AutoCloner

Multiple sequence alignment - TraesCS7D01G443200

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	TraesCS7D01G443200	chr7D	100.000	5589	0	0	1	5589	562820004	562814416	0.000000e+00	10322.0
1	TraesCS7D01G443200	chr7A	94.625	3758	118	37	1645	5352	648429264	648425541	0.000000e+00	5744.0
2	TraesCS7D01G443200	chr7A	93.107	1059	62	9	591	1645	648431247	648430196	0.000000e+00	1541.0
3	TraesCS7D01G443200	chr7A	97.934	242	3	2	5349	5589	648423739	648423499	8.660000e-113	418.0
4	TraesCS7D01G443200	chr7A	92.222	90	7	0	593	682	648432982	648432893	1.630000e-25	128.0
5	TraesCS7D01G443200	chr7B	97.118	1943	48	6	1892	3831	612547264	612545327	0.000000e+00	3271.0
6	TraesCS7D01G443200	chr7B	89.048	1470	79	33	3832	5271	612545235	612543818	0.000000e+00	1748.0
7	TraesCS7D01G443200	chr7B	93.409	880	42	9	603	1477	612548388	612547520	0.000000e+00	1290.0
8	TraesCS7D01G443200	chr7B	88.841	233	10	7	5269	5497	612543788	612543568	7.130000e-69	272.0
9	TraesCS7D01G443200	chr7B	83.254	209	16	12	1274	1482	570350208	570350019	2.070000e-39	174.0
10	TraesCS7D01G443200	chr6D	93.098	594	36	1	1	594	455626493	455627081	0.000000e+00	865.0
11	TraesCS7D01G443200	chr6D	92.437	595	43	2	1	594	21902903	21903496	0.000000e+00	848.0
12	TraesCS7D01G443200	chr6D	92.411	593	44	1	1	593	94777581	94778172	0.000000e+00	845.0
13	TraesCS7D01G443200	chr6D	91.973	598	47	1	1	598	381976431	381975835	0.000000e+00	837.0
14	TraesCS7D01G443200	chr6D	91.820	599	47	2	1	598	9391460	9390863	0.000000e+00	833.0
15	TraesCS7D01G443200	chr1D	92.979	584	38	2	1	582	481494027	481493445	0.000000e+00	848.0
16	TraesCS7D01G443200	chr1D	92.771	581	42	0	15	595	246950984	246951564	0.000000e+00	841.0
17	TraesCS7D01G443200	chr3B	92.230	592	45	1	3	594	533595313	533595903	0.000000e+00	837.0
18	TraesCS7D01G443200	chr3D	91.946	596	47	1	1	596	8512741	8513335	0.000000e+00	833.0
19	TraesCS7D01G443200	chrUn	82.051	429	43	22	996	1415	262707376	262707779	8.970000e-88	335.0
20	TraesCS7D01G443200	chrUn	100.000	34	0	0	2646	2679	337795926	337795893	4.670000e-06	63.9
21	TraesCS7D01G443200	chr5B	75.694	288	59	10	3428	3713	622550482	622550760	3.510000e-27	134.0
22	TraesCS7D01G443200	chr5A	76.027	292	49	16	3428	3713	626277311	626277035	1.260000e-26	132.0
23	TraesCS7D01G443200	chr5D	74.914	291	58	11	3426	3713	501030581	501030859	9.840000e-23	119.0
24	TraesCS7D01G443200	chr5D	100.000	29	0	0	2651	2679	553624408	553624436	3.000000e-03	54.7
25	TraesCS7D01G443200	chr1B	92.405	79	2	2	5056	5130	20455163	20455085	5.920000e-20	110.0
26	TraesCS7D01G443200	chr3A	100.000	34	0	0	2646	2679	700326100	700326067	4.670000e-06	63.9
27	TraesCS7D01G443200	chr3A	100.000	34	0	0	2646	2679	700345376	700345343	4.670000e-06	63.9
28	TraesCS7D01G443200	chr3A	100.000	34	0	0	2646	2679	701251232	701251265	4.670000e-06	63.9

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	TraesCS7D01G443200	chr7D	562814416	562820004	5588	True	10322.00	10322	100.000	1	5589	1	chr7D.!!$R1	5588
1	TraesCS7D01G443200	chr7A	648423499	648432982	9483	True	1957.75	5744	94.472	591	5589	4	chr7A.!!$R1	4998
2	TraesCS7D01G443200	chr7B	612543568	612548388	4820	True	1645.25	3271	92.104	603	5497	4	chr7B.!!$R2	4894
3	TraesCS7D01G443200	chr6D	455626493	455627081	588	False	865.00	865	93.098	1	594	1	chr6D.!!$F3	593
4	TraesCS7D01G443200	chr6D	21902903	21903496	593	False	848.00	848	92.437	1	594	1	chr6D.!!$F1	593
5	TraesCS7D01G443200	chr6D	94777581	94778172	591	False	845.00	845	92.411	1	593	1	chr6D.!!$F2	592
6	TraesCS7D01G443200	chr6D	381975835	381976431	596	True	837.00	837	91.973	1	598	1	chr6D.!!$R2	597
7	TraesCS7D01G443200	chr6D	9390863	9391460	597	True	833.00	833	91.820	1	598	1	chr6D.!!$R1	597
8	TraesCS7D01G443200	chr1D	481493445	481494027	582	True	848.00	848	92.979	1	582	1	chr1D.!!$R1	581
9	TraesCS7D01G443200	chr1D	246950984	246951564	580	False	841.00	841	92.771	15	595	1	chr1D.!!$F1	580
10	TraesCS7D01G443200	chr3B	533595313	533595903	590	False	837.00	837	92.230	3	594	1	chr3B.!!$F1	591
11	TraesCS7D01G443200	chr3D	8512741	8513335	594	False	833.00	833	91.946	1	596	1	chr3D.!!$F1	595

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
969	2712	0.399091	CTCCATAGCTCCCACCTCCA	60.399	60.0	0.0	0.0	0.00	3.86	F
1564	3310	0.037447	AGAGGAGGAAACTGGCTTGC	59.963	55.0	0.0	0.0	44.43	4.01	F
2896	5628	0.893727	TCTGAGACGTGGCTACTGCA	60.894	55.0	0.0	0.0	41.91	4.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2003	4731	1.981254	CATTGCACATTTGGACGGTC	58.019	50.000	0.00	0.00	0.00	4.79	R
3530	6264	2.954318	ACTGGGCAGATGCATACATTTC	59.046	45.455	0.00	0.00	44.36	2.17	R
4748	7576	1.153745	CCAGATAGATAGGCGCGCC	60.154	63.158	42.34	42.34	0.00	6.53	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
190	193	1.731613	CGCAACTAGTTCGCCGACA	60.732	57.895	18.30	0.00	0.00	4.35
295	298	4.760047	GCAGTCGCCATGGTCCGT	62.760	66.667	14.67	0.00	0.00	4.69
501	504	1.400494	AGACAACCAAACAACTCGCAC	59.600	47.619	0.00	0.00	0.00	5.34
543	546	2.222227	TTCAGAGCTAGGCTGAGTGA	57.778	50.000	0.00	0.00	42.74	3.41
611	614	3.632333	GCCCTTAGCCTTCCATTTTAGT	58.368	45.455	0.00	0.00	34.35	2.24
642	645	7.367285	GTCAACCATTACTAATCTTTGCACAA	58.633	34.615	0.00	0.00	0.00	3.33
720	2460	6.154877	ACCCTTGATTGCAATGTAATGAATGA	59.845	34.615	18.59	0.00	32.68	2.57
766	2506	3.552273	CCAGGCTGCGTTAACTATACGAT	60.552	47.826	9.56	0.00	41.33	3.73
885	2627	4.157120	CGTCGTCCATCCCCACCC	62.157	72.222	0.00	0.00	0.00	4.61
892	2634	4.455137	CATCCCCACCCCTCCCCT	62.455	72.222	0.00	0.00	0.00	4.79
951	2693	0.739561	GAAGCCATCTCGTACGGACT	59.260	55.000	16.52	2.90	0.00	3.85
969	2712	0.399091	CTCCATAGCTCCCACCTCCA	60.399	60.000	0.00	0.00	0.00	3.86
977	2720	1.903877	CTCCCACCTCCAAGCACGAT	61.904	60.000	0.00	0.00	0.00	3.73
993	2736	3.781770	GATCACCAGCGAGCTCCCG	62.782	68.421	8.47	0.00	0.00	5.14
1225	2971	1.339151	GGTTGGGCTTCAGATTCGACT	60.339	52.381	0.00	0.00	0.00	4.18
1259	3005	0.258774	ACCTGTGTGTGCCCTCTTTT	59.741	50.000	0.00	0.00	0.00	2.27
1312	3058	1.153349	GAGGATTGTGCTCGGGGAC	60.153	63.158	0.00	0.00	0.00	4.46
1430	3176	2.495669	GCTTCTCTCTGCCTACTCTGTT	59.504	50.000	0.00	0.00	0.00	3.16
1442	3188	0.764890	ACTCTGTTTGTGCCCTGCTA	59.235	50.000	0.00	0.00	0.00	3.49
1444	3190	0.472044	TCTGTTTGTGCCCTGCTACA	59.528	50.000	0.00	0.00	0.00	2.74
1485	3231	1.802136	CGAGCTGATCTGAAGGTCTGC	60.802	57.143	12.98	12.98	39.48	4.26
1499	3245	3.211045	AGGTCTGCGTTACAATTTGTGT	58.789	40.909	12.30	0.00	44.82	3.72
1549	3295	2.171237	TGTGGTCATGGCAATCTAGAGG	59.829	50.000	0.00	0.00	0.00	3.69
1560	3306	3.802866	CAATCTAGAGGAGGAAACTGGC	58.197	50.000	0.00	0.00	44.43	4.85
1564	3310	0.037447	AGAGGAGGAAACTGGCTTGC	59.963	55.000	0.00	0.00	44.43	4.01
1598	3344	4.202141	CCAGGTGTGTTTGTGTGAATTGAT	60.202	41.667	0.00	0.00	0.00	2.57
1608	3354	8.409371	TGTTTGTGTGAATTGATGCTAAAACTA	58.591	29.630	0.00	0.00	0.00	2.24
1632	3378	2.618709	AGGCCGCTGCACTTTATTTATC	59.381	45.455	1.55	0.00	40.13	1.75
1940	4650	8.465273	AACACCTGAAAAGCTTAAATAGAACT	57.535	30.769	0.00	0.00	0.00	3.01
2064	4793	5.117406	ACAAGAACTTTCTCCTCCTGTTT	57.883	39.130	0.00	0.00	36.28	2.83
2135	4864	4.660789	ACTGCTTGCACTTTGAATTTCT	57.339	36.364	0.00	0.00	0.00	2.52
2136	4865	4.614946	ACTGCTTGCACTTTGAATTTCTC	58.385	39.130	0.00	0.00	0.00	2.87
2137	4866	4.098349	ACTGCTTGCACTTTGAATTTCTCA	59.902	37.500	0.00	0.00	0.00	3.27
2372	5101	9.599322	CAACACACATATTCTCTCTTTGTTAAC	57.401	33.333	0.00	0.00	0.00	2.01
2548	5278	2.880268	TCTGTTGGACTGCAGAAATGTG	59.120	45.455	23.35	4.91	38.61	3.21
2722	5453	4.227527	ACTTTGGATCGGAGGGAGTATTTT	59.772	41.667	0.00	0.00	0.00	1.82
2768	5499	5.565723	CTGTGCAAGCTTTCAACATTAAC	57.434	39.130	0.00	0.00	0.00	2.01
2896	5628	0.893727	TCTGAGACGTGGCTACTGCA	60.894	55.000	0.00	0.00	41.91	4.41
3284	6018	3.786635	AGTTTCATCGTCTACTGATGGC	58.213	45.455	11.98	0.00	42.73	4.40
3408	6142	9.658799	TTTCTATGTCAGAAACTTATTCTCTGG	57.341	33.333	0.00	0.00	46.16	3.86
3525	6259	8.934023	AAGGTATGTTTTCTATCCAAGTCAAA	57.066	30.769	0.00	0.00	0.00	2.69
3660	6394	2.861147	AGACTACTGGGAAAACCTGC	57.139	50.000	0.00	0.00	41.59	4.85
3691	6425	4.380843	TTCAGTTAGCTTGGATGGGAAA	57.619	40.909	0.00	0.00	0.00	3.13
3721	6455	8.050778	TGGCTTTGTAAGTGGATAAAATACTG	57.949	34.615	0.00	0.00	0.00	2.74
3801	6536	9.765795	CCTAGGAAAATCTCGTATTCTATGTTT	57.234	33.333	1.05	0.00	0.00	2.83
3856	6682	1.490910	GGTTGTTAGGGGCTATCAGCT	59.509	52.381	0.00	0.00	41.99	4.24
3874	6700	9.757227	CTATCAGCTTATCATATAGGTTAAGCC	57.243	37.037	25.48	14.34	44.78	4.35
3925	6751	5.789574	TGAACACTACCCCTTCCATTAAT	57.210	39.130	0.00	0.00	0.00	1.40
3927	6753	4.790718	ACACTACCCCTTCCATTAATCC	57.209	45.455	0.00	0.00	0.00	3.01
3989	6815	9.123709	TGTTTTATTTGCTAATAGCTTGTTTCG	57.876	29.630	13.88	0.00	42.97	3.46
4063	6889	6.998074	TGCTTCTGTATTTCTTTCAGAGGAAA	59.002	34.615	7.50	3.97	40.60	3.13
4067	6893	6.936900	TCTGTATTTCTTTCAGAGGAAACCAG	59.063	38.462	14.87	14.87	38.07	4.00
4188	7014	5.011738	TGTCCTACTGAAAGGTAAGGACTTG	59.988	44.000	17.90	0.00	38.81	3.16
4189	7015	5.011840	GTCCTACTGAAAGGTAAGGACTTGT	59.988	44.000	11.62	0.00	39.30	3.16
4190	7016	6.210185	GTCCTACTGAAAGGTAAGGACTTGTA	59.790	42.308	11.62	0.00	39.30	2.41
4191	7017	6.210185	TCCTACTGAAAGGTAAGGACTTGTAC	59.790	42.308	0.00	0.00	39.30	2.90
4259	7085	7.703058	TTTTCAGAAGTTTCTCCTTGTTTCT	57.297	32.000	0.00	0.00	34.74	2.52
4371	7197	4.636249	CCTGCTGACTGGAAAGGTATATC	58.364	47.826	0.00	0.00	37.06	1.63
4435	7261	5.546621	ACTGACCAAGCTGTTACTCTTTA	57.453	39.130	0.00	0.00	0.00	1.85
4748	7576	6.748333	AGTCAATGTTGTATCAATCCAGTG	57.252	37.500	0.00	0.00	0.00	3.66
4846	7674	5.305139	TCGAGAATGTCATCGAGTGTTAA	57.695	39.130	0.00	0.00	42.61	2.01
4876	7704	2.300152	TCAAGATCGCCAACTGAAGTCT	59.700	45.455	0.00	0.00	0.00	3.24
4905	7733	0.655733	ACACAAGTTTTCTCGCCGTG	59.344	50.000	0.00	0.00	0.00	4.94
4983	7812	2.685897	TGTACCCAGTTTGTTGCAGTTC	59.314	45.455	0.00	0.00	0.00	3.01
4988	7817	4.278419	ACCCAGTTTGTTGCAGTTCTATTC	59.722	41.667	0.00	0.00	0.00	1.75
4990	7819	4.321230	CCAGTTTGTTGCAGTTCTATTCCC	60.321	45.833	0.00	0.00	0.00	3.97
4991	7820	3.502211	AGTTTGTTGCAGTTCTATTCCCG	59.498	43.478	0.00	0.00	0.00	5.14
4994	7823	3.482436	TGTTGCAGTTCTATTCCCGTTT	58.518	40.909	0.00	0.00	0.00	3.60
4995	7824	4.643463	TGTTGCAGTTCTATTCCCGTTTA	58.357	39.130	0.00	0.00	0.00	2.01
4996	7825	5.064558	TGTTGCAGTTCTATTCCCGTTTAA	58.935	37.500	0.00	0.00	0.00	1.52
5010	7864	5.865085	TCCCGTTTAATCTGATCCTTATGG	58.135	41.667	0.00	0.00	0.00	2.74
5043	7897	6.258068	GTCTGTATTGTACTATGCCTTTGGTC	59.742	42.308	0.00	0.00	0.00	4.02
5061	7915	0.956633	TCGCCTACCCGTAATGCTAG	59.043	55.000	0.00	0.00	0.00	3.42
5082	7936	9.326413	TGCTAGTTTATCTTAATTACTTCTGGC	57.674	33.333	0.00	0.00	0.00	4.85
5202	8061	4.821260	TGTCTGAACTATTGCAGCTCAAAA	59.179	37.500	0.00	0.00	38.34	2.44
5228	8087	6.756074	CCACATGCTGTTTTTCTTTAGAAACA	59.244	34.615	4.48	1.44	43.01	2.83
5229	8088	7.277539	CCACATGCTGTTTTTCTTTAGAAACAA	59.722	33.333	4.48	1.46	43.00	2.83
5230	8089	8.655092	CACATGCTGTTTTTCTTTAGAAACAAA	58.345	29.630	4.48	0.00	43.00	2.83
5231	8090	9.382275	ACATGCTGTTTTTCTTTAGAAACAAAT	57.618	25.926	4.48	0.00	43.00	2.32
5266	8126	6.153340	CCAATTAAAGCCAGATCTTTCCTTCA	59.847	38.462	0.00	0.00	37.46	3.02
5395	10094	3.116300	GTGTACTGCACCGATCAGTATG	58.884	50.000	12.23	0.00	45.40	2.39
5573	10275	2.541556	AGCCGATCTCTTTAACGCTTC	58.458	47.619	0.00	0.00	0.00	3.86

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
271	274	4.760047	ATGGCGACTGCGGTGGAC	62.760	66.667	12.40	9.57	44.10	4.02
501	504	1.875009	ACAGCCTCATATGCGACATG	58.125	50.000	0.00	0.00	0.00	3.21
532	535	2.327325	ACCCTTCTTCACTCAGCCTA	57.673	50.000	0.00	0.00	0.00	3.93
543	546	1.003118	TCAGCGTTGCATACCCTTCTT	59.997	47.619	0.00	0.00	0.00	2.52
561	564	0.892063	TGCCGTGTGCTACAGTATCA	59.108	50.000	0.00	0.00	42.00	2.15
611	614	5.815581	AGATTAGTAATGGTTGACCTGCAA	58.184	37.500	0.00	0.00	36.82	4.08
642	645	7.824779	GGAGAGTATTTGAGTATTGGTTGACTT	59.175	37.037	0.00	0.00	0.00	3.01
720	2460	6.064717	GGGCCATCTCATGTTTATACTTCTT	58.935	40.000	4.39	0.00	0.00	2.52
859	2601	3.298300	ATGGACGACGGAGGAGGGT	62.298	63.158	0.00	0.00	0.00	4.34
892	2634	0.405198	GGGTTTAAAAGGGGACGGGA	59.595	55.000	0.00	0.00	0.00	5.14
915	2657	5.550290	TGGCTTCAAATTGGGAGATTTTTC	58.450	37.500	0.00	0.00	0.00	2.29
916	2658	5.565455	TGGCTTCAAATTGGGAGATTTTT	57.435	34.783	0.00	0.00	0.00	1.94
951	2693	0.044092	TTGGAGGTGGGAGCTATGGA	59.956	55.000	0.00	0.00	0.00	3.41
969	2712	1.446792	CTCGCTGGTGATCGTGCTT	60.447	57.895	0.00	0.00	0.00	3.91
1196	2942	2.295909	CTGAAGCCCAACCAAAATCGAA	59.704	45.455	0.00	0.00	0.00	3.71
1225	2971	0.462937	CAGGTCAACGGTCAACCACA	60.463	55.000	12.70	0.00	35.43	4.17
1259	3005	1.856920	ACCCAAAACCCCAAAGAGAGA	59.143	47.619	0.00	0.00	0.00	3.10
1430	3176	3.081061	CAAACTATGTAGCAGGGCACAA	58.919	45.455	0.00	0.00	0.00	3.33
1442	3188	5.755375	CGATTCAGCACTATCCAAACTATGT	59.245	40.000	0.00	0.00	0.00	2.29
1444	3190	6.161855	TCGATTCAGCACTATCCAAACTAT	57.838	37.500	0.00	0.00	0.00	2.12
1485	3231	4.223320	AGCCTTGACACAAATTGTAACG	57.777	40.909	0.00	0.00	39.17	3.18
1549	3295	1.583477	GCAGCAAGCCAGTTTCCTC	59.417	57.895	0.00	0.00	37.23	3.71
1578	3324	3.490526	GCATCAATTCACACAAACACACC	59.509	43.478	0.00	0.00	0.00	4.16
1598	3344	1.278127	AGCGGCCTTCTAGTTTTAGCA	59.722	47.619	0.00	0.00	0.00	3.49
1608	3354	0.035056	ATAAAGTGCAGCGGCCTTCT	60.035	50.000	6.32	0.00	40.13	2.85
1716	4394	8.051901	ACTAGCCATTAAAATGAGTGTTTACC	57.948	34.615	4.25	0.00	38.70	2.85
2003	4731	1.981254	CATTGCACATTTGGACGGTC	58.019	50.000	0.00	0.00	0.00	4.79
2064	4793	5.931294	TGTGTTTGTTACTGTAATCCCAGA	58.069	37.500	3.23	0.00	36.30	3.86
2223	4952	7.339466	GGAACCAGATGTGAAATAAACCTGTAT	59.661	37.037	0.00	0.00	0.00	2.29
2768	5499	3.873910	AGGAATGGAATCACGGTTACTG	58.126	45.455	0.00	0.00	0.00	2.74
2835	5566	5.579511	AGTGCTATCAAAGAAAATGCATTGC	59.420	36.000	13.82	8.55	0.00	3.56
3069	5802	6.230472	TGTATGTGCTTACATCAAGTCTGTT	58.770	36.000	0.00	0.00	36.55	3.16
3284	6018	8.030692	TCATTTATCTTCCAAATTCTTGCAGTG	58.969	33.333	0.00	0.00	0.00	3.66
3408	6142	3.676646	CCTGCATAGAAAAGCAAAAGCAC	59.323	43.478	0.00	0.00	40.73	4.40
3525	6259	5.046448	TGGGCAGATGCATACATTTCTTTTT	60.046	36.000	0.00	0.00	44.36	1.94
3530	6264	2.954318	ACTGGGCAGATGCATACATTTC	59.046	45.455	0.00	0.00	44.36	2.17
3691	6425	7.775053	TTTATCCACTTACAAAGCCAGAAAT	57.225	32.000	0.00	0.00	0.00	2.17
3801	6536	6.989659	ACTCGACAAGACAAAGTAATAGGAA	58.010	36.000	0.00	0.00	0.00	3.36
3856	6682	7.071950	ACACACTGGGCTTAACCTATATGATAA	59.928	37.037	0.00	0.00	39.10	1.75
3874	6700	1.904865	AGGGCATGCAACACACTGG	60.905	57.895	21.36	0.00	0.00	4.00
3925	6751	8.846943	ATGCTGTCATTATTTATGTATTCGGA	57.153	30.769	0.00	0.00	35.64	4.55
3927	6753	9.750882	CTGATGCTGTCATTATTTATGTATTCG	57.249	33.333	0.00	0.00	35.97	3.34
3981	6807	4.448395	TGGTAACCGATACAACGAAACAAG	59.552	41.667	0.00	0.00	36.14	3.16
3989	6815	6.370718	AGTCAAAAGATGGTAACCGATACAAC	59.629	38.462	0.00	0.00	36.14	3.32
4067	6893	4.057432	CCACAACACAAAAATCACCATCC	58.943	43.478	0.00	0.00	0.00	3.51
4271	7097	6.956435	ACTCTGGAATATCAGTAGGCATGATA	59.044	38.462	0.00	8.80	42.29	2.15
4371	7197	3.128242	CCAGACAGCAATTTGGCTTAGAG	59.872	47.826	0.00	0.00	42.71	2.43
4607	7433	3.445805	TCACCAGGAGTTTTGGTTTTCAC	59.554	43.478	0.00	0.00	46.57	3.18
4748	7576	1.153745	CCAGATAGATAGGCGCGCC	60.154	63.158	42.34	42.34	0.00	6.53
4846	7674	1.212688	TGGCGATCTTGAATGTCCCAT	59.787	47.619	0.00	0.00	0.00	4.00
4876	7704	3.132289	AGAAAACTTGTGTCGAGGAGTCA	59.868	43.478	0.00	0.00	0.00	3.41
4905	7733	3.009584	AGGGATGAAAAGACTCCAAGTCC	59.990	47.826	3.54	0.00	46.18	3.85
4963	7792	2.949644	AGAACTGCAACAAACTGGGTAC	59.050	45.455	0.00	0.00	0.00	3.34
4983	7812	9.155975	CATAAGGATCAGATTAAACGGGAATAG	57.844	37.037	0.00	0.00	0.00	1.73
4988	7817	5.621193	ACCATAAGGATCAGATTAAACGGG	58.379	41.667	0.00	0.00	38.69	5.28
4990	7819	6.986817	AGTGACCATAAGGATCAGATTAAACG	59.013	38.462	0.00	0.00	38.69	3.60
4991	7820	8.616076	CAAGTGACCATAAGGATCAGATTAAAC	58.384	37.037	0.00	0.00	38.69	2.01
4994	7823	6.386927	ACCAAGTGACCATAAGGATCAGATTA	59.613	38.462	0.00	0.00	38.69	1.75
4995	7824	5.192522	ACCAAGTGACCATAAGGATCAGATT	59.807	40.000	0.00	0.00	38.69	2.40
4996	7825	4.723789	ACCAAGTGACCATAAGGATCAGAT	59.276	41.667	0.00	0.00	38.69	2.90
5010	7864	6.255887	GCATAGTACAATACAGACCAAGTGAC	59.744	42.308	0.00	0.00	0.00	3.67
5043	7897	0.672342	ACTAGCATTACGGGTAGGCG	59.328	55.000	0.00	0.00	41.87	5.52
5061	7915	8.957466	ACCAAGCCAGAAGTAATTAAGATAAAC	58.043	33.333	0.00	0.00	0.00	2.01
5202	8061	6.756542	GTTTCTAAAGAAAAACAGCATGTGGT	59.243	34.615	6.72	0.00	46.64	4.16
5228	8087	4.949238	GCTTTAATTGGGGGATTGCAATTT	59.051	37.500	14.33	4.47	0.00	1.82
5229	8088	4.525996	GCTTTAATTGGGGGATTGCAATT	58.474	39.130	14.33	0.00	0.00	2.32
5230	8089	3.117926	GGCTTTAATTGGGGGATTGCAAT	60.118	43.478	12.83	12.83	0.00	3.56
5231	8090	2.238395	GGCTTTAATTGGGGGATTGCAA	59.762	45.455	0.00	0.00	0.00	4.08
5266	8126	1.191535	TCCACCCGACGATTCATCTT	58.808	50.000	0.00	0.00	0.00	2.40
5395	10094	3.692593	AGTATGGGGCATAAACGTTTGTC	59.307	43.478	23.46	9.94	0.00	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.