AutoCloner

Multiple sequence alignment - TraesCS5B01G478300

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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	TraesCS5B01G478300	chr5B	100.000	2563	0	0	1	2563	650133721	650131159	0.000000e+00	4734.0
1	TraesCS5B01G478300	chr5B	87.054	448	37	11	312	742	650125227	650124784	1.070000e-133	486.0
2	TraesCS5B01G478300	chr5B	81.738	564	67	26	883	1426	650046272	650045725	3.030000e-119	438.0
3	TraesCS5B01G478300	chr5B	81.553	309	29	12	1180	1475	650053410	650053117	1.980000e-56	230.0
4	TraesCS5B01G478300	chr5B	84.416	231	14	8	854	1068	650124735	650124511	9.290000e-50	207.0
5	TraesCS5B01G478300	chr5B	97.222	36	1	0	267	302	650125259	650125224	7.660000e-06	62.1
6	TraesCS5B01G478300	chr5D	91.892	851	53	9	1	849	517601537	517600701	0.000000e+00	1175.0
7	TraesCS5B01G478300	chr5D	93.902	574	33	2	857	1429	517600503	517599931	0.000000e+00	865.0
8	TraesCS5B01G478300	chr5D	85.219	433	50	9	267	695	517591977	517591555	1.410000e-117	433.0
9	TraesCS5B01G478300	chr5D	87.052	363	17	13	1511	1843	517599921	517599559	1.440000e-102	383.0
10	TraesCS5B01G478300	chr5D	90.431	209	19	1	1181	1388	517521472	517521264	9.030000e-70	274.0
11	TraesCS5B01G478300	chr5D	88.688	221	14	6	854	1068	517591296	517591081	2.530000e-65	259.0
12	TraesCS5B01G478300	chr5D	82.589	224	15	12	883	1097	517521783	517521575	2.620000e-40	176.0
13	TraesCS5B01G478300	chr1A	91.781	657	52	2	1851	2507	480740251	480740905	0.000000e+00	913.0
14	TraesCS5B01G478300	chr1A	85.335	716	85	7	1851	2563	583665474	583666172	0.000000e+00	723.0
15	TraesCS5B01G478300	chr1A	83.468	617	92	10	1932	2543	564120486	564121097	1.330000e-157	566.0
16	TraesCS5B01G478300	chr2B	87.338	695	87	1	1868	2561	535282840	535283534	0.000000e+00	795.0
17	TraesCS5B01G478300	chr2B	77.491	542	110	12	2008	2543	734404790	734405325	5.320000e-82	315.0
18	TraesCS5B01G478300	chr1D	87.500	688	82	4	1874	2559	109822135	109822820	0.000000e+00	791.0
19	TraesCS5B01G478300	chr4D	86.676	713	73	8	1851	2563	212154109	212154799	0.000000e+00	771.0
20	TraesCS5B01G478300	chr4D	88.148	540	60	3	2023	2561	308364865	308365401	7.730000e-180	640.0
21	TraesCS5B01G478300	chr5A	89.950	597	39	7	854	1429	644923378	644922782	0.000000e+00	750.0
22	TraesCS5B01G478300	chr5A	90.929	463	31	8	4	456	645001782	645001321	1.690000e-171	612.0
23	TraesCS5B01G478300	chr5A	84.219	621	89	8	1938	2556	591306581	591307194	1.700000e-166	595.0
24	TraesCS5B01G478300	chr5A	87.605	476	45	9	267	737	644921160	644920694	8.070000e-150	540.0
25	TraesCS5B01G478300	chr5A	83.778	450	34	19	1437	1848	644922622	644922174	8.600000e-105	390.0
26	TraesCS5B01G478300	chr5A	90.795	239	10	8	619	849	644923780	644923546	2.480000e-80	309.0
27	TraesCS5B01G478300	chr5A	91.038	212	16	2	1180	1388	644910779	644910568	1.500000e-72	283.0
28	TraesCS5B01G478300	chr5A	88.060	67	7	1	1356	1421	644998570	644998504	7.600000e-11	78.7
29	TraesCS5B01G478300	chr6B	85.455	715	99	5	1851	2563	485882425	485883136	0.000000e+00	739.0

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	TraesCS5B01G478300	chr5B	650131159	650133721	2562	True	4734.000000	4734	100.000000	1	2563	1	chr5B.!!$R3	2562
1	TraesCS5B01G478300	chr5B	650045725	650046272	547	True	438.000000	438	81.738000	883	1426	1	chr5B.!!$R1	543
2	TraesCS5B01G478300	chr5B	650124511	650125259	748	True	251.700000	486	89.564000	267	1068	3	chr5B.!!$R4	801
3	TraesCS5B01G478300	chr5D	517599559	517601537	1978	True	807.666667	1175	90.948667	1	1843	3	chr5D.!!$R3	1842
4	TraesCS5B01G478300	chr5D	517591081	517591977	896	True	346.000000	433	86.953500	267	1068	2	chr5D.!!$R2	801
5	TraesCS5B01G478300	chr5D	517521264	517521783	519	True	225.000000	274	86.510000	883	1388	2	chr5D.!!$R1	505
6	TraesCS5B01G478300	chr1A	480740251	480740905	654	False	913.000000	913	91.781000	1851	2507	1	chr1A.!!$F1	656
7	TraesCS5B01G478300	chr1A	583665474	583666172	698	False	723.000000	723	85.335000	1851	2563	1	chr1A.!!$F3	712
8	TraesCS5B01G478300	chr1A	564120486	564121097	611	False	566.000000	566	83.468000	1932	2543	1	chr1A.!!$F2	611
9	TraesCS5B01G478300	chr2B	535282840	535283534	694	False	795.000000	795	87.338000	1868	2561	1	chr2B.!!$F1	693
10	TraesCS5B01G478300	chr2B	734404790	734405325	535	False	315.000000	315	77.491000	2008	2543	1	chr2B.!!$F2	535
11	TraesCS5B01G478300	chr1D	109822135	109822820	685	False	791.000000	791	87.500000	1874	2559	1	chr1D.!!$F1	685
12	TraesCS5B01G478300	chr4D	212154109	212154799	690	False	771.000000	771	86.676000	1851	2563	1	chr4D.!!$F1	712
13	TraesCS5B01G478300	chr4D	308364865	308365401	536	False	640.000000	640	88.148000	2023	2561	1	chr4D.!!$F2	538
14	TraesCS5B01G478300	chr5A	591306581	591307194	613	False	595.000000	595	84.219000	1938	2556	1	chr5A.!!$F1	618
15	TraesCS5B01G478300	chr5A	644920694	644923780	3086	True	497.250000	750	88.032000	267	1848	4	chr5A.!!$R2	1581
16	TraesCS5B01G478300	chr5A	644998504	645001782	3278	True	345.350000	612	89.494500	4	1421	2	chr5A.!!$R3	1417
17	TraesCS5B01G478300	chr6B	485882425	485883136	711	False	739.000000	739	85.455000	1851	2563	1	chr6B.!!$F1	712

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
166	167	0.028374	GCAAGTAAACGCACAACCGT	59.972	50.0	0.0	0.0	44.41	4.83	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1905	4402	0.25064	CTTCCTGCACTTCCAGCTGT	60.251	55.0	13.81	0.0	0.0	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
142	143	0.457443	TGCTGATGCTACAGAGTCGG	59.543	55.000	13.22	0.00	39.94	4.79
153	154	0.317160	CAGAGTCGGTGGTGCAAGTA	59.683	55.000	0.00	0.00	0.00	2.24
159	160	1.777030	CGGTGGTGCAAGTAAACGCA	61.777	55.000	0.00	0.00	35.30	5.24
166	167	0.028374	GCAAGTAAACGCACAACCGT	59.972	50.000	0.00	0.00	44.41	4.83
269	270	2.417933	CTGAGGATTGAAAACTGAGCGG	59.582	50.000	0.00	0.00	0.00	5.52
345	348	5.480772	GGATGTATGTATGTAGTAGCTGGGT	59.519	44.000	0.00	0.00	0.00	4.51
369	372	4.229876	GTGCAAAAGAGTCTGGTTTATGC	58.770	43.478	0.00	0.00	0.00	3.14
457	478	4.960938	TGGCTATGATGGTATGAGTTGAC	58.039	43.478	0.00	0.00	0.00	3.18
514	535	2.163818	TGTTCCGGTGTTGTGATCTC	57.836	50.000	0.00	0.00	0.00	2.75
529	550	1.069049	GATCTCTCTCTGGAAGCAGCC	59.931	57.143	0.00	0.00	0.00	4.85
533	554	2.125350	CTCTGGAAGCAGCCGTCC	60.125	66.667	5.86	5.86	39.71	4.79
534	555	2.922503	TCTGGAAGCAGCCGTCCA	60.923	61.111	13.60	13.60	45.53	4.02
535	556	2.743928	CTGGAAGCAGCCGTCCAC	60.744	66.667	10.80	0.00	43.36	4.02
557	686	1.451028	GTCCATCTCTGTGGGCTGC	60.451	63.158	0.00	0.00	40.74	5.25
563	692	4.314440	TCTGTGGGCTGCCGTGAC	62.314	66.667	13.40	9.70	0.00	3.67
567	696	2.359850	TGGGCTGCCGTGACAATC	60.360	61.111	13.40	0.00	0.00	2.67
591	725	1.428869	GGTAGCCCATCTCTGTGGAT	58.571	55.000	0.00	0.00	42.02	3.41
594	728	0.549950	AGCCCATCTCTGTGGATTGG	59.450	55.000	0.00	0.00	42.02	3.16
595	729	0.548031	GCCCATCTCTGTGGATTGGA	59.452	55.000	0.00	0.00	42.02	3.53
599	733	2.421107	CCATCTCTGTGGATTGGAGTGG	60.421	54.545	0.00	0.00	42.02	4.00
615	749	2.673368	GAGTGGTAATTCACTGGAAGCG	59.327	50.000	4.62	0.00	46.76	4.68
631	765	3.023949	GCGGCTCCATCTCTGTGGT	62.024	63.158	0.00	0.00	40.27	4.16
636	770	1.405256	GCTCCATCTCTGTGGTCTGTG	60.405	57.143	0.00	0.00	40.27	3.66
703	841	1.538047	TTCATTGGAAGCAGCTGTCC	58.462	50.000	16.64	15.68	0.00	4.02
830	974	3.612423	GGCGCCATGTTAACTTTGATTTC	59.388	43.478	24.80	0.00	0.00	2.17
873	1262	4.051237	TCATTGATAGATGACGCCGAAAG	58.949	43.478	0.00	0.00	31.35	2.62
894	1285	7.223582	CGAAAGTTGGCATGCTATATATAGAGG	59.776	40.741	21.65	11.32	32.05	3.69
928	1323	1.380403	TTTGGGCAGACACAACCACG	61.380	55.000	0.00	0.00	31.65	4.94
935	1330	1.327460	CAGACACAACCACGACACAAG	59.673	52.381	0.00	0.00	0.00	3.16
1077	1491	2.029518	CTCGCACACTCACAGGCA	59.970	61.111	0.00	0.00	0.00	4.75
1084	1498	3.233980	ACTCACAGGCAGCGGACA	61.234	61.111	0.00	0.00	0.00	4.02
1136	1580	2.855180	TCGTCGTCGTTCCAATTACTC	58.145	47.619	1.33	0.00	38.33	2.59
1173	1617	1.062587	GCAACGTCTGATTCCATTCCG	59.937	52.381	0.00	0.00	0.00	4.30
1426	3726	2.644555	ATCGATGTCGGGCCGGAAAG	62.645	60.000	27.98	14.02	40.29	2.62
1429	3729	0.529992	GATGTCGGGCCGGAAAGTAG	60.530	60.000	27.98	0.00	0.00	2.57
1431	3731	0.611618	TGTCGGGCCGGAAAGTAGTA	60.612	55.000	27.98	0.00	0.00	1.82
1432	3732	0.101939	GTCGGGCCGGAAAGTAGTAG	59.898	60.000	27.98	0.00	0.00	2.57
1433	3733	0.323725	TCGGGCCGGAAAGTAGTAGT	60.324	55.000	27.98	0.00	0.00	2.73
1434	3734	1.064758	TCGGGCCGGAAAGTAGTAGTA	60.065	52.381	27.98	0.00	0.00	1.82
1484	3938	2.639286	GCAGAGCCGTTGTGGTTG	59.361	61.111	0.00	0.00	41.21	3.77
1486	3940	0.882927	GCAGAGCCGTTGTGGTTGTA	60.883	55.000	0.00	0.00	41.21	2.41
1487	3941	0.865769	CAGAGCCGTTGTGGTTGTAC	59.134	55.000	0.00	0.00	41.21	2.90
1488	3942	0.466543	AGAGCCGTTGTGGTTGTACA	59.533	50.000	0.00	0.00	41.21	2.90
1490	3944	1.196808	GAGCCGTTGTGGTTGTACATG	59.803	52.381	0.00	0.00	41.21	3.21
1491	3945	0.386731	GCCGTTGTGGTTGTACATGC	60.387	55.000	0.00	0.00	41.21	4.06
1493	3947	1.539388	CCGTTGTGGTTGTACATGCAT	59.461	47.619	0.00	0.00	0.00	3.96
1494	3948	2.583739	CGTTGTGGTTGTACATGCATG	58.416	47.619	25.09	25.09	0.00	4.06
1495	3949	2.031245	CGTTGTGGTTGTACATGCATGT	60.031	45.455	33.20	33.20	44.48	3.21
1496	3950	3.564511	GTTGTGGTTGTACATGCATGTC	58.435	45.455	34.54	24.41	41.97	3.06
1498	3952	2.813172	TGTGGTTGTACATGCATGTCTG	59.187	45.455	34.54	9.80	41.97	3.51
1499	3953	2.813754	GTGGTTGTACATGCATGTCTGT	59.186	45.455	34.54	15.76	41.97	3.41
1500	3954	3.073678	TGGTTGTACATGCATGTCTGTC	58.926	45.455	34.54	21.98	41.97	3.51
1502	3956	1.358877	TGTACATGCATGTCTGTCGC	58.641	50.000	34.54	18.23	41.97	5.19
1503	3957	0.652592	GTACATGCATGTCTGTCGCC	59.347	55.000	34.54	11.76	41.97	5.54
1645	4138	6.150976	TGGTAGGCATTACAGTGATTCAAAAG	59.849	38.462	0.00	0.00	33.73	2.27
1721	4215	9.109393	GTGTGATATGTTTGTACTGTCCAATAT	57.891	33.333	0.00	0.00	0.00	1.28
1742	4236	3.347411	CGGTGAACGGATCCTTCTC	57.653	57.895	10.75	12.42	39.42	2.87
1778	4272	5.638596	ATATGTACAGTTGTCACACTCGA	57.361	39.130	0.33	0.00	0.00	4.04
1781	4275	2.890808	ACAGTTGTCACACTCGATGT	57.109	45.000	0.00	0.00	44.81	3.06
1796	4290	5.661458	ACTCGATGTGACTCGGAATAATTT	58.339	37.500	5.01	0.00	39.13	1.82
1848	4342	5.820926	TTTGCATCAAAGATACAAAACGC	57.179	34.783	3.56	0.00	0.00	4.84
1878	4372	0.402121	AGGGGAAAGGCTCACAACTC	59.598	55.000	0.00	0.00	0.00	3.01
1898	4392	2.158871	TCCTGTTAACTGACGGCAAAGT	60.159	45.455	13.56	0.00	0.00	2.66
1905	4402	0.250295	CTGACGGCAAAGTGGGAGAA	60.250	55.000	0.00	0.00	0.00	2.87
1916	4413	0.398318	GTGGGAGAACAGCTGGAAGT	59.602	55.000	19.93	0.00	35.30	3.01
1918	4415	0.957888	GGGAGAACAGCTGGAAGTGC	60.958	60.000	19.93	4.65	35.30	4.40
1925	4422	0.250640	CAGCTGGAAGTGCAGGAAGT	60.251	55.000	5.57	0.00	35.30	3.01
1929	4426	2.551071	GCTGGAAGTGCAGGAAGTAAGT	60.551	50.000	1.81	0.00	35.30	2.24
2021	4518	4.666512	ACAGTTTCTATGGACTTGGCAAT	58.333	39.130	0.00	0.00	0.00	3.56
2036	4533	1.455587	CAATATTGGCGGCCCCTGT	60.456	57.895	17.97	2.11	0.00	4.00
2138	5032	1.501582	GGGAGGTCTTGAGGTGCTAT	58.498	55.000	0.00	0.00	0.00	2.97
2145	5039	4.080863	AGGTCTTGAGGTGCTATAAACCAG	60.081	45.833	6.95	0.00	40.40	4.00
2146	5040	4.192317	GTCTTGAGGTGCTATAAACCAGG	58.808	47.826	6.95	0.00	40.40	4.45
2148	5042	3.627395	TGAGGTGCTATAAACCAGGTG	57.373	47.619	0.00	0.00	40.40	4.00
2150	5044	3.270877	GAGGTGCTATAAACCAGGTGTG	58.729	50.000	0.00	0.00	40.40	3.82
2151	5045	1.743394	GGTGCTATAAACCAGGTGTGC	59.257	52.381	0.00	0.00	37.65	4.57
2220	5474	6.373005	TGATGACAAAGTTAGGATTCCAGA	57.627	37.500	5.29	0.00	0.00	3.86
2284	5639	3.498397	GTGATGTTTTGGAGAAGCGAGAA	59.502	43.478	0.00	0.00	0.00	2.87
2363	5820	0.546267	AGGAGTGGAGATGCACTGGT	60.546	55.000	11.99	0.00	0.00	4.00
2433	5890	0.817654	TAGATCACTGCACCAGGTCG	59.182	55.000	0.00	0.00	35.51	4.79
2459	5916	1.305213	CCCCTGGATGGTGTTTGGG	60.305	63.158	0.00	0.00	34.68	4.12
2543	6023	1.737838	TGCAAGGGTTTAGAGATGCG	58.262	50.000	0.00	0.00	36.62	4.73

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
153	154	3.894947	GCCCACGGTTGTGCGTTT	61.895	61.111	0.00	0.00	45.04	3.60
166	167	3.083349	CTCCTCCATGTCCGCCCA	61.083	66.667	0.00	0.00	0.00	5.36
269	270	2.002586	CACCTCAACATCATCCGTCAC	58.997	52.381	0.00	0.00	0.00	3.67
345	348	2.325583	AACCAGACTCTTTTGCACGA	57.674	45.000	0.00	0.00	0.00	4.35
369	372	0.606401	AATCCTCCACTTGCCACACG	60.606	55.000	0.00	0.00	0.00	4.49
439	451	5.069119	AGCGAAGTCAACTCATACCATCATA	59.931	40.000	0.00	0.00	0.00	2.15
457	478	3.804325	ACAATGATGGATAACGAGCGAAG	59.196	43.478	0.00	0.00	0.00	3.79
514	535	1.153667	GACGGCTGCTTCCAGAGAG	60.154	63.158	0.00	0.00	41.77	3.20
529	550	1.032657	AGAGATGGACTCCGTGGACG	61.033	60.000	0.00	0.00	45.96	4.79
533	554	3.729356	CACAGAGATGGACTCCGTG	57.271	57.895	0.00	0.00	44.20	4.94
534	555	0.972983	CCCACAGAGATGGACTCCGT	60.973	60.000	0.00	0.00	45.96	4.69
535	556	1.819229	CCCACAGAGATGGACTCCG	59.181	63.158	0.00	0.00	45.96	4.63
557	686	0.459585	CTACCGGTGGATTGTCACGG	60.460	60.000	19.93	0.00	38.46	4.94
563	692	0.535102	GATGGGCTACCGGTGGATTG	60.535	60.000	23.78	5.61	40.75	2.67
567	696	1.762460	AGAGATGGGCTACCGGTGG	60.762	63.158	19.93	17.17	40.75	4.61
591	725	4.651778	CTTCCAGTGAATTACCACTCCAA	58.348	43.478	0.00	0.00	44.87	3.53
594	728	2.673368	CGCTTCCAGTGAATTACCACTC	59.327	50.000	0.00	0.00	44.87	3.51
599	733	1.666189	GAGCCGCTTCCAGTGAATTAC	59.334	52.381	0.00	0.00	0.00	1.89
615	749	0.177604	CAGACCACAGAGATGGAGCC	59.822	60.000	0.00	0.00	43.02	4.70
670	808	6.792250	GCTTCCAATGAATTATTATCACGACG	59.208	38.462	0.00	0.00	0.00	5.12
703	841	0.972983	ACCACAGAGATGGACTCCCG	60.973	60.000	0.00	0.00	45.96	5.14
849	997	3.578688	TCGGCGTCATCTATCAATGATG	58.421	45.455	6.85	0.00	42.89	3.07
850	998	3.942130	TCGGCGTCATCTATCAATGAT	57.058	42.857	6.85	0.00	37.93	2.45
851	999	3.726291	TTCGGCGTCATCTATCAATGA	57.274	42.857	6.85	0.00	33.30	2.57
852	1000	3.804325	ACTTTCGGCGTCATCTATCAATG	59.196	43.478	6.85	0.00	0.00	2.82
873	1262	6.098982	ACTCCCTCTATATATAGCATGCCAAC	59.901	42.308	15.66	0.00	0.00	3.77
894	1285	1.541588	CCCAAAGCTACAAGCAACTCC	59.458	52.381	1.22	0.00	45.56	3.85
928	1323	2.416547	CGTGGAATGATGGTCTTGTGTC	59.583	50.000	0.00	0.00	0.00	3.67
935	1330	1.134699	TCTGCTCGTGGAATGATGGTC	60.135	52.381	0.00	0.00	0.00	4.02
964	1359	1.087501	CTAAACTTGCTCTTCCCGGC	58.912	55.000	0.00	0.00	0.00	6.13
1077	1491	3.741476	GTACCGTCCGTGTCCGCT	61.741	66.667	0.00	0.00	0.00	5.52
1084	1498	2.369870	CGTAGTACGTACCGTCCGT	58.630	57.895	21.80	5.15	41.54	4.69
1173	1617	1.007336	AAATCGTCTGCACGGTCGAC	61.007	55.000	7.13	7.13	46.70	4.20
1298	1744	2.046314	AATGTCTTCACGGGGCGG	60.046	61.111	0.00	0.00	0.00	6.13
1313	1759	0.541863	GTCCATCTCCACACCGGAAT	59.458	55.000	9.46	0.00	45.75	3.01
1484	3938	0.652592	GGCGACAGACATGCATGTAC	59.347	55.000	31.45	22.87	41.95	2.90
1486	3940	0.536724	TAGGCGACAGACATGCATGT	59.463	50.000	31.82	31.82	45.16	3.21
1487	3941	0.933097	GTAGGCGACAGACATGCATG	59.067	55.000	25.09	25.09	0.00	4.06
1488	3942	0.528466	CGTAGGCGACAGACATGCAT	60.528	55.000	0.00	0.00	41.33	3.96
1490	3944	2.517450	GCGTAGGCGACAGACATGC	61.517	63.158	0.00	0.00	41.33	4.06
1491	3945	3.693245	GCGTAGGCGACAGACATG	58.307	61.111	0.00	0.00	41.33	3.21
1502	3956	1.302511	AGTTGTTGCTGGGCGTAGG	60.303	57.895	0.00	0.00	0.00	3.18
1503	3957	0.884704	ACAGTTGTTGCTGGGCGTAG	60.885	55.000	0.00	0.00	40.59	3.51
1551	4013	5.023533	ACGGAGCAACATCAACTATATGT	57.976	39.130	0.00	0.00	39.22	2.29
1552	4014	7.658179	ATTACGGAGCAACATCAACTATATG	57.342	36.000	0.00	0.00	0.00	1.78
1645	4138	9.547753	TGAGCAGAGACCATATATAAACTTTTC	57.452	33.333	0.00	0.00	0.00	2.29
1704	4198	6.591062	TCACCGTTATATTGGACAGTACAAAC	59.409	38.462	1.16	0.00	0.00	2.93
1721	4215	2.165030	GAGAAGGATCCGTTCACCGTTA	59.835	50.000	19.67	0.00	33.66	3.18
1742	4236	4.627058	TGTACATATATGCTTGACCACCG	58.373	43.478	12.79	0.00	0.00	4.94
1778	4272	7.812669	GGAAAACAAAATTATTCCGAGTCACAT	59.187	33.333	0.00	0.00	32.72	3.21
1781	4275	7.278461	TGGAAAACAAAATTATTCCGAGTCA	57.722	32.000	0.00	0.00	43.41	3.41
1784	4278	7.938563	TGTTGGAAAACAAAATTATTCCGAG	57.061	32.000	0.00	0.00	43.41	4.63
1796	4290	8.581578	GGAGTTTATCCTTATGTTGGAAAACAA	58.418	33.333	15.53	0.00	45.64	2.83
1843	4337	1.614317	CCCCTGATCCTTCTTGCGTTT	60.614	52.381	0.00	0.00	0.00	3.60
1848	4342	2.947695	GCCTTTCCCCTGATCCTTCTTG	60.948	54.545	0.00	0.00	0.00	3.02
1878	4372	2.032030	CACTTTGCCGTCAGTTAACAGG	60.032	50.000	8.61	6.71	0.00	4.00
1898	4392	0.397941	CACTTCCAGCTGTTCTCCCA	59.602	55.000	13.81	0.00	0.00	4.37
1905	4402	0.250640	CTTCCTGCACTTCCAGCTGT	60.251	55.000	13.81	0.00	0.00	4.40
1916	4413	5.280011	CCTCCTTTCTTACTTACTTCCTGCA	60.280	44.000	0.00	0.00	0.00	4.41
1918	4415	6.437793	TCTCCTCCTTTCTTACTTACTTCCTG	59.562	42.308	0.00	0.00	0.00	3.86
1925	4422	5.520751	CCTCCTCTCCTCCTTTCTTACTTA	58.479	45.833	0.00	0.00	0.00	2.24
1929	4426	2.022918	CCCCTCCTCTCCTCCTTTCTTA	60.023	54.545	0.00	0.00	0.00	2.10
2021	4518	2.274104	GAACAGGGGCCGCCAATA	59.726	61.111	17.56	0.00	0.00	1.90
2055	4555	5.964477	AGTTCCACCCTAAGAGTATCATTGA	59.036	40.000	0.00	0.00	37.82	2.57
2138	5032	5.186021	TGAAAGAAAAAGCACACCTGGTTTA	59.814	36.000	0.00	0.00	45.36	2.01
2145	5039	3.796844	GCCTCTGAAAGAAAAAGCACACC	60.797	47.826	0.00	0.00	46.34	4.16
2146	5040	3.181487	TGCCTCTGAAAGAAAAAGCACAC	60.181	43.478	0.00	0.00	46.34	3.82
2148	5042	3.181487	TGTGCCTCTGAAAGAAAAAGCAC	60.181	43.478	4.92	4.92	46.34	4.40
2150	5044	3.375642	GTGTGCCTCTGAAAGAAAAAGC	58.624	45.455	0.00	0.00	46.34	3.51
2151	5045	3.633986	AGGTGTGCCTCTGAAAGAAAAAG	59.366	43.478	0.00	0.00	46.34	2.27
2220	5474	1.379977	TCGGATCGACCAGCCTCTT	60.380	57.895	0.00	0.00	38.90	2.85
2234	5488	3.224324	GCCCTACCATCGCTCGGA	61.224	66.667	0.00	0.00	0.00	4.55
2284	5639	8.402472	TCGTAACATCAAGTTTTGTGATTTTCT	58.598	29.630	0.00	0.00	41.64	2.52
2363	5820	2.569853	TCTTGCCGGTTCTCCATAGAAA	59.430	45.455	1.90	0.00	43.30	2.52
2433	5890	2.196776	CATCCAGGGGGCATCCAC	59.803	66.667	0.00	0.00	37.22	4.02
2459	5916	7.807907	TGAGCAAAAAGAATCTCGTTAAAATCC	59.192	33.333	0.00	0.00	0.00	3.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.