AutoCloner

Multiple sequence alignment - TraesCS6B01G315000

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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	TraesCS6B01G315000	chr6B	100.000	2282	0	0	937	3218	563122322	563124603	0.000000e+00	4215.0
1	TraesCS6B01G315000	chr6B	100.000	543	0	0	1	543	563121386	563121928	0.000000e+00	1003.0
2	TraesCS6B01G315000	chr6B	84.926	544	75	7	2	543	533990612	533990074	7.850000e-151	544.0
3	TraesCS6B01G315000	chr6B	83.992	481	73	4	1	480	75403162	75403639	2.930000e-125	459.0
4	TraesCS6B01G315000	chr6D	93.296	1805	99	10	937	2732	376894588	376896379	0.000000e+00	2643.0
5	TraesCS6B01G315000	chr6D	82.189	539	89	6	7	543	466990622	466990089	1.050000e-124	457.0
6	TraesCS6B01G315000	chr6D	89.908	327	18	6	2743	3059	376907400	376907721	1.070000e-109	407.0
7	TraesCS6B01G315000	chr6D	93.293	164	10	1	3053	3216	376938366	376938528	1.150000e-59	241.0
8	TraesCS6B01G315000	chr6D	86.667	60	8	0	2329	2388	77826336	77826395	2.070000e-07	67.6
9	TraesCS6B01G315000	chr6A	91.211	1684	104	16	945	2609	518539090	518540748	0.000000e+00	2250.0
10	TraesCS6B01G315000	chr6A	91.753	485	22	7	2602	3077	518542952	518543427	0.000000e+00	658.0
11	TraesCS6B01G315000	chr6A	84.073	496	66	8	48	543	565339515	565339997	1.750000e-127	466.0
12	TraesCS6B01G315000	chr6A	92.308	143	11	0	3074	3216	518543473	518543615	1.510000e-48	204.0
13	TraesCS6B01G315000	chr5B	87.523	545	62	6	1	543	655094533	655095073	2.730000e-175	625.0
14	TraesCS6B01G315000	chr2A	87.316	544	64	5	1	543	684444238	684443699	4.560000e-173	617.0
15	TraesCS6B01G315000	chr3B	86.949	544	66	5	1	543	485447280	485447819	9.870000e-170	606.0
16	TraesCS6B01G315000	chr7B	82.375	539	87	7	7	543	675368770	675369302	2.260000e-126	462.0
17	TraesCS6B01G315000	chr7B	86.667	60	8	0	2329	2388	148529162	148529221	2.070000e-07	67.6
18	TraesCS6B01G315000	chr2D	82.143	140	20	3	2311	2447	239588216	239588079	7.300000e-22	115.0
19	TraesCS6B01G315000	chr5D	82.707	133	15	5	2314	2442	439353583	439353455	9.440000e-21	111.0
20	TraesCS6B01G315000	chr5A	78.358	134	26	3	2311	2441	263547206	263547339	2.060000e-12	84.2
21	TraesCS6B01G315000	chr2B	85.294	68	8	2	2322	2388	691531762	691531696	5.760000e-08	69.4
22	TraesCS6B01G315000	chr4A	86.885	61	7	1	2340	2400	641499760	641499819	2.070000e-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	TraesCS6B01G315000	chr6B	563121386	563124603	3217	False	2609.000000	4215	100.000000	1	3218	2	chr6B.!!$F2	3217
1	TraesCS6B01G315000	chr6B	533990074	533990612	538	True	544.000000	544	84.926000	2	543	1	chr6B.!!$R1	541
2	TraesCS6B01G315000	chr6D	376894588	376896379	1791	False	2643.000000	2643	93.296000	937	2732	1	chr6D.!!$F2	1795
3	TraesCS6B01G315000	chr6D	466990089	466990622	533	True	457.000000	457	82.189000	7	543	1	chr6D.!!$R1	536
4	TraesCS6B01G315000	chr6A	518539090	518543615	4525	False	1037.333333	2250	91.757333	945	3216	3	chr6A.!!$F2	2271
5	TraesCS6B01G315000	chr5B	655094533	655095073	540	False	625.000000	625	87.523000	1	543	1	chr5B.!!$F1	542
6	TraesCS6B01G315000	chr2A	684443699	684444238	539	True	617.000000	617	87.316000	1	543	1	chr2A.!!$R1	542
7	TraesCS6B01G315000	chr3B	485447280	485447819	539	False	606.000000	606	86.949000	1	543	1	chr3B.!!$F1	542
8	TraesCS6B01G315000	chr7B	675368770	675369302	532	False	462.000000	462	82.375000	7	543	1	chr7B.!!$F2	536

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
177	178	0.396811	CGAAGTTGTTCTCCCCCACT	59.603	55.0	0.00	0.00	4.00	F
264	265	0.881118	GCAAAACCTTCCGATGCAGA	59.119	50.0	0.00	37.00	4.26	F
1274	1292	1.012086	CGATCATGGTCACTTGCTGG	58.988	55.0	6.80	0.00	4.85	F
1677	1701	0.250467	CTGCGCAAGGCCACCTATAT	60.250	55.0	13.05	42.61	0.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1239	1257	0.180406	ATCGTACCTCCATGTTGCCC	59.820	55.0	0.00	0.00	5.36	R
1658	1682	0.250467	ATATAGGTGGCCTTGCGCAG	60.250	55.0	11.31	40.31	5.18	R
2190	2214	0.461961	CTTGAGACGGGGATGAGGAC	59.538	60.0	0.00	0.00	3.85	R
2854	5100	0.823356	GGGCAGTGCAAAGTTCCTCA	60.823	55.0	18.61	0.00	3.86	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
39	40	6.272318	CCACAACTGCAATTTCTCAAACTTA	58.728	36.000	0.00	0.00	0.00	2.24
69	70	2.733227	CGGCCTCATGCAATCTTCAAAC	60.733	50.000	0.00	0.00	43.89	2.93
84	85	7.913674	ATCTTCAAACTCTGTCAAGATTACC	57.086	36.000	0.00	0.00	31.11	2.85
87	88	2.279582	ACTCTGTCAAGATTACCGCG	57.720	50.000	0.00	0.00	0.00	6.46
105	106	1.746615	GTGCCGACTCACATGCCAT	60.747	57.895	0.00	0.00	36.97	4.40
140	141	3.264897	GCAATCGCGATCACGGCT	61.265	61.111	23.92	1.78	40.15	5.52
159	160	1.867233	CTGTTCTCAAACTCCACCACG	59.133	52.381	0.00	0.00	36.30	4.94
163	164	3.988133	GTTCTCAAACTCCACCACGAAGT	60.988	47.826	0.00	0.00	34.52	3.01
165	166	2.285083	TCAAACTCCACCACGAAGTTG	58.715	47.619	0.00	0.00	41.61	3.16
177	178	0.396811	CGAAGTTGTTCTCCCCCACT	59.603	55.000	0.00	0.00	0.00	4.00
192	193	1.242076	CCACTGGCTTGAAGAACAGG	58.758	55.000	17.49	9.21	35.34	4.00
193	194	1.477558	CCACTGGCTTGAAGAACAGGT	60.478	52.381	17.49	5.11	35.34	4.00
225	226	3.437795	CAGGCCAGCCTCAAAGCG	61.438	66.667	8.61	0.00	46.28	4.68
248	249	5.863935	CGCTAGCAATAGTCTGTATATGCAA	59.136	40.000	16.45	0.00	0.00	4.08
249	250	6.366061	CGCTAGCAATAGTCTGTATATGCAAA	59.634	38.462	16.45	0.00	0.00	3.68
255	256	7.857885	GCAATAGTCTGTATATGCAAAACCTTC	59.142	37.037	0.00	0.00	0.00	3.46
264	265	0.881118	GCAAAACCTTCCGATGCAGA	59.119	50.000	0.00	0.00	37.00	4.26
266	267	2.094545	GCAAAACCTTCCGATGCAGAAT	60.095	45.455	0.00	0.00	37.00	2.40
279	280	3.266510	TGCAGAATCTTACCAGCGATT	57.733	42.857	0.00	0.00	32.86	3.34
324	325	1.561076	TCAAGATCATCCACCACCAGG	59.439	52.381	0.00	0.00	42.21	4.45
375	376	1.419387	CTTTCCCATAGCCTCCTCCAG	59.581	57.143	0.00	0.00	0.00	3.86
447	448	1.585521	CCGTAGACGTCGCCATCAC	60.586	63.158	10.46	2.08	37.74	3.06
457	458	3.758931	GCCATCACCGGGCCAAAC	61.759	66.667	6.32	0.00	45.87	2.93
468	469	1.741770	GGCCAAACGAGAGATGCGT	60.742	57.895	0.00	0.00	44.94	5.24
1101	1119	2.594303	TTTGTGAGGCTGCCACCG	60.594	61.111	22.65	0.00	33.80	4.94
1274	1292	1.012086	CGATCATGGTCACTTGCTGG	58.988	55.000	6.80	0.00	0.00	4.85
1407	1425	3.041940	GTCTGCAACCCGTCCACG	61.042	66.667	0.00	0.00	39.44	4.94
1417	1435	4.873129	CGTCCACGGGCGAGATGG	62.873	72.222	3.42	0.00	35.37	3.51
1451	1469	2.822255	GCGGCCGCATAACAGGAA	60.822	61.111	43.55	0.00	41.49	3.36
1509	1527	3.411446	CAGCAAGAATCACAAGGTGGTA	58.589	45.455	0.00	0.00	33.87	3.25
1525	1543	3.434167	GGTGGTACGTATCTCCTACTCCA	60.434	52.174	17.72	5.78	0.00	3.86
1539	1557	1.153756	CTCCAACCACAGGGGCTTT	59.846	57.895	0.00	0.00	42.05	3.51
1558	1576	4.690719	ACGGCACCGATTTCCGCA	62.691	61.111	17.40	0.00	46.49	5.69
1578	1602	1.338973	ACGCTTTGTGAGGTCTACGAA	59.661	47.619	0.00	0.00	0.00	3.85
1649	1673	4.101430	GGGCATGGTGAAATTGGACAATAT	59.899	41.667	0.00	0.00	0.00	1.28
1652	1676	5.521010	GCATGGTGAAATTGGACAATATGTG	59.479	40.000	0.00	0.00	0.00	3.21
1653	1677	5.070770	TGGTGAAATTGGACAATATGTGC	57.929	39.130	0.00	0.00	39.30	4.57
1658	1682	4.882671	AATTGGACAATATGTGCGTCTC	57.117	40.909	0.00	0.00	41.94	3.36
1677	1701	0.250467	CTGCGCAAGGCCACCTATAT	60.250	55.000	13.05	0.00	42.61	0.86
1684	1708	3.688414	GCAAGGCCACCTATATTGGAAGT	60.688	47.826	5.01	0.00	36.02	3.01
1855	1879	4.339872	ACCGAACCTGTACAACAACATA	57.660	40.909	0.00	0.00	0.00	2.29
1856	1880	4.312443	ACCGAACCTGTACAACAACATAG	58.688	43.478	0.00	0.00	0.00	2.23
1957	1981	1.402259	AGGTCACGCAGTTCTCGATAG	59.598	52.381	0.00	0.00	41.61	2.08
2048	2072	5.917447	GCAAGTTGTCAAAAGAGGAAAGATC	59.083	40.000	4.48	0.00	0.00	2.75
2123	2147	0.610232	CTTGGCTTTCTCCCCCACAG	60.610	60.000	0.00	0.00	0.00	3.66
2187	2211	2.505819	AGGTAGGCCATTCGAAGACATT	59.494	45.455	5.01	0.00	33.91	2.71
2190	2214	2.086869	AGGCCATTCGAAGACATTGTG	58.913	47.619	5.01	0.00	34.32	3.33
2257	2281	4.664150	TCTATCACATGCACGAACCATA	57.336	40.909	0.00	0.00	0.00	2.74
2320	2344	4.615452	CGTCGTTAGGATTATACCCTCTGC	60.615	50.000	0.00	0.00	35.30	4.26
2367	2391	3.726291	TTGTCCTAAGCCAAACTTTGC	57.274	42.857	0.00	0.00	39.97	3.68
2502	2529	6.887626	ATAAACGGGAACAAAGTACACAAT	57.112	33.333	0.00	0.00	0.00	2.71
2732	4970	4.201990	ACGGCTTACACCTCTAATCGTAAG	60.202	45.833	0.00	0.00	42.32	2.34
2733	4971	4.201990	CGGCTTACACCTCTAATCGTAAGT	60.202	45.833	0.00	0.00	41.74	2.24
2734	4972	5.658468	GGCTTACACCTCTAATCGTAAGTT	58.342	41.667	0.00	0.00	41.74	2.66
2735	4973	5.747675	GGCTTACACCTCTAATCGTAAGTTC	59.252	44.000	0.00	0.00	41.74	3.01
2736	4974	5.454877	GCTTACACCTCTAATCGTAAGTTCG	59.545	44.000	0.00	0.00	41.74	3.95
2737	4975	6.500684	TTACACCTCTAATCGTAAGTTCGT	57.499	37.500	0.00	0.00	39.48	3.85
2758	4996	4.569564	CGTAACTACCAATCCTAAAGTGGC	59.430	45.833	0.00	0.00	35.72	5.01
2764	5002	3.214328	CCAATCCTAAAGTGGCGCTAAT	58.786	45.455	7.64	0.00	0.00	1.73
2778	5016	2.033662	GCGCTAATGACATCCGAAGAAC	60.034	50.000	0.00	0.00	0.00	3.01
2783	5021	3.594603	ATGACATCCGAAGAACGTCTT	57.405	42.857	0.00	0.00	39.87	3.01
2789	5035	1.615107	CCGAAGAACGTCTTGACCGC	61.615	60.000	5.20	0.00	36.73	5.68
2827	5073	2.986306	GCACATCCTGCAGCACCAC	61.986	63.158	8.66	0.00	46.29	4.16
2830	5076	0.914644	ACATCCTGCAGCACCACTAT	59.085	50.000	8.66	0.00	0.00	2.12
2854	5100	2.225805	TGCCCTACTCCTACCTCCTTTT	60.226	50.000	0.00	0.00	0.00	2.27
2871	5117	2.869233	TTTGAGGAACTTTGCACTGC	57.131	45.000	0.00	0.00	41.55	4.40
2978	5224	8.356657	TGTATTTTTGGTGTTCTAATGTCAAGG	58.643	33.333	0.00	0.00	0.00	3.61
2979	5225	6.783708	TTTTTGGTGTTCTAATGTCAAGGT	57.216	33.333	0.00	0.00	0.00	3.50
3024	5270	8.525290	AATCCTAAGGAGTTAAATCCAACATG	57.475	34.615	23.06	8.16	42.26	3.21
3063	5309	4.074799	TCTCCCTTTTCATCCTAGACCA	57.925	45.455	0.00	0.00	0.00	4.02
3117	5412	7.933728	TGTTGATGCACATATATGATTTTGC	57.066	32.000	19.63	17.28	0.00	3.68
3126	5421	8.755018	GCACATATATGATTTTGCTTTGTTACC	58.245	33.333	19.63	0.00	0.00	2.85
3127	5422	9.800433	CACATATATGATTTTGCTTTGTTACCA	57.200	29.630	19.63	0.00	0.00	3.25
3131	5426	3.386078	TGATTTTGCTTTGTTACCAGGCA	59.614	39.130	0.00	0.00	32.16	4.75
3173	5468	9.069078	CATGTAAGAGCTGTAAAATTCATGTTG	57.931	33.333	0.00	0.00	0.00	3.33
3174	5469	8.389779	TGTAAGAGCTGTAAAATTCATGTTGA	57.610	30.769	0.00	0.00	0.00	3.18
3176	5471	5.931532	AGAGCTGTAAAATTCATGTTGACG	58.068	37.500	0.00	0.00	0.00	4.35
3196	5491	7.312657	TGACGTGTTGGAGTAGTAGTAATAG	57.687	40.000	0.00	0.00	0.00	1.73

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
39	40	0.179062	GCATGAGGCCGTCAGATCTT	60.179	55.000	0.00	0.00	39.07	2.40
69	70	1.920574	CACGCGGTAATCTTGACAGAG	59.079	52.381	12.47	0.00	30.36	3.35
87	88	1.746615	ATGGCATGTGAGTCGGCAC	60.747	57.895	0.00	0.00	38.10	5.01
105	106	2.721167	CGTGCGGGAAGGATCTCCA	61.721	63.158	3.60	0.00	37.20	3.86
140	141	1.483004	TCGTGGTGGAGTTTGAGAACA	59.517	47.619	0.00	0.00	38.26	3.18
159	160	1.545651	CCAGTGGGGGAGAACAACTTC	60.546	57.143	0.00	0.00	0.00	3.01
163	164	1.360393	AAGCCAGTGGGGGAGAACAA	61.360	55.000	12.15	0.00	37.04	2.83
165	166	1.303643	CAAGCCAGTGGGGGAGAAC	60.304	63.158	12.15	0.00	37.04	3.01
177	178	0.110486	GGGACCTGTTCTTCAAGCCA	59.890	55.000	0.00	0.00	0.00	4.75
214	215	0.393537	ATTGCTAGCGCTTTGAGGCT	60.394	50.000	18.68	0.00	43.12	4.58
225	226	7.658179	TTTGCATATACAGACTATTGCTAGC	57.342	36.000	8.10	8.10	0.00	3.42
226	227	8.499162	GGTTTTGCATATACAGACTATTGCTAG	58.501	37.037	0.00	0.00	0.00	3.42
234	235	4.876107	CGGAAGGTTTTGCATATACAGACT	59.124	41.667	0.00	0.00	0.00	3.24
248	249	3.356529	AGATTCTGCATCGGAAGGTTT	57.643	42.857	0.00	0.00	36.93	3.27
249	250	3.356529	AAGATTCTGCATCGGAAGGTT	57.643	42.857	0.00	0.00	36.93	3.50
255	256	1.869767	GCTGGTAAGATTCTGCATCGG	59.130	52.381	0.00	0.00	36.93	4.18
264	265	1.064758	TGGGCAATCGCTGGTAAGATT	60.065	47.619	0.00	0.00	37.55	2.40
266	267	0.392461	GTGGGCAATCGCTGGTAAGA	60.392	55.000	0.00	0.00	38.60	2.10
279	280	0.823356	GAGTCCAGCAAAAGTGGGCA	60.823	55.000	0.00	0.00	42.62	5.36
329	330	0.390472	CTCACGGAGGAAGAAGCCAC	60.390	60.000	0.00	0.00	0.00	5.01
447	448	1.815421	CATCTCTCGTTTGGCCCGG	60.815	63.158	0.00	0.00	0.00	5.73
451	452	1.696832	GGACGCATCTCTCGTTTGGC	61.697	60.000	0.00	0.00	40.59	4.52
497	498	3.633065	CGACTAGGGTTTTGGTGGAAAAA	59.367	43.478	0.00	0.00	35.27	1.94
936	938	4.667262	CGAGATGTCGTGATCTTCTTCTT	58.333	43.478	3.70	0.00	41.57	2.52
937	939	4.285807	CGAGATGTCGTGATCTTCTTCT	57.714	45.455	3.70	0.00	41.57	2.85
1008	1010	2.870119	TTGTGCCTTGCATGGTGGC	61.870	57.895	19.05	15.17	41.91	5.01
1101	1119	3.039134	CACCGGCCCACTGTTTTC	58.961	61.111	0.00	0.00	0.00	2.29
1239	1257	0.180406	ATCGTACCTCCATGTTGCCC	59.820	55.000	0.00	0.00	0.00	5.36
1451	1469	0.690411	CCCCAGGCTCTCATCTGTCT	60.690	60.000	0.00	0.00	0.00	3.41
1497	1515	2.756760	GGAGATACGTACCACCTTGTGA	59.243	50.000	0.00	0.00	35.23	3.58
1509	1527	3.022406	GTGGTTGGAGTAGGAGATACGT	58.978	50.000	0.00	0.00	39.55	3.57
1525	1543	1.528309	CGTCAAAGCCCCTGTGGTT	60.528	57.895	0.00	0.00	36.04	3.67
1539	1557	2.433491	CGGAAATCGGTGCCGTCA	60.433	61.111	10.60	0.00	40.17	4.35
1558	1576	0.956633	TCGTAGACCTCACAAAGCGT	59.043	50.000	0.00	0.00	0.00	5.07
1578	1602	2.044946	GCGCCCCTGGAGTTGATT	60.045	61.111	0.00	0.00	0.00	2.57
1658	1682	0.250467	ATATAGGTGGCCTTGCGCAG	60.250	55.000	11.31	0.00	40.31	5.18
1677	1701	4.697756	CGCCCGAGCCACTTCCAA	62.698	66.667	0.00	0.00	34.57	3.53
1684	1708	4.373116	GTTCTGTCGCCCGAGCCA	62.373	66.667	0.00	0.00	34.57	4.75
1830	1854	1.336148	TGTTGTACAGGTTCGGTAGCG	60.336	52.381	8.29	8.29	0.00	4.26
1855	1879	1.024046	TCGCGCAACAACCATATGCT	61.024	50.000	8.75	0.00	37.92	3.79
1856	1880	0.861450	GTCGCGCAACAACCATATGC	60.861	55.000	8.75	0.00	36.74	3.14
1943	1967	1.658717	CGGCCTATCGAGAACTGCG	60.659	63.158	0.00	0.00	0.00	5.18
2048	2072	1.873591	ACAGTTTGTAAGCGCTCTTGG	59.126	47.619	12.06	0.00	33.85	3.61
2187	2211	0.970937	GAGACGGGGATGAGGACACA	60.971	60.000	0.00	0.00	0.00	3.72
2190	2214	0.461961	CTTGAGACGGGGATGAGGAC	59.538	60.000	0.00	0.00	0.00	3.85
2200	2224	1.063764	GTACTACGCCTCTTGAGACGG	59.936	57.143	10.71	0.00	0.00	4.79
2292	2316	4.037923	GGGTATAATCCTAACGACGAACCA	59.962	45.833	0.00	0.00	0.00	3.67
2301	2325	4.868314	ACGCAGAGGGTATAATCCTAAC	57.132	45.455	0.00	0.00	34.21	2.34
2485	2512	8.880878	ATTAAAACATTGTGTACTTTGTTCCC	57.119	30.769	0.00	0.00	31.42	3.97
2521	2548	7.069331	ACTCCCAACTCATGATGTTGTTTTTAA	59.931	33.333	24.08	10.77	42.09	1.52
2681	4919	2.596904	ATATCGTTCTGACAACCCCG	57.403	50.000	0.00	0.00	0.00	5.73
2732	4970	6.312180	CCACTTTAGGATTGGTAGTTACGAAC	59.688	42.308	0.00	0.00	0.00	3.95
2733	4971	6.400568	CCACTTTAGGATTGGTAGTTACGAA	58.599	40.000	0.00	0.00	0.00	3.85
2734	4972	5.625197	GCCACTTTAGGATTGGTAGTTACGA	60.625	44.000	0.00	0.00	32.50	3.43
2735	4973	4.569564	GCCACTTTAGGATTGGTAGTTACG	59.430	45.833	0.00	0.00	32.50	3.18
2736	4974	4.569564	CGCCACTTTAGGATTGGTAGTTAC	59.430	45.833	0.00	0.00	32.50	2.50
2737	4975	4.761975	CGCCACTTTAGGATTGGTAGTTA	58.238	43.478	0.00	0.00	32.50	2.24
2758	4996	2.216488	CGTTCTTCGGATGTCATTAGCG	59.784	50.000	0.00	0.00	35.71	4.26
2764	5002	2.295070	TCAAGACGTTCTTCGGATGTCA	59.705	45.455	0.00	0.00	44.69	3.58
2789	5035	2.022129	GTCGACACTGCCTTCACGG	61.022	63.158	11.55	0.00	0.00	4.94
2827	5073	3.574826	GAGGTAGGAGTAGGGCAACATAG	59.425	52.174	0.00	0.00	30.54	2.23
2830	5076	1.621622	GGAGGTAGGAGTAGGGCAACA	60.622	57.143	0.00	0.00	39.74	3.33
2854	5100	0.823356	GGGCAGTGCAAAGTTCCTCA	60.823	55.000	18.61	0.00	0.00	3.86
2881	5127	2.767445	CCATGGCTGCATGACACCG	61.767	63.158	0.00	0.00	35.90	4.94
2922	5168	7.872993	GCAAAGATTATGTACTAGCCATAGTCA	59.127	37.037	19.14	3.36	41.46	3.41
2938	5184	9.590451	CACCAAAAATACATCTGCAAAGATTAT	57.410	29.630	0.00	0.00	0.00	1.28
3006	5252	5.126061	GTGCATCATGTTGGATTTAACTCCT	59.874	40.000	12.61	0.00	36.20	3.69
3126	5421	2.860735	GAGCATTAGTAGACGTTGCCTG	59.139	50.000	2.66	0.00	33.85	4.85
3127	5422	2.496070	TGAGCATTAGTAGACGTTGCCT	59.504	45.455	2.66	0.00	33.85	4.75
3131	5426	7.096884	TCTTACATGAGCATTAGTAGACGTT	57.903	36.000	0.00	0.00	0.00	3.99
3169	5464	3.633525	ACTACTACTCCAACACGTCAACA	59.366	43.478	0.00	0.00	0.00	3.33
3173	5468	6.540189	TCCTATTACTACTACTCCAACACGTC	59.460	42.308	0.00	0.00	0.00	4.34
3174	5469	6.418101	TCCTATTACTACTACTCCAACACGT	58.582	40.000	0.00	0.00	0.00	4.49
3176	5471	8.291191	AGTTCCTATTACTACTACTCCAACAC	57.709	38.462	0.00	0.00	0.00	3.32

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.