AutoCloner

Multiple sequence alignment - TraesCS4D01G294500

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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	TraesCS4D01G294500	chr4D	100.000	2954	0	0	1	2954	464798969	464796016	0.000000e+00	5456.0
1	TraesCS4D01G294500	chr1A	88.820	2433	150	61	589	2954	84797108	84794731	0.000000e+00	2874.0
2	TraesCS4D01G294500	chr1A	89.585	1613	79	43	823	2398	85006766	85005206	0.000000e+00	1965.0
3	TraesCS4D01G294500	chr1A	86.520	319	38	5	299	617	84620723	84621036	2.180000e-91	346.0
4	TraesCS4D01G294500	chr1A	85.938	320	38	7	299	617	84483482	84483795	4.720000e-88	335.0
5	TraesCS4D01G294500	chr1A	85.266	319	42	5	299	617	84055577	84055890	1.020000e-84	324.0
6	TraesCS4D01G294500	chr1D	90.424	1723	93	26	748	2425	88282852	88281157	0.000000e+00	2202.0
7	TraesCS4D01G294500	chr1D	90.751	1438	79	19	1558	2954	88243854	88242430	0.000000e+00	1869.0
8	TraesCS4D01G294500	chr1D	92.913	1270	65	10	897	2154	87903571	87904827	0.000000e+00	1823.0
9	TraesCS4D01G294500	chr1D	90.450	733	32	10	748	1443	88244584	88243853	0.000000e+00	931.0
10	TraesCS4D01G294500	chr1D	78.112	699	114	25	71	747	88184117	88184798	9.860000e-110	407.0
11	TraesCS4D01G294500	chr1D	87.336	229	17	9	2199	2425	88215804	88216022	4.890000e-63	252.0
12	TraesCS4D01G294500	chr1D	93.103	58	4	0	742	799	88183933	88183990	5.250000e-13	86.1
13	TraesCS4D01G294500	chr1D	94.545	55	2	1	2372	2425	87905145	87905199	1.890000e-12	84.2
14	TraesCS4D01G294500	chr1D	93.617	47	3	0	2714	2760	88216304	88216350	1.470000e-08	71.3
15	TraesCS4D01G294500	chr1B	90.721	1595	86	21	715	2263	142134810	142133232	0.000000e+00	2069.0
16	TraesCS4D01G294500	chr1B	90.212	1553	81	23	897	2421	141844897	141846406	0.000000e+00	1960.0
17	TraesCS4D01G294500	chr1B	92.410	1278	62	16	897	2152	142037406	142038670	0.000000e+00	1790.0
18	TraesCS4D01G294500	chr1B	93.504	1170	63	4	897	2056	142093666	142094832	0.000000e+00	1727.0
19	TraesCS4D01G294500	chr1B	91.750	1103	85	4	900	1997	142086346	142087447	0.000000e+00	1528.0
20	TraesCS4D01G294500	chr1B	86.321	636	42	21	13	641	142135444	142134847	0.000000e+00	651.0
21	TraesCS4D01G294500	chr1B	85.420	583	37	16	2418	2954	142133063	142132483	1.990000e-156	562.0
22	TraesCS4D01G294500	chr1B	78.947	703	102	39	70	747	141843995	141844676	1.260000e-118	436.0
23	TraesCS4D01G294500	chr1B	82.643	507	70	15	299	799	142035885	142036379	1.630000e-117	433.0
24	TraesCS4D01G294500	chr1B	83.264	484	64	13	299	777	141843442	141843913	2.100000e-116	429.0
25	TraesCS4D01G294500	chr1B	77.447	705	111	40	70	747	142092764	142093447	7.730000e-101	377.0
26	TraesCS4D01G294500	chr1B	78.140	645	100	28	128	747	142025711	142026339	3.600000e-99	372.0
27	TraesCS4D01G294500	chr1B	83.404	235	21	13	2199	2424	142102864	142103089	4.990000e-48	202.0
28	TraesCS4D01G294500	chr1B	96.875	64	1	1	2363	2425	142133176	142133113	4.030000e-19	106.0
29	TraesCS4D01G294500	chr1B	93.750	48	3	0	2713	2760	142103366	142103413	4.080000e-09	73.1
30	TraesCS4D01G294500	chr3B	87.681	1380	135	21	554	1925	535563409	535562057	0.000000e+00	1574.0
31	TraesCS4D01G294500	chr3B	91.623	1134	75	10	1028	2154	535705558	535704438	0.000000e+00	1550.0
32	TraesCS4D01G294500	chr3B	78.372	897	138	40	70	934	535709417	535708545	5.610000e-147	531.0
33	TraesCS4D01G294500	chr3B	92.727	55	3	1	2372	2425	535704137	535704083	8.780000e-11	78.7

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	TraesCS4D01G294500	chr4D	464796016	464798969	2953	True	5456.000000	5456	100.00000	1	2954	1	chr4D.!!$R1	2953
1	TraesCS4D01G294500	chr1A	84794731	84797108	2377	True	2874.000000	2874	88.82000	589	2954	1	chr1A.!!$R1	2365
2	TraesCS4D01G294500	chr1A	85005206	85006766	1560	True	1965.000000	1965	89.58500	823	2398	1	chr1A.!!$R2	1575
3	TraesCS4D01G294500	chr1D	88281157	88282852	1695	True	2202.000000	2202	90.42400	748	2425	1	chr1D.!!$R1	1677
4	TraesCS4D01G294500	chr1D	88242430	88244584	2154	True	1400.000000	1869	90.60050	748	2954	2	chr1D.!!$R2	2206
5	TraesCS4D01G294500	chr1D	87903571	87905199	1628	False	953.600000	1823	93.72900	897	2425	2	chr1D.!!$F1	1528
6	TraesCS4D01G294500	chr1D	88183933	88184798	865	False	246.550000	407	85.60750	71	799	2	chr1D.!!$F2	728
7	TraesCS4D01G294500	chr1B	142086346	142087447	1101	False	1528.000000	1528	91.75000	900	1997	1	chr1B.!!$F2	1097
8	TraesCS4D01G294500	chr1B	142035885	142038670	2785	False	1111.500000	1790	87.52650	299	2152	2	chr1B.!!$F4	1853
9	TraesCS4D01G294500	chr1B	142092764	142094832	2068	False	1052.000000	1727	85.47550	70	2056	2	chr1B.!!$F5	1986
10	TraesCS4D01G294500	chr1B	141843442	141846406	2964	False	941.666667	1960	84.14100	70	2421	3	chr1B.!!$F3	2351
11	TraesCS4D01G294500	chr1B	142132483	142135444	2961	True	847.000000	2069	89.83425	13	2954	4	chr1B.!!$R1	2941
12	TraesCS4D01G294500	chr1B	142025711	142026339	628	False	372.000000	372	78.14000	128	747	1	chr1B.!!$F1	619
13	TraesCS4D01G294500	chr3B	535562057	535563409	1352	True	1574.000000	1574	87.68100	554	1925	1	chr3B.!!$R1	1371
14	TraesCS4D01G294500	chr3B	535704083	535709417	5334	True	719.900000	1550	87.57400	70	2425	3	chr3B.!!$R2	2355

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
243	248	0.590682	AACGTTCATGCGTGCATTCA	59.409	45.0	4.24	0.0	45.0	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2005	5541	0.179009	AGTCAGTGGCACTGCAATGT	60.179	50.0	36.65	18.8	45.54	2.71	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
48	49	4.138817	CAAAACGAACGAAACGACTATGG	58.861	43.478	0.14	0.00	34.70	2.74
53	54	2.935481	ACGAAACGACTATGGACTCC	57.065	50.000	0.00	0.00	0.00	3.85
163	168	9.924650	TCTTCAACTACTACTAAGAAAATGGTC	57.075	33.333	0.00	0.00	0.00	4.02
166	171	9.871238	TCAACTACTACTAAGAAAATGGTCATC	57.129	33.333	0.00	0.00	0.00	2.92
167	172	9.653287	CAACTACTACTAAGAAAATGGTCATCA	57.347	33.333	0.00	0.00	0.00	3.07
169	174	9.823647	ACTACTACTAAGAAAATGGTCATCATG	57.176	33.333	0.00	0.00	35.99	3.07
170	175	9.823647	CTACTACTAAGAAAATGGTCATCATGT	57.176	33.333	0.00	0.00	35.99	3.21
172	177	9.601217	ACTACTAAGAAAATGGTCATCATGTAC	57.399	33.333	0.00	0.00	35.99	2.90
173	178	9.823647	CTACTAAGAAAATGGTCATCATGTACT	57.176	33.333	0.00	0.00	35.99	2.73
243	248	0.590682	AACGTTCATGCGTGCATTCA	59.409	45.000	4.24	0.00	45.00	2.57
392	957	7.913674	TTTTAAAAAGTGTTCATGCCTTTGT	57.086	28.000	0.00	0.00	0.00	2.83
525	1098	3.244596	TGGTGGGAAATACGTGTTCATCA	60.245	43.478	13.73	5.39	0.00	3.07
618	1198	7.728895	AGAAGTGTTTGAACATTTGAAAAACG	58.271	30.769	8.99	0.00	38.70	3.60
623	1203	7.680842	GTGTTTGAACATTTGAAAAACGTGTAC	59.319	33.333	0.00	0.00	41.59	2.90
638	1233	7.908193	AAACGTGTACTTTTTGCAATAGAAG	57.092	32.000	14.08	13.60	0.00	2.85
640	1235	7.254227	ACGTGTACTTTTTGCAATAGAAGAA	57.746	32.000	18.78	0.66	0.00	2.52
642	1237	8.349983	ACGTGTACTTTTTGCAATAGAAGAAAT	58.650	29.630	18.78	5.28	0.00	2.17
660	1256	9.078990	AGAAGAAATAAAAGTAAGTGAAAGGGG	57.921	33.333	0.00	0.00	0.00	4.79
661	1257	7.776618	AGAAATAAAAGTAAGTGAAAGGGGG	57.223	36.000	0.00	0.00	0.00	5.40
665	1263	3.542969	AAGTAAGTGAAAGGGGGCAAT	57.457	42.857	0.00	0.00	0.00	3.56
676	1274	4.404185	AAGGGGGCAATAAAAAGAGAGT	57.596	40.909	0.00	0.00	0.00	3.24
682	1280	6.210784	GGGGGCAATAAAAAGAGAGTAAAAGT	59.789	38.462	0.00	0.00	0.00	2.66
788	1418	2.869801	TGACGAAGCGATTTCAAAGTGT	59.130	40.909	0.00	0.00	35.43	3.55
790	1420	2.612212	ACGAAGCGATTTCAAAGTGTGT	59.388	40.909	0.00	0.00	35.43	3.72
924	1610	3.586429	GATCCTTCCTCTCATCCTCCTT	58.414	50.000	0.00	0.00	0.00	3.36
1108	4644	3.299340	TCACCGACTACAAGAAGCTTC	57.701	47.619	19.11	19.11	0.00	3.86
1288	4824	1.512926	CCGGGGTCATGAATCGATTC	58.487	55.000	27.59	27.59	37.31	2.52
1290	4826	2.485479	CCGGGGTCATGAATCGATTCTT	60.485	50.000	32.08	25.29	37.67	2.52
1498	5034	1.337541	ACTTTAAGCCGGAGAACGTCC	60.338	52.381	5.05	0.00	42.85	4.79
1686	5222	2.440065	GGGTGCATCATGGCGGAA	60.440	61.111	0.00	0.00	36.28	4.30
1816	5352	1.002087	TCTTGGAGGAGCTTTCGGAAC	59.998	52.381	0.00	0.00	0.00	3.62
1958	5494	5.720202	TGTGTCGCTGATGAGTTAATTAGT	58.280	37.500	0.00	0.00	0.00	2.24
2002	5538	5.257262	TGCAGTGCCACTGGTTAATTATTA	58.743	37.500	25.24	0.00	46.01	0.98
2003	5539	5.356751	TGCAGTGCCACTGGTTAATTATTAG	59.643	40.000	25.24	0.00	46.01	1.73
2004	5540	5.357032	GCAGTGCCACTGGTTAATTATTAGT	59.643	40.000	25.24	0.00	46.01	2.24
2005	5541	6.540914	GCAGTGCCACTGGTTAATTATTAGTA	59.459	38.462	25.24	0.00	46.01	1.82
2006	5542	7.466860	GCAGTGCCACTGGTTAATTATTAGTAC	60.467	40.741	25.24	0.00	46.01	2.73
2007	5543	7.551262	CAGTGCCACTGGTTAATTATTAGTACA	59.449	37.037	17.22	0.00	42.35	2.90
2008	5544	8.272173	AGTGCCACTGGTTAATTATTAGTACAT	58.728	33.333	0.00	0.00	0.00	2.29
2009	5545	8.899771	GTGCCACTGGTTAATTATTAGTACATT	58.100	33.333	0.00	0.00	0.00	2.71
2011	5547	7.860872	GCCACTGGTTAATTATTAGTACATTGC	59.139	37.037	0.00	0.00	0.00	3.56
2012	5548	8.898761	CCACTGGTTAATTATTAGTACATTGCA	58.101	33.333	0.00	0.00	0.00	4.08
2016	5555	8.402472	TGGTTAATTATTAGTACATTGCAGTGC	58.598	33.333	8.58	8.58	0.00	4.40
2032	5581	3.601443	AGTGCCACTGACTTAGCTTAG	57.399	47.619	0.00	0.00	0.00	2.18
2057	5619	9.798994	AGCTACTGTGTTATTATGTACTGTAAC	57.201	33.333	0.00	0.00	30.61	2.50
2093	5655	5.778241	CCCAAACTTAGTTTATGGGTTCCTT	59.222	40.000	21.05	0.00	35.38	3.36
2112	5695	2.715749	TGCCATGTAATCCTGTGAGG	57.284	50.000	0.00	0.00	36.46	3.86
2197	5925	6.204688	ACGAACAATGTCTGAATCTGCTAAAA	59.795	34.615	0.00	0.00	0.00	1.52
2217	5997	2.800250	AGCCAAGTTTCTGAATCTGGG	58.200	47.619	14.95	14.95	0.00	4.45
2228	6008	3.008330	CTGAATCTGGGTGAGCTTTCTG	58.992	50.000	0.00	0.00	0.00	3.02
2238	6018	0.670854	GAGCTTTCTGTGACCGGTCC	60.671	60.000	31.19	21.86	0.00	4.46
2243	6023	1.548081	TTCTGTGACCGGTCCGAATA	58.452	50.000	31.19	10.01	0.00	1.75
2247	6027	0.179094	GTGACCGGTCCGAATATGCA	60.179	55.000	31.19	7.48	0.00	3.96
2308	6088	7.112122	TGCATGGACTAAATAGATGTGAAGTT	58.888	34.615	0.00	0.00	0.00	2.66
2340	6120	7.267128	AGAAAAACAAATGCTGAATGTCTCAA	58.733	30.769	0.00	0.00	32.17	3.02
2464	6304	5.125356	TGGCACTAACAGATGATACAATGG	58.875	41.667	0.00	0.00	0.00	3.16
2554	6406	3.698040	CCTCAGCTTTACTTCCATTGCAT	59.302	43.478	0.00	0.00	0.00	3.96
2622	6474	2.887783	GCTCGATCAATCCTCACCTCTA	59.112	50.000	0.00	0.00	0.00	2.43
2653	6505	3.521560	TGCAAGTCTATGTAAAGCTCGG	58.478	45.455	0.00	0.00	0.00	4.63
2654	6506	2.285488	GCAAGTCTATGTAAAGCTCGGC	59.715	50.000	0.00	0.00	0.00	5.54
2658	6510	3.447586	AGTCTATGTAAAGCTCGGCTCAA	59.552	43.478	0.00	0.00	38.25	3.02
2659	6511	3.552294	GTCTATGTAAAGCTCGGCTCAAC	59.448	47.826	0.00	2.28	38.25	3.18
2660	6512	2.472695	ATGTAAAGCTCGGCTCAACA	57.527	45.000	12.34	12.34	38.25	3.33
2662	6514	1.202592	TGTAAAGCTCGGCTCAACACA	60.203	47.619	0.00	0.05	38.25	3.72
2663	6515	1.871039	GTAAAGCTCGGCTCAACACAA	59.129	47.619	0.00	0.00	38.25	3.33
2703	6558	3.259374	GGTCTCCTCAACTCAACAGATCA	59.741	47.826	0.00	0.00	0.00	2.92
2813	6679	3.499338	TGTGAAATGTGATGAAGGCCTT	58.501	40.909	20.65	20.65	0.00	4.35
2816	6682	0.813184	AATGTGATGAAGGCCTTGCG	59.187	50.000	26.25	0.00	0.00	4.85
2819	6704	0.598065	GTGATGAAGGCCTTGCGTTT	59.402	50.000	26.25	0.00	36.76	3.60
2822	6707	1.269448	GATGAAGGCCTTGCGTTTGAA	59.731	47.619	26.25	0.00	36.76	2.69
2823	6708	0.667993	TGAAGGCCTTGCGTTTGAAG	59.332	50.000	26.25	0.00	36.76	3.02
2827	6712	0.383949	GGCCTTGCGTTTGAAGTTGA	59.616	50.000	0.00	0.00	0.00	3.18
2839	6724	6.482835	CGTTTGAAGTTGAACTGAACATGTA	58.517	36.000	0.00	0.00	0.00	2.29
2841	6726	5.651172	TGAAGTTGAACTGAACATGTACG	57.349	39.130	0.00	0.00	0.00	3.67
2842	6727	5.113383	TGAAGTTGAACTGAACATGTACGT	58.887	37.500	0.00	0.00	0.00	3.57
2881	6766	3.361158	CGGCGGTGTTGATGGCAA	61.361	61.111	0.00	0.00	0.00	4.52
2916	6801	0.107116	ACGTAACCAACAAGTGCCCA	60.107	50.000	0.00	0.00	0.00	5.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
5	6	3.194861	GCACGCATCCACTAATGTCTAA	58.805	45.455	0.00	0.00	0.00	2.10
6	7	2.167487	TGCACGCATCCACTAATGTCTA	59.833	45.455	0.00	0.00	0.00	2.59
7	8	1.066215	TGCACGCATCCACTAATGTCT	60.066	47.619	0.00	0.00	0.00	3.41
9	10	1.819928	TTGCACGCATCCACTAATGT	58.180	45.000	0.00	0.00	0.00	2.71
10	11	2.916716	GTTTTGCACGCATCCACTAATG	59.083	45.455	0.00	0.00	0.00	1.90
11	12	2.414029	CGTTTTGCACGCATCCACTAAT	60.414	45.455	0.00	0.00	43.37	1.73
32	33	3.177487	GGAGTCCATAGTCGTTTCGTTC	58.823	50.000	3.60	0.00	0.00	3.95
40	41	7.040473	ACTATTAAAGTGGAGTCCATAGTCG	57.960	40.000	16.67	0.00	36.93	4.18
147	152	9.823647	AGTACATGATGACCATTTTCTTAGTAG	57.176	33.333	0.00	0.00	31.94	2.57
180	185	9.874205	CATTTTCCTAAAATACATGGTCAACAT	57.126	29.630	0.00	0.00	38.97	2.71
182	187	9.705290	AACATTTTCCTAAAATACATGGTCAAC	57.295	29.630	0.00	0.00	38.97	3.18
209	214	7.253983	CGCATGAACGTTCTTAACACACTATAT	60.254	37.037	27.32	6.48	0.00	0.86
326	890	5.811399	TGTGTGGACACTTCTTTTAGTTG	57.189	39.130	11.09	0.00	46.55	3.16
495	1067	4.217550	CACGTATTTCCCACCAAATCAAGT	59.782	41.667	0.00	0.00	0.00	3.16
611	1188	8.330302	TCTATTGCAAAAAGTACACGTTTTTC	57.670	30.769	1.71	0.90	35.85	2.29
638	1233	6.014925	TGCCCCCTTTCACTTACTTTTATTTC	60.015	38.462	0.00	0.00	0.00	2.17
640	1235	5.399113	TGCCCCCTTTCACTTACTTTTATT	58.601	37.500	0.00	0.00	0.00	1.40
642	1237	4.456662	TGCCCCCTTTCACTTACTTTTA	57.543	40.909	0.00	0.00	0.00	1.52
647	1243	5.731957	TTTTATTGCCCCCTTTCACTTAC	57.268	39.130	0.00	0.00	0.00	2.34
653	1249	4.772624	ACTCTCTTTTTATTGCCCCCTTTC	59.227	41.667	0.00	0.00	0.00	2.62
660	1256	9.744468	TTTCACTTTTACTCTCTTTTTATTGCC	57.256	29.630	0.00	0.00	0.00	4.52
703	1301	3.058224	CGGCCGTTCATCTTTCTTTTTCT	60.058	43.478	19.50	0.00	0.00	2.52
704	1302	3.234386	CGGCCGTTCATCTTTCTTTTTC	58.766	45.455	19.50	0.00	0.00	2.29
705	1303	2.030274	CCGGCCGTTCATCTTTCTTTTT	60.030	45.455	26.12	0.00	0.00	1.94
706	1304	1.539827	CCGGCCGTTCATCTTTCTTTT	59.460	47.619	26.12	0.00	0.00	2.27
707	1305	1.165270	CCGGCCGTTCATCTTTCTTT	58.835	50.000	26.12	0.00	0.00	2.52
708	1306	0.323629	TCCGGCCGTTCATCTTTCTT	59.676	50.000	26.12	0.00	0.00	2.52
709	1307	0.541863	ATCCGGCCGTTCATCTTTCT	59.458	50.000	26.12	0.00	0.00	2.52
710	1308	0.657840	CATCCGGCCGTTCATCTTTC	59.342	55.000	26.12	0.00	0.00	2.62
808	1438	2.730604	CGTTTACGCGGGTGACGT	60.731	61.111	24.75	11.48	46.52	4.34
832	1464	3.733337	GGGATTCAGACAGATTGCGTAT	58.267	45.455	0.00	0.00	0.00	3.06
924	1610	0.753479	GTCGGGAGCAGAGGAGATCA	60.753	60.000	0.00	0.00	0.00	2.92
1072	4608	1.803922	TGATGCTACCGAACGCGTG	60.804	57.895	14.98	2.11	35.23	5.34
1108	4644	1.073722	TGCCTTCTCCAAGCACCTG	59.926	57.895	0.00	0.00	0.00	4.00
1224	4760	2.582226	GTGATCGCGCGGATGTCA	60.582	61.111	31.69	23.86	34.82	3.58
1281	4817	5.990386	CACATCCAAGATCTCAAGAATCGAT	59.010	40.000	0.00	0.00	0.00	3.59
1288	4824	1.938577	CGCCACATCCAAGATCTCAAG	59.061	52.381	0.00	0.00	0.00	3.02
1290	4826	1.134699	GTCGCCACATCCAAGATCTCA	60.135	52.381	0.00	0.00	0.00	3.27
1498	5034	2.815647	GCCGAAGAAGCCGACCAG	60.816	66.667	0.00	0.00	0.00	4.00
1686	5222	2.359478	GTCCCGCCGGTCAACATT	60.359	61.111	1.90	0.00	0.00	2.71
1894	5430	2.116125	GGGCTTGCTGAACCACCT	59.884	61.111	0.00	0.00	0.00	4.00
2002	5538	1.072173	TCAGTGGCACTGCAATGTACT	59.928	47.619	36.65	2.65	45.54	2.73
2003	5539	1.197721	GTCAGTGGCACTGCAATGTAC	59.802	52.381	36.65	25.85	45.54	2.90
2004	5540	1.072173	AGTCAGTGGCACTGCAATGTA	59.928	47.619	36.65	19.74	45.54	2.29
2005	5541	0.179009	AGTCAGTGGCACTGCAATGT	60.179	50.000	36.65	18.80	45.54	2.71
2006	5542	0.956633	AAGTCAGTGGCACTGCAATG	59.043	50.000	36.65	18.68	45.54	2.82
2007	5543	2.430465	CTAAGTCAGTGGCACTGCAAT	58.570	47.619	36.65	26.41	45.54	3.56
2008	5544	1.882912	CTAAGTCAGTGGCACTGCAA	58.117	50.000	36.65	21.86	45.54	4.08
2009	5545	0.603707	GCTAAGTCAGTGGCACTGCA	60.604	55.000	36.65	24.44	45.54	4.41
2011	5547	6.653645	AGCTAAGCTAAGTCAGTGGCACTG	62.654	50.000	35.97	35.97	41.73	3.66
2012	5548	2.354203	GCTAAGCTAAGTCAGTGGCACT	60.354	50.000	15.88	15.88	0.00	4.40
2016	5555	4.158764	ACAGTAGCTAAGCTAAGTCAGTGG	59.841	45.833	0.00	0.00	43.07	4.00
2032	5581	9.798994	AGTTACAGTACATAATAACACAGTAGC	57.201	33.333	0.00	0.00	31.29	3.58
2057	5619	0.251341	AGTTTGGGCCCTGCAACTAG	60.251	55.000	25.70	0.00	0.00	2.57
2093	5655	2.195727	TCCTCACAGGATTACATGGCA	58.804	47.619	0.00	0.00	40.06	4.92
2112	5695	8.768955	CCATGCTACTAACTGAGTAATTGATTC	58.231	37.037	0.00	0.00	40.23	2.52
2120	5703	8.755028	TGTAATTTCCATGCTACTAACTGAGTA	58.245	33.333	0.00	0.00	39.81	2.59
2122	5705	8.554528	CATGTAATTTCCATGCTACTAACTGAG	58.445	37.037	5.24	0.00	33.90	3.35
2126	5709	8.292448	CCATCATGTAATTTCCATGCTACTAAC	58.708	37.037	11.14	0.00	39.60	2.34
2127	5710	8.217111	TCCATCATGTAATTTCCATGCTACTAA	58.783	33.333	11.14	0.00	39.60	2.24
2128	5711	7.744733	TCCATCATGTAATTTCCATGCTACTA	58.255	34.615	11.14	0.00	39.60	1.82
2129	5712	6.604171	TCCATCATGTAATTTCCATGCTACT	58.396	36.000	11.14	0.00	39.60	2.57
2197	5925	2.108952	ACCCAGATTCAGAAACTTGGCT	59.891	45.455	9.77	0.00	0.00	4.75
2217	5997	0.249911	ACCGGTCACAGAAAGCTCAC	60.250	55.000	0.00	0.00	0.00	3.51
2228	6008	0.179094	TGCATATTCGGACCGGTCAC	60.179	55.000	34.40	22.34	0.00	3.67
2238	6018	5.907945	CAGATTCAGAAGCTTTGCATATTCG	59.092	40.000	0.00	0.00	0.00	3.34
2243	6023	3.428532	ACCAGATTCAGAAGCTTTGCAT	58.571	40.909	0.00	0.00	0.00	3.96
2247	6027	6.469782	TTTTCAACCAGATTCAGAAGCTTT	57.530	33.333	0.00	0.00	0.00	3.51
2273	6053	5.823209	TTTAGTCCATGCATCAACATCAG	57.177	39.130	0.00	0.00	0.00	2.90
2308	6088	5.645624	TCAGCATTTGTTTTTCTTCGTTGA	58.354	33.333	0.00	0.00	0.00	3.18
2455	6294	5.221048	CGGATGTTCCCTTTTCCATTGTATC	60.221	44.000	0.00	0.00	31.13	2.24
2464	6304	4.712122	TTTATGCGGATGTTCCCTTTTC	57.288	40.909	0.00	0.00	31.13	2.29
2513	6353	0.938637	GCATGATGAGAGCCGAGACG	60.939	60.000	0.00	0.00	0.00	4.18
2554	6406	3.650070	TTGTGTTTGTGTGACTTGCAA	57.350	38.095	0.00	0.00	0.00	4.08
2643	6495	1.508632	TGTGTTGAGCCGAGCTTTAC	58.491	50.000	0.00	3.08	39.88	2.01
2653	6505	5.173774	TGAAGATGAACTTTGTGTTGAGC	57.826	39.130	0.00	0.00	39.30	4.26
2654	6506	7.916977	TGAAATGAAGATGAACTTTGTGTTGAG	59.083	33.333	0.00	0.00	39.30	3.02
2658	6510	6.322201	ACCTGAAATGAAGATGAACTTTGTGT	59.678	34.615	0.00	0.00	39.13	3.72
2659	6511	6.742109	ACCTGAAATGAAGATGAACTTTGTG	58.258	36.000	0.00	0.00	39.13	3.33
2660	6512	6.774656	AGACCTGAAATGAAGATGAACTTTGT	59.225	34.615	0.00	0.00	39.13	2.83
2662	6514	6.432472	GGAGACCTGAAATGAAGATGAACTTT	59.568	38.462	0.00	0.00	39.13	2.66
2663	6515	5.942826	GGAGACCTGAAATGAAGATGAACTT	59.057	40.000	0.00	0.00	42.03	2.66
2813	6679	3.189495	TGTTCAGTTCAACTTCAAACGCA	59.811	39.130	0.00	0.00	0.00	5.24
2816	6682	6.410914	CGTACATGTTCAGTTCAACTTCAAAC	59.589	38.462	2.30	0.00	0.00	2.93
2819	6704	5.113383	ACGTACATGTTCAGTTCAACTTCA	58.887	37.500	2.30	0.00	0.00	3.02
2822	6707	3.734231	CGACGTACATGTTCAGTTCAACT	59.266	43.478	2.30	0.00	0.00	3.16
2823	6708	3.488310	ACGACGTACATGTTCAGTTCAAC	59.512	43.478	2.30	0.00	0.00	3.18
2827	6712	4.114073	TGAAACGACGTACATGTTCAGTT	58.886	39.130	2.30	3.02	0.00	3.16
2839	6724	1.064803	TGCAGCAAAATGAAACGACGT	59.935	42.857	0.00	0.00	0.00	4.34
2841	6726	2.053627	CCTGCAGCAAAATGAAACGAC	58.946	47.619	8.66	0.00	0.00	4.34
2842	6727	1.000385	CCCTGCAGCAAAATGAAACGA	60.000	47.619	8.66	0.00	0.00	3.85
2881	6766	4.309950	GTGGAACGTGACGCCCCT	62.310	66.667	4.25	0.00	0.00	4.79

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.