AutoCloner

Multiple sequence alignment - TraesCS6A01G067500

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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	TraesCS6A01G067500	chr6A	100.000	5434	0	0	1	5434	35992180	35986747	0.000000e+00	10035.0
1	TraesCS6A01G067500	chr6A	97.867	4735	77	6	703	5434	36056871	36052158	0.000000e+00	8163.0
2	TraesCS6A01G067500	chr6A	89.271	494	32	13	51	536	36057672	36057192	2.800000e-167	599.0
3	TraesCS6A01G067500	chr6A	90.850	153	3	3	534	686	36056997	36056856	1.540000e-45	195.0
4	TraesCS6A01G067500	chr6A	81.481	162	29	1	4530	4691	30719150	30719310	1.230000e-26	132.0
5	TraesCS6A01G067500	chrUn	95.285	3860	150	15	703	4542	100489351	100493198	0.000000e+00	6091.0
6	TraesCS6A01G067500	chrUn	95.204	3086	110	18	2212	5268	100620877	100623953	0.000000e+00	4844.0
7	TraesCS6A01G067500	chrUn	96.171	2246	66	6	703	2935	323635741	323637979	0.000000e+00	3653.0
8	TraesCS6A01G067500	chrUn	96.171	2246	65	7	703	2935	323667598	323669835	0.000000e+00	3651.0
9	TraesCS6A01G067500	chrUn	95.106	2166	92	8	1223	3377	100637283	100639445	0.000000e+00	3400.0
10	TraesCS6A01G067500	chrUn	94.339	2049	106	9	3388	5433	100660342	100662383	0.000000e+00	3133.0
11	TraesCS6A01G067500	chrUn	96.807	1566	45	5	2937	4498	344891260	344892824	0.000000e+00	2610.0
12	TraesCS6A01G067500	chrUn	95.404	1523	54	3	703	2214	100619247	100620764	0.000000e+00	2410.0
13	TraesCS6A01G067500	chrUn	95.328	1113	35	4	703	1804	329023809	329024915	0.000000e+00	1751.0
14	TraesCS6A01G067500	chrUn	95.328	1113	35	4	703	1804	329103172	329104278	0.000000e+00	1751.0
15	TraesCS6A01G067500	chrUn	95.328	1113	35	4	703	1804	361925823	361926929	0.000000e+00	1751.0
16	TraesCS6A01G067500	chrUn	93.103	725	35	3	4544	5268	344892826	344893535	0.000000e+00	1048.0
17	TraesCS6A01G067500	chrUn	85.670	649	53	25	51	686	100618641	100619262	0.000000e+00	647.0
18	TraesCS6A01G067500	chrUn	85.023	641	58	23	51	686	323635149	323635756	7.730000e-173	617.0
19	TraesCS6A01G067500	chrUn	85.023	641	58	23	51	686	323667006	323667613	7.730000e-173	617.0
20	TraesCS6A01G067500	chrUn	85.023	641	58	23	51	686	329023217	329023824	7.730000e-173	617.0
21	TraesCS6A01G067500	chrUn	85.023	641	58	23	51	686	329102580	329103187	7.730000e-173	617.0
22	TraesCS6A01G067500	chrUn	85.023	641	58	23	51	686	361925231	361925838	7.730000e-173	617.0
23	TraesCS6A01G067500	chrUn	88.486	469	31	13	227	686	100488912	100489366	3.700000e-151	545.0
24	TraesCS6A01G067500	chrUn	86.174	528	38	14	52	567	100487845	100488349	6.190000e-149	538.0
25	TraesCS6A01G067500	chrUn	93.233	133	3	1	554	686	100488606	100488732	2.000000e-44	191.0
26	TraesCS6A01G067500	chrUn	92.562	121	5	4	4675	4794	100493174	100493291	2.600000e-38	171.0
27	TraesCS6A01G067500	chrUn	89.516	124	8	2	800	918	100488788	100488911	9.430000e-33	152.0
28	TraesCS6A01G067500	chrUn	94.737	76	2	2	703	778	100488717	100488790	3.440000e-22	117.0
29	TraesCS6A01G067500	chrUn	91.111	45	3	1	2	45	100486272	100486316	5.880000e-05	60.2
30	TraesCS6A01G067500	chrUn	92.500	40	3	0	6	45	329022770	329022809	2.110000e-04	58.4
31	TraesCS6A01G067500	chrUn	92.500	40	3	0	6	45	329102136	329102175	2.110000e-04	58.4
32	TraesCS6A01G067500	chrUn	92.500	40	3	0	6	45	464460769	464460808	2.110000e-04	58.4
33	TraesCS6A01G067500	chr6B	92.794	3983	188	44	822	4735	66945931	66941979	0.000000e+00	5674.0
34	TraesCS6A01G067500	chr6B	94.166	3617	162	26	1132	4736	66863100	66859521	0.000000e+00	5465.0
35	TraesCS6A01G067500	chr6B	93.991	3628	161	20	1132	4736	66920981	66917388	0.000000e+00	5439.0
36	TraesCS6A01G067500	chr6B	88.058	2194	214	26	1605	3781	66786422	66784260	0.000000e+00	2556.0
37	TraesCS6A01G067500	chr6B	91.369	811	61	8	3738	4541	66784256	66783448	0.000000e+00	1101.0
38	TraesCS6A01G067500	chr6B	90.240	707	55	5	4733	5434	66828845	66828148	0.000000e+00	911.0
39	TraesCS6A01G067500	chr6B	90.746	670	53	6	4765	5434	66917289	66916629	0.000000e+00	885.0
40	TraesCS6A01G067500	chr6B	90.141	213	14	4	1	210	66789793	66789585	2.490000e-68	270.0
41	TraesCS6A01G067500	chr6B	91.379	116	10	0	4691	4806	66752892	66752777	5.630000e-35	159.0
42	TraesCS6A01G067500	chr6B	82.099	162	28	1	4530	4691	51094958	51094798	2.640000e-28	137.0
43	TraesCS6A01G067500	chr7A	97.466	1618	36	4	1688	3301	255897065	255895449	0.000000e+00	2756.0
44	TraesCS6A01G067500	chr1B	86.737	377	41	3	5055	5431	563323950	563324317	1.410000e-110	411.0
45	TraesCS6A01G067500	chr1B	84.896	384	50	3	5054	5434	539874706	539875084	1.100000e-101	381.0
46	TraesCS6A01G067500	chr2D	86.126	382	43	10	5054	5430	129356327	129356703	2.360000e-108	403.0

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	TraesCS6A01G067500	chr6A	35986747	35992180	5433	True	10035.000000	10035	100.000000	1	5434	1	chr6A.!!$R1	5433
1	TraesCS6A01G067500	chr6A	36052158	36057672	5514	True	2985.666667	8163	92.662667	51	5434	3	chr6A.!!$R2	5383
2	TraesCS6A01G067500	chrUn	100637283	100639445	2162	False	3400.000000	3400	95.106000	1223	3377	1	chrUn.!!$F1	2154
3	TraesCS6A01G067500	chrUn	100660342	100662383	2041	False	3133.000000	3133	94.339000	3388	5433	1	chrUn.!!$F2	2045
4	TraesCS6A01G067500	chrUn	100618641	100623953	5312	False	2633.666667	4844	92.092667	51	5268	3	chrUn.!!$F5	5217
5	TraesCS6A01G067500	chrUn	323635149	323637979	2830	False	2135.000000	3653	90.597000	51	2935	2	chrUn.!!$F6	2884
6	TraesCS6A01G067500	chrUn	323667006	323669835	2829	False	2134.000000	3651	90.597000	51	2935	2	chrUn.!!$F7	2884
7	TraesCS6A01G067500	chrUn	344891260	344893535	2275	False	1829.000000	2610	94.955000	2937	5268	2	chrUn.!!$F10	2331
8	TraesCS6A01G067500	chrUn	361925231	361926929	1698	False	1184.000000	1751	90.175500	51	1804	2	chrUn.!!$F11	1753
9	TraesCS6A01G067500	chrUn	100486272	100493291	7019	False	983.150000	6091	91.388000	2	4794	8	chrUn.!!$F4	4792
10	TraesCS6A01G067500	chrUn	329022770	329024915	2145	False	808.800000	1751	90.950333	6	1804	3	chrUn.!!$F8	1798
11	TraesCS6A01G067500	chrUn	329102136	329104278	2142	False	808.800000	1751	90.950333	6	1804	3	chrUn.!!$F9	1798
12	TraesCS6A01G067500	chr6B	66941979	66945931	3952	True	5674.000000	5674	92.794000	822	4735	1	chr6B.!!$R5	3913
13	TraesCS6A01G067500	chr6B	66859521	66863100	3579	True	5465.000000	5465	94.166000	1132	4736	1	chr6B.!!$R4	3604
14	TraesCS6A01G067500	chr6B	66916629	66920981	4352	True	3162.000000	5439	92.368500	1132	5434	2	chr6B.!!$R7	4302
15	TraesCS6A01G067500	chr6B	66783448	66789793	6345	True	1309.000000	2556	89.856000	1	4541	3	chr6B.!!$R6	4540
16	TraesCS6A01G067500	chr6B	66828148	66828845	697	True	911.000000	911	90.240000	4733	5434	1	chr6B.!!$R3	701
17	TraesCS6A01G067500	chr7A	255895449	255897065	1616	True	2756.000000	2756	97.466000	1688	3301	1	chr7A.!!$R1	1613

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
75	1656	0.251209	TGTAGGTGTGACGCCTCTCT	60.251	55.000	22.62	0.0	40.81	3.10	F
694	5082	0.470766	ACTTACGTGTGCCCCTCAAA	59.529	50.000	0.00	0.0	0.00	2.69	F
695	5083	1.134037	ACTTACGTGTGCCCCTCAAAA	60.134	47.619	0.00	0.0	0.00	2.44	F
696	5084	1.950909	CTTACGTGTGCCCCTCAAAAA	59.049	47.619	0.00	0.0	0.00	1.94	F
852	5268	3.999663	CACTCTCCAGACAAAGAATGGAC	59.000	47.826	0.00	0.0	38.19	4.02	F
3964	8795	2.191641	GTCATCTCCTGCCCTGCC	59.808	66.667	0.00	0.0	0.00	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1967	6584	1.029681	AAGGAAAGGGTTGCGTCAAC	58.970	50.000	12.44	12.44	42.89	3.18	R
2810	7576	2.692557	CACCCACCATCTGTGTGAAAAA	59.307	45.455	0.00	0.00	43.85	1.94	R
3886	8717	4.710865	TGCCCAAGCATGAATAAAAGATGA	59.289	37.500	0.00	0.00	46.52	2.92	R
3964	8795	3.008835	TCCCAGAGCCTCATGATTTTG	57.991	47.619	0.00	0.00	0.00	2.44	R
3967	8798	2.106166	GTCATCCCAGAGCCTCATGATT	59.894	50.000	0.00	0.00	0.00	2.57	R
5169	10084	0.176910	TCGTGTGGATGTGTGTGTGT	59.823	50.000	0.00	0.00	0.00	3.72	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
75	1656	0.251209	TGTAGGTGTGACGCCTCTCT	60.251	55.000	22.62	0.00	40.81	3.10
76	1657	1.003928	TGTAGGTGTGACGCCTCTCTA	59.996	52.381	22.62	0.25	40.81	2.43
77	1658	2.299521	GTAGGTGTGACGCCTCTCTAT	58.700	52.381	22.62	0.00	40.81	1.98
78	1659	2.730934	AGGTGTGACGCCTCTCTATA	57.269	50.000	12.77	0.00	40.81	1.31
109	1693	6.214819	AGTCCTTTCTTATAGGTTGCTGGTAA	59.785	38.462	0.00	0.00	34.29	2.85
132	1716	1.153208	GCAGTGCTCAGGGATCCAG	60.153	63.158	15.23	5.52	0.00	3.86
137	1721	2.090831	AGTGCTCAGGGATCCAGTAGAT	60.091	50.000	15.23	0.00	38.17	1.98
158	1749	3.668447	TCAAGACTCAAGAGCATTGACC	58.332	45.455	11.37	0.00	33.79	4.02
191	1784	2.570415	TGAGTCTCCGTGAAGAGTCT	57.430	50.000	12.84	0.00	43.36	3.24
210	1803	4.415846	AGTCTACCCTTTCTGTCCCTTTTT	59.584	41.667	0.00	0.00	0.00	1.94
211	1804	4.760715	GTCTACCCTTTCTGTCCCTTTTTC	59.239	45.833	0.00	0.00	0.00	2.29
213	1806	3.989056	ACCCTTTCTGTCCCTTTTTCAA	58.011	40.909	0.00	0.00	0.00	2.69
214	1807	4.358214	ACCCTTTCTGTCCCTTTTTCAAA	58.642	39.130	0.00	0.00	0.00	2.69
215	1808	4.780554	ACCCTTTCTGTCCCTTTTTCAAAA	59.219	37.500	0.00	0.00	0.00	2.44
216	1809	5.249622	ACCCTTTCTGTCCCTTTTTCAAAAA	59.750	36.000	0.00	0.00	0.00	1.94
246	1937	6.423905	CCGTATATCTTCCGTTCAACATCAAT	59.576	38.462	0.00	0.00	0.00	2.57
247	1938	7.359264	CCGTATATCTTCCGTTCAACATCAATC	60.359	40.741	0.00	0.00	0.00	2.67
254	1945	4.992319	TCCGTTCAACATCAATCTTACGTT	59.008	37.500	0.00	0.00	0.00	3.99
391	4566	2.106857	ACACGTTACATTTTGGGAGGGA	59.893	45.455	0.00	0.00	0.00	4.20
395	4570	4.189231	CGTTACATTTTGGGAGGGAGTAG	58.811	47.826	0.00	0.00	0.00	2.57
489	4676	4.162592	CTGCCAGCAGTGGTTCAA	57.837	55.556	11.55	0.00	46.96	2.69
590	4970	2.124151	CCTTTCGATGGCCCCCTG	60.124	66.667	0.00	0.00	0.00	4.45
660	5048	4.202182	TGGCAGGACGTACAAATATAGGTC	60.202	45.833	0.00	0.00	38.60	3.85
664	5052	7.121759	GGCAGGACGTACAAATATAGGTCTATA	59.878	40.741	0.00	0.78	39.08	1.31
665	5053	8.684520	GCAGGACGTACAAATATAGGTCTATAT	58.315	37.037	0.00	5.03	39.66	0.86
688	5076	5.702349	ATATAGAGTACTTACGTGTGCCC	57.298	43.478	0.00	0.00	0.00	5.36
689	5077	0.893447	AGAGTACTTACGTGTGCCCC	59.107	55.000	0.00	0.00	0.00	5.80
690	5078	0.893447	GAGTACTTACGTGTGCCCCT	59.107	55.000	0.00	0.00	0.00	4.79
691	5079	0.893447	AGTACTTACGTGTGCCCCTC	59.107	55.000	0.00	0.00	0.00	4.30
692	5080	0.604578	GTACTTACGTGTGCCCCTCA	59.395	55.000	0.00	0.00	0.00	3.86
693	5081	1.001181	GTACTTACGTGTGCCCCTCAA	59.999	52.381	0.00	0.00	0.00	3.02
694	5082	0.470766	ACTTACGTGTGCCCCTCAAA	59.529	50.000	0.00	0.00	0.00	2.69
695	5083	1.134037	ACTTACGTGTGCCCCTCAAAA	60.134	47.619	0.00	0.00	0.00	2.44
696	5084	1.950909	CTTACGTGTGCCCCTCAAAAA	59.049	47.619	0.00	0.00	0.00	1.94
852	5268	3.999663	CACTCTCCAGACAAAGAATGGAC	59.000	47.826	0.00	0.00	38.19	4.02
913	5329	4.399112	CGCATGCATGACGTTTAGTAAAA	58.601	39.130	30.64	0.00	0.00	1.52
923	5339	7.317842	TGACGTTTAGTAAAATTTCCACACA	57.682	32.000	0.00	0.00	0.00	3.72
1967	6584	8.463930	GGATCTCCTCCATAGTAATGATCTAG	57.536	42.308	0.00	0.00	44.26	2.43
3886	8717	7.451566	ACTTCAGGAGCACCACTTTTATTTATT	59.548	33.333	2.07	0.00	38.94	1.40
3964	8795	2.191641	GTCATCTCCTGCCCTGCC	59.808	66.667	0.00	0.00	0.00	4.85
3967	8798	1.000521	CATCTCCTGCCCTGCCAAA	60.001	57.895	0.00	0.00	0.00	3.28
4042	8874	9.678941	CGAGAAGTTTATGCACAAGACTATATA	57.321	33.333	0.00	0.00	0.00	0.86
4181	9015	1.210478	GATGAGTTGCAGGAAGGGCTA	59.790	52.381	0.00	0.00	0.00	3.93
4288	9122	4.903149	TGGGAGGATCTAAACAGGGAATA	58.097	43.478	0.00	0.00	33.73	1.75
4295	9129	6.327887	AGGATCTAAACAGGGAATACTTCTCC	59.672	42.308	0.00	0.00	0.00	3.71
4472	9306	9.956720	ACCGTTGTGTATGTAAGTCTTATATAC	57.043	33.333	23.01	23.01	39.34	1.47
4493	9330	2.668279	CGTAGCACACCAATTTTGAGGC	60.668	50.000	0.00	0.00	0.00	4.70
4672	9509	6.690957	GTCTGTGAATCGTTCAAAATTTGTCA	59.309	34.615	5.56	0.00	42.15	3.58
4676	9513	8.131731	TGTGAATCGTTCAAAATTTGTCATGTA	58.868	29.630	5.56	0.00	42.15	2.29
4795	9703	5.580661	GTGTTGCAATGTATGTGATGCATA	58.419	37.500	0.59	0.00	46.97	3.14
4908	9816	3.821841	CGTTACATCCTTCAAGCAAACC	58.178	45.455	0.00	0.00	0.00	3.27
5103	10017	6.830873	AATTCATTGAACAGGAGAAGAAGG	57.169	37.500	0.15	0.00	0.00	3.46
5167	10082	1.199624	CAGCGTCTTTTGGCAAACAC	58.800	50.000	13.10	11.25	0.00	3.32
5168	10083	0.814457	AGCGTCTTTTGGCAAACACA	59.186	45.000	13.10	0.00	0.00	3.72
5169	10084	1.203523	AGCGTCTTTTGGCAAACACAA	59.796	42.857	13.10	0.00	0.00	3.33
5296	10215	5.811100	GGTCTAAACTAGATCAAGGGTTTCG	59.189	44.000	0.00	0.00	35.96	3.46
5299	10218	3.983044	ACTAGATCAAGGGTTTCGCTT	57.017	42.857	0.00	0.00	37.10	4.68
5335	10254	0.394899	GGCAAGTTGGGAGCAGCTAT	60.395	55.000	4.75	0.00	0.00	2.97

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
85	1666	4.844884	ACCAGCAACCTATAAGAAAGGAC	58.155	43.478	0.00	0.00	37.57	3.85
86	1667	6.630203	TTACCAGCAACCTATAAGAAAGGA	57.370	37.500	0.00	0.00	37.57	3.36
87	1668	7.054124	TCATTACCAGCAACCTATAAGAAAGG	58.946	38.462	0.00	0.00	40.20	3.11
88	1669	8.506168	TTCATTACCAGCAACCTATAAGAAAG	57.494	34.615	0.00	0.00	0.00	2.62
89	1670	7.067008	GCTTCATTACCAGCAACCTATAAGAAA	59.933	37.037	0.00	0.00	35.95	2.52
93	1677	5.750524	TGCTTCATTACCAGCAACCTATAA	58.249	37.500	0.00	0.00	43.14	0.98
95	1679	4.202441	CTGCTTCATTACCAGCAACCTAT	58.798	43.478	0.00	0.00	45.36	2.57
109	1693	0.917533	ATCCCTGAGCACTGCTTCAT	59.082	50.000	4.67	0.00	39.88	2.57
132	1716	6.255453	GTCAATGCTCTTGAGTCTTGATCTAC	59.745	42.308	14.90	0.00	0.00	2.59
137	1721	3.557898	GGGTCAATGCTCTTGAGTCTTGA	60.558	47.826	10.63	10.63	0.00	3.02
138	1722	2.746362	GGGTCAATGCTCTTGAGTCTTG	59.254	50.000	2.99	4.32	0.00	3.02
139	1723	2.373169	TGGGTCAATGCTCTTGAGTCTT	59.627	45.455	2.99	0.00	0.00	3.01
140	1724	1.980765	TGGGTCAATGCTCTTGAGTCT	59.019	47.619	2.99	0.00	0.00	3.24
141	1725	2.479566	TGGGTCAATGCTCTTGAGTC	57.520	50.000	2.99	0.00	0.00	3.36
142	1726	3.087031	CAATGGGTCAATGCTCTTGAGT	58.913	45.455	2.99	0.00	0.00	3.41
143	1727	2.159282	GCAATGGGTCAATGCTCTTGAG	60.159	50.000	2.99	0.00	37.31	3.02
158	1749	1.442526	GACTCATGGCTCCGCAATGG	61.443	60.000	3.58	0.00	40.15	3.16
191	1784	4.799715	TGAAAAAGGGACAGAAAGGGTA	57.200	40.909	0.00	0.00	0.00	3.69
214	1807	7.852971	TGAACGGAAGATATACGGAATTTTT	57.147	32.000	0.00	0.00	40.78	1.94
215	1808	7.334921	TGTTGAACGGAAGATATACGGAATTTT	59.665	33.333	0.00	0.00	40.78	1.82
216	1809	6.819649	TGTTGAACGGAAGATATACGGAATTT	59.180	34.615	0.00	0.00	40.78	1.82
217	1810	6.342906	TGTTGAACGGAAGATATACGGAATT	58.657	36.000	0.00	0.00	40.78	2.17
218	1811	5.909477	TGTTGAACGGAAGATATACGGAAT	58.091	37.500	0.00	0.00	40.78	3.01
225	1916	9.046296	GTAAGATTGATGTTGAACGGAAGATAT	57.954	33.333	0.00	0.00	0.00	1.63
246	1937	1.864711	GCACTGTTCAGCAACGTAAGA	59.135	47.619	0.00	0.00	43.62	2.10
254	1945	2.908688	TACAAGAGCACTGTTCAGCA	57.091	45.000	0.00	0.00	0.00	4.41
362	4529	4.667061	CCAAAATGTAACGTGTGTACAACG	59.333	41.667	21.14	21.14	0.00	4.10
363	4530	4.971220	CCCAAAATGTAACGTGTGTACAAC	59.029	41.667	0.00	0.00	0.00	3.32
364	4531	4.880120	TCCCAAAATGTAACGTGTGTACAA	59.120	37.500	0.00	0.00	0.00	2.41
366	4533	4.083696	CCTCCCAAAATGTAACGTGTGTAC	60.084	45.833	0.00	0.00	0.00	2.90
367	4534	4.066490	CCTCCCAAAATGTAACGTGTGTA	58.934	43.478	0.00	0.00	0.00	2.90
430	4610	5.430886	TCTGAAACATGCATGCATAGTACT	58.569	37.500	31.73	20.13	34.91	2.73
431	4611	5.739752	TCTGAAACATGCATGCATAGTAC	57.260	39.130	31.73	23.93	34.91	2.73
434	4614	4.546570	CCATCTGAAACATGCATGCATAG	58.453	43.478	31.73	23.91	34.91	2.23
590	4970	2.291465	GTCAAAAGGGTCCGTTTGGTAC	59.709	50.000	21.77	13.38	42.62	3.34
677	5065	2.054232	TTTTTGAGGGGCACACGTAA	57.946	45.000	0.00	0.00	0.00	3.18
678	5066	3.802862	TTTTTGAGGGGCACACGTA	57.197	47.368	0.00	0.00	0.00	3.57
679	5067	4.668151	TTTTTGAGGGGCACACGT	57.332	50.000	0.00	0.00	0.00	4.49
781	5183	2.007608	CGATGTCTAGTCTGGTCGTCA	58.992	52.381	4.16	0.00	0.00	4.35
852	5268	0.942962	CGTCTAGGGCTAGTGTACCG	59.057	60.000	0.00	0.00	34.84	4.02
913	5329	1.073025	TGGCGAGCTGTGTGGAAAT	59.927	52.632	0.00	0.00	0.00	2.17
1967	6584	1.029681	AAGGAAAGGGTTGCGTCAAC	58.970	50.000	12.44	12.44	42.89	3.18
2810	7576	2.692557	CACCCACCATCTGTGTGAAAAA	59.307	45.455	0.00	0.00	43.85	1.94
3886	8717	4.710865	TGCCCAAGCATGAATAAAAGATGA	59.289	37.500	0.00	0.00	46.52	2.92
3964	8795	3.008835	TCCCAGAGCCTCATGATTTTG	57.991	47.619	0.00	0.00	0.00	2.44
3967	8798	2.106166	GTCATCCCAGAGCCTCATGATT	59.894	50.000	0.00	0.00	0.00	2.57
4181	9015	5.359194	ACAAATCCTTGTATGATCCGTCT	57.641	39.130	0.00	0.00	44.14	4.18
4288	9122	2.104963	GTGGAGTTTGTCTGGGAGAAGT	59.895	50.000	0.00	0.00	0.00	3.01
4295	9129	2.104111	TGGTAGTGTGGAGTTTGTCTGG	59.896	50.000	0.00	0.00	0.00	3.86
4472	9306	2.668279	GCCTCAAAATTGGTGTGCTACG	60.668	50.000	0.00	0.00	0.00	3.51
4493	9330	0.030638	CCACGTTTCAACAGGGCAAG	59.969	55.000	0.00	0.00	0.00	4.01
4617	9454	6.112927	TGAATACTGCTGGACATGCATATA	57.887	37.500	0.00	0.00	39.86	0.86
4672	9509	3.058846	CGCTAGAGTCGTGCTATGTACAT	60.059	47.826	13.93	13.93	0.00	2.29
4676	9513	1.664873	TCGCTAGAGTCGTGCTATGT	58.335	50.000	0.00	0.00	0.00	2.29
4908	9816	9.722056	GTTCAAACAATTAGCCAATACATCTAG	57.278	33.333	0.00	0.00	0.00	2.43
5103	10017	5.337250	GGTTTCCCTCATAAATTGGACCAAC	60.337	44.000	9.67	0.00	0.00	3.77
5134	10049	4.483476	AGACGCTGTTTGTATGGTTTTC	57.517	40.909	0.00	0.00	0.00	2.29
5167	10082	1.267982	CGTGTGGATGTGTGTGTGTTG	60.268	52.381	0.00	0.00	0.00	3.33
5168	10083	1.013596	CGTGTGGATGTGTGTGTGTT	58.986	50.000	0.00	0.00	0.00	3.32
5169	10084	0.176910	TCGTGTGGATGTGTGTGTGT	59.823	50.000	0.00	0.00	0.00	3.72
5296	10215	2.427506	CTTTCCTACTGTGGTCCAAGC	58.572	52.381	0.00	0.00	0.00	4.01
5299	10218	0.690762	GCCTTTCCTACTGTGGTCCA	59.309	55.000	0.00	0.00	0.00	4.02
5303	10222	2.554032	CAACTTGCCTTTCCTACTGTGG	59.446	50.000	0.00	0.00	0.00	4.17
5351	10270	1.261238	CCTTCTGGCGTCTCTCCCTT	61.261	60.000	0.00	0.00	0.00	3.95

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.