTGAGTGATGGGCTTAAAG	59.580	50.000	0.00	0.00	0.00	1.85
910	977	0.110486	AACCGTTGAGTGATGGGCTT	59.890	50.000	0.00	0.00	0.00	4.35
924	991	1.587054	CAGCTTCGAGGAGAACCGT	59.413	57.895	0.00	0.00	41.83	4.83
926	993	1.807573	CGCAGCTTCGAGGAGAACC	60.808	63.158	0.00	0.00	34.66	3.62
1011	1079	2.606826	GACGGGGAGGAGTTGGGT	60.607	66.667	0.00	0.00	0.00	4.51
1226	1294	2.906354	CCGTACTGGATTCCTTTGAGG	58.094	52.381	3.95	0.00	42.00	3.86
1272	1340	2.060980	GCCCTCGATGGACTCCACT	61.061	63.158	11.34	0.00	35.80	4.00
1704	1772	3.622060	AAGGAACATGGACGGCGGG	62.622	63.158	13.24	0.00	0.00	6.13
1752	1820	1.444933	TCACATTCCTTCCCACCAGT	58.555	50.000	0.00	0.00	0.00	4.00
1919	1987	5.328565	TCCTCATGTACCCTCTATCATCAG	58.671	45.833	0.00	0.00	0.00	2.90
2168	2239	7.106239	CACCATTTCATCCTAAGACAGTAAGT	58.894	38.462	0.00	0.00	0.00	2.24
2174	2245	4.574674	AGCACCATTTCATCCTAAGACA	57.425	40.909	0.00	0.00	0.00	3.41
2176	2247	5.957771	ACTAGCACCATTTCATCCTAAGA	57.042	39.130	0.00	0.00	0.00	2.10
2247	2318	4.080299	AGAGCTAAACCCCATAGTTTCCTG	60.080	45.833	0.00	0.00	40.38	3.86
2306	2377	6.418101	ACTCAACATTATGCCTGTATGTTCT	58.582	36.000	0.00	0.00	39.70	3.01
2327	2398	5.927030	TCGCATCAAGTCAATTTGTTACTC	58.073	37.500	0.00	0.00	0.00	2.59
2457	2528	7.975058	TCATGCACAAATTCATGTACATAAAGG	59.025	33.333	8.32	0.00	35.59	3.11
2530	2603	3.492011	AGTACGATGGTTCAACGAAACAC	59.508	43.478	0.00	0.00	42.26	3.32
2549	2625	7.750229	AAAACAATGATTCAGCTTCAGAGTA	57.250	32.000	0.00	0.00	0.00	2.59
2610	2686	0.613777	ACCCACTAGCCAGTAACTGC	59.386	55.000	0.00	0.00	32.21	4.40
2777	2876	5.600898	TGAATGATGAAGGACGGAATAGGTA	59.399	40.000	0.00	0.00	0.00	3.08
2823	2922	7.439655	AGAGAAGATTTCGAAGGTTGCATATAC	59.560	37.037	0.00	0.00	34.02	1.47
2851	2950	8.020819	CACTCACAAAGTCACAGTTAAAAAGAA	58.979	33.333	0.00	0.00	35.45	2.52
2950	3049	8.721019	ATTTATTGCCCATAAGTTTCAACATG	57.279	30.769	0.00	0.00	0.00	3.21
2951	3050	9.737844	AAATTTATTGCCCATAAGTTTCAACAT	57.262	25.926	0.00	0.00	33.96	2.71
2952	3051	9.566432	AAAATTTATTGCCCATAAGTTTCAACA	57.434	25.926	0.00	0.00	36.66	3.33
2953	3052	9.824534	CAAAATTTATTGCCCATAAGTTTCAAC	57.175	29.630	0.00	0.00	36.66	3.18
2955	3054	7.609532	CCCAAAATTTATTGCCCATAAGTTTCA	59.390	33.333	0.00	0.00	36.66	2.69
2956	3055	7.066887	CCCCAAAATTTATTGCCCATAAGTTTC	59.933	37.037	0.00	0.00	36.66	2.78
2957	3056	6.889177	CCCCAAAATTTATTGCCCATAAGTTT	59.111	34.615	0.00	2.24	38.35	2.66
2958	3057	6.012069	ACCCCAAAATTTATTGCCCATAAGTT	60.012	34.615	0.00	0.00	30.49	2.66
2959	3058	5.490717	ACCCCAAAATTTATTGCCCATAAGT	59.509	36.000	0.00	0.00	0.00	2.24
2961	3060	6.443849	TGTACCCCAAAATTTATTGCCCATAA	59.556	34.615	0.00	0.00	0.00	1.90
2963	3062	4.785376	TGTACCCCAAAATTTATTGCCCAT	59.215	37.500	0.00	0.00	0.00	4.00
2965	3064	4.828072	TGTACCCCAAAATTTATTGCCC	57.172	40.909	0.00	0.00	0.00	5.36
2966	3065	6.315144	GTCATTGTACCCCAAAATTTATTGCC	59.685	38.462	0.00	0.00	36.44	4.52
2967	3066	6.315144	GGTCATTGTACCCCAAAATTTATTGC	59.685	38.462	0.00	0.00	36.44	3.56
2968	3067	7.619965	AGGTCATTGTACCCCAAAATTTATTG	58.380	34.615	0.00	0.00	40.71	1.90
2970	3069	7.189087	AGAGGTCATTGTACCCCAAAATTTAT	58.811	34.615	0.00	0.00	40.71	1.40
2971	3070	6.557568	AGAGGTCATTGTACCCCAAAATTTA	58.442	36.000	0.00	0.00	40.71	1.40
2972	3071	5.402630	AGAGGTCATTGTACCCCAAAATTT	58.597	37.500	0.00	0.00	40.71	1.82
2973	3072	5.010708	AGAGGTCATTGTACCCCAAAATT	57.989	39.130	0.00	0.00	40.71	1.82
2975	3074	3.655777	AGAGAGGTCATTGTACCCCAAAA	59.344	43.478	0.00	0.00	40.71	2.44
2976	3075	3.256704	AGAGAGGTCATTGTACCCCAAA	58.743	45.455	0.00	0.00	40.71	3.28
2977	3076	2.838202	GAGAGAGGTCATTGTACCCCAA	59.162	50.000	0.00	0.00	40.71	4.12
2978	3077	2.225522	TGAGAGAGGTCATTGTACCCCA	60.226	50.000	0.00	0.00	40.71	4.96
2979	3078	2.432510	CTGAGAGAGGTCATTGTACCCC	59.567	54.545	0.00	0.00	40.71	4.95
2980	3079	3.100671	ACTGAGAGAGGTCATTGTACCC	58.899	50.000	0.00	0.00	40.71	3.69
2981	3080	5.916661	TTACTGAGAGAGGTCATTGTACC	57.083	43.478	0.00	0.00	40.06	3.34
2982	3081	8.085296	CCATATTACTGAGAGAGGTCATTGTAC	58.915	40.741	0.00	0.00	0.00	2.90
2983	3082	7.785028	ACCATATTACTGAGAGAGGTCATTGTA	59.215	37.037	0.00	0.00	0.00	2.41
2985	3084	7.060383	ACCATATTACTGAGAGAGGTCATTG	57.940	40.000	0.00	0.00	0.00	2.82
2986	3085	7.682787	AACCATATTACTGAGAGAGGTCATT	57.317	36.000	0.00	0.00	0.00	2.57
2987	3086	7.682787	AAACCATATTACTGAGAGAGGTCAT	57.317	36.000	0.00	0.00	0.00	3.06
2988	3087	7.038302	ACAAAACCATATTACTGAGAGAGGTCA	60.038	37.037	0.00	0.00	0.00	4.02
2989	3088	7.331791	ACAAAACCATATTACTGAGAGAGGTC	58.668	38.462	0.00	0.00	0.00	3.85
2992	3091	8.777865	TCAACAAAACCATATTACTGAGAGAG	57.222	34.615	0.00	0.00	0.00	3.20
2993	3092	9.739276	AATCAACAAAACCATATTACTGAGAGA	57.261	29.630	0.00	0.00	0.00	3.10
2997	3096	8.584157	AGCAAATCAACAAAACCATATTACTGA	58.416	29.630	0.00	0.00	0.00	3.41
2998	3097	8.649841	CAGCAAATCAACAAAACCATATTACTG	58.350	33.333	0.00	0.00	0.00	2.74
3000	3099	8.755696	TCAGCAAATCAACAAAACCATATTAC	57.244	30.769	0.00	0.00	0.00	1.89
3002	3101	8.851541	AATCAGCAAATCAACAAAACCATATT	57.148	26.923	0.00	0.00	0.00	1.28
3003	3102	9.941325	TTAATCAGCAAATCAACAAAACCATAT	57.059	25.926	0.00	0.00	0.00	1.78
3022	3121	5.125097	ACCAGCTCAAATGAAGCTTAATCAG	59.875	40.000	0.00	0.00	36.69	2.90
3023	3122	5.012239	ACCAGCTCAAATGAAGCTTAATCA	58.988	37.500	0.00	0.00	36.69	2.57
3025	3124	5.244626	ACAACCAGCTCAAATGAAGCTTAAT	59.755	36.000	0.00	0.00	36.69	1.40
3028	3127	2.961062	ACAACCAGCTCAAATGAAGCTT	59.039	40.909	0.00	0.00	36.69	3.74
3029	3128	2.295349	CACAACCAGCTCAAATGAAGCT	59.705	45.455	0.00	0.00	39.79	3.74
3030	3129	2.608752	CCACAACCAGCTCAAATGAAGC	60.609	50.000	0.00	0.00	0.00	3.86
3031	3130	2.608752	GCCACAACCAGCTCAAATGAAG	60.609	50.000	0.00	0.00	0.00	3.02
3032	3131	1.340889	GCCACAACCAGCTCAAATGAA	59.659	47.619	0.00	0.00	0.00	2.57
3034	3133	0.675083	TGCCACAACCAGCTCAAATG	59.325	50.000	0.00	0.00	0.00	2.32
3035	3134	1.274167	CATGCCACAACCAGCTCAAAT	59.726	47.619	0.00	0.00	0.00	2.32
3037	3136	0.467844	ACATGCCACAACCAGCTCAA	60.468	50.000	0.00	0.00	0.00	3.02
3041	3140	0.388659	TTCAACATGCCACAACCAGC	59.611	50.000	0.00	0.00	0.00	4.85
3091	3698	3.207044	ACAGAATACCCCTGAGAGGTT	57.793	47.619	0.00	0.00	38.89	3.50

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.