AutoCloner

Multiple sequence alignment - TraesCS7B01G058400

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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	TraesCS7B01G058400	chr7B	100.000	3603	0	0	1	3603	61055873	61052271	0.000000e+00	6654.0
1	TraesCS7B01G058400	chr7B	74.528	1590	314	69	143	1672	60496970	60495412	3.080000e-170	608.0
2	TraesCS7B01G058400	chr7B	74.520	1511	321	47	165	1635	60605442	60603956	1.850000e-167	599.0
3	TraesCS7B01G058400	chr7B	74.058	1592	316	71	143	1667	60566473	60564912	2.430000e-156	562.0
4	TraesCS7B01G058400	chr7B	73.211	1523	328	52	156	1632	59823535	59822047	2.520000e-131	479.0
5	TraesCS7B01G058400	chr7B	75.666	826	173	17	855	1658	60030688	60029869	1.570000e-103	387.0
6	TraesCS7B01G058400	chr7B	98.113	212	3	1	1217	1428	603943402	603943192	5.680000e-98	368.0
7	TraesCS7B01G058400	chr7B	97.740	177	4	0	2842	3018	680779761	680779585	4.520000e-79	305.0
8	TraesCS7B01G058400	chr7B	74.007	604	128	17	1082	1667	60060325	60059733	6.060000e-53	219.0
9	TraesCS7B01G058400	chr7A	92.842	2794	161	19	65	2841	107559774	107557003	0.000000e+00	4015.0
10	TraesCS7B01G058400	chr7A	74.542	1583	311	67	142	1665	107153523	107151974	1.110000e-169	606.0
11	TraesCS7B01G058400	chr7A	74.274	1446	294	53	253	1667	106745258	106743860	4.090000e-149	538.0
12	TraesCS7B01G058400	chr7A	75.626	919	178	34	783	1667	107322286	107321380	7.200000e-112	414.0
13	TraesCS7B01G058400	chr7A	72.197	1525	340	63	147	1625	107603559	107602073	1.210000e-104	390.0
14	TraesCS7B01G058400	chr7A	95.480	177	8	0	2844	3020	602472387	602472211	2.120000e-72	283.0
15	TraesCS7B01G058400	chr7A	94.536	183	9	1	2838	3020	602471304	602471123	7.620000e-72	281.0
16	TraesCS7B01G058400	chr7A	73.843	562	123	18	143	693	107332958	107332410	6.100000e-48	202.0
17	TraesCS7B01G058400	chr7D	88.509	1549	118	24	1248	2775	102732764	102731255	0.000000e+00	1820.0
18	TraesCS7B01G058400	chr7D	94.310	1195	57	11	65	1252	102739232	102738042	0.000000e+00	1820.0
19	TraesCS7B01G058400	chr7D	72.906	1528	332	67	147	1625	102756139	102754645	1.530000e-123	453.0
20	TraesCS7B01G058400	chr7D	95.676	185	7	1	2836	3020	223854947	223854764	2.720000e-76	296.0
21	TraesCS7B01G058400	chr7D	96.133	181	7	0	2840	3020	402333145	402333325	2.720000e-76	296.0
22	TraesCS7B01G058400	chr7D	100.000	28	0	0	21	48	102739721	102739694	7.000000e-03	52.8
23	TraesCS7B01G058400	chr6B	98.084	522	9	1	3083	3603	120318476	120318997	0.000000e+00	907.0
24	TraesCS7B01G058400	chr6B	93.015	587	39	2	3017	3601	91041773	91042359	0.000000e+00	856.0
25	TraesCS7B01G058400	chr6B	93.538	325	21	0	3277	3601	114956859	114957183	5.410000e-133	484.0
26	TraesCS7B01G058400	chrUn	89.022	501	52	3	3102	3601	34703652	34703154	5.110000e-173	617.0
27	TraesCS7B01G058400	chr3D	86.355	513	62	6	3092	3601	577202205	577202712	1.460000e-153	553.0
28	TraesCS7B01G058400	chr2D	86.066	488	66	2	3115	3601	30764606	30764120	1.150000e-144	523.0
29	TraesCS7B01G058400	chr2B	81.410	468	85	2	3136	3601	740554663	740555130	7.300000e-102	381.0
30	TraesCS7B01G058400	chr5B	96.721	183	5	1	2838	3020	573817961	573817780	1.630000e-78	303.0
31	TraesCS7B01G058400	chr5D	95.263	190	9	0	2831	3020	324479079	324478890	5.850000e-78	302.0
32	TraesCS7B01G058400	chr5D	95.187	187	7	2	2835	3020	173387315	173387500	9.780000e-76	294.0
33	TraesCS7B01G058400	chr4A	78.013	473	93	8	3136	3601	136885718	136885250	1.640000e-73	287.0
34	TraesCS7B01G058400	chr4B	94.536	183	10	0	2838	3020	478145146	478144964	2.120000e-72	283.0
35	TraesCS7B01G058400	chr1D	75.745	470	107	7	3137	3601	432373016	432372549	2.800000e-56	230.0

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	TraesCS7B01G058400	chr7B	61052271	61055873	3602	True	6654.0	6654	100.000	1	3603	1	chr7B.!!$R7	3602
1	TraesCS7B01G058400	chr7B	60495412	60496970	1558	True	608.0	608	74.528	143	1672	1	chr7B.!!$R4	1529
2	TraesCS7B01G058400	chr7B	60603956	60605442	1486	True	599.0	599	74.520	165	1635	1	chr7B.!!$R6	1470
3	TraesCS7B01G058400	chr7B	60564912	60566473	1561	True	562.0	562	74.058	143	1667	1	chr7B.!!$R5	1524
4	TraesCS7B01G058400	chr7B	59822047	59823535	1488	True	479.0	479	73.211	156	1632	1	chr7B.!!$R1	1476
5	TraesCS7B01G058400	chr7B	60029869	60030688	819	True	387.0	387	75.666	855	1658	1	chr7B.!!$R2	803
6	TraesCS7B01G058400	chr7B	60059733	60060325	592	True	219.0	219	74.007	1082	1667	1	chr7B.!!$R3	585
7	TraesCS7B01G058400	chr7A	107557003	107559774	2771	True	4015.0	4015	92.842	65	2841	1	chr7A.!!$R5	2776
8	TraesCS7B01G058400	chr7A	107151974	107153523	1549	True	606.0	606	74.542	142	1665	1	chr7A.!!$R2	1523
9	TraesCS7B01G058400	chr7A	106743860	106745258	1398	True	538.0	538	74.274	253	1667	1	chr7A.!!$R1	1414
10	TraesCS7B01G058400	chr7A	107321380	107322286	906	True	414.0	414	75.626	783	1667	1	chr7A.!!$R3	884
11	TraesCS7B01G058400	chr7A	107602073	107603559	1486	True	390.0	390	72.197	147	1625	1	chr7A.!!$R6	1478
12	TraesCS7B01G058400	chr7A	602471123	602472387	1264	True	282.0	283	95.008	2838	3020	2	chr7A.!!$R7	182
13	TraesCS7B01G058400	chr7A	107332410	107332958	548	True	202.0	202	73.843	143	693	1	chr7A.!!$R4	550
14	TraesCS7B01G058400	chr7D	102731255	102732764	1509	True	1820.0	1820	88.509	1248	2775	1	chr7D.!!$R1	1527
15	TraesCS7B01G058400	chr7D	102738042	102739721	1679	True	936.4	1820	97.155	21	1252	2	chr7D.!!$R4	1231
16	TraesCS7B01G058400	chr7D	102754645	102756139	1494	True	453.0	453	72.906	147	1625	1	chr7D.!!$R2	1478
17	TraesCS7B01G058400	chr6B	120318476	120318997	521	False	907.0	907	98.084	3083	3603	1	chr6B.!!$F3	520
18	TraesCS7B01G058400	chr6B	91041773	91042359	586	False	856.0	856	93.015	3017	3601	1	chr6B.!!$F1	584
19	TraesCS7B01G058400	chr3D	577202205	577202712	507	False	553.0	553	86.355	3092	3601	1	chr3D.!!$F1	509

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	End Stability	Orientation
109	553	0.242017	ATTTGCTGCGAAACCTCTGC	59.758	50.0	6.38	4.26	F
496	958	1.016130	AGACGTTGCTCAGGATTGCG	61.016	55.0	0.00	4.85	F
2407	2949	0.034896	ACAACGTCGGCCAAGATTCT	59.965	50.0	2.24	2.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	End Stability	Orientation
1899	2425	1.979855	ATTGTTGTGCTGCCAGTGTA	58.020	45.000	2.90	R
2438	2980	0.105593	TGATCCGAGGCAGCAGAATC	59.894	55.000	2.52	R
3220	3767	5.557576	TCAATCCTAACTCCTCCATCATG	57.442	43.478	3.07	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
17	18	3.394836	AGGTCCTCCGCTTGCCTC	61.395	66.667	0.00	0.00	39.05	4.70
19	20	4.475135	GTCCTCCGCTTGCCTCCC	62.475	72.222	0.00	0.00	0.00	4.30
109	553	0.242017	ATTTGCTGCGAAACCTCTGC	59.758	50.000	6.38	0.00	0.00	4.26
211	661	1.452651	CCGAGTGCAGGCCATCATT	60.453	57.895	5.01	0.00	0.00	2.57
496	958	1.016130	AGACGTTGCTCAGGATTGCG	61.016	55.000	0.00	0.00	0.00	4.85
693	1155	1.809684	GTGTCTTCAGGGGTTAGTGC	58.190	55.000	0.00	0.00	0.00	4.40
1111	1604	4.481930	TTTTCACATGGTTAGCACTTCG	57.518	40.909	0.00	0.00	0.00	3.79
1125	1618	7.359014	GGTTAGCACTTCGTACTTAAACTTCTG	60.359	40.741	0.00	0.00	0.00	3.02
1143	1640	8.511604	AACTTCTGGGTAATATTTGATGTCTG	57.488	34.615	0.00	0.00	0.00	3.51
1541	2063	4.018597	AGCTTCCCTTCTTGACATCATTCT	60.019	41.667	0.00	0.00	0.00	2.40
1684	2210	3.643320	TGCTAGTATGTTGCATCCTAGCT	59.357	43.478	24.00	0.00	46.75	3.32
1685	2211	4.832823	TGCTAGTATGTTGCATCCTAGCTA	59.167	41.667	24.00	13.82	46.75	3.32
1686	2212	5.047731	TGCTAGTATGTTGCATCCTAGCTAG	60.048	44.000	24.00	14.20	46.75	3.42
1687	2213	4.881019	AGTATGTTGCATCCTAGCTAGG	57.119	45.455	30.94	30.94	45.02	3.02
1696	2222	3.571590	CATCCTAGCTAGGGACAGAAGT	58.428	50.000	34.43	11.59	43.79	3.01
1705	2231	5.419471	AGCTAGGGACAGAAGTTAGTTAGTG	59.581	44.000	0.00	0.00	0.00	2.74
1708	2234	3.251571	GGACAGAAGTTAGTTAGTGCCG	58.748	50.000	0.00	0.00	0.00	5.69
1752	2278	9.167311	ACTTTAAGTATGGACTTTCTAAGCATG	57.833	33.333	0.00	0.00	43.70	4.06
1754	2280	5.041191	AGTATGGACTTTCTAAGCATGGG	57.959	43.478	0.00	0.00	28.61	4.00
1756	2282	7.932510	AGTATGGACTTTCTAAGCATGGGCG	62.933	48.000	0.00	0.00	37.68	6.13
1769	2295	2.233922	GCATGGGCGTACATCTACCTAT	59.766	50.000	0.00	0.00	0.00	2.57
1808	2334	5.163513	GGATGTACTGCACCAAAAATTCTG	58.836	41.667	0.00	0.00	0.00	3.02
1865	2391	6.918022	GCTAAGCATATGATTACCCACAAAAC	59.082	38.462	9.32	0.00	0.00	2.43
1868	2394	6.808829	AGCATATGATTACCCACAAAACATG	58.191	36.000	6.97	0.00	0.00	3.21
1909	2440	8.734386	AGAGAAAAGAAAATAATACACTGGCAG	58.266	33.333	14.16	14.16	0.00	4.85
1910	2441	7.315890	AGAAAAGAAAATAATACACTGGCAGC	58.684	34.615	15.89	0.00	0.00	5.25
1916	2448	1.979855	AATACACTGGCAGCACAACA	58.020	45.000	15.89	0.00	0.00	3.33
1918	2450	1.979855	TACACTGGCAGCACAACAAT	58.020	45.000	15.89	0.00	0.00	2.71
1940	2472	8.928733	ACAATTTGTTCATTTGTATCATGCTTC	58.071	29.630	0.00	0.00	32.09	3.86
1948	2481	8.579850	TCATTTGTATCATGCTTCTTTACCTT	57.420	30.769	0.00	0.00	0.00	3.50
1954	2495	7.994911	TGTATCATGCTTCTTTACCTTGATCAT	59.005	33.333	0.00	0.00	0.00	2.45
1960	2501	3.282021	TCTTTACCTTGATCATGCCTGC	58.718	45.455	0.00	0.00	0.00	4.85
1969	2510	3.363627	TGATCATGCCTGCCATTTTGTA	58.636	40.909	0.00	0.00	29.71	2.41
1971	2512	4.406326	TGATCATGCCTGCCATTTTGTATT	59.594	37.500	0.00	0.00	29.71	1.89
1980	2521	7.763528	TGCCTGCCATTTTGTATTAAAATGTAG	59.236	33.333	18.35	15.79	42.84	2.74
1982	2523	9.086336	CCTGCCATTTTGTATTAAAATGTAGTG	57.914	33.333	18.35	8.55	42.84	2.74
1984	2525	8.090831	TGCCATTTTGTATTAAAATGTAGTGCA	58.909	29.630	18.35	17.01	42.84	4.57
2057	2598	5.923204	TCAAAGTTACGGGTTTACCTACAA	58.077	37.500	0.00	0.00	36.97	2.41
2077	2619	7.339466	CCTACAACCATGCTTACCTTTTATCTT	59.661	37.037	0.00	0.00	0.00	2.40
2104	2646	1.226717	CTGTCTAGGTTCGCCGCTC	60.227	63.158	0.00	0.00	43.66	5.03
2134	2676	5.877012	TGATCTTTCTACTGCCATCTTGAAC	59.123	40.000	0.00	0.00	0.00	3.18
2149	2691	2.380084	TGAACATAACTGGAGGCGAC	57.620	50.000	0.00	0.00	0.00	5.19
2193	2735	1.220749	GGTTAGGCGCAGATCCACA	59.779	57.895	10.83	0.00	0.00	4.17
2200	2742	1.212751	CGCAGATCCACAGTCGTCA	59.787	57.895	0.00	0.00	0.00	4.35
2205	2747	0.456221	GATCCACAGTCGTCATCGGT	59.544	55.000	0.00	0.00	37.69	4.69
2206	2748	0.173481	ATCCACAGTCGTCATCGGTG	59.827	55.000	0.00	0.00	37.69	4.94
2207	2749	1.446099	CCACAGTCGTCATCGGTGG	60.446	63.158	0.00	0.00	39.23	4.61
2212	2754	0.970937	AGTCGTCATCGGTGGGTGAT	60.971	55.000	0.00	0.00	37.69	3.06
2219	2761	4.415150	CGGTGGGTGATGGCAGCT	62.415	66.667	3.69	0.00	42.08	4.24
2227	2769	3.474570	GATGGCAGCTCCGACCCT	61.475	66.667	0.00	0.00	37.80	4.34
2236	2778	1.141881	CTCCGACCCTGATTCCACG	59.858	63.158	0.00	0.00	0.00	4.94
2287	2829	3.518590	GTTCGTCATCACCGGAGTTATT	58.481	45.455	9.46	0.00	0.00	1.40
2290	2832	2.534349	CGTCATCACCGGAGTTATTTCG	59.466	50.000	9.46	0.00	0.00	3.46
2300	2842	3.487574	CGGAGTTATTTCGACTCTCATGC	59.512	47.826	4.49	0.00	42.44	4.06
2324	2866	0.753111	GGTAAGCATTGGGAGGCTGG	60.753	60.000	0.00	0.00	43.08	4.85
2351	2893	1.682684	AGCCGTACCAGTGGGAGAG	60.683	63.158	15.21	1.55	38.05	3.20
2356	2898	1.682394	CGTACCAGTGGGAGAGTAGCT	60.682	57.143	15.21	0.00	38.05	3.32
2369	2911	4.323104	GGAGAGTAGCTGATGTGGAAAGTT	60.323	45.833	0.00	0.00	0.00	2.66
2375	2917	5.130292	AGCTGATGTGGAAAGTTTCAATG	57.870	39.130	17.16	1.81	0.00	2.82
2378	2920	5.199024	TGATGTGGAAAGTTTCAATGGTG	57.801	39.130	17.16	0.00	0.00	4.17
2379	2921	4.039004	TGATGTGGAAAGTTTCAATGGTGG	59.961	41.667	17.16	0.00	0.00	4.61
2391	2933	0.260230	AATGGTGGTGGTGGTGACAA	59.740	50.000	0.00	0.00	46.06	3.18
2403	2945	1.593209	GTGACAACGTCGGCCAAGA	60.593	57.895	2.24	0.00	34.95	3.02
2407	2949	0.034896	ACAACGTCGGCCAAGATTCT	59.965	50.000	2.24	0.00	0.00	2.40
2408	2950	0.721718	CAACGTCGGCCAAGATTCTC	59.278	55.000	2.24	0.00	0.00	2.87
2413	2955	2.699954	GTCGGCCAAGATTCTCTTCAA	58.300	47.619	2.24	0.00	33.78	2.69
2427	2969	4.665451	TCTCTTCAATTGGAGAATGGCAA	58.335	39.130	17.27	0.00	35.91	4.52
2452	2994	2.169789	CCACGATTCTGCTGCCTCG	61.170	63.158	0.00	11.22	37.17	4.63
2470	3012	0.613260	CGGATCAACCCCTCTGTGAA	59.387	55.000	0.00	0.00	34.64	3.18
2471	3013	1.003118	CGGATCAACCCCTCTGTGAAA	59.997	52.381	0.00	0.00	34.64	2.69
2475	3017	1.228154	AACCCCTCTGTGAAACCGC	60.228	57.895	0.00	0.00	34.36	5.68
2479	3021	1.566018	CCCTCTGTGAAACCGCGAAC	61.566	60.000	8.23	0.00	34.36	3.95
2492	3034	1.741770	GCGAACAGCGAGTCCCATT	60.742	57.895	0.00	0.00	44.57	3.16
2512	3054	1.589716	GGCGCTTTGAGAATGCTGGT	61.590	55.000	7.64	0.00	0.00	4.00
2551	3093	1.518572	GCAGCAGAATGGCATGCAC	60.519	57.895	21.36	9.64	45.01	4.57
2598	3140	4.134379	TCCAGATTGAGATGAGAACTGC	57.866	45.455	0.00	0.00	0.00	4.40
2603	3145	3.325293	TTGAGATGAGAACTGCCTGAC	57.675	47.619	0.00	0.00	0.00	3.51
2641	3183	3.441101	AGTGCAGTATCCTCAAGGTGTA	58.559	45.455	0.00	0.00	36.34	2.90
2672	3214	9.827411	GAACTTGTGATCCTTATTTTTGAGTAC	57.173	33.333	0.00	0.00	0.00	2.73
2678	3220	7.065923	GTGATCCTTATTTTTGAGTACCCTGTC	59.934	40.741	0.00	0.00	0.00	3.51
2697	3239	5.278907	CCTGTCATGTTGCCTTGAATTTGTA	60.279	40.000	0.00	0.00	0.00	2.41
2705	3247	9.941325	ATGTTGCCTTGAATTTGTAATGAATAA	57.059	25.926	0.00	0.00	0.00	1.40
2818	3363	6.019075	TCGCTCACTCGGTTGATATATTTTTG	60.019	38.462	0.00	0.00	0.00	2.44
2819	3364	5.909610	GCTCACTCGGTTGATATATTTTTGC	59.090	40.000	0.00	0.00	0.00	3.68
2841	3386	3.753272	CGGTTTTGGCATGAGGGATATAG	59.247	47.826	0.00	0.00	0.00	1.31
2842	3387	4.082125	GGTTTTGGCATGAGGGATATAGG	58.918	47.826	0.00	0.00	0.00	2.57
2843	3388	3.439857	TTTGGCATGAGGGATATAGGC	57.560	47.619	0.00	0.00	0.00	3.93
2877	3422	1.719600	CTTCAGGAGCCAGTTTCTCG	58.280	55.000	0.00	0.00	0.00	4.04
2879	3424	0.318441	TCAGGAGCCAGTTTCTCGTG	59.682	55.000	6.41	6.41	43.76	4.35
2944	3489	0.954452	GTGGAGACAGCCCAAAACAG	59.046	55.000	0.00	0.00	44.46	3.16
2997	3542	1.135083	CGACCAGATGCGTACTTTCCT	60.135	52.381	0.00	0.00	0.00	3.36
2998	3543	2.098607	CGACCAGATGCGTACTTTCCTA	59.901	50.000	0.00	0.00	0.00	2.94
3045	3591	1.956629	TTTTCTCCTCTAGGGCGGCG	61.957	60.000	0.51	0.51	35.41	6.46
3182	3729	3.620719	GCAAGAGAACATGGAGGATGTCA	60.621	47.826	0.00	0.00	45.12	3.58
3205	3752	3.782443	GGATCGGGACAGGCGGTT	61.782	66.667	0.00	0.00	0.00	4.44
3523	4070	1.813753	CGTGGTCATTGCCCCGTAG	60.814	63.158	0.00	0.00	0.00	3.51

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	3.394836	GAGGCAAGCGGAGGACCT	61.395	66.667	0.00	0.00	0.00	3.85
1	2	4.475135	GGAGGCAAGCGGAGGACC	62.475	72.222	0.00	0.00	0.00	4.46
60	61	2.887454	AATGGGGGAAAATTAGGGGG	57.113	50.000	0.00	0.00	0.00	5.40
61	62	4.552883	AGTAATGGGGGAAAATTAGGGG	57.447	45.455	0.00	0.00	0.00	4.79
63	64	7.500141	CATCAAAGTAATGGGGGAAAATTAGG	58.500	38.462	0.00	0.00	0.00	2.69
109	553	5.059404	AGGTCAAACTTTTGGATTATGCG	57.941	39.130	1.94	0.00	38.66	4.73
211	661	2.158740	TGTCGATGTTTGAGGAACCCAA	60.159	45.455	0.00	0.00	37.45	4.12
286	739	0.113385	TTGGGGAAATGCCGGAGAAA	59.887	50.000	5.05	0.00	37.63	2.52
496	958	1.172812	AACCTTCTTTCTGCGGCACC	61.173	55.000	0.00	0.00	0.00	5.01
693	1155	5.469373	TGCAAGTATGTATGAGAAAAGCG	57.531	39.130	0.00	0.00	0.00	4.68
1541	2063	4.804597	TCCTTATTCCGAGGATCAGAGAA	58.195	43.478	0.00	0.00	38.37	2.87
1647	2173	8.268850	ACATACTAGCACTTAAAGGACAAATG	57.731	34.615	0.00	0.00	0.00	2.32
1659	2185	4.494091	AGGATGCAACATACTAGCACTT	57.506	40.909	0.00	0.00	41.60	3.16
1684	2210	4.465305	GGCACTAACTAACTTCTGTCCCTA	59.535	45.833	0.00	0.00	0.00	3.53
1685	2211	3.261137	GGCACTAACTAACTTCTGTCCCT	59.739	47.826	0.00	0.00	0.00	4.20
1686	2212	3.597255	GGCACTAACTAACTTCTGTCCC	58.403	50.000	0.00	0.00	0.00	4.46
1687	2213	3.251571	CGGCACTAACTAACTTCTGTCC	58.748	50.000	0.00	0.00	0.00	4.02
1727	2253	8.616076	CCATGCTTAGAAAGTCCATACTTAAAG	58.384	37.037	0.00	0.00	45.37	1.85
1728	2254	7.556275	CCCATGCTTAGAAAGTCCATACTTAAA	59.444	37.037	0.00	0.00	45.37	1.52
1729	2255	7.054124	CCCATGCTTAGAAAGTCCATACTTAA	58.946	38.462	0.00	0.00	45.37	1.85
1730	2256	6.591935	CCCATGCTTAGAAAGTCCATACTTA	58.408	40.000	0.00	0.00	45.37	2.24
1731	2257	6.152611	GCCCATGCTTAGAAAGTCCATACTT	61.153	44.000	0.00	0.00	40.18	2.24
1740	2266	2.627945	TGTACGCCCATGCTTAGAAAG	58.372	47.619	0.00	0.00	34.43	2.62
1752	2278	4.275810	TGGATATAGGTAGATGTACGCCC	58.724	47.826	0.00	0.00	0.00	6.13
1786	2312	5.858581	GTCAGAATTTTTGGTGCAGTACATC	59.141	40.000	0.00	0.00	0.00	3.06
1808	2334	9.916397	GCACTACAATATGTAAGTATGTTTGTC	57.084	33.333	0.00	0.00	31.67	3.18
1865	2391	7.760131	TTTCTCTGAAGAAAAGCAAAACATG	57.240	32.000	0.00	0.00	46.09	3.21
1882	2408	8.514594	TGCCAGTGTATTATTTTCTTTTCTCTG	58.485	33.333	0.00	0.00	0.00	3.35
1896	2422	3.133141	TGTTGTGCTGCCAGTGTATTA	57.867	42.857	0.00	0.00	0.00	0.98
1899	2425	1.979855	ATTGTTGTGCTGCCAGTGTA	58.020	45.000	0.00	0.00	0.00	2.90
1916	2448	9.715121	AAGAAGCATGATACAAATGAACAAATT	57.285	25.926	0.00	0.00	0.00	1.82
1940	2472	2.360165	GGCAGGCATGATCAAGGTAAAG	59.640	50.000	0.62	0.00	0.00	1.85
1948	2481	2.181125	ACAAAATGGCAGGCATGATCA	58.819	42.857	10.84	0.00	0.00	2.92
1954	2495	6.471146	ACATTTTAATACAAAATGGCAGGCA	58.529	32.000	20.52	0.00	46.44	4.75
2000	2541	5.013079	AGTGGAATGGAGATGTACAAAGTCA	59.987	40.000	0.00	0.00	0.00	3.41
2034	2575	5.543507	TGTAGGTAAACCCGTAACTTTGA	57.456	39.130	0.00	0.00	38.74	2.69
2036	2577	5.063204	GGTTGTAGGTAAACCCGTAACTTT	58.937	41.667	0.00	0.00	41.10	2.66
2051	2592	6.828785	AGATAAAAGGTAAGCATGGTTGTAGG	59.171	38.462	20.13	0.00	0.00	3.18
2057	2598	5.888161	CCTGAAGATAAAAGGTAAGCATGGT	59.112	40.000	0.00	0.00	0.00	3.55
2077	2619	2.166459	CGAACCTAGACAGAATGCCTGA	59.834	50.000	0.00	0.00	45.78	3.86
2104	2646	2.286294	GGCAGTAGAAAGATCATGCACG	59.714	50.000	0.00	0.00	35.01	5.34
2134	2676	0.249073	CCTCGTCGCCTCCAGTTATG	60.249	60.000	0.00	0.00	0.00	1.90
2149	2691	2.159099	TCGTTGAATCCTCAATCCCTCG	60.159	50.000	0.00	0.00	43.39	4.63
2193	2735	0.970937	ATCACCCACCGATGACGACT	60.971	55.000	0.00	0.00	42.66	4.18
2200	2742	2.591753	CTGCCATCACCCACCGAT	59.408	61.111	0.00	0.00	0.00	4.18
2205	2747	4.100084	CGGAGCTGCCATCACCCA	62.100	66.667	0.00	0.00	35.94	4.51
2206	2748	3.785859	TCGGAGCTGCCATCACCC	61.786	66.667	0.00	0.00	35.94	4.61
2207	2749	2.512515	GTCGGAGCTGCCATCACC	60.513	66.667	0.00	0.00	35.94	4.02
2219	2761	3.014085	GCGTGGAATCAGGGTCGGA	62.014	63.158	0.00	0.00	0.00	4.55
2227	2769	3.899734	CAAACTGATTTGCGTGGAATCA	58.100	40.909	8.98	8.98	38.92	2.57
2244	2786	2.427410	CAGCGACGCTTGGCAAAC	60.427	61.111	21.97	0.00	36.40	2.93
2266	2808	2.642139	TAACTCCGGTGATGACGAAC	57.358	50.000	11.17	0.00	0.00	3.95
2287	2829	0.108472	CCAGCAGCATGAGAGTCGAA	60.108	55.000	0.00	0.00	39.69	3.71
2290	2832	2.548875	CTTACCAGCAGCATGAGAGTC	58.451	52.381	0.00	0.00	39.69	3.36
2324	2866	1.369091	CTGGTACGGCTGGCATGAAC	61.369	60.000	0.00	0.00	0.00	3.18
2338	2880	1.639108	TCAGCTACTCTCCCACTGGTA	59.361	52.381	0.00	0.00	0.00	3.25
2351	2893	5.689383	TTGAAACTTTCCACATCAGCTAC	57.311	39.130	0.00	0.00	0.00	3.58
2356	2898	4.039004	CCACCATTGAAACTTTCCACATCA	59.961	41.667	0.00	0.00	0.00	3.07
2369	2911	0.553333	TCACCACCACCACCATTGAA	59.447	50.000	0.00	0.00	0.00	2.69
2375	2917	2.184167	CGTTGTCACCACCACCACC	61.184	63.158	0.00	0.00	0.00	4.61
2378	2920	2.241880	CGACGTTGTCACCACCACC	61.242	63.158	0.00	0.00	32.09	4.61
2379	2921	2.241880	CCGACGTTGTCACCACCAC	61.242	63.158	1.30	0.00	32.09	4.16
2391	2933	4.913126	GAGAATCTTGGCCGACGT	57.087	55.556	0.00	0.00	0.00	4.34
2407	2949	4.151121	TGTTGCCATTCTCCAATTGAAGA	58.849	39.130	7.12	0.00	0.00	2.87
2408	2950	4.524316	TGTTGCCATTCTCCAATTGAAG	57.476	40.909	7.12	0.00	0.00	3.02
2413	2955	2.961062	GCCTATGTTGCCATTCTCCAAT	59.039	45.455	0.00	0.00	32.29	3.16
2427	2969	0.833287	AGCAGAATCGTGGCCTATGT	59.167	50.000	3.32	0.00	0.00	2.29
2434	2976	2.169789	CGAGGCAGCAGAATCGTGG	61.170	63.158	0.00	0.00	0.00	4.94
2438	2980	0.105593	TGATCCGAGGCAGCAGAATC	59.894	55.000	0.00	0.00	0.00	2.52
2439	2981	0.543277	TTGATCCGAGGCAGCAGAAT	59.457	50.000	0.00	0.00	0.00	2.40
2452	2994	2.437413	GTTTCACAGAGGGGTTGATCC	58.563	52.381	0.00	0.00	0.00	3.36
2475	3017	1.361668	CCAATGGGACTCGCTGTTCG	61.362	60.000	0.00	0.00	35.59	3.95
2479	3021	3.197790	CGCCAATGGGACTCGCTG	61.198	66.667	0.00	0.00	35.59	5.18
2492	3034	1.588824	CCAGCATTCTCAAAGCGCCA	61.589	55.000	2.29	0.00	0.00	5.69
2564	3106	2.273538	ATCTGGATGGATTCTGCAGC	57.726	50.000	9.47	0.00	0.00	5.25
2598	3140	4.760530	TCCCTATCAACTTCATGTCAGG	57.239	45.455	0.00	0.00	0.00	3.86
2603	3145	4.264253	TGCACTTCCCTATCAACTTCATG	58.736	43.478	0.00	0.00	0.00	3.07
2641	3183	9.480053	CAAAAATAAGGATCACAAGTTCACAAT	57.520	29.630	0.00	0.00	0.00	2.71
2666	3208	1.003118	GGCAACATGACAGGGTACTCA	59.997	52.381	0.00	0.00	0.00	3.41
2672	3214	1.619654	TTCAAGGCAACATGACAGGG	58.380	50.000	0.00	0.00	45.35	4.45
2678	3220	7.655236	TTCATTACAAATTCAAGGCAACATG	57.345	32.000	0.00	0.00	41.41	3.21
2818	3363	1.322538	ATCCCTCATGCCAAAACCGC	61.323	55.000	0.00	0.00	0.00	5.68
2819	3364	2.051334	TATCCCTCATGCCAAAACCG	57.949	50.000	0.00	0.00	0.00	4.44
2843	3388	3.378112	TCCTGAAGCTGAAACAAACACAG	59.622	43.478	0.00	0.00	35.14	3.66
2862	3407	0.832135	TCCACGAGAAACTGGCTCCT	60.832	55.000	0.00	0.00	0.00	3.69
2944	3489	0.110373	CACGTAAAACAGGCCGAAGC	60.110	55.000	0.00	0.00	38.76	3.86
2997	3542	1.687123	GAATCCCTACCAGCTTCGCTA	59.313	52.381	0.00	0.00	36.40	4.26
2998	3543	0.466124	GAATCCCTACCAGCTTCGCT	59.534	55.000	0.00	0.00	40.77	4.93
3007	3552	3.920231	AAACCCTAACGAATCCCTACC	57.080	47.619	0.00	0.00	0.00	3.18
3182	3729	2.134287	CCTGTCCCGATCCCGATGT	61.134	63.158	0.00	0.00	38.22	3.06
3205	3752	0.690744	TCATGGCCTCCAGATCGGAA	60.691	55.000	3.32	0.00	45.75	4.30
3220	3767	5.557576	TCAATCCTAACTCCTCCATCATG	57.442	43.478	0.00	0.00	0.00	3.07

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.