AutoCloner

Multiple sequence alignment - TraesCS4A01G476800

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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	TraesCS4A01G476800	chr4A	100.000	3542	0	0	1	3542	735067009	735063468	0.000000e+00	6541.0
1	TraesCS4A01G476800	chr4A	93.038	2686	137	24	900	3542	736937276	736934598	0.000000e+00	3879.0
2	TraesCS4A01G476800	chr4A	94.451	1676	85	2	906	2576	736317121	736318793	0.000000e+00	2573.0
3	TraesCS4A01G476800	chr4A	95.863	1426	59	0	1151	2576	735868516	735867091	0.000000e+00	2307.0
4	TraesCS4A01G476800	chr4A	93.448	931	61	0	1646	2576	735158125	735157195	0.000000e+00	1382.0
5	TraesCS4A01G476800	chr4A	93.340	931	62	0	1646	2576	735948058	735947128	0.000000e+00	1376.0
6	TraesCS4A01G476800	chr4A	90.194	979	66	7	2571	3542	735947104	735946149	0.000000e+00	1249.0
7	TraesCS4A01G476800	chr4A	90.082	978	66	8	2571	3542	735157171	735156219	0.000000e+00	1240.0
8	TraesCS4A01G476800	chr4A	91.322	726	36	14	123	828	735870532	735869814	0.000000e+00	966.0
9	TraesCS4A01G476800	chr4A	90.123	486	43	2	3061	3542	736319273	736319757	8.350000e-176	627.0
10	TraesCS4A01G476800	chr4A	89.855	483	46	3	3061	3542	735866622	735866142	5.020000e-173	617.0
11	TraesCS4A01G476800	chr4A	90.969	454	35	3	2575	3023	736318824	736319276	1.090000e-169	606.0
12	TraesCS4A01G476800	chr4A	89.427	454	40	3	2571	3023	735867065	735866619	1.850000e-157	566.0
13	TraesCS4A01G476800	chr4A	95.417	240	7	2	921	1160	735869830	735869595	2.580000e-101	379.0
14	TraesCS4A01G476800	chr4A	90.514	253	12	6	588	837	736937484	736937241	1.230000e-84	324.0
15	TraesCS4A01G476800	chr4A	85.366	287	23	8	123	409	736951243	736950976	2.690000e-71	279.0
16	TraesCS4A01G476800	chr4A	94.393	107	6	0	1	107	735870622	735870516	7.870000e-37	165.0
17	TraesCS4A01G476800	chr4A	93.333	105	3	1	123	223	736315243	736315347	6.120000e-33	152.0
18	TraesCS4A01G476800	chr4A	95.402	87	3	1	18	103	736951317	736951231	1.710000e-28	137.0
19	TraesCS4A01G476800	chr4A	94.667	75	4	0	33	107	736315185	736315259	2.230000e-22	117.0
20	TraesCS4A01G476800	chr4A	88.172	93	7	4	223	312	736316786	736316877	1.340000e-19	108.0
21	TraesCS4A01G476800	chr4A	91.071	56	4	1	834	888	610825949	610825894	1.360000e-09	75.0
22	TraesCS4A01G476800	chr7D	95.077	1686	71	4	900	2576	5425403	5427085	0.000000e+00	2643.0
23	TraesCS4A01G476800	chr7D	92.608	487	32	2	3060	3542	5427560	5428046	0.000000e+00	697.0
24	TraesCS4A01G476800	chr7D	91.974	461	24	7	2571	3023	5427109	5427564	4.990000e-178	634.0
25	TraesCS4A01G476800	chr7D	88.538	253	19	5	588	837	5425193	5425438	7.430000e-77	298.0
26	TraesCS4A01G476800	chr7D	91.228	57	3	2	832	888	61755923	61755977	3.790000e-10	76.8
27	TraesCS4A01G476800	chr7A	91.875	1637	112	10	957	2575	6882658	6884291	0.000000e+00	2266.0
28	TraesCS4A01G476800	chr7A	90.462	671	56	6	2571	3235	6884316	6884984	0.000000e+00	878.0
29	TraesCS4A01G476800	chr7A	90.421	261	25	0	3282	3542	6884981	6885241	9.410000e-91	344.0
30	TraesCS4A01G476800	chr7A	89.610	231	16	4	599	821	6882247	6882477	1.610000e-73	287.0
31	TraesCS4A01G476800	chr7A	89.595	173	12	3	419	591	6881526	6881692	7.700000e-52	215.0
32	TraesCS4A01G476800	chr7A	90.164	61	4	2	832	892	589746668	589746726	1.050000e-10	78.7
33	TraesCS4A01G476800	chrUn	83.257	1535	220	20	1035	2540	89192383	89193909	0.000000e+00	1376.0
34	TraesCS4A01G476800	chr3B	77.165	635	125	16	2899	3518	423457942	423458571	5.630000e-93	351.0
35	TraesCS4A01G476800	chr1B	76.399	661	125	24	2899	3540	671486144	671485496	9.480000e-86	327.0
36	TraesCS4A01G476800	chr6A	80.940	383	61	8	2898	3273	199161120	199161497	3.460000e-75	292.0
37	TraesCS4A01G476800	chr6A	89.831	59	4	2	831	888	24174021	24174078	1.360000e-09	75.0
38	TraesCS4A01G476800	chr5D	77.636	313	63	5	2900	3209	362010701	362011009	2.170000e-42	183.0
39	TraesCS4A01G476800	chr5D	91.071	56	4	1	833	888	219526742	219526688	1.360000e-09	75.0
40	TraesCS4A01G476800	chr2B	91.525	59	3	2	831	888	653690468	653690411	2.930000e-11	80.5
41	TraesCS4A01G476800	chr3A	91.379	58	4	1	831	888	739908446	739908502	1.050000e-10	78.7
42	TraesCS4A01G476800	chr5B	91.071	56	4	1	831	886	548312951	548312897	1.360000e-09	75.0
43	TraesCS4A01G476800	chr4B	85.714	70	10	0	3466	3535	647572328	647572259	1.360000e-09	75.0
44	TraesCS4A01G476800	chr1D	91.071	56	4	1	833	888	2500271	2500325	1.360000e-09	75.0

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	TraesCS4A01G476800	chr4A	735063468	735067009	3541	True	6541.000000	6541	100.000000	1	3542	1	chr4A.!!$R2	3541
1	TraesCS4A01G476800	chr4A	736934598	736937484	2886	True	2101.500000	3879	91.776000	588	3542	2	chr4A.!!$R6	2954
2	TraesCS4A01G476800	chr4A	735946149	735948058	1909	True	1312.500000	1376	91.767000	1646	3542	2	chr4A.!!$R5	1896
3	TraesCS4A01G476800	chr4A	735156219	735158125	1906	True	1311.000000	1382	91.765000	1646	3542	2	chr4A.!!$R3	1896
4	TraesCS4A01G476800	chr4A	735866142	735870622	4480	True	833.333333	2307	92.712833	1	3542	6	chr4A.!!$R4	3541
5	TraesCS4A01G476800	chr4A	736315185	736319757	4572	False	697.166667	2573	91.952500	33	3542	6	chr4A.!!$F1	3509
6	TraesCS4A01G476800	chr7D	5425193	5428046	2853	False	1068.000000	2643	92.049250	588	3542	4	chr7D.!!$F2	2954
7	TraesCS4A01G476800	chr7A	6881526	6885241	3715	False	798.000000	2266	90.392600	419	3542	5	chr7A.!!$F2	3123
8	TraesCS4A01G476800	chrUn	89192383	89193909	1526	False	1376.000000	1376	83.257000	1035	2540	1	chrUn.!!$F1	1505
9	TraesCS4A01G476800	chr3B	423457942	423458571	629	False	351.000000	351	77.165000	2899	3518	1	chr3B.!!$F1	619
10	TraesCS4A01G476800	chr1B	671485496	671486144	648	True	327.000000	327	76.399000	2899	3540	1	chr1B.!!$R1	641

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
805	2812	1.068121	AAGGCCTTCCTGCAAGTACT	58.932	50.0	13.78	0.0	43.4	2.73	F
1623	4896	0.178978	TGCCACCTGTAATTGTGCCA	60.179	50.0	0.00	0.0	0.0	4.92	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2466	5754	0.169672	CAACTGATGGCTTTGGCTCG	59.830	55.0	0.0	0.0	38.73	5.03	R
2962	6305	0.032952	GTGTACTCTCAACCGTGCCA	59.967	55.0	0.0	0.0	0.00	4.92	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
98	99	8.478775	AGGTAGATTGCACATACATAGTAAGA	57.521	34.615	0.00	0.00	0.00	2.10
106	107	9.899661	TTGCACATACATAGTAAGAATAACCTT	57.100	29.630	0.00	0.00	0.00	3.50
107	108	9.542462	TGCACATACATAGTAAGAATAACCTTC	57.458	33.333	0.00	0.00	0.00	3.46
108	109	8.700644	GCACATACATAGTAAGAATAACCTTCG	58.299	37.037	0.00	0.00	0.00	3.79
109	110	8.700644	CACATACATAGTAAGAATAACCTTCGC	58.299	37.037	0.00	0.00	0.00	4.70
110	111	7.871463	ACATACATAGTAAGAATAACCTTCGCC	59.129	37.037	0.00	0.00	0.00	5.54
111	112	6.481434	ACATAGTAAGAATAACCTTCGCCT	57.519	37.500	0.00	0.00	0.00	5.52
112	113	6.281405	ACATAGTAAGAATAACCTTCGCCTG	58.719	40.000	0.00	0.00	0.00	4.85
113	114	3.532542	AGTAAGAATAACCTTCGCCTGC	58.467	45.455	0.00	0.00	0.00	4.85
114	115	2.489938	AAGAATAACCTTCGCCTGCA	57.510	45.000	0.00	0.00	0.00	4.41
115	116	2.489938	AGAATAACCTTCGCCTGCAA	57.510	45.000	0.00	0.00	0.00	4.08
116	117	2.790433	AGAATAACCTTCGCCTGCAAA	58.210	42.857	0.00	0.00	0.00	3.68
117	118	3.153919	AGAATAACCTTCGCCTGCAAAA	58.846	40.909	0.00	0.00	0.00	2.44
118	119	3.572255	AGAATAACCTTCGCCTGCAAAAA	59.428	39.130	0.00	0.00	0.00	1.94
227	232	8.859236	AGTAAGTTTAATAAAGGTCCAAGGTC	57.141	34.615	0.00	0.00	0.00	3.85
228	233	7.886970	AGTAAGTTTAATAAAGGTCCAAGGTCC	59.113	37.037	0.00	0.00	0.00	4.46
229	234	6.208840	AGTTTAATAAAGGTCCAAGGTCCA	57.791	37.500	5.21	0.00	0.00	4.02
230	235	6.008331	AGTTTAATAAAGGTCCAAGGTCCAC	58.992	40.000	5.21	0.00	0.00	4.02
231	236	5.853572	TTAATAAAGGTCCAAGGTCCACT	57.146	39.130	5.21	0.00	0.00	4.00
274	1718	7.076842	ACCGATGTTTCTGATTATTGTGAAG	57.923	36.000	0.00	0.00	0.00	3.02
341	1788	2.159043	TGCTTTTCATCACCCGCAAAAA	60.159	40.909	0.00	0.00	0.00	1.94
396	1843	4.264253	TCATCACTGGAGCAGTAATTTGG	58.736	43.478	0.00	0.00	43.43	3.28
418	1865	6.991938	TGGAGAAGAAGAAGAAGAAGAAGAG	58.008	40.000	0.00	0.00	0.00	2.85
419	1866	6.780031	TGGAGAAGAAGAAGAAGAAGAAGAGA	59.220	38.462	0.00	0.00	0.00	3.10
421	1868	7.598869	GGAGAAGAAGAAGAAGAAGAAGAGAAC	59.401	40.741	0.00	0.00	0.00	3.01
468	1918	7.610865	AGTAAAATGTGGACCAAATGTAATGG	58.389	34.615	0.00	0.00	43.84	3.16
579	2030	7.604164	CAGCAGTAATTTGGAGAAGAAGAGTAA	59.396	37.037	0.00	0.00	0.00	2.24
662	2660	1.667724	GAGTTGGCTGAATGGTCGATG	59.332	52.381	0.00	0.00	0.00	3.84
761	2768	3.058639	GCTTCTCAGCGTCATGTTTCTTT	60.059	43.478	0.00	0.00	35.91	2.52
771	2778	3.057019	TCATGTTTCTTTCGACGACCTG	58.943	45.455	0.00	0.00	0.00	4.00
801	2808	3.845781	TCTATAAGGCCTTCCTGCAAG	57.154	47.619	24.49	11.31	43.40	4.01
802	2809	3.115390	TCTATAAGGCCTTCCTGCAAGT	58.885	45.455	24.49	0.00	43.40	3.16
803	2810	4.295201	TCTATAAGGCCTTCCTGCAAGTA	58.705	43.478	24.49	0.18	43.40	2.24
804	2811	2.781681	TAAGGCCTTCCTGCAAGTAC	57.218	50.000	24.49	0.00	43.40	2.73
805	2812	1.068121	AAGGCCTTCCTGCAAGTACT	58.932	50.000	13.78	0.00	43.40	2.73
806	2813	1.952621	AGGCCTTCCTGCAAGTACTA	58.047	50.000	0.00	0.00	42.34	1.82
807	2814	2.482494	AGGCCTTCCTGCAAGTACTAT	58.518	47.619	0.00	0.00	42.34	2.12
808	2815	3.654273	AGGCCTTCCTGCAAGTACTATA	58.346	45.455	0.00	0.00	42.34	1.31
809	2816	4.235372	AGGCCTTCCTGCAAGTACTATAT	58.765	43.478	0.00	0.00	42.34	0.86
810	2817	4.660771	AGGCCTTCCTGCAAGTACTATATT	59.339	41.667	0.00	0.00	42.34	1.28
811	2818	4.757149	GGCCTTCCTGCAAGTACTATATTG	59.243	45.833	0.00	0.00	0.00	1.90
812	2819	5.368989	GCCTTCCTGCAAGTACTATATTGT	58.631	41.667	0.00	0.00	0.00	2.71
813	2820	6.463897	GGCCTTCCTGCAAGTACTATATTGTA	60.464	42.308	0.00	0.00	0.00	2.41
814	2821	7.162082	GCCTTCCTGCAAGTACTATATTGTAT	58.838	38.462	0.00	0.00	0.00	2.29
815	2822	7.118390	GCCTTCCTGCAAGTACTATATTGTATG	59.882	40.741	0.00	0.00	0.00	2.39
816	2823	7.118390	CCTTCCTGCAAGTACTATATTGTATGC	59.882	40.741	12.94	12.94	32.27	3.14
817	2824	7.061566	TCCTGCAAGTACTATATTGTATGCA	57.938	36.000	18.29	18.29	36.60	3.96
818	2825	6.929049	TCCTGCAAGTACTATATTGTATGCAC	59.071	38.462	16.53	1.95	35.09	4.57
819	2826	6.705825	CCTGCAAGTACTATATTGTATGCACA	59.294	38.462	16.53	7.00	35.09	4.57
836	2843	4.012319	GCACAAACATGCAGTAGAGATG	57.988	45.455	0.00	0.00	45.39	2.90
837	2844	3.438087	GCACAAACATGCAGTAGAGATGT	59.562	43.478	0.00	0.00	45.39	3.06
838	2845	4.631377	GCACAAACATGCAGTAGAGATGTA	59.369	41.667	0.00	0.00	45.39	2.29
839	2846	5.295292	GCACAAACATGCAGTAGAGATGTAT	59.705	40.000	0.00	0.00	45.39	2.29
840	2847	6.510799	GCACAAACATGCAGTAGAGATGTATC	60.511	42.308	0.00	0.00	45.39	2.24
841	2848	6.760298	CACAAACATGCAGTAGAGATGTATCT	59.240	38.462	0.00	0.00	40.50	1.98
842	2849	7.922811	CACAAACATGCAGTAGAGATGTATCTA	59.077	37.037	0.00	0.00	37.25	1.98
843	2850	8.140628	ACAAACATGCAGTAGAGATGTATCTAG	58.859	37.037	0.00	0.00	37.25	2.43
844	2851	8.355913	CAAACATGCAGTAGAGATGTATCTAGA	58.644	37.037	0.00	0.00	37.25	2.43
845	2852	8.648698	AACATGCAGTAGAGATGTATCTAGAT	57.351	34.615	10.73	10.73	37.25	1.98
846	2853	8.054152	ACATGCAGTAGAGATGTATCTAGATG	57.946	38.462	15.79	0.00	37.25	2.90
847	2854	7.669304	ACATGCAGTAGAGATGTATCTAGATGT	59.331	37.037	15.79	1.25	37.25	3.06
848	2855	9.171877	CATGCAGTAGAGATGTATCTAGATGTA	57.828	37.037	15.79	4.44	37.25	2.29
849	2856	9.919416	ATGCAGTAGAGATGTATCTAGATGTAT	57.081	33.333	15.79	9.11	37.25	2.29
850	2857	9.746457	TGCAGTAGAGATGTATCTAGATGTATT	57.254	33.333	15.79	0.00	37.25	1.89
895	2902	7.872163	TTTTTGTTCATTTTGATCGATGGAG	57.128	32.000	0.54	0.00	0.00	3.86
896	2903	5.565592	TTGTTCATTTTGATCGATGGAGG	57.434	39.130	0.54	0.00	0.00	4.30
897	2904	3.947196	TGTTCATTTTGATCGATGGAGGG	59.053	43.478	0.54	0.00	0.00	4.30
898	2905	4.199310	GTTCATTTTGATCGATGGAGGGA	58.801	43.478	0.54	0.00	0.00	4.20
975	3135	5.890110	ATTGTACGTAATTCTCGAGCATG	57.110	39.130	7.81	0.93	0.00	4.06
997	3161	7.970061	GCATGTATCATTGAGTAGCAAGAAAAA	59.030	33.333	0.00	0.00	40.42	1.94
1007	3171	2.837498	AGCAAGAAAAACAATGGCACC	58.163	42.857	0.00	0.00	0.00	5.01
1008	3172	2.435437	AGCAAGAAAAACAATGGCACCT	59.565	40.909	0.00	0.00	0.00	4.00
1009	3173	3.118298	AGCAAGAAAAACAATGGCACCTT	60.118	39.130	0.00	0.00	0.00	3.50
1013	3177	4.696455	AGAAAAACAATGGCACCTTTCTG	58.304	39.130	0.00	0.00	33.16	3.02
1014	3178	3.473923	AAAACAATGGCACCTTTCTGG	57.526	42.857	0.00	0.00	42.93	3.86
1023	3187	2.434359	CCTTTCTGGTCGTCGCCC	60.434	66.667	3.72	0.00	0.00	6.13
1149	3322	1.304381	GGTTGGCATGCTCCCTTCA	60.304	57.895	18.92	2.42	0.00	3.02
1490	4760	1.925972	GCCTCCTCCCCTTCTTGGT	60.926	63.158	0.00	0.00	0.00	3.67
1623	4896	0.178978	TGCCACCTGTAATTGTGCCA	60.179	50.000	0.00	0.00	0.00	4.92
1675	4948	1.586154	CTTCCGGAACATGGTGCCAC	61.586	60.000	14.35	0.00	28.25	5.01
1935	5214	2.278182	ATTACATGTTTGCCGGGCGC	62.278	55.000	15.40	0.00	38.31	6.53
2162	5450	2.038269	GCCCCATCGAACGCAAGAA	61.038	57.895	0.00	0.00	43.62	2.52
2197	5485	3.755628	TACTGCCGAGCGGTCACC	61.756	66.667	15.89	5.01	45.94	4.02
2202	5490	4.003788	CCGAGCGGTCACCAGGTT	62.004	66.667	15.89	0.00	0.00	3.50
2208	5496	1.949257	CGGTCACCAGGTTCAAAGC	59.051	57.895	0.00	0.00	0.00	3.51
2251	5539	2.702478	CTCTACTCAATGGGCAGGATGA	59.298	50.000	0.00	0.00	39.69	2.92
2466	5754	2.577593	GTGGGAGGGTACGCTGTC	59.422	66.667	18.29	9.39	0.00	3.51
2530	5818	1.228154	GCCAAGGTCCTCAAACGGT	60.228	57.895	0.00	0.00	0.00	4.83
2548	5836	2.541346	CGGTGGATCGAATGAATGACAG	59.459	50.000	0.00	0.00	0.00	3.51
2672	5998	5.527582	CCACAATGTAAGAGGTACAATAGGC	59.472	44.000	0.00	0.00	45.81	3.93
2871	6207	8.920509	TTTGTGATGCATCTAATGAAATCAAG	57.079	30.769	26.32	0.00	36.95	3.02
2913	6249	9.587772	GCTATTATGTCTGTCGTGGATATAATT	57.412	33.333	15.35	0.00	38.00	1.40
2948	6291	2.508300	GGGGTAGGAATGTAGAGGCAAA	59.492	50.000	0.00	0.00	0.00	3.68
2962	6305	6.611642	TGTAGAGGCAAAGGTATCTAGTGAAT	59.388	38.462	0.00	0.00	0.00	2.57
3056	6405	2.092323	TCGTGCTCTTAGCTCTTAGCA	58.908	47.619	11.54	11.54	45.56	3.49
3127	6476	1.135373	GCTTATATAGAGCGCGCCAGA	60.135	52.381	30.33	13.77	0.00	3.86
3151	6500	2.158711	GGGGTACATAAAGGGCTGGTAC	60.159	54.545	0.00	0.00	34.93	3.34
3227	6580	6.047511	TGGTAGCGTATTTAACTGGGTTAA	57.952	37.500	0.00	0.00	36.40	2.01
3384	6738	0.899720	CCGACTGTTGGGGCTTAGTA	59.100	55.000	6.15	0.00	0.00	1.82
3419	6773	2.173356	CCTTGTCTCCAATGGGCTGATA	59.827	50.000	0.00	0.00	0.00	2.15

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
210	215	6.956102	TTAGTGGACCTTGGACCTTTATTA	57.044	37.500	9.35	0.00	0.00	0.98
226	231	2.531771	TCGGTCCATCAGTTTAGTGGA	58.468	47.619	0.00	0.00	39.61	4.02
227	232	3.328382	TTCGGTCCATCAGTTTAGTGG	57.672	47.619	0.00	0.00	0.00	4.00
228	233	4.330074	GTCATTCGGTCCATCAGTTTAGTG	59.670	45.833	0.00	0.00	0.00	2.74
229	234	4.504858	GTCATTCGGTCCATCAGTTTAGT	58.495	43.478	0.00	0.00	0.00	2.24
230	235	3.871594	GGTCATTCGGTCCATCAGTTTAG	59.128	47.826	0.00	0.00	0.00	1.85
231	236	3.677700	CGGTCATTCGGTCCATCAGTTTA	60.678	47.826	0.00	0.00	0.00	2.01
341	1788	9.793252	GAATGATGACAAGCATGTATACTTTTT	57.207	29.630	4.17	0.00	40.74	1.94
360	1807	4.998033	CCAGTGATGATGAGGAGAATGATG	59.002	45.833	0.00	0.00	0.00	3.07
364	1811	3.071312	GCTCCAGTGATGATGAGGAGAAT	59.929	47.826	10.73	0.00	46.89	2.40
396	1843	8.141268	TGTTCTCTTCTTCTTCTTCTTCTTCTC	58.859	37.037	0.00	0.00	0.00	2.87
539	1990	3.857854	GCTGCAGTGATGCCGACG	61.858	66.667	16.64	0.00	0.00	5.12
579	2030	1.298014	GGACAGGCTGCTGCTACTT	59.702	57.895	15.89	0.00	39.59	2.24
628	2626	0.886490	CAACTCTCAACGCCCAGCTT	60.886	55.000	0.00	0.00	0.00	3.74
662	2660	1.794222	GTGCTTCATGGGCGTGTAC	59.206	57.895	0.00	0.00	0.00	2.90
757	2764	3.306917	TTAATGCAGGTCGTCGAAAGA	57.693	42.857	0.00	0.00	38.16	2.52
761	2768	5.196341	AGATTATTAATGCAGGTCGTCGA	57.804	39.130	0.00	0.00	0.00	4.20
771	2778	8.897752	CAGGAAGGCCTTATAGATTATTAATGC	58.102	37.037	20.54	0.00	43.90	3.56
801	2808	8.713765	GCATGTTTGTGCATACAATATAGTAC	57.286	34.615	0.00	0.00	45.56	2.73
815	2822	3.438087	ACATCTCTACTGCATGTTTGTGC	59.562	43.478	0.00	0.00	45.25	4.57
816	2823	6.760298	AGATACATCTCTACTGCATGTTTGTG	59.240	38.462	0.00	0.00	32.88	3.33
817	2824	6.882656	AGATACATCTCTACTGCATGTTTGT	58.117	36.000	0.00	0.00	32.88	2.83
818	2825	8.355913	TCTAGATACATCTCTACTGCATGTTTG	58.644	37.037	0.00	0.00	38.32	2.93
819	2826	8.470657	TCTAGATACATCTCTACTGCATGTTT	57.529	34.615	0.00	0.00	38.32	2.83
820	2827	8.522003	CATCTAGATACATCTCTACTGCATGTT	58.478	37.037	4.54	0.00	38.32	2.71
821	2828	7.669304	ACATCTAGATACATCTCTACTGCATGT	59.331	37.037	4.54	0.00	38.32	3.21
822	2829	8.054152	ACATCTAGATACATCTCTACTGCATG	57.946	38.462	4.54	0.00	38.32	4.06
823	2830	9.919416	ATACATCTAGATACATCTCTACTGCAT	57.081	33.333	4.54	0.00	38.32	3.96
824	2831	9.746457	AATACATCTAGATACATCTCTACTGCA	57.254	33.333	4.54	0.00	38.32	4.41
871	2878	6.867816	CCTCCATCGATCAAAATGAACAAAAA	59.132	34.615	0.00	0.00	0.00	1.94
872	2879	6.389091	CCTCCATCGATCAAAATGAACAAAA	58.611	36.000	0.00	0.00	0.00	2.44
873	2880	5.105797	CCCTCCATCGATCAAAATGAACAAA	60.106	40.000	0.00	0.00	0.00	2.83
874	2881	4.398988	CCCTCCATCGATCAAAATGAACAA	59.601	41.667	0.00	0.00	0.00	2.83
875	2882	3.947196	CCCTCCATCGATCAAAATGAACA	59.053	43.478	0.00	0.00	0.00	3.18
876	2883	4.199310	TCCCTCCATCGATCAAAATGAAC	58.801	43.478	0.00	0.00	0.00	3.18
877	2884	4.080356	ACTCCCTCCATCGATCAAAATGAA	60.080	41.667	0.00	0.00	0.00	2.57
878	2885	3.455910	ACTCCCTCCATCGATCAAAATGA	59.544	43.478	0.00	0.00	0.00	2.57
879	2886	3.813443	ACTCCCTCCATCGATCAAAATG	58.187	45.455	0.00	0.00	0.00	2.32
880	2887	5.832539	ATACTCCCTCCATCGATCAAAAT	57.167	39.130	0.00	0.00	0.00	1.82
881	2888	5.630415	AATACTCCCTCCATCGATCAAAA	57.370	39.130	0.00	0.00	0.00	2.44
882	2889	6.935240	ATAATACTCCCTCCATCGATCAAA	57.065	37.500	0.00	0.00	0.00	2.69
883	2890	8.478066	CAATATAATACTCCCTCCATCGATCAA	58.522	37.037	0.00	0.00	0.00	2.57
884	2891	7.417911	GCAATATAATACTCCCTCCATCGATCA	60.418	40.741	0.00	0.00	0.00	2.92
885	2892	6.926272	GCAATATAATACTCCCTCCATCGATC	59.074	42.308	0.00	0.00	0.00	3.69
886	2893	6.384015	TGCAATATAATACTCCCTCCATCGAT	59.616	38.462	0.00	0.00	0.00	3.59
887	2894	5.719563	TGCAATATAATACTCCCTCCATCGA	59.280	40.000	0.00	0.00	0.00	3.59
888	2895	5.977635	TGCAATATAATACTCCCTCCATCG	58.022	41.667	0.00	0.00	0.00	3.84
889	2896	6.261826	GCATGCAATATAATACTCCCTCCATC	59.738	42.308	14.21	0.00	0.00	3.51
890	2897	6.125029	GCATGCAATATAATACTCCCTCCAT	58.875	40.000	14.21	0.00	0.00	3.41
891	2898	5.014018	TGCATGCAATATAATACTCCCTCCA	59.986	40.000	20.30	0.00	0.00	3.86
892	2899	5.355350	GTGCATGCAATATAATACTCCCTCC	59.645	44.000	24.58	0.00	0.00	4.30
893	2900	5.939883	TGTGCATGCAATATAATACTCCCTC	59.060	40.000	24.58	4.31	0.00	4.30
894	2901	5.879763	TGTGCATGCAATATAATACTCCCT	58.120	37.500	24.58	0.00	0.00	4.20
895	2902	6.573664	TTGTGCATGCAATATAATACTCCC	57.426	37.500	24.58	5.50	0.00	4.30
896	2903	7.424803	TGTTTGTGCATGCAATATAATACTCC	58.575	34.615	24.58	5.73	0.00	3.85
897	2904	8.908678	CATGTTTGTGCATGCAATATAATACTC	58.091	33.333	24.58	6.29	39.59	2.59
898	2905	8.806177	CATGTTTGTGCATGCAATATAATACT	57.194	30.769	24.58	0.00	39.59	2.12
926	2933	4.677584	AGATTCTTGACGTGCATCTCTAC	58.322	43.478	0.00	0.00	0.00	2.59
975	3135	9.846248	ATTGTTTTTCTTGCTACTCAATGATAC	57.154	29.630	0.00	0.00	33.57	2.24
1023	3187	3.302347	GAGGAGGTGGTGTGGCTCG	62.302	68.421	0.00	0.00	0.00	5.03
1490	4760	1.153369	GTTAGGCTCTCCATGCGCA	60.153	57.895	14.96	14.96	33.74	6.09
1623	4896	1.078848	GACAGCTTCCATGGCGTCT	60.079	57.895	6.96	0.00	33.78	4.18
1675	4948	5.220815	GCTTCATCAACTTCCAGCAAGATAG	60.221	44.000	0.00	0.00	35.82	2.08
1842	5121	2.761208	CTCCGGGTCATGGATATAGGTC	59.239	54.545	0.00	0.00	34.32	3.85
1843	5122	2.111972	ACTCCGGGTCATGGATATAGGT	59.888	50.000	0.00	0.00	34.32	3.08
2154	5442	0.670546	CGGTCATCACCTTCTTGCGT	60.671	55.000	0.00	0.00	41.17	5.24
2162	5450	0.674581	TACGTCGTCGGTCATCACCT	60.675	55.000	0.00	0.00	41.17	4.00
2197	5485	1.269051	GGTTTCACCGCTTTGAACCTG	60.269	52.381	0.00	0.00	35.18	4.00
2202	5490	1.202879	AGGATGGTTTCACCGCTTTGA	60.203	47.619	0.00	0.00	42.58	2.69
2251	5539	1.457455	CCTTGCCCCACACACCTTT	60.457	57.895	0.00	0.00	0.00	3.11
2466	5754	0.169672	CAACTGATGGCTTTGGCTCG	59.830	55.000	0.00	0.00	38.73	5.03
2530	5818	4.161377	TGGTACTGTCATTCATTCGATCCA	59.839	41.667	0.00	0.00	0.00	3.41
2548	5836	3.054655	ACATGGTACTGATGGGTTGGTAC	60.055	47.826	0.00	0.00	35.27	3.34
2580	5902	3.758755	TCTGCAAGGAAGATCGCATAT	57.241	42.857	0.00	0.00	33.15	1.78
2672	5998	0.824182	TTACAACAAACGGGGGCCAG	60.824	55.000	4.39	0.22	0.00	4.85
2740	6074	7.581213	ACAAACTTAATGTGGAATGAAGTGA	57.419	32.000	0.00	0.00	30.94	3.41
2758	6092	4.947388	TGGTGAAGCACTTTTCTACAAACT	59.053	37.500	0.00	0.00	34.40	2.66
2871	6207	8.040716	ACATAATAGCTTCTACAACAACCAAC	57.959	34.615	0.00	0.00	0.00	3.77
2913	6249	3.795545	TCCTACCCCCTAGTATTGTCAGA	59.204	47.826	0.00	0.00	0.00	3.27
2948	6291	2.365617	CCGTGCCATTCACTAGATACCT	59.634	50.000	0.00	0.00	43.46	3.08
2962	6305	0.032952	GTGTACTCTCAACCGTGCCA	59.967	55.000	0.00	0.00	0.00	4.92
3056	6405	6.597562	TGAACTTCCACACTTTGTACCTTAT	58.402	36.000	0.00	0.00	0.00	1.73
3127	6476	2.986728	CCAGCCCTTTATGTACCCCTAT	59.013	50.000	0.00	0.00	0.00	2.57
3151	6500	4.248859	CCCGAGGTCATGAATAGCATTAG	58.751	47.826	0.00	0.00	34.15	1.73
3227	6580	1.883926	GGTCGTTACCCAACAGCAATT	59.116	47.619	0.00	0.00	40.21	2.32
3384	6738	0.111639	ACAAGGTGGCCCAAATACGT	59.888	50.000	0.00	0.00	0.00	3.57
3419	6773	0.252835	ATGGGCAAAGGGGCTTCATT	60.253	50.000	0.00	0.00	42.84	2.57
3477	6841	3.486383	CCAAGTATACGAATGGCCCATT	58.514	45.455	9.17	9.17	36.72	3.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.