AutoCloner

Multiple sequence alignment - TraesCS7D01G253000

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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	TraesCS7D01G253000	chr7D	100.000	3461	0	0	1	3461	228832480	228829020	0.000000e+00	6392.0
1	TraesCS7D01G253000	chr7D	92.912	522	26	7	1	513	236283547	236283028	0.000000e+00	749.0
2	TraesCS7D01G253000	chr7D	92.939	524	21	7	1	513	335965698	335965180	0.000000e+00	749.0
3	TraesCS7D01G253000	chr7D	92.871	519	27	5	1	513	480722862	480722348	0.000000e+00	745.0
4	TraesCS7D01G253000	chr7D	78.947	171	32	4	500	668	303269485	303269653	2.820000e-21	113.0
5	TraesCS7D01G253000	chr1A	94.178	1958	83	15	501	2442	481772058	481770116	0.000000e+00	2955.0
6	TraesCS7D01G253000	chr1A	96.825	1008	20	3	2465	3461	481769857	481768851	0.000000e+00	1674.0
7	TraesCS7D01G253000	chr1A	84.545	110	14	3	498	605	254392438	254392546	4.720000e-19	106.0
8	TraesCS7D01G253000	chr4D	93.856	1953	97	11	500	2437	179042780	179044724	0.000000e+00	2920.0
9	TraesCS7D01G253000	chr4D	97.024	1008	17	4	2467	3461	179044994	179046001	0.000000e+00	1683.0
10	TraesCS7D01G253000	chr4D	93.090	521	23	10	1	513	397453234	397452719	0.000000e+00	750.0
11	TraesCS7D01G253000	chr2B	92.026	1969	131	13	501	2449	261155500	261153538	0.000000e+00	2743.0
12	TraesCS7D01G253000	chr2B	94.721	1004	38	5	2469	3461	261153279	261152280	0.000000e+00	1546.0
13	TraesCS7D01G253000	chr2B	94.000	150	9	0	547	696	752950367	752950516	9.660000e-56	228.0
14	TraesCS7D01G253000	chr6A	96.925	1008	20	2	2465	3461	595781030	595780023	0.000000e+00	1679.0
15	TraesCS7D01G253000	chr6A	92.231	901	50	10	492	1379	595784612	595783719	0.000000e+00	1258.0
16	TraesCS7D01G253000	chr6A	96.897	580	15	3	1864	2442	595781871	595781294	0.000000e+00	968.0
17	TraesCS7D01G253000	chr6A	95.096	469	22	1	1397	1864	595782451	595781983	0.000000e+00	737.0
18	TraesCS7D01G253000	chr1D	93.654	520	23	6	1	513	221955866	221956382	0.000000e+00	769.0
19	TraesCS7D01G253000	chr1D	92.748	524	25	10	1	513	284744115	284743594	0.000000e+00	745.0
20	TraesCS7D01G253000	chr6D	93.436	518	28	3	1	513	365883439	365883955	0.000000e+00	763.0
21	TraesCS7D01G253000	chr5D	93.282	521	23	9	1	513	549254590	549255106	0.000000e+00	758.0
22	TraesCS7D01G253000	chr5D	93.064	519	24	8	1	513	141452306	141451794	0.000000e+00	749.0
23	TraesCS7D01G253000	chr5D	86.577	149	17	3	922	1069	524451343	524451197	9.940000e-36	161.0
24	TraesCS7D01G253000	chr5A	88.760	258	14	8	696	940	404928098	404928353	5.610000e-78	302.0
25	TraesCS7D01G253000	chr7A	88.372	258	16	6	696	940	173545811	173546067	7.260000e-77	298.0
26	TraesCS7D01G253000	chr5B	88.327	257	15	8	696	940	396846381	396846128	9.390000e-76	294.0
27	TraesCS7D01G253000	chr5B	87.938	257	16	8	696	940	396852244	396851991	4.370000e-74	289.0
28	TraesCS7D01G253000	chr5B	80.531	113	18	3	1413	1523	288301144	288301034	2.210000e-12	84.2
29	TraesCS7D01G253000	chr1B	91.919	198	15	1	498	695	518175240	518175044	3.400000e-70	276.0
30	TraesCS7D01G253000	chr4B	83.333	114	19	0	500	613	588703087	588703200	4.720000e-19	106.0

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	TraesCS7D01G253000	chr7D	228829020	228832480	3460	True	6392.0	6392	100.00000	1	3461	1	chr7D.!!$R1	3460
1	TraesCS7D01G253000	chr7D	236283028	236283547	519	True	749.0	749	92.91200	1	513	1	chr7D.!!$R2	512
2	TraesCS7D01G253000	chr7D	335965180	335965698	518	True	749.0	749	92.93900	1	513	1	chr7D.!!$R3	512
3	TraesCS7D01G253000	chr7D	480722348	480722862	514	True	745.0	745	92.87100	1	513	1	chr7D.!!$R4	512
4	TraesCS7D01G253000	chr1A	481768851	481772058	3207	True	2314.5	2955	95.50150	501	3461	2	chr1A.!!$R1	2960
5	TraesCS7D01G253000	chr4D	179042780	179046001	3221	False	2301.5	2920	95.44000	500	3461	2	chr4D.!!$F1	2961
6	TraesCS7D01G253000	chr4D	397452719	397453234	515	True	750.0	750	93.09000	1	513	1	chr4D.!!$R1	512
7	TraesCS7D01G253000	chr2B	261152280	261155500	3220	True	2144.5	2743	93.37350	501	3461	2	chr2B.!!$R1	2960
8	TraesCS7D01G253000	chr6A	595780023	595784612	4589	True	1160.5	1679	95.28725	492	3461	4	chr6A.!!$R1	2969
9	TraesCS7D01G253000	chr1D	221955866	221956382	516	False	769.0	769	93.65400	1	513	1	chr1D.!!$F1	512
10	TraesCS7D01G253000	chr1D	284743594	284744115	521	True	745.0	745	92.74800	1	513	1	chr1D.!!$R1	512
11	TraesCS7D01G253000	chr6D	365883439	365883955	516	False	763.0	763	93.43600	1	513	1	chr6D.!!$F1	512
12	TraesCS7D01G253000	chr5D	549254590	549255106	516	False	758.0	758	93.28200	1	513	1	chr5D.!!$F1	512
13	TraesCS7D01G253000	chr5D	141451794	141452306	512	True	749.0	749	93.06400	1	513	1	chr5D.!!$R1	512

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	Hairpin	End Stability	Orientation
807	846	0.392461	TACACTCGAAGCCCATTGCC	60.392	55.0	0.00	42.71	4.52	F
1165	1207	0.177604	GTGCACTCCCCTCATCTCTG	59.822	60.0	10.32	0.00	3.35	F
1526	2834	0.534412	AGGATCTGCACAAGAGGACG	59.466	55.0	0.00	38.67	4.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	End Stability	Orientation
2169	3595	0.830444	TCTGCGGGGTAGTCTTGTGT	60.830	55.000	3.72	R
2347	3775	1.818674	GGCATGAGAAAATGGACGGTT	59.181	47.619	4.44	R
2527	4198	2.376808	ACTCAGCAATCCTTGTCTCG	57.623	50.000	4.04	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
115	118	3.199442	TGTCCCAGTGAGGAAAGGATA	57.801	47.619	2.30	0.00	41.22	2.59
162	173	1.123928	GGGATGAGACTCCGGACAAT	58.876	55.000	0.00	0.00	36.05	2.71
253	278	6.096846	GGACAATGCTAATCCTTTTACCACAT	59.903	38.462	0.00	0.00	0.00	3.21
377	403	3.454719	TTTCAATGATGGGCTTCCTCA	57.545	42.857	0.00	0.00	0.00	3.86
481	508	1.474879	TCGAGTGTATCCGTTGCATGA	59.525	47.619	0.00	0.00	0.00	3.07
493	520	3.009723	CGTTGCATGACAATCCCTACTT	58.990	45.455	0.00	0.00	41.27	2.24
557	584	3.317406	TCTCAGGCCATTAGCATTCCTA	58.683	45.455	5.01	0.00	46.50	2.94
806	845	1.448985	TTACACTCGAAGCCCATTGC	58.551	50.000	0.00	0.00	41.71	3.56
807	846	0.392461	TACACTCGAAGCCCATTGCC	60.392	55.000	0.00	0.00	42.71	4.52
808	847	2.044946	ACTCGAAGCCCATTGCCC	60.045	61.111	0.00	0.00	42.71	5.36
809	848	2.045045	CTCGAAGCCCATTGCCCA	60.045	61.111	0.00	0.00	42.71	5.36
810	849	2.361104	TCGAAGCCCATTGCCCAC	60.361	61.111	0.00	0.00	42.71	4.61
811	850	3.814268	CGAAGCCCATTGCCCACG	61.814	66.667	0.00	0.00	42.71	4.94
817	856	2.361610	CCATTGCCCACGAAGCCT	60.362	61.111	0.00	0.00	0.00	4.58
954	996	1.985662	CCCCGCTGGTAGGTACACA	60.986	63.158	0.00	0.00	0.00	3.72
1106	1148	1.134367	CGGCGTTCTCCTACATCTCAA	59.866	52.381	0.00	0.00	0.00	3.02
1107	1149	2.223829	CGGCGTTCTCCTACATCTCAAT	60.224	50.000	0.00	0.00	0.00	2.57
1111	1153	4.678044	GCGTTCTCCTACATCTCAATGACA	60.678	45.833	0.00	0.00	36.67	3.58
1150	1192	3.411446	CTGAGGTAGTTGAATTGGTGCA	58.589	45.455	0.00	0.00	0.00	4.57
1165	1207	0.177604	GTGCACTCCCCTCATCTCTG	59.822	60.000	10.32	0.00	0.00	3.35
1338	1396	3.760684	AGACAAGCAACATTGGAGGAATC	59.239	43.478	0.00	0.00	34.36	2.52
1474	2782	6.102663	CACAAAGAGGTCAGTTATCTCGATT	58.897	40.000	0.00	0.00	40.60	3.34
1481	2789	2.499693	TCAGTTATCTCGATTGGTGCCA	59.500	45.455	0.00	0.00	0.00	4.92
1526	2834	0.534412	AGGATCTGCACAAGAGGACG	59.466	55.000	0.00	0.00	38.67	4.79
1528	2836	1.476891	GGATCTGCACAAGAGGACGTA	59.523	52.381	0.00	0.00	38.67	3.57
1539	2847	3.367646	AGAGGACGTATCTCTGGACAA	57.632	47.619	17.00	0.00	39.83	3.18
1542	2850	1.822990	GGACGTATCTCTGGACAACCA	59.177	52.381	0.00	0.00	44.76	3.67
1692	3001	6.607735	TCCGTGTTAAGAAAGTAAGGTTTG	57.392	37.500	0.00	0.00	0.00	2.93
1701	3010	7.476540	AAGAAAGTAAGGTTTGTCTTTTGGT	57.523	32.000	0.00	0.00	31.56	3.67
1756	3065	3.130340	CCAAACAGGGCGCTTATATTGTT	59.870	43.478	7.64	6.63	0.00	2.83
1842	3152	5.047188	GCTCTTGAGTTATTCTCTACCAGC	58.953	45.833	0.00	0.00	43.13	4.85
1968	3393	8.862325	TTATCAAGCTGACCAAATTTCTCTTA	57.138	30.769	0.00	0.00	0.00	2.10
2081	3507	9.376075	CTGACTGTGAGAGTATCATTTACAATT	57.624	33.333	0.00	0.00	40.92	2.32
2280	3706	1.963464	ATGTTACCCACCCGGCTACG	61.963	60.000	0.00	0.00	40.55	3.51
2439	3867	1.773856	TTGTCCTTGGCACCATCGGA	61.774	55.000	4.57	4.57	0.00	4.55
2440	3868	1.224592	GTCCTTGGCACCATCGGAT	59.775	57.895	10.38	0.00	31.69	4.18
2442	3870	0.107214	TCCTTGGCACCATCGGATTC	60.107	55.000	4.57	0.00	0.00	2.52
2443	3871	0.394216	CCTTGGCACCATCGGATTCA	60.394	55.000	0.00	0.00	0.00	2.57
2444	3872	1.683943	CTTGGCACCATCGGATTCAT	58.316	50.000	0.00	0.00	0.00	2.57
2445	3873	1.335810	CTTGGCACCATCGGATTCATG	59.664	52.381	0.00	0.00	0.00	3.07
2447	3875	0.179020	GGCACCATCGGATTCATGGA	60.179	55.000	7.05	0.00	43.32	3.41
2448	3876	1.233019	GCACCATCGGATTCATGGAG	58.767	55.000	7.05	0.67	43.32	3.86
2449	3877	1.233019	CACCATCGGATTCATGGAGC	58.767	55.000	7.05	0.00	43.32	4.70
2450	3878	0.839277	ACCATCGGATTCATGGAGCA	59.161	50.000	7.05	0.00	43.32	4.26
2451	3879	1.212688	ACCATCGGATTCATGGAGCAA	59.787	47.619	7.05	0.00	43.32	3.91
2452	3880	1.605710	CCATCGGATTCATGGAGCAAC	59.394	52.381	0.00	0.00	43.32	4.17
2453	3881	2.291365	CATCGGATTCATGGAGCAACA	58.709	47.619	0.00	0.00	0.00	3.33
2454	3882	2.488204	TCGGATTCATGGAGCAACAA	57.512	45.000	0.00	0.00	0.00	2.83
2455	3883	2.789213	TCGGATTCATGGAGCAACAAA	58.211	42.857	0.00	0.00	0.00	2.83
2456	3884	2.487762	TCGGATTCATGGAGCAACAAAC	59.512	45.455	0.00	0.00	0.00	2.93
2457	3885	2.228582	CGGATTCATGGAGCAACAAACA	59.771	45.455	0.00	0.00	0.00	2.83
2458	3886	3.119388	CGGATTCATGGAGCAACAAACAT	60.119	43.478	0.00	0.00	0.00	2.71
2459	3887	4.178540	GGATTCATGGAGCAACAAACATG	58.821	43.478	0.00	0.00	41.44	3.21
2460	3888	4.082081	GGATTCATGGAGCAACAAACATGA	60.082	41.667	0.00	0.00	45.53	3.07
2461	3889	5.394883	GGATTCATGGAGCAACAAACATGAT	60.395	40.000	0.00	0.00	46.18	2.45
2462	3890	4.443913	TCATGGAGCAACAAACATGATG	57.556	40.909	0.00	0.09	43.23	3.07
2463	3891	2.728690	TGGAGCAACAAACATGATGC	57.271	45.000	0.00	3.23	37.78	3.91
2572	4243	6.466812	CAAAGGATTGTAATTTTGGCCTTCT	58.533	36.000	3.32	0.00	33.45	2.85
2590	4261	5.588240	CCTTCTGTACTATTGATGTGCGTA	58.412	41.667	0.00	0.00	0.00	4.42
2595	4266	9.589111	TTCTGTACTATTGATGTGCGTATTTTA	57.411	29.630	0.00	0.00	0.00	1.52
2689	4360	7.557719	CACTGATAATAGGAACAGGAATGGTTT	59.442	37.037	0.00	0.00	35.08	3.27
2889	4560	6.454795	ACAACTTGGCAATAAAATAGTGGTG	58.545	36.000	0.00	0.00	0.00	4.17

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
92	94	3.526899	TCCTTTCCTCACTGGGACAATA	58.473	45.455	0.00	0.00	38.70	1.90
115	118	3.395941	GTGGGGGAATCATAGTCTCCATT	59.604	47.826	0.00	0.00	37.38	3.16
168	179	6.820152	GCATTTTCTCTTTTATGGCCTCATTT	59.180	34.615	3.32	0.00	34.96	2.32
169	180	6.343703	GCATTTTCTCTTTTATGGCCTCATT	58.656	36.000	3.32	0.00	34.96	2.57
170	181	5.163374	GGCATTTTCTCTTTTATGGCCTCAT	60.163	40.000	3.32	0.00	37.53	2.90
171	182	4.160252	GGCATTTTCTCTTTTATGGCCTCA	59.840	41.667	3.32	0.00	37.53	3.86
359	385	3.454719	TTTGAGGAAGCCCATCATTGA	57.545	42.857	0.00	0.00	33.88	2.57
377	403	3.081804	CACGAAGACCTAGGGCAATTTT	58.918	45.455	19.45	0.95	0.00	1.82
453	480	5.516996	CAACGGATACACTCGAGCTATAAA	58.483	41.667	13.61	0.00	0.00	1.40
481	508	8.375493	TCTAAATGTGAGTAAGTAGGGATTGT	57.625	34.615	0.00	0.00	0.00	2.71
557	584	2.028476	TGAAACTGATGATCGGACGGTT	60.028	45.455	8.51	5.41	35.10	4.44
806	845	3.741476	GCTTGCAGGCTTCGTGGG	61.741	66.667	14.45	0.00	0.00	4.61
807	846	2.979676	TGCTTGCAGGCTTCGTGG	60.980	61.111	22.31	0.00	0.00	4.94
808	847	2.253452	GTGCTTGCAGGCTTCGTG	59.747	61.111	22.31	0.00	0.00	4.35
809	848	3.349006	CGTGCTTGCAGGCTTCGT	61.349	61.111	22.31	0.00	0.00	3.85
810	849	4.748679	GCGTGCTTGCAGGCTTCG	62.749	66.667	26.36	23.82	33.66	3.79
811	850	4.410743	GGCGTGCTTGCAGGCTTC	62.411	66.667	30.12	16.81	36.36	3.86
817	856	4.704833	GAGAGGGGCGTGCTTGCA	62.705	66.667	3.25	0.00	36.28	4.08
942	984	2.490509	CGTGTCTGATGTGTACCTACCA	59.509	50.000	0.00	0.00	0.00	3.25
945	987	2.094906	GTGCGTGTCTGATGTGTACCTA	60.095	50.000	0.00	0.00	0.00	3.08
954	996	2.573869	CCCTCGTGCGTGTCTGAT	59.426	61.111	0.00	0.00	0.00	2.90
1135	1177	2.554344	GGGGAGTGCACCAATTCAACTA	60.554	50.000	14.63	0.00	37.60	2.24
1171	1213	0.725133	AAGAGGATGGGGGAAGAGGA	59.275	55.000	0.00	0.00	0.00	3.71
1183	1225	4.039339	AGCAATGAGGAAGAGAAGAGGAT	58.961	43.478	0.00	0.00	0.00	3.24
1474	2782	1.152984	CCTGAGTTGTGTGGCACCA	60.153	57.895	16.26	9.91	32.73	4.17
1481	2789	1.194781	ATCTCCGGCCTGAGTTGTGT	61.195	55.000	22.01	4.06	33.93	3.72
1526	2834	3.008049	ACTTGGTGGTTGTCCAGAGATAC	59.992	47.826	0.00	0.00	45.24	2.24
1528	2836	2.057922	ACTTGGTGGTTGTCCAGAGAT	58.942	47.619	0.00	0.00	45.24	2.75
1539	2847	0.179056	CACGGAGAACACTTGGTGGT	60.179	55.000	2.75	0.00	37.94	4.16
1542	2850	1.045407	TAGCACGGAGAACACTTGGT	58.955	50.000	0.00	0.00	0.00	3.67
1605	2913	6.914757	GTGCTCCTTATGCATTTCAGATTTAC	59.085	38.462	3.54	0.00	42.69	2.01
1692	3001	4.192429	AGCATATGCCAAACCAAAAGAC	57.808	40.909	23.96	0.00	43.38	3.01
1701	3010	3.018856	CACCTGAGAAGCATATGCCAAA	58.981	45.455	23.96	5.16	43.38	3.28
1750	3059	8.089625	TGGAGGAGTGATCTCAATTAACAATA	57.910	34.615	0.00	0.00	42.05	1.90
1756	3065	6.669591	TCTTCTTGGAGGAGTGATCTCAATTA	59.330	38.462	0.00	0.00	42.05	1.40
1804	3114	7.224522	ACTCAAGAGCTAGCATTTGATTTTT	57.775	32.000	24.94	12.93	0.00	1.94
1842	3152	3.287867	ACAAAGGAGTGGATATGCAGG	57.712	47.619	0.00	0.00	0.00	4.85
2010	3436	7.122055	ACTTGAAGAACGGGCAATCAAATTATA	59.878	33.333	0.00	0.00	30.37	0.98
2023	3449	2.357637	TGCTCAAAACTTGAAGAACGGG	59.642	45.455	0.00	0.00	39.58	5.28
2081	3507	4.774660	TGTGTGTGGTACCTCCTTTTAA	57.225	40.909	14.36	0.00	37.07	1.52
2169	3595	0.830444	TCTGCGGGGTAGTCTTGTGT	60.830	55.000	0.00	0.00	0.00	3.72
2231	3657	2.423898	ATCCGGTACTGCACCTCCG	61.424	63.158	0.00	10.52	46.19	4.63
2280	3706	2.777459	TCCTCCTCCCAGTTATCCTC	57.223	55.000	0.00	0.00	0.00	3.71
2347	3775	1.818674	GGCATGAGAAAATGGACGGTT	59.181	47.619	0.00	0.00	0.00	4.44
2439	3867	5.416083	CATCATGTTTGTTGCTCCATGAAT	58.584	37.500	5.40	0.00	44.73	2.57
2440	3868	4.811908	CATCATGTTTGTTGCTCCATGAA	58.188	39.130	5.40	0.00	44.73	2.57
2442	3870	2.927477	GCATCATGTTTGTTGCTCCATG	59.073	45.455	0.00	0.00	42.66	3.66
2443	3871	3.241067	GCATCATGTTTGTTGCTCCAT	57.759	42.857	0.00	0.00	42.66	3.41
2444	3872	2.728690	GCATCATGTTTGTTGCTCCA	57.271	45.000	0.00	0.00	42.66	3.86
2448	3876	5.220340	GCATTCTAAGCATCATGTTTGTTGC	60.220	40.000	0.00	1.71	45.09	4.17
2449	3877	6.097356	AGCATTCTAAGCATCATGTTTGTTG	58.903	36.000	0.00	0.00	0.00	3.33
2450	3878	6.276832	AGCATTCTAAGCATCATGTTTGTT	57.723	33.333	0.00	0.00	0.00	2.83
2451	3879	5.909621	AGCATTCTAAGCATCATGTTTGT	57.090	34.783	0.00	0.00	0.00	2.83
2452	3880	5.518847	CCAAGCATTCTAAGCATCATGTTTG	59.481	40.000	0.00	0.00	37.50	2.93
2453	3881	5.394883	CCCAAGCATTCTAAGCATCATGTTT	60.395	40.000	0.00	0.00	0.00	2.83
2454	3882	4.098960	CCCAAGCATTCTAAGCATCATGTT	59.901	41.667	0.00	0.00	0.00	2.71
2455	3883	3.635373	CCCAAGCATTCTAAGCATCATGT	59.365	43.478	0.00	0.00	0.00	3.21
2456	3884	3.887110	TCCCAAGCATTCTAAGCATCATG	59.113	43.478	0.00	0.00	0.00	3.07
2457	3885	4.141321	TCTCCCAAGCATTCTAAGCATCAT	60.141	41.667	0.00	0.00	0.00	2.45
2458	3886	3.200605	TCTCCCAAGCATTCTAAGCATCA	59.799	43.478	0.00	0.00	0.00	3.07
2459	3887	3.813443	TCTCCCAAGCATTCTAAGCATC	58.187	45.455	0.00	0.00	0.00	3.91
2460	3888	3.939740	TCTCCCAAGCATTCTAAGCAT	57.060	42.857	0.00	0.00	0.00	3.79
2461	3889	3.939740	ATCTCCCAAGCATTCTAAGCA	57.060	42.857	0.00	0.00	0.00	3.91
2462	3890	4.202441	TGAATCTCCCAAGCATTCTAAGC	58.798	43.478	0.00	0.00	0.00	3.09
2463	3891	5.241064	CCATGAATCTCCCAAGCATTCTAAG	59.759	44.000	0.00	0.00	0.00	2.18
2527	4198	2.376808	ACTCAGCAATCCTTGTCTCG	57.623	50.000	0.00	0.00	0.00	4.04
2572	4243	9.535878	TGATAAAATACGCACATCAATAGTACA	57.464	29.630	0.00	0.00	0.00	2.90
2689	4360	7.763528	ACAAATATAAAAATGCTTCATCGGCAA	59.236	29.630	0.00	0.00	43.14	4.52

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.