AutoCloner

Multiple sequence alignment - TraesCS1D01G366300

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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	TraesCS1D01G366300	chr1D	100.000	2832	0	0	1	2832	446433731	446436562	0.000000e+00	5230.0
1	TraesCS1D01G366300	chr1D	88.862	835	75	13	908	1734	451624990	451625814	0.000000e+00	1011.0
2	TraesCS1D01G366300	chr1B	92.136	1475	63	16	790	2240	610558128	610559573	0.000000e+00	2032.0
3	TraesCS1D01G366300	chr1B	90.500	800	59	15	905	1700	620899929	620900715	0.000000e+00	1040.0
4	TraesCS1D01G366300	chr1B	89.222	835	65	19	908	1734	620785975	620786792	0.000000e+00	1020.0
5	TraesCS1D01G366300	chr1B	88.489	834	63	24	905	1734	621272363	621271559	0.000000e+00	977.0
6	TraesCS1D01G366300	chr1B	92.804	667	43	3	908	1573	621059167	621059829	0.000000e+00	961.0
7	TraesCS1D01G366300	chr1B	92.652	626	38	3	1079	1700	620551663	620552284	0.000000e+00	894.0
8	TraesCS1D01G366300	chr1B	85.977	599	31	21	231	790	610557503	610558087	2.430000e-165	592.0
9	TraesCS1D01G366300	chr1B	92.042	289	19	4	2541	2828	610559900	610560185	1.220000e-108	403.0
10	TraesCS1D01G366300	chr1B	94.521	219	12	0	1	219	610557244	610557462	3.490000e-89	339.0
11	TraesCS1D01G366300	chr1B	90.541	148	6	1	2259	2398	610559629	610559776	3.720000e-44	189.0
12	TraesCS1D01G366300	chr1A	89.535	1118	76	21	978	2076	542167879	542168974	0.000000e+00	1378.0
13	TraesCS1D01G366300	chr1A	91.502	1012	50	12	1	979	542166625	542167633	0.000000e+00	1360.0
14	TraesCS1D01G366300	chr1A	90.953	829	64	10	908	1734	546216297	546217116	0.000000e+00	1105.0
15	TraesCS1D01G366300	chr1A	84.318	440	42	18	2101	2536	542168954	542169370	3.400000e-109	405.0
16	TraesCS1D01G366300	chr1A	79.821	223	24	14	2621	2824	542169617	542169837	2.940000e-30	143.0
17	TraesCS1D01G366300	chr5B	81.656	616	68	19	1602	2208	406160612	406160033	1.190000e-128	470.0
18	TraesCS1D01G366300	chr3B	80.945	614	75	16	1602	2208	7638113	7637535	5.570000e-122	448.0
19	TraesCS1D01G366300	chr3B	88.439	346	28	3	1863	2208	137289674	137290007	9.450000e-110	407.0
20	TraesCS1D01G366300	chr2B	86.856	388	29	7	1863	2240	277462675	277462300	5.640000e-112	414.0
21	TraesCS1D01G366300	chr2B	87.861	346	30	3	1863	2208	555150567	555150234	2.040000e-106	396.0
22	TraesCS1D01G366300	chr2B	76.860	242	31	14	1666	1903	761975642	761975422	2.310000e-21	113.0
23	TraesCS1D01G366300	chr4B	88.439	346	28	3	1863	2208	81979208	81978875	9.450000e-110	407.0
24	TraesCS1D01G366300	chr4B	88.150	346	29	3	1863	2208	70830057	70829724	4.390000e-108	401.0
25	TraesCS1D01G366300	chr6B	88.150	346	29	4	1863	2208	623536842	623537175	4.390000e-108	401.0
26	TraesCS1D01G366300	chr4A	78.779	344	58	9	1528	1857	154534332	154533990	1.710000e-52	217.0
27	TraesCS1D01G366300	chr3D	100.000	30	0	0	2449	2478	118254454	118254483	3.940000e-04	56.5

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	TraesCS1D01G366300	chr1D	446433731	446436562	2831	False	5230.0	5230	100.0000	1	2832	1	chr1D.!!$F1	2831
1	TraesCS1D01G366300	chr1D	451624990	451625814	824	False	1011.0	1011	88.8620	908	1734	1	chr1D.!!$F2	826
2	TraesCS1D01G366300	chr1B	620899929	620900715	786	False	1040.0	1040	90.5000	905	1700	1	chr1B.!!$F3	795
3	TraesCS1D01G366300	chr1B	620785975	620786792	817	False	1020.0	1020	89.2220	908	1734	1	chr1B.!!$F2	826
4	TraesCS1D01G366300	chr1B	621271559	621272363	804	True	977.0	977	88.4890	905	1734	1	chr1B.!!$R1	829
5	TraesCS1D01G366300	chr1B	621059167	621059829	662	False	961.0	961	92.8040	908	1573	1	chr1B.!!$F4	665
6	TraesCS1D01G366300	chr1B	620551663	620552284	621	False	894.0	894	92.6520	1079	1700	1	chr1B.!!$F1	621
7	TraesCS1D01G366300	chr1B	610557244	610560185	2941	False	711.0	2032	91.0434	1	2828	5	chr1B.!!$F5	2827
8	TraesCS1D01G366300	chr1A	546216297	546217116	819	False	1105.0	1105	90.9530	908	1734	1	chr1A.!!$F1	826
9	TraesCS1D01G366300	chr1A	542166625	542169837	3212	False	821.5	1378	86.2940	1	2824	4	chr1A.!!$F2	2823
10	TraesCS1D01G366300	chr5B	406160033	406160612	579	True	470.0	470	81.6560	1602	2208	1	chr5B.!!$R1	606
11	TraesCS1D01G366300	chr3B	7637535	7638113	578	True	448.0	448	80.9450	1602	2208	1	chr3B.!!$R1	606

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
657	721	0.555769	AAACAAGGAGGCTTCACCCA	59.444	50.0	0.0	0.0	40.58	4.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2537	3062	0.110486	GTCACTTGGCCCTCCTCAAA	59.89	55.0	0.0	0.0	0.0	2.69	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
26	27	6.131264	TCAACTCTTATGGATGGCATTGAAT	58.869	36.000	0.00	0.00	0.00	2.57
207	208	1.523938	GCGGTAGGAGTGATTGGGC	60.524	63.158	0.00	0.00	0.00	5.36
270	300	1.771073	TTGCCTCGTGTTGCAACTCG	61.771	55.000	35.76	35.76	42.19	4.18
378	408	3.366440	ACTGTATCCGCTCGGTATTTC	57.634	47.619	8.28	0.00	36.47	2.17
379	409	2.691526	ACTGTATCCGCTCGGTATTTCA	59.308	45.455	8.28	2.26	36.47	2.69
397	428	1.074084	TCAGGTAACCGCATTTCCCAA	59.926	47.619	0.00	0.00	37.17	4.12
437	492	3.731089	CAAAACCTTGGGTCGTAGTACA	58.269	45.455	0.38	0.00	33.12	2.90
466	521	1.367471	CTGTGTGGTTGAGCTCCGA	59.633	57.895	12.15	0.00	0.00	4.55
657	721	0.555769	AAACAAGGAGGCTTCACCCA	59.444	50.000	0.00	0.00	40.58	4.51
697	761	5.393124	TGTGAAAAATGCTTATCTCGCAAG	58.607	37.500	0.00	0.00	41.26	4.01
752	829	3.288092	CAGGTTTGGGGTAGGAAATAGC	58.712	50.000	0.00	0.00	0.00	2.97
946	1064	1.921869	CGCTACCCCCTCCACCAATT	61.922	60.000	0.00	0.00	0.00	2.32
1555	1926	3.076182	AGTTCACCTCCTCCTAGACTGAA	59.924	47.826	0.00	0.00	0.00	3.02
1574	1945	4.705519	ATGCGCCGCTTGTTGTGC	62.706	61.111	11.67	0.00	38.44	4.57
1599	1970	3.808466	TGTGGCTGTCTGATGTATCTC	57.192	47.619	0.00	0.00	0.00	2.75
1621	2003	2.072298	GCTGTTGACTCTGCTTACCTG	58.928	52.381	0.00	0.00	0.00	4.00
1624	2006	2.158827	TGTTGACTCTGCTTACCTGCAA	60.159	45.455	0.00	0.00	42.83	4.08
1625	2007	2.462456	TGACTCTGCTTACCTGCAAG	57.538	50.000	0.00	0.00	42.83	4.01
1627	2009	2.897326	TGACTCTGCTTACCTGCAAGTA	59.103	45.455	0.00	0.00	42.83	2.24
1628	2010	3.056536	TGACTCTGCTTACCTGCAAGTAG	60.057	47.826	0.00	0.00	42.83	2.57
1763	2164	4.336433	GCGGTTGTGGTACTACTACATCTA	59.664	45.833	21.41	0.00	39.34	1.98
1766	2167	6.039047	CGGTTGTGGTACTACTACATCTATGT	59.961	42.308	21.41	0.63	39.34	2.29
1769	2170	7.563888	TGTGGTACTACTACATCTATGTCAC	57.436	40.000	10.95	0.41	41.97	3.67
1770	2171	6.544931	TGTGGTACTACTACATCTATGTCACC	59.455	42.308	10.95	0.75	41.97	4.02
1778	2179	3.706698	ACATCTATGTCACCGATGTTCG	58.293	45.455	11.24	0.00	43.67	3.95
1833	2236	3.788333	ATACAGCCATGTTTGTGCATC	57.212	42.857	9.01	0.00	41.01	3.91
1843	2246	5.403166	CCATGTTTGTGCATCTGTGTTTTAG	59.597	40.000	0.00	0.00	0.00	1.85
1851	2254	3.304928	GCATCTGTGTTTTAGCTGCAAGT	60.305	43.478	1.02	0.00	37.28	3.16
1903	2318	5.172053	CGAATCTTGTTTTGCAAACTGAGAC	59.828	40.000	12.39	7.69	36.53	3.36
1910	2325	1.808411	TGCAAACTGAGACGGGATTC	58.192	50.000	0.00	0.00	0.00	2.52
1918	2333	1.819288	TGAGACGGGATTCAGAGTGAC	59.181	52.381	0.00	0.00	0.00	3.67
1924	2339	1.667724	GGGATTCAGAGTGACGCATTG	59.332	52.381	0.00	0.00	0.00	2.82
1929	2344	1.672356	AGAGTGACGCATTGCCACC	60.672	57.895	12.58	6.47	0.00	4.61
1958	2374	5.463724	GTGATTACTTCATTCCGACCTGATC	59.536	44.000	0.00	0.00	36.54	2.92
2076	2499	3.747099	ACTGAACGCATCTATGTTTGC	57.253	42.857	0.00	0.00	35.50	3.68
2081	2504	1.949525	ACGCATCTATGTTTGCCCATC	59.050	47.619	0.00	0.00	35.41	3.51
2089	2512	5.914033	TCTATGTTTGCCCATCTGTACTAC	58.086	41.667	0.00	0.00	0.00	2.73
2090	2513	3.343941	TGTTTGCCCATCTGTACTACC	57.656	47.619	0.00	0.00	0.00	3.18
2097	2522	4.130118	GCCCATCTGTACTACCATCTTTG	58.870	47.826	0.00	0.00	0.00	2.77
2110	2535	3.632145	ACCATCTTTGTGAACTGAACACC	59.368	43.478	0.00	0.00	37.45	4.16
2115	2540	0.179032	TGTGAACTGAACACCGCCAT	60.179	50.000	0.00	0.00	37.45	4.40
2208	2677	1.702182	TGGAGTGGAAATTGCTGCAA	58.298	45.000	18.43	18.43	0.00	4.08
2209	2678	1.340889	TGGAGTGGAAATTGCTGCAAC	59.659	47.619	18.51	4.37	0.00	4.17
2210	2679	1.615392	GGAGTGGAAATTGCTGCAACT	59.385	47.619	18.51	9.77	0.00	3.16
2240	2720	7.970061	GCAAACTGCTGATATGTGATTAAGAAA	59.030	33.333	0.00	0.00	40.96	2.52
2273	2790	5.557891	AGAAACTGCTTGTAATGATCTGC	57.442	39.130	0.00	0.00	0.00	4.26
2328	2853	2.095768	ACTCAATTTCCGCGTGTGATTG	60.096	45.455	4.92	10.02	0.00	2.67
2329	2854	0.984109	CAATTTCCGCGTGTGATTGC	59.016	50.000	4.92	0.00	0.00	3.56
2448	2973	4.564769	GTCGTTTTGCATTTCTTGTTGGAA	59.435	37.500	0.00	0.00	0.00	3.53
2481	3006	3.120041	GGTTCTAGAGCGATGCTTCTTC	58.880	50.000	0.05	0.00	39.88	2.87
2483	3008	2.017782	TCTAGAGCGATGCTTCTTCGT	58.982	47.619	0.00	0.00	39.88	3.85
2519	3044	5.582550	GCTGTTTACTGAAGAAAACTTGCT	58.417	37.500	0.00	0.00	36.70	3.91
2536	3061	1.751536	GCTTGCCGTTTTGTGCACAC	61.752	55.000	21.56	7.52	37.18	3.82
2537	3062	0.179140	CTTGCCGTTTTGTGCACACT	60.179	50.000	21.56	0.00	37.18	3.55
2538	3063	0.244994	TTGCCGTTTTGTGCACACTT	59.755	45.000	21.56	0.00	37.18	3.16
2539	3064	0.244994	TGCCGTTTTGTGCACACTTT	59.755	45.000	21.56	0.00	31.31	2.66
2548	3209	1.228245	TGCACACTTTGAGGAGGGC	60.228	57.895	0.00	0.00	0.00	5.19
2558	3219	1.298014	GAGGAGGGCCAAGTGACTG	59.702	63.158	6.18	0.00	36.29	3.51
2563	3224	1.968540	GGGCCAAGTGACTGTGAGC	60.969	63.158	4.39	0.00	0.00	4.26
2605	3266	1.447643	GCATGGCCTCGGTGTATCT	59.552	57.895	3.32	0.00	0.00	1.98
2614	3275	4.357996	GCCTCGGTGTATCTACTGTTTAC	58.642	47.826	0.00	0.00	0.00	2.01
2619	3280	8.192774	CCTCGGTGTATCTACTGTTTACAATTA	58.807	37.037	0.00	0.00	0.00	1.40
2661	3349	2.607892	GCTCGTGTGGTGCCAGTTC	61.608	63.158	0.00	0.00	0.00	3.01
2696	3387	1.511887	GTACAAGCAATGCGTGGCG	60.512	57.895	23.55	0.89	41.94	5.69
2768	3473	0.743345	CTTTCGATCCGGGGAACACC	60.743	60.000	0.00	0.00	39.11	4.16
2786	3491	1.595093	CCTGGCCCACAAATCGTTCC	61.595	60.000	0.00	0.00	0.00	3.62
2818	3523	9.813446	AAATACCAAAACAATTGTTTACCGTAA	57.187	25.926	31.18	17.52	46.47	3.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
19	20	3.073503	TGAGGGGCCTCTGATATTCAATG	59.926	47.826	11.93	0.00	43.12	2.82
26	27	0.937441	AGAGTGAGGGGCCTCTGATA	59.063	55.000	11.93	0.00	43.12	2.15
270	300	7.256756	CTCATTTTAGTGAGGAATGTCATCC	57.743	40.000	0.00	0.00	41.49	3.51
378	408	1.201414	GTTGGGAAATGCGGTTACCTG	59.799	52.381	0.00	0.00	0.00	4.00
379	409	1.541379	GTTGGGAAATGCGGTTACCT	58.459	50.000	0.00	0.00	0.00	3.08
397	428	1.343681	TGGCTACCGAATCCTAAGGGT	60.344	52.381	0.00	0.00	36.57	4.34
437	492	1.375140	CCACACAGCAGCACGAGAT	60.375	57.895	0.00	0.00	0.00	2.75
466	521	5.010012	CACAGGCTTACAACTTCTTCCATTT	59.990	40.000	0.00	0.00	0.00	2.32
674	738	5.181056	TCTTGCGAGATAAGCATTTTTCACA	59.819	36.000	0.00	0.00	44.74	3.58
676	740	5.878332	TCTTGCGAGATAAGCATTTTTCA	57.122	34.783	0.00	0.00	44.74	2.69
714	778	6.597672	CCAAACCTGTATATGAAGTACAAGCA	59.402	38.462	0.00	0.00	32.15	3.91
715	779	6.038271	CCCAAACCTGTATATGAAGTACAAGC	59.962	42.308	0.00	0.00	32.15	4.01
716	780	6.542370	CCCCAAACCTGTATATGAAGTACAAG	59.458	42.308	0.00	0.00	32.15	3.16
717	781	6.012333	ACCCCAAACCTGTATATGAAGTACAA	60.012	38.462	0.00	0.00	32.15	2.41
719	783	5.997843	ACCCCAAACCTGTATATGAAGTAC	58.002	41.667	0.00	0.00	0.00	2.73
720	784	6.328148	CCTACCCCAAACCTGTATATGAAGTA	59.672	42.308	0.00	0.00	0.00	2.24
721	785	5.132144	CCTACCCCAAACCTGTATATGAAGT	59.868	44.000	0.00	0.00	0.00	3.01
722	786	5.368523	TCCTACCCCAAACCTGTATATGAAG	59.631	44.000	0.00	0.00	0.00	3.02
723	787	5.290335	TCCTACCCCAAACCTGTATATGAA	58.710	41.667	0.00	0.00	0.00	2.57
724	788	4.898268	TCCTACCCCAAACCTGTATATGA	58.102	43.478	0.00	0.00	0.00	2.15
752	829	5.389778	TGCGAGTATATTTGCTTTGTTGTG	58.610	37.500	8.75	0.00	0.00	3.33
790	867	1.872237	GCATCGTAGAATAAGGCGCCA	60.872	52.381	31.54	9.64	43.58	5.69
791	868	0.790814	GCATCGTAGAATAAGGCGCC	59.209	55.000	21.89	21.89	43.58	6.53
792	869	0.790814	GGCATCGTAGAATAAGGCGC	59.209	55.000	0.00	0.00	43.58	6.53
799	917	3.470709	CACATCCAAGGCATCGTAGAAT	58.529	45.455	0.00	0.00	43.58	2.40
932	1050	1.152963	CGCTAATTGGTGGAGGGGG	60.153	63.158	0.00	0.00	0.00	5.40
1027	1392	2.328099	GCGTGAGTTTGCTGGAGGG	61.328	63.158	0.00	0.00	0.00	4.30
1555	1926	2.669569	ACAACAAGCGGCGCATCT	60.670	55.556	35.02	15.26	0.00	2.90
1574	1945	1.065636	ACATCAGACAGCCACATCTGG	60.066	52.381	1.66	0.00	42.25	3.86
1599	1970	2.072298	GGTAAGCAGAGTCAACAGCAG	58.928	52.381	0.00	0.00	0.00	4.24
1621	2003	6.756299	ACTACTACCACTACTTCTACTTGC	57.244	41.667	0.00	0.00	0.00	4.01
1624	2006	6.593382	CACGAACTACTACCACTACTTCTACT	59.407	42.308	0.00	0.00	0.00	2.57
1625	2007	6.370166	ACACGAACTACTACCACTACTTCTAC	59.630	42.308	0.00	0.00	0.00	2.59
1627	2009	5.180868	CACACGAACTACTACCACTACTTCT	59.819	44.000	0.00	0.00	0.00	2.85
1628	2010	5.388944	CACACGAACTACTACCACTACTTC	58.611	45.833	0.00	0.00	0.00	3.01
1717	2115	8.562892	CCGCAACATTTTCTAGATAGATTTCAT	58.437	33.333	0.00	0.00	31.40	2.57
1763	2164	4.707030	TTAGTACGAACATCGGTGACAT	57.293	40.909	0.65	0.00	45.59	3.06
1766	2167	3.129813	AGCATTAGTACGAACATCGGTGA	59.870	43.478	0.65	0.00	45.59	4.02
1769	2170	2.794910	CCAGCATTAGTACGAACATCGG	59.205	50.000	4.66	0.00	45.59	4.18
1770	2171	2.218759	GCCAGCATTAGTACGAACATCG	59.781	50.000	0.00	0.00	46.93	3.84
1778	2179	6.106673	TGAGTAGAAAAGCCAGCATTAGTAC	58.893	40.000	0.00	0.00	0.00	2.73
1826	2229	3.902261	CAGCTAAAACACAGATGCACA	57.098	42.857	0.00	0.00	0.00	4.57
1833	2236	5.696724	ACTACTACTTGCAGCTAAAACACAG	59.303	40.000	0.00	0.00	0.00	3.66
1843	2246	2.649331	TCCGAACTACTACTTGCAGC	57.351	50.000	0.00	0.00	0.00	5.25
1851	2254	4.693283	CAATCAGCCATTCCGAACTACTA	58.307	43.478	0.00	0.00	0.00	1.82
1903	2318	0.179100	ATGCGTCACTCTGAATCCCG	60.179	55.000	0.00	0.00	0.00	5.14
1910	2325	1.499056	GTGGCAATGCGTCACTCTG	59.501	57.895	7.25	0.00	0.00	3.35
1918	2333	2.819595	ACTAGCGGTGGCAATGCG	60.820	61.111	0.00	0.00	43.41	4.73
1924	2339	2.202566	GAAGTAATCACTAGCGGTGGC	58.797	52.381	11.72	2.83	45.38	5.01
1929	2344	4.441415	GTCGGAATGAAGTAATCACTAGCG	59.559	45.833	0.00	0.00	41.93	4.26
1946	2362	2.225382	TGGTACAGATCAGGTCGGAA	57.775	50.000	0.00	0.00	0.00	4.30
1958	2374	7.120285	TAGTACAAGCACTTACTACTGGTACAG	59.880	40.741	9.04	0.00	44.45	2.74
2076	2499	5.104941	TCACAAAGATGGTAGTACAGATGGG	60.105	44.000	2.06	0.00	0.00	4.00
2081	2504	6.455647	TCAGTTCACAAAGATGGTAGTACAG	58.544	40.000	2.06	0.00	0.00	2.74
2089	2512	3.303990	CGGTGTTCAGTTCACAAAGATGG	60.304	47.826	0.00	0.00	37.52	3.51
2090	2513	3.849645	GCGGTGTTCAGTTCACAAAGATG	60.850	47.826	0.00	0.00	37.52	2.90
2097	2522	0.238289	CATGGCGGTGTTCAGTTCAC	59.762	55.000	0.00	0.00	35.36	3.18
2110	2535	7.224375	TATCATCAGATTGCCAAACATGGCG	62.224	44.000	14.55	0.88	45.29	5.69
2115	2540	5.653330	ACACATATCATCAGATTGCCAAACA	59.347	36.000	0.00	0.00	35.67	2.83
2125	2594	9.889128	TTCAACAAAGATACACATATCATCAGA	57.111	29.630	0.00	0.00	39.91	3.27
2245	2725	9.453572	AGATCATTACAAGCAGTTTCTTAATCA	57.546	29.630	0.00	0.00	0.00	2.57
2246	2726	9.713740	CAGATCATTACAAGCAGTTTCTTAATC	57.286	33.333	0.00	0.00	0.00	1.75
2247	2727	8.186821	GCAGATCATTACAAGCAGTTTCTTAAT	58.813	33.333	0.00	0.00	0.00	1.40
2248	2728	7.362056	GGCAGATCATTACAAGCAGTTTCTTAA	60.362	37.037	0.00	0.00	0.00	1.85
2249	2729	6.094048	GGCAGATCATTACAAGCAGTTTCTTA	59.906	38.462	0.00	0.00	0.00	2.10
2250	2730	5.105997	GGCAGATCATTACAAGCAGTTTCTT	60.106	40.000	0.00	0.00	0.00	2.52
2251	2731	4.397417	GGCAGATCATTACAAGCAGTTTCT	59.603	41.667	0.00	0.00	0.00	2.52
2252	2732	4.156556	TGGCAGATCATTACAAGCAGTTTC	59.843	41.667	0.00	0.00	0.00	2.78
2253	2733	4.081406	TGGCAGATCATTACAAGCAGTTT	58.919	39.130	0.00	0.00	0.00	2.66
2254	2734	3.689347	TGGCAGATCATTACAAGCAGTT	58.311	40.909	0.00	0.00	0.00	3.16
2255	2735	3.354948	TGGCAGATCATTACAAGCAGT	57.645	42.857	0.00	0.00	0.00	4.40
2256	2736	3.630769	ACATGGCAGATCATTACAAGCAG	59.369	43.478	0.00	0.00	0.00	4.24
2267	2784	0.799534	GCGCAAACACATGGCAGATC	60.800	55.000	0.30	0.00	0.00	2.75
2273	2790	0.661187	GTGACAGCGCAAACACATGG	60.661	55.000	11.47	0.00	34.05	3.66
2328	2853	1.067693	GCAAGGCAAACGTTAATGGC	58.932	50.000	16.39	16.39	42.00	4.40
2329	2854	1.671556	GGGCAAGGCAAACGTTAATGG	60.672	52.381	0.00	0.00	0.00	3.16
2448	2973	4.932200	CGCTCTAGAACCTCATCTTGTTTT	59.068	41.667	0.00	0.00	0.00	2.43
2457	2982	1.769026	AGCATCGCTCTAGAACCTCA	58.231	50.000	0.00	0.00	30.62	3.86
2481	3006	6.299966	CAGTAAACAGCGAGAAAATAAACACG	59.700	38.462	0.00	0.00	0.00	4.49
2483	3008	7.485418	TCAGTAAACAGCGAGAAAATAAACA	57.515	32.000	0.00	0.00	0.00	2.83
2519	3044	0.244994	AAGTGTGCACAAAACGGCAA	59.755	45.000	23.59	0.00	42.45	4.52
2536	3061	0.401738	TCACTTGGCCCTCCTCAAAG	59.598	55.000	0.00	0.00	0.00	2.77
2537	3062	0.110486	GTCACTTGGCCCTCCTCAAA	59.890	55.000	0.00	0.00	0.00	2.69
2538	3063	0.768221	AGTCACTTGGCCCTCCTCAA	60.768	55.000	0.00	0.00	0.00	3.02
2539	3064	1.152030	AGTCACTTGGCCCTCCTCA	60.152	57.895	0.00	0.00	0.00	3.86
2548	3209	0.315251	TCTCGCTCACAGTCACTTGG	59.685	55.000	0.00	0.00	0.00	3.61
2563	3224	1.202188	TGTCGCTTGAGCTATGTCTCG	60.202	52.381	1.07	0.00	39.32	4.04
2605	3266	7.535940	GCTGAACGCAAATAATTGTAAACAGTA	59.464	33.333	0.00	0.00	38.85	2.74
2614	3275	6.974622	AGGAATTAGCTGAACGCAAATAATTG	59.025	34.615	0.00	0.00	42.61	2.32
2619	3280	3.063997	CGAGGAATTAGCTGAACGCAAAT	59.936	43.478	0.00	0.00	42.61	2.32
2661	3349	4.460471	TGTACGTATTGTGCAGTTTGTG	57.540	40.909	0.00	0.00	38.35	3.33
2696	3387	6.820656	TCTCCTTCAGAATCTGTTTCTATTGC	59.179	38.462	10.36	0.00	42.98	3.56
2768	3473	0.893270	TGGAACGATTTGTGGGCCAG	60.893	55.000	6.40	0.00	0.00	4.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.