AutoCloner

Multiple sequence alignment - TraesCS2D01G512100

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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	TraesCS2D01G512100	chr2D	100.000	3522	0	0	1	3522	603540123	603543644	0.000000e+00	6505.0
1	TraesCS2D01G512100	chr2D	88.901	955	78	19	2332	3267	603379712	603378767	0.000000e+00	1151.0
2	TraesCS2D01G512100	chr2D	90.888	867	56	11	2423	3271	603401347	603400486	0.000000e+00	1142.0
3	TraesCS2D01G512100	chr2D	89.195	907	56	17	2643	3518	603501268	603500373	0.000000e+00	1094.0
4	TraesCS2D01G512100	chr2D	89.290	775	51	20	815	1578	603403133	603402380	0.000000e+00	942.0
5	TraesCS2D01G512100	chr2D	87.651	826	64	22	773	1578	603381268	603380461	0.000000e+00	926.0
6	TraesCS2D01G512100	chr2D	89.072	668	46	22	1591	2248	603380406	603379756	0.000000e+00	804.0
7	TraesCS2D01G512100	chr2D	100.000	435	0	0	3829	4263	603543951	603544385	0.000000e+00	804.0
8	TraesCS2D01G512100	chr2D	82.609	529	56	18	18	536	603404152	603403650	6.550000e-118	435.0
9	TraesCS2D01G512100	chr2D	79.197	548	62	25	2	523	603382012	603381491	2.460000e-87	333.0
10	TraesCS2D01G512100	chr2D	91.176	102	9	0	4162	4263	603399500	603399399	5.750000e-29	139.0
11	TraesCS2D01G512100	chr2D	95.000	60	3	0	3280	3339	603400450	603400391	1.260000e-15	95.3
12	TraesCS2D01G512100	chr2A	90.383	1591	100	31	19	1582	735760476	735762040	0.000000e+00	2041.0
13	TraesCS2D01G512100	chr2A	89.550	1646	85	35	1917	3521	735762414	735764013	0.000000e+00	2006.0
14	TraesCS2D01G512100	chr2A	89.479	979	53	13	2339	3268	735601339	735600362	0.000000e+00	1192.0
15	TraesCS2D01G512100	chr2A	84.663	1141	96	32	2421	3518	735701929	735700825	0.000000e+00	1064.0
16	TraesCS2D01G512100	chr2A	86.681	901	67	28	815	1690	735603060	735602188	0.000000e+00	950.0
17	TraesCS2D01G512100	chr2A	91.886	456	31	6	967	1417	735703466	735703012	2.160000e-177	632.0
18	TraesCS2D01G512100	chr2A	89.011	455	25	5	3832	4263	735764083	735764535	1.350000e-149	540.0
19	TraesCS2D01G512100	chr2A	82.189	466	43	17	2	442	735603961	735603511	8.710000e-97	364.0
20	TraesCS2D01G512100	chr2A	96.639	119	4	0	1721	1839	735762290	735762408	9.350000e-47	198.0
21	TraesCS2D01G512100	chr2A	92.727	110	5	3	1581	1690	735762092	735762198	5.710000e-34	156.0
22	TraesCS2D01G512100	chr2A	84.076	157	6	7	2001	2156	735601606	735601468	2.670000e-27	134.0
23	TraesCS2D01G512100	chr2A	82.500	120	16	4	219	333	735704115	735703996	2.710000e-17	100.0
24	TraesCS2D01G512100	chr2B	86.277	1370	100	39	2184	3522	733891147	733889835	0.000000e+00	1408.0
25	TraesCS2D01G512100	chr2B	93.468	888	53	5	2376	3263	733859942	733859060	0.000000e+00	1314.0
26	TraesCS2D01G512100	chr2B	90.690	870	58	10	2423	3271	733971650	733970783	0.000000e+00	1136.0
27	TraesCS2D01G512100	chr2B	87.054	981	87	16	927	1889	733892305	733891347	0.000000e+00	1072.0
28	TraesCS2D01G512100	chr2B	87.847	864	67	20	2649	3485	734049224	734048372	0.000000e+00	979.0
29	TraesCS2D01G512100	chr2B	87.758	776	65	15	814	1578	733973432	733972676	0.000000e+00	880.0
30	TraesCS2D01G512100	chr2B	84.047	934	75	33	796	1694	733863039	733862145	0.000000e+00	832.0
31	TraesCS2D01G512100	chr2B	92.824	432	29	2	970	1401	734050940	734050511	3.620000e-175	625.0
32	TraesCS2D01G512100	chr2B	87.371	388	23	17	2001	2383	733861793	733861427	5.100000e-114	422.0
33	TraesCS2D01G512100	chr2B	89.969	319	23	4	19	335	733893046	733892735	1.850000e-108	403.0
34	TraesCS2D01G512100	chr2B	82.698	341	36	9	3846	4163	733889515	733889175	9.020000e-72	281.0
35	TraesCS2D01G512100	chr2B	79.229	467	45	25	19	472	733863622	733863195	1.170000e-70	278.0
36	TraesCS2D01G512100	chr2B	81.303	353	27	11	119	465	733973978	733973659	2.550000e-62	250.0
37	TraesCS2D01G512100	chr2B	83.691	233	14	9	1914	2142	733891354	733891142	9.350000e-47	198.0
38	TraesCS2D01G512100	chr2B	82.773	238	24	10	3291	3522	733969266	733969040	3.360000e-46	196.0
39	TraesCS2D01G512100	chr2B	76.038	313	42	21	1592	1874	733972618	733972309	9.620000e-27	132.0
40	TraesCS2D01G512100	chr2B	82.759	145	13	10	2055	2190	734049798	734049657	7.490000e-23	119.0
41	TraesCS2D01G512100	chr2B	83.459	133	7	9	2001	2132	733972039	733971921	4.510000e-20	110.0
42	TraesCS2D01G512100	chr2B	86.885	61	5	2	19	78	734052692	734052634	9.890000e-07	65.8
43	TraesCS2D01G512100	chr6A	100.000	33	0	0	4131	4163	508175932	508175964	1.280000e-05	62.1
44	TraesCS2D01G512100	chr4A	100.000	32	0	0	4132	4163	598742432	598742401	4.600000e-05	60.2
45	TraesCS2D01G512100	chr5A	100.000	30	0	0	4131	4160	572699969	572699998	5.950000e-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	TraesCS2D01G512100	chr2D	603540123	603544385	4262	False	3654.500000	6505	100.000000	1	4263	2	chr2D.!!$F1	4262
1	TraesCS2D01G512100	chr2D	603500373	603501268	895	True	1094.000000	1094	89.195000	2643	3518	1	chr2D.!!$R1	875
2	TraesCS2D01G512100	chr2D	603378767	603382012	3245	True	803.500000	1151	86.205250	2	3267	4	chr2D.!!$R2	3265
3	TraesCS2D01G512100	chr2D	603399399	603404152	4753	True	550.660000	1142	89.792600	18	4263	5	chr2D.!!$R3	4245
4	TraesCS2D01G512100	chr2A	735760476	735764535	4059	False	988.200000	2041	91.662000	19	4263	5	chr2A.!!$F1	4244
5	TraesCS2D01G512100	chr2A	735600362	735603961	3599	True	660.000000	1192	85.606250	2	3268	4	chr2A.!!$R1	3266
6	TraesCS2D01G512100	chr2A	735700825	735704115	3290	True	598.666667	1064	86.349667	219	3518	3	chr2A.!!$R2	3299
7	TraesCS2D01G512100	chr2B	733859060	733863622	4562	True	711.500000	1314	86.028750	19	3263	4	chr2B.!!$R1	3244
8	TraesCS2D01G512100	chr2B	733889175	733893046	3871	True	672.400000	1408	85.937800	19	4163	5	chr2B.!!$R2	4144
9	TraesCS2D01G512100	chr2B	733969040	733973978	4938	True	450.666667	1136	83.670167	119	3522	6	chr2B.!!$R3	3403
10	TraesCS2D01G512100	chr2B	734048372	734052692	4320	True	447.200000	979	87.578750	19	3485	4	chr2B.!!$R4	3466

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
849	2311	0.323087	AAATACGCCACCCTCCCAAC	60.323	55.0	0.0	0.0	0.0	3.77	F
1621	3336	0.327924	TGTGGATGATGTGTGGGGAC	59.672	55.0	0.0	0.0	0.0	4.46	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1690	3451	0.249676	AGAGTGCAGCTGGATGTGAG	59.750	55.0	17.12	0.0	0.0	3.51	R
3457	9205	0.107017	AGCCGTTGGATGAAGATGGG	60.107	55.0	0.00	0.0	0.0	4.00	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
58	61	1.213926	GAATCAGCCCACCAGGATCTT	59.786	52.381	0.00	0.00	38.24	2.40
59	62	1.302907	ATCAGCCCACCAGGATCTTT	58.697	50.000	0.00	0.00	38.24	2.52
483	1326	3.831333	TGCAAAATCTGATGCCAGGTAAA	59.169	39.130	0.00	0.00	41.87	2.01
524	1388	2.601367	AAATGCCCTGCCGTGCTT	60.601	55.556	0.00	0.00	0.00	3.91
614	1981	5.661312	TGTATAGTACTGGAAGGAACATGCT	59.339	40.000	5.39	0.00	39.30	3.79
657	2031	6.786967	TCCCTAGCGAAAGAATTAGTACTT	57.213	37.500	0.00	0.00	0.00	2.24
665	2039	7.492994	AGCGAAAGAATTAGTACTTCCTTCATC	59.507	37.037	0.00	4.62	0.00	2.92
712	2087	7.963981	ACAGACTTCAACATGAATTACATACG	58.036	34.615	0.00	0.00	35.59	3.06
737	2112	8.009974	CGGATGAAAATAAATGAATCTACGGTC	58.990	37.037	0.00	0.00	0.00	4.79
759	2134	9.798994	CGGTCTAAAACATGTCTATATATACCC	57.201	37.037	0.00	0.00	0.00	3.69
760	2135	9.798994	GGTCTAAAACATGTCTATATATACCCG	57.201	37.037	0.00	0.00	0.00	5.28
836	2298	3.105283	CCTCCCTCCCCCTATAAATACG	58.895	54.545	0.00	0.00	0.00	3.06
841	2303	1.980036	TCCCCCTATAAATACGCCACC	59.020	52.381	0.00	0.00	0.00	4.61
842	2304	1.003928	CCCCCTATAAATACGCCACCC	59.996	57.143	0.00	0.00	0.00	4.61
843	2305	1.982958	CCCCTATAAATACGCCACCCT	59.017	52.381	0.00	0.00	0.00	4.34
844	2306	2.027469	CCCCTATAAATACGCCACCCTC	60.027	54.545	0.00	0.00	0.00	4.30
845	2307	2.027469	CCCTATAAATACGCCACCCTCC	60.027	54.545	0.00	0.00	0.00	4.30
846	2308	2.027469	CCTATAAATACGCCACCCTCCC	60.027	54.545	0.00	0.00	0.00	4.30
847	2309	1.513858	ATAAATACGCCACCCTCCCA	58.486	50.000	0.00	0.00	0.00	4.37
848	2310	1.287217	TAAATACGCCACCCTCCCAA	58.713	50.000	0.00	0.00	0.00	4.12
849	2311	0.323087	AAATACGCCACCCTCCCAAC	60.323	55.000	0.00	0.00	0.00	3.77
850	2312	2.206182	AATACGCCACCCTCCCAACC	62.206	60.000	0.00	0.00	0.00	3.77
855	2317	2.946650	CACCCTCCCAACCCCCAT	60.947	66.667	0.00	0.00	0.00	4.00
956	2472	2.235898	GAGAGATCCAAGTGCCTTCAGT	59.764	50.000	0.00	0.00	0.00	3.41
1611	3326	2.839486	ACTTGACACGTGTGGATGAT	57.161	45.000	28.82	0.00	34.19	2.45
1621	3336	0.327924	TGTGGATGATGTGTGGGGAC	59.672	55.000	0.00	0.00	0.00	4.46
1622	3337	0.327924	GTGGATGATGTGTGGGGACA	59.672	55.000	0.00	0.00	38.70	4.02
1712	3602	2.005451	CACATCCAGCTGCACTCTTAC	58.995	52.381	8.66	0.00	0.00	2.34
1717	3609	2.072298	CCAGCTGCACTCTTACAAGAC	58.928	52.381	8.66	0.00	0.00	3.01
1718	3610	2.548707	CCAGCTGCACTCTTACAAGACA	60.549	50.000	8.66	0.00	0.00	3.41
1847	3869	4.935808	GGAGAAATGTGTGTACCAAGTAGG	59.064	45.833	0.00	0.00	45.67	3.18
1922	4239	1.663702	GGGTCTCGTGGTGACAACG	60.664	63.158	6.08	6.08	46.06	4.10
2261	4652	1.081641	CGCAAGAAGCAGTGGCAAG	60.082	57.895	0.00	0.00	46.13	4.01
2264	4655	1.067516	GCAAGAAGCAGTGGCAAGAAA	59.932	47.619	0.00	0.00	44.61	2.52
2265	4656	2.481795	GCAAGAAGCAGTGGCAAGAAAA	60.482	45.455	0.00	0.00	44.61	2.29
2270	4661	1.410153	AGCAGTGGCAAGAAAAAGTGG	59.590	47.619	0.00	0.00	44.61	4.00
2271	4662	1.408702	GCAGTGGCAAGAAAAAGTGGA	59.591	47.619	0.00	0.00	40.72	4.02
2272	4663	2.799562	GCAGTGGCAAGAAAAAGTGGAC	60.800	50.000	0.00	0.00	40.72	4.02
2273	4664	2.426738	CAGTGGCAAGAAAAAGTGGACA	59.573	45.455	0.00	0.00	0.00	4.02
2274	4665	3.096092	AGTGGCAAGAAAAAGTGGACAA	58.904	40.909	0.00	0.00	0.00	3.18
2275	4666	3.513515	AGTGGCAAGAAAAAGTGGACAAA	59.486	39.130	0.00	0.00	0.00	2.83
2276	4667	4.162131	AGTGGCAAGAAAAAGTGGACAAAT	59.838	37.500	0.00	0.00	0.00	2.32
2277	4668	4.875536	GTGGCAAGAAAAAGTGGACAAATT	59.124	37.500	0.00	0.00	0.00	1.82
2278	4669	5.353956	GTGGCAAGAAAAAGTGGACAAATTT	59.646	36.000	0.00	0.00	0.00	1.82
2279	4670	5.942826	TGGCAAGAAAAAGTGGACAAATTTT	59.057	32.000	0.00	0.00	0.00	1.82
2293	4684	3.260380	ACAAATTTTTCATGCCGGATCCA	59.740	39.130	13.41	0.00	0.00	3.41
2294	4685	4.080975	ACAAATTTTTCATGCCGGATCCAT	60.081	37.500	13.41	0.00	0.00	3.41
2295	4686	4.758773	AATTTTTCATGCCGGATCCATT	57.241	36.364	13.41	0.00	0.00	3.16
2296	4687	5.867903	AATTTTTCATGCCGGATCCATTA	57.132	34.783	13.41	0.00	0.00	1.90
2366	4774	2.661537	GCCGCCAAAACTTGTGCC	60.662	61.111	0.00	0.00	0.00	5.01
2446	6401	2.360475	GGACCAGGCCACTTGCTC	60.360	66.667	5.01	0.00	40.92	4.26
2500	6457	3.307906	CCACCCCGACCAACGAGA	61.308	66.667	0.00	0.00	45.77	4.04
2503	6460	1.532316	ACCCCGACCAACGAGAGAA	60.532	57.895	0.00	0.00	45.77	2.87
2519	6484	4.680172	CGAGAGAAAGCAACTGGATCTGAT	60.680	45.833	0.00	0.00	0.00	2.90
2594	6590	4.033817	GCGATCTTTATATGCATCCAGAGC	59.966	45.833	0.19	2.55	0.00	4.09
2605	6601	3.578282	TGCATCCAGAGCTAATTCGGATA	59.422	43.478	0.00	0.00	34.69	2.59
2606	6602	3.929610	GCATCCAGAGCTAATTCGGATAC	59.070	47.826	0.00	0.00	34.69	2.24
2611	6607	6.591935	TCCAGAGCTAATTCGGATACAAAAT	58.408	36.000	0.00	0.00	0.00	1.82
2612	6608	7.054124	TCCAGAGCTAATTCGGATACAAAATT	58.946	34.615	0.00	0.00	36.11	1.82
4084	9859	0.106708	GTTGGACTGCACTGACTCCA	59.893	55.000	0.00	0.00	0.00	3.86

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	2.544685	AGCTAGAGCATACAAACTGCG	58.455	47.619	4.01	0.00	44.38	5.18
10	11	3.181456	GGAATCCAGACAAGCTAGAGCAT	60.181	47.826	4.01	0.00	45.16	3.79
11	12	2.169352	GGAATCCAGACAAGCTAGAGCA	59.831	50.000	4.01	0.00	45.16	4.26
217	506	6.450545	TCCATGCAACAAAACGATCAATTTA	58.549	32.000	0.00	0.00	0.00	1.40
218	507	5.295950	TCCATGCAACAAAACGATCAATTT	58.704	33.333	0.00	0.00	0.00	1.82
220	509	4.517952	TCCATGCAACAAAACGATCAAT	57.482	36.364	0.00	0.00	0.00	2.57
483	1326	3.799432	TGGTTTGTAGTACAGGCCAAT	57.201	42.857	19.35	0.00	33.18	3.16
676	2051	9.681692	TCATGTTGAAGTCTGTAAAATGATTTG	57.318	29.630	0.00	0.00	0.00	2.32
694	2069	8.499403	TTTCATCCGTATGTAATTCATGTTGA	57.501	30.769	0.00	0.00	37.91	3.18
711	2086	7.861630	ACCGTAGATTCATTTATTTTCATCCG	58.138	34.615	0.00	0.00	0.00	4.18
712	2087	9.057089	AGACCGTAGATTCATTTATTTTCATCC	57.943	33.333	0.00	0.00	0.00	3.51
734	2109	9.798994	CGGGTATATATAGACATGTTTTAGACC	57.201	37.037	9.60	0.90	0.00	3.85
841	2303	1.935931	AAGGATGGGGGTTGGGAGG	60.936	63.158	0.00	0.00	0.00	4.30
842	2304	1.214305	TGAAGGATGGGGGTTGGGAG	61.214	60.000	0.00	0.00	0.00	4.30
843	2305	0.554865	ATGAAGGATGGGGGTTGGGA	60.555	55.000	0.00	0.00	0.00	4.37
844	2306	0.339510	AATGAAGGATGGGGGTTGGG	59.660	55.000	0.00	0.00	0.00	4.12
845	2307	1.689258	GGAATGAAGGATGGGGGTTGG	60.689	57.143	0.00	0.00	0.00	3.77
846	2308	1.006998	TGGAATGAAGGATGGGGGTTG	59.993	52.381	0.00	0.00	0.00	3.77
847	2309	1.392407	TGGAATGAAGGATGGGGGTT	58.608	50.000	0.00	0.00	0.00	4.11
848	2310	1.007118	GTTGGAATGAAGGATGGGGGT	59.993	52.381	0.00	0.00	0.00	4.95
849	2311	1.006998	TGTTGGAATGAAGGATGGGGG	59.993	52.381	0.00	0.00	0.00	5.40
850	2312	2.102578	GTGTTGGAATGAAGGATGGGG	58.897	52.381	0.00	0.00	0.00	4.96
851	2313	2.493278	GTGTGTTGGAATGAAGGATGGG	59.507	50.000	0.00	0.00	0.00	4.00
852	2314	3.057315	GTGTGTGTTGGAATGAAGGATGG	60.057	47.826	0.00	0.00	0.00	3.51
853	2315	3.057315	GGTGTGTGTTGGAATGAAGGATG	60.057	47.826	0.00	0.00	0.00	3.51
854	2316	3.157087	GGTGTGTGTTGGAATGAAGGAT	58.843	45.455	0.00	0.00	0.00	3.24
855	2317	2.092158	TGGTGTGTGTTGGAATGAAGGA	60.092	45.455	0.00	0.00	0.00	3.36
956	2472	1.544537	GGGTGGTGTGTTGCTATGTGA	60.545	52.381	0.00	0.00	0.00	3.58
1474	3078	7.832769	TGCACCCAGTTTATATTTTTCCTTAC	58.167	34.615	0.00	0.00	0.00	2.34
1582	3297	4.855388	CACACGTGTCAAGTACTGTATACC	59.145	45.833	20.49	0.00	0.00	2.73
1628	3343	0.882484	CACACATGGTGTACCGCACA	60.882	55.000	1.15	0.00	45.65	4.57
1690	3451	0.249676	AGAGTGCAGCTGGATGTGAG	59.750	55.000	17.12	0.00	0.00	3.51
1712	3602	3.354397	GAGCACGAAAAACTGTGTCTTG	58.646	45.455	0.00	0.00	38.36	3.02
1717	3609	0.304705	AGCGAGCACGAAAAACTGTG	59.695	50.000	8.01	0.00	42.66	3.66
1718	3610	0.582005	GAGCGAGCACGAAAAACTGT	59.418	50.000	8.01	0.00	42.66	3.55
1847	3869	4.639310	AGCTGGATGTGAAATCAACTCATC	59.361	41.667	0.00	0.00	37.46	2.92
2164	4550	9.213799	GTAATGAAAAATGGTGCCAGATAAAAA	57.786	29.630	0.00	0.00	0.00	1.94
2165	4551	8.592809	AGTAATGAAAAATGGTGCCAGATAAAA	58.407	29.630	0.00	0.00	0.00	1.52
2167	4553	7.716799	AGTAATGAAAAATGGTGCCAGATAA	57.283	32.000	0.00	0.00	0.00	1.75
2168	4554	7.395772	TGAAGTAATGAAAAATGGTGCCAGATA	59.604	33.333	0.00	0.00	0.00	1.98
2169	4555	6.211184	TGAAGTAATGAAAAATGGTGCCAGAT	59.789	34.615	0.00	0.00	0.00	2.90
2170	4556	5.538053	TGAAGTAATGAAAAATGGTGCCAGA	59.462	36.000	0.00	0.00	0.00	3.86
2261	4652	6.912051	GGCATGAAAAATTTGTCCACTTTTTC	59.088	34.615	5.90	14.29	43.86	2.29
2264	4655	4.511082	CGGCATGAAAAATTTGTCCACTTT	59.489	37.500	5.90	0.00	0.00	2.66
2265	4656	4.057432	CGGCATGAAAAATTTGTCCACTT	58.943	39.130	5.90	0.00	0.00	3.16
2270	4661	3.865164	GGATCCGGCATGAAAAATTTGTC	59.135	43.478	0.00	1.01	0.00	3.18
2271	4662	3.260380	TGGATCCGGCATGAAAAATTTGT	59.740	39.130	7.39	0.00	0.00	2.83
2272	4663	3.859443	TGGATCCGGCATGAAAAATTTG	58.141	40.909	7.39	0.00	0.00	2.32
2273	4664	4.758773	ATGGATCCGGCATGAAAAATTT	57.241	36.364	7.39	0.00	0.00	1.82
2274	4665	4.758773	AATGGATCCGGCATGAAAAATT	57.241	36.364	7.39	0.00	0.00	1.82
2275	4666	5.867903	TTAATGGATCCGGCATGAAAAAT	57.132	34.783	7.39	0.00	0.00	1.82
2276	4667	5.867903	ATTAATGGATCCGGCATGAAAAA	57.132	34.783	7.39	0.00	0.00	1.94
2277	4668	5.867903	AATTAATGGATCCGGCATGAAAA	57.132	34.783	7.39	0.00	0.00	2.29
2278	4669	6.239176	GGTTAATTAATGGATCCGGCATGAAA	60.239	38.462	7.39	0.00	0.00	2.69
2279	4670	5.242838	GGTTAATTAATGGATCCGGCATGAA	59.757	40.000	7.39	0.00	0.00	2.57
2293	4684	7.329746	TGCTAGCCATCCTAGGTTAATTAAT	57.670	36.000	13.29	0.00	43.15	1.40
2294	4685	6.744339	GCTGCTAGCCATCCTAGGTTAATTAA	60.744	42.308	13.29	0.00	43.15	1.40
2295	4686	5.280011	GCTGCTAGCCATCCTAGGTTAATTA	60.280	44.000	13.29	0.00	43.15	1.40
2296	4687	4.505742	GCTGCTAGCCATCCTAGGTTAATT	60.506	45.833	13.29	0.00	43.15	1.40
2446	6401	2.412112	GGATTCGTCGGACGGGAG	59.588	66.667	28.07	2.57	42.81	4.30
2500	6457	4.018597	AGGAATCAGATCCAGTTGCTTTCT	60.019	41.667	0.00	0.00	42.27	2.52
2503	6460	4.225942	TGTAGGAATCAGATCCAGTTGCTT	59.774	41.667	1.95	0.00	42.27	3.91
2519	6484	1.143183	GCGCCGGATTCTGTAGGAA	59.857	57.895	5.05	0.00	38.41	3.36
2548	6524	2.691409	TTCCTTTAGGCCACGAGATG	57.309	50.000	5.01	0.00	34.44	2.90
3151	7181	2.202797	CCAGACACGGCGATGAGG	60.203	66.667	16.62	4.72	0.00	3.86
3454	9202	1.290203	CGTTGGATGAAGATGGGACG	58.710	55.000	0.00	0.00	0.00	4.79
3457	9205	0.107017	AGCCGTTGGATGAAGATGGG	60.107	55.000	0.00	0.00	0.00	4.00
3834	9585	3.936203	AAACAGCACGCCGAGGGA	61.936	61.111	0.00	0.00	0.00	4.20
3836	9587	2.954753	GACAAACAGCACGCCGAGG	61.955	63.158	0.00	0.00	0.00	4.63
3838	9589	3.334751	CGACAAACAGCACGCCGA	61.335	61.111	0.00	0.00	0.00	5.54
4004	9778	2.715737	TGCATTTACTCGGTTTTGCC	57.284	45.000	0.00	0.00	0.00	4.52
4084	9859	6.866010	ACGTCCCTAAAAATAGAACGTTTT	57.134	33.333	0.46	0.00	0.00	2.43
4202	10047	4.681744	TCATTAAGGGCAAAAATGCGATC	58.318	39.130	0.00	0.00	35.24	3.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.