AutoCloner

Multiple sequence alignment - TraesCS6D01G158000

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	TraesCS6D01G158000	chr6D	100.000	2773	0	0	1	2773	134675449	134678221	0.000000e+00	5121.0
1	TraesCS6D01G158000	chr6D	93.765	1267	57	8	977	2224	134241151	134242414	0.000000e+00	1882.0
2	TraesCS6D01G158000	chr6D	85.581	964	92	29	855	1788	134279234	134280180	0.000000e+00	966.0
3	TraesCS6D01G158000	chr6D	86.782	870	89	22	929	1788	134682542	134683395	0.000000e+00	946.0
4	TraesCS6D01G158000	chr6D	93.415	410	25	2	2248	2656	134242410	134242818	8.490000e-170	606.0
5	TraesCS6D01G158000	chr6D	91.429	280	9	5	1	265	28705613	28705334	1.210000e-98	370.0
6	TraesCS6D01G158000	chr6D	95.000	120	6	0	2654	2773	134242849	134242968	3.650000e-44	189.0
7	TraesCS6D01G158000	chr6D	86.525	141	15	3	1810	1947	134683455	134683594	4.780000e-33	152.0
8	TraesCS6D01G158000	chr6D	96.970	33	1	0	2741	2773	468920478	468920446	3.860000e-04	56.5
9	TraesCS6D01G158000	chr6D	100.000	29	0	0	2742	2770	113589288	113589316	1.000000e-03	54.7
10	TraesCS6D01G158000	chr6A	93.178	1290	48	11	852	2131	175560524	175561783	0.000000e+00	1858.0
11	TraesCS6D01G158000	chr6A	86.514	875	74	29	941	1788	175621805	175622662	0.000000e+00	922.0
12	TraesCS6D01G158000	chr6A	93.559	295	18	1	2245	2538	175561832	175562126	3.280000e-119	438.0
13	TraesCS6D01G158000	chr6A	92.562	121	8	1	2534	2654	175570780	175570899	3.670000e-39	172.0
14	TraesCS6D01G158000	chr6A	90.000	120	12	0	2654	2773	175570932	175571051	3.700000e-34	156.0
15	TraesCS6D01G158000	chr6A	96.875	32	1	0	2742	2773	616215978	616215947	1.000000e-03	54.7
16	TraesCS6D01G158000	chr4D	93.757	865	42	6	1	856	480852479	480851618	0.000000e+00	1288.0
17	TraesCS6D01G158000	chr4D	92.334	874	45	8	3	854	71066469	71067342	0.000000e+00	1223.0
18	TraesCS6D01G158000	chr4D	100.000	29	0	0	2742	2770	35486479	35486507	1.000000e-03	54.7
19	TraesCS6D01G158000	chr7D	93.143	875	36	7	1	852	39581950	39581077	0.000000e+00	1262.0
20	TraesCS6D01G158000	chr7D	92.421	884	35	13	1	856	108617283	108616404	0.000000e+00	1232.0
21	TraesCS6D01G158000	chr7D	92.150	879	41	9	1	852	79171691	79170814	0.000000e+00	1216.0
22	TraesCS6D01G158000	chr5D	92.736	881	38	9	1	856	565730337	565731216	0.000000e+00	1249.0
23	TraesCS6D01G158000	chr5D	90.000	890	52	15	1	856	540262645	540261759	0.000000e+00	1116.0
24	TraesCS6D01G158000	chr5D	96.970	33	1	0	2741	2773	104027051	104027019	3.860000e-04	56.5
25	TraesCS6D01G158000	chr5D	96.970	33	1	0	2741	2773	172257072	172257040	3.860000e-04	56.5
26	TraesCS6D01G158000	chr5D	96.875	32	1	0	2739	2770	294954994	294955025	1.000000e-03	54.7
27	TraesCS6D01G158000	chr3B	92.449	874	42	6	1	852	823966063	823966934	0.000000e+00	1227.0
28	TraesCS6D01G158000	chr2D	92.554	873	38	10	1	852	643887463	643888329	0.000000e+00	1227.0
29	TraesCS6D01G158000	chr2D	92.423	871	38	10	1	850	379683738	379682875	0.000000e+00	1218.0
30	TraesCS6D01G158000	chr2D	92.114	875	44	8	1	852	628659246	628658374	0.000000e+00	1210.0
31	TraesCS6D01G158000	chr2D	91.923	879	47	9	1	856	450449440	450448563	0.000000e+00	1208.0
32	TraesCS6D01G158000	chr2D	100.000	30	0	0	2741	2770	608653653	608653682	3.860000e-04	56.5
33	TraesCS6D01G158000	chr6B	84.183	1157	105	41	855	1949	233013656	233014796	0.000000e+00	1051.0
34	TraesCS6D01G158000	chr6B	88.425	838	71	15	977	1802	233010406	233011229	0.000000e+00	987.0
35	TraesCS6D01G158000	chr6B	78.129	823	118	40	855	1650	233023505	233024292	1.500000e-127	466.0
36	TraesCS6D01G158000	chrUn	88.050	887	74	11	1	856	31032649	31031764	0.000000e+00	1022.0
37	TraesCS6D01G158000	chrUn	100.000	29	0	0	2742	2770	64336861	64336889	1.000000e-03	54.7
38	TraesCS6D01G158000	chrUn	96.875	32	1	0	2739	2770	314591751	314591782	1.000000e-03	54.7
39	TraesCS6D01G158000	chr1A	87.330	884	78	15	1	852	534325929	534325048	0.000000e+00	981.0
40	TraesCS6D01G158000	chr1A	85.893	879	78	18	1	850	580555997	580556858	0.000000e+00	894.0
41	TraesCS6D01G158000	chr3D	97.143	35	1	0	2739	2773	539243185	539243151	2.980000e-05	60.2
42	TraesCS6D01G158000	chr3A	100.000	31	0	0	2740	2770	521573499	521573469	1.070000e-04	58.4
43	TraesCS6D01G158000	chr3A	96.970	33	1	0	2741	2773	34831733	34831701	3.860000e-04	56.5

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	TraesCS6D01G158000	chr6D	134675449	134678221	2772	False	5121.000000	5121	100.0000	1	2773	1	chr6D.!!$F3	2772
1	TraesCS6D01G158000	chr6D	134279234	134280180	946	False	966.000000	966	85.5810	855	1788	1	chr6D.!!$F2	933
2	TraesCS6D01G158000	chr6D	134241151	134242968	1817	False	892.333333	1882	94.0600	977	2773	3	chr6D.!!$F4	1796
3	TraesCS6D01G158000	chr6D	134682542	134683594	1052	False	549.000000	946	86.6535	929	1947	2	chr6D.!!$F5	1018
4	TraesCS6D01G158000	chr6A	175560524	175562126	1602	False	1148.000000	1858	93.3685	852	2538	2	chr6A.!!$F2	1686
5	TraesCS6D01G158000	chr6A	175621805	175622662	857	False	922.000000	922	86.5140	941	1788	1	chr6A.!!$F1	847
6	TraesCS6D01G158000	chr4D	480851618	480852479	861	True	1288.000000	1288	93.7570	1	856	1	chr4D.!!$R1	855
7	TraesCS6D01G158000	chr4D	71066469	71067342	873	False	1223.000000	1223	92.3340	3	854	1	chr4D.!!$F2	851
8	TraesCS6D01G158000	chr7D	39581077	39581950	873	True	1262.000000	1262	93.1430	1	852	1	chr7D.!!$R1	851
9	TraesCS6D01G158000	chr7D	108616404	108617283	879	True	1232.000000	1232	92.4210	1	856	1	chr7D.!!$R3	855
10	TraesCS6D01G158000	chr7D	79170814	79171691	877	True	1216.000000	1216	92.1500	1	852	1	chr7D.!!$R2	851
11	TraesCS6D01G158000	chr5D	565730337	565731216	879	False	1249.000000	1249	92.7360	1	856	1	chr5D.!!$F2	855
12	TraesCS6D01G158000	chr5D	540261759	540262645	886	True	1116.000000	1116	90.0000	1	856	1	chr5D.!!$R3	855
13	TraesCS6D01G158000	chr3B	823966063	823966934	871	False	1227.000000	1227	92.4490	1	852	1	chr3B.!!$F1	851
14	TraesCS6D01G158000	chr2D	643887463	643888329	866	False	1227.000000	1227	92.5540	1	852	1	chr2D.!!$F2	851
15	TraesCS6D01G158000	chr2D	379682875	379683738	863	True	1218.000000	1218	92.4230	1	850	1	chr2D.!!$R1	849
16	TraesCS6D01G158000	chr2D	628658374	628659246	872	True	1210.000000	1210	92.1140	1	852	1	chr2D.!!$R3	851
17	TraesCS6D01G158000	chr2D	450448563	450449440	877	True	1208.000000	1208	91.9230	1	856	1	chr2D.!!$R2	855
18	TraesCS6D01G158000	chr6B	233010406	233014796	4390	False	1019.000000	1051	86.3040	855	1949	2	chr6B.!!$F2	1094
19	TraesCS6D01G158000	chr6B	233023505	233024292	787	False	466.000000	466	78.1290	855	1650	1	chr6B.!!$F1	795
20	TraesCS6D01G158000	chrUn	31031764	31032649	885	True	1022.000000	1022	88.0500	1	856	1	chrUn.!!$R1	855
21	TraesCS6D01G158000	chr1A	534325048	534325929	881	True	981.000000	981	87.3300	1	852	1	chr1A.!!$R1	851
22	TraesCS6D01G158000	chr1A	580555997	580556858	861	False	894.000000	894	85.8930	1	850	1	chr1A.!!$F1	849

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
815	894	0.101759	GAGGGCTGTATGCGTCGTTA	59.898	55.0	0.0	0.0	44.05	3.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2242	4794	0.24445	ATTGGAACATGGCGCTGTTG	59.756	50.0	18.49	10.87	39.4	3.33	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
267	310	2.673893	CGGGATGAGACGATCAAACACA	60.674	50.000	0.00	0.00	42.53	3.72
303	346	2.752903	CCGCTAGCCAAAGTTTTATGGT	59.247	45.455	9.66	0.00	39.00	3.55
569	618	1.053424	AGGGAGCGTTTGGTTACTGA	58.947	50.000	0.00	0.00	0.00	3.41
815	894	0.101759	GAGGGCTGTATGCGTCGTTA	59.898	55.000	0.00	0.00	44.05	3.18
843	922	1.677966	GGCCGGGGAGTCCTTTTTC	60.678	63.158	9.58	0.00	0.00	2.29
844	923	2.038837	GCCGGGGAGTCCTTTTTCG	61.039	63.158	9.58	5.88	0.00	3.46
919	3317	1.048601	GGGACTGGAGTGACAAGTCA	58.951	55.000	12.86	0.00	37.24	3.41
953	3370	8.627208	TTTCTTTTATCACTTCTCTGATGCTT	57.373	30.769	0.00	0.00	32.86	3.91
974	3391	6.895756	TGCTTACCACCCACCTCTATATATAG	59.104	42.308	12.84	12.84	0.00	1.31
975	3392	6.896307	GCTTACCACCCACCTCTATATATAGT	59.104	42.308	17.44	0.00	0.00	2.12
976	3393	7.399478	GCTTACCACCCACCTCTATATATAGTT	59.601	40.741	17.44	3.31	0.00	2.24
977	3394	9.986157	CTTACCACCCACCTCTATATATAGTTA	57.014	37.037	17.44	1.09	0.00	2.24
1197	3632	4.664267	AGCTCCCTGCCACTCCCA	62.664	66.667	0.00	0.00	44.23	4.37
1199	3634	2.608988	CTCCCTGCCACTCCCAGT	60.609	66.667	0.00	0.00	0.00	4.00
1328	3763	0.256464	TCCGGCCGGGACAAAAATAT	59.744	50.000	42.36	0.00	40.94	1.28
1494	3950	1.599576	GAGGAGGTGGAAGACTGCC	59.400	63.158	0.00	0.00	0.00	4.85
1663	4134	3.070018	CTGACTGACCGAAGCATTTCTT	58.930	45.455	0.00	0.00	37.83	2.52
1665	4136	2.416893	GACTGACCGAAGCATTTCTTCC	59.583	50.000	0.00	0.00	46.60	3.46
1754	4249	6.604795	ACGGTCTAAGCCTAAGTCAATAGTAA	59.395	38.462	0.00	0.00	0.00	2.24
1946	4485	5.291128	GCTACGATGCAAGTACTGTAAATGT	59.709	40.000	0.00	0.00	0.00	2.71
1947	4486	5.779806	ACGATGCAAGTACTGTAAATGTC	57.220	39.130	0.00	0.00	0.00	3.06
1958	4499	5.140747	ACTGTAAATGTCTCACTGTCTCC	57.859	43.478	0.00	0.00	0.00	3.71
1988	4529	2.851263	TTTGACATGCGGAGGTACTT	57.149	45.000	0.00	0.00	41.55	2.24
2068	4609	3.517296	TGTAGCCAAAGAATCCAACCA	57.483	42.857	0.00	0.00	0.00	3.67
2082	4623	2.238646	TCCAACCATTCTTACGGCATCT	59.761	45.455	0.00	0.00	0.00	2.90
2085	4626	4.638421	CCAACCATTCTTACGGCATCTTTA	59.362	41.667	0.00	0.00	0.00	1.85
2135	4676	2.540515	CACGTCATTGTAGAGGCGATT	58.459	47.619	0.00	0.00	0.00	3.34
2147	4688	7.441890	TGTAGAGGCGATTGAAAACATTTTA	57.558	32.000	0.00	0.00	0.00	1.52
2148	4689	7.302524	TGTAGAGGCGATTGAAAACATTTTAC	58.697	34.615	0.00	0.00	0.00	2.01
2149	4690	6.575162	AGAGGCGATTGAAAACATTTTACT	57.425	33.333	0.00	0.00	0.00	2.24
2150	4691	7.681939	AGAGGCGATTGAAAACATTTTACTA	57.318	32.000	0.00	0.00	0.00	1.82
2161	4713	3.275999	ACATTTTACTAGCCGGCGAAAT	58.724	40.909	23.20	18.82	0.00	2.17
2219	4771	5.733226	TCCATAAGCGTCAAATACACATG	57.267	39.130	0.00	0.00	0.00	3.21
2220	4772	4.035091	TCCATAAGCGTCAAATACACATGC	59.965	41.667	0.00	0.00	0.00	4.06
2221	4773	2.525750	AAGCGTCAAATACACATGCG	57.474	45.000	0.00	0.00	0.00	4.73
2222	4774	0.096976	AGCGTCAAATACACATGCGC	59.903	50.000	0.00	0.00	40.11	6.09
2223	4775	0.861450	GCGTCAAATACACATGCGCC	60.861	55.000	4.18	0.00	36.66	6.53
2224	4776	0.726827	CGTCAAATACACATGCGCCT	59.273	50.000	4.18	0.00	0.00	5.52
2225	4777	1.529622	CGTCAAATACACATGCGCCTG	60.530	52.381	11.39	11.39	0.00	4.85
2226	4778	1.468520	GTCAAATACACATGCGCCTGT	59.531	47.619	12.88	12.88	0.00	4.00
2227	4779	2.095263	GTCAAATACACATGCGCCTGTT	60.095	45.455	16.07	10.04	0.00	3.16
2228	4780	2.095314	TCAAATACACATGCGCCTGTTG	60.095	45.455	16.07	11.34	0.00	3.33
2229	4781	0.810648	AATACACATGCGCCTGTTGG	59.189	50.000	16.07	8.49	0.00	3.77
2230	4782	1.031571	ATACACATGCGCCTGTTGGG	61.032	55.000	16.07	7.77	38.36	4.12
2231	4783	2.118233	TACACATGCGCCTGTTGGGA	62.118	55.000	16.07	0.00	37.23	4.37
2232	4784	2.115052	ACATGCGCCTGTTGGGAA	59.885	55.556	12.88	0.00	37.23	3.97
2233	4785	1.304381	ACATGCGCCTGTTGGGAAT	60.304	52.632	12.88	0.00	37.23	3.01
2234	4786	1.315257	ACATGCGCCTGTTGGGAATC	61.315	55.000	12.88	0.00	37.23	2.52
2235	4787	2.114670	ATGCGCCTGTTGGGAATCG	61.115	57.895	4.18	0.00	37.23	3.34
2236	4788	2.746277	GCGCCTGTTGGGAATCGT	60.746	61.111	0.00	0.00	37.23	3.73
2237	4789	1.448893	GCGCCTGTTGGGAATCGTA	60.449	57.895	0.00	0.00	37.23	3.43
2238	4790	0.814010	GCGCCTGTTGGGAATCGTAT	60.814	55.000	0.00	0.00	37.23	3.06
2239	4791	1.663695	CGCCTGTTGGGAATCGTATT	58.336	50.000	0.00	0.00	37.23	1.89
2240	4792	2.014128	CGCCTGTTGGGAATCGTATTT	58.986	47.619	0.00	0.00	37.23	1.40
2241	4793	2.031683	CGCCTGTTGGGAATCGTATTTC	59.968	50.000	0.00	0.00	37.23	2.17
2242	4794	2.357952	GCCTGTTGGGAATCGTATTTCC	59.642	50.000	6.14	6.14	43.78	3.13
2243	4795	3.616219	CCTGTTGGGAATCGTATTTCCA	58.384	45.455	13.72	9.27	45.89	3.53
2244	4796	4.013728	CCTGTTGGGAATCGTATTTCCAA	58.986	43.478	13.30	13.30	45.89	3.53
2245	4797	4.142469	CCTGTTGGGAATCGTATTTCCAAC	60.142	45.833	27.16	27.16	45.89	3.77
2246	4798	4.399219	TGTTGGGAATCGTATTTCCAACA	58.601	39.130	29.93	29.93	45.89	3.33
2307	4859	5.405935	ACCCTTAAAATTGAGAACATGCC	57.594	39.130	0.00	0.00	0.00	4.40
2352	4904	2.202919	CCGCCTGCATCATCGTCA	60.203	61.111	0.00	0.00	0.00	4.35
2370	4922	5.778862	TCGTCATTTCATCCGCATAATCTA	58.221	37.500	0.00	0.00	0.00	1.98
2386	4938	7.371936	GCATAATCTACCTCAATAGACGAGTT	58.628	38.462	0.00	0.00	34.02	3.01
2411	4963	3.194861	GGATGACGCAACATAGTGCTTA	58.805	45.455	0.00	0.00	42.62	3.09
2430	4982	9.094578	AGTGCTTATATATGTACTTCATGTCCT	57.905	33.333	11.90	0.00	37.91	3.85
2431	4983	9.360093	GTGCTTATATATGTACTTCATGTCCTC	57.640	37.037	8.89	0.00	37.91	3.71
2531	5083	2.666190	CCCATGATACCTGCGCGG	60.666	66.667	9.96	9.96	39.35	6.46
2584	5136	2.036006	TACAAATGGCGTGGCGACC	61.036	57.895	0.00	0.00	31.60	4.79
2676	5262	1.379309	GGGCCTGGGCGATGTTTTA	60.379	57.895	14.63	0.00	43.06	1.52
2680	5266	1.094785	CCTGGGCGATGTTTTAGGTG	58.905	55.000	0.00	0.00	0.00	4.00
2685	5271	0.963355	GCGATGTTTTAGGTGGGCCA	60.963	55.000	0.00	0.00	37.19	5.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
267	310	1.549203	AGCGGGCAATCAAGAAACAT	58.451	45.000	0.00	0.00	0.00	2.71
518	567	1.132643	GAGTGAGTAGCGACCACGAAT	59.867	52.381	11.00	0.00	42.66	3.34
569	618	1.905215	CCATCTCCCAGCGGATAGATT	59.095	52.381	8.55	0.00	37.60	2.40
802	881	2.794350	CTGCATCATAACGACGCATACA	59.206	45.455	0.00	0.00	42.93	2.29
815	894	3.882326	CCCCGGCCTCTGCATCAT	61.882	66.667	0.00	0.00	40.13	2.45
852	931	6.162777	TGCACATGGGCTACTTAAAAATTTC	58.837	36.000	22.81	0.00	34.04	2.17
919	3317	9.225436	GAGAAGTGATAAAAGAAAAGGAGACAT	57.775	33.333	0.00	0.00	0.00	3.06
934	3333	6.341316	GTGGTAAGCATCAGAGAAGTGATAA	58.659	40.000	0.00	0.00	35.30	1.75
935	3334	5.163405	GGTGGTAAGCATCAGAGAAGTGATA	60.163	44.000	0.00	0.00	35.30	2.15
974	3391	8.611654	TTAAAAAGGATGGAGGCGTATATAAC	57.388	34.615	0.00	0.00	0.00	1.89
975	3392	9.444600	GATTAAAAAGGATGGAGGCGTATATAA	57.555	33.333	0.00	0.00	0.00	0.98
976	3393	8.822805	AGATTAAAAAGGATGGAGGCGTATATA	58.177	33.333	0.00	0.00	0.00	0.86
977	3394	7.690256	AGATTAAAAAGGATGGAGGCGTATAT	58.310	34.615	0.00	0.00	0.00	0.86
978	3395	7.074653	AGATTAAAAAGGATGGAGGCGTATA	57.925	36.000	0.00	0.00	0.00	1.47
979	3396	5.941788	AGATTAAAAAGGATGGAGGCGTAT	58.058	37.500	0.00	0.00	0.00	3.06
980	3397	5.365619	GAGATTAAAAAGGATGGAGGCGTA	58.634	41.667	0.00	0.00	0.00	4.42
981	3398	4.200092	GAGATTAAAAAGGATGGAGGCGT	58.800	43.478	0.00	0.00	0.00	5.68
1324	3759	0.535102	CGCCGGGAGCAGGAAATATT	60.535	55.000	2.18	0.00	44.04	1.28
1409	3844	4.114997	CTTTTGGCGCCCGCGATT	62.115	61.111	26.77	0.00	43.06	3.34
1494	3950	1.721389	CTCGTTGAACATGACGTCCTG	59.279	52.381	17.89	17.89	40.03	3.86
1663	4134	1.896220	ATCAAAAGCGCTGTCTTGGA	58.104	45.000	12.58	5.04	0.00	3.53
1665	4136	3.118482	CGAAAATCAAAAGCGCTGTCTTG	59.882	43.478	12.58	15.48	0.00	3.02
1946	4485	1.067669	GCATATGCGGAGACAGTGAGA	59.932	52.381	12.82	0.00	0.00	3.27
1947	4486	1.495878	GCATATGCGGAGACAGTGAG	58.504	55.000	12.82	0.00	0.00	3.51
1988	4529	3.491639	CACGACCGTAAATTTGTGAGACA	59.508	43.478	0.00	0.00	0.00	3.41
2135	4676	3.120130	CGCCGGCTAGTAAAATGTTTTCA	60.120	43.478	26.68	0.00	0.00	2.69
2147	4688	3.131396	CTGATAAATTTCGCCGGCTAGT	58.869	45.455	26.68	6.22	0.00	2.57
2148	4689	3.059597	CACTGATAAATTTCGCCGGCTAG	60.060	47.826	26.68	10.37	0.00	3.42
2149	4690	2.869801	CACTGATAAATTTCGCCGGCTA	59.130	45.455	26.68	11.79	0.00	3.93
2150	4691	1.670811	CACTGATAAATTTCGCCGGCT	59.329	47.619	26.68	6.90	0.00	5.52
2161	4713	8.450964	GTCATCGATTCCTTTTTCACTGATAAA	58.549	33.333	0.00	0.00	0.00	1.40
2219	4771	0.814010	ATACGATTCCCAACAGGCGC	60.814	55.000	0.00	0.00	34.51	6.53
2220	4772	1.663695	AATACGATTCCCAACAGGCG	58.336	50.000	0.00	0.00	34.51	5.52
2221	4773	2.357952	GGAAATACGATTCCCAACAGGC	59.642	50.000	7.78	0.00	42.57	4.85
2222	4774	3.616219	TGGAAATACGATTCCCAACAGG	58.384	45.455	13.92	0.00	46.89	4.00
2223	4775	4.457603	TGTTGGAAATACGATTCCCAACAG	59.542	41.667	19.67	0.00	46.89	3.16
2224	4776	4.399219	TGTTGGAAATACGATTCCCAACA	58.601	39.130	19.67	19.67	46.89	3.33
2225	4777	4.674362	GCTGTTGGAAATACGATTCCCAAC	60.674	45.833	16.31	16.31	46.89	3.77
2226	4778	3.442273	GCTGTTGGAAATACGATTCCCAA	59.558	43.478	13.92	5.81	46.89	4.12
2227	4779	3.013921	GCTGTTGGAAATACGATTCCCA	58.986	45.455	13.92	0.46	46.89	4.37
2228	4780	2.031683	CGCTGTTGGAAATACGATTCCC	59.968	50.000	13.92	0.00	46.89	3.97
2230	4782	2.538939	GGCGCTGTTGGAAATACGATTC	60.539	50.000	7.64	0.00	0.00	2.52
2231	4783	1.400494	GGCGCTGTTGGAAATACGATT	59.600	47.619	7.64	0.00	0.00	3.34
2232	4784	1.014352	GGCGCTGTTGGAAATACGAT	58.986	50.000	7.64	0.00	0.00	3.73
2233	4785	0.320858	TGGCGCTGTTGGAAATACGA	60.321	50.000	7.64	0.00	0.00	3.43
2234	4786	0.732571	ATGGCGCTGTTGGAAATACG	59.267	50.000	7.64	0.00	0.00	3.06
2235	4787	1.472480	ACATGGCGCTGTTGGAAATAC	59.528	47.619	7.64	0.00	0.00	1.89
2236	4788	1.832883	ACATGGCGCTGTTGGAAATA	58.167	45.000	7.64	0.00	0.00	1.40
2237	4789	0.968405	AACATGGCGCTGTTGGAAAT	59.032	45.000	13.58	0.00	37.93	2.17
2238	4790	0.313672	GAACATGGCGCTGTTGGAAA	59.686	50.000	18.49	0.00	39.40	3.13
2239	4791	1.523154	GGAACATGGCGCTGTTGGAA	61.523	55.000	18.49	0.00	39.40	3.53
2240	4792	1.971167	GGAACATGGCGCTGTTGGA	60.971	57.895	18.49	0.00	39.40	3.53
2241	4793	1.804396	TTGGAACATGGCGCTGTTGG	61.804	55.000	18.49	2.00	39.40	3.77
2242	4794	0.244450	ATTGGAACATGGCGCTGTTG	59.756	50.000	18.49	10.87	39.40	3.33
2243	4795	0.968405	AATTGGAACATGGCGCTGTT	59.032	45.000	14.16	14.16	41.92	3.16
2244	4796	0.527565	GAATTGGAACATGGCGCTGT	59.472	50.000	7.64	0.73	39.30	4.40
2245	4797	0.527113	TGAATTGGAACATGGCGCTG	59.473	50.000	7.64	0.00	39.30	5.18
2246	4798	0.813184	CTGAATTGGAACATGGCGCT	59.187	50.000	7.64	0.00	39.30	5.92
2272	4824	4.376225	TTTAAGGGTTTCGATCAAGGGT	57.624	40.909	0.00	0.00	0.00	4.34
2352	4904	6.114187	TGAGGTAGATTATGCGGATGAAAT	57.886	37.500	0.00	0.00	0.00	2.17
2370	4922	1.135083	CGGCAACTCGTCTATTGAGGT	60.135	52.381	0.00	0.00	37.79	3.85
2386	4938	0.809636	CTATGTTGCGTCATCCGGCA	60.810	55.000	0.00	0.00	37.39	5.69
2411	4963	8.262601	TGGTTGAGGACATGAAGTACATATAT	57.737	34.615	0.00	0.00	37.46	0.86
2430	4982	3.822735	CTCCTCTTTGAAGCAATGGTTGA	59.177	43.478	1.11	0.00	0.00	3.18
2431	4983	3.822735	TCTCCTCTTTGAAGCAATGGTTG	59.177	43.478	1.11	0.00	0.00	3.77
2461	5013	0.322456	TGGTGGAATGCCTGTGCTAC	60.322	55.000	0.00	0.00	38.71	3.58
2516	5068	3.705638	CGCCGCGCAGGTATCATG	61.706	66.667	8.75	0.00	43.70	3.07
2541	5093	0.250513	CTTGCTGGTCTACACCTCCC	59.749	60.000	0.00	0.00	44.17	4.30
2542	5094	0.250513	CCTTGCTGGTCTACACCTCC	59.749	60.000	0.00	0.00	44.17	4.30
2543	5095	0.250513	CCCTTGCTGGTCTACACCTC	59.749	60.000	0.00	0.00	44.17	3.85
2565	5117	1.133869	GTCGCCACGCCATTTGTAC	59.866	57.895	0.00	0.00	0.00	2.90
2632	5185	1.992277	CAGCTCTACCACCCCAGCT	60.992	63.158	0.00	0.00	43.16	4.24
2662	5248	1.094785	CCACCTAAAACATCGCCCAG	58.905	55.000	0.00	0.00	0.00	4.45
2676	5262	3.966543	CGGGAGTTTGGCCCACCT	61.967	66.667	0.00	0.00	46.36	4.00
2680	5266	2.503382	TTTTGCGGGAGTTTGGCCC	61.503	57.895	0.00	0.00	42.41	5.80
2685	5271	1.835267	GGGGGTTTTGCGGGAGTTT	60.835	57.895	0.00	0.00	0.00	2.66
2755	5341	3.069778	GGCTTTGAGAGGTCCGGT	58.930	61.111	0.00	0.00	0.00	5.28

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.