AutoCloner

Multiple sequence alignment - TraesCS5D01G229200

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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	TraesCS5D01G229200	chr5D	100.000	2877	0	0	1	2877	336337634	336340510	0.000000e+00	5313.0
1	TraesCS5D01G229200	chr5D	95.627	1898	56	11	1	1876	336240771	336238879	0.000000e+00	3020.0
2	TraesCS5D01G229200	chr5D	83.625	1942	185	72	319	2175	336382022	336380129	0.000000e+00	1701.0
3	TraesCS5D01G229200	chr5D	85.587	1679	125	51	304	1920	336314279	336315902	0.000000e+00	1652.0
4	TraesCS5D01G229200	chr5D	90.497	463	18	14	2324	2782	336262553	336262113	3.190000e-164	588.0
5	TraesCS5D01G229200	chr5D	79.424	938	94	43	304	1191	336258529	336257641	3.220000e-159	571.0
6	TraesCS5D01G229200	chr5D	89.503	362	20	8	1571	1920	336257245	336256890	2.630000e-120	442.0
7	TraesCS5D01G229200	chr5D	94.667	75	4	0	2048	2122	336262623	336262549	1.810000e-22	117.0
8	TraesCS5D01G229200	chr5D	78.333	180	26	11	2452	2627	336382683	336382513	1.410000e-18	104.0
9	TraesCS5D01G229200	chr5A	91.315	2533	94	47	330	2782	437400668	437398182	0.000000e+00	3343.0
10	TraesCS5D01G229200	chr5A	85.781	1716	110	55	330	1997	437413291	437411662	0.000000e+00	1694.0
11	TraesCS5D01G229200	chr5A	85.663	1674	121	61	304	1920	437393835	437392224	0.000000e+00	1652.0
12	TraesCS5D01G229200	chr5A	80.443	271	29	12	17	287	437408411	437408165	4.900000e-43	185.0
13	TraesCS5D01G229200	chr5A	92.920	113	4	4	2763	2873	563443910	563444020	8.250000e-36	161.0
14	TraesCS5D01G229200	chr5A	97.059	34	1	0	2221	2254	27780815	27780782	1.110000e-04	58.4
15	TraesCS5D01G229200	chr5B	89.149	1797	83	41	219	1920	394581881	394580102	0.000000e+00	2135.0
16	TraesCS5D01G229200	chr5B	87.421	1749	120	49	321	1997	394628742	394627022	0.000000e+00	1919.0
17	TraesCS5D01G229200	chr5B	89.973	1107	76	13	838	1920	394572568	394571473	0.000000e+00	1397.0
18	TraesCS5D01G229200	chr5B	81.164	292	35	10	304	578	394573026	394572738	1.740000e-52	217.0
19	TraesCS5D01G229200	chr5B	88.000	150	12	5	632	777	394572738	394572591	3.810000e-39	172.0
20	TraesCS5D01G229200	chr5B	93.805	113	4	3	2767	2876	641128798	641128686	1.770000e-37	167.0
21	TraesCS5D01G229200	chr5B	79.147	211	35	6	1	211	394583471	394583270	1.390000e-28	137.0
22	TraesCS5D01G229200	chr5B	76.923	169	22	8	19	176	364083029	364083191	2.380000e-11	80.5
23	TraesCS5D01G229200	chr5B	83.077	65	10	1	18	82	605232587	605232524	1.110000e-04	58.4
24	TraesCS5D01G229200	chr3D	98.969	97	1	0	2781	2877	475116397	475116301	1.060000e-39	174.0
25	TraesCS5D01G229200	chr3D	83.333	78	12	1	105	181	434935578	434935655	1.430000e-08	71.3
26	TraesCS5D01G229200	chr3D	84.722	72	10	1	111	181	436196629	436196558	1.430000e-08	71.3
27	TraesCS5D01G229200	chr4A	95.327	107	4	1	2770	2876	743775012	743775117	4.930000e-38	169.0
28	TraesCS5D01G229200	chr4A	83.582	67	10	1	17	83	714166222	714166157	8.610000e-06	62.1
29	TraesCS5D01G229200	chr2B	96.154	104	3	1	2770	2873	776222950	776223052	4.930000e-38	169.0
30	TraesCS5D01G229200	chr2B	90.909	121	5	4	2758	2876	776230864	776230748	1.070000e-34	158.0
31	TraesCS5D01G229200	chr7B	95.283	106	4	1	2772	2877	523379221	523379325	1.770000e-37	167.0
32	TraesCS5D01G229200	chr7B	76.506	166	33	5	17	179	14775828	14775666	5.110000e-13	86.1
33	TraesCS5D01G229200	chr7B	97.059	34	1	0	2221	2254	594964196	594964229	1.110000e-04	58.4
34	TraesCS5D01G229200	chr6D	93.750	112	5	2	2767	2877	277559500	277559610	1.770000e-37	167.0
35	TraesCS5D01G229200	chr6D	92.308	65	5	0	17	81	460484283	460484347	3.050000e-15	93.5
36	TraesCS5D01G229200	chr2D	92.308	117	7	2	2760	2876	218372568	218372454	6.380000e-37	165.0
37	TraesCS5D01G229200	chr2D	79.310	87	13	5	2221	2305	476348682	476348599	4.000000e-04	56.5
38	TraesCS5D01G229200	chr1D	88.710	62	6	1	20	81	300320093	300320153	1.110000e-09	75.0
39	TraesCS5D01G229200	chr2A	84.848	66	9	1	17	81	134264190	134264255	6.650000e-07	65.8
40	TraesCS5D01G229200	chr7A	100.000	28	0	0	2650	2677	32423774	32423747	5.000000e-03	52.8
41	TraesCS5D01G229200	chr7A	96.774	31	1	0	2647	2677	717284130	717284160	5.000000e-03	52.8

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	TraesCS5D01G229200	chr5D	336337634	336340510	2876	False	5313.000000	5313	100.00000	1	2877	1	chr5D.!!$F2	2876
1	TraesCS5D01G229200	chr5D	336238879	336240771	1892	True	3020.000000	3020	95.62700	1	1876	1	chr5D.!!$R1	1875
2	TraesCS5D01G229200	chr5D	336314279	336315902	1623	False	1652.000000	1652	85.58700	304	1920	1	chr5D.!!$F1	1616
3	TraesCS5D01G229200	chr5D	336380129	336382683	2554	True	902.500000	1701	80.97900	319	2627	2	chr5D.!!$R3	2308
4	TraesCS5D01G229200	chr5D	336256890	336262623	5733	True	429.500000	588	88.52275	304	2782	4	chr5D.!!$R2	2478
5	TraesCS5D01G229200	chr5A	437398182	437400668	2486	True	3343.000000	3343	91.31500	330	2782	1	chr5A.!!$R3	2452
6	TraesCS5D01G229200	chr5A	437392224	437393835	1611	True	1652.000000	1652	85.66300	304	1920	1	chr5A.!!$R2	1616
7	TraesCS5D01G229200	chr5A	437408165	437413291	5126	True	939.500000	1694	83.11200	17	1997	2	chr5A.!!$R4	1980
8	TraesCS5D01G229200	chr5B	394627022	394628742	1720	True	1919.000000	1919	87.42100	321	1997	1	chr5B.!!$R1	1676
9	TraesCS5D01G229200	chr5B	394580102	394583471	3369	True	1136.000000	2135	84.14800	1	1920	2	chr5B.!!$R5	1919
10	TraesCS5D01G229200	chr5B	394571473	394573026	1553	True	595.333333	1397	86.37900	304	1920	3	chr5B.!!$R4	1616

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
525	4354	2.412089	CGGCTCTTTTACAAAGTCTCCG	59.588	50.0	9.99	9.99	0.00	4.63	F
1719	5805	1.029681	AGCTATGTGGTGCATGCATG	58.970	50.0	25.64	22.70	38.47	4.06	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1783	5877	0.739112	GCTGCCTCTTCACTTCCTCG	60.739	60.0	0.0	0.0	0.0	4.63	R
2803	7378	0.035317	GAGCACATGGACACCACTGA	59.965	55.0	0.0	0.0	35.8	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
56	57	7.203361	TCCATATTTAGGCTGGATATAAGGGA	58.797	38.462	0.00	2.02	34.17	4.20
85	86	4.323477	CCGGGCGTTTGAGGGTCA	62.323	66.667	0.00	0.00	0.00	4.02
513	4337	4.278975	AGAGATCTTGAACGGCTCTTTT	57.721	40.909	0.00	0.00	32.35	2.27
525	4354	2.412089	CGGCTCTTTTACAAAGTCTCCG	59.588	50.000	9.99	9.99	0.00	4.63
1155	5213	4.104417	GGCGACGTCTGCGAGACT	62.104	66.667	20.45	2.86	42.92	3.24
1716	5802	2.141517	CTCTAGCTATGTGGTGCATGC	58.858	52.381	11.82	11.82	38.47	4.06
1717	5803	1.485895	TCTAGCTATGTGGTGCATGCA	59.514	47.619	18.46	18.46	38.47	3.96
1718	5804	2.105306	TCTAGCTATGTGGTGCATGCAT	59.895	45.455	25.64	10.06	38.47	3.96
1719	5805	1.029681	AGCTATGTGGTGCATGCATG	58.970	50.000	25.64	22.70	38.47	4.06
1722	5808	2.035449	GCTATGTGGTGCATGCATGATT	59.965	45.455	30.64	10.67	38.47	2.57
1755	5849	4.237843	TCCAGGATAGGATCTGATTTGCT	58.762	43.478	0.00	0.00	33.11	3.91
1769	5863	3.066064	TGATTTGCTACTTTGCACGTTGT	59.934	39.130	0.00	0.00	43.20	3.32
1783	5877	2.357760	TTGTAGGTGCCGTTCGCC	60.358	61.111	0.00	0.00	45.76	5.54
1986	6114	3.129109	CAGATTATGCGCAGACTCATGT	58.871	45.455	22.06	2.24	0.00	3.21
2006	6134	9.194271	CTCATGTAGATTGTTGTCATCATCTAG	57.806	37.037	0.00	0.00	29.47	2.43
2007	6135	8.699130	TCATGTAGATTGTTGTCATCATCTAGT	58.301	33.333	0.00	0.00	29.47	2.57
2008	6136	9.971922	CATGTAGATTGTTGTCATCATCTAGTA	57.028	33.333	0.00	0.00	29.47	1.82
2014	6142	5.891451	TGTTGTCATCATCTAGTACTTCCG	58.109	41.667	0.00	0.00	0.00	4.30
2098	6525	4.575885	TCAGGTAGGGACAGAAAAATTCG	58.424	43.478	0.00	0.00	34.02	3.34
2146	6573	9.366216	GACTTTTGGTTCATATATTTTGGGAAC	57.634	33.333	4.91	4.91	37.66	3.62
2233	6660	8.890410	TTTCCTGTTTACTACTACCTCTGTAT	57.110	34.615	0.00	0.00	0.00	2.29
2349	6776	3.863041	ACTAAGACCAGGAAATTCGCTC	58.137	45.455	0.00	0.00	0.00	5.03
2410	6837	3.647771	GGAAACTGCCTCCCGGGT	61.648	66.667	22.86	0.00	37.43	5.28
2425	6852	2.041686	GGGTCGCTCTCGTGACTCT	61.042	63.158	6.06	0.00	45.55	3.24
2447	6874	7.394923	ACTCTGAAGTGTAGAAAGTATAGTGCT	59.605	37.037	0.00	0.00	33.32	4.40
2448	6875	7.763356	TCTGAAGTGTAGAAAGTATAGTGCTC	58.237	38.462	0.00	0.00	0.00	4.26
2449	6876	7.393515	TCTGAAGTGTAGAAAGTATAGTGCTCA	59.606	37.037	0.00	0.00	0.00	4.26
2450	6877	7.313646	TGAAGTGTAGAAAGTATAGTGCTCAC	58.686	38.462	0.00	0.00	0.00	3.51
2489	6917	6.201425	AGTCAAAGTAATTGTCGCTTAAACGA	59.799	34.615	0.00	0.00	40.11	3.85
2492	6920	8.710551	TCAAAGTAATTGTCGCTTAAACGATAA	58.289	29.630	11.93	11.93	45.20	1.75
2539	6967	5.193679	GGAGGGCTTAAATGTACTTGATGT	58.806	41.667	0.00	0.00	0.00	3.06
2541	6969	6.152831	GGAGGGCTTAAATGTACTTGATGTTT	59.847	38.462	0.00	0.00	0.00	2.83
2597	7028	2.481185	GCTTGCATGTGTTGGAAAATGG	59.519	45.455	1.14	0.00	35.02	3.16
2612	7043	6.916909	TGGAAAATGGAATATGTAGGGCTTA	58.083	36.000	0.00	0.00	0.00	3.09
2703	7278	6.222038	ACCGACTAATGATTATGTGACTGT	57.778	37.500	0.00	0.00	0.00	3.55
2783	7358	9.921637	AACACAAAACAACCATATATAACAAGG	57.078	29.630	0.00	0.00	0.00	3.61
2784	7359	8.527810	ACACAAAACAACCATATATAACAAGGG	58.472	33.333	0.00	0.00	0.00	3.95
2785	7360	8.527810	CACAAAACAACCATATATAACAAGGGT	58.472	33.333	0.00	0.00	0.00	4.34
2786	7361	9.095700	ACAAAACAACCATATATAACAAGGGTT	57.904	29.630	0.00	0.00	39.08	4.11
2801	7376	6.294361	ACAAGGGTTAATTATCCTTTTGCC	57.706	37.500	19.33	4.37	38.70	4.52
2802	7377	6.022958	ACAAGGGTTAATTATCCTTTTGCCT	58.977	36.000	19.33	5.96	38.70	4.75
2803	7378	6.500400	ACAAGGGTTAATTATCCTTTTGCCTT	59.500	34.615	19.33	9.90	38.70	4.35
2804	7379	6.791867	AGGGTTAATTATCCTTTTGCCTTC	57.208	37.500	11.51	0.00	0.00	3.46
2810	9456	2.683211	ATCCTTTTGCCTTCAGTGGT	57.317	45.000	0.00	0.00	0.00	4.16
2813	9459	1.338020	CCTTTTGCCTTCAGTGGTGTC	59.662	52.381	0.00	0.00	0.00	3.67
2814	9460	1.338020	CTTTTGCCTTCAGTGGTGTCC	59.662	52.381	0.00	0.00	0.00	4.02
2817	9463	0.250858	TGCCTTCAGTGGTGTCCATG	60.251	55.000	0.00	0.00	35.28	3.66
2818	9464	0.250901	GCCTTCAGTGGTGTCCATGT	60.251	55.000	0.00	0.00	35.28	3.21
2822	9468	0.035317	TCAGTGGTGTCCATGTGCTC	59.965	55.000	0.00	0.00	35.28	4.26
2825	9471	0.250467	GTGGTGTCCATGTGCTCAGT	60.250	55.000	0.00	0.00	35.28	3.41
2830	9476	1.337703	TGTCCATGTGCTCAGTTTTGC	59.662	47.619	0.00	0.00	0.00	3.68
2831	9477	0.961019	TCCATGTGCTCAGTTTTGCC	59.039	50.000	0.00	0.00	0.00	4.52
2833	9479	0.963962	CATGTGCTCAGTTTTGCCCT	59.036	50.000	0.00	0.00	0.00	5.19
2834	9480	1.068055	CATGTGCTCAGTTTTGCCCTC	60.068	52.381	0.00	0.00	0.00	4.30
2835	9481	0.106769	TGTGCTCAGTTTTGCCCTCA	60.107	50.000	0.00	0.00	0.00	3.86
2836	9482	0.595095	GTGCTCAGTTTTGCCCTCAG	59.405	55.000	0.00	0.00	0.00	3.35
2837	9483	0.473755	TGCTCAGTTTTGCCCTCAGA	59.526	50.000	0.00	0.00	0.00	3.27
2838	9484	1.074405	TGCTCAGTTTTGCCCTCAGAT	59.926	47.619	0.00	0.00	0.00	2.90
2842	9488	0.036732	AGTTTTGCCCTCAGATGCGA	59.963	50.000	0.00	0.00	0.00	5.10
2845	9491	1.838112	TTTGCCCTCAGATGCGAATT	58.162	45.000	0.00	0.00	0.00	2.17
2846	9492	1.097232	TTGCCCTCAGATGCGAATTG	58.903	50.000	0.00	0.00	0.00	2.32
2847	9493	0.035152	TGCCCTCAGATGCGAATTGT	60.035	50.000	0.00	0.00	0.00	2.71
2849	9495	0.379669	CCCTCAGATGCGAATTGTGC	59.620	55.000	0.00	0.00	0.00	4.57
2850	9496	1.376543	CCTCAGATGCGAATTGTGCT	58.623	50.000	0.00	0.00	0.00	4.40
2851	9497	1.329906	CCTCAGATGCGAATTGTGCTC	59.670	52.381	0.00	0.00	0.00	4.26
2853	9499	2.004733	TCAGATGCGAATTGTGCTCAG	58.995	47.619	0.00	0.00	0.00	3.35
2855	9501	2.161012	CAGATGCGAATTGTGCTCAGTT	59.839	45.455	0.00	0.00	0.00	3.16
2857	9503	3.254166	AGATGCGAATTGTGCTCAGTTTT	59.746	39.130	0.00	0.00	0.00	2.43
2858	9504	2.730069	TGCGAATTGTGCTCAGTTTTG	58.270	42.857	0.00	0.00	0.00	2.44
2859	9505	1.453148	GCGAATTGTGCTCAGTTTTGC	59.547	47.619	8.90	8.90	0.00	3.68
2860	9506	2.053627	CGAATTGTGCTCAGTTTTGCC	58.946	47.619	0.00	0.00	0.00	4.52
2861	9507	2.407090	GAATTGTGCTCAGTTTTGCCC	58.593	47.619	0.00	0.00	0.00	5.36
2862	9508	0.681175	ATTGTGCTCAGTTTTGCCCC	59.319	50.000	0.00	0.00	0.00	5.80
2863	9509	0.396974	TTGTGCTCAGTTTTGCCCCT	60.397	50.000	0.00	0.00	0.00	4.79
2865	9511	1.168714	GTGCTCAGTTTTGCCCCTAG	58.831	55.000	0.00	0.00	0.00	3.02
2866	9512	0.771127	TGCTCAGTTTTGCCCCTAGT	59.229	50.000	0.00	0.00	0.00	2.57
2867	9513	1.271379	TGCTCAGTTTTGCCCCTAGTC	60.271	52.381	0.00	0.00	0.00	2.59
2868	9514	1.950954	GCTCAGTTTTGCCCCTAGTCC	60.951	57.143	0.00	0.00	0.00	3.85
2869	9515	1.351017	CTCAGTTTTGCCCCTAGTCCA	59.649	52.381	0.00	0.00	0.00	4.02
2872	9518	0.817654	GTTTTGCCCCTAGTCCATGC	59.182	55.000	0.00	0.00	0.00	4.06
2873	9519	0.407528	TTTTGCCCCTAGTCCATGCA	59.592	50.000	0.00	0.00	0.00	3.96
2875	9521	1.496444	TTGCCCCTAGTCCATGCACA	61.496	55.000	0.00	0.00	0.00	4.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
56	57	4.101448	GCCCGGTCTGACCAGCAT	62.101	66.667	25.72	0.00	38.47	3.79
93	94	0.884704	ACCTGTCACGAAAATGCGCT	60.885	50.000	9.73	0.00	33.86	5.92
513	4337	1.139256	TGTTGTGGCGGAGACTTTGTA	59.861	47.619	0.00	0.00	34.59	2.41
525	4354	0.593128	GTCTGACATGGTGTTGTGGC	59.407	55.000	2.24	0.00	0.00	5.01
1062	5099	4.790962	TACTCCGAGTCCCGCGCT	62.791	66.667	3.74	0.00	36.84	5.92
1082	5119	2.261671	CGCCGTACACCTTGAGCT	59.738	61.111	0.00	0.00	0.00	4.09
1155	5213	2.034999	GCCCGGAACATGTCCCAA	59.965	61.111	0.73	0.00	44.60	4.12
1716	5802	3.562973	CCTGGAAGAACGATGGAATCATG	59.437	47.826	0.00	0.00	39.27	3.07
1717	5803	3.455910	TCCTGGAAGAACGATGGAATCAT	59.544	43.478	0.00	0.00	39.27	2.45
1718	5804	2.837591	TCCTGGAAGAACGATGGAATCA	59.162	45.455	0.00	0.00	39.27	2.57
1719	5805	3.543680	TCCTGGAAGAACGATGGAATC	57.456	47.619	0.00	0.00	36.31	2.52
1722	5808	2.965831	CCTATCCTGGAAGAACGATGGA	59.034	50.000	0.00	0.00	34.07	3.41
1769	5863	4.124351	CTCGGCGAACGGCACCTA	62.124	66.667	12.13	2.56	46.16	3.08
1783	5877	0.739112	GCTGCCTCTTCACTTCCTCG	60.739	60.000	0.00	0.00	0.00	4.63
1789	5883	1.551908	CCTCCAGCTGCCTCTTCACT	61.552	60.000	8.66	0.00	0.00	3.41
2006	6134	4.236935	TGTACGACCATTTTCGGAAGTAC	58.763	43.478	0.00	7.05	43.58	2.73
2007	6135	4.517952	TGTACGACCATTTTCGGAAGTA	57.482	40.909	0.00	0.00	43.58	2.24
2008	6136	3.389925	TGTACGACCATTTTCGGAAGT	57.610	42.857	0.00	0.00	43.58	3.01
2098	6525	1.731750	GCGTCCCGTCTACTTGTTCTC	60.732	57.143	0.00	0.00	0.00	2.87
2156	6583	2.417243	GGCCATAATTTTCAAGCTGCGT	60.417	45.455	0.00	0.00	0.00	5.24
2349	6776	2.143122	TGCTTTCGTTCACAAGCTAGG	58.857	47.619	5.56	0.00	44.90	3.02
2410	6837	0.799393	CTTCAGAGTCACGAGAGCGA	59.201	55.000	0.00	0.00	41.64	4.93
2425	6852	7.039993	TGTGAGCACTATACTTTCTACACTTCA	60.040	37.037	1.99	0.00	0.00	3.02
2447	6874	6.096987	ACTTTGACTGAAGTAGAAGTCTGTGA	59.903	38.462	4.62	0.00	42.72	3.58
2448	6875	6.276847	ACTTTGACTGAAGTAGAAGTCTGTG	58.723	40.000	4.62	0.00	42.72	3.66
2449	6876	6.472686	ACTTTGACTGAAGTAGAAGTCTGT	57.527	37.500	4.62	0.00	42.72	3.41
2450	6877	9.482627	AATTACTTTGACTGAAGTAGAAGTCTG	57.517	33.333	11.88	0.00	41.62	3.51
2539	6967	4.155709	TCCTTGCACATGTAATCCCAAAA	58.844	39.130	0.00	0.00	0.00	2.44
2541	6969	3.448093	TCCTTGCACATGTAATCCCAA	57.552	42.857	0.00	0.00	0.00	4.12
2597	7028	3.493503	GTGCGTGTAAGCCCTACATATTC	59.506	47.826	0.00	0.00	42.50	1.75
2612	7043	5.324784	TCATCTAGTTATCAAGTGCGTGT	57.675	39.130	0.00	0.00	0.00	4.49
2695	7270	6.711194	TGACCCGAAATAATTTTACAGTCACA	59.289	34.615	0.00	0.00	29.25	3.58
2703	7278	7.989416	AAGTGTCTGACCCGAAATAATTTTA	57.011	32.000	5.17	0.00	0.00	1.52
2714	7289	4.290155	CAAATGAAAAAGTGTCTGACCCG	58.710	43.478	5.17	0.00	0.00	5.28
2782	7357	6.154534	ACTGAAGGCAAAAGGATAATTAACCC	59.845	38.462	8.09	3.96	0.00	4.11
2783	7358	7.035612	CACTGAAGGCAAAAGGATAATTAACC	58.964	38.462	3.60	3.60	0.00	2.85
2784	7359	7.035612	CCACTGAAGGCAAAAGGATAATTAAC	58.964	38.462	0.00	0.00	0.00	2.01
2785	7360	6.723977	ACCACTGAAGGCAAAAGGATAATTAA	59.276	34.615	0.00	0.00	0.00	1.40
2786	7361	6.152661	CACCACTGAAGGCAAAAGGATAATTA	59.847	38.462	0.00	0.00	0.00	1.40
2788	7363	4.463891	CACCACTGAAGGCAAAAGGATAAT	59.536	41.667	0.00	0.00	0.00	1.28
2789	7364	3.826157	CACCACTGAAGGCAAAAGGATAA	59.174	43.478	0.00	0.00	0.00	1.75
2791	7366	2.242043	CACCACTGAAGGCAAAAGGAT	58.758	47.619	0.00	0.00	0.00	3.24
2792	7367	1.064017	ACACCACTGAAGGCAAAAGGA	60.064	47.619	0.00	0.00	0.00	3.36
2793	7368	1.338020	GACACCACTGAAGGCAAAAGG	59.662	52.381	0.00	0.00	0.00	3.11
2794	7369	1.338020	GGACACCACTGAAGGCAAAAG	59.662	52.381	0.00	0.00	0.00	2.27
2795	7370	1.341482	TGGACACCACTGAAGGCAAAA	60.341	47.619	0.00	0.00	0.00	2.44
2796	7371	0.257328	TGGACACCACTGAAGGCAAA	59.743	50.000	0.00	0.00	0.00	3.68
2797	7372	0.478072	ATGGACACCACTGAAGGCAA	59.522	50.000	0.00	0.00	35.80	4.52
2798	7373	0.250858	CATGGACACCACTGAAGGCA	60.251	55.000	0.00	0.00	35.80	4.75
2799	7374	0.250901	ACATGGACACCACTGAAGGC	60.251	55.000	0.00	0.00	35.80	4.35
2800	7375	1.527034	CACATGGACACCACTGAAGG	58.473	55.000	0.00	0.00	35.80	3.46
2801	7376	0.877071	GCACATGGACACCACTGAAG	59.123	55.000	0.00	0.00	35.80	3.02
2802	7377	0.473755	AGCACATGGACACCACTGAA	59.526	50.000	0.00	0.00	35.80	3.02
2803	7378	0.035317	GAGCACATGGACACCACTGA	59.965	55.000	0.00	0.00	35.80	3.41
2804	7379	0.250424	TGAGCACATGGACACCACTG	60.250	55.000	0.00	0.00	35.80	3.66
2810	9456	1.337703	GCAAAACTGAGCACATGGACA	59.662	47.619	0.00	0.00	0.00	4.02
2813	9459	0.037975	GGGCAAAACTGAGCACATGG	60.038	55.000	0.00	0.00	33.42	3.66
2814	9460	0.963962	AGGGCAAAACTGAGCACATG	59.036	50.000	0.00	0.00	36.38	3.21
2817	9463	0.595095	CTGAGGGCAAAACTGAGCAC	59.405	55.000	0.00	0.00	0.00	4.40
2818	9464	0.473755	TCTGAGGGCAAAACTGAGCA	59.526	50.000	0.00	0.00	0.00	4.26
2822	9468	0.169672	CGCATCTGAGGGCAAAACTG	59.830	55.000	5.18	0.00	0.00	3.16
2825	9471	1.838112	ATTCGCATCTGAGGGCAAAA	58.162	45.000	5.18	0.00	0.00	2.44
2830	9476	0.379669	GCACAATTCGCATCTGAGGG	59.620	55.000	0.00	0.00	0.00	4.30
2831	9477	1.329906	GAGCACAATTCGCATCTGAGG	59.670	52.381	0.00	0.00	0.00	3.86
2833	9479	2.004733	CTGAGCACAATTCGCATCTGA	58.995	47.619	0.00	0.00	0.00	3.27
2834	9480	1.736126	ACTGAGCACAATTCGCATCTG	59.264	47.619	0.00	2.00	0.00	2.90
2835	9481	2.105006	ACTGAGCACAATTCGCATCT	57.895	45.000	0.00	0.00	0.00	2.90
2836	9482	2.907910	AACTGAGCACAATTCGCATC	57.092	45.000	0.00	0.00	0.00	3.91
2837	9483	3.311106	CAAAACTGAGCACAATTCGCAT	58.689	40.909	0.00	0.00	0.00	4.73
2838	9484	2.730069	CAAAACTGAGCACAATTCGCA	58.270	42.857	0.00	0.00	0.00	5.10
2842	9488	1.070601	GGGGCAAAACTGAGCACAATT	59.929	47.619	0.00	0.00	35.37	2.32
2845	9491	0.476338	TAGGGGCAAAACTGAGCACA	59.524	50.000	0.00	0.00	35.37	4.57
2846	9492	1.168714	CTAGGGGCAAAACTGAGCAC	58.831	55.000	0.00	0.00	0.00	4.40
2847	9493	0.771127	ACTAGGGGCAAAACTGAGCA	59.229	50.000	0.00	0.00	0.00	4.26
2849	9495	1.351017	TGGACTAGGGGCAAAACTGAG	59.649	52.381	0.00	0.00	0.00	3.35
2850	9496	1.440618	TGGACTAGGGGCAAAACTGA	58.559	50.000	0.00	0.00	0.00	3.41
2851	9497	2.094675	CATGGACTAGGGGCAAAACTG	58.905	52.381	0.00	0.00	0.00	3.16
2853	9499	0.817654	GCATGGACTAGGGGCAAAAC	59.182	55.000	0.00	0.00	0.00	2.43
2855	9501	0.323360	GTGCATGGACTAGGGGCAAA	60.323	55.000	10.51	0.00	36.08	3.68
2857	9503	1.496444	TTGTGCATGGACTAGGGGCA	61.496	55.000	18.75	0.00	0.00	5.36
2858	9504	1.302949	TTGTGCATGGACTAGGGGC	59.697	57.895	18.75	0.00	0.00	5.80

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.