AutoCloner

Multiple sequence alignment - TraesCS6A01G178700

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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	TraesCS6A01G178700	chr6A	100.000	6361	0	0	1	6361	200944671	200951031	0.000000e+00	11747.0
1	TraesCS6A01G178700	chr6D	96.245	5593	131	20	580	6112	144604795	144610368	0.000000e+00	9092.0
2	TraesCS6A01G178700	chr6D	87.097	589	61	9	1	586	144602587	144603163	0.000000e+00	652.0
3	TraesCS6A01G178700	chr6D	94.714	227	11	1	6130	6356	144610627	144610852	1.010000e-92	351.0
4	TraesCS6A01G178700	chr6D	100.000	87	0	0	6026	6112	144610402	144610488	1.840000e-35	161.0
5	TraesCS6A01G178700	chr6B	90.166	4281	250	65	2187	6361	258759200	258763415	0.000000e+00	5415.0
6	TraesCS6A01G178700	chr6B	90.954	1415	108	8	1	1410	258756343	258757742	0.000000e+00	1886.0
7	TraesCS6A01G178700	chr6B	87.781	401	41	3	1670	2070	258758801	258759193	4.490000e-126	462.0
8	TraesCS6A01G178700	chr6B	94.853	272	12	1	1362	1633	258757741	258758010	2.120000e-114	424.0
9	TraesCS6A01G178700	chr6B	95.652	46	2	0	619	664	544081776	544081731	2.460000e-09	75.0
10	TraesCS6A01G178700	chr6B	89.286	56	4	2	607	662	563333668	563333615	1.140000e-07	69.4
11	TraesCS6A01G178700	chrUn	98.526	407	6	0	5282	5688	477993011	477992605	0.000000e+00	719.0
12	TraesCS6A01G178700	chr1D	83.634	666	99	9	1	662	425563513	425564172	9.060000e-173	617.0
13	TraesCS6A01G178700	chr1D	85.336	491	67	4	1	488	7377079	7376591	2.650000e-138	503.0
14	TraesCS6A01G178700	chr7D	84.320	625	85	5	1	623	474354833	474355446	3.280000e-167	599.0
15	TraesCS6A01G178700	chr7D	81.735	657	102	10	2	652	453389982	453390626	3.380000e-147	532.0
16	TraesCS6A01G178700	chr7D	81.405	242	42	2	5983	6221	5101930	5101689	1.810000e-45	195.0
17	TraesCS6A01G178700	chr7B	82.488	611	91	9	1	607	562726093	562726691	7.310000e-144	521.0
18	TraesCS6A01G178700	chr4D	82.230	574	81	8	1	564	488175467	488174905	5.770000e-130	475.0
19	TraesCS6A01G178700	chr4D	81.746	126	20	3	490	615	306372385	306372263	1.130000e-17	102.0
20	TraesCS6A01G178700	chr3D	82.175	561	91	6	1	556	369789322	369789878	2.080000e-129	473.0
21	TraesCS6A01G178700	chr2A	87.310	394	36	4	5971	6352	775753728	775754119	7.570000e-119	438.0
22	TraesCS6A01G178700	chr2A	81.765	170	27	2	5971	6136	17623217	17623386	8.600000e-29	139.0
23	TraesCS6A01G178700	chr3B	79.703	606	115	8	3	608	505834595	505833998	1.270000e-116	431.0
24	TraesCS6A01G178700	chr4A	80.147	272	39	12	5982	6240	727081184	727081453	8.420000e-44	189.0
25	TraesCS6A01G178700	chr4A	78.346	254	52	2	5971	6221	737470542	737470795	1.840000e-35	161.0
26	TraesCS6A01G178700	chr2B	83.077	130	15	5	5982	6106	731722236	731722109	1.870000e-20	111.0
27	TraesCS6A01G178700	chr2D	79.048	105	17	5	496	597	606914166	606914064	4.120000e-07	67.6

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	TraesCS6A01G178700	chr6A	200944671	200951031	6360	False	11747.00	11747	100.0000	1	6361	1	chr6A.!!$F1	6360
1	TraesCS6A01G178700	chr6D	144602587	144610852	8265	False	2564.00	9092	94.5140	1	6356	4	chr6D.!!$F1	6355
2	TraesCS6A01G178700	chr6B	258756343	258763415	7072	False	2046.75	5415	90.9385	1	6361	4	chr6B.!!$F1	6360
3	TraesCS6A01G178700	chr1D	425563513	425564172	659	False	617.00	617	83.6340	1	662	1	chr1D.!!$F1	661
4	TraesCS6A01G178700	chr7D	474354833	474355446	613	False	599.00	599	84.3200	1	623	1	chr7D.!!$F2	622
5	TraesCS6A01G178700	chr7D	453389982	453390626	644	False	532.00	532	81.7350	2	652	1	chr7D.!!$F1	650
6	TraesCS6A01G178700	chr7B	562726093	562726691	598	False	521.00	521	82.4880	1	607	1	chr7B.!!$F1	606
7	TraesCS6A01G178700	chr4D	488174905	488175467	562	True	475.00	475	82.2300	1	564	1	chr4D.!!$R2	563
8	TraesCS6A01G178700	chr3D	369789322	369789878	556	False	473.00	473	82.1750	1	556	1	chr3D.!!$F1	555
9	TraesCS6A01G178700	chr3B	505833998	505834595	597	True	431.00	431	79.7030	3	608	1	chr3B.!!$R1	605

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	Hairpin	End Stability	Orientation
381	394	0.252057	TGGAGGATGACGAGGGTTCA	60.252	55.000	0.00	0.00	3.18	F
426	444	0.983905	GGGAGGAGGAGGAAGGGTTC	60.984	65.000	0.00	0.00	3.62	F
1144	2833	1.218316	GAACACGCCTCGGGATCTT	59.782	57.895	0.00	32.98	2.40	F
2270	4762	0.396435	AGACGGTGGCATGAGTTGAA	59.604	50.000	0.00	0.00	2.69	F
3642	6167	0.332293	TGCCTGCCCATCAATCTCAA	59.668	50.000	0.00	0.00	3.02	F
4097	6646	0.176680	AGAGAGTAATGGCCAGCGTG	59.823	55.000	13.05	0.00	5.34	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1481	3219	0.976641	ACGTCTTCTGATTCCTGGCA	59.023	50.0	0.00	0.00	4.92	R
1651	3412	1.905637	ACCAAATTCCTCCCAACGAC	58.094	50.0	0.00	0.00	4.34	R
2663	5160	0.249120	TGCTTACCTGACCGACCATG	59.751	55.0	0.00	0.00	3.66	R
4077	6626	0.905357	ACGCTGGCCATTACTCTCTT	59.095	50.0	5.51	0.00	2.85	R
5206	7796	0.742281	CCAAGAGCAGACCACGATGG	60.742	60.0	0.00	45.02	3.51	R
5821	8414	0.796312	TTTTCGTTCATCTCGCCTGC	59.204	50.0	0.00	0.00	4.85	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
234	246	0.734253	CGACGTTCTCCTCCTTGCAG	60.734	60.000	0.00	0.00	0.00	4.41
278	291	1.150567	CGACGGACGAGACGGACTAT	61.151	60.000	0.00	0.00	45.77	2.12
319	332	1.982395	TCGGGCTGGACGACATCTT	60.982	57.895	0.00	0.00	35.12	2.40
330	343	1.810030	GACATCTTCGGCGGTGGAC	60.810	63.158	7.21	0.00	0.00	4.02
381	394	0.252057	TGGAGGATGACGAGGGTTCA	60.252	55.000	0.00	0.00	0.00	3.18
426	444	0.983905	GGGAGGAGGAGGAAGGGTTC	60.984	65.000	0.00	0.00	0.00	3.62
447	465	5.651387	TCGATGGATTTGGTGCAATTTAA	57.349	34.783	0.00	0.00	0.00	1.52
448	466	6.030548	TCGATGGATTTGGTGCAATTTAAA	57.969	33.333	0.00	0.00	0.00	1.52
455	473	3.658757	TGGTGCAATTTAAAGTGAGGC	57.341	42.857	19.18	4.77	0.00	4.70
459	477	3.005791	GTGCAATTTAAAGTGAGGCCAGT	59.994	43.478	19.18	0.00	0.00	4.00
542	582	7.233632	CCCATATTTGAACTGGATATGAAGGA	58.766	38.462	4.60	0.00	36.37	3.36
544	584	9.964354	CCATATTTGAACTGGATATGAAGGATA	57.036	33.333	4.60	0.00	36.37	2.59
564	604	2.741211	GGTCAGCCCGGACGTTTC	60.741	66.667	0.73	0.00	38.70	2.78
565	605	2.342648	GTCAGCCCGGACGTTTCT	59.657	61.111	0.73	0.00	0.00	2.52
586	2263	2.158726	TGACCCGTTTAAGGAGCTTGTT	60.159	45.455	0.00	0.00	0.00	2.83
642	2324	3.432326	GGCTTATGAGACGGGTTTGAGAT	60.432	47.826	0.00	0.00	0.00	2.75
850	2538	2.040544	CAGCGACCTCGGCCAAATT	61.041	57.895	2.24	0.00	40.23	1.82
858	2546	3.595173	ACCTCGGCCAAATTATTTTTGC	58.405	40.909	2.24	1.62	33.79	3.68
1144	2833	1.218316	GAACACGCCTCGGGATCTT	59.782	57.895	0.00	0.00	32.98	2.40
1481	3219	4.411013	CTGACAATCCCTTCTCCCTTTTT	58.589	43.478	0.00	0.00	0.00	1.94
1651	3412	5.921784	GCATAGAAATTGCTCTGTTTTCG	57.078	39.130	0.00	0.00	37.14	3.46
1656	3417	3.963383	AATTGCTCTGTTTTCGTCGTT	57.037	38.095	0.00	0.00	0.00	3.85
1753	4245	3.282831	ACAATACGTTTTCAAGCAGGC	57.717	42.857	0.00	0.00	0.00	4.85
1783	4275	3.966543	GGGTGTGGAGTGGGTGGG	61.967	72.222	0.00	0.00	0.00	4.61
1934	4426	8.879759	CGTGATAAGTTGTATCCACAAATAACT	58.120	33.333	0.00	0.00	45.99	2.24
2019	4511	2.008752	TCAGATTTGCGCGATTCTCA	57.991	45.000	17.21	4.14	0.00	3.27
2070	4562	5.245075	GGGTTGGGTTCTCATGTAAAATTCA	59.755	40.000	0.00	0.00	0.00	2.57
2166	4658	1.606480	CGCCATGAGTCATTCGGCTAT	60.606	52.381	24.48	0.00	40.72	2.97
2229	4721	0.882474	TGGTAAAATTCCGGTTGCGG	59.118	50.000	0.00	0.00	0.00	5.69
2270	4762	0.396435	AGACGGTGGCATGAGTTGAA	59.604	50.000	0.00	0.00	0.00	2.69
2366	4858	1.474077	GTGCTACATCCAGGCCTTTTG	59.526	52.381	0.00	3.27	0.00	2.44
2441	4933	5.746990	ATGTATATGGTGGAGCTAGAACC	57.253	43.478	0.00	5.23	34.38	3.62
2478	4970	7.404671	ACATTAACTTAAGGATTGCGGAATT	57.595	32.000	2.86	0.00	0.00	2.17
2650	5147	2.286294	GGCTTTCACATAGACATGAGCG	59.714	50.000	0.00	0.00	35.96	5.03
2663	5160	2.223479	ACATGAGCGTGGTGTTTTTGTC	60.223	45.455	0.00	0.00	0.00	3.18
2670	5167	2.726633	GTGGTGTTTTTGTCATGGTCG	58.273	47.619	0.00	0.00	0.00	4.79
2674	5171	2.356382	GTGTTTTTGTCATGGTCGGTCA	59.644	45.455	0.00	0.00	0.00	4.02
3006	5504	3.186409	TGTCGTTGCTTAGCAGATTCAAC	59.814	43.478	7.08	0.42	40.61	3.18
3025	5541	5.076873	TCAACCTTCCTAAATCACCAAAGG	58.923	41.667	0.00	0.00	39.32	3.11
3077	5593	2.807967	GCATCGCTAGATTTGCCACATA	59.192	45.455	0.00	0.00	34.23	2.29
3107	5623	0.995024	CCATCTCTGGGGTGTCCTTT	59.005	55.000	0.00	0.00	39.04	3.11
3275	5800	1.134401	CACATAGATGCAACCCTCGGT	60.134	52.381	0.00	0.00	37.65	4.69
3642	6167	0.332293	TGCCTGCCCATCAATCTCAA	59.668	50.000	0.00	0.00	0.00	3.02
3975	6502	2.496899	AAACAGGGTGCACTCCTATG	57.503	50.000	21.84	13.53	32.49	2.23
4094	6643	2.698855	TCAAGAGAGTAATGGCCAGC	57.301	50.000	13.05	3.86	0.00	4.85
4097	6646	0.176680	AGAGAGTAATGGCCAGCGTG	59.823	55.000	13.05	0.00	0.00	5.34
4158	6709	1.266211	GCGTCGTGTGTGCTAATAACG	60.266	52.381	0.00	0.00	35.64	3.18
4166	6717	1.066502	TGTGCTAATAACGGCTCAGCA	60.067	47.619	0.00	0.00	39.79	4.41
4180	6731	2.357009	GCTCAGCATGTGATTTACCAGG	59.643	50.000	0.00	0.00	37.40	4.45
4201	6752	3.138304	GGGCAAAATGGTCCAAAACTTC	58.862	45.455	0.00	0.00	31.09	3.01
4209	6766	4.411256	TGGTCCAAAACTTCTAAGACGT	57.589	40.909	0.00	0.00	0.00	4.34
4236	6793	4.170256	GTCTTTGCGAAAAAGGTTTCACA	58.830	39.130	10.13	0.00	42.90	3.58
4254	6812	7.420002	GTTTCACACCTTATTTTTAGGAACGT	58.580	34.615	0.00	0.00	36.58	3.99
4279	6849	4.141937	GGGAGTGTGACAGTATATGCAAGA	60.142	45.833	0.00	0.00	0.00	3.02
4347	6921	8.816640	ACTTTATCGCATTTGAACAAGAAAAT	57.183	26.923	0.00	0.00	0.00	1.82
4704	7293	2.291153	CGCCCATAATCCCCTGATTGAT	60.291	50.000	0.00	0.00	41.31	2.57
4766	7355	5.845985	TGACAAAAGAACTGCTATCTTCG	57.154	39.130	0.78	0.00	36.14	3.79
4942	7531	2.420129	CCTGGACCCCATTAGTTTCTCG	60.420	54.545	0.00	0.00	30.82	4.04
4943	7532	1.557832	TGGACCCCATTAGTTTCTCGG	59.442	52.381	0.00	0.00	0.00	4.63
5084	7674	6.544197	TGTTTCGTGTTTATGCCCACATATAT	59.456	34.615	0.00	0.00	38.55	0.86
5206	7796	1.588404	CATAGTGATTGTGCCGTCGAC	59.412	52.381	5.18	5.18	0.00	4.20
5354	7945	4.692228	TCATCGAATCAATCATCGTTCCA	58.308	39.130	0.00	0.00	39.91	3.53
5404	7995	3.262420	CGAACTAAACATGGCTGCTACT	58.738	45.455	0.00	0.00	0.00	2.57
5410	8001	1.566211	ACATGGCTGCTACTGAGTCT	58.434	50.000	0.00	0.00	0.00	3.24
5720	8312	1.569479	GCTCTTGGTGCCTTGACGTC	61.569	60.000	9.11	9.11	0.00	4.34
5789	8382	5.253330	CACTCCTGCTCCTGGTAAAAATAA	58.747	41.667	0.00	0.00	0.00	1.40
5821	8414	4.944317	TCCTCTATGTATCAGCATAGGTCG	59.056	45.833	11.64	3.52	45.01	4.79
5836	8429	2.202610	TCGCAGGCGAGATGAACG	60.203	61.111	12.94	0.00	44.01	3.95
5899	8492	9.918630	CAGAAATTTCATAACAAGATCAAAGGT	57.081	29.630	19.99	0.00	0.00	3.50
6266	9101	4.736896	AACTTCGAGCGCGTCCCC	62.737	66.667	10.30	0.00	38.98	4.81
6342	9177	7.173562	TCACACAAAACCATATACAAGTACCAC	59.826	37.037	0.00	0.00	0.00	4.16
6352	9187	5.975988	ATACAAGTACCACCAGATCCATT	57.024	39.130	0.00	0.00	0.00	3.16
6354	9189	3.587061	ACAAGTACCACCAGATCCATTCA	59.413	43.478	0.00	0.00	0.00	2.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
71	76	2.007641	CCTACGCGGATTACGTCGC	61.008	63.158	12.47	9.10	43.88	5.19
234	246	0.445043	GTAATTCGCCGGTTGTGACC	59.555	55.000	1.90	0.00	42.87	4.02
270	283	0.733729	GCGACAGAGACATAGTCCGT	59.266	55.000	0.00	0.00	32.18	4.69
278	291	2.910479	ACCACCGCGACAGAGACA	60.910	61.111	8.23	0.00	0.00	3.41
330	343	2.880629	ATCCTCACCTCCGGTCCCTG	62.881	65.000	0.00	0.00	31.02	4.45
426	444	5.868801	ACTTTAAATTGCACCAAATCCATCG	59.131	36.000	0.00	0.00	0.00	3.84
447	465	0.109342	CCAACAGACTGGCCTCACTT	59.891	55.000	3.32	0.00	0.00	3.16
448	466	1.757306	CCAACAGACTGGCCTCACT	59.243	57.895	3.32	0.00	0.00	3.41
455	473	0.391661	CATCGGACCCAACAGACTGG	60.392	60.000	7.51	0.00	36.10	4.00
459	477	1.676968	CCACATCGGACCCAACAGA	59.323	57.895	0.00	0.00	36.56	3.41
495	533	3.178540	AATATGAGGGCGTCCGGGC	62.179	63.158	0.00	0.00	38.33	6.13
498	536	2.022129	GCGAATATGAGGGCGTCCG	61.022	63.158	0.00	1.77	38.33	4.79
499	537	1.668151	GGCGAATATGAGGGCGTCC	60.668	63.158	0.00	0.00	0.00	4.79
500	538	1.668151	GGGCGAATATGAGGGCGTC	60.668	63.158	0.00	0.00	0.00	5.19
501	539	2.426023	GGGCGAATATGAGGGCGT	59.574	61.111	0.00	0.00	0.00	5.68
502	540	2.358737	GGGGCGAATATGAGGGCG	60.359	66.667	0.00	0.00	0.00	6.13
503	541	0.618458	TATGGGGCGAATATGAGGGC	59.382	55.000	0.00	0.00	0.00	5.19
504	542	3.652057	AATATGGGGCGAATATGAGGG	57.348	47.619	0.00	0.00	0.00	4.30
505	543	4.588899	TCAAATATGGGGCGAATATGAGG	58.411	43.478	0.00	0.00	0.00	3.86
506	544	5.707298	AGTTCAAATATGGGGCGAATATGAG	59.293	40.000	0.00	0.00	0.00	2.90
507	545	5.473162	CAGTTCAAATATGGGGCGAATATGA	59.527	40.000	0.00	0.00	0.00	2.15
564	604	2.076863	CAAGCTCCTTAAACGGGTCAG	58.923	52.381	0.00	0.00	0.00	3.51
565	605	1.418637	ACAAGCTCCTTAAACGGGTCA	59.581	47.619	0.00	0.00	0.00	4.02
623	2301	4.382685	GGACATCTCAAACCCGTCTCATAA	60.383	45.833	0.00	0.00	0.00	1.90
642	2324	1.375908	GAGCATCTGCAACCGGACA	60.376	57.895	9.46	1.80	45.16	4.02
818	2506	4.074526	GCTGGCTGGCTCGTCAGA	62.075	66.667	12.05	0.00	38.90	3.27
850	2538	2.742053	GAGTGCGACTCAGGCAAAAATA	59.258	45.455	10.30	0.00	44.45	1.40
858	2546	2.807045	GTGCGAGTGCGACTCAGG	60.807	66.667	14.09	3.26	45.30	3.86
1048	2736	3.848200	AAGCAAAGGGGGAGGGGGA	62.848	63.158	0.00	0.00	0.00	4.81
1265	2956	2.158959	CCGCAACTAACTCCGAGCG	61.159	63.158	0.00	0.00	44.24	5.03
1481	3219	0.976641	ACGTCTTCTGATTCCTGGCA	59.023	50.000	0.00	0.00	0.00	4.92
1558	3296	5.253096	ACCAGGAATACAGTGGAATTAGGTT	59.747	40.000	0.00	0.00	35.17	3.50
1559	3297	4.788617	ACCAGGAATACAGTGGAATTAGGT	59.211	41.667	0.00	1.39	35.17	3.08
1651	3412	1.905637	ACCAAATTCCTCCCAACGAC	58.094	50.000	0.00	0.00	0.00	4.34
1656	3417	5.615261	AGGCTATTATACCAAATTCCTCCCA	59.385	40.000	0.00	0.00	0.00	4.37
1753	4245	2.258591	CACCCCACACTCGACTCG	59.741	66.667	0.00	0.00	0.00	4.18
2070	4562	3.678056	TTGTGGAGACTAGCAAACGAT	57.322	42.857	0.00	0.00	0.00	3.73
2166	4658	2.301870	ACCGAAGCAGACACTAAATCCA	59.698	45.455	0.00	0.00	0.00	3.41
2229	4721	4.630894	TGAACCACACAAATCTTGTCAC	57.369	40.909	0.00	0.00	43.23	3.67
2270	4762	1.916181	AGGAAACCGTTCATCTCCCAT	59.084	47.619	0.00	0.00	35.25	4.00
2366	4858	7.610305	CCCCATATATAGGTTATGACAACCAAC	59.390	40.741	8.76	0.00	42.69	3.77
2409	4901	6.942576	GCTCCACCATATACATTTCCAACTAT	59.057	38.462	0.00	0.00	0.00	2.12
2478	4970	8.939932	TCCATGTACCCAACAATAACATATAGA	58.060	33.333	0.00	0.00	42.70	1.98
2550	5042	8.594881	AAAAGTAGATGAGTAACAGTTGTCTG	57.405	34.615	0.00	0.00	46.18	3.51
2650	5147	2.542824	CCGACCATGACAAAAACACCAC	60.543	50.000	0.00	0.00	0.00	4.16
2663	5160	0.249120	TGCTTACCTGACCGACCATG	59.751	55.000	0.00	0.00	0.00	3.66
2670	5167	4.665833	AAACCTTTTTGCTTACCTGACC	57.334	40.909	0.00	0.00	0.00	4.02
2674	5171	5.128008	TGCACTAAAACCTTTTTGCTTACCT	59.872	36.000	8.09	0.00	35.80	3.08
3025	5541	1.767759	ATGCCTAAATCTGCACCCAC	58.232	50.000	0.00	0.00	40.88	4.61
3077	5593	4.264532	ACCCCAGAGATGGATGTTCATTTT	60.265	41.667	0.00	0.00	0.00	1.82
3107	5623	9.853555	CAAACTCTGTGGCAAATTTAATATACA	57.146	29.630	0.00	0.00	0.00	2.29
3275	5800	3.263425	CAGCTTCCCTAAGGTTTCCACTA	59.737	47.826	0.00	0.00	41.45	2.74
3427	5952	8.141298	TCAGTACCAACCACAGAATATTCTAA	57.859	34.615	17.53	0.00	35.34	2.10
3975	6502	4.746309	TGCAGCATGGAGGGGCAC	62.746	66.667	0.00	0.00	35.86	5.01
4077	6626	0.905357	ACGCTGGCCATTACTCTCTT	59.095	50.000	5.51	0.00	0.00	2.85
4094	6643	2.287909	GCTAGCTCTACCCTGATTCACG	60.288	54.545	7.70	0.00	0.00	4.35
4097	6646	2.288763	GCTGCTAGCTCTACCCTGATTC	60.289	54.545	17.23	0.00	38.45	2.52
4158	6709	2.357009	CTGGTAAATCACATGCTGAGCC	59.643	50.000	0.23	0.00	30.20	4.70
4166	6717	2.917713	TTGCCCCTGGTAAATCACAT	57.082	45.000	0.00	0.00	0.00	3.21
4180	6731	2.928801	AGTTTTGGACCATTTTGCCC	57.071	45.000	0.00	0.00	0.00	5.36
4209	6766	3.020984	ACCTTTTTCGCAAAGACCAAGA	58.979	40.909	8.14	0.00	0.00	3.02
4236	6793	6.214208	ACTCCCTACGTTCCTAAAAATAAGGT	59.786	38.462	0.00	0.00	35.48	3.50
4254	6812	4.542697	TGCATATACTGTCACACTCCCTA	58.457	43.478	0.00	0.00	0.00	3.53
4740	7329	7.201591	CGAAGATAGCAGTTCTTTTGTCATGAT	60.202	37.037	0.00	0.00	33.65	2.45
4755	7344	5.239744	ACTCATACCTACACGAAGATAGCAG	59.760	44.000	0.00	0.00	0.00	4.24
4942	7531	5.767168	AGCTCCAATAATATGAAGCACTTCC	59.233	40.000	7.88	0.00	38.77	3.46
4943	7532	6.261826	ACAGCTCCAATAATATGAAGCACTTC	59.738	38.462	3.37	3.37	39.91	3.01
5084	7674	5.634118	ACAATCTTCTGAAAATGGGAGTGA	58.366	37.500	9.88	0.00	0.00	3.41
5206	7796	0.742281	CCAAGAGCAGACCACGATGG	60.742	60.000	0.00	0.00	45.02	3.51
5354	7945	4.323104	GCCTCAGTGTTTCCTTCTCAGTAT	60.323	45.833	0.00	0.00	0.00	2.12
5404	7995	3.444034	CGACCATTCCTGTAGAAGACTCA	59.556	47.826	0.00	0.00	38.07	3.41
5410	8001	1.134367	CGCTCGACCATTCCTGTAGAA	59.866	52.381	0.00	0.00	39.32	2.10
5511	8102	9.373603	GTACACACAAATACATCACTGGTAATA	57.626	33.333	0.00	0.00	0.00	0.98
5626	8217	4.808558	TGCATTGTCATCTTAAAACTGCC	58.191	39.130	0.00	0.00	0.00	4.85
5789	8382	6.552725	TGCTGATACATAGAGGAGAGAACAAT	59.447	38.462	0.00	0.00	0.00	2.71
5821	8414	0.796312	TTTTCGTTCATCTCGCCTGC	59.204	50.000	0.00	0.00	0.00	4.85
6151	8986	3.449377	TGTTCGTATGATCCAGTTAGGCA	59.551	43.478	0.00	0.00	37.29	4.75
6302	9137	1.227527	TGTGATAATGAGGGCGCGG	60.228	57.895	8.83	0.00	0.00	6.46

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.