AutoCloner

Multiple sequence alignment - TraesCS2A01G461900

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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	TraesCS2A01G461900	chr2A	100.000	3446	0	0	1	3446	707738668	707735223	0.000000e+00	6364.0
1	TraesCS2A01G461900	chr2A	90.374	1683	132	16	777	2440	707634229	707632558	0.000000e+00	2183.0
2	TraesCS2A01G461900	chr2A	76.887	424	70	12	102	510	663649660	663650070	7.490000e-52	215.0
3	TraesCS2A01G461900	chr2B	90.602	2490	164	16	1	2454	680755861	680753406	0.000000e+00	3238.0
4	TraesCS2A01G461900	chr2B	88.864	1778	143	18	701	2435	680668497	680666732	0.000000e+00	2135.0
5	TraesCS2A01G461900	chr2D	95.892	1704	47	1	751	2454	568194089	568192409	0.000000e+00	2737.0
6	TraesCS2A01G461900	chr2D	87.957	1777	161	18	701	2435	568130146	568128381	0.000000e+00	2047.0
7	TraesCS2A01G461900	chr2D	93.411	258	17	0	410	667	568197607	568197350	1.940000e-102	383.0
8	TraesCS2A01G461900	chr2D	77.634	541	89	21	1	513	630542533	630541997	2.010000e-77	300.0
9	TraesCS2A01G461900	chr2D	81.897	232	39	3	283	513	95279263	95279034	3.510000e-45	193.0
10	TraesCS2A01G461900	chr2D	98.361	61	1	0	695	755	568197347	568197287	1.310000e-19	108.0
11	TraesCS2A01G461900	chr1D	90.855	1006	79	7	2450	3446	416266023	416265022	0.000000e+00	1336.0
12	TraesCS2A01G461900	chr1D	90.993	977	75	9	2455	3422	212015031	212014059	0.000000e+00	1304.0
13	TraesCS2A01G461900	chr4D	90.818	1002	78	10	2455	3446	488446813	488445816	0.000000e+00	1328.0
14	TraesCS2A01G461900	chr4D	90.010	1001	85	11	2456	3446	459390428	459391423	0.000000e+00	1280.0
15	TraesCS2A01G461900	chr3D	90.719	1002	76	13	2455	3446	295926184	295925190	0.000000e+00	1319.0
16	TraesCS2A01G461900	chr3D	75.089	281	62	6	237	513	5492135	5491859	1.300000e-24	124.0
17	TraesCS2A01G461900	chr5A	90.394	989	83	8	2455	3434	427868920	427867935	0.000000e+00	1290.0
18	TraesCS2A01G461900	chr5A	73.978	538	100	19	1	513	413047819	413048341	7.600000e-42	182.0
19	TraesCS2A01G461900	chr5A	78.909	275	47	7	242	514	601825188	601824923	3.530000e-40	176.0
20	TraesCS2A01G461900	chr7D	90.030	1003	84	12	2455	3446	387340862	387341859	0.000000e+00	1284.0
21	TraesCS2A01G461900	chr7D	97.143	35	1	0	1201	1235	473096006	473095972	3.710000e-05	60.2
22	TraesCS2A01G461900	chr5D	89.930	1003	86	7	2455	3446	448495253	448496251	0.000000e+00	1279.0
23	TraesCS2A01G461900	chr5B	89.920	1002	88	8	2455	3446	521837890	521836892	0.000000e+00	1279.0
24	TraesCS2A01G461900	chr5B	82.182	275	39	6	242	514	591585768	591585502	9.620000e-56	228.0
25	TraesCS2A01G461900	chr6D	77.333	525	81	23	1	503	273087123	273087631	3.390000e-70	276.0
26	TraesCS2A01G461900	chr3B	79.828	233	40	6	283	511	81339764	81339993	2.750000e-36	163.0
27	TraesCS2A01G461900	chr3A	78.970	233	38	9	283	513	25113052	25113275	7.710000e-32	148.0
28	TraesCS2A01G461900	chr7A	92.308	52	4	0	327	378	193610794	193610845	1.330000e-09	75.0
29	TraesCS2A01G461900	chr7B	93.182	44	1	2	1201	1242	497027101	497027058	2.870000e-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	TraesCS2A01G461900	chr2A	707735223	707738668	3445	True	6364	6364	100.000	1	3446	1	chr2A.!!$R2	3445
1	TraesCS2A01G461900	chr2A	707632558	707634229	1671	True	2183	2183	90.374	777	2440	1	chr2A.!!$R1	1663
2	TraesCS2A01G461900	chr2B	680753406	680755861	2455	True	3238	3238	90.602	1	2454	1	chr2B.!!$R2	2453
3	TraesCS2A01G461900	chr2B	680666732	680668497	1765	True	2135	2135	88.864	701	2435	1	chr2B.!!$R1	1734
4	TraesCS2A01G461900	chr2D	568128381	568130146	1765	True	2047	2047	87.957	701	2435	1	chr2D.!!$R2	1734
5	TraesCS2A01G461900	chr2D	568192409	568197607	5198	True	1076	2737	95.888	410	2454	3	chr2D.!!$R4	2044
6	TraesCS2A01G461900	chr2D	630541997	630542533	536	True	300	300	77.634	1	513	1	chr2D.!!$R3	512
7	TraesCS2A01G461900	chr1D	416265022	416266023	1001	True	1336	1336	90.855	2450	3446	1	chr1D.!!$R2	996
8	TraesCS2A01G461900	chr1D	212014059	212015031	972	True	1304	1304	90.993	2455	3422	1	chr1D.!!$R1	967
9	TraesCS2A01G461900	chr4D	488445816	488446813	997	True	1328	1328	90.818	2455	3446	1	chr4D.!!$R1	991
10	TraesCS2A01G461900	chr4D	459390428	459391423	995	False	1280	1280	90.010	2456	3446	1	chr4D.!!$F1	990
11	TraesCS2A01G461900	chr3D	295925190	295926184	994	True	1319	1319	90.719	2455	3446	1	chr3D.!!$R2	991
12	TraesCS2A01G461900	chr5A	427867935	427868920	985	True	1290	1290	90.394	2455	3434	1	chr5A.!!$R1	979
13	TraesCS2A01G461900	chr7D	387340862	387341859	997	False	1284	1284	90.030	2455	3446	1	chr7D.!!$F1	991
14	TraesCS2A01G461900	chr5D	448495253	448496251	998	False	1279	1279	89.930	2455	3446	1	chr5D.!!$F1	991
15	TraesCS2A01G461900	chr5B	521836892	521837890	998	True	1279	1279	89.920	2455	3446	1	chr5B.!!$R1	991
16	TraesCS2A01G461900	chr6D	273087123	273087631	508	False	276	276	77.333	1	503	1	chr6D.!!$F1	502

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
364	397	0.168788	CACGCCAACGCAAATGAGAT	59.831	50.0	0.00	45.53	2.75	F
390	423	0.331278	TTGGGCCAGAAATGGATCGT	59.669	50.0	6.23	0.00	3.73	F
897	4186	0.603707	CAGACGTGGACAGCATGGTT	60.604	55.0	0.00	43.62	3.67	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1673	4995	0.179097	GAGGTCCAGCGACTTCATCC	60.179	60.000	0.00	43.0	3.51	R
1919	5241	2.415608	GGGATCTCGGACGACAGCA	61.416	63.158	0.00	0.0	4.41	R
2826	6198	0.037697	TTGCGCGGTGAGTATTGTCT	60.038	50.000	8.83	0.0	3.41	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
83	85	1.377333	CCCTTTCTCTTGGCCGACC	60.377	63.158	0.00	0.00	0.00	4.79
87	89	3.589654	TTCTCTTGGCCGACCGCAG	62.590	63.158	0.00	0.00	40.31	5.18
186	191	0.250513	GAGGCGATGAAGGTGAGGTT	59.749	55.000	0.00	0.00	0.00	3.50
188	193	1.026718	GGCGATGAAGGTGAGGTTGG	61.027	60.000	0.00	0.00	0.00	3.77
296	329	2.978010	GGTTGTGCCACCGACTGG	60.978	66.667	0.00	0.00	44.08	4.00
318	351	1.338890	GGTCAGGGAAGGAGTAGGCC	61.339	65.000	0.00	0.00	0.00	5.19
321	354	3.862991	GGGAAGGAGTAGGCCGGC	61.863	72.222	21.18	21.18	0.00	6.13
340	373	4.477604	TCGCGCGCATTCGTTTCG	62.478	61.111	32.61	11.41	38.14	3.46
364	397	0.168788	CACGCCAACGCAAATGAGAT	59.831	50.000	0.00	0.00	45.53	2.75
369	402	2.352617	GCCAACGCAAATGAGATCCAAA	60.353	45.455	0.00	0.00	34.03	3.28
373	406	5.163933	CCAACGCAAATGAGATCCAAATTTG	60.164	40.000	11.40	11.40	41.88	2.32
386	419	2.305343	CCAAATTTGGGCCAGAAATGGA	59.695	45.455	26.87	0.00	44.70	3.41
388	421	4.193865	CAAATTTGGGCCAGAAATGGATC	58.806	43.478	6.23	0.00	0.00	3.36
390	423	0.331278	TTGGGCCAGAAATGGATCGT	59.669	50.000	6.23	0.00	0.00	3.73
392	425	1.160329	GGGCCAGAAATGGATCGTCG	61.160	60.000	4.39	0.00	0.00	5.12
399	432	2.040009	AAATGGATCGTCGGGCGGAT	62.040	55.000	0.71	0.00	41.72	4.18
475	509	3.757184	GTTTTAACCCAAACGAACACGT	58.243	40.909	0.00	0.00	42.17	4.49
481	515	1.367195	CAAACGAACACGTGCGGAC	60.367	57.895	17.22	0.00	40.20	4.79
488	522	2.720590	CGAACACGTGCGGACAAAATAG	60.721	50.000	17.22	0.00	0.00	1.73
514	548	1.079503	GCGTTGGAGTTGCTCTAAGG	58.920	55.000	9.50	9.50	38.95	2.69
521	555	3.646162	TGGAGTTGCTCTAAGGTCTTGAA	59.354	43.478	0.00	0.00	0.00	2.69
544	578	1.056660	ATGGACCGAAGTGAACCAGT	58.943	50.000	0.00	0.00	34.08	4.00
549	583	1.760613	ACCGAAGTGAACCAGTGAGAA	59.239	47.619	0.00	0.00	0.00	2.87
614	648	4.153117	TCGCTGAAAAGAGCAATTTCTCTC	59.847	41.667	8.12	0.02	42.25	3.20
656	690	9.985730	TCTGTTATCAATTTTCTCTGCAATTTT	57.014	25.926	0.00	0.00	0.00	1.82
661	695	8.992835	ATCAATTTTCTCTGCAATTTTACTCC	57.007	30.769	0.00	0.00	0.00	3.85
662	696	8.181904	TCAATTTTCTCTGCAATTTTACTCCT	57.818	30.769	0.00	0.00	0.00	3.69
663	697	8.641541	TCAATTTTCTCTGCAATTTTACTCCTT	58.358	29.630	0.00	0.00	0.00	3.36
664	698	9.264719	CAATTTTCTCTGCAATTTTACTCCTTT	57.735	29.630	0.00	0.00	0.00	3.11
665	699	9.836864	AATTTTCTCTGCAATTTTACTCCTTTT	57.163	25.926	0.00	0.00	0.00	2.27
666	700	9.836864	ATTTTCTCTGCAATTTTACTCCTTTTT	57.163	25.926	0.00	0.00	0.00	1.94
718	752	4.734989	GCTCGCTGCAAAGAGAATCTAGTA	60.735	45.833	18.85	0.00	43.80	1.82
844	4128	2.558554	ATCTGGTCCCTTTCGTCGCG	62.559	60.000	0.00	0.00	0.00	5.87
848	4132	2.049802	TCCCTTTCGTCGCGTGTC	60.050	61.111	5.77	0.00	0.00	3.67
897	4186	0.603707	CAGACGTGGACAGCATGGTT	60.604	55.000	0.00	0.00	43.62	3.67
1013	4305	1.135083	ACTAGAAATGGTGGCTCGTCG	60.135	52.381	0.00	0.00	0.00	5.12
1047	4339	2.125912	CCGGTTCTCGCTGTCTGG	60.126	66.667	0.00	0.00	37.59	3.86
1565	4887	2.374184	CCTGAACACCAACAACCTCAA	58.626	47.619	0.00	0.00	0.00	3.02
1597	4919	1.068083	TCTTGCATCGGCGATCTCC	59.932	57.895	21.25	11.75	45.35	3.71
1704	5026	2.617274	GGACCTCAGCGCCAACAAC	61.617	63.158	2.29	0.00	0.00	3.32
1912	5234	1.448013	GAGGAGTTGCGCCTGTACC	60.448	63.158	4.18	1.96	32.83	3.34
1919	5241	2.663852	GCGCCTGTACCACAACGT	60.664	61.111	0.00	0.00	32.40	3.99
2460	5830	5.482908	CTGTGGTAGAAGTACATGCTCTTT	58.517	41.667	0.00	0.00	0.00	2.52
2474	5844	9.405587	GTACATGCTCTTTAAATAGTTTGCAAA	57.594	29.630	8.05	8.05	32.88	3.68
2498	5868	9.790389	AAAAGTTACATGTTAAATTTCACACGA	57.210	25.926	2.30	0.00	0.00	4.35
2553	5923	6.899393	ATAACTGAAGTCCATTCTTGCAAA	57.101	33.333	0.00	0.00	38.83	3.68
2559	5929	6.503524	TGAAGTCCATTCTTGCAAAGTAAAC	58.496	36.000	0.00	0.00	46.34	2.01
2626	5996	7.581213	TTGAGTGATGTTCCAACTAAACATT	57.419	32.000	3.28	0.00	45.02	2.71
2695	6065	8.463930	TTCTTTCACAATATCAGGAAAGTTGT	57.536	30.769	16.25	0.00	44.01	3.32
2696	6066	7.874940	TCTTTCACAATATCAGGAAAGTTGTG	58.125	34.615	16.25	9.55	46.63	3.33
2850	6222	2.495366	ATACTCACCGCGCAAACCGA	62.495	55.000	8.75	0.00	40.02	4.69
2869	6241	4.069304	CCGACTTGACCAATTCTTTACCA	58.931	43.478	0.00	0.00	0.00	3.25
2875	6247	6.725834	ACTTGACCAATTCTTTACCATTCCAT	59.274	34.615	0.00	0.00	0.00	3.41
2994	6367	5.977171	TGTTATGAATTCATTACCCGTCG	57.023	39.130	26.45	0.00	35.65	5.12
3049	6422	9.507329	AACGTTGCCATTTAGATATATCAGAAT	57.493	29.630	15.08	10.68	0.00	2.40
3093	6466	2.162408	CGAGTGCTTCTTTGAAATCCCC	59.838	50.000	0.00	0.00	0.00	4.81
3116	6490	7.066887	CCCCTGCAAAACTTTTTAATTTCAGTT	59.933	33.333	0.00	0.00	0.00	3.16
3124	6498	8.962884	AACTTTTTAATTTCAGTTCATGCCTT	57.037	26.923	0.00	0.00	0.00	4.35
3156	6531	5.400066	TCCTCTGACGATTGTGATGTTTA	57.600	39.130	0.00	0.00	0.00	2.01
3202	6577	1.795768	GTGCCTCTTTGTCGATGACA	58.204	50.000	0.00	0.00	41.09	3.58
3211	6586	8.029522	GCCTCTTTGTCGATGACATATAAGATA	58.970	37.037	11.05	0.00	42.40	1.98
3253	6628	8.150945	GCATAGGGAAGATAAATCTACAAGTGA	58.849	37.037	0.00	0.00	35.76	3.41
3333	6709	3.141398	ACTGCACGATGAGATGTTGTTT	58.859	40.909	0.00	0.00	0.00	2.83
3364	6748	6.317642	AGCTATCAAATAATGTTGCCAACGTA	59.682	34.615	2.10	0.00	0.00	3.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
26	27	3.537206	AAAGCTCAGAACCGCGGCT	62.537	57.895	28.58	15.08	34.52	5.52
32	33	1.869690	GGACGCAAAGCTCAGAACC	59.130	57.895	0.00	0.00	0.00	3.62
34	35	2.317609	GCGGACGCAAAGCTCAGAA	61.318	57.895	12.31	0.00	41.49	3.02
36	37	4.139420	CGCGGACGCAAAGCTCAG	62.139	66.667	17.35	0.00	42.06	3.35
58	60	1.267121	CCAAGAGAAAGGGTCGGAGA	58.733	55.000	0.00	0.00	0.00	3.71
93	95	1.956170	CAGTTGACGCCGAAGCAGT	60.956	57.895	0.00	0.00	39.83	4.40
99	101	0.944311	GAAGAAGCAGTTGACGCCGA	60.944	55.000	0.00	0.00	0.00	5.54
166	171	0.616111	ACCTCACCTTCATCGCCTCT	60.616	55.000	0.00	0.00	0.00	3.69
174	179	1.352083	CTCCTCCAACCTCACCTTCA	58.648	55.000	0.00	0.00	0.00	3.02
211	225	2.827642	GACGTCCCGACCCTCGAT	60.828	66.667	3.51	0.00	43.74	3.59
214	228	2.783288	GGATGACGTCCCGACCCTC	61.783	68.421	14.12	0.00	41.50	4.30
226	240	2.969238	CCGCTCGCCATGGATGAC	60.969	66.667	18.40	6.45	0.00	3.06
257	287	2.171003	CCACCATTTCCCCACTTTCTC	58.829	52.381	0.00	0.00	0.00	2.87
258	288	1.503347	ACCACCATTTCCCCACTTTCT	59.497	47.619	0.00	0.00	0.00	2.52
260	290	1.715785	CACCACCATTTCCCCACTTT	58.284	50.000	0.00	0.00	0.00	2.66
263	293	0.471022	AACCACCACCATTTCCCCAC	60.471	55.000	0.00	0.00	0.00	4.61
264	294	0.470833	CAACCACCACCATTTCCCCA	60.471	55.000	0.00	0.00	0.00	4.96
267	300	0.033366	GCACAACCACCACCATTTCC	59.967	55.000	0.00	0.00	0.00	3.13
296	329	1.677637	CTACTCCTTCCCTGACCCGC	61.678	65.000	0.00	0.00	0.00	6.13
300	333	1.677637	CGGCCTACTCCTTCCCTGAC	61.678	65.000	0.00	0.00	0.00	3.51
301	334	1.381327	CGGCCTACTCCTTCCCTGA	60.381	63.158	0.00	0.00	0.00	3.86
340	373	2.400896	ATTTGCGTTGGCGTGGACAC	62.401	55.000	0.00	0.00	44.10	3.67
364	397	2.305343	CCATTTCTGGCCCAAATTTGGA	59.695	45.455	34.20	16.49	42.67	3.53
369	402	2.034124	CGATCCATTTCTGGCCCAAAT	58.966	47.619	0.00	1.57	42.80	2.32
373	406	1.160329	CGACGATCCATTTCTGGCCC	61.160	60.000	0.00	0.00	42.80	5.80
378	411	4.857251	GCCCGACGATCCATTTCT	57.143	55.556	0.00	0.00	0.00	2.52
405	438	0.454957	ACAAACGTACGCGCGTCTAT	60.455	50.000	41.35	22.69	45.00	1.98
406	439	1.082169	ACAAACGTACGCGCGTCTA	60.082	52.632	41.35	21.73	45.00	2.59
407	440	2.353839	ACAAACGTACGCGCGTCT	60.354	55.556	41.35	20.41	45.00	4.18
441	475	5.731591	TGGGTTAAAACGGACACAAAAATT	58.268	33.333	0.00	0.00	0.00	1.82
475	509	1.022451	GCCGACCTATTTTGTCCGCA	61.022	55.000	0.00	0.00	37.08	5.69
481	515	0.520412	CAACGCGCCGACCTATTTTG	60.520	55.000	5.73	0.00	0.00	2.44
514	548	4.330074	CACTTCGGTCCATGTATTCAAGAC	59.670	45.833	0.00	0.00	33.19	3.01
521	555	2.569853	TGGTTCACTTCGGTCCATGTAT	59.430	45.455	0.00	0.00	0.00	2.29
544	578	2.370849	GGTGGTCCCTGTACTTTTCTCA	59.629	50.000	0.00	0.00	0.00	3.27
549	583	1.420138	CACTGGTGGTCCCTGTACTTT	59.580	52.381	0.00	0.00	43.00	2.66
614	648	0.105593	CAGATGATGGTCCACGGAGG	59.894	60.000	0.00	0.00	39.47	4.30
670	704	8.523658	GCATTAAAAAGGAGTAAAACAGATCCT	58.476	33.333	0.00	0.00	44.12	3.24
671	705	8.523658	AGCATTAAAAAGGAGTAAAACAGATCC	58.476	33.333	0.00	0.00	0.00	3.36
672	706	9.561270	GAGCATTAAAAAGGAGTAAAACAGATC	57.439	33.333	0.00	0.00	0.00	2.75
673	707	8.237267	CGAGCATTAAAAAGGAGTAAAACAGAT	58.763	33.333	0.00	0.00	0.00	2.90
674	708	7.581476	CGAGCATTAAAAAGGAGTAAAACAGA	58.419	34.615	0.00	0.00	0.00	3.41
675	709	6.305638	GCGAGCATTAAAAAGGAGTAAAACAG	59.694	38.462	0.00	0.00	0.00	3.16
676	710	6.016610	AGCGAGCATTAAAAAGGAGTAAAACA	60.017	34.615	0.00	0.00	0.00	2.83
677	711	6.305638	CAGCGAGCATTAAAAAGGAGTAAAAC	59.694	38.462	0.00	0.00	0.00	2.43
678	712	6.378582	CAGCGAGCATTAAAAAGGAGTAAAA	58.621	36.000	0.00	0.00	0.00	1.52
679	713	5.619086	GCAGCGAGCATTAAAAAGGAGTAAA	60.619	40.000	0.00	0.00	44.79	2.01
947	4239	9.539825	GACTTCAATCTCATGTGAATACTATGT	57.460	33.333	0.90	0.00	33.45	2.29
948	4240	9.761504	AGACTTCAATCTCATGTGAATACTATG	57.238	33.333	0.90	0.00	33.45	2.23
949	4241	9.761504	CAGACTTCAATCTCATGTGAATACTAT	57.238	33.333	0.90	0.00	33.45	2.12
1032	4324	1.739562	CAGCCAGACAGCGAGAACC	60.740	63.158	0.00	0.00	38.01	3.62
1549	4871	1.099689	CCGTTGAGGTTGTTGGTGTT	58.900	50.000	0.00	0.00	34.51	3.32
1565	4887	1.674322	CAAGACGGGATTTGGCCGT	60.674	57.895	0.00	0.00	42.98	5.68
1597	4919	3.557595	GCCTCGAATATCTGGAGTTTGTG	59.442	47.826	0.00	0.00	0.00	3.33
1653	4975	2.161831	CGTGAGCTTGGCGAATGAA	58.838	52.632	0.00	0.00	0.00	2.57
1673	4995	0.179097	GAGGTCCAGCGACTTCATCC	60.179	60.000	0.00	0.00	43.00	3.51
1704	5026	3.917760	GGGATCGAGCCGGACAGG	61.918	72.222	14.60	0.00	44.97	4.00
1912	5234	2.927618	CGGACGACAGCACGTTGTG	61.928	63.158	0.00	0.00	46.52	3.33
1919	5241	2.415608	GGGATCTCGGACGACAGCA	61.416	63.158	0.00	0.00	0.00	4.41
1985	5307	4.379243	AGCCGGTCAGCTGGTTCG	62.379	66.667	15.13	14.57	42.95	3.95
2474	5844	9.228636	GTTCGTGTGAAATTTAACATGTAACTT	57.771	29.630	22.14	0.00	35.46	2.66
2590	5960	9.072375	TGGAACATCACTCAATTTGTTACATTA	57.928	29.630	0.18	0.00	37.85	1.90
2591	5961	7.950512	TGGAACATCACTCAATTTGTTACATT	58.049	30.769	0.18	0.00	37.85	2.71
2602	5972	7.581213	AATGTTTAGTTGGAACATCACTCAA	57.419	32.000	3.28	0.00	44.55	3.02
2695	6065	3.410631	TCGTGGGAATGAAGCTAAACA	57.589	42.857	0.00	0.00	0.00	2.83
2696	6066	3.689649	ACATCGTGGGAATGAAGCTAAAC	59.310	43.478	0.00	0.00	0.00	2.01
2757	6127	6.128486	ACATATATTGTTTGTGCAGGATGGA	58.872	36.000	0.00	0.00	33.74	3.41
2826	6198	0.037697	TTGCGCGGTGAGTATTGTCT	60.038	50.000	8.83	0.00	0.00	3.41
2850	6222	6.074648	TGGAATGGTAAAGAATTGGTCAAGT	58.925	36.000	0.00	0.00	0.00	3.16
2971	6344	6.285224	TCGACGGGTAATGAATTCATAACAT	58.715	36.000	21.00	8.35	35.10	2.71
3049	6422	5.182380	CGAAATAAAGCTACCTGGTTGGAAA	59.818	40.000	3.84	0.00	39.71	3.13
3202	6577	7.631594	GCATCCATCGGCCGATATATCTTATAT	60.632	40.741	38.48	17.82	32.93	0.86
3211	6586	0.543277	ATGCATCCATCGGCCGATAT	59.457	50.000	38.48	26.81	32.93	1.63
3312	6688	2.462456	ACAACATCTCATCGTGCAGT	57.538	45.000	0.00	0.00	0.00	4.40
3313	6689	3.818961	AAACAACATCTCATCGTGCAG	57.181	42.857	0.00	0.00	0.00	4.41
3333	6709	5.241506	GCAACATTATTTGATAGCTGGCCTA	59.758	40.000	3.32	0.00	0.00	3.93

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.