AutoCloner

Multiple sequence alignment - TraesCS6A01G073600

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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	TraesCS6A01G073600	chr6A	100.000	1582	0	0	951	2532	41485869	41487450	0.000000e+00	2922.0
1	TraesCS6A01G073600	chr6A	97.788	1582	33	2	951	2532	575446958	575448537	0.000000e+00	2726.0
2	TraesCS6A01G073600	chr6A	100.000	538	0	0	1	538	41484919	41485456	0.000000e+00	994.0
3	TraesCS6A01G073600	chr6A	99.571	466	2	0	73	538	575493460	575493925	0.000000e+00	850.0
4	TraesCS6A01G073600	chr6A	98.614	433	5	1	2095	2526	575494955	575495387	0.000000e+00	765.0
5	TraesCS6A01G073600	chr6A	97.619	294	3	2	73	365	575446230	575446520	3.760000e-138	501.0
6	TraesCS6A01G073600	chr6A	95.082	61	1	2	1	61	41589592	41589650	7.460000e-16	95.3
7	TraesCS6A01G073600	chr2A	96.528	1584	29	9	951	2532	111916082	111914523	0.000000e+00	2597.0
8	TraesCS6A01G073600	chr2A	95.238	1575	28	3	951	2525	605196757	605195230	0.000000e+00	2449.0
9	TraesCS6A01G073600	chr2A	94.014	1587	52	11	951	2532	719256643	719258191	0.000000e+00	2364.0
10	TraesCS6A01G073600	chr2A	93.056	1584	48	21	951	2532	18472224	18473747	0.000000e+00	2259.0
11	TraesCS6A01G073600	chr2A	95.662	1337	36	4	1198	2532	12600771	12602087	0.000000e+00	2128.0
12	TraesCS6A01G073600	chr2A	93.814	485	12	10	72	538	18471777	18472261	0.000000e+00	713.0
13	TraesCS6A01G073600	chr2A	98.947	285	3	0	73	357	605197290	605197006	6.250000e-141	510.0
14	TraesCS6A01G073600	chr2A	100.000	45	0	0	263	307	605197052	605197008	1.610000e-12	84.2
15	TraesCS6A01G073600	chr3A	94.385	1585	45	13	951	2532	24905392	24903849	0.000000e+00	2394.0
16	TraesCS6A01G073600	chr3A	93.794	1579	46	6	951	2528	708534603	708533076	0.000000e+00	2326.0
17	TraesCS6A01G073600	chr3A	97.966	295	5	1	72	365	708535315	708535021	6.250000e-141	510.0
18	TraesCS6A01G073600	chr3A	98.755	241	3	0	72	312	24906124	24905884	1.800000e-116	429.0
19	TraesCS6A01G073600	chr7A	94.378	1583	41	4	951	2532	46108114	46106579	0.000000e+00	2386.0
20	TraesCS6A01G073600	chr7A	93.951	1587	53	11	951	2532	70819741	70821289	0.000000e+00	2359.0
21	TraesCS6A01G073600	chr7A	94.606	482	10	10	73	538	46108558	46108077	0.000000e+00	732.0
22	TraesCS6A01G073600	chr7A	90.948	464	12	11	75	538	70819345	70819778	4.660000e-167	597.0
23	TraesCS6A01G073600	chr2D	93.028	1592	51	22	951	2528	645195063	645196608	0.000000e+00	2270.0
24	TraesCS6A01G073600	chr2D	92.949	468	17	10	73	538	645194647	645195100	0.000000e+00	667.0
25	TraesCS6A01G073600	chr3D	93.042	1581	52	21	951	2522	512508911	512510442	0.000000e+00	2257.0
26	TraesCS6A01G073600	chr3D	87.355	862	43	23	1678	2532	549323354	549324156	0.000000e+00	928.0
27	TraesCS6A01G073600	chr3D	79.079	478	65	17	73	538	590028812	590029266	1.900000e-76	296.0
28	TraesCS6A01G073600	chr3D	76.016	492	70	16	73	538	70093970	70094439	7.100000e-51	211.0
29	TraesCS6A01G073600	chr5D	95.422	1376	34	8	951	2324	543865649	543866997	0.000000e+00	2165.0
30	TraesCS6A01G073600	chr5D	91.649	467	26	9	72	538	45648277	45647824	3.550000e-178	634.0
31	TraesCS6A01G073600	chr5D	89.958	478	37	10	62	538	459635845	459635378	7.750000e-170	606.0
32	TraesCS6A01G073600	chr4A	96.791	1184	35	3	951	2131	436868403	436867220	0.000000e+00	1973.0
33	TraesCS6A01G073600	chr1A	92.934	467	20	11	73	538	567959234	567958780	0.000000e+00	667.0
34	TraesCS6A01G073600	chr6D	85.693	657	46	18	1678	2324	443447645	443447027	0.000000e+00	649.0
35	TraesCS6A01G073600	chr6D	91.453	468	20	12	72	538	17067057	17067505	2.140000e-175	625.0
36	TraesCS6A01G073600	chr5A	92.275	466	22	9	73	538	580202563	580203014	0.000000e+00	649.0
37	TraesCS6A01G073600	chr5A	85.408	233	24	7	315	538	639271949	639271718	1.510000e-57	233.0
38	TraesCS6A01G073600	chr7D	91.416	466	28	9	73	538	617526523	617526976	1.650000e-176	628.0
39	TraesCS6A01G073600	chr7D	78.763	485	68	17	67	538	4428280	4428742	2.460000e-75	292.0
40	TraesCS6A01G073600	chr1D	78.049	246	30	7	315	536	395449847	395449602	1.580000e-27	134.0

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	TraesCS6A01G073600	chr6A	41484919	41487450	2531	False	1958.0	2922	100.000000	1	2532	2	chr6A.!!$F2	2531
1	TraesCS6A01G073600	chr6A	575446230	575448537	2307	False	1613.5	2726	97.703500	73	2532	2	chr6A.!!$F3	2459
2	TraesCS6A01G073600	chr6A	575493460	575495387	1927	False	807.5	850	99.092500	73	2526	2	chr6A.!!$F4	2453
3	TraesCS6A01G073600	chr2A	111914523	111916082	1559	True	2597.0	2597	96.528000	951	2532	1	chr2A.!!$R1	1581
4	TraesCS6A01G073600	chr2A	719256643	719258191	1548	False	2364.0	2364	94.014000	951	2532	1	chr2A.!!$F2	1581
5	TraesCS6A01G073600	chr2A	12600771	12602087	1316	False	2128.0	2128	95.662000	1198	2532	1	chr2A.!!$F1	1334
6	TraesCS6A01G073600	chr2A	18471777	18473747	1970	False	1486.0	2259	93.435000	72	2532	2	chr2A.!!$F3	2460
7	TraesCS6A01G073600	chr2A	605195230	605197290	2060	True	1014.4	2449	98.061667	73	2525	3	chr2A.!!$R2	2452
8	TraesCS6A01G073600	chr3A	708533076	708535315	2239	True	1418.0	2326	95.880000	72	2528	2	chr3A.!!$R2	2456
9	TraesCS6A01G073600	chr3A	24903849	24906124	2275	True	1411.5	2394	96.570000	72	2532	2	chr3A.!!$R1	2460
10	TraesCS6A01G073600	chr7A	46106579	46108558	1979	True	1559.0	2386	94.492000	73	2532	2	chr7A.!!$R1	2459
11	TraesCS6A01G073600	chr7A	70819345	70821289	1944	False	1478.0	2359	92.449500	75	2532	2	chr7A.!!$F1	2457
12	TraesCS6A01G073600	chr2D	645194647	645196608	1961	False	1468.5	2270	92.988500	73	2528	2	chr2D.!!$F1	2455
13	TraesCS6A01G073600	chr3D	512508911	512510442	1531	False	2257.0	2257	93.042000	951	2522	1	chr3D.!!$F2	1571
14	TraesCS6A01G073600	chr3D	549323354	549324156	802	False	928.0	928	87.355000	1678	2532	1	chr3D.!!$F3	854
15	TraesCS6A01G073600	chr5D	543865649	543866997	1348	False	2165.0	2165	95.422000	951	2324	1	chr5D.!!$F1	1373
16	TraesCS6A01G073600	chr4A	436867220	436868403	1183	True	1973.0	1973	96.791000	951	2131	1	chr4A.!!$R1	1180
17	TraesCS6A01G073600	chr6D	443447027	443447645	618	True	649.0	649	85.693000	1678	2324	1	chr6D.!!$R1	646

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
535	917	0.031994	ACTGCCGTTGACAAAATGCC	59.968	50.0	0.0	0.0	0.0	4.4	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1789	2191	1.304134	GGGCCCATTTTCTCACGGT	60.304	57.895	19.95	0.0	0.0	4.83	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	4.403976	GATCCCGACTTCTCGTGC	57.596	61.111	0.00	0.00	38.32	5.34
18	19	1.586564	GATCCCGACTTCTCGTGCG	60.587	63.158	0.00	0.00	38.32	5.34
19	20	2.938539	GATCCCGACTTCTCGTGCGG	62.939	65.000	0.00	0.00	43.20	5.69
34	35	3.116531	CGGCCGGGAAGTCGAAAC	61.117	66.667	20.10	0.00	0.00	2.78
35	36	3.116531	GGCCGGGAAGTCGAAACG	61.117	66.667	2.18	0.00	0.00	3.60
36	37	2.356673	GCCGGGAAGTCGAAACGT	60.357	61.111	2.18	0.00	0.00	3.99
37	38	1.080569	GCCGGGAAGTCGAAACGTA	60.081	57.895	2.18	0.00	0.00	3.57
38	39	0.667184	GCCGGGAAGTCGAAACGTAA	60.667	55.000	2.18	0.00	0.00	3.18
39	40	1.782044	CCGGGAAGTCGAAACGTAAA	58.218	50.000	0.00	0.00	0.00	2.01
40	41	2.340337	CCGGGAAGTCGAAACGTAAAT	58.660	47.619	0.00	0.00	0.00	1.40
41	42	2.346545	CCGGGAAGTCGAAACGTAAATC	59.653	50.000	0.00	0.00	0.00	2.17
42	43	3.248266	CGGGAAGTCGAAACGTAAATCT	58.752	45.455	0.00	0.00	0.00	2.40
43	44	3.060363	CGGGAAGTCGAAACGTAAATCTG	59.940	47.826	0.00	0.00	0.00	2.90
44	45	4.240096	GGGAAGTCGAAACGTAAATCTGA	58.760	43.478	0.00	0.00	0.00	3.27
45	46	4.326548	GGGAAGTCGAAACGTAAATCTGAG	59.673	45.833	0.00	0.00	0.00	3.35
46	47	4.326548	GGAAGTCGAAACGTAAATCTGAGG	59.673	45.833	0.00	0.00	0.00	3.86
47	48	3.251571	AGTCGAAACGTAAATCTGAGGC	58.748	45.455	0.00	0.00	0.00	4.70
48	49	3.056749	AGTCGAAACGTAAATCTGAGGCT	60.057	43.478	0.00	0.00	0.00	4.58
49	50	3.303760	GTCGAAACGTAAATCTGAGGCTC	59.696	47.826	7.79	7.79	0.00	4.70
50	51	3.192844	TCGAAACGTAAATCTGAGGCTCT	59.807	43.478	16.72	0.00	0.00	4.09
51	52	3.927142	CGAAACGTAAATCTGAGGCTCTT	59.073	43.478	16.72	3.97	0.00	2.85
52	53	4.201628	CGAAACGTAAATCTGAGGCTCTTG	60.202	45.833	16.72	8.79	0.00	3.02
53	54	3.963428	ACGTAAATCTGAGGCTCTTGT	57.037	42.857	16.72	0.00	0.00	3.16
54	55	4.273148	ACGTAAATCTGAGGCTCTTGTT	57.727	40.909	16.72	7.22	0.00	2.83
55	56	4.642429	ACGTAAATCTGAGGCTCTTGTTT	58.358	39.130	16.72	14.55	0.00	2.83
56	57	5.063880	ACGTAAATCTGAGGCTCTTGTTTT	58.936	37.500	16.72	16.01	0.00	2.43
57	58	5.179555	ACGTAAATCTGAGGCTCTTGTTTTC	59.820	40.000	16.72	9.93	0.00	2.29
58	59	5.409826	CGTAAATCTGAGGCTCTTGTTTTCT	59.590	40.000	16.72	0.16	0.00	2.52
59	60	6.073003	CGTAAATCTGAGGCTCTTGTTTTCTT	60.073	38.462	16.72	1.51	0.00	2.52
60	61	6.721704	AAATCTGAGGCTCTTGTTTTCTTT	57.278	33.333	16.72	2.07	0.00	2.52
61	62	6.721704	AATCTGAGGCTCTTGTTTTCTTTT	57.278	33.333	16.72	0.00	0.00	2.27
62	63	5.757850	TCTGAGGCTCTTGTTTTCTTTTC	57.242	39.130	16.72	0.00	0.00	2.29
63	64	5.440610	TCTGAGGCTCTTGTTTTCTTTTCT	58.559	37.500	16.72	0.00	0.00	2.52
64	65	5.888161	TCTGAGGCTCTTGTTTTCTTTTCTT	59.112	36.000	16.72	0.00	0.00	2.52
65	66	6.378280	TCTGAGGCTCTTGTTTTCTTTTCTTT	59.622	34.615	16.72	0.00	0.00	2.52
66	67	6.935167	TGAGGCTCTTGTTTTCTTTTCTTTT	58.065	32.000	16.72	0.00	0.00	2.27
67	68	7.386059	TGAGGCTCTTGTTTTCTTTTCTTTTT	58.614	30.769	16.72	0.00	0.00	1.94
500	882	2.191513	CAGCCTCCCGCCAATCATG	61.192	63.158	0.00	0.00	38.78	3.07
522	904	4.521075	CAGTATGGTCCACTGCCG	57.479	61.111	0.00	0.00	37.22	5.69
523	905	1.596934	CAGTATGGTCCACTGCCGT	59.403	57.895	0.00	0.00	37.22	5.68
524	906	0.036388	CAGTATGGTCCACTGCCGTT	60.036	55.000	0.00	0.00	37.22	4.44
525	907	0.036388	AGTATGGTCCACTGCCGTTG	60.036	55.000	0.00	0.00	0.00	4.10
526	908	0.036765	GTATGGTCCACTGCCGTTGA	60.037	55.000	0.00	0.00	0.00	3.18
527	909	0.036765	TATGGTCCACTGCCGTTGAC	60.037	55.000	4.17	4.17	35.63	3.18
528	910	2.050836	ATGGTCCACTGCCGTTGACA	62.051	55.000	13.27	2.17	37.50	3.58
529	911	1.525077	GGTCCACTGCCGTTGACAA	60.525	57.895	13.27	0.00	37.50	3.18
530	912	1.098712	GGTCCACTGCCGTTGACAAA	61.099	55.000	13.27	0.00	37.50	2.83
531	913	0.736053	GTCCACTGCCGTTGACAAAA	59.264	50.000	7.49	0.00	36.21	2.44
532	914	1.336755	GTCCACTGCCGTTGACAAAAT	59.663	47.619	7.49	0.00	36.21	1.82
533	915	1.336440	TCCACTGCCGTTGACAAAATG	59.664	47.619	0.00	0.00	0.00	2.32
534	916	1.130955	CACTGCCGTTGACAAAATGC	58.869	50.000	0.00	0.00	0.00	3.56
535	917	0.031994	ACTGCCGTTGACAAAATGCC	59.968	50.000	0.00	0.00	0.00	4.40
536	918	0.667184	CTGCCGTTGACAAAATGCCC	60.667	55.000	0.00	0.00	0.00	5.36
537	919	1.374125	GCCGTTGACAAAATGCCCC	60.374	57.895	0.00	0.00	0.00	5.80
1113	1495	3.935828	GGCAGGTTAGATCTGTGTTCTTC	59.064	47.826	5.18	0.00	34.89	2.87
1202	1586	3.392616	GGTGGTGGATCTAGGATTCATGT	59.607	47.826	0.00	0.00	0.00	3.21
1403	1801	3.813443	AGTGCAGAACTGAAGTGTGAAT	58.187	40.909	5.97	0.00	37.88	2.57
1607	2005	1.281867	TGAGTTAGCCAGGGACCATTG	59.718	52.381	0.00	0.00	0.00	2.82
1681	2079	4.251169	TGATATTCTCAGGGGCCCTATTT	58.749	43.478	28.28	10.43	29.64	1.40
1789	2191	1.475034	GGCTGCCGAATAGATGTTGGA	60.475	52.381	1.35	0.00	0.00	3.53
1874	2298	0.252103	AGCCCACCTCTAACTTCGGA	60.252	55.000	0.00	0.00	0.00	4.55
1936	2361	7.945033	TTATTTTGCCTTTTTCTTGCACTAG	57.055	32.000	0.00	0.00	34.16	2.57
2012	2437	4.492494	TGCATGTCTACTGTTCCATGAT	57.508	40.909	14.34	0.00	37.47	2.45
2013	2438	4.847198	TGCATGTCTACTGTTCCATGATT	58.153	39.130	14.34	0.00	37.47	2.57
2119	2544	0.464554	GGGGCTCCTAGTTGCATGTC	60.465	60.000	0.00	0.00	0.00	3.06
2120	2545	0.464554	GGGCTCCTAGTTGCATGTCC	60.465	60.000	0.00	0.00	0.00	4.02
2121	2546	0.253044	GGCTCCTAGTTGCATGTCCA	59.747	55.000	0.00	0.00	0.00	4.02
2122	2547	1.133976	GGCTCCTAGTTGCATGTCCAT	60.134	52.381	0.00	0.00	0.00	3.41
2123	2548	1.945394	GCTCCTAGTTGCATGTCCATG	59.055	52.381	2.86	2.86	41.60	3.66
2124	2549	2.569059	CTCCTAGTTGCATGTCCATGG	58.431	52.381	4.97	4.97	39.16	3.66
2125	2550	1.915489	TCCTAGTTGCATGTCCATGGT	59.085	47.619	12.58	0.00	39.16	3.55
2126	2551	2.308570	TCCTAGTTGCATGTCCATGGTT	59.691	45.455	12.58	0.00	39.16	3.67
2127	2552	3.091545	CCTAGTTGCATGTCCATGGTTT	58.908	45.455	12.58	0.00	39.16	3.27
2128	2553	3.119388	CCTAGTTGCATGTCCATGGTTTG	60.119	47.826	12.58	9.11	39.16	2.93
2130	2555	0.975135	TTGCATGTCCATGGTTTGGG	59.025	50.000	12.58	0.25	46.45	4.12
2131	2556	0.903924	TGCATGTCCATGGTTTGGGG	60.904	55.000	12.58	0.00	46.45	4.96
2132	2557	1.616091	GCATGTCCATGGTTTGGGGG	61.616	60.000	12.58	0.00	46.45	5.40
2133	2558	1.306056	ATGTCCATGGTTTGGGGGC	60.306	57.895	12.58	0.00	46.45	5.80
2134	2559	3.068064	GTCCATGGTTTGGGGGCG	61.068	66.667	12.58	0.00	46.45	6.13

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
17	18	3.116531	GTTTCGACTTCCCGGCCG	61.117	66.667	21.04	21.04	0.00	6.13
18	19	2.490993	TACGTTTCGACTTCCCGGCC	62.491	60.000	0.00	0.00	0.00	6.13
19	20	0.667184	TTACGTTTCGACTTCCCGGC	60.667	55.000	0.00	0.00	0.00	6.13
20	21	1.782044	TTTACGTTTCGACTTCCCGG	58.218	50.000	0.00	0.00	0.00	5.73
21	22	3.060363	CAGATTTACGTTTCGACTTCCCG	59.940	47.826	0.00	0.00	0.00	5.14
22	23	4.240096	TCAGATTTACGTTTCGACTTCCC	58.760	43.478	0.00	0.00	0.00	3.97
23	24	4.326548	CCTCAGATTTACGTTTCGACTTCC	59.673	45.833	0.00	0.00	0.00	3.46
24	25	4.201599	GCCTCAGATTTACGTTTCGACTTC	60.202	45.833	0.00	0.00	0.00	3.01
25	26	3.678548	GCCTCAGATTTACGTTTCGACTT	59.321	43.478	0.00	0.00	0.00	3.01
26	27	3.056749	AGCCTCAGATTTACGTTTCGACT	60.057	43.478	0.00	0.00	0.00	4.18
27	28	3.251571	AGCCTCAGATTTACGTTTCGAC	58.748	45.455	0.00	0.00	0.00	4.20
28	29	3.192844	AGAGCCTCAGATTTACGTTTCGA	59.807	43.478	0.00	0.00	0.00	3.71
29	30	3.512680	AGAGCCTCAGATTTACGTTTCG	58.487	45.455	0.00	0.00	0.00	3.46
30	31	4.691216	ACAAGAGCCTCAGATTTACGTTTC	59.309	41.667	0.00	0.00	0.00	2.78
31	32	4.642429	ACAAGAGCCTCAGATTTACGTTT	58.358	39.130	0.00	0.00	0.00	3.60
32	33	4.273148	ACAAGAGCCTCAGATTTACGTT	57.727	40.909	0.00	0.00	0.00	3.99
33	34	3.963428	ACAAGAGCCTCAGATTTACGT	57.037	42.857	0.00	0.00	0.00	3.57
34	35	5.409826	AGAAAACAAGAGCCTCAGATTTACG	59.590	40.000	0.00	0.00	0.00	3.18
35	36	6.809630	AGAAAACAAGAGCCTCAGATTTAC	57.190	37.500	0.00	0.00	0.00	2.01
36	37	7.823745	AAAGAAAACAAGAGCCTCAGATTTA	57.176	32.000	0.00	0.00	0.00	1.40
37	38	6.721704	AAAGAAAACAAGAGCCTCAGATTT	57.278	33.333	0.00	0.00	0.00	2.17
38	39	6.548993	AGAAAAGAAAACAAGAGCCTCAGATT	59.451	34.615	0.00	0.00	0.00	2.40
39	40	6.067350	AGAAAAGAAAACAAGAGCCTCAGAT	58.933	36.000	0.00	0.00	0.00	2.90
40	41	5.440610	AGAAAAGAAAACAAGAGCCTCAGA	58.559	37.500	0.00	0.00	0.00	3.27
41	42	5.764487	AGAAAAGAAAACAAGAGCCTCAG	57.236	39.130	0.00	0.00	0.00	3.35
42	43	6.530019	AAAGAAAAGAAAACAAGAGCCTCA	57.470	33.333	0.00	0.00	0.00	3.86
43	44	7.834068	AAAAAGAAAAGAAAACAAGAGCCTC	57.166	32.000	0.00	0.00	0.00	4.70
64	65	0.902516	AGCTATTGGCCCCGCAAAAA	60.903	50.000	0.00	0.00	43.05	1.94
65	66	1.304879	AGCTATTGGCCCCGCAAAA	60.305	52.632	0.00	0.00	43.05	2.44
66	67	1.752694	GAGCTATTGGCCCCGCAAA	60.753	57.895	0.00	0.00	43.05	3.68
67	68	2.124320	GAGCTATTGGCCCCGCAA	60.124	61.111	0.00	0.00	43.05	4.85
68	69	4.189580	GGAGCTATTGGCCCCGCA	62.190	66.667	0.00	0.00	43.05	5.69
69	70	3.878667	AGGAGCTATTGGCCCCGC	61.879	66.667	0.00	0.00	44.12	6.13
70	71	2.111878	CAGGAGCTATTGGCCCCG	59.888	66.667	0.00	0.00	44.12	5.73
501	883	3.050703	CAGTGGACCATACTGCGTC	57.949	57.895	0.00	0.00	39.09	5.19
505	887	0.036388	AACGGCAGTGGACCATACTG	60.036	55.000	7.58	7.58	46.37	2.74
506	888	0.036388	CAACGGCAGTGGACCATACT	60.036	55.000	0.00	0.00	0.00	2.12
507	889	0.036765	TCAACGGCAGTGGACCATAC	60.037	55.000	0.00	0.00	0.00	2.39
508	890	0.036765	GTCAACGGCAGTGGACCATA	60.037	55.000	13.05	0.00	43.84	2.74
509	891	1.302511	GTCAACGGCAGTGGACCAT	60.303	57.895	13.05	0.00	43.84	3.55
510	892	2.110213	GTCAACGGCAGTGGACCA	59.890	61.111	13.05	0.00	43.84	4.02
513	895	1.336440	CATTTTGTCAACGGCAGTGGA	59.664	47.619	0.00	0.00	0.00	4.02
514	896	1.769733	CATTTTGTCAACGGCAGTGG	58.230	50.000	0.00	0.00	0.00	4.00
515	897	1.130955	GCATTTTGTCAACGGCAGTG	58.869	50.000	0.00	0.00	0.00	3.66
516	898	0.031994	GGCATTTTGTCAACGGCAGT	59.968	50.000	5.09	0.00	0.00	4.40
517	899	0.667184	GGGCATTTTGTCAACGGCAG	60.667	55.000	5.09	0.00	0.00	4.85
518	900	1.365633	GGGCATTTTGTCAACGGCA	59.634	52.632	5.09	0.00	0.00	5.69
519	901	1.374125	GGGGCATTTTGTCAACGGC	60.374	57.895	0.00	0.00	0.00	5.68
520	902	4.985845	GGGGCATTTTGTCAACGG	57.014	55.556	0.00	0.00	0.00	4.44
1403	1801	4.768583	AGTTGCTTGCCAATTTTCTTCAA	58.231	34.783	0.00	0.00	35.55	2.69
1681	2079	4.284490	AGAGGAAACAGAGCATGAACACTA	59.716	41.667	0.00	0.00	0.00	2.74
1789	2191	1.304134	GGGCCCATTTTCTCACGGT	60.304	57.895	19.95	0.00	0.00	4.83
1874	2298	7.898100	ACATTTTATTGGGCCCCATTTTATTTT	59.102	29.630	22.27	0.00	31.53	1.82

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.