AutoCloner

Multiple sequence alignment - TraesCS4B01G184900

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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	TraesCS4B01G184900	chr4B	100.000	2782	0	0	1	2782	404459822	404462603	0.000000e+00	5138.0
1	TraesCS4B01G184900	chr5B	96.939	882	26	1	1	882	570824207	570823327	0.000000e+00	1478.0
2	TraesCS4B01G184900	chr5A	96.583	878	30	0	1	878	139517859	139516982	0.000000e+00	1456.0
3	TraesCS4B01G184900	chr5A	90.303	165	16	0	278	442	467400016	467400180	1.680000e-52	217.0
4	TraesCS4B01G184900	chr2B	96.659	868	29	0	1	868	789432253	789433120	0.000000e+00	1443.0
5	TraesCS4B01G184900	chr2B	92.206	603	46	1	960	1562	493977608	493978209	0.000000e+00	852.0
6	TraesCS4B01G184900	chr2B	92.870	575	41	0	987	1561	494250872	494251446	0.000000e+00	835.0
7	TraesCS4B01G184900	chr2B	91.489	94	8	0	1552	1645	494252659	494252752	2.250000e-26	130.0
8	TraesCS4B01G184900	chr7B	95.995	874	34	1	1	874	5324734	5323862	0.000000e+00	1419.0
9	TraesCS4B01G184900	chr7B	79.457	258	50	1	1894	2151	15938157	15938411	2.200000e-41	180.0
10	TraesCS4B01G184900	chr4D	94.892	881	43	2	883	1763	323917552	323918430	0.000000e+00	1376.0
11	TraesCS4B01G184900	chr4D	88.508	1079	65	15	1718	2782	323918434	323919467	0.000000e+00	1251.0
12	TraesCS4B01G184900	chr4A	96.182	812	30	1	956	1766	147581976	147581165	0.000000e+00	1327.0
13	TraesCS4B01G184900	chr4A	89.539	803	52	8	1983	2782	147576243	147575470	0.000000e+00	989.0
14	TraesCS4B01G184900	chr4A	85.660	265	16	6	1718	1971	147581115	147580862	2.750000e-65	259.0
15	TraesCS4B01G184900	chr2D	93.035	603	42	0	960	1562	421468038	421468640	0.000000e+00	881.0
16	TraesCS4B01G184900	chr2D	92.188	576	44	1	987	1562	421774405	421774979	0.000000e+00	813.0
17	TraesCS4B01G184900	chr2D	81.986	433	41	16	2272	2695	353939358	353939762	1.600000e-87	333.0
18	TraesCS4B01G184900	chr2D	84.342	281	36	2	1888	2168	353939041	353939313	4.570000e-68	268.0
19	TraesCS4B01G184900	chr2D	91.411	163	14	0	279	441	526525121	526524959	1.000000e-54	224.0
20	TraesCS4B01G184900	chr2D	91.667	96	6	1	1552	1645	421471379	421471474	6.250000e-27	132.0
21	TraesCS4B01G184900	chr2A	91.722	604	46	3	960	1562	567725730	567726330	0.000000e+00	835.0
22	TraesCS4B01G184900	chr2A	92.527	562	42	0	1001	1562	568273053	568273614	0.000000e+00	806.0
23	TraesCS4B01G184900	chr2A	89.803	608	60	2	962	1568	546836915	546836309	0.000000e+00	778.0
24	TraesCS4B01G184900	chr2A	92.222	90	7	0	1556	1645	547004868	547004779	8.090000e-26	128.0
25	TraesCS4B01G184900	chr2A	91.111	90	8	0	1556	1645	546794503	546794414	3.760000e-24	122.0
26	TraesCS4B01G184900	chr2A	89.362	94	10	0	1552	1645	567728746	567728839	4.870000e-23	119.0
27	TraesCS4B01G184900	chr2A	100.000	30	0	0	837	866	71448153	71448124	3.870000e-04	56.5
28	TraesCS4B01G184900	chr1A	84.970	825	70	23	1891	2701	53416143	53415359	0.000000e+00	787.0
29	TraesCS4B01G184900	chr3B	82.161	398	44	15	2272	2665	501557387	501557013	1.610000e-82	316.0
30	TraesCS4B01G184900	chr3B	90.854	164	15	0	279	442	428703823	428703660	1.300000e-53	220.0
31	TraesCS4B01G184900	chrUn	79.592	490	58	24	1888	2367	69338088	69337631	2.080000e-81	313.0
32	TraesCS4B01G184900	chrUn	79.430	491	59	24	1888	2368	69355673	69355215	2.690000e-80	309.0
33	TraesCS4B01G184900	chr6D	85.159	283	38	3	1	279	185395534	185395252	1.260000e-73	287.0
34	TraesCS4B01G184900	chr6D	85.000	280	38	3	1	276	160946328	160946607	5.870000e-72	281.0
35	TraesCS4B01G184900	chr6D	97.436	39	1	0	839	877	436474714	436474676	1.790000e-07	67.6
36	TraesCS4B01G184900	chr3A	85.305	279	37	3	2	276	344343175	344343453	4.540000e-73	285.0
37	TraesCS4B01G184900	chr3A	85.305	279	37	3	2	276	344361921	344362199	4.540000e-73	285.0
38	TraesCS4B01G184900	chr3D	84.452	283	39	4	1	279	61036708	61036427	9.820000e-70	274.0
39	TraesCS4B01G184900	chr5D	85.246	244	23	3	1890	2133	182841226	182841456	3.580000e-59	239.0
40	TraesCS4B01G184900	chr1B	79.503	322	60	6	1909	2228	286711303	286710986	1.000000e-54	224.0
41	TraesCS4B01G184900	chr6B	90.854	164	14	1	279	442	526712511	526712673	4.670000e-53	219.0
42	TraesCS4B01G184900	chr6B	85.906	149	20	1	653	801	156689627	156689480	1.030000e-34	158.0
43	TraesCS4B01G184900	chr7A	89.595	173	14	4	274	442	580506696	580506868	1.680000e-52	217.0
44	TraesCS4B01G184900	chr1D	86.667	180	23	1	1983	2162	296541100	296541278	6.080000e-47	198.0

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	TraesCS4B01G184900	chr4B	404459822	404462603	2781	False	5138.0	5138	100.0000	1	2782	1	chr4B.!!$F1	2781
1	TraesCS4B01G184900	chr5B	570823327	570824207	880	True	1478.0	1478	96.9390	1	882	1	chr5B.!!$R1	881
2	TraesCS4B01G184900	chr5A	139516982	139517859	877	True	1456.0	1456	96.5830	1	878	1	chr5A.!!$R1	877
3	TraesCS4B01G184900	chr2B	789432253	789433120	867	False	1443.0	1443	96.6590	1	868	1	chr2B.!!$F2	867
4	TraesCS4B01G184900	chr2B	493977608	493978209	601	False	852.0	852	92.2060	960	1562	1	chr2B.!!$F1	602
5	TraesCS4B01G184900	chr2B	494250872	494252752	1880	False	482.5	835	92.1795	987	1645	2	chr2B.!!$F3	658
6	TraesCS4B01G184900	chr7B	5323862	5324734	872	True	1419.0	1419	95.9950	1	874	1	chr7B.!!$R1	873
7	TraesCS4B01G184900	chr4D	323917552	323919467	1915	False	1313.5	1376	91.7000	883	2782	2	chr4D.!!$F1	1899
8	TraesCS4B01G184900	chr4A	147575470	147576243	773	True	989.0	989	89.5390	1983	2782	1	chr4A.!!$R1	799
9	TraesCS4B01G184900	chr4A	147580862	147581976	1114	True	793.0	1327	90.9210	956	1971	2	chr4A.!!$R2	1015
10	TraesCS4B01G184900	chr2D	421774405	421774979	574	False	813.0	813	92.1880	987	1562	1	chr2D.!!$F1	575
11	TraesCS4B01G184900	chr2D	421468038	421471474	3436	False	506.5	881	92.3510	960	1645	2	chr2D.!!$F3	685
12	TraesCS4B01G184900	chr2D	353939041	353939762	721	False	300.5	333	83.1640	1888	2695	2	chr2D.!!$F2	807
13	TraesCS4B01G184900	chr2A	568273053	568273614	561	False	806.0	806	92.5270	1001	1562	1	chr2A.!!$F1	561
14	TraesCS4B01G184900	chr2A	546836309	546836915	606	True	778.0	778	89.8030	962	1568	1	chr2A.!!$R3	606
15	TraesCS4B01G184900	chr2A	567725730	567728839	3109	False	477.0	835	90.5420	960	1645	2	chr2A.!!$F2	685
16	TraesCS4B01G184900	chr1A	53415359	53416143	784	True	787.0	787	84.9700	1891	2701	1	chr1A.!!$R1	810

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
916	918	2.645163	CGCAGTCACGAGCTAATCTAG	58.355	52.381	0.0	0.0	34.06	2.43	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1992	5148	0.104855	AACGACTGCACTTCAGCTCA	59.895	50.0	0.0	0.0	46.76	4.26	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
42	43	8.965172	AGCAATAACTTTACGTAGTGATAATCG	58.035	33.333	0.00	0.00	45.73	3.34
456	457	7.928873	TGGAGGGAGTAAATCATAGAAAACTT	58.071	34.615	0.00	0.00	0.00	2.66
491	492	4.005487	CAATTTGGGTTGCAATCTCCAA	57.995	40.909	20.55	20.55	37.48	3.53
502	503	3.069016	TGCAATCTCCAATCATGAATGCC	59.931	43.478	5.16	0.00	0.00	4.40
515	516	3.173953	TGAATGCCAGGGAACAAAGAT	57.826	42.857	0.00	0.00	0.00	2.40
621	622	9.885743	CAACAAAACAAAAGAACTAAAGATTCG	57.114	29.630	0.00	0.00	0.00	3.34
839	841	3.758023	CAGAGCATGGGTGTGTGATTTTA	59.242	43.478	0.00	0.00	0.00	1.52
846	848	6.650390	GCATGGGTGTGTGATTTTATTTTCTT	59.350	34.615	0.00	0.00	0.00	2.52
852	854	8.077386	GGTGTGTGATTTTATTTTCTTCCGTTA	58.923	33.333	0.00	0.00	0.00	3.18
882	884	6.404954	GCACGGGCAATTTTCCTAGTTTATAA	60.405	38.462	3.77	0.00	40.72	0.98
883	885	7.683463	GCACGGGCAATTTTCCTAGTTTATAAT	60.683	37.037	3.77	0.00	40.72	1.28
884	886	8.842280	CACGGGCAATTTTCCTAGTTTATAATA	58.158	33.333	0.00	0.00	0.00	0.98
885	887	9.411189	ACGGGCAATTTTCCTAGTTTATAATAA	57.589	29.630	0.00	0.00	0.00	1.40
916	918	2.645163	CGCAGTCACGAGCTAATCTAG	58.355	52.381	0.00	0.00	34.06	2.43
1101	1103	5.367302	GAGCTCCTAGCATTCTTCAATTCT	58.633	41.667	0.87	0.00	45.56	2.40
1443	1445	1.951631	GAAGCGGCGCATAGACCTC	60.952	63.158	35.02	13.70	0.00	3.85
1459	1461	5.050126	AGACCTCTACCTGAATCACGATA	57.950	43.478	0.00	0.00	0.00	2.92
1461	1463	4.533815	ACCTCTACCTGAATCACGATACA	58.466	43.478	0.00	0.00	0.00	2.29
1557	1559	0.035881	TCTTGCTTCAGGTGAGCTGG	59.964	55.000	12.15	0.00	0.00	4.85
1577	4621	0.392706	TCACCGAGTTGCTGTGATGT	59.607	50.000	0.00	0.00	36.07	3.06
1650	4696	4.097286	GGGCGAGGTAGAAATTTGCAAATA	59.903	41.667	24.35	6.68	0.00	1.40
1686	4733	4.115516	CCTGTTACAGATGAGATTCGTGG	58.884	47.826	14.66	0.00	32.44	4.94
1711	4758	7.064016	GGAAGTGAAGTGTGATCTGATAGTTTC	59.936	40.741	0.00	0.00	0.00	2.78
1727	4774	9.617975	CTGATAGTTTCATTTGAAGAAAAGGAC	57.382	33.333	0.00	0.00	38.24	3.85
1744	4889	0.304705	GACGGTGTGCAGACAAACAG	59.695	55.000	16.68	3.99	35.52	3.16
1763	4908	3.885297	ACAGTAGGTTTGATATGCATGGC	59.115	43.478	10.16	1.20	0.00	4.40
1784	4929	2.228822	CGTGCAGGCCTTGATTTAACTT	59.771	45.455	0.00	0.00	0.00	2.66
1785	4930	3.305335	CGTGCAGGCCTTGATTTAACTTT	60.305	43.478	0.00	0.00	0.00	2.66
1786	4931	4.083003	CGTGCAGGCCTTGATTTAACTTTA	60.083	41.667	0.00	0.00	0.00	1.85
1787	4932	5.402398	GTGCAGGCCTTGATTTAACTTTAG	58.598	41.667	0.00	0.00	0.00	1.85
1788	4933	5.048013	GTGCAGGCCTTGATTTAACTTTAGT	60.048	40.000	0.00	0.00	0.00	2.24
1789	4934	5.538433	TGCAGGCCTTGATTTAACTTTAGTT	59.462	36.000	0.00	0.29	41.73	2.24
1790	4935	6.041523	TGCAGGCCTTGATTTAACTTTAGTTT	59.958	34.615	0.00	0.00	39.31	2.66
1791	4936	6.929049	GCAGGCCTTGATTTAACTTTAGTTTT	59.071	34.615	0.00	0.00	39.31	2.43
1792	4937	7.116376	GCAGGCCTTGATTTAACTTTAGTTTTC	59.884	37.037	0.00	0.00	39.31	2.29
1793	4938	8.360390	CAGGCCTTGATTTAACTTTAGTTTTCT	58.640	33.333	0.00	0.00	39.31	2.52
1794	4939	8.924303	AGGCCTTGATTTAACTTTAGTTTTCTT	58.076	29.630	0.00	0.00	39.31	2.52
1795	4940	9.542462	GGCCTTGATTTAACTTTAGTTTTCTTT	57.458	29.630	0.00	0.00	39.31	2.52
1856	5011	6.165577	ACTGAATTTGCAGTTGTTTGTTCTT	58.834	32.000	0.00	0.00	46.42	2.52
1920	5076	1.408702	GTTTGGGCTGCAACTTCTTCA	59.591	47.619	0.50	0.00	0.00	3.02
2064	5220	3.127721	TGCTGAAACGTGTTGAAATGACA	59.872	39.130	0.00	0.00	0.00	3.58
2087	5243	2.287393	ACGCCCTTTGTTGTTTTGTC	57.713	45.000	0.00	0.00	0.00	3.18
2089	5245	1.202200	CGCCCTTTGTTGTTTTGTCGA	60.202	47.619	0.00	0.00	0.00	4.20
2107	5263	5.232463	TGTCGATAGGGTTTAAGTGTTGAC	58.768	41.667	0.00	0.00	0.00	3.18
2109	5265	5.347907	GTCGATAGGGTTTAAGTGTTGACTG	59.652	44.000	0.00	0.00	30.61	3.51
2117	5273	7.876582	AGGGTTTAAGTGTTGACTGTACTATTC	59.123	37.037	0.00	0.00	30.61	1.75
2134	5290	9.038072	TGTACTATTCTAACAGTAAATGACCCA	57.962	33.333	0.00	0.00	0.00	4.51
2163	5319	2.030805	GCTCTTTTTGTCGCAGATGGTT	60.031	45.455	0.00	0.00	40.67	3.67
2170	5326	6.621316	TTTTGTCGCAGATGGTTAGTTTTA	57.379	33.333	0.00	0.00	40.67	1.52
2208	5364	6.734137	TGAAATCACACAAGTTTGATGGTAC	58.266	36.000	2.89	0.00	32.63	3.34
2230	5386	8.230486	GGTACAGACAGTGAAGTTAAATGAATG	58.770	37.037	0.00	0.00	0.00	2.67
2232	5388	8.902540	ACAGACAGTGAAGTTAAATGAATGTA	57.097	30.769	0.00	0.00	0.00	2.29
2233	5389	9.507329	ACAGACAGTGAAGTTAAATGAATGTAT	57.493	29.630	0.00	0.00	0.00	2.29
2234	5390	9.764870	CAGACAGTGAAGTTAAATGAATGTATG	57.235	33.333	0.00	0.00	0.00	2.39
2278	5435	4.665833	TTCCCCACTGACATATTAGACG	57.334	45.455	0.00	0.00	0.00	4.18
2279	5436	3.638860	TCCCCACTGACATATTAGACGT	58.361	45.455	0.00	0.00	0.00	4.34
2283	5440	5.470368	CCCACTGACATATTAGACGTATGG	58.530	45.833	0.00	0.00	34.58	2.74
2299	5460	2.957402	ATGGAGAGTTGCAAAGGTGA	57.043	45.000	0.00	0.00	0.00	4.02
2372	5539	4.357279	GGAGCCTTGGCAGCCAGT	62.357	66.667	15.50	0.31	33.81	4.00
2568	5741	3.490759	CACGCACACCGGAGATGC	61.491	66.667	9.46	13.96	42.52	3.91
2655	5829	1.761174	GAAGGACAAGGTGGAGCCA	59.239	57.895	0.00	0.00	40.61	4.75

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
124	125	2.943036	TACTTCTTTTCGGCAACCCT	57.057	45.000	0.00	0.00	0.00	4.34
415	416	7.062957	ACTCCCTCCATTCCAAAATATAAGTG	58.937	38.462	0.00	0.00	0.00	3.16
456	457	3.557475	CCCAAATTGCTTGCCTTCATGAA	60.557	43.478	8.12	8.12	33.27	2.57
491	492	2.832643	TGTTCCCTGGCATTCATGAT	57.167	45.000	0.00	0.00	0.00	2.45
502	503	4.994852	TCTCGTTTACATCTTTGTTCCCTG	59.005	41.667	0.00	0.00	37.28	4.45
515	516	4.959596	AACGCTCTCTATCTCGTTTACA	57.040	40.909	0.00	0.00	41.61	2.41
852	854	0.596341	GAAAATTGCCCGTGCGTTGT	60.596	50.000	0.00	0.00	41.78	3.32
882	884	5.181433	TCGTGACTGCGCTTCTATCTATTAT	59.819	40.000	9.73	0.00	0.00	1.28
883	885	4.514066	TCGTGACTGCGCTTCTATCTATTA	59.486	41.667	9.73	0.00	0.00	0.98
884	886	3.315470	TCGTGACTGCGCTTCTATCTATT	59.685	43.478	9.73	0.00	0.00	1.73
885	887	2.879026	TCGTGACTGCGCTTCTATCTAT	59.121	45.455	9.73	0.00	0.00	1.98
886	888	2.285977	TCGTGACTGCGCTTCTATCTA	58.714	47.619	9.73	0.00	0.00	1.98
887	889	1.064803	CTCGTGACTGCGCTTCTATCT	59.935	52.381	9.73	0.00	0.00	1.98
888	890	1.471964	CTCGTGACTGCGCTTCTATC	58.528	55.000	9.73	0.00	0.00	2.08
895	897	0.526524	AGATTAGCTCGTGACTGCGC	60.527	55.000	0.00	0.00	0.00	6.09
916	918	5.600908	TTTTACTAGACAATTGTCCGTGC	57.399	39.130	30.34	10.23	45.85	5.34
993	995	2.456119	CGCTGTCGCCATTGGAGTC	61.456	63.158	6.95	1.36	0.00	3.36
1035	1037	2.172851	TATTGGAAACTCGCACCGTT	57.827	45.000	0.00	0.00	0.00	4.44
1382	1384	2.525629	TGTCCCAAGAGTCGGCCA	60.526	61.111	2.24	0.00	0.00	5.36
1443	1445	5.500645	TCTGTGTATCGTGATTCAGGTAG	57.499	43.478	6.28	0.00	0.00	3.18
1459	1461	2.094494	CCTCGAGCTTGTACATCTGTGT	60.094	50.000	6.99	0.00	42.39	3.72
1461	1463	2.094494	CACCTCGAGCTTGTACATCTGT	60.094	50.000	6.99	0.00	0.00	3.41
1557	1559	4.750460	TCACAGCAACTCGGTGAC	57.250	55.556	0.00	0.00	46.47	3.67
1564	4608	4.989279	AAACAGAAACATCACAGCAACT	57.011	36.364	0.00	0.00	0.00	3.16
1650	4696	5.048364	TCTGTAACAGGCAAATGCGTTTAAT	60.048	36.000	3.00	0.00	43.26	1.40
1686	4733	7.600375	TGAAACTATCAGATCACACTTCACTTC	59.400	37.037	0.00	0.00	33.04	3.01
1711	4758	4.290155	CACACCGTCCTTTTCTTCAAATG	58.710	43.478	0.00	0.00	0.00	2.32
1727	4774	1.526887	CTACTGTTTGTCTGCACACCG	59.473	52.381	0.00	0.00	29.76	4.94
1744	4889	2.878406	ACGCCATGCATATCAAACCTAC	59.122	45.455	0.00	0.00	0.00	3.18
1763	4908	1.812571	AGTTAAATCAAGGCCTGCACG	59.187	47.619	5.69	0.00	0.00	5.34
1769	4914	9.542462	AAAGAAAACTAAAGTTAAATCAAGGCC	57.458	29.630	0.00	0.00	37.25	5.19
1784	4929	8.784994	TCGCATACCATACAAAAAGAAAACTAA	58.215	29.630	0.00	0.00	0.00	2.24
1785	4930	8.231837	GTCGCATACCATACAAAAAGAAAACTA	58.768	33.333	0.00	0.00	0.00	2.24
1786	4931	7.040686	AGTCGCATACCATACAAAAAGAAAACT	60.041	33.333	0.00	0.00	0.00	2.66
1787	4932	7.060633	CAGTCGCATACCATACAAAAAGAAAAC	59.939	37.037	0.00	0.00	0.00	2.43
1788	4933	7.081349	CAGTCGCATACCATACAAAAAGAAAA	58.919	34.615	0.00	0.00	0.00	2.29
1789	4934	6.348950	CCAGTCGCATACCATACAAAAAGAAA	60.349	38.462	0.00	0.00	0.00	2.52
1790	4935	5.123186	CCAGTCGCATACCATACAAAAAGAA	59.877	40.000	0.00	0.00	0.00	2.52
1791	4936	4.634004	CCAGTCGCATACCATACAAAAAGA	59.366	41.667	0.00	0.00	0.00	2.52
1792	4937	4.634004	TCCAGTCGCATACCATACAAAAAG	59.366	41.667	0.00	0.00	0.00	2.27
1793	4938	4.580868	TCCAGTCGCATACCATACAAAAA	58.419	39.130	0.00	0.00	0.00	1.94
1794	4939	4.209307	TCCAGTCGCATACCATACAAAA	57.791	40.909	0.00	0.00	0.00	2.44
1795	4940	3.897141	TCCAGTCGCATACCATACAAA	57.103	42.857	0.00	0.00	0.00	2.83
1796	4941	3.897141	TTCCAGTCGCATACCATACAA	57.103	42.857	0.00	0.00	0.00	2.41
1797	4942	4.415881	AATTCCAGTCGCATACCATACA	57.584	40.909	0.00	0.00	0.00	2.29
1871	5027	9.756571	ACACACCCTAAATATACCATACAAAAA	57.243	29.630	0.00	0.00	0.00	1.94
1875	5031	8.330247	ACAAACACACCCTAAATATACCATACA	58.670	33.333	0.00	0.00	0.00	2.29
1876	5032	8.741603	ACAAACACACCCTAAATATACCATAC	57.258	34.615	0.00	0.00	0.00	2.39
1981	5137	2.157738	CTTCAGCTCAAACCTTCCAGG	58.842	52.381	0.00	0.00	42.49	4.45
1992	5148	0.104855	AACGACTGCACTTCAGCTCA	59.895	50.000	0.00	0.00	46.76	4.26
2064	5220	3.258228	CAAAACAACAAAGGGCGTTCTT	58.742	40.909	0.00	0.00	0.00	2.52
2087	5243	5.235516	ACAGTCAACACTTAAACCCTATCG	58.764	41.667	0.00	0.00	0.00	2.92
2089	5245	7.312415	AGTACAGTCAACACTTAAACCCTAT	57.688	36.000	0.00	0.00	0.00	2.57
2107	5263	9.530633	GGGTCATTTACTGTTAGAATAGTACAG	57.469	37.037	0.00	0.00	43.72	2.74
2109	5265	9.880157	TTGGGTCATTTACTGTTAGAATAGTAC	57.120	33.333	0.00	0.00	33.22	2.73
2117	5273	8.398665	GCTCTTAATTGGGTCATTTACTGTTAG	58.601	37.037	0.00	0.00	0.00	2.34
2132	5288	4.853743	GCGACAAAAAGAGCTCTTAATTGG	59.146	41.667	34.78	25.49	37.29	3.16
2134	5290	5.470098	TCTGCGACAAAAAGAGCTCTTAATT	59.530	36.000	28.67	22.18	34.61	1.40
2170	5326	8.408043	TGTGTGATTTCAGGTCAAAATCTATT	57.592	30.769	9.29	0.00	41.56	1.73
2208	5364	9.764870	CATACATTCATTTAACTTCACTGTCTG	57.235	33.333	0.00	0.00	0.00	3.51
2245	5401	5.820423	TGTCAGTGGGGAATTTATTATCGTG	59.180	40.000	0.00	0.00	0.00	4.35
2246	5402	5.996644	TGTCAGTGGGGAATTTATTATCGT	58.003	37.500	0.00	0.00	0.00	3.73
2247	5403	8.792830	ATATGTCAGTGGGGAATTTATTATCG	57.207	34.615	0.00	0.00	0.00	2.92
2278	5435	3.437049	GTCACCTTTGCAACTCTCCATAC	59.563	47.826	0.00	0.00	0.00	2.39
2279	5436	3.559171	GGTCACCTTTGCAACTCTCCATA	60.559	47.826	0.00	0.00	0.00	2.74
2283	5440	0.868406	CGGTCACCTTTGCAACTCTC	59.132	55.000	0.00	0.00	0.00	3.20
2299	5460	1.274167	TCCTTTATGTGTTCGAGCGGT	59.726	47.619	0.00	0.00	0.00	5.68
2505	5678	3.101428	GTACGTGTCCGGCGTGTG	61.101	66.667	14.77	0.00	42.87	3.82
2506	5679	3.594775	TGTACGTGTCCGGCGTGT	61.595	61.111	14.77	4.97	42.87	4.49
2507	5680	3.101428	GTGTACGTGTCCGGCGTG	61.101	66.667	14.77	0.00	42.87	5.34
2508	5681	3.259425	GAGTGTACGTGTCCGGCGT	62.259	63.158	6.01	10.44	45.11	5.68
2568	5741	2.587194	CGCCGAGCTCATTCCAGG	60.587	66.667	15.40	6.62	0.00	4.45
2602	5775	3.011517	GCTCCTCAGGCCTTCCCA	61.012	66.667	0.00	0.00	35.39	4.37
2726	5900	2.034066	CGGGTCAACACTGGGCAT	59.966	61.111	0.00	0.00	0.00	4.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.