AutoCloner

Multiple sequence alignment - TraesCS3D01G484100

Loading Multiple Alignment...

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	TraesCS3D01G484100	chr3D	100.000	5204	0	0	1	5204	581117637	581112434	0.000000e+00	9611.0
1	TraesCS3D01G484100	chr3D	82.275	378	41	14	310	685	382120496	382120143	2.350000e-78	303.0
2	TraesCS3D01G484100	chr3D	97.297	37	1	0	1603	1639	417738712	417738748	4.350000e-06	63.9
3	TraesCS3D01G484100	chr3A	94.312	5274	155	43	1	5200	716755191	716760393	0.000000e+00	7943.0
4	TraesCS3D01G484100	chr3A	80.294	340	36	10	337	674	22327780	22328090	1.460000e-55	228.0
5	TraesCS3D01G484100	chr3B	94.568	4510	118	43	683	5119	777577879	777582334	0.000000e+00	6854.0
6	TraesCS3D01G484100	chr3B	88.824	340	25	11	1	329	777577537	777577874	6.270000e-109	405.0
7	TraesCS3D01G484100	chr3B	84.507	355	30	11	336	686	223294053	223293720	1.400000e-85	327.0
8	TraesCS3D01G484100	chr3B	97.297	37	1	0	1603	1639	544109566	544109602	4.350000e-06	63.9
9	TraesCS3D01G484100	chr5D	79.652	747	121	27	3058	3787	222739328	222740060	4.650000e-140	508.0
10	TraesCS3D01G484100	chr5D	92.000	150	12	0	1507	1656	222737960	222738109	1.470000e-50	211.0
11	TraesCS3D01G484100	chr5A	79.278	748	122	30	3058	3787	304539225	304538493	4.680000e-135	492.0
12	TraesCS3D01G484100	chr5A	92.667	150	11	0	1507	1656	304540594	304540445	3.160000e-52	217.0
13	TraesCS3D01G484100	chr5B	78.954	746	128	27	3058	3787	250234455	250233723	1.010000e-131	481.0
14	TraesCS3D01G484100	chr5B	83.662	355	31	14	336	685	673081497	673081829	5.060000e-80	309.0
15	TraesCS3D01G484100	chr5B	81.870	353	37	13	338	685	25272532	25272862	6.640000e-69	272.0
16	TraesCS3D01G484100	chr5B	80.055	361	47	13	330	686	96767531	96767192	1.450000e-60	244.0
17	TraesCS3D01G484100	chr5B	92.000	150	12	0	1507	1656	250235826	250235677	1.470000e-50	211.0
18	TraesCS3D01G484100	chr7D	85.112	356	25	11	338	688	236843208	236843540	6.450000e-89	339.0
19	TraesCS3D01G484100	chr7B	84.594	357	29	11	336	689	315712229	315711896	1.080000e-86	331.0
20	TraesCS3D01G484100	chr7B	84.746	354	27	13	336	684	743660969	743660638	3.880000e-86	329.0
21	TraesCS3D01G484100	chr2B	84.270	356	29	13	336	686	257617330	257616997	6.500000e-84	322.0
22	TraesCS3D01G484100	chr2B	83.626	342	30	15	336	674	436989144	436989462	1.100000e-76	298.0
23	TraesCS3D01G484100	chr6A	84.225	355	29	14	336	685	586572732	586573064	2.340000e-83	320.0
24	TraesCS3D01G484100	chr6D	83.898	354	31	9	338	687	112463382	112463051	1.090000e-81	315.0
25	TraesCS3D01G484100	chr1B	83.193	357	33	11	336	687	437387918	437388252	8.470000e-78	302.0
26	TraesCS3D01G484100	chr1B	78.632	351	34	18	329	674	237011620	237011306	1.480000e-45	195.0
27	TraesCS3D01G484100	chr4B	82.961	358	35	13	336	689	124967876	124967541	3.050000e-77	300.0

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	TraesCS3D01G484100	chr3D	581112434	581117637	5203	True	9611.0	9611	100.0000	1	5204	1	chr3D.!!$R2	5203
1	TraesCS3D01G484100	chr3A	716755191	716760393	5202	False	7943.0	7943	94.3120	1	5200	1	chr3A.!!$F2	5199
2	TraesCS3D01G484100	chr3B	777577537	777582334	4797	False	3629.5	6854	91.6960	1	5119	2	chr3B.!!$F2	5118
3	TraesCS3D01G484100	chr5D	222737960	222740060	2100	False	359.5	508	85.8260	1507	3787	2	chr5D.!!$F1	2280
4	TraesCS3D01G484100	chr5A	304538493	304540594	2101	True	354.5	492	85.9725	1507	3787	2	chr5A.!!$R1	2280
5	TraesCS3D01G484100	chr5B	250233723	250235826	2103	True	346.0	481	85.4770	1507	3787	2	chr5B.!!$R2	2280

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
300	311	2.801483	CCATGGGATGGTGTAACACAA	58.199	47.619	2.85	45.54	3.33	F
596	610	3.244911	CCTTTTCTGGAGGGCTAACAAGA	60.245	47.826	0.00	0.00	3.02	F
2233	2365	1.130140	CGAGCATTCTGATCTCTGCG	58.870	55.000	0.00	39.57	5.18	F
2971	3550	0.036010	GCCATACCTGTGAGCTGTGT	60.036	55.000	0.00	0.00	3.72	F

Position	MSA Position	Penalty	Sequence	TM	GC	End Stability	Orientation
1502	1548	0.541063	TGGACAGCGACTTGAGGGTA	60.541	55.0	3.69	R
2557	2818	1.457346	CATGGTGGCTTGAGAAGGAC	58.543	55.0	3.85	R
4009	4616	0.974383	GGGAGAACAACGAAGAGGGA	59.026	55.0	4.20	R
4612	5227	2.040278	TCCTCCCTCTGTTCACAAATGG	59.960	50.0	3.16	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	5.295431	TCTGATTTTTACCAATGTGCTCG	57.705	39.130	0.00	0.00	0.00	5.03
300	311	2.801483	CCATGGGATGGTGTAACACAA	58.199	47.619	2.85	0.00	45.54	3.33
313	324	5.153513	GTGTAACACAACATTGTAGCCATG	58.846	41.667	0.00	0.00	39.91	3.66
345	357	6.326323	TCTTTTAATTTATGCCCCTCCATTCC	59.674	38.462	0.00	0.00	0.00	3.01
356	368	4.141251	GCCCCTCCATTCCTTTATGTAAGA	60.141	45.833	0.00	0.00	35.80	2.10
399	411	4.941263	TGACCAAGGCACATAATTGTAGAC	59.059	41.667	0.00	0.00	33.76	2.59
410	422	6.414109	CACATAATTGTAGACGAGTTAGGACG	59.586	42.308	0.00	0.00	33.76	4.79
411	423	6.317140	ACATAATTGTAGACGAGTTAGGACGA	59.683	38.462	0.00	0.00	33.16	4.20
416	428	6.741992	TGTAGACGAGTTAGGACGAAATTA	57.258	37.500	0.00	0.00	0.00	1.40
488	500	7.849804	AAAAGTAAGAGATACATGCAATCGT	57.150	32.000	0.00	0.00	36.94	3.73
489	501	8.942338	AAAAGTAAGAGATACATGCAATCGTA	57.058	30.769	0.00	0.00	36.94	3.43
490	502	8.942338	AAAGTAAGAGATACATGCAATCGTAA	57.058	30.769	0.00	0.00	36.94	3.18
491	503	8.942338	AAGTAAGAGATACATGCAATCGTAAA	57.058	30.769	0.00	0.00	36.94	2.01
492	504	8.942338	AGTAAGAGATACATGCAATCGTAAAA	57.058	30.769	0.00	0.00	36.94	1.52
493	505	9.378551	AGTAAGAGATACATGCAATCGTAAAAA	57.621	29.630	0.00	0.00	36.94	1.94
564	578	5.867903	AAGATACAGACAATCAGGAGAGG	57.132	43.478	0.00	0.00	0.00	3.69
596	610	3.244911	CCTTTTCTGGAGGGCTAACAAGA	60.245	47.826	0.00	0.00	0.00	3.02
607	621	4.097892	AGGGCTAACAAGAAAATTATGCGG	59.902	41.667	0.00	0.00	0.00	5.69
636	650	9.671279	TTAGAAGAAATGCATCTTACATTCTGA	57.329	29.630	9.28	4.41	39.70	3.27
701	717	5.302823	GGAAGTATAAAGGAAGCCATGCATT	59.697	40.000	0.00	0.00	0.00	3.56
945	961	8.028652	TCCCATTTTAATCCCACCAATTATTC	57.971	34.615	0.00	0.00	0.00	1.75
946	962	7.625280	TCCCATTTTAATCCCACCAATTATTCA	59.375	33.333	0.00	0.00	0.00	2.57
947	963	8.439172	CCCATTTTAATCCCACCAATTATTCAT	58.561	33.333	0.00	0.00	0.00	2.57
948	964	9.275398	CCATTTTAATCCCACCAATTATTCATG	57.725	33.333	0.00	0.00	0.00	3.07
1058	1078	7.703058	AACCTTTAGAGAGAGAGAGAGAAAG	57.297	40.000	0.00	0.00	0.00	2.62
1061	1081	7.037586	ACCTTTAGAGAGAGAGAGAGAAAGAGA	60.038	40.741	0.00	0.00	0.00	3.10
1062	1082	7.497249	CCTTTAGAGAGAGAGAGAGAAAGAGAG	59.503	44.444	0.00	0.00	0.00	3.20
1063	1083	7.733773	TTAGAGAGAGAGAGAGAAAGAGAGA	57.266	40.000	0.00	0.00	0.00	3.10
1064	1084	6.232581	AGAGAGAGAGAGAGAAAGAGAGAG	57.767	45.833	0.00	0.00	0.00	3.20
1065	1085	5.960811	AGAGAGAGAGAGAGAAAGAGAGAGA	59.039	44.000	0.00	0.00	0.00	3.10
1066	1086	6.441924	AGAGAGAGAGAGAGAAAGAGAGAGAA	59.558	42.308	0.00	0.00	0.00	2.87
1502	1548	4.648626	CGGGCGGCCATGGATGAT	62.649	66.667	29.19	0.00	0.00	2.45
2065	2192	7.343833	CACCCAGGTAATTACTTACTCTTCCTA	59.656	40.741	15.05	0.00	37.86	2.94
2066	2193	7.564292	ACCCAGGTAATTACTTACTCTTCCTAG	59.436	40.741	15.05	0.00	37.86	3.02
2093	2223	7.379059	AATTAATCCCCAATTCCCAATTCTC	57.621	36.000	0.00	0.00	0.00	2.87
2151	2281	7.722949	ATCAAGAAACTTCTGATCTCTCTCT	57.277	36.000	0.00	0.00	37.65	3.10
2152	2282	7.156876	TCAAGAAACTTCTGATCTCTCTCTC	57.843	40.000	0.00	0.00	37.65	3.20
2172	2302	3.866582	CTGGGGCTGGGGATCGAC	61.867	72.222	0.00	0.00	0.00	4.20
2233	2365	1.130140	CGAGCATTCTGATCTCTGCG	58.870	55.000	0.00	0.00	39.57	5.18
2309	2452	1.592081	GTAGCAGTATCGTCGACGTCT	59.408	52.381	34.40	26.19	40.80	4.18
2557	2818	3.303132	CCTTTCCTTTTCGTCACTGTTCG	60.303	47.826	0.00	0.00	0.00	3.95
2567	2828	2.543031	CGTCACTGTTCGTCCTTCTCAA	60.543	50.000	0.00	0.00	0.00	3.02
2712	3291	1.666023	GCGCTAGGGTTTTCTTTGTGC	60.666	52.381	8.77	0.00	0.00	4.57
2867	3446	2.420022	GGACAATCCACTATGCACACAC	59.580	50.000	0.00	0.00	36.28	3.82
2868	3447	3.073678	GACAATCCACTATGCACACACA	58.926	45.455	0.00	0.00	0.00	3.72
2926	3505	5.048921	TCGTCTCCTCTTGCTTATATTACCG	60.049	44.000	0.00	0.00	0.00	4.02
2945	3524	2.530497	CCGCTCTCTCGGTCTCTCG	61.530	68.421	0.00	0.00	44.18	4.04
2971	3550	0.036010	GCCATACCTGTGAGCTGTGT	60.036	55.000	0.00	0.00	0.00	3.72
2972	3551	1.730501	CCATACCTGTGAGCTGTGTG	58.269	55.000	0.00	0.00	0.00	3.82
2973	3552	1.002430	CCATACCTGTGAGCTGTGTGT	59.998	52.381	0.00	0.00	0.00	3.72
2974	3553	2.071540	CATACCTGTGAGCTGTGTGTG	58.928	52.381	0.00	0.00	0.00	3.82
3844	4451	1.019278	CCATGTACAGCGACCACCAC	61.019	60.000	0.33	0.00	0.00	4.16
4009	4616	1.919600	GCAGATCAGGGCAAGGAGGT	61.920	60.000	0.00	0.00	0.00	3.85
4291	4902	8.724229	GTGTTCGTTAGGGTCTACATTAATTTT	58.276	33.333	0.00	0.00	0.00	1.82
4322	4935	5.917541	TCTTAATTGGTGACGTGTTCTTC	57.082	39.130	0.00	0.00	0.00	2.87
4519	5134	5.356882	TTGAAATCACACAAGGTCGATTC	57.643	39.130	0.00	0.00	31.37	2.52
4525	5140	1.480954	ACACAAGGTCGATTCGGCTAT	59.519	47.619	10.87	0.00	0.00	2.97
4526	5141	2.691526	ACACAAGGTCGATTCGGCTATA	59.308	45.455	10.87	0.00	0.00	1.31
4527	5142	3.050619	CACAAGGTCGATTCGGCTATAC	58.949	50.000	10.87	0.00	0.00	1.47
4606	5221	6.420588	TGTAAGACGTTTTGGTAAATTGTCG	58.579	36.000	0.83	0.00	36.96	4.35
4612	5227	6.368213	ACGTTTTGGTAAATTGTCGATCTTC	58.632	36.000	0.00	0.00	0.00	2.87
4632	5247	2.040278	TCCATTTGTGAACAGAGGGAGG	59.960	50.000	3.49	0.00	36.25	4.30
4683	5300	4.617253	ATGTACTCCATATTTAGCGCCA	57.383	40.909	2.29	0.00	29.82	5.69
4684	5301	4.617253	TGTACTCCATATTTAGCGCCAT	57.383	40.909	2.29	0.00	0.00	4.40
4690	5308	2.352030	CCATATTTAGCGCCATTGCAGG	60.352	50.000	2.29	0.00	37.32	4.85
4694	5312	1.026182	TTAGCGCCATTGCAGGACTG	61.026	55.000	2.29	0.00	37.32	3.51
4736	5354	4.274459	TGGAATTTGTTTGGCCAAAATTCG	59.726	37.500	30.10	0.00	37.81	3.34
4744	5362	5.175856	TGTTTGGCCAAAATTCGTATTTTCG	59.824	36.000	31.92	5.32	40.97	3.46
4758	5376	7.556733	TCGTATTTTCGGCCAATTAACTTAT	57.443	32.000	2.24	0.00	0.00	1.73
4847	5465	7.553044	ACCTACATACTTTTTGCTATCTCAACC	59.447	37.037	0.00	0.00	0.00	3.77
5070	5690	1.472480	CTGGTCAATGCTTTAACCCCG	59.528	52.381	2.30	0.00	0.00	5.73
5111	5731	2.010582	TATTGCAAATTCGGCCGGCC	62.011	55.000	36.69	36.69	0.00	6.13
5183	5803	4.692228	TGAGTGCAAAAAGGAAAATCACC	58.308	39.130	0.00	0.00	0.00	4.02
5184	5804	4.405358	TGAGTGCAAAAAGGAAAATCACCT	59.595	37.500	0.00	0.00	39.69	4.00
5185	5805	4.948847	AGTGCAAAAAGGAAAATCACCTC	58.051	39.130	0.00	0.00	36.67	3.85
5188	5808	4.039124	TGCAAAAAGGAAAATCACCTCTCC	59.961	41.667	0.00	0.00	36.67	3.71
5194	5814	6.656632	AAGGAAAATCACCTCTCCTTTTTC	57.343	37.500	0.00	0.00	44.19	2.29
5195	5815	5.958321	AGGAAAATCACCTCTCCTTTTTCT	58.042	37.500	0.00	0.00	34.53	2.52
5196	5816	6.007076	AGGAAAATCACCTCTCCTTTTTCTC	58.993	40.000	0.00	0.00	34.53	2.87
5197	5817	5.184096	GGAAAATCACCTCTCCTTTTTCTCC	59.816	44.000	0.00	0.00	36.81	3.71
5198	5818	5.324832	AAATCACCTCTCCTTTTTCTCCA	57.675	39.130	0.00	0.00	0.00	3.86
5199	5819	3.771577	TCACCTCTCCTTTTTCTCCAC	57.228	47.619	0.00	0.00	0.00	4.02
5200	5820	3.318313	TCACCTCTCCTTTTTCTCCACT	58.682	45.455	0.00	0.00	0.00	4.00
5201	5821	3.716872	TCACCTCTCCTTTTTCTCCACTT	59.283	43.478	0.00	0.00	0.00	3.16
5202	5822	4.068599	CACCTCTCCTTTTTCTCCACTTC	58.931	47.826	0.00	0.00	0.00	3.01
5203	5823	3.977326	ACCTCTCCTTTTTCTCCACTTCT	59.023	43.478	0.00	0.00	0.00	2.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
26	27	4.465632	AATCTGTACGAGCACATTGGTA	57.534	40.909	0.00	0.00	0.00	3.25
179	181	2.887152	GGGATGTGAGTGCAGAGTTTTT	59.113	45.455	0.00	0.00	0.00	1.94
184	186	3.055530	AGTTAAGGGATGTGAGTGCAGAG	60.056	47.826	0.00	0.00	0.00	3.35
300	311	4.275810	AGAAGAATGCATGGCTACAATGT	58.724	39.130	0.00	0.00	0.00	2.71
313	324	7.275183	AGGGGCATAAATTAAAAGAAGAATGC	58.725	34.615	0.00	0.00	38.16	3.56
356	368	6.542005	TGGTCATCGTGCTGAAAATAATACAT	59.458	34.615	0.00	0.00	0.00	2.29
399	411	4.382345	AGGGTAATTTCGTCCTAACTCG	57.618	45.455	0.00	0.00	0.00	4.18
439	451	7.724305	TTGGACTAACTGATTTACTTGTCAC	57.276	36.000	0.00	0.00	0.00	3.67
491	503	8.437360	TCTATGTCGATTGCATGTATCTTTTT	57.563	30.769	0.00	0.00	0.00	1.94
492	504	7.928167	TCTCTATGTCGATTGCATGTATCTTTT	59.072	33.333	0.00	0.00	0.00	2.27
493	505	7.436933	TCTCTATGTCGATTGCATGTATCTTT	58.563	34.615	0.00	0.00	0.00	2.52
494	506	6.986250	TCTCTATGTCGATTGCATGTATCTT	58.014	36.000	0.00	0.00	0.00	2.40
495	507	6.581171	TCTCTATGTCGATTGCATGTATCT	57.419	37.500	0.00	0.00	0.00	1.98
496	508	8.187480	AGTATCTCTATGTCGATTGCATGTATC	58.813	37.037	0.00	0.00	0.00	2.24
497	509	8.060931	AGTATCTCTATGTCGATTGCATGTAT	57.939	34.615	0.00	0.00	0.00	2.29
498	510	7.454260	AGTATCTCTATGTCGATTGCATGTA	57.546	36.000	0.00	0.00	0.00	2.29
499	511	6.338214	AGTATCTCTATGTCGATTGCATGT	57.662	37.500	0.00	0.00	0.00	3.21
500	512	7.598118	AGAAAGTATCTCTATGTCGATTGCATG	59.402	37.037	0.00	0.00	30.46	4.06
501	513	7.665690	AGAAAGTATCTCTATGTCGATTGCAT	58.334	34.615	0.00	0.00	30.46	3.96
596	610	9.034544	GCATTTCTTCTAATTCCGCATAATTTT	57.965	29.630	0.00	0.00	31.63	1.82
701	717	5.182001	GGAGAGCAGAGCAAAATTAAAGACA	59.818	40.000	0.00	0.00	0.00	3.41
945	961	2.043752	TGGCTGGGGACATGCATG	60.044	61.111	25.09	25.09	41.51	4.06
946	962	2.277737	CTGGCTGGGGACATGCAT	59.722	61.111	0.00	0.00	41.51	3.96
947	963	4.746309	GCTGGCTGGGGACATGCA	62.746	66.667	0.00	0.00	41.51	3.96
970	990	1.057471	GGTAGGAGGGAGGGCAATAC	58.943	60.000	0.00	0.00	0.00	1.89
1058	1078	1.277557	AGCACACACCCATTCTCTCTC	59.722	52.381	0.00	0.00	0.00	3.20
1061	1081	2.499289	CTCTAGCACACACCCATTCTCT	59.501	50.000	0.00	0.00	0.00	3.10
1062	1082	2.497675	TCTCTAGCACACACCCATTCTC	59.502	50.000	0.00	0.00	0.00	2.87
1063	1083	2.499289	CTCTCTAGCACACACCCATTCT	59.501	50.000	0.00	0.00	0.00	2.40
1064	1084	2.497675	TCTCTCTAGCACACACCCATTC	59.502	50.000	0.00	0.00	0.00	2.67
1065	1085	2.499289	CTCTCTCTAGCACACACCCATT	59.501	50.000	0.00	0.00	0.00	3.16
1066	1086	2.106566	CTCTCTCTAGCACACACCCAT	58.893	52.381	0.00	0.00	0.00	4.00
1499	1545	1.476891	GACAGCGACTTGAGGGTATCA	59.523	52.381	0.00	0.00	35.62	2.15
1502	1548	0.541063	TGGACAGCGACTTGAGGGTA	60.541	55.000	0.00	0.00	0.00	3.69
2065	2192	5.417170	TGGGAATTGGGGATTAATTAGCT	57.583	39.130	0.00	0.00	0.00	3.32
2066	2193	6.686484	ATTGGGAATTGGGGATTAATTAGC	57.314	37.500	0.00	0.00	0.00	3.09
2141	2271	1.823250	GCCCCAGGAGAGAGAGAGATC	60.823	61.905	0.00	0.00	0.00	2.75
2151	2281	3.710631	ATCCCCAGCCCCAGGAGA	61.711	66.667	0.00	0.00	31.94	3.71
2152	2282	3.174265	GATCCCCAGCCCCAGGAG	61.174	72.222	0.00	0.00	31.94	3.69
2172	2302	2.224606	CATCTTGATCCCCACAATCGG	58.775	52.381	0.00	0.00	0.00	4.18
2233	2365	3.380637	ACAGAGATCAAATCAATGCTGCC	59.619	43.478	0.00	0.00	0.00	4.85
2557	2818	1.457346	CATGGTGGCTTGAGAAGGAC	58.543	55.000	0.00	0.00	0.00	3.85
2712	3291	3.247442	GAAAAAGGGAAATTAACCGGCG	58.753	45.455	0.00	0.00	0.00	6.46
2945	3524	0.181114	TCACAGGTATGGCATGGAGC	59.819	55.000	10.98	0.13	44.65	4.70
2971	3550	2.491298	TCACAAGTTGCAAAAGCTCACA	59.509	40.909	0.00	0.00	0.00	3.58
2972	3551	3.111098	CTCACAAGTTGCAAAAGCTCAC	58.889	45.455	0.00	0.00	0.00	3.51
2973	3552	2.754552	ACTCACAAGTTGCAAAAGCTCA	59.245	40.909	0.00	0.00	28.74	4.26
2974	3553	3.111098	CACTCACAAGTTGCAAAAGCTC	58.889	45.455	0.00	0.00	31.71	4.09
4009	4616	0.974383	GGGAGAACAACGAAGAGGGA	59.026	55.000	0.00	0.00	0.00	4.20
4107	4718	8.899887	TGATCTCCTGTGATAATGTGGATATA	57.100	34.615	0.00	0.00	0.00	0.86
4322	4935	6.814506	AACATCACCTCTCAAAATTCTCAG	57.185	37.500	0.00	0.00	0.00	3.35
4606	5221	4.397417	CCCTCTGTTCACAAATGGAAGATC	59.603	45.833	0.00	0.00	0.00	2.75
4612	5227	2.040278	TCCTCCCTCTGTTCACAAATGG	59.960	50.000	0.00	0.00	0.00	3.16
4683	5300	6.710295	GGAAAAATAAAAACCAGTCCTGCAAT	59.290	34.615	0.00	0.00	0.00	3.56
4684	5301	6.052360	GGAAAAATAAAAACCAGTCCTGCAA	58.948	36.000	0.00	0.00	0.00	4.08
4690	5308	8.635328	TCCAGTAAGGAAAAATAAAAACCAGTC	58.365	33.333	0.00	0.00	45.65	3.51
4822	5440	7.254455	CGGTTGAGATAGCAAAAAGTATGTAGG	60.254	40.741	0.00	0.00	0.00	3.18
4847	5465	6.706055	TTTTCAAGAACAGTACTGCTATCG	57.294	37.500	22.90	9.10	0.00	2.92
5070	5690	1.001974	GAACAAAATGGGAGGGGTTGC	59.998	52.381	0.00	0.00	0.00	4.17
5111	5731	5.185454	TGCATAGGTTGTAGAAACATGGAG	58.815	41.667	0.00	0.00	34.97	3.86
5120	5740	3.287222	GCCCATTTGCATAGGTTGTAGA	58.713	45.455	0.00	0.00	0.00	2.59
5151	5771	4.039609	CCTTTTTGCACTCATCTCCCTTTT	59.960	41.667	0.00	0.00	0.00	2.27
5152	5772	3.575687	CCTTTTTGCACTCATCTCCCTTT	59.424	43.478	0.00	0.00	0.00	3.11

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.