AutoCloner

Multiple sequence alignment - TraesCS6A01G088600

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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	TraesCS6A01G088600	chr6A	100.000	2951	0	0	1	2951	57653856	57650906	0.000000e+00	5450.0
1	TraesCS6A01G088600	chr6A	87.118	1048	89	33	874	1915	57040447	57041454	0.000000e+00	1146.0
2	TraesCS6A01G088600	chr6A	84.940	332	41	7	2612	2935	457405689	457406019	7.890000e-86	327.0
3	TraesCS6A01G088600	chr6B	90.265	1736	79	32	510	2191	93304593	93302894	0.000000e+00	2187.0
4	TraesCS6A01G088600	chr6B	85.112	1068	114	30	877	1933	92913656	92914689	0.000000e+00	1050.0
5	TraesCS6A01G088600	chr6B	91.765	340	17	6	163	500	93305222	93304892	2.070000e-126	462.0
6	TraesCS6A01G088600	chr6B	91.441	222	16	3	2190	2410	481738231	481738450	4.780000e-78	302.0
7	TraesCS6A01G088600	chr6B	90.367	218	18	3	2395	2609	481738512	481738729	1.730000e-72	283.0
8	TraesCS6A01G088600	chr6B	86.301	219	26	3	2193	2409	215648937	215648721	4.920000e-58	235.0
9	TraesCS6A01G088600	chr6B	91.597	119	9	1	26	143	93305824	93305706	2.350000e-36	163.0
10	TraesCS6A01G088600	chr6B	75.536	233	34	16	2208	2435	489729505	489729291	3.130000e-15	93.5
11	TraesCS6A01G088600	chr6B	90.741	54	5	0	1918	1971	92914704	92914757	4.080000e-09	73.1
12	TraesCS6A01G088600	chrUn	92.433	1414	31	24	798	2190	19736778	19738136	0.000000e+00	1949.0
13	TraesCS6A01G088600	chrUn	87.595	1048	90	28	877	1918	19854399	19853386	0.000000e+00	1179.0
14	TraesCS6A01G088600	chrUn	95.277	487	16	4	15	495	19736002	19736487	0.000000e+00	765.0
15	TraesCS6A01G088600	chr7A	90.632	427	20	4	2406	2812	108764937	108765363	1.550000e-152	549.0
16	TraesCS6A01G088600	chr7A	89.706	340	29	6	2615	2951	108765383	108765719	2.100000e-116	429.0
17	TraesCS6A01G088600	chr7A	90.800	250	17	6	514	761	300511005	300511250	2.190000e-86	329.0
18	TraesCS6A01G088600	chr7A	91.403	221	16	3	2191	2410	108764681	108764899	1.720000e-77	300.0
19	TraesCS6A01G088600	chr6D	94.428	341	18	1	2612	2951	13140159	13140499	9.370000e-145	523.0
20	TraesCS6A01G088600	chr6D	86.222	450	38	12	2186	2613	13139555	13140002	1.600000e-127	466.0
21	TraesCS6A01G088600	chr7D	94.135	341	18	2	2612	2951	136316441	136316102	4.360000e-143	518.0
22	TraesCS6A01G088600	chr7D	91.440	257	18	4	2184	2439	136317106	136316853	1.680000e-92	350.0
23	TraesCS6A01G088600	chr7D	85.088	228	16	3	2404	2613	136316798	136316571	1.780000e-52	217.0
24	TraesCS6A01G088600	chr4B	93.567	342	19	3	2612	2951	57411040	57411380	9.440000e-140	507.0
25	TraesCS6A01G088600	chr4B	92.982	342	21	3	2612	2951	317302538	317302878	2.040000e-136	496.0
26	TraesCS6A01G088600	chr4B	91.120	259	16	7	496	748	120529995	120529738	7.830000e-91	344.0
27	TraesCS6A01G088600	chr4B	84.615	338	47	3	1494	1827	21153010	21152674	6.100000e-87	331.0
28	TraesCS6A01G088600	chr4B	84.320	338	48	3	1494	1827	21151349	21151013	2.840000e-85	326.0
29	TraesCS6A01G088600	chr4B	93.151	219	12	3	2193	2410	317302048	317302264	4.750000e-83	318.0
30	TraesCS6A01G088600	chr4B	92.237	219	15	2	2193	2410	57410507	57410724	2.860000e-80	309.0
31	TraesCS6A01G088600	chr4B	91.304	207	17	1	2408	2613	57410762	57410968	6.230000e-72	281.0
32	TraesCS6A01G088600	chr4B	92.742	124	8	1	2406	2528	317302308	317302431	8.400000e-41	178.0
33	TraesCS6A01G088600	chr4B	81.746	126	18	4	1219	1340	20355196	20355320	1.870000e-17	100.0
34	TraesCS6A01G088600	chr5B	93.510	339	19	3	2612	2948	411806186	411806523	4.390000e-138	501.0
35	TraesCS6A01G088600	chr5B	91.342	231	15	4	2183	2410	411805677	411805905	7.940000e-81	311.0
36	TraesCS6A01G088600	chr5B	93.548	124	7	1	2406	2528	411805956	411806079	1.810000e-42	183.0
37	TraesCS6A01G088600	chr3B	92.690	342	22	3	2612	2951	753956707	753957047	9.500000e-135	490.0
38	TraesCS6A01G088600	chr3B	92.742	124	8	1	2406	2528	753956477	753956600	8.400000e-41	178.0
39	TraesCS6A01G088600	chr4D	85.781	429	58	1	1472	1897	410884	410456	4.490000e-123	451.0
40	TraesCS6A01G088600	chr4D	92.827	237	14	3	514	748	3381324	3381089	1.010000e-89	340.0
41	TraesCS6A01G088600	chr4A	85.548	429	59	1	1472	1897	82849	82421	2.090000e-121	446.0
42	TraesCS6A01G088600	chr4A	75.074	337	50	19	1030	1357	591674841	591675152	3.090000e-25	126.0
43	TraesCS6A01G088600	chr4A	75.078	321	44	20	1030	1340	592309829	592309535	1.860000e-22	117.0
44	TraesCS6A01G088600	chr4A	75.078	321	44	21	1030	1340	592638055	592637761	1.860000e-22	117.0
45	TraesCS6A01G088600	chr7B	93.220	236	13	3	514	747	598296380	598296146	7.830000e-91	344.0
46	TraesCS6A01G088600	chr2B	92.797	236	14	3	514	747	166592350	166592116	3.640000e-89	339.0
47	TraesCS6A01G088600	chr3D	91.837	245	15	5	514	756	306029192	306028951	1.310000e-88	337.0
48	TraesCS6A01G088600	chr2D	92.116	241	16	3	508	746	644999155	644999394	1.310000e-88	337.0
49	TraesCS6A01G088600	chr5D	92.116	241	14	5	514	751	534789283	534789045	4.710000e-88	335.0
50	TraesCS6A01G088600	chr5A	92.405	237	15	3	513	747	34842139	34841904	4.710000e-88	335.0
51	TraesCS6A01G088600	chr3A	92.000	225	13	4	2190	2410	565475534	565475757	7.940000e-81	311.0
52	TraesCS6A01G088600	chr3A	93.548	124	7	1	2406	2528	565475801	565475924	1.810000e-42	183.0
53	TraesCS6A01G088600	chr1B	91.489	47	4	0	2192	2238	63806432	63806386	6.830000e-07	65.8

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	TraesCS6A01G088600	chr6A	57650906	57653856	2950	True	5450.000000	5450	100.000000	1	2951	1	chr6A.!!$R1	2950
1	TraesCS6A01G088600	chr6A	57040447	57041454	1007	False	1146.000000	1146	87.118000	874	1915	1	chr6A.!!$F1	1041
2	TraesCS6A01G088600	chr6B	93302894	93305824	2930	True	937.333333	2187	91.209000	26	2191	3	chr6B.!!$R3	2165
3	TraesCS6A01G088600	chr6B	92913656	92914757	1101	False	561.550000	1050	87.926500	877	1971	2	chr6B.!!$F1	1094
4	TraesCS6A01G088600	chrUn	19736002	19738136	2134	False	1357.000000	1949	93.855000	15	2190	2	chrUn.!!$F1	2175
5	TraesCS6A01G088600	chrUn	19853386	19854399	1013	True	1179.000000	1179	87.595000	877	1918	1	chrUn.!!$R1	1041
6	TraesCS6A01G088600	chr7A	108764681	108765719	1038	False	426.000000	549	90.580333	2191	2951	3	chr7A.!!$F2	760
7	TraesCS6A01G088600	chr6D	13139555	13140499	944	False	494.500000	523	90.325000	2186	2951	2	chr6D.!!$F1	765
8	TraesCS6A01G088600	chr7D	136316102	136317106	1004	True	361.666667	518	90.221000	2184	2951	3	chr7D.!!$R1	767
9	TraesCS6A01G088600	chr4B	57410507	57411380	873	False	365.666667	507	92.369333	2193	2951	3	chr4B.!!$F2	758
10	TraesCS6A01G088600	chr4B	317302048	317302878	830	False	330.666667	496	92.958333	2193	2951	3	chr4B.!!$F3	758
11	TraesCS6A01G088600	chr4B	21151013	21153010	1997	True	328.500000	331	84.467500	1494	1827	2	chr4B.!!$R2	333
12	TraesCS6A01G088600	chr5B	411805677	411806523	846	False	331.666667	501	92.800000	2183	2948	3	chr5B.!!$F1	765
13	TraesCS6A01G088600	chr3B	753956477	753957047	570	False	334.000000	490	92.716000	2406	2951	2	chr3B.!!$F1	545

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
43	44	0.248907	TACGGCTAGCAATCGACAGC	60.249	55.0	18.24	2.86	0.0	4.4	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2007	4577	0.318869	CAAGGCCACACACGTACGTA	60.319	55.0	22.34	0.0	0.0	3.57	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
22	23	2.770232	AGATCAGTGAGATGATGGCACA	59.230	45.455	0.00	0.00	40.02	4.57
24	25	2.504585	ATCAGTGAGATGATGGCACACT	59.495	45.455	0.00	0.79	38.49	3.55
43	44	0.248907	TACGGCTAGCAATCGACAGC	60.249	55.000	18.24	2.86	0.00	4.40
44	45	1.519234	CGGCTAGCAATCGACAGCA	60.519	57.895	18.24	0.00	35.69	4.41
69	70	0.321034	TGCAGAGTCAGGTCATGCAC	60.321	55.000	0.00	0.00	41.65	4.57
109	110	7.750229	TCTTCTTAGCAAATCTTGACAATGT	57.250	32.000	0.00	0.00	0.00	2.71
148	150	2.229784	CCTCAAACATCAACAGCCTTCC	59.770	50.000	0.00	0.00	0.00	3.46
207	672	3.307269	CCCGTCATTGCTATGAGGATGAT	60.307	47.826	25.56	0.00	45.23	2.45
430	898	1.009829	CGATGCCAAACTAGTGCTCC	58.990	55.000	0.00	0.00	0.00	4.70
482	951	4.209288	GCACGGATACTTTGCTAGTACATG	59.791	45.833	0.00	0.00	41.99	3.21
495	1236	8.757164	TTGCTAGTACATGCATACATACATAC	57.243	34.615	12.41	0.00	39.07	2.39
512	1253	7.883833	ACATACATACATACATACTCTCTCCGT	59.116	37.037	0.00	0.00	0.00	4.69
741	1501	3.188667	GCAGACTAAAAAGAAACGGAGGG	59.811	47.826	0.00	0.00	0.00	4.30
778	1550	4.948341	AGTACATATTGACGGGCATACA	57.052	40.909	0.00	0.00	0.00	2.29
781	1553	1.194547	CATATTGACGGGCATACACGC	59.805	52.381	0.00	0.00	0.00	5.34
916	1737	3.404141	GACTGAGCGGAGGAGCGAC	62.404	68.421	0.00	0.00	43.00	5.19
988	1816	2.268920	CCCATACGTGGTGCAGCT	59.731	61.111	18.08	0.00	44.48	4.24
1006	1840	6.580963	GCAGCTAGCATGTGTATATGTATC	57.419	41.667	18.83	0.00	44.79	2.24
1009	1843	8.140628	GCAGCTAGCATGTGTATATGTATCTAT	58.859	37.037	18.83	0.00	44.79	1.98
1061	1900	4.393062	CCTCACAACGCAATACAATCTCTT	59.607	41.667	0.00	0.00	0.00	2.85
1915	4430	2.184533	TGGTTGAAGCCGAGAAGGATA	58.815	47.619	0.00	0.00	45.00	2.59
1919	4485	0.032267	GAAGCCGAGAAGGATACCGG	59.968	60.000	0.00	0.00	45.00	5.28
1922	4488	2.354773	CGAGAAGGATACCGGCGC	60.355	66.667	0.00	0.00	37.17	6.53
2010	4580	7.582352	ACTATGCTGTGTATGTATGTAGTACG	58.418	38.462	0.00	0.00	36.01	3.67
2011	4581	5.823209	TGCTGTGTATGTATGTAGTACGT	57.177	39.130	0.00	0.00	36.01	3.57
2054	4633	2.584498	AGGGATTTTCCTGATGCTTCCT	59.416	45.455	0.00	0.00	36.57	3.36
2056	4635	3.382865	GGGATTTTCCTGATGCTTCCTTC	59.617	47.826	0.00	0.00	36.57	3.46
2058	4637	4.708909	GGATTTTCCTGATGCTTCCTTCTT	59.291	41.667	0.00	0.00	32.53	2.52
2059	4638	5.393896	GGATTTTCCTGATGCTTCCTTCTTG	60.394	44.000	0.00	0.00	32.53	3.02
2060	4639	2.795231	TCCTGATGCTTCCTTCTTGG	57.205	50.000	0.00	0.00	37.10	3.61
2061	4640	1.988107	TCCTGATGCTTCCTTCTTGGT	59.012	47.619	0.00	0.00	37.07	3.67
2062	4641	2.376518	TCCTGATGCTTCCTTCTTGGTT	59.623	45.455	0.00	0.00	37.07	3.67
2063	4642	3.160269	CCTGATGCTTCCTTCTTGGTTT	58.840	45.455	0.00	0.00	37.07	3.27
2064	4643	3.575687	CCTGATGCTTCCTTCTTGGTTTT	59.424	43.478	0.00	0.00	37.07	2.43
2065	4644	4.321527	CCTGATGCTTCCTTCTTGGTTTTC	60.322	45.833	0.00	0.00	37.07	2.29
2066	4645	3.253188	TGATGCTTCCTTCTTGGTTTTCG	59.747	43.478	0.00	0.00	37.07	3.46
2067	4646	2.650322	TGCTTCCTTCTTGGTTTTCGT	58.350	42.857	0.00	0.00	37.07	3.85
2068	4647	3.020984	TGCTTCCTTCTTGGTTTTCGTT	58.979	40.909	0.00	0.00	37.07	3.85
2069	4648	3.445805	TGCTTCCTTCTTGGTTTTCGTTT	59.554	39.130	0.00	0.00	37.07	3.60
2070	4649	4.042398	GCTTCCTTCTTGGTTTTCGTTTC	58.958	43.478	0.00	0.00	37.07	2.78
2071	4650	4.439563	GCTTCCTTCTTGGTTTTCGTTTCA	60.440	41.667	0.00	0.00	37.07	2.69
2072	4651	5.736207	GCTTCCTTCTTGGTTTTCGTTTCAT	60.736	40.000	0.00	0.00	37.07	2.57
2073	4652	5.181690	TCCTTCTTGGTTTTCGTTTCATG	57.818	39.130	0.00	0.00	37.07	3.07
2125	4704	8.755018	GCATGTGCCTGTAATAATAACAAAATC	58.245	33.333	0.00	0.00	34.31	2.17
2245	4832	1.027357	GTTAGGCGGGTCGTATCTGA	58.973	55.000	0.00	0.00	0.00	3.27
2343	4934	6.346518	CCAATTCAAAACAACTATTTCGTGCC	60.347	38.462	0.00	0.00	0.00	5.01
2523	5227	1.518774	CCATGCCATGGTTGAAGCC	59.481	57.895	15.89	0.00	45.54	4.35
2662	5544	6.295067	GGTGGTAGCAAAATACAAAGACCATT	60.295	38.462	0.00	0.00	37.98	3.16
2768	5867	4.625028	GGCAGAAGCAAATTTCAAAGACT	58.375	39.130	0.00	0.00	44.61	3.24
2853	5956	0.243095	AGACGGACTTCAACGGTAGC	59.757	55.000	0.00	0.00	0.00	3.58

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	3.132160	GTGCCATCATCTCACTGATCTG	58.868	50.000	0.00	0.00	33.59	2.90
2	3	2.871022	GTGTGCCATCATCTCACTGATC	59.129	50.000	0.00	0.00	33.59	2.92
3	4	2.504585	AGTGTGCCATCATCTCACTGAT	59.495	45.455	0.00	0.00	37.04	2.90
5	6	2.398252	AGTGTGCCATCATCTCACTG	57.602	50.000	0.00	0.00	37.04	3.66
6	7	2.159184	CGTAGTGTGCCATCATCTCACT	60.159	50.000	0.00	0.00	40.21	3.41
7	8	2.196749	CGTAGTGTGCCATCATCTCAC	58.803	52.381	0.00	0.00	0.00	3.51
8	9	1.136891	CCGTAGTGTGCCATCATCTCA	59.863	52.381	0.00	0.00	0.00	3.27
9	10	1.858091	CCGTAGTGTGCCATCATCTC	58.142	55.000	0.00	0.00	0.00	2.75
10	11	0.179073	GCCGTAGTGTGCCATCATCT	60.179	55.000	0.00	0.00	0.00	2.90
11	12	0.179073	AGCCGTAGTGTGCCATCATC	60.179	55.000	0.00	0.00	0.00	2.92
12	13	1.069204	CTAGCCGTAGTGTGCCATCAT	59.931	52.381	0.00	0.00	0.00	2.45
13	14	0.459899	CTAGCCGTAGTGTGCCATCA	59.540	55.000	0.00	0.00	0.00	3.07
22	23	1.065701	CTGTCGATTGCTAGCCGTAGT	59.934	52.381	13.29	0.00	0.00	2.73
24	25	0.248907	GCTGTCGATTGCTAGCCGTA	60.249	55.000	13.29	0.00	0.00	4.02
43	44	0.598562	ACCTGACTCTGCAGTACGTG	59.401	55.000	14.67	2.90	34.06	4.49
44	45	0.882474	GACCTGACTCTGCAGTACGT	59.118	55.000	14.67	9.58	34.06	3.57
53	54	2.708051	CAATGTGCATGACCTGACTCT	58.292	47.619	0.00	0.00	0.00	3.24
69	70	4.675190	AGAAGAACACAATCGAGCAATG	57.325	40.909	0.00	0.00	0.00	2.82
109	110	7.622081	TGTTTGAGGTGATTAATCCTCCTAGTA	59.378	37.037	21.48	12.70	46.76	1.82
234	699	3.243704	TGTTCAATAAAACACCTGCAGGC	60.244	43.478	33.06	11.76	39.32	4.85
444	913	1.196808	CCGTGCGTTACAAAGCATCTT	59.803	47.619	5.88	0.00	44.67	2.40
449	918	1.997606	AGTATCCGTGCGTTACAAAGC	59.002	47.619	0.00	0.00	0.00	3.51
719	1479	3.188667	CCCTCCGTTTCTTTTTAGTCTGC	59.811	47.826	0.00	0.00	0.00	4.26
778	1550	5.328691	CAAATACATATTTTCACACGGCGT	58.671	37.500	6.77	6.77	33.88	5.68
781	1553	6.089476	TGTGCAAATACATATTTTCACACGG	58.911	36.000	19.36	0.55	46.74	4.94
846	1667	1.704628	TCTTGGCCATGACTCTTTCCA	59.295	47.619	17.00	0.00	0.00	3.53
916	1737	0.663153	GCGCCCAAATTAGCTACCAG	59.337	55.000	0.00	0.00	0.00	4.00
973	1794	2.301505	GCTAGCTGCACCACGTATG	58.698	57.895	7.70	0.00	42.31	2.39
974	1795	4.835927	GCTAGCTGCACCACGTAT	57.164	55.556	7.70	0.00	42.31	3.06
1013	1847	7.127339	GGATGAAGGAGGTGGGCTTTATATATA	59.873	40.741	0.00	0.00	0.00	0.86
1014	1848	6.069381	GGATGAAGGAGGTGGGCTTTATATAT	60.069	42.308	0.00	0.00	0.00	0.86
1015	1849	5.250774	GGATGAAGGAGGTGGGCTTTATATA	59.749	44.000	0.00	0.00	0.00	0.86
1016	1850	4.043435	GGATGAAGGAGGTGGGCTTTATAT	59.957	45.833	0.00	0.00	0.00	0.86
1017	1851	3.394606	GGATGAAGGAGGTGGGCTTTATA	59.605	47.826	0.00	0.00	0.00	0.98
1018	1852	2.175715	GGATGAAGGAGGTGGGCTTTAT	59.824	50.000	0.00	0.00	0.00	1.40
1019	1853	1.564348	GGATGAAGGAGGTGGGCTTTA	59.436	52.381	0.00	0.00	0.00	1.85
1020	1854	0.332972	GGATGAAGGAGGTGGGCTTT	59.667	55.000	0.00	0.00	0.00	3.51
1061	1900	0.336392	TAAGCTGGCAGGAGGAGAGA	59.664	55.000	17.64	0.00	0.00	3.10
1440	2291	1.110442	CGAGGCTCTTGGAGAGTGAT	58.890	55.000	13.50	0.00	44.12	3.06
2005	4575	1.174712	AGGCCACACACGTACGTACT	61.175	55.000	22.34	6.25	0.00	2.73
2006	4576	0.318955	AAGGCCACACACGTACGTAC	60.319	55.000	22.34	15.90	0.00	3.67
2007	4577	0.318869	CAAGGCCACACACGTACGTA	60.319	55.000	22.34	0.00	0.00	3.57
2008	4578	1.593209	CAAGGCCACACACGTACGT	60.593	57.895	16.72	16.72	0.00	3.57
2009	4579	2.314647	CCAAGGCCACACACGTACG	61.315	63.158	15.01	15.01	0.00	3.67
2010	4580	2.613506	GCCAAGGCCACACACGTAC	61.614	63.158	5.01	0.00	34.56	3.67
2011	4581	2.281208	GCCAAGGCCACACACGTA	60.281	61.111	5.01	0.00	34.56	3.57
2052	4631	3.735746	GCATGAAACGAAAACCAAGAAGG	59.264	43.478	0.00	0.00	45.67	3.46
2054	4633	4.377839	TGCATGAAACGAAAACCAAGAA	57.622	36.364	0.00	0.00	0.00	2.52
2056	4635	3.120923	GCATGCATGAAACGAAAACCAAG	60.121	43.478	30.64	0.00	0.00	3.61
2058	4637	2.223900	TGCATGCATGAAACGAAAACCA	60.224	40.909	30.64	11.24	0.00	3.67
2059	4638	2.402305	TGCATGCATGAAACGAAAACC	58.598	42.857	30.64	8.66	0.00	3.27
2060	4639	2.159934	GCTGCATGCATGAAACGAAAAC	60.160	45.455	30.64	9.40	42.31	2.43
2061	4640	2.060284	GCTGCATGCATGAAACGAAAA	58.940	42.857	30.64	3.62	42.31	2.29
2062	4641	1.669502	GGCTGCATGCATGAAACGAAA	60.670	47.619	30.64	4.96	45.15	3.46
2063	4642	0.109179	GGCTGCATGCATGAAACGAA	60.109	50.000	30.64	6.66	45.15	3.85
2064	4643	1.507630	GGCTGCATGCATGAAACGA	59.492	52.632	30.64	6.73	45.15	3.85
2065	4644	1.870458	CGGCTGCATGCATGAAACG	60.870	57.895	30.64	21.78	45.15	3.60
2066	4645	2.162754	GCGGCTGCATGCATGAAAC	61.163	57.895	30.64	15.60	45.15	2.78
2067	4646	2.182284	GCGGCTGCATGCATGAAA	59.818	55.556	30.64	15.85	45.15	2.69
2068	4647	4.182315	CGCGGCTGCATGCATGAA	62.182	61.111	30.64	19.89	45.15	2.57
2070	4649	3.874141	GATCGCGGCTGCATGCATG	62.874	63.158	22.97	22.70	45.15	4.06
2071	4650	3.657059	GATCGCGGCTGCATGCAT	61.657	61.111	22.97	3.67	45.15	3.96
2229	4816	0.175073	GTTTCAGATACGACCCGCCT	59.825	55.000	0.00	0.00	0.00	5.52
2233	4820	4.102035	ACTAACGTTTCAGATACGACCC	57.898	45.455	18.83	0.00	41.33	4.46
2245	4832	5.343860	GTGTGCAAAAGACAAACTAACGTTT	59.656	36.000	5.91	0.00	43.85	3.60
2429	5120	1.591863	GACTAAGATGGACGGCGGC	60.592	63.158	13.24	8.60	0.00	6.53
2432	5123	0.591741	CGACGACTAAGATGGACGGC	60.592	60.000	0.00	0.00	0.00	5.68
2523	5227	2.851824	GCTTCAACCGTTGTGTGAAAAG	59.148	45.455	11.01	7.32	0.00	2.27
2558	5279	0.031178	CAAGCGCAAAAGCAGGAACT	59.969	50.000	11.47	0.00	43.88	3.01
2564	5285	2.353376	GACGCAAGCGCAAAAGCA	60.353	55.556	15.09	0.00	44.19	3.91
2587	5308	1.715931	AGGTGATGGAATTTGGGACCA	59.284	47.619	0.00	0.00	38.09	4.02
2662	5544	5.652891	TGGAACCACTTTAAGTTTTGCTACA	59.347	36.000	0.00	0.00	0.00	2.74
2714	5813	3.019799	TGCTACCACCCTGTTTTTGAA	57.980	42.857	0.00	0.00	0.00	2.69
2768	5867	5.249852	ACCACTCTAGCCTTTTGTTACCATA	59.750	40.000	0.00	0.00	0.00	2.74
2827	5927	3.991773	CCGTTGAAGTCCGTCTTTTGATA	59.008	43.478	0.00	0.00	36.40	2.15
2873	5976	4.561326	GCAACCAGTCCAAAACATTGCTAT	60.561	41.667	0.00	0.00	38.98	2.97
2880	5984	0.459489	GCTGCAACCAGTCCAAAACA	59.541	50.000	0.00	0.00	41.26	2.83
2901	6005	1.338020	CCACCTTGTTTGAGTGCCTTC	59.662	52.381	0.00	0.00	0.00	3.46

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.