AutoCloner

Multiple sequence alignment - TraesCS1D01G081600

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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	TraesCS1D01G081600	chr1D	100.000	2312	0	0	1	2312	63683074	63680763	0.000000e+00	4270.0
1	TraesCS1D01G081600	chr1D	83.943	847	98	29	719	1539	388603357	388604191	0.000000e+00	776.0
2	TraesCS1D01G081600	chr1D	86.636	434	45	5	1863	2296	394489411	394488991	3.480000e-128	468.0
3	TraesCS1D01G081600	chr1D	83.806	494	50	12	1332	1801	394490842	394490355	2.110000e-120	442.0
4	TraesCS1D01G081600	chr1B	94.283	1102	41	8	705	1803	104481778	104480696	0.000000e+00	1666.0
5	TraesCS1D01G081600	chr1B	85.422	1269	112	30	533	1752	527287828	527289072	0.000000e+00	1251.0
6	TraesCS1D01G081600	chr1B	85.170	735	90	14	725	1452	608335898	608335176	0.000000e+00	736.0
7	TraesCS1D01G081600	chr1B	91.684	493	33	4	1809	2296	527290498	527290987	0.000000e+00	676.0
8	TraesCS1D01G081600	chr1B	92.857	210	15	0	434	643	104483297	104483088	2.890000e-79	305.0
9	TraesCS1D01G081600	chr1A	93.027	1133	41	15	680	1803	62794795	62793692	0.000000e+00	1620.0
10	TraesCS1D01G081600	chr1A	89.897	970	83	9	680	1638	490759743	490760708	0.000000e+00	1234.0
11	TraesCS1D01G081600	chr1A	86.870	1051	96	23	783	1803	490418099	490419137	0.000000e+00	1138.0
12	TraesCS1D01G081600	chr1A	90.586	563	44	9	765	1322	487568493	487569051	0.000000e+00	737.0
13	TraesCS1D01G081600	chr1A	84.730	740	83	28	717	1437	487604273	487605001	0.000000e+00	713.0
14	TraesCS1D01G081600	chr1A	88.433	536	45	10	123	652	62795389	62794865	4.190000e-177	630.0
15	TraesCS1D01G081600	chr1A	90.683	483	31	7	1810	2292	490420051	490420519	4.190000e-177	630.0
16	TraesCS1D01G081600	chr1A	88.693	283	26	5	1840	2119	490778960	490779239	7.910000e-90	340.0
17	TraesCS1D01G081600	chr1A	92.982	114	8	0	1	114	62798127	62798014	1.420000e-37	167.0
18	TraesCS1D01G081600	chr1A	97.368	38	1	0	640	677	62794851	62794814	5.330000e-07	65.8
19	TraesCS1D01G081600	chr6B	88.739	1039	80	20	697	1712	679983727	679982703	0.000000e+00	1236.0
20	TraesCS1D01G081600	chr6B	90.683	322	27	2	1923	2243	679982290	679981971	2.120000e-115	425.0
21	TraesCS1D01G081600	chr7D	84.211	437	51	14	9	432	436109293	436109724	2.140000e-110	409.0
22	TraesCS1D01G081600	chr7D	83.191	470	34	24	1	432	263882419	263881957	2.790000e-104	388.0
23	TraesCS1D01G081600	chr7D	84.267	375	45	9	63	432	503976561	503976196	1.020000e-93	353.0
24	TraesCS1D01G081600	chr3B	83.705	448	40	21	1	432	787802543	787802973	2.150000e-105	392.0
25	TraesCS1D01G081600	chr2A	85.827	381	41	8	63	432	779268518	779268896	2.150000e-105	392.0
26	TraesCS1D01G081600	chr2A	83.908	435	39	18	22	432	708861359	708861786	1.000000e-103	387.0
27	TraesCS1D01G081600	chr7A	84.275	407	28	18	55	432	653467994	653468393	4.690000e-97	364.0
28	TraesCS1D01G081600	chr7B	82.588	425	55	13	13	432	125721121	125720711	7.860000e-95	357.0
29	TraesCS1D01G081600	chr3D	82.250	400	45	20	55	438	419656557	419656168	2.870000e-84	322.0
30	TraesCS1D01G081600	chrUn	79.301	372	53	20	9	371	110654733	110655089	2.970000e-59	239.0

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	TraesCS1D01G081600	chr1D	63680763	63683074	2311	True	4270.0	4270	100.0000	1	2312	1	chr1D.!!$R1	2311
1	TraesCS1D01G081600	chr1D	388603357	388604191	834	False	776.0	776	83.9430	719	1539	1	chr1D.!!$F1	820
2	TraesCS1D01G081600	chr1D	394488991	394490842	1851	True	455.0	468	85.2210	1332	2296	2	chr1D.!!$R2	964
3	TraesCS1D01G081600	chr1B	104480696	104483297	2601	True	985.5	1666	93.5700	434	1803	2	chr1B.!!$R2	1369
4	TraesCS1D01G081600	chr1B	527287828	527290987	3159	False	963.5	1251	88.5530	533	2296	2	chr1B.!!$F1	1763
5	TraesCS1D01G081600	chr1B	608335176	608335898	722	True	736.0	736	85.1700	725	1452	1	chr1B.!!$R1	727
6	TraesCS1D01G081600	chr1A	490759743	490760708	965	False	1234.0	1234	89.8970	680	1638	1	chr1A.!!$F3	958
7	TraesCS1D01G081600	chr1A	490418099	490420519	2420	False	884.0	1138	88.7765	783	2292	2	chr1A.!!$F5	1509
8	TraesCS1D01G081600	chr1A	487568493	487569051	558	False	737.0	737	90.5860	765	1322	1	chr1A.!!$F1	557
9	TraesCS1D01G081600	chr1A	487604273	487605001	728	False	713.0	713	84.7300	717	1437	1	chr1A.!!$F2	720
10	TraesCS1D01G081600	chr1A	62793692	62798127	4435	True	620.7	1620	92.9525	1	1803	4	chr1A.!!$R1	1802
11	TraesCS1D01G081600	chr6B	679981971	679983727	1756	True	830.5	1236	89.7110	697	2243	2	chr6B.!!$R1	1546

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
188	2806	0.101399	CATTCCTCTGTCTACGCGCT	59.899	55.0	5.73	0.0	0.0	5.92	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1587	5571	0.948678	TTGTTCGGCAAGCAAGTACC	59.051	50.0	0.0	0.0	32.52	3.34	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
58	59	3.267860	CAGCCCGAGCGATGAAGC	61.268	66.667	0.00	0.00	46.67	3.86
61	62	2.109799	CCCGAGCGATGAAGCCAT	59.890	61.111	0.00	0.00	38.01	4.40
91	155	2.437359	GCCGAGCACAGAAGCCAT	60.437	61.111	0.00	0.00	34.23	4.40
117	181	2.280524	CGACCAACCCGAGCACAA	60.281	61.111	0.00	0.00	0.00	3.33
118	182	1.890041	CGACCAACCCGAGCACAAA	60.890	57.895	0.00	0.00	0.00	2.83
120	184	0.240945	GACCAACCCGAGCACAAATG	59.759	55.000	0.00	0.00	0.00	2.32
176	2794	1.062587	CCGTCGTTTGATGCATTCCTC	59.937	52.381	0.00	0.00	0.00	3.71
187	2805	1.483424	GCATTCCTCTGTCTACGCGC	61.483	60.000	5.73	0.00	0.00	6.86
188	2806	0.101399	CATTCCTCTGTCTACGCGCT	59.899	55.000	5.73	0.00	0.00	5.92
192	2810	0.248296	CCTCTGTCTACGCGCTCTTC	60.248	60.000	5.73	0.00	0.00	2.87
194	2812	0.677098	TCTGTCTACGCGCTCTTCCT	60.677	55.000	5.73	0.00	0.00	3.36
204	2822	0.868406	CGCTCTTCCTTTTGAACGCT	59.132	50.000	0.00	0.00	0.00	5.07
221	2839	2.478894	ACGCTGAACTTTTCGTGTATGG	59.521	45.455	0.00	0.00	33.59	2.74
229	2847	3.124636	ACTTTTCGTGTATGGTTGATCGC	59.875	43.478	0.00	0.00	0.00	4.58
234	2852	1.326548	GTGTATGGTTGATCGCCGAAC	59.673	52.381	0.00	0.00	0.00	3.95
259	2877	3.175240	GATCGCCGATGATCGCCG	61.175	66.667	12.20	12.20	42.32	6.46
261	2879	3.894947	TCGCCGATGATCGCCGAA	61.895	61.111	18.51	2.52	46.48	4.30
262	2880	3.692367	CGCCGATGATCGCCGAAC	61.692	66.667	13.13	0.00	43.73	3.95
310	2928	9.034544	AGAAAAGACAAGTTTGAATTTATGTGC	57.965	29.630	0.00	0.00	0.00	4.57
316	2934	6.417635	ACAAGTTTGAATTTATGTGCGTCTTG	59.582	34.615	0.00	0.00	35.20	3.02
317	2935	5.460646	AGTTTGAATTTATGTGCGTCTTGG	58.539	37.500	0.00	0.00	0.00	3.61
319	2937	2.752354	TGAATTTATGTGCGTCTTGGGG	59.248	45.455	0.00	0.00	0.00	4.96
327	2945	3.419759	CGTCTTGGGGCCGAAACG	61.420	66.667	16.47	16.47	0.00	3.60
390	3012	1.807226	GACCCATAGGCCAAAACGC	59.193	57.895	5.01	0.00	36.11	4.84
397	3019	1.928706	TAGGCCAAAACGCAATCGCC	61.929	55.000	5.01	0.00	39.84	5.54
400	3022	2.503809	CAAAACGCAATCGCCGGG	60.504	61.111	2.18	0.00	39.84	5.73
432	3054	0.738975	CCGAACGAGTGGAGATGCTA	59.261	55.000	0.00	0.00	0.00	3.49
434	3056	2.605823	CCGAACGAGTGGAGATGCTATC	60.606	54.545	0.00	0.00	0.00	2.08
443	3065	4.771577	AGTGGAGATGCTATCAGATCGAAT	59.228	41.667	0.00	0.00	0.00	3.34
478	3100	1.694696	GGCTGATCTTTCCCTCGGTAT	59.305	52.381	0.00	0.00	0.00	2.73
513	3135	2.167693	TCGAACGGGCTACAAATCTGAT	59.832	45.455	0.00	0.00	0.00	2.90
517	3139	3.686016	ACGGGCTACAAATCTGATGTTT	58.314	40.909	0.00	0.00	32.27	2.83
519	3141	3.242413	CGGGCTACAAATCTGATGTTTCG	60.242	47.826	0.00	0.00	32.27	3.46
669	4316	2.472816	TCTGGTAAAAACGACGTCACC	58.527	47.619	17.16	14.41	0.00	4.02
677	4324	4.456253	CGACGTCACCGACTCCCG	62.456	72.222	17.16	0.00	37.88	5.14
914	4833	0.924090	ACCTTAAAATCCCCTCCCCG	59.076	55.000	0.00	0.00	0.00	5.73
992	4929	1.754226	GCTCGAACCAAGGAGAGATCT	59.246	52.381	0.00	0.00	32.84	2.75
996	4933	2.159170	CGAACCAAGGAGAGATCTGTCC	60.159	54.545	27.60	27.60	42.84	4.02
1348	5296	1.043022	CTGCAGGTCCCAAAAGCTTT	58.957	50.000	5.69	5.69	0.00	3.51
1554	5538	1.068333	CGCTTGGGAGTTGGATTGTTG	60.068	52.381	0.00	0.00	0.00	3.33
1587	5571	4.364318	AGGAGACCCTGACGGATG	57.636	61.111	0.00	0.00	42.42	3.51
1672	5660	8.173542	TGCTATTTGATCTGATGCATTTGTAT	57.826	30.769	0.00	0.00	0.00	2.29
1718	5730	7.304735	TCTATGTTGCAACAATGTGTGTAATC	58.695	34.615	34.06	1.54	43.03	1.75
1740	5752	4.275196	TCGAGATTGGGATTAGTCTGTACG	59.725	45.833	0.00	0.00	0.00	3.67
1741	5753	4.299978	GAGATTGGGATTAGTCTGTACGC	58.700	47.826	0.00	0.00	0.00	4.42
1742	5754	3.704566	AGATTGGGATTAGTCTGTACGCA	59.295	43.478	0.00	0.00	0.00	5.24
1744	5756	4.481368	TTGGGATTAGTCTGTACGCATT	57.519	40.909	0.00	0.00	0.00	3.56
1745	5757	4.481368	TGGGATTAGTCTGTACGCATTT	57.519	40.909	0.00	0.00	0.00	2.32
1746	5758	4.439057	TGGGATTAGTCTGTACGCATTTC	58.561	43.478	0.00	0.00	0.00	2.17
1747	5759	4.081365	TGGGATTAGTCTGTACGCATTTCA	60.081	41.667	0.00	0.00	0.00	2.69
1748	5760	5.057149	GGGATTAGTCTGTACGCATTTCAT	58.943	41.667	0.00	0.00	0.00	2.57
1749	5761	6.183360	TGGGATTAGTCTGTACGCATTTCATA	60.183	38.462	0.00	0.00	0.00	2.15
1783	5802	4.025360	AGATTGATTTGCCATGCCACTTA	58.975	39.130	0.00	0.00	0.00	2.24
1803	5824	3.777465	ACTCTGCAAATCATCATGTGC	57.223	42.857	0.00	0.00	43.01	4.57
1822	7542	4.216902	TGTGCAAAAAGGATGATGACTCAG	59.783	41.667	0.00	0.00	34.12	3.35
1872	7845	7.700656	ACAAGTGCTGAAGTATACAACAAAAAC	59.299	33.333	5.50	3.91	0.00	2.43
1985	7958	5.587844	CAGGTGGAGAAAATGGAAGTATCAG	59.412	44.000	0.00	0.00	0.00	2.90
2015	7989	5.872617	TGGTGTTGTATTTACTCGATTCAGG	59.127	40.000	0.00	0.00	0.00	3.86
2050	8025	4.328983	CGGTAACAAGTAGTGCAACCATAG	59.671	45.833	0.00	0.00	37.80	2.23
2059	8034	4.853924	AGTGCAACCATAGTTTTCAAGG	57.146	40.909	0.00	0.00	37.80	3.61
2060	8035	4.215109	AGTGCAACCATAGTTTTCAAGGT	58.785	39.130	0.00	0.00	37.80	3.50
2101	8076	6.426328	CAGTTCAGAACTTTAGATTGCTGTCT	59.574	38.462	13.53	0.00	40.46	3.41
2119	8099	4.744570	TGTCTTACAGCAAGAGGAATACG	58.255	43.478	0.00	0.00	44.02	3.06
2149	8129	5.111989	TCGGATGAGAACTTTAGATTGCAG	58.888	41.667	0.00	0.00	0.00	4.41
2155	8135	8.854614	ATGAGAACTTTAGATTGCAGTTAGTT	57.145	30.769	0.00	0.00	30.71	2.24
2159	8139	8.352942	AGAACTTTAGATTGCAGTTAGTTTTGG	58.647	33.333	0.00	0.00	30.71	3.28
2215	8195	1.808411	TGACCACGCCAGAAGAAATC	58.192	50.000	0.00	0.00	0.00	2.17
2237	8218	3.055675	CCCCAAACCGACACTTCAGTATA	60.056	47.826	0.00	0.00	0.00	1.47
2292	8273	7.093992	TGTATGTCACTTGTATTGAATCGTGA	58.906	34.615	0.00	0.00	0.00	4.35
2296	8277	7.320399	TGTCACTTGTATTGAATCGTGACTAT	58.680	34.615	20.21	0.00	46.74	2.12
2297	8278	7.488150	TGTCACTTGTATTGAATCGTGACTATC	59.512	37.037	20.21	5.58	46.74	2.08
2298	8279	7.488150	GTCACTTGTATTGAATCGTGACTATCA	59.512	37.037	16.00	0.00	44.56	2.15
2299	8280	7.702348	TCACTTGTATTGAATCGTGACTATCAG	59.298	37.037	0.00	0.00	0.00	2.90
2300	8281	6.477033	ACTTGTATTGAATCGTGACTATCAGC	59.523	38.462	0.00	0.00	0.00	4.26
2301	8282	4.976116	TGTATTGAATCGTGACTATCAGCG	59.024	41.667	0.00	0.00	0.00	5.18
2302	8283	2.492019	TGAATCGTGACTATCAGCGG	57.508	50.000	0.00	0.00	0.00	5.52
2303	8284	1.067060	TGAATCGTGACTATCAGCGGG	59.933	52.381	0.00	0.00	0.00	6.13
2304	8285	0.249489	AATCGTGACTATCAGCGGGC	60.249	55.000	0.00	0.00	0.00	6.13
2305	8286	1.391933	ATCGTGACTATCAGCGGGCA	61.392	55.000	0.00	0.00	0.00	5.36
2306	8287	1.153647	CGTGACTATCAGCGGGCAA	60.154	57.895	0.00	0.00	0.00	4.52
2307	8288	0.530650	CGTGACTATCAGCGGGCAAT	60.531	55.000	0.00	0.00	0.00	3.56
2308	8289	0.940126	GTGACTATCAGCGGGCAATG	59.060	55.000	0.00	0.00	0.00	2.82
2309	8290	0.541392	TGACTATCAGCGGGCAATGT	59.459	50.000	0.00	0.00	0.00	2.71
2310	8291	1.065491	TGACTATCAGCGGGCAATGTT	60.065	47.619	0.00	0.00	0.00	2.71
2311	8292	2.169561	TGACTATCAGCGGGCAATGTTA	59.830	45.455	0.00	0.00	0.00	2.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
47	48	2.890109	CGGCATGGCTTCATCGCTC	61.890	63.158	18.09	0.00	0.00	5.03
106	170	2.115052	TGGCATTTGTGCTCGGGT	59.885	55.556	0.07	0.00	34.73	5.28
176	2794	0.171455	AAGGAAGAGCGCGTAGACAG	59.829	55.000	8.43	0.00	0.00	3.51
187	2805	3.561725	AGTTCAGCGTTCAAAAGGAAGAG	59.438	43.478	0.00	0.00	35.82	2.85
188	2806	3.541632	AGTTCAGCGTTCAAAAGGAAGA	58.458	40.909	0.00	0.00	35.82	2.87
192	2810	3.482110	CGAAAAGTTCAGCGTTCAAAAGG	59.518	43.478	0.00	0.00	0.00	3.11
194	2812	3.849145	CACGAAAAGTTCAGCGTTCAAAA	59.151	39.130	0.00	0.00	34.37	2.44
204	2822	5.107259	CGATCAACCATACACGAAAAGTTCA	60.107	40.000	0.00	0.00	0.00	3.18
221	2839	1.787847	CCACAGTTCGGCGATCAAC	59.212	57.895	19.04	11.12	0.00	3.18
229	2847	2.456119	GCGATCTGCCACAGTTCGG	61.456	63.158	22.40	9.98	46.92	4.30
251	2869	2.032634	GCCACAAGTTCGGCGATCA	61.033	57.895	19.04	0.00	38.82	2.92
252	2870	2.785258	GCCACAAGTTCGGCGATC	59.215	61.111	11.76	10.67	38.82	3.69
280	2898	7.529880	AAATTCAAACTTGTCTTTTCTGCTG	57.470	32.000	0.00	0.00	0.00	4.41
284	2902	9.034544	GCACATAAATTCAAACTTGTCTTTTCT	57.965	29.630	0.00	0.00	0.00	2.52
310	2928	3.419759	CGTTTCGGCCCCAAGACG	61.420	66.667	0.00	0.00	0.00	4.18
369	2990	1.379309	TTTTGGCCTATGGGTCGGC	60.379	57.895	3.32	0.00	45.55	5.54
370	2991	1.373590	CGTTTTGGCCTATGGGTCGG	61.374	60.000	3.32	0.00	40.80	4.79
372	2993	0.963355	TGCGTTTTGGCCTATGGGTC	60.963	55.000	3.32	0.00	37.81	4.46
373	2994	0.540830	TTGCGTTTTGGCCTATGGGT	60.541	50.000	3.32	0.00	34.45	4.51
374	2995	0.823460	ATTGCGTTTTGGCCTATGGG	59.177	50.000	3.32	0.00	0.00	4.00
414	3036	2.033424	TGATAGCATCTCCACTCGTTCG	59.967	50.000	0.00	0.00	0.00	3.95
415	3037	3.316588	TCTGATAGCATCTCCACTCGTTC	59.683	47.826	0.00	0.00	0.00	3.95
419	3041	3.755905	TCGATCTGATAGCATCTCCACTC	59.244	47.826	0.00	0.00	0.00	3.51
443	3065	1.068895	TCAGCCTACCGAACGAAAACA	59.931	47.619	0.00	0.00	0.00	2.83
455	3077	1.069358	CCGAGGGAAAGATCAGCCTAC	59.931	57.143	0.00	0.00	0.00	3.18
513	3135	1.684983	GACCCGGATATCCTCGAAACA	59.315	52.381	19.61	0.00	0.00	2.83
517	3139	0.408309	ATGGACCCGGATATCCTCGA	59.592	55.000	19.61	8.26	35.86	4.04
519	3141	4.903045	TTTTATGGACCCGGATATCCTC	57.097	45.455	19.61	10.24	35.86	3.71
576	3200	3.072622	ACCTAGTTCTGGGGACAAAAGAC	59.927	47.826	7.12	0.00	42.06	3.01
992	4929	4.408821	GCCCAGACATGGCGGACA	62.409	66.667	10.57	0.00	46.19	4.02
1335	5283	5.641709	GCTGTTCTATAAAGCTTTTGGGAC	58.358	41.667	18.47	12.54	34.05	4.46
1367	5315	6.252441	CGAACTACAGAGCAAATAGAGAACTG	59.748	42.308	0.00	0.00	0.00	3.16
1461	5432	3.666374	GCAGCAGAACAAAATCAGAGACG	60.666	47.826	0.00	0.00	0.00	4.18
1554	5538	3.440522	GTCTCCTGGTAAAAGAATGGCAC	59.559	47.826	0.00	0.00	0.00	5.01
1587	5571	0.948678	TTGTTCGGCAAGCAAGTACC	59.051	50.000	0.00	0.00	32.52	3.34
1672	5660	1.774254	AGGATCATAAATGGTGCCCGA	59.226	47.619	0.00	0.00	28.33	5.14
1718	5730	4.537965	CGTACAGACTAATCCCAATCTCG	58.462	47.826	0.00	0.00	0.00	4.04
1740	5752	9.162793	CAATCTAGAAAACGATGTATGAAATGC	57.837	33.333	0.00	0.00	0.00	3.56
1746	5758	9.162793	GCAAATCAATCTAGAAAACGATGTATG	57.837	33.333	0.00	0.07	0.00	2.39
1747	5759	8.345565	GGCAAATCAATCTAGAAAACGATGTAT	58.654	33.333	0.00	0.00	0.00	2.29
1748	5760	7.335673	TGGCAAATCAATCTAGAAAACGATGTA	59.664	33.333	0.00	0.00	0.00	2.29
1749	5761	6.150976	TGGCAAATCAATCTAGAAAACGATGT	59.849	34.615	0.00	0.00	0.00	3.06
1783	5802	3.086282	TGCACATGATGATTTGCAGAGT	58.914	40.909	1.57	0.00	39.76	3.24
1803	5824	6.427853	TGTGTACTGAGTCATCATCCTTTTTG	59.572	38.462	0.00	0.00	34.12	2.44
1804	5825	6.428159	GTGTGTACTGAGTCATCATCCTTTTT	59.572	38.462	0.00	0.00	34.12	1.94
1805	5826	5.934625	GTGTGTACTGAGTCATCATCCTTTT	59.065	40.000	0.00	0.00	34.12	2.27
1806	5827	5.247110	AGTGTGTACTGAGTCATCATCCTTT	59.753	40.000	0.00	0.00	35.34	3.11
1807	5828	4.774726	AGTGTGTACTGAGTCATCATCCTT	59.225	41.667	0.00	0.00	35.34	3.36
1822	7542	7.650504	TGTGTGTATCTTGTCTTTAGTGTGTAC	59.349	37.037	0.00	0.00	0.00	2.90
1985	7958	5.697633	TCGAGTAAATACAACACCAAGAACC	59.302	40.000	0.00	0.00	0.00	3.62
2015	7989	2.188062	TGTTACCGGATTGTGGTTCC	57.812	50.000	9.46	0.00	40.96	3.62
2050	8025	5.163703	TGTGATGTGTACACACCTTGAAAAC	60.164	40.000	30.11	14.29	45.88	2.43
2059	8034	2.483876	ACTGCTGTGATGTGTACACAC	58.516	47.619	30.11	22.25	45.05	3.82
2060	8035	2.908688	ACTGCTGTGATGTGTACACA	57.091	45.000	29.70	29.70	46.44	3.72
2101	8076	4.705507	ACTCTCGTATTCCTCTTGCTGTAA	59.294	41.667	0.00	0.00	0.00	2.41
2149	8129	7.095649	ACGACGAAACCTATTACCAAAACTAAC	60.096	37.037	0.00	0.00	0.00	2.34
2155	8135	3.432933	GCACGACGAAACCTATTACCAAA	59.567	43.478	0.00	0.00	0.00	3.28
2159	8139	3.504863	TGAGCACGACGAAACCTATTAC	58.495	45.455	0.00	0.00	0.00	1.89
2215	8195	0.179029	ACTGAAGTGTCGGTTTGGGG	60.179	55.000	0.00	0.00	40.72	4.96
2275	8256	6.477033	GCTGATAGTCACGATTCAATACAAGT	59.523	38.462	0.00	0.00	0.00	3.16
2292	8273	3.882131	AACATTGCCCGCTGATAGT	57.118	47.368	0.00	0.00	0.00	2.12

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.