AutoCloner

Multiple sequence alignment - TraesCS5A01G352500

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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	TraesCS5A01G352500	chr5A	100.000	2543	0	0	1	2543	554756579	554759121	0.000000e+00	4697
1	TraesCS5A01G352500	chr7B	95.207	1982	67	12	590	2543	1776631	1774650	0.000000e+00	3109
2	TraesCS5A01G352500	chr6A	95.233	1972	73	16	590	2543	203520912	203518944	0.000000e+00	3101
3	TraesCS5A01G352500	chr6A	95.910	1687	47	11	867	2543	61539995	61538321	0.000000e+00	2713
4	TraesCS5A01G352500	chr3A	95.272	1967	67	16	588	2529	736082944	736080979	0.000000e+00	3094
5	TraesCS5A01G352500	chr7A	95.015	1986	62	11	590	2543	689996369	689994389	0.000000e+00	3085
6	TraesCS5A01G352500	chr7A	94.695	1998	67	10	582	2543	15645793	15647787	0.000000e+00	3066
7	TraesCS5A01G352500	chr2A	95.221	1967	65	15	590	2543	677958469	677956519	0.000000e+00	3085
8	TraesCS5A01G352500	chr2A	94.828	1972	80	16	589	2543	611725137	611723171	0.000000e+00	3057
9	TraesCS5A01G352500	chr1A	95.509	1937	58	15	633	2543	531499961	531498028	0.000000e+00	3068
10	TraesCS5A01G352500	chr1A	94.501	1982	78	12	588	2543	581942305	581944281	0.000000e+00	3027
11	TraesCS5A01G352500	chr1A	91.429	350	18	7	590	939	543257848	543258185	1.070000e-128	470
12	TraesCS5A01G352500	chr4A	93.684	1995	87	20	576	2538	603147233	603145246	0.000000e+00	2950
13	TraesCS5A01G352500	chr3D	91.231	1722	90	33	587	2284	527509674	527511358	0.000000e+00	2287
14	TraesCS5A01G352500	chr3D	92.495	1519	70	12	582	2073	108653050	108651549	0.000000e+00	2134
15	TraesCS5A01G352500	chr1B	93.429	487	20	4	589	1075	645315431	645315905	0.000000e+00	712
16	TraesCS5A01G352500	chr5D	92.916	367	17	6	586	950	336377956	336377597	2.240000e-145	525
17	TraesCS5A01G352500	chr5D	87.445	454	33	12	156	589	438945979	438946428	3.780000e-138	501
18	TraesCS5A01G352500	chr5D	88.050	159	18	1	8	165	438945653	438945811	1.200000e-43	187
19	TraesCS5A01G352500	chr2D	94.704	321	12	3	579	899	544984298	544983983	6.320000e-136	494
20	TraesCS5A01G352500	chr5B	90.083	363	26	7	580	942	400924187	400923835	1.780000e-126	462

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	TraesCS5A01G352500	chr5A	554756579	554759121	2542	False	4697	4697	100.0000	1	2543	1	chr5A.!!$F1	2542
1	TraesCS5A01G352500	chr7B	1774650	1776631	1981	True	3109	3109	95.2070	590	2543	1	chr7B.!!$R1	1953
2	TraesCS5A01G352500	chr6A	203518944	203520912	1968	True	3101	3101	95.2330	590	2543	1	chr6A.!!$R2	1953
3	TraesCS5A01G352500	chr6A	61538321	61539995	1674	True	2713	2713	95.9100	867	2543	1	chr6A.!!$R1	1676
4	TraesCS5A01G352500	chr3A	736080979	736082944	1965	True	3094	3094	95.2720	588	2529	1	chr3A.!!$R1	1941
5	TraesCS5A01G352500	chr7A	689994389	689996369	1980	True	3085	3085	95.0150	590	2543	1	chr7A.!!$R1	1953
6	TraesCS5A01G352500	chr7A	15645793	15647787	1994	False	3066	3066	94.6950	582	2543	1	chr7A.!!$F1	1961
7	TraesCS5A01G352500	chr2A	677956519	677958469	1950	True	3085	3085	95.2210	590	2543	1	chr2A.!!$R2	1953
8	TraesCS5A01G352500	chr2A	611723171	611725137	1966	True	3057	3057	94.8280	589	2543	1	chr2A.!!$R1	1954
9	TraesCS5A01G352500	chr1A	531498028	531499961	1933	True	3068	3068	95.5090	633	2543	1	chr1A.!!$R1	1910
10	TraesCS5A01G352500	chr1A	581942305	581944281	1976	False	3027	3027	94.5010	588	2543	1	chr1A.!!$F2	1955
11	TraesCS5A01G352500	chr4A	603145246	603147233	1987	True	2950	2950	93.6840	576	2538	1	chr4A.!!$R1	1962
12	TraesCS5A01G352500	chr3D	527509674	527511358	1684	False	2287	2287	91.2310	587	2284	1	chr3D.!!$F1	1697
13	TraesCS5A01G352500	chr3D	108651549	108653050	1501	True	2134	2134	92.4950	582	2073	1	chr3D.!!$R1	1491
14	TraesCS5A01G352500	chr5D	438945653	438946428	775	False	344	501	87.7475	8	589	2	chr5D.!!$F1	581

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
573	768	0.036875	GCAGCCCACCCCACTATATC	59.963	60.0	0.0	0.0	0.0	1.63	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1821	2082	0.035439	GCAAGAGAACCCCGAATGGA	60.035	55.0	0.0	0.0	37.49	3.41	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
24	25	2.625314	TGGCTCCAGATGATAGTCGAAG	59.375	50.000	0.00	0.00	0.00	3.79
27	28	4.545610	GCTCCAGATGATAGTCGAAGAAG	58.454	47.826	0.00	0.00	39.69	2.85
60	61	3.408634	CAAATGTGGGTTTCGGTCTACT	58.591	45.455	0.00	0.00	0.00	2.57
63	64	1.764134	TGTGGGTTTCGGTCTACTGTT	59.236	47.619	0.00	0.00	0.00	3.16
65	66	2.040939	TGGGTTTCGGTCTACTGTTCA	58.959	47.619	0.00	0.00	0.00	3.18
67	68	3.000727	GGGTTTCGGTCTACTGTTCATG	58.999	50.000	0.00	0.00	0.00	3.07
71	72	3.081710	TCGGTCTACTGTTCATGGAGA	57.918	47.619	0.00	0.00	0.00	3.71
96	97	6.603997	ACAAAACTTGTAAACAGGGTCATGTA	59.396	34.615	0.00	0.00	43.27	2.29
99	100	3.343941	TGTAAACAGGGTCATGTAGCC	57.656	47.619	5.54	5.54	46.88	3.93
140	141	2.768527	GAGGGTCATGAGGATTCTGTCA	59.231	50.000	0.00	0.00	0.00	3.58
150	151	1.066858	GGATTCTGTCAAGGAGCACGA	60.067	52.381	0.00	0.00	0.00	4.35
154	155	2.435059	GTCAAGGAGCACGAGCCC	60.435	66.667	0.00	2.64	43.56	5.19
155	156	4.069232	TCAAGGAGCACGAGCCCG	62.069	66.667	0.00	0.00	43.56	6.13
156	157	4.069232	CAAGGAGCACGAGCCCGA	62.069	66.667	0.00	0.00	43.56	5.14
190	376	1.461127	GCACTTAAGCTCGTGGTTCAG	59.539	52.381	5.04	7.09	35.36	3.02
195	381	4.705507	ACTTAAGCTCGTGGTTCAGATCTA	59.294	41.667	15.24	0.00	35.36	1.98
199	385	2.427453	GCTCGTGGTTCAGATCTAGGAA	59.573	50.000	0.00	0.00	0.00	3.36
204	390	4.882427	CGTGGTTCAGATCTAGGAAGACTA	59.118	45.833	0.00	0.00	33.57	2.59
221	407	4.394729	AGACTAAAATTTTGGCGTGGAGA	58.605	39.130	13.76	0.00	0.00	3.71
234	420	1.168714	GTGGAGACCTGGAATTGCAC	58.831	55.000	0.00	3.29	0.00	4.57
263	449	2.745152	GCAGACGCCAGGGTATAAATGT	60.745	50.000	0.00	0.00	0.00	2.71
272	458	5.163550	GCCAGGGTATAAATGTTGTTCCTTC	60.164	44.000	0.00	0.00	0.00	3.46
284	470	4.513692	TGTTGTTCCTTCTACATTTCCACG	59.486	41.667	0.00	0.00	0.00	4.94
285	471	3.670625	TGTTCCTTCTACATTTCCACGG	58.329	45.455	0.00	0.00	0.00	4.94
294	480	3.364460	ACATTTCCACGGGATGATCAA	57.636	42.857	0.00	0.00	0.00	2.57
305	491	2.624838	GGGATGATCAAATTCCGCATGT	59.375	45.455	0.00	0.00	0.00	3.21
311	497	2.789213	TCAAATTCCGCATGTGGAGAA	58.211	42.857	26.17	14.66	39.72	2.87
312	498	3.355378	TCAAATTCCGCATGTGGAGAAT	58.645	40.909	26.17	16.28	39.72	2.40
313	499	3.378112	TCAAATTCCGCATGTGGAGAATC	59.622	43.478	26.17	0.00	39.72	2.52
368	560	6.536224	CCTCCAATGCCTCAATCATTTTAAAC	59.464	38.462	0.00	0.00	32.30	2.01
381	573	8.702438	CAATCATTTTAAACAACACCACATCTC	58.298	33.333	0.00	0.00	0.00	2.75
382	574	7.340122	TCATTTTAAACAACACCACATCTCA	57.660	32.000	0.00	0.00	0.00	3.27
391	583	5.423290	ACAACACCACATCTCAGATGATCTA	59.577	40.000	22.08	0.00	0.00	1.98
393	585	6.744175	ACACCACATCTCAGATGATCTAAT	57.256	37.500	22.08	0.00	0.00	1.73
411	604	7.504574	TGATCTAATAAGACGATGGACTTACCA	59.495	37.037	2.16	0.00	43.41	3.25
441	634	4.425577	ACAAAGTTCGAGCAAATGGATC	57.574	40.909	1.01	0.00	0.00	3.36
446	639	5.051891	AGTTCGAGCAAATGGATCAAAAG	57.948	39.130	1.01	0.00	0.00	2.27
447	640	3.492421	TCGAGCAAATGGATCAAAAGC	57.508	42.857	0.00	0.00	0.00	3.51
448	641	2.159531	TCGAGCAAATGGATCAAAAGCG	60.160	45.455	0.00	0.00	0.00	4.68
450	643	3.432782	GAGCAAATGGATCAAAAGCGAG	58.567	45.455	0.00	0.00	0.00	5.03
452	645	2.533266	CAAATGGATCAAAAGCGAGGC	58.467	47.619	0.00	0.00	0.00	4.70
453	646	1.838112	AATGGATCAAAAGCGAGGCA	58.162	45.000	0.00	0.00	0.00	4.75
454	647	2.062971	ATGGATCAAAAGCGAGGCAT	57.937	45.000	0.00	0.00	0.00	4.40
455	648	1.097232	TGGATCAAAAGCGAGGCATG	58.903	50.000	0.00	0.00	0.00	4.06
456	649	0.248784	GGATCAAAAGCGAGGCATGC	60.249	55.000	9.90	9.90	0.00	4.06
474	667	3.862877	TGCCATATACAGCTCACCAAT	57.137	42.857	0.00	0.00	0.00	3.16
547	741	9.323985	CCAAAACTATGAGAAATGGTTGAAAAA	57.676	29.630	0.00	0.00	0.00	1.94
550	744	9.750125	AAACTATGAGAAATGGTTGAAAAAGAC	57.250	29.630	0.00	0.00	0.00	3.01
551	745	8.697507	ACTATGAGAAATGGTTGAAAAAGACT	57.302	30.769	0.00	0.00	0.00	3.24
552	746	9.793259	ACTATGAGAAATGGTTGAAAAAGACTA	57.207	29.630	0.00	0.00	0.00	2.59
555	749	7.425606	TGAGAAATGGTTGAAAAAGACTAAGC	58.574	34.615	0.00	0.00	0.00	3.09
573	768	0.036875	GCAGCCCACCCCACTATATC	59.963	60.000	0.00	0.00	0.00	1.63
574	769	1.434188	CAGCCCACCCCACTATATCA	58.566	55.000	0.00	0.00	0.00	2.15
575	770	1.988107	CAGCCCACCCCACTATATCAT	59.012	52.381	0.00	0.00	0.00	2.45
576	771	2.026822	CAGCCCACCCCACTATATCATC	60.027	54.545	0.00	0.00	0.00	2.92
577	772	1.985159	GCCCACCCCACTATATCATCA	59.015	52.381	0.00	0.00	0.00	3.07
578	773	2.578021	GCCCACCCCACTATATCATCAT	59.422	50.000	0.00	0.00	0.00	2.45
648	845	1.202915	TCAGTTTTGCCCTCAGATGCA	60.203	47.619	0.00	0.00	35.27	3.96
879	1117	4.406173	CGACAGAGAGCACGGCGT	62.406	66.667	6.77	6.77	0.00	5.68
986	1230	2.434774	GGCGTTGAGACCCCCTTT	59.565	61.111	0.00	0.00	0.00	3.11
1018	1262	1.558756	CCATGTCTTCCTCAAGCTCCT	59.441	52.381	0.00	0.00	0.00	3.69
1326	1579	1.189524	AATGGTTGTGCATGCTGCCT	61.190	50.000	20.33	3.55	44.23	4.75
1532	1788	8.855110	ACTGGTTGTAATGTTGAAAATGTATGA	58.145	29.630	0.00	0.00	0.00	2.15
1736	1995	1.696336	TCTCTGCTCTGCCTTTCTGTT	59.304	47.619	0.00	0.00	0.00	3.16
1806	2067	2.107204	CAGGCTAGACTAATGGGCCAAT	59.893	50.000	11.89	4.19	44.60	3.16
1821	2082	2.435437	GGCCAATTGCATCCAATTAGGT	59.565	45.455	0.00	0.00	46.95	3.08
2038	2325	2.305635	TGGAAAATGTGCCTCAGCTCTA	59.694	45.455	0.00	0.00	40.80	2.43
2165	2455	2.930562	GGTGTGGCTGGGGACTCT	60.931	66.667	0.00	0.00	0.00	3.24
2205	2496	1.599797	GTGGTGTTTAGGGCTGCGT	60.600	57.895	0.00	0.00	0.00	5.24
2206	2497	1.302192	TGGTGTTTAGGGCTGCGTC	60.302	57.895	0.00	0.00	0.00	5.19
2407	2704	3.574284	TGCACTACCACATGATTTTGC	57.426	42.857	0.00	0.76	0.00	3.68

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
2	3	1.957177	TCGACTATCATCTGGAGCCAC	59.043	52.381	0.00	0.00	0.00	5.01
4	5	2.887783	TCTTCGACTATCATCTGGAGCC	59.112	50.000	0.00	0.00	0.00	4.70
5	6	4.545610	CTTCTTCGACTATCATCTGGAGC	58.454	47.826	0.00	0.00	0.00	4.70
6	7	4.824537	TCCTTCTTCGACTATCATCTGGAG	59.175	45.833	0.00	0.00	0.00	3.86
7	8	4.580995	GTCCTTCTTCGACTATCATCTGGA	59.419	45.833	0.00	0.00	0.00	3.86
8	9	4.339530	TGTCCTTCTTCGACTATCATCTGG	59.660	45.833	0.00	0.00	0.00	3.86
9	10	5.506686	TGTCCTTCTTCGACTATCATCTG	57.493	43.478	0.00	0.00	0.00	2.90
11	12	6.744112	AGATTGTCCTTCTTCGACTATCATC	58.256	40.000	12.57	0.98	41.79	2.92
12	13	6.723298	AGATTGTCCTTCTTCGACTATCAT	57.277	37.500	12.57	0.00	41.79	2.45
14	15	6.237969	GCAAAGATTGTCCTTCTTCGACTATC	60.238	42.308	4.81	4.81	40.54	2.08
15	16	5.582665	GCAAAGATTGTCCTTCTTCGACTAT	59.417	40.000	0.00	0.00	32.33	2.12
16	17	4.929808	GCAAAGATTGTCCTTCTTCGACTA	59.070	41.667	0.00	0.00	32.33	2.59
17	18	3.748568	GCAAAGATTGTCCTTCTTCGACT	59.251	43.478	0.00	0.00	32.33	4.18
18	19	3.498397	TGCAAAGATTGTCCTTCTTCGAC	59.502	43.478	0.00	0.00	32.33	4.20
19	20	3.738982	TGCAAAGATTGTCCTTCTTCGA	58.261	40.909	0.00	0.00	32.33	3.71
20	21	4.488126	TTGCAAAGATTGTCCTTCTTCG	57.512	40.909	0.00	0.00	32.33	3.79
24	25	4.687483	CCACATTTGCAAAGATTGTCCTTC	59.313	41.667	18.19	0.00	0.00	3.46
27	28	3.244181	ACCCACATTTGCAAAGATTGTCC	60.244	43.478	18.19	0.00	0.00	4.02
60	61	7.094162	TGTTTACAAGTTTTGTCTCCATGAACA	60.094	33.333	0.00	0.00	44.12	3.18
63	64	6.039270	CCTGTTTACAAGTTTTGTCTCCATGA	59.961	38.462	0.00	0.00	44.12	3.07
65	66	5.301805	CCCTGTTTACAAGTTTTGTCTCCAT	59.698	40.000	0.00	0.00	44.12	3.41
67	68	4.643334	ACCCTGTTTACAAGTTTTGTCTCC	59.357	41.667	0.00	0.00	44.12	3.71
76	77	4.324267	GCTACATGACCCTGTTTACAAGT	58.676	43.478	0.00	0.00	0.00	3.16
84	85	0.912486	GGAAGGCTACATGACCCTGT	59.088	55.000	0.00	0.00	0.00	4.00
96	97	0.034896	ATCGTTGTTCGTGGAAGGCT	59.965	50.000	0.00	0.00	40.80	4.58
99	100	3.057019	TCAGAATCGTTGTTCGTGGAAG	58.943	45.455	0.00	0.00	40.80	3.46
140	141	2.391724	TTTTCGGGCTCGTGCTCCTT	62.392	55.000	5.57	0.00	35.98	3.36
190	376	7.065923	ACGCCAAAATTTTAGTCTTCCTAGATC	59.934	37.037	2.44	0.00	31.86	2.75
195	381	4.022329	CCACGCCAAAATTTTAGTCTTCCT	60.022	41.667	2.44	0.00	0.00	3.36
199	385	4.215613	GTCTCCACGCCAAAATTTTAGTCT	59.784	41.667	2.44	0.00	0.00	3.24
204	390	2.035832	CAGGTCTCCACGCCAAAATTTT	59.964	45.455	0.00	0.00	0.00	1.82
212	398	1.026718	CAATTCCAGGTCTCCACGCC	61.027	60.000	0.00	0.00	0.00	5.68
221	407	2.158813	CCTATACGGTGCAATTCCAGGT	60.159	50.000	0.00	0.00	0.00	4.00
263	449	4.069304	CCGTGGAAATGTAGAAGGAACAA	58.931	43.478	0.00	0.00	0.00	2.83
272	458	4.071961	TGATCATCCCGTGGAAATGTAG	57.928	45.455	0.00	0.00	34.34	2.74
284	470	2.624838	ACATGCGGAATTTGATCATCCC	59.375	45.455	8.02	2.86	0.00	3.85
285	471	3.551454	CCACATGCGGAATTTGATCATCC	60.551	47.826	0.00	0.00	0.00	3.51
294	480	2.301346	GGATTCTCCACATGCGGAATT	58.699	47.619	3.62	0.00	36.28	2.17
305	491	5.843019	ACTAGAAAAGTTGGGATTCTCCA	57.157	39.130	0.00	0.00	34.32	3.86
312	498	9.284968	CAAGAAGATTTACTAGAAAAGTTGGGA	57.715	33.333	0.00	0.00	39.80	4.37
313	499	8.515414	CCAAGAAGATTTACTAGAAAAGTTGGG	58.485	37.037	0.00	0.00	39.80	4.12
318	506	8.401709	GGCATCCAAGAAGATTTACTAGAAAAG	58.598	37.037	0.00	0.00	0.00	2.27
368	560	4.767478	AGATCATCTGAGATGTGGTGTTG	58.233	43.478	20.82	0.00	0.00	3.33
381	573	7.825681	AGTCCATCGTCTTATTAGATCATCTG	58.174	38.462	0.00	0.00	31.86	2.90
382	574	8.415950	AAGTCCATCGTCTTATTAGATCATCT	57.584	34.615	0.00	0.00	31.86	2.90
411	604	3.057174	TGCTCGAACTTTGTTTTGTTGGT	60.057	39.130	0.00	0.00	0.00	3.67
441	634	0.740149	TATGGCATGCCTCGCTTTTG	59.260	50.000	35.53	0.00	36.94	2.44
446	639	1.081892	CTGTATATGGCATGCCTCGC	58.918	55.000	35.53	20.82	36.94	5.03
447	640	1.081892	GCTGTATATGGCATGCCTCG	58.918	55.000	35.53	16.75	36.94	4.63
448	641	2.289882	TGAGCTGTATATGGCATGCCTC	60.290	50.000	35.53	21.70	36.94	4.70
450	643	1.808945	GTGAGCTGTATATGGCATGCC	59.191	52.381	30.54	30.54	0.00	4.40
452	645	3.130280	TGGTGAGCTGTATATGGCATG	57.870	47.619	10.98	0.00	0.00	4.06
453	646	3.862877	TTGGTGAGCTGTATATGGCAT	57.137	42.857	4.88	4.88	0.00	4.40
454	647	3.479489	CATTGGTGAGCTGTATATGGCA	58.521	45.455	0.00	0.00	0.00	4.92
455	648	2.227388	GCATTGGTGAGCTGTATATGGC	59.773	50.000	0.00	0.00	0.00	4.40
456	649	3.748083	AGCATTGGTGAGCTGTATATGG	58.252	45.455	0.00	0.00	40.13	2.74
474	667	2.607635	GTGTTCAGAGTTTTCGTGAGCA	59.392	45.455	0.00	0.00	0.00	4.26
520	713	7.595819	TTCAACCATTTCTCATAGTTTTGGT	57.404	32.000	0.00	0.00	37.59	3.67
547	741	2.301738	GGGGTGGGCTGCTTAGTCT	61.302	63.158	0.00	0.00	0.00	3.24
548	742	2.272471	GGGGTGGGCTGCTTAGTC	59.728	66.667	0.00	0.00	0.00	2.59
549	743	2.531685	TGGGGTGGGCTGCTTAGT	60.532	61.111	0.00	0.00	0.00	2.24
550	744	1.271840	TAGTGGGGTGGGCTGCTTAG	61.272	60.000	0.00	0.00	0.00	2.18
551	745	0.623324	ATAGTGGGGTGGGCTGCTTA	60.623	55.000	0.00	0.00	0.00	3.09
552	746	0.623324	TATAGTGGGGTGGGCTGCTT	60.623	55.000	0.00	0.00	0.00	3.91
553	747	0.401979	ATATAGTGGGGTGGGCTGCT	60.402	55.000	0.00	0.00	0.00	4.24
554	748	0.036875	GATATAGTGGGGTGGGCTGC	59.963	60.000	0.00	0.00	0.00	5.25
555	749	1.434188	TGATATAGTGGGGTGGGCTG	58.566	55.000	0.00	0.00	0.00	4.85
851	1064	0.666913	TCTCTGTCGCCCGCTTATAC	59.333	55.000	0.00	0.00	0.00	1.47
879	1117	1.587043	CTCTCTCTCGCCGTGGTCAA	61.587	60.000	0.00	0.00	0.00	3.18
979	1223	4.803908	GCTCGGAGCCAAAGGGGG	62.804	72.222	19.20	0.00	34.48	5.40
986	1230	2.685017	ACATGGAGCTCGGAGCCA	60.685	61.111	25.49	17.60	43.77	4.75
1453	1706	7.726033	AGTATTTGCAAATGGGTATTGGTAA	57.274	32.000	30.43	6.82	0.00	2.85
1532	1788	7.441903	AATTCCTCCATAATTCATGCCTTTT	57.558	32.000	0.00	0.00	32.84	2.27
1806	2067	3.631686	CGAATGGACCTAATTGGATGCAA	59.368	43.478	0.79	0.79	39.71	4.08
1821	2082	0.035439	GCAAGAGAACCCCGAATGGA	60.035	55.000	0.00	0.00	37.49	3.41
1920	2182	4.081697	CCTTAATTGTTTGGCTCCGGAATT	60.082	41.667	5.23	1.98	0.00	2.17
2038	2325	2.230750	GCACCTGACGTAAACCTCTACT	59.769	50.000	0.00	0.00	0.00	2.57
2052	2339	5.798125	TGTTCATTTATTTTGGCACCTGA	57.202	34.783	0.00	0.00	0.00	3.86
2152	2442	1.615424	GGGTTAGAGTCCCCAGCCA	60.615	63.158	0.00	0.00	40.88	4.75
2165	2455	3.697747	CCACGCGGTCCTGGGTTA	61.698	66.667	12.47	0.00	32.02	2.85
2223	2514	3.245229	ACCCATGTCAAAGTCTTGCCATA	60.245	43.478	0.00	0.00	29.52	2.74
2334	2629	7.909641	CCAAAATTTAAGTGCAAAACAAAGGAG	59.090	33.333	0.00	0.00	0.00	3.69
2407	2704	1.972872	AAACCAAGTGCCACTCTGAG	58.027	50.000	0.00	2.45	0.00	3.35

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.