AutoCloner

Multiple sequence alignment - TraesCS7B01G197600

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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	TraesCS7B01G197600	chr7B	100.000	2765	0	0	1	2765	344643657	344646421	0.000000e+00	5107.0
1	TraesCS7B01G197600	chr7B	88.220	1876	189	14	898	2761	410469251	410467396	0.000000e+00	2211.0
2	TraesCS7B01G197600	chr7B	88.575	1453	152	11	1316	2765	172728547	172729988	0.000000e+00	1751.0
3	TraesCS7B01G197600	chr7B	79.779	272	37	17	640	908	437121732	437121476	6.080000e-42	182.0
4	TraesCS7B01G197600	chr4D	88.334	1843	182	22	898	2722	357170848	357169021	0.000000e+00	2182.0
5	TraesCS7B01G197600	chr4D	87.799	795	67	6	1	768	357171646	357170855	0.000000e+00	904.0
6	TraesCS7B01G197600	chr4D	89.535	86	8	1	950	1034	332799940	332799855	1.050000e-19	108.0
7	TraesCS7B01G197600	chr4D	81.159	138	15	11	897	1031	264785869	264785998	1.750000e-17	100.0
8	TraesCS7B01G197600	chr4D	85.556	90	10	3	947	1034	403637526	403637438	1.050000e-14	91.6
9	TraesCS7B01G197600	chr3B	87.983	1839	192	23	898	2723	425058789	425060611	0.000000e+00	2145.0
10	TraesCS7B01G197600	chr3B	86.260	1885	229	17	898	2765	206679711	206677840	0.000000e+00	2019.0
11	TraesCS7B01G197600	chr3B	85.553	976	117	9	989	1947	505493482	505492514	0.000000e+00	1000.0
12	TraesCS7B01G197600	chr3B	89.385	650	56	12	201	844	291881932	291881290	0.000000e+00	806.0
13	TraesCS7B01G197600	chr3B	91.211	512	43	1	230	741	471319927	471319418	0.000000e+00	695.0
14	TraesCS7B01G197600	chr3B	84.320	625	84	9	869	1483	291881355	291880735	1.420000e-167	599.0
15	TraesCS7B01G197600	chr3B	85.246	122	9	8	918	1034	67653389	67653272	1.740000e-22	117.0
16	TraesCS7B01G197600	chr3D	87.351	1850	208	18	898	2732	249257474	249259312	0.000000e+00	2097.0
17	TraesCS7B01G197600	chr3D	88.166	769	72	10	2	768	249611891	249612642	0.000000e+00	898.0
18	TraesCS7B01G197600	chrUn	87.833	1726	187	13	989	2700	212450575	212448859	0.000000e+00	2002.0
19	TraesCS7B01G197600	chrUn	87.717	1726	189	13	989	2700	191827950	191829666	0.000000e+00	1991.0
20	TraesCS7B01G197600	chrUn	80.240	167	24	9	870	1034	178235642	178235483	1.740000e-22	117.0
21	TraesCS7B01G197600	chrUn	89.535	86	8	1	947	1031	232425279	232425364	1.050000e-19	108.0
22	TraesCS7B01G197600	chrUn	80.556	144	18	8	898	1034	212450715	212450575	4.870000e-18	102.0
23	TraesCS7B01G197600	chr4B	86.201	1848	212	25	898	2732	393634856	393636673	0.000000e+00	1960.0
24	TraesCS7B01G197600	chr4B	88.331	797	85	5	1	793	282027508	282028300	0.000000e+00	950.0
25	TraesCS7B01G197600	chr4B	90.698	86	7	1	947	1031	64508233	64508318	2.250000e-21	113.0
26	TraesCS7B01G197600	chr5D	88.857	1391	139	14	1336	2723	136113595	136114972	0.000000e+00	1696.0
27	TraesCS7B01G197600	chr5D	81.600	125	14	9	916	1034	348317945	348317824	8.150000e-16	95.3
28	TraesCS7B01G197600	chr4A	89.398	830	80	8	1	829	250015251	250016073	0.000000e+00	1038.0
29	TraesCS7B01G197600	chr7D	89.550	823	73	11	2	817	143013551	143014367	0.000000e+00	1031.0
30	TraesCS7B01G197600	chr1B	86.117	958	116	8	989	1936	178869625	178870575	0.000000e+00	1016.0
31	TraesCS7B01G197600	chr1B	90.637	769	67	4	1	768	288497218	288497982	0.000000e+00	1016.0
32	TraesCS7B01G197600	chr1B	80.925	173	24	9	862	1031	455509918	455510084	8.040000e-26	128.0
33	TraesCS7B01G197600	chr1B	82.014	139	17	7	898	1034	159712432	159712300	8.090000e-21	111.0
34	TraesCS7B01G197600	chr1B	81.159	138	18	8	898	1031	144439530	144439663	1.350000e-18	104.0
35	TraesCS7B01G197600	chr2D	87.044	795	71	14	1	768	399790778	399789989	0.000000e+00	869.0
36	TraesCS7B01G197600	chr2D	90.769	650	51	5	1	642	8863100	8862452	0.000000e+00	859.0
37	TraesCS7B01G197600	chr2D	91.270	504	34	7	299	801	463574561	463574067	0.000000e+00	678.0
38	TraesCS7B01G197600	chr1D	91.022	646	54	1	1	642	215411391	215410746	0.000000e+00	869.0
39	TraesCS7B01G197600	chr1D	89.535	86	8	1	947	1031	21025141	21025226	1.050000e-19	108.0
40	TraesCS7B01G197600	chr1D	82.500	120	14	7	916	1031	91974925	91975041	6.300000e-17	99.0
41	TraesCS7B01G197600	chr1D	83.333	114	11	7	922	1031	339996164	339996273	6.300000e-17	99.0
42	TraesCS7B01G197600	chr1D	84.259	108	7	10	897	1002	215409723	215409624	2.270000e-16	97.1
43	TraesCS7B01G197600	chr2B	86.375	800	100	5	1140	1936	245412560	245413353	0.000000e+00	865.0
44	TraesCS7B01G197600	chr2B	83.740	123	13	7	916	1034	577331724	577331605	2.910000e-20	110.0
45	TraesCS7B01G197600	chr2B	89.041	73	7	1	1009	1080	492999774	492999846	3.790000e-14	89.8
46	TraesCS7B01G197600	chr2B	85.294	68	9	1	1014	1080	752189414	752189481	4.940000e-08	69.4
47	TraesCS7B01G197600	chr2A	90.586	648	60	1	1	647	475952170	475952817	0.000000e+00	857.0
48	TraesCS7B01G197600	chr2A	86.605	433	48	3	947	1369	475952974	475953406	1.160000e-128	470.0
49	TraesCS7B01G197600	chr3A	91.532	496	33	6	291	786	675872325	675871839	0.000000e+00	675.0
50	TraesCS7B01G197600	chr7A	77.931	290	46	17	641	921	587708360	587708080	6.130000e-37	165.0
51	TraesCS7B01G197600	chr6A	86.869	99	11	2	989	1086	336996818	336996721	2.910000e-20	110.0
52	TraesCS7B01G197600	chr6D	88.372	86	9	1	947	1031	192977795	192977880	4.870000e-18	102.0
53	TraesCS7B01G197600	chr6D	88.372	86	9	1	950	1034	247163464	247163379	4.870000e-18	102.0
54	TraesCS7B01G197600	chr6D	85.227	88	10	3	949	1034	108980398	108980312	1.360000e-13	87.9
55	TraesCS7B01G197600	chr6D	85.227	88	10	3	946	1031	342959291	342959377	1.360000e-13	87.9
56	TraesCS7B01G197600	chr6D	89.706	68	6	1	965	1031	241835110	241835177	4.910000e-13	86.1
57	TraesCS7B01G197600	chr6D	84.091	88	11	3	946	1031	112770461	112770547	6.350000e-12	82.4
58	TraesCS7B01G197600	chr6D	84.091	88	11	3	949	1034	270008457	270008371	6.350000e-12	82.4
59	TraesCS7B01G197600	chr6D	85.897	78	8	3	946	1021	219976694	219976770	2.280000e-11	80.5
60	TraesCS7B01G197600	chr6D	82.955	88	12	3	949	1034	66053314	66053228	2.950000e-10	76.8
61	TraesCS7B01G197600	chr6D	78.906	128	16	10	916	1034	352678141	352678016	2.950000e-10	76.8
62	TraesCS7B01G197600	chr6D	85.135	74	9	2	949	1021	236067654	236067582	1.060000e-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	TraesCS7B01G197600	chr7B	344643657	344646421	2764	False	5107.00	5107	100.0000	1	2765	1	chr7B.!!$F2	2764
1	TraesCS7B01G197600	chr7B	410467396	410469251	1855	True	2211.00	2211	88.2200	898	2761	1	chr7B.!!$R1	1863
2	TraesCS7B01G197600	chr7B	172728547	172729988	1441	False	1751.00	1751	88.5750	1316	2765	1	chr7B.!!$F1	1449
3	TraesCS7B01G197600	chr4D	357169021	357171646	2625	True	1543.00	2182	88.0665	1	2722	2	chr4D.!!$R3	2721
4	TraesCS7B01G197600	chr3B	425058789	425060611	1822	False	2145.00	2145	87.9830	898	2723	1	chr3B.!!$F1	1825
5	TraesCS7B01G197600	chr3B	206677840	206679711	1871	True	2019.00	2019	86.2600	898	2765	1	chr3B.!!$R2	1867
6	TraesCS7B01G197600	chr3B	505492514	505493482	968	True	1000.00	1000	85.5530	989	1947	1	chr3B.!!$R4	958
7	TraesCS7B01G197600	chr3B	291880735	291881932	1197	True	702.50	806	86.8525	201	1483	2	chr3B.!!$R5	1282
8	TraesCS7B01G197600	chr3B	471319418	471319927	509	True	695.00	695	91.2110	230	741	1	chr3B.!!$R3	511
9	TraesCS7B01G197600	chr3D	249257474	249259312	1838	False	2097.00	2097	87.3510	898	2732	1	chr3D.!!$F1	1834
10	TraesCS7B01G197600	chr3D	249611891	249612642	751	False	898.00	898	88.1660	2	768	1	chr3D.!!$F2	766
11	TraesCS7B01G197600	chrUn	191827950	191829666	1716	False	1991.00	1991	87.7170	989	2700	1	chrUn.!!$F1	1711
12	TraesCS7B01G197600	chrUn	212448859	212450715	1856	True	1052.00	2002	84.1945	898	2700	2	chrUn.!!$R2	1802
13	TraesCS7B01G197600	chr4B	393634856	393636673	1817	False	1960.00	1960	86.2010	898	2732	1	chr4B.!!$F3	1834
14	TraesCS7B01G197600	chr4B	282027508	282028300	792	False	950.00	950	88.3310	1	793	1	chr4B.!!$F2	792
15	TraesCS7B01G197600	chr5D	136113595	136114972	1377	False	1696.00	1696	88.8570	1336	2723	1	chr5D.!!$F1	1387
16	TraesCS7B01G197600	chr4A	250015251	250016073	822	False	1038.00	1038	89.3980	1	829	1	chr4A.!!$F1	828
17	TraesCS7B01G197600	chr7D	143013551	143014367	816	False	1031.00	1031	89.5500	2	817	1	chr7D.!!$F1	815
18	TraesCS7B01G197600	chr1B	178869625	178870575	950	False	1016.00	1016	86.1170	989	1936	1	chr1B.!!$F2	947
19	TraesCS7B01G197600	chr1B	288497218	288497982	764	False	1016.00	1016	90.6370	1	768	1	chr1B.!!$F3	767
20	TraesCS7B01G197600	chr2D	399789989	399790778	789	True	869.00	869	87.0440	1	768	1	chr2D.!!$R2	767
21	TraesCS7B01G197600	chr2D	8862452	8863100	648	True	859.00	859	90.7690	1	642	1	chr2D.!!$R1	641
22	TraesCS7B01G197600	chr1D	215409624	215411391	1767	True	483.05	869	87.6405	1	1002	2	chr1D.!!$R1	1001
23	TraesCS7B01G197600	chr2B	245412560	245413353	793	False	865.00	865	86.3750	1140	1936	1	chr2B.!!$F1	796
24	TraesCS7B01G197600	chr2A	475952170	475953406	1236	False	663.50	857	88.5955	1	1369	2	chr2A.!!$F1	1368

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
228	234	0.889186	CTTGCACCGGCTTACCACTT	60.889	55.0	0.0	0.0	41.91	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1918	2854	0.681243	GATGACTTGGAAGGGGGCAC	60.681	60.0	0.0	0.0	0.0	5.01	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
59	60	2.591584	GCAGTTAGAGTACGCGTGTAAC	59.408	50.000	24.59	21.26	30.94	2.50
73	74	1.370778	GTAACGGTGGCGGTTTTGC	60.371	57.895	0.00	0.00	0.00	3.68
161	163	4.980805	TGGGCTCGTGGCGAACAC	62.981	66.667	4.88	0.00	46.78	3.32
221	227	0.955919	GCTAGAACTTGCACCGGCTT	60.956	55.000	0.00	0.00	41.91	4.35
228	234	0.889186	CTTGCACCGGCTTACCACTT	60.889	55.000	0.00	0.00	41.91	3.16
264	284	9.436957	CTAACATAGTTGTAAAATGGTCAGAGT	57.563	33.333	0.00	0.00	34.06	3.24
274	294	8.758829	TGTAAAATGGTCAGAGTATGTGTCTAT	58.241	33.333	0.00	0.00	0.00	1.98
287	307	4.365514	TGTGTCTATGTGGTGTTTGGAT	57.634	40.909	0.00	0.00	0.00	3.41
386	412	2.195727	TGACCCATGCAGGAGTAATCA	58.804	47.619	0.00	0.00	41.22	2.57
490	517	5.300539	TCGAGAAAGATGAGAGATAAGGTGG	59.699	44.000	0.00	0.00	0.00	4.61
593	620	2.026449	CCAGATTGTTCCAGAGGCTTCT	60.026	50.000	0.00	0.00	0.00	2.85
636	663	4.080356	TGAAGTTGTGGGAGATAAGGATGG	60.080	45.833	0.00	0.00	0.00	3.51
668	723	2.365617	TGCGGGTATCCTTTTGCAAAAA	59.634	40.909	23.92	11.98	0.00	1.94
709	764	8.470657	TTTCTATCCATCAGATATAGATCGGG	57.529	38.462	4.39	0.00	36.84	5.14
728	787	3.412386	GGGCGGTCTATATTGCAAGATT	58.588	45.455	12.49	0.00	0.00	2.40
753	812	1.888512	GCACACCATCATCACCAACTT	59.111	47.619	0.00	0.00	0.00	2.66
760	819	6.016276	ACACCATCATCACCAACTTAGTTTTC	60.016	38.462	0.00	0.00	0.00	2.29
1031	1945	1.099689	CAACGTCCCAACAACCACTT	58.900	50.000	0.00	0.00	0.00	3.16
1046	1960	2.224769	ACCACTTCCGTTTCATGGATGT	60.225	45.455	0.00	0.00	40.91	3.06
1158	2084	4.742201	CACGCGCCCTGCTACTGT	62.742	66.667	5.73	0.00	43.27	3.55
1221	2147	2.347114	CATCACCTCACGGCACCA	59.653	61.111	0.00	0.00	0.00	4.17
1245	2174	0.035056	GCAATCACTACTGGCCCACT	60.035	55.000	0.00	0.00	0.00	4.00
1352	2281	2.434884	CAGCATCGTCCGCTTGGT	60.435	61.111	0.00	0.00	37.72	3.67
1370	2299	4.954970	CGTGGGCACTGGCAAGGT	62.955	66.667	4.78	0.00	43.71	3.50
1430	2359	1.081242	GCAACGCCATTGACACTGG	60.081	57.895	7.46	7.46	41.23	4.00
1516	2445	3.202906	GGCGCCTTTATCACACTGAATA	58.797	45.455	22.15	0.00	0.00	1.75
1538	2467	2.048784	TGTGTCGAGCTGCTCTGC	60.049	61.111	25.59	17.99	0.00	4.26
1561	2491	0.887247	CGGCAATGTGGACATGGAAA	59.113	50.000	0.00	0.00	36.56	3.13
1578	2508	3.117888	TGGAAAAGGCCTGGTATCATCTC	60.118	47.826	5.69	0.00	0.00	2.75
1579	2509	3.481453	GAAAAGGCCTGGTATCATCTCC	58.519	50.000	5.69	0.00	0.00	3.71
1783	2713	7.968405	ACGCTTGAATAAAAGTGTATCCATTTC	59.032	33.333	1.51	0.00	46.35	2.17
1916	2852	9.904198	TTATGATGAACCATTTCTTACATCTCA	57.096	29.630	0.00	0.00	36.25	3.27
1917	2853	7.615582	TGATGAACCATTTCTTACATCTCAC	57.384	36.000	0.00	0.00	36.25	3.51
1918	2854	6.313658	TGATGAACCATTTCTTACATCTCACG	59.686	38.462	0.00	0.00	36.25	4.35
1938	2875	1.139498	TGCCCCCTTCCAAGTCATCA	61.139	55.000	0.00	0.00	0.00	3.07
1959	2896	5.620206	TCATGACTTACATTCACAGTGGTT	58.380	37.500	0.00	0.00	37.07	3.67
1960	2897	5.469760	TCATGACTTACATTCACAGTGGTTG	59.530	40.000	0.00	1.51	37.07	3.77
1963	2900	5.163353	TGACTTACATTCACAGTGGTTGAGA	60.163	40.000	0.00	0.00	0.00	3.27
2062	3000	6.534793	TCTTCAAAAGTTTTGGATGCAAGTTC	59.465	34.615	24.45	0.00	0.00	3.01
2139	3079	6.480320	ACATTTACTATTCACTCGGATGCTTC	59.520	38.462	0.00	0.00	0.00	3.86
2269	3210	3.623703	TCACTATTCCATGCAATGCACT	58.376	40.909	11.23	0.00	44.97	4.40
2293	3234	6.931838	TGGCACCTTACTATATATAGTGCAC	58.068	40.000	28.32	9.40	43.10	4.57
2297	3238	7.331193	GCACCTTACTATATATAGTGCACCAAC	59.669	40.741	28.32	13.02	43.10	3.77
2478	3420	3.091545	ACTAATAAACCACGACGGAGGA	58.908	45.455	14.50	0.00	38.63	3.71
2516	3460	2.665000	CACTGCACGGGGTCTCAT	59.335	61.111	0.00	0.00	0.00	2.90
2528	3472	2.044352	TCTCATCCCGCTCGTGGA	60.044	61.111	0.00	2.85	36.05	4.02
2552	3496	4.692625	GCATCAGTAAAGCCGTCATATCAT	59.307	41.667	0.00	0.00	0.00	2.45
2566	3511	5.197451	GTCATATCATAAAACCCCACCACA	58.803	41.667	0.00	0.00	0.00	4.17
2612	3557	0.591170	AAACGGACAAGCAACCATCG	59.409	50.000	0.00	0.00	0.00	3.84
2653	3599	7.821595	TTGCATTTCATCTCTTTGCATTTAG	57.178	32.000	0.00	0.00	42.34	1.85
2671	3617	4.610605	TTAGTTTGTCCGGTTCATCTCA	57.389	40.909	0.00	0.00	0.00	3.27
2676	3622	1.623311	TGTCCGGTTCATCTCACACAT	59.377	47.619	0.00	0.00	0.00	3.21
2681	3627	3.190079	CGGTTCATCTCACACATTCGAT	58.810	45.455	0.00	0.00	0.00	3.59
2684	3630	4.437239	GTTCATCTCACACATTCGATCCT	58.563	43.478	0.00	0.00	0.00	3.24
2685	3631	4.050852	TCATCTCACACATTCGATCCTG	57.949	45.455	0.00	0.00	0.00	3.86
2687	3633	3.790152	TCTCACACATTCGATCCTGAG	57.210	47.619	0.00	0.00	0.00	3.35
2691	3637	3.119291	CACACATTCGATCCTGAGCTAC	58.881	50.000	0.00	0.00	0.00	3.58
2709	3655	6.213195	TGAGCTACTACTCCTAGTATCCCTAC	59.787	46.154	0.00	0.00	35.34	3.18
2748	3738	2.645797	CCTAGCTACTACTCCTAGGGCT	59.354	54.545	9.46	10.20	42.82	5.19

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
45	46	1.067199	CCACCGTTACACGCGTACTC	61.067	60.000	13.44	1.87	40.91	2.59
52	53	1.774046	AAAACCGCCACCGTTACACG	61.774	55.000	0.00	0.00	42.11	4.49
88	89	0.450184	CCGACGGTGGCCTATTTTTG	59.550	55.000	5.48	0.00	0.00	2.44
198	204	1.685820	GGTGCAAGTTCTAGCCCCT	59.314	57.895	0.00	0.00	0.00	4.79
264	284	5.491323	TCCAAACACCACATAGACACATA	57.509	39.130	0.00	0.00	0.00	2.29
274	294	6.596309	TTGCATATAAATCCAAACACCACA	57.404	33.333	0.00	0.00	0.00	4.17
287	307	6.239008	GGGCATCTTGCTAGTTTGCATATAAA	60.239	38.462	20.11	0.00	44.28	1.40
516	543	1.337823	CCTCCACTAAGTCCAACCACG	60.338	57.143	0.00	0.00	0.00	4.94
636	663	1.102222	ATACCCGCACCTCTCTCGTC	61.102	60.000	0.00	0.00	0.00	4.20
668	723	6.380846	TGGATAGAAAGCAAACTATGGCAATT	59.619	34.615	0.00	0.00	30.74	2.32
709	764	5.120830	CCTACAATCTTGCAATATAGACCGC	59.879	44.000	0.00	0.00	0.00	5.68
728	787	1.065491	GGTGATGATGGTGTGCCTACA	60.065	52.381	0.00	0.00	35.27	2.74
929	1795	9.536510	AGTACTCTCTCCATTTCTTTTACTACT	57.463	33.333	0.00	0.00	0.00	2.57
1031	1945	1.065491	CCAGGACATCCATGAAACGGA	60.065	52.381	0.00	0.00	38.89	4.69
1046	1960	2.526450	CTTGCAGGCATCGACCAGGA	62.526	60.000	0.00	0.00	0.00	3.86
1127	2047	1.510623	GCGTGCGTGCATCTTGAAG	60.511	57.895	0.00	0.00	34.15	3.02
1221	2147	2.370189	GGGCCAGTAGTGATTGCTAGAT	59.630	50.000	4.39	0.00	0.00	1.98
1346	2275	3.357079	CAGTGCCCACGACCAAGC	61.357	66.667	0.00	0.00	36.20	4.01
1352	2281	4.641645	CCTTGCCAGTGCCCACGA	62.642	66.667	0.00	0.00	36.33	4.35
1502	2431	6.605471	ACACAGTCCTATTCAGTGTGATAA	57.395	37.500	13.31	0.00	44.77	1.75
1503	2432	5.163652	CGACACAGTCCTATTCAGTGTGATA	60.164	44.000	13.31	0.00	44.77	2.15
1516	2445	1.872197	GAGCAGCTCGACACAGTCCT	61.872	60.000	6.67	0.00	0.00	3.85
1538	2467	1.077501	ATGTCCACATTGCCGGGAG	60.078	57.895	2.18	0.00	31.37	4.30
1561	2491	1.439543	GGGAGATGATACCAGGCCTT	58.560	55.000	0.00	0.00	0.00	4.35
1595	2525	2.358737	CTTGGAGTCCCCGTGCAC	60.359	66.667	6.82	6.82	37.93	4.57
1783	2713	7.560368	ACATGGAAGATTCTAGACTAAACCAG	58.440	38.462	0.00	0.00	0.00	4.00
1826	2756	5.237127	TCTCATAAATGGCAAGCGATAACTG	59.763	40.000	0.00	0.00	0.00	3.16
1831	2764	6.882610	TTAATCTCATAAATGGCAAGCGAT	57.117	33.333	0.00	0.00	0.00	4.58
1916	2852	3.175710	ACTTGGAAGGGGGCACGT	61.176	61.111	0.00	0.00	0.00	4.49
1917	2853	2.359975	GACTTGGAAGGGGGCACG	60.360	66.667	0.00	0.00	0.00	5.34
1918	2854	0.681243	GATGACTTGGAAGGGGGCAC	60.681	60.000	0.00	0.00	0.00	5.01
1938	2875	5.620206	TCAACCACTGTGAATGTAAGTCAT	58.380	37.500	9.86	0.00	45.47	3.06
1942	2879	6.618287	TTTCTCAACCACTGTGAATGTAAG	57.382	37.500	9.86	2.90	37.38	2.34
2164	3104	4.624452	ACGAGTATTGTTAGGTTTCTTCGC	59.376	41.667	0.00	0.00	0.00	4.70
2177	3117	6.752351	GTCATCTCATGTGTAACGAGTATTGT	59.248	38.462	0.00	0.00	42.39	2.71
2269	3210	6.070995	GGTGCACTATATATAGTAAGGTGCCA	60.071	42.308	22.16	11.43	45.08	4.92
2441	3383	7.201965	GGTTTATTAGTCCCCCATGTAATTTGG	60.202	40.741	0.00	0.00	0.00	3.28
2478	3420	2.426381	GCCGCCTTCTACACTAGTACTT	59.574	50.000	0.00	0.00	0.00	2.24
2528	3472	2.698855	ATGACGGCTTTACTGATGCT	57.301	45.000	0.00	0.00	0.00	3.79
2531	3475	8.774586	GTTTTATGATATGACGGCTTTACTGAT	58.225	33.333	0.00	0.00	0.00	2.90
2532	3476	7.225931	GGTTTTATGATATGACGGCTTTACTGA	59.774	37.037	0.00	0.00	0.00	3.41
2552	3496	0.186386	CTGGGTGTGGTGGGGTTTTA	59.814	55.000	0.00	0.00	0.00	1.52
2566	3511	1.564348	CCAGGCCACTTATTACTGGGT	59.436	52.381	5.01	0.00	43.80	4.51
2644	3590	3.632604	TGAACCGGACAAACTAAATGCAA	59.367	39.130	9.46	0.00	0.00	4.08
2653	3599	2.223377	GTGTGAGATGAACCGGACAAAC	59.777	50.000	9.46	7.10	0.00	2.93
2671	3617	3.027412	AGTAGCTCAGGATCGAATGTGT	58.973	45.455	0.00	0.00	0.00	3.72
2676	3622	3.136809	AGGAGTAGTAGCTCAGGATCGAA	59.863	47.826	0.00	0.00	37.24	3.71
2681	3627	5.248934	GGATACTAGGAGTAGTAGCTCAGGA	59.751	48.000	7.55	0.00	44.39	3.86
2684	3630	5.164143	AGGGATACTAGGAGTAGTAGCTCA	58.836	45.833	9.69	0.00	46.92	4.26
2685	3631	5.767277	AGGGATACTAGGAGTAGTAGCTC	57.233	47.826	7.55	4.17	45.49	4.09
2687	3633	5.488561	AGGTAGGGATACTAGGAGTAGTAGC	59.511	48.000	0.00	0.20	43.55	3.58
2691	3637	7.900784	AGTAGTAGGTAGGGATACTAGGAGTAG	59.099	44.444	0.00	0.00	35.66	2.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.