AutoCloner

Multiple sequence alignment - TraesCS6D01G367400

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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	TraesCS6D01G367400	chr6D	100.000	3799	0	0	1	3799	455249886	455253684	0.000000e+00	7016
1	TraesCS6D01G367400	chr6D	85.597	1951	182	52	726	2619	455133671	455135579	0.000000e+00	1954
2	TraesCS6D01G367400	chr6D	93.031	1148	37	15	1661	2782	455099165	455100295	0.000000e+00	1637
3	TraesCS6D01G367400	chr6D	91.496	682	31	15	2386	3061	455295218	455295878	0.000000e+00	913
4	TraesCS6D01G367400	chr6D	91.856	528	33	6	1158	1680	455098631	455099153	0.000000e+00	728
5	TraesCS6D01G367400	chr6D	90.970	299	23	2	830	1125	455098275	455098572	2.130000e-107	399
6	TraesCS6D01G367400	chr6D	80.325	493	70	16	1	482	455131155	455131631	7.810000e-92	348
7	TraesCS6D01G367400	chr6D	84.642	293	38	4	559	847	455097973	455098262	6.210000e-73	285
8	TraesCS6D01G367400	chr6B	92.253	3111	127	57	1	3063	692427088	692430132	0.000000e+00	4305
9	TraesCS6D01G367400	chr6B	82.981	2080	228	67	726	2735	692258672	692260695	0.000000e+00	1764
10	TraesCS6D01G367400	chr6B	88.095	1344	126	19	1290	2619	692338651	692339974	0.000000e+00	1565
11	TraesCS6D01G367400	chr6B	91.205	1137	44	27	1661	2782	692234337	692235432	0.000000e+00	1495
12	TraesCS6D01G367400	chr6B	83.170	921	89	36	544	1403	692233011	692233926	0.000000e+00	782
13	TraesCS6D01G367400	chr6B	95.150	433	12	4	865	1296	692337846	692338270	0.000000e+00	675
14	TraesCS6D01G367400	chr6B	90.909	264	19	4	1415	1677	692234062	692234321	2.170000e-92	350
15	TraesCS6D01G367400	chr6B	88.830	188	15	3	275	461	692335977	692336159	3.820000e-55	226
16	TraesCS6D01G367400	chr6A	92.073	3078	137	38	7	3063	601948970	601951961	0.000000e+00	4233
17	TraesCS6D01G367400	chr6A	84.864	2015	179	73	830	2778	601471949	601473903	0.000000e+00	1916
18	TraesCS6D01G367400	chr6A	84.743	1573	172	46	1077	2613	601872363	601873903	0.000000e+00	1513
19	TraesCS6D01G367400	chr6A	87.915	422	39	7	681	1099	601871918	601872330	1.590000e-133	486
20	TraesCS6D01G367400	chr5B	93.261	742	40	8	3060	3799	468002094	468001361	0.000000e+00	1085
21	TraesCS6D01G367400	chr7B	92.144	751	46	9	3059	3799	43563531	43564278	0.000000e+00	1048
22	TraesCS6D01G367400	chr7B	92.267	750	41	10	3052	3799	202772157	202772891	0.000000e+00	1048
23	TraesCS6D01G367400	chr4B	92.246	748	43	12	3057	3799	75441219	75440482	0.000000e+00	1046
24	TraesCS6D01G367400	chr4B	92.102	747	43	12	3061	3799	57802300	57803038	0.000000e+00	1038
25	TraesCS6D01G367400	chr4D	91.492	764	47	13	3051	3799	329140646	329141406	0.000000e+00	1035
26	TraesCS6D01G367400	chr1B	92.049	742	45	10	3060	3799	89513590	89512861	0.000000e+00	1031
27	TraesCS6D01G367400	chr3D	91.611	751	49	10	3060	3799	10705953	10706700	0.000000e+00	1026
28	TraesCS6D01G367400	chr7A	91.076	762	50	14	3051	3799	698746052	698746808	0.000000e+00	1014

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	TraesCS6D01G367400	chr6D	455249886	455253684	3798	False	7016.000000	7016	100.000000	1	3799	1	chr6D.!!$F1	3798
1	TraesCS6D01G367400	chr6D	455131155	455135579	4424	False	1151.000000	1954	82.961000	1	2619	2	chr6D.!!$F4	2618
2	TraesCS6D01G367400	chr6D	455295218	455295878	660	False	913.000000	913	91.496000	2386	3061	1	chr6D.!!$F2	675
3	TraesCS6D01G367400	chr6D	455097973	455100295	2322	False	762.250000	1637	90.124750	559	2782	4	chr6D.!!$F3	2223
4	TraesCS6D01G367400	chr6B	692427088	692430132	3044	False	4305.000000	4305	92.253000	1	3063	1	chr6B.!!$F2	3062
5	TraesCS6D01G367400	chr6B	692258672	692260695	2023	False	1764.000000	1764	82.981000	726	2735	1	chr6B.!!$F1	2009
6	TraesCS6D01G367400	chr6B	692233011	692235432	2421	False	875.666667	1495	88.428000	544	2782	3	chr6B.!!$F3	2238
7	TraesCS6D01G367400	chr6B	692335977	692339974	3997	False	822.000000	1565	90.691667	275	2619	3	chr6B.!!$F4	2344
8	TraesCS6D01G367400	chr6A	601948970	601951961	2991	False	4233.000000	4233	92.073000	7	3063	1	chr6A.!!$F2	3056
9	TraesCS6D01G367400	chr6A	601471949	601473903	1954	False	1916.000000	1916	84.864000	830	2778	1	chr6A.!!$F1	1948
10	TraesCS6D01G367400	chr6A	601871918	601873903	1985	False	999.500000	1513	86.329000	681	2613	2	chr6A.!!$F3	1932
11	TraesCS6D01G367400	chr5B	468001361	468002094	733	True	1085.000000	1085	93.261000	3060	3799	1	chr5B.!!$R1	739
12	TraesCS6D01G367400	chr7B	43563531	43564278	747	False	1048.000000	1048	92.144000	3059	3799	1	chr7B.!!$F1	740
13	TraesCS6D01G367400	chr7B	202772157	202772891	734	False	1048.000000	1048	92.267000	3052	3799	1	chr7B.!!$F2	747
14	TraesCS6D01G367400	chr4B	75440482	75441219	737	True	1046.000000	1046	92.246000	3057	3799	1	chr4B.!!$R1	742
15	TraesCS6D01G367400	chr4B	57802300	57803038	738	False	1038.000000	1038	92.102000	3061	3799	1	chr4B.!!$F1	738
16	TraesCS6D01G367400	chr4D	329140646	329141406	760	False	1035.000000	1035	91.492000	3051	3799	1	chr4D.!!$F1	748
17	TraesCS6D01G367400	chr1B	89512861	89513590	729	True	1031.000000	1031	92.049000	3060	3799	1	chr1B.!!$R1	739
18	TraesCS6D01G367400	chr3D	10705953	10706700	747	False	1026.000000	1026	91.611000	3060	3799	1	chr3D.!!$F1	739
19	TraesCS6D01G367400	chr7A	698746052	698746808	756	False	1014.000000	1014	91.076000	3051	3799	1	chr7A.!!$F1	748

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
671	2524	2.748605	CACTTCTCTGGCGGCTAATAG	58.251	52.381	11.43	0.0	0.0	1.73	F
1129	3724	0.742505	TCTCGCCCCACTGTTATACG	59.257	55.000	0.00	0.0	0.0	3.06	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1779	4972	1.217244	GAACAGGGCCACGACGTAT	59.783	57.895	6.18	0.0	0.00	3.06	R
2935	6213	0.676466	TTATGGGCTGGAGCGTTGTG	60.676	55.000	0.00	0.0	43.26	3.33	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
183	185	5.619757	CGATTGGAAAGTTAAGCTGCATGAA	60.620	40.000	1.02	0.00	0.00	2.57
184	186	5.528043	TTGGAAAGTTAAGCTGCATGAAA	57.472	34.783	1.02	0.00	0.00	2.69
226	230	5.237996	CGATCTAAGACATTGGTTGCATCAT	59.762	40.000	0.00	0.00	0.00	2.45
261	266	4.790718	ATCTTTTGGGGACTATGGTACC	57.209	45.455	4.43	4.43	45.66	3.34
331	340	8.773404	AGGTGACTAACATTATTTGACTGTAC	57.227	34.615	0.00	0.00	40.61	2.90
334	343	9.345517	GTGACTAACATTATTTGACTGTACGTA	57.654	33.333	0.00	0.00	0.00	3.57
337	346	9.865321	ACTAACATTATTTGACTGTACGTATGT	57.135	29.630	0.00	0.79	0.00	2.29
671	2524	2.748605	CACTTCTCTGGCGGCTAATAG	58.251	52.381	11.43	0.00	0.00	1.73
715	2570	3.375299	GGGAAGATTGGAAGAATGACGTG	59.625	47.826	0.00	0.00	0.00	4.49
1129	3724	0.742505	TCTCGCCCCACTGTTATACG	59.257	55.000	0.00	0.00	0.00	3.06
1366	4363	3.811497	TCATCCTTTTGCAGCATCTATCG	59.189	43.478	0.00	0.00	0.00	2.92
1403	4417	8.706492	TTTTGCCACTGATTGATTAATTGATC	57.294	30.769	3.31	3.31	0.00	2.92
1405	4419	8.750515	TTGCCACTGATTGATTAATTGATCTA	57.249	30.769	11.13	4.50	0.00	1.98
1406	4420	8.387190	TGCCACTGATTGATTAATTGATCTAG	57.613	34.615	11.13	7.11	0.00	2.43
1407	4421	7.994911	TGCCACTGATTGATTAATTGATCTAGT	59.005	33.333	11.13	7.61	0.00	2.57
1408	4422	8.502387	GCCACTGATTGATTAATTGATCTAGTC	58.498	37.037	11.13	7.23	0.00	2.59
1409	4423	9.551734	CCACTGATTGATTAATTGATCTAGTCA	57.448	33.333	11.13	10.55	34.25	3.41
1452	4590	3.660111	GCTCGGTGCGGCAAAACT	61.660	61.111	3.23	0.00	0.00	2.66
1469	4610	5.390461	GCAAAACTCCCAAAAGAAACAACAC	60.390	40.000	0.00	0.00	0.00	3.32
1491	4637	4.996758	ACCAAAGCAAATTGCCTATGTTTC	59.003	37.500	15.04	0.00	46.52	2.78
1495	4641	5.726980	AGCAAATTGCCTATGTTTCTTCA	57.273	34.783	15.04	0.00	46.52	3.02
1519	4665	9.515020	TCAAAAAGGATAAAGCGCATATAAAAG	57.485	29.630	11.47	0.00	0.00	2.27
1522	4668	8.677148	AAAGGATAAAGCGCATATAAAAGAGA	57.323	30.769	11.47	0.00	0.00	3.10
1523	4669	7.897575	AGGATAAAGCGCATATAAAAGAGAG	57.102	36.000	11.47	0.00	0.00	3.20
1533	4682	7.479916	GCGCATATAAAAGAGAGATGTAAATGC	59.520	37.037	0.30	0.00	33.33	3.56
1573	4730	3.612860	ACTCATCGCTAACTTTGCTAACG	59.387	43.478	0.00	0.00	0.00	3.18
1632	4789	2.274104	GGCCCCCATGTAAGCGAA	59.726	61.111	0.00	0.00	0.00	4.70
1685	4875	7.402811	TCCTGTTAATTAATATGTTCTCGCG	57.597	36.000	0.00	0.00	0.00	5.87
1700	4893	6.985013	TGTTCTCGCGTAACTAATTAATGTG	58.015	36.000	21.43	0.00	0.00	3.21
1779	4972	3.948719	GGGTTCCAGTCGGTGCCA	61.949	66.667	0.00	0.00	0.00	4.92
1914	5107	4.135306	ACATCGTCATGTACCTCGTCTAT	58.865	43.478	0.00	0.00	41.81	1.98
1918	5111	1.607148	TCATGTACCTCGTCTATGCCG	59.393	52.381	0.00	0.00	0.00	5.69
1919	5112	1.607148	CATGTACCTCGTCTATGCCGA	59.393	52.381	0.00	0.00	0.00	5.54
2124	5319	4.083271	CCTTTTTGACCGACAAATCTCCTC	60.083	45.833	8.13	0.00	45.99	3.71
2320	5534	3.608073	ACAAATACGTCGCGGTAACTAAC	59.392	43.478	6.13	0.00	0.00	2.34
2321	5535	3.764885	AATACGTCGCGGTAACTAACT	57.235	42.857	6.13	0.00	0.00	2.24
2323	5537	2.527442	ACGTCGCGGTAACTAACTAC	57.473	50.000	6.13	0.00	0.00	2.73
2353	5568	2.630580	CCCTTTCTTCTAGCTATCGCCT	59.369	50.000	0.00	0.00	36.60	5.52
2376	5599	7.465916	GCCTATGGATACGCATACATACAATTG	60.466	40.741	3.24	3.24	36.98	2.32
2387	5610	6.854892	GCATACATACAATTGTCTCAAGCATC	59.145	38.462	15.85	0.00	0.00	3.91
2696	5941	1.595929	GACTTTGCCCGTTCCGTCA	60.596	57.895	0.00	0.00	0.00	4.35
2874	6152	5.657474	ACAAACTACGTATGATGATTCGGT	58.343	37.500	0.00	0.00	0.00	4.69
2875	6153	6.798482	ACAAACTACGTATGATGATTCGGTA	58.202	36.000	0.00	0.00	0.00	4.02
2876	6154	7.431249	ACAAACTACGTATGATGATTCGGTAT	58.569	34.615	0.00	0.00	0.00	2.73
2877	6155	7.381408	ACAAACTACGTATGATGATTCGGTATG	59.619	37.037	0.00	0.00	0.00	2.39
2878	6156	6.812879	ACTACGTATGATGATTCGGTATGA	57.187	37.500	0.00	0.00	0.00	2.15
2879	6157	7.392494	ACTACGTATGATGATTCGGTATGAT	57.608	36.000	0.00	0.00	0.00	2.45
2880	6158	7.827701	ACTACGTATGATGATTCGGTATGATT	58.172	34.615	0.00	0.00	0.00	2.57
2881	6159	7.968956	ACTACGTATGATGATTCGGTATGATTC	59.031	37.037	0.00	0.00	0.00	2.52
2882	6160	5.800438	ACGTATGATGATTCGGTATGATTCG	59.200	40.000	0.00	0.00	31.08	3.34
2883	6161	5.230097	CGTATGATGATTCGGTATGATTCGG	59.770	44.000	0.00	0.00	31.08	4.30
2921	6199	1.838112	TTGGCAGCCCACTTATTCTG	58.162	50.000	9.64	0.00	41.97	3.02
2935	6213	8.612619	CCCACTTATTCTGTGATGTGTTTATAC	58.387	37.037	0.00	0.00	37.60	1.47
2966	6244	3.369366	CCAGCCCATAAATGTTCCCAAAC	60.369	47.826	0.00	0.00	35.85	2.93
2986	6264	8.875803	CCCAAACATGTTTAATGAATTCATCAG	58.124	33.333	22.87	10.61	42.53	2.90
3055	6351	9.974980	TTTTTATTCCCTAGTTTCATGTTTGTC	57.025	29.630	0.00	0.00	0.00	3.18
3130	6426	2.492088	GCTCTTAACCCAACAACCATCC	59.508	50.000	0.00	0.00	0.00	3.51
3180	6478	6.583806	CCTTTATTTTTGCGAGGCATCATATC	59.416	38.462	0.00	0.00	38.76	1.63
3285	6588	2.433239	TGGTTAATCCTAAGGCGTCTCC	59.567	50.000	0.00	0.00	37.07	3.71
3313	6651	0.998945	CTCTCCTCCCTCTCCCTCCT	60.999	65.000	0.00	0.00	0.00	3.69
3318	6656	0.105709	CTCCCTCTCCCTCCTTCTCC	60.106	65.000	0.00	0.00	0.00	3.71
3322	6660	0.105709	CTCTCCCTCCTTCTCCCTCC	60.106	65.000	0.00	0.00	0.00	4.30
3362	6742	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
3366	6746	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
3370	6750	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
3417	6801	5.208121	TGAGAAATCTGTTGTTTTCCCCTT	58.792	37.500	0.00	0.00	34.25	3.95
3679	7067	9.813446	AAATCGAACTTACGGTCTAAAAGATAT	57.187	29.630	0.00	0.00	0.00	1.63

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
122	124	8.927675	AGAACCATGTTTTACTATTACAACCA	57.072	30.769	0.00	0.00	0.00	3.67
226	230	7.668469	GTCCCCAAAAGATTAGTTCCTAGAAAA	59.332	37.037	0.00	0.00	0.00	2.29
508	760	9.003658	CCTTGTCAGTGTTTAGACATAAAGATT	57.996	33.333	0.00	0.00	43.57	2.40
671	2524	1.282157	ACCTAGATCTTTGGGGTGTGC	59.718	52.381	15.90	0.00	0.00	4.57
715	2570	0.951558	ACTCCGAATTGTGTTGCACC	59.048	50.000	0.00	0.00	32.73	5.01
1129	3724	2.606725	CAGTGAGATGGATGCGAACTTC	59.393	50.000	0.00	0.00	0.00	3.01
1331	4328	6.150976	TGCAAAAGGATGATCTTAAACGACAT	59.849	34.615	0.00	0.00	0.00	3.06
1347	4344	3.541996	TCGATAGATGCTGCAAAAGGA	57.458	42.857	6.36	0.00	42.67	3.36
1403	4417	9.199982	GTCACTAGAGCTAGTATACTTGACTAG	57.800	40.741	26.36	26.36	43.98	2.57
1405	4419	7.566569	TGTCACTAGAGCTAGTATACTTGACT	58.433	38.462	21.70	18.08	43.98	3.41
1406	4420	7.789273	TGTCACTAGAGCTAGTATACTTGAC	57.211	40.000	17.09	17.27	43.98	3.18
1407	4421	8.433599	AGATGTCACTAGAGCTAGTATACTTGA	58.566	37.037	17.09	6.97	43.98	3.02
1408	4422	8.615878	AGATGTCACTAGAGCTAGTATACTTG	57.384	38.462	11.40	10.42	43.98	3.16
1409	4423	9.938280	CTAGATGTCACTAGAGCTAGTATACTT	57.062	37.037	11.40	9.20	43.98	2.24
1410	4424	8.038944	GCTAGATGTCACTAGAGCTAGTATACT	58.961	40.741	10.87	10.87	43.98	2.12
1411	4425	8.038944	AGCTAGATGTCACTAGAGCTAGTATAC	58.961	40.741	9.66	11.14	43.98	1.47
1412	4426	8.141298	AGCTAGATGTCACTAGAGCTAGTATA	57.859	38.462	9.66	0.00	43.98	1.47
1413	4427	7.016153	AGCTAGATGTCACTAGAGCTAGTAT	57.984	40.000	9.66	1.15	43.98	2.12
1445	4583	4.693095	TGTTGTTTCTTTTGGGAGTTTTGC	59.307	37.500	0.00	0.00	0.00	3.68
1451	4589	4.464069	TTGGTGTTGTTTCTTTTGGGAG	57.536	40.909	0.00	0.00	0.00	4.30
1452	4590	4.826556	CTTTGGTGTTGTTTCTTTTGGGA	58.173	39.130	0.00	0.00	0.00	4.37
1469	4610	5.240121	AGAAACATAGGCAATTTGCTTTGG	58.760	37.500	20.06	10.98	44.28	3.28
1491	4637	9.515020	TTTATATGCGCTTTATCCTTTTTGAAG	57.485	29.630	9.73	0.00	0.00	3.02
1495	4641	9.736023	CTCTTTTATATGCGCTTTATCCTTTTT	57.264	29.630	9.73	0.00	0.00	1.94
1519	4665	4.348656	TGTACGACGCATTTACATCTCTC	58.651	43.478	0.00	0.00	0.00	3.20
1522	4668	7.358105	CGATAATTGTACGACGCATTTACATCT	60.358	37.037	0.00	0.00	0.00	2.90
1523	4669	6.726218	CGATAATTGTACGACGCATTTACATC	59.274	38.462	0.00	0.00	0.00	3.06
1533	4682	3.544682	TGAGTTGCGATAATTGTACGACG	59.455	43.478	0.00	0.00	0.00	5.12
1683	4873	5.623335	TGTGTGCACATTAATTAGTTACGC	58.377	37.500	24.69	5.06	36.21	4.42
1779	4972	1.217244	GAACAGGGCCACGACGTAT	59.783	57.895	6.18	0.00	0.00	3.06
1918	5111	3.057245	GTGAAAATCTTGGCCTTCCTGTC	60.057	47.826	3.32	0.00	0.00	3.51
1919	5112	2.893489	GTGAAAATCTTGGCCTTCCTGT	59.107	45.455	3.32	0.00	0.00	4.00
2124	5319	1.734137	GCCATGCATGAGCTCAAGG	59.266	57.895	28.31	16.93	42.74	3.61
2320	5534	6.293462	GCTAGAAGAAAGGGTTGTTTGTGTAG	60.293	42.308	0.00	0.00	0.00	2.74
2321	5535	5.529800	GCTAGAAGAAAGGGTTGTTTGTGTA	59.470	40.000	0.00	0.00	0.00	2.90
2323	5537	4.580580	AGCTAGAAGAAAGGGTTGTTTGTG	59.419	41.667	0.00	0.00	0.00	3.33
2353	5568	8.311109	AGACAATTGTATGTATGCGTATCCATA	58.689	33.333	11.95	0.00	32.57	2.74
2376	5599	1.731160	GTCAGTGCTGATGCTTGAGAC	59.269	52.381	5.11	0.00	42.18	3.36
2387	5610	8.673626	AAACATAAATTTAATCGTCAGTGCTG	57.326	30.769	1.21	0.00	0.00	4.41
2745	5998	4.497340	CGAATATTAATGGTTGCACGGCTT	60.497	41.667	0.00	0.00	0.00	4.35
2874	6152	1.066752	CGACCCACGCCGAATCATA	59.933	57.895	0.00	0.00	34.51	2.15
2875	6153	1.669049	TACGACCCACGCCGAATCAT	61.669	55.000	0.00	0.00	46.94	2.45
2876	6154	2.274232	CTACGACCCACGCCGAATCA	62.274	60.000	0.00	0.00	46.94	2.57
2877	6155	1.588139	CTACGACCCACGCCGAATC	60.588	63.158	0.00	0.00	46.94	2.52
2878	6156	2.493030	CTACGACCCACGCCGAAT	59.507	61.111	0.00	0.00	46.94	3.34
2879	6157	4.424566	GCTACGACCCACGCCGAA	62.425	66.667	0.00	0.00	46.94	4.30
2880	6158	3.974835	TAGCTACGACCCACGCCGA	62.975	63.158	0.00	0.00	46.94	5.54
2881	6159	3.465296	CTAGCTACGACCCACGCCG	62.465	68.421	0.00	0.00	46.94	6.46
2882	6160	2.412112	CTAGCTACGACCCACGCC	59.588	66.667	0.00	0.00	46.94	5.68
2883	6161	1.453762	ATCCTAGCTACGACCCACGC	61.454	60.000	0.00	0.00	46.94	5.34
2935	6213	0.676466	TTATGGGCTGGAGCGTTGTG	60.676	55.000	0.00	0.00	43.26	3.33
2938	6216	1.340991	ACATTTATGGGCTGGAGCGTT	60.341	47.619	0.00	0.00	43.26	4.84
2966	6244	9.558648	TTTCGACTGATGAATTCATTAAACATG	57.441	29.630	21.57	8.34	36.57	3.21
3055	6351	5.175856	GCACGGACTCTTTTGCTAGTATATG	59.824	44.000	0.00	0.00	32.00	1.78
3190	6488	3.648739	GAGGGTGAGAAGGAGGATAAGT	58.351	50.000	0.00	0.00	0.00	2.24
3227	6525	6.910536	TTTGTTTTGTTTTGTGTGAACACT	57.089	29.167	14.28	0.00	46.55	3.55
3247	6545	7.217447	GGATTAACCATATTCGAACACGTTTTG	59.783	37.037	0.00	0.00	38.79	2.44
3258	6559	5.235516	ACGCCTTAGGATTAACCATATTCG	58.764	41.667	0.69	0.00	42.04	3.34
3285	6588	0.998945	AGGGAGGAGAGAGGGAGAGG	60.999	65.000	0.00	0.00	0.00	3.69
3313	6651	3.197983	AGAGAGAGAGAAGGAGGGAGAA	58.802	50.000	0.00	0.00	0.00	2.87
3318	6656	3.713764	AGAGAGAGAGAGAGAGAAGGAGG	59.286	52.174	0.00	0.00	0.00	4.30
3322	6660	5.598005	AGAGAGAGAGAGAGAGAGAGAGAAG	59.402	48.000	0.00	0.00	0.00	2.85
3362	6742	3.055458	TGAGAGAAAGCGAGAGAGAGAGA	60.055	47.826	0.00	0.00	0.00	3.10
3366	6746	3.006940	GAGTGAGAGAAAGCGAGAGAGA	58.993	50.000	0.00	0.00	0.00	3.10
3370	6750	1.735018	CGAGAGTGAGAGAAAGCGAGA	59.265	52.381	0.00	0.00	0.00	4.04

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.