AutoCloner

Multiple sequence alignment - TraesCS5D01G055100

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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	TraesCS5D01G055100	chr5D	100.000	2312	0	0	1	2312	51892004	51894315	0.000000e+00	4270
1	TraesCS5D01G055100	chr5D	83.344	1537	160	55	1	1494	51860027	51861510	0.000000e+00	1332
2	TraesCS5D01G055100	chr5D	87.460	933	59	23	558	1451	51851867	51852780	0.000000e+00	1022
3	TraesCS5D01G055100	chr5D	87.148	817	56	20	559	1350	51674860	51675652	0.000000e+00	881
4	TraesCS5D01G055100	chr5D	82.988	917	82	36	617	1498	51637161	51638038	0.000000e+00	761
5	TraesCS5D01G055100	chr5D	83.185	785	78	27	573	1342	51697934	51698679	0.000000e+00	669
6	TraesCS5D01G055100	chr5D	95.833	96	4	0	1706	1801	181883429	181883334	3.080000e-34	156
7	TraesCS5D01G055100	chr5B	92.629	1723	106	11	1	1712	55027514	55029226	0.000000e+00	2459
8	TraesCS5D01G055100	chr5B	85.599	1111	105	28	394	1482	54859684	54860761	0.000000e+00	1114
9	TraesCS5D01G055100	chr5B	86.430	818	59	25	559	1350	54549063	54549854	0.000000e+00	848
10	TraesCS5D01G055100	chr5B	83.974	780	67	28	584	1350	54709909	54710643	0.000000e+00	695
11	TraesCS5D01G055100	chr5B	81.049	839	101	38	594	1387	54830706	54831531	1.170000e-172	616
12	TraesCS5D01G055100	chr5B	85.038	528	47	12	1793	2312	55029224	55029727	2.050000e-140	508
13	TraesCS5D01G055100	chr5B	81.771	384	30	13	558	901	54845106	54845489	3.760000e-73	285
14	TraesCS5D01G055100	chr5B	83.974	156	22	3	893	1048	54847650	54847802	1.850000e-31	147
15	TraesCS5D01G055100	chr5B	92.473	93	6	1	1791	1882	54851056	54851148	5.180000e-27	132
16	TraesCS5D01G055100	chr5A	82.976	1539	162	54	1	1495	40933819	40935301	0.000000e+00	1299
17	TraesCS5D01G055100	chr5A	82.976	1539	162	54	1	1495	40967702	40969184	0.000000e+00	1299
18	TraesCS5D01G055100	chr5A	82.846	1539	164	54	1	1495	41004584	41006066	0.000000e+00	1288
19	TraesCS5D01G055100	chr5A	91.605	941	42	17	1	929	41045316	41046231	0.000000e+00	1266
20	TraesCS5D01G055100	chr5A	94.366	426	24	0	1	426	41083854	41084279	0.000000e+00	654
21	TraesCS5D01G055100	chr5A	88.704	540	43	10	962	1495	41046228	41046755	0.000000e+00	643
22	TraesCS5D01G055100	chr5A	95.466	397	14	1	423	819	41087147	41087539	4.190000e-177	630
23	TraesCS5D01G055100	chr5A	89.846	325	18	9	618	929	40925041	40925363	9.950000e-109	403
24	TraesCS5D01G055100	chr5A	97.872	141	3	0	816	956	41087713	41087853	6.380000e-61	244
25	TraesCS5D01G055100	chr5A	93.137	102	4	2	1793	1892	40629572	40629672	1.850000e-31	147
26	TraesCS5D01G055100	chr7A	86.875	160	17	4	1550	1707	161689510	161689353	2.360000e-40	176
27	TraesCS5D01G055100	chr7A	94.118	102	3	3	1710	1810	126551988	126551889	3.980000e-33	152
28	TraesCS5D01G055100	chr7D	86.250	160	18	4	1550	1707	160550570	160550413	1.100000e-38	171
29	TraesCS5D01G055100	chr7D	94.118	102	4	2	1706	1805	58488123	58488022	1.110000e-33	154
30	TraesCS5D01G055100	chr6D	85.443	158	22	1	1547	1704	392273070	392273226	1.840000e-36	163
31	TraesCS5D01G055100	chr2B	85.000	160	24	0	1552	1711	190023043	190022884	1.840000e-36	163
32	TraesCS5D01G055100	chr2B	82.320	181	28	4	1617	1795	493852832	493852654	1.110000e-33	154
33	TraesCS5D01G055100	chr1A	84.906	159	24	0	1552	1710	395177601	395177443	6.610000e-36	161
34	TraesCS5D01G055100	chr6A	95.960	99	3	1	1707	1804	460008593	460008495	2.380000e-35	159
35	TraesCS5D01G055100	chr4A	95.098	102	4	1	1697	1798	37283837	37283937	2.380000e-35	159
36	TraesCS5D01G055100	chr2D	85.256	156	21	2	1550	1704	445186728	445186882	2.380000e-35	159
37	TraesCS5D01G055100	chr7B	96.842	95	2	1	1709	1803	285453487	285453580	8.550000e-35	158
38	TraesCS5D01G055100	chr1D	84.277	159	25	0	1552	1710	314705758	314705600	3.080000e-34	156
39	TraesCS5D01G055100	chr1B	91.150	113	10	0	1683	1795	172000746	172000858	1.110000e-33	154
40	TraesCS5D01G055100	chr3B	90.991	111	7	3	1709	1819	765013434	765013541	1.850000e-31	147

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	TraesCS5D01G055100	chr5D	51892004	51894315	2311	False	4270.000000	4270	100.000000	1	2312	1	chr5D.!!$F6	2311
1	TraesCS5D01G055100	chr5D	51860027	51861510	1483	False	1332.000000	1332	83.344000	1	1494	1	chr5D.!!$F5	1493
2	TraesCS5D01G055100	chr5D	51851867	51852780	913	False	1022.000000	1022	87.460000	558	1451	1	chr5D.!!$F4	893
3	TraesCS5D01G055100	chr5D	51674860	51675652	792	False	881.000000	881	87.148000	559	1350	1	chr5D.!!$F2	791
4	TraesCS5D01G055100	chr5D	51637161	51638038	877	False	761.000000	761	82.988000	617	1498	1	chr5D.!!$F1	881
5	TraesCS5D01G055100	chr5D	51697934	51698679	745	False	669.000000	669	83.185000	573	1342	1	chr5D.!!$F3	769
6	TraesCS5D01G055100	chr5B	55027514	55029727	2213	False	1483.500000	2459	88.833500	1	2312	2	chr5B.!!$F6	2311
7	TraesCS5D01G055100	chr5B	54859684	54860761	1077	False	1114.000000	1114	85.599000	394	1482	1	chr5B.!!$F4	1088
8	TraesCS5D01G055100	chr5B	54549063	54549854	791	False	848.000000	848	86.430000	559	1350	1	chr5B.!!$F1	791
9	TraesCS5D01G055100	chr5B	54709909	54710643	734	False	695.000000	695	83.974000	584	1350	1	chr5B.!!$F2	766
10	TraesCS5D01G055100	chr5B	54830706	54831531	825	False	616.000000	616	81.049000	594	1387	1	chr5B.!!$F3	793
11	TraesCS5D01G055100	chr5A	40933819	40935301	1482	False	1299.000000	1299	82.976000	1	1495	1	chr5A.!!$F3	1494
12	TraesCS5D01G055100	chr5A	40967702	40969184	1482	False	1299.000000	1299	82.976000	1	1495	1	chr5A.!!$F4	1494
13	TraesCS5D01G055100	chr5A	41004584	41006066	1482	False	1288.000000	1288	82.846000	1	1495	1	chr5A.!!$F5	1494
14	TraesCS5D01G055100	chr5A	41045316	41046755	1439	False	954.500000	1266	90.154500	1	1495	2	chr5A.!!$F6	1494
15	TraesCS5D01G055100	chr5A	41083854	41087853	3999	False	509.333333	654	95.901333	1	956	3	chr5A.!!$F7	955

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
34	35	0.183492	AGGTGCAGGAAACTTGCAGA	59.817	50.0	8.66	0.0	42.39	4.26	F
278	294	0.324552	TTCCCCGATTCACCCGAGTA	60.325	55.0	0.00	0.0	0.00	2.59	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1137	4351	0.269173	CCATCTCCTTCCCCCTAGGT	59.731	60.0	8.29	0.0	36.75	3.08	R
2166	5423	0.034863	GCCTGTCGGGGGATTTAACA	60.035	55.0	0.00	0.0	35.12	2.41	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
34	35	0.183492	AGGTGCAGGAAACTTGCAGA	59.817	50.000	8.66	0.00	42.39	4.26
107	120	1.303799	GCCTCTGTGGTGCATGACTG	61.304	60.000	0.00	0.00	38.35	3.51
211	227	3.423154	GTTCGGCCCGCAGAACTG	61.423	66.667	20.76	0.00	43.99	3.16
278	294	0.324552	TTCCCCGATTCACCCGAGTA	60.325	55.000	0.00	0.00	0.00	2.59
285	301	4.189231	CCGATTCACCCGAGTATTCTTTT	58.811	43.478	0.00	0.00	0.00	2.27
293	309	4.928020	ACCCGAGTATTCTTTTTCGAGAAC	59.072	41.667	0.00	0.00	38.39	3.01
317	333	5.990120	ATTTCAGAACCCAGGAAATCTTG	57.010	39.130	0.00	0.00	36.76	3.02
330	346	4.524328	AGGAAATCTTGAAACATTTCGCCT	59.476	37.500	0.18	0.00	39.12	5.52
497	3397	6.003859	AGAGGAAGAATCAGATGCTCATTT	57.996	37.500	0.00	0.00	0.00	2.32
526	3442	8.902540	TGGTATCATGCTTAATAAGTACAAGG	57.097	34.615	1.68	0.00	0.00	3.61
956	4120	1.819288	ACGAGAGCAAGCTTAGCTACA	59.181	47.619	19.07	0.00	43.58	2.74
1137	4351	0.761323	TGGTGGAACTGGACGAGGAA	60.761	55.000	0.00	0.00	36.74	3.36
1288	4502	2.357034	TTGTCCCGCTGCTTCGTC	60.357	61.111	0.00	0.00	0.00	4.20
1321	4535	0.327924	CTGGGTGTAGTGCATGGGAA	59.672	55.000	0.00	0.00	0.00	3.97
1429	4668	3.074390	TGTGGAGACCAAGGAAATCATGT	59.926	43.478	0.00	0.00	34.18	3.21
1560	4814	8.765219	CATTAAAATATGAACAGTACTCCCTCG	58.235	37.037	0.00	0.00	0.00	4.63
1564	4818	1.891150	TGAACAGTACTCCCTCGGTTC	59.109	52.381	12.32	12.32	38.51	3.62
1634	4888	7.771183	AGACATGTTTTAGTGTGTTTGTTCAT	58.229	30.769	0.00	0.00	0.00	2.57
1640	4894	9.429359	TGTTTTAGTGTGTTTGTTCATTCATTT	57.571	25.926	0.00	0.00	0.00	2.32
1646	4900	6.198966	GTGTGTTTGTTCATTCATTTCAGTCC	59.801	38.462	0.00	0.00	0.00	3.85
1650	4904	5.856126	TGTTCATTCATTTCAGTCCGTAC	57.144	39.130	0.00	0.00	0.00	3.67
1658	4912	2.183478	TTCAGTCCGTACGTAGTCCA	57.817	50.000	15.21	0.00	43.93	4.02
1659	4913	1.730501	TCAGTCCGTACGTAGTCCAG	58.269	55.000	15.21	0.00	43.93	3.86
1663	4917	2.485814	AGTCCGTACGTAGTCCAGTTTC	59.514	50.000	15.21	0.00	43.93	2.78
1671	4925	7.388712	CGTACGTAGTCCAGTTTCAAATATTG	58.611	38.462	7.22	0.00	43.93	1.90
1709	4963	2.354403	CGAAACGGAGGGAGTACCAAAT	60.354	50.000	0.00	0.00	43.89	2.32
1710	4964	3.119029	CGAAACGGAGGGAGTACCAAATA	60.119	47.826	0.00	0.00	43.89	1.40
1711	4965	3.900966	AACGGAGGGAGTACCAAATAC	57.099	47.619	0.00	0.00	43.89	1.89
1720	4974	3.111741	AGTACCAAATACTCCCTCCGT	57.888	47.619	0.00	0.00	40.31	4.69
1721	4975	4.255510	AGTACCAAATACTCCCTCCGTA	57.744	45.455	0.00	0.00	40.31	4.02
1722	4976	4.613437	AGTACCAAATACTCCCTCCGTAA	58.387	43.478	0.00	0.00	40.31	3.18
1723	4977	5.025453	AGTACCAAATACTCCCTCCGTAAA	58.975	41.667	0.00	0.00	40.31	2.01
1724	4978	4.212143	ACCAAATACTCCCTCCGTAAAC	57.788	45.455	0.00	0.00	0.00	2.01
1725	4979	3.842436	ACCAAATACTCCCTCCGTAAACT	59.158	43.478	0.00	0.00	0.00	2.66
1726	4980	5.025453	ACCAAATACTCCCTCCGTAAACTA	58.975	41.667	0.00	0.00	0.00	2.24
1727	4981	5.484998	ACCAAATACTCCCTCCGTAAACTAA	59.515	40.000	0.00	0.00	0.00	2.24
1728	4982	6.157471	ACCAAATACTCCCTCCGTAAACTAAT	59.843	38.462	0.00	0.00	0.00	1.73
1729	4983	7.345392	ACCAAATACTCCCTCCGTAAACTAATA	59.655	37.037	0.00	0.00	0.00	0.98
1730	4984	8.373220	CCAAATACTCCCTCCGTAAACTAATAT	58.627	37.037	0.00	0.00	0.00	1.28
1735	4989	8.773033	ACTCCCTCCGTAAACTAATATAAGAA	57.227	34.615	0.00	0.00	0.00	2.52
1736	4990	8.637099	ACTCCCTCCGTAAACTAATATAAGAAC	58.363	37.037	0.00	0.00	0.00	3.01
1737	4991	7.651808	TCCCTCCGTAAACTAATATAAGAACG	58.348	38.462	0.00	0.00	0.00	3.95
1738	4992	7.285401	TCCCTCCGTAAACTAATATAAGAACGT	59.715	37.037	0.00	0.00	0.00	3.99
1739	4993	7.922811	CCCTCCGTAAACTAATATAAGAACGTT	59.077	37.037	0.00	0.00	0.00	3.99
1740	4994	9.305925	CCTCCGTAAACTAATATAAGAACGTTT	57.694	33.333	0.46	0.00	0.00	3.60
1790	5044	9.710818	ACACTCTTATATTAGTTTACAGAGGGA	57.289	33.333	2.59	0.00	34.50	4.20
1848	5102	9.915629	GGATCTAATGATACATATTCGGTATCC	57.084	37.037	9.36	0.00	44.08	2.59
1858	5112	5.306937	ACATATTCGGTATCCTGAATGGTGA	59.693	40.000	2.73	0.00	36.32	4.02
1889	5143	5.189928	TCTGTAACCTTGCTCAAACTTCAA	58.810	37.500	0.00	0.00	0.00	2.69
1899	5153	8.706035	CCTTGCTCAAACTTCAAAAATATTGAG	58.294	33.333	8.54	8.54	44.00	3.02
1901	5155	9.598517	TTGCTCAAACTTCAAAAATATTGAGTT	57.401	25.926	13.06	0.00	43.41	3.01
1965	5219	8.575649	TTTCTTCTTTTGAGAACAAACTAGGT	57.424	30.769	0.00	0.00	44.22	3.08
1974	5228	8.795842	TTGAGAACAAACTAGGTGAAGTAAAA	57.204	30.769	2.93	0.00	32.73	1.52
1977	5231	9.880064	GAGAACAAACTAGGTGAAGTAAAATTC	57.120	33.333	2.93	0.00	0.00	2.17
1986	5240	6.986424	GGTGAAGTAAAATTCAACTTTCCG	57.014	37.500	1.15	0.00	42.48	4.30
1989	5243	7.703197	GGTGAAGTAAAATTCAACTTTCCGAAA	59.297	33.333	1.15	0.00	42.48	3.46
1995	5249	9.843874	GTAAAATTCAACTTTCCGAAATTGAAC	57.156	29.630	21.10	12.62	42.22	3.18
2054	5308	4.216042	TCAGAATTGTGATGAACGTTGCAT	59.784	37.500	5.00	9.25	0.00	3.96
2061	5315	6.066054	TGTGATGAACGTTGCATAGAAAAA	57.934	33.333	5.00	0.00	0.00	1.94
2103	5360	1.384191	GGCCCCACCATGAAACTCT	59.616	57.895	0.00	0.00	38.86	3.24
2111	5368	4.261741	CCCACCATGAAACTCTTCTTTGTG	60.262	45.833	0.00	0.00	34.58	3.33
2112	5369	4.339247	CCACCATGAAACTCTTCTTTGTGT	59.661	41.667	0.00	0.00	33.71	3.72
2127	5384	0.397564	TGTGTTCATGCAGCTCCTCA	59.602	50.000	0.00	0.00	0.00	3.86
2130	5387	1.348696	TGTTCATGCAGCTCCTCAGAA	59.651	47.619	0.00	0.00	0.00	3.02
2131	5388	2.224597	TGTTCATGCAGCTCCTCAGAAA	60.225	45.455	0.00	0.00	0.00	2.52
2132	5389	2.816087	GTTCATGCAGCTCCTCAGAAAA	59.184	45.455	0.00	0.00	0.00	2.29
2133	5390	3.144657	TCATGCAGCTCCTCAGAAAAA	57.855	42.857	0.00	0.00	0.00	1.94
2142	5399	0.310854	CCTCAGAAAAACGTGTGGCC	59.689	55.000	0.00	0.00	0.00	5.36
2156	5413	3.845259	GGCCGCCCGACATGAGTA	61.845	66.667	0.00	0.00	0.00	2.59
2157	5414	2.279517	GCCGCCCGACATGAGTAG	60.280	66.667	0.00	0.00	0.00	2.57
2158	5415	2.417516	CCGCCCGACATGAGTAGG	59.582	66.667	0.00	0.00	39.93	3.18
2162	5419	2.279517	CCGACATGAGTAGGGCGC	60.280	66.667	0.00	0.00	36.93	6.53
2163	5420	2.786495	CCGACATGAGTAGGGCGCT	61.786	63.158	7.64	8.86	36.93	5.92
2164	5421	1.299468	CGACATGAGTAGGGCGCTC	60.299	63.158	6.54	1.48	0.00	5.03
2165	5422	1.299468	GACATGAGTAGGGCGCTCG	60.299	63.158	6.54	0.00	35.85	5.03
2166	5423	2.005960	GACATGAGTAGGGCGCTCGT	62.006	60.000	6.54	1.44	35.85	4.18
2167	5424	1.589993	CATGAGTAGGGCGCTCGTG	60.590	63.158	6.54	4.19	41.64	4.35
2168	5425	2.052690	ATGAGTAGGGCGCTCGTGT	61.053	57.895	6.54	0.00	35.85	4.49
2169	5426	1.605058	ATGAGTAGGGCGCTCGTGTT	61.605	55.000	6.54	0.00	35.85	3.32
2170	5427	0.961857	TGAGTAGGGCGCTCGTGTTA	60.962	55.000	6.54	0.00	35.85	2.41
2171	5428	0.171903	GAGTAGGGCGCTCGTGTTAA	59.828	55.000	6.54	0.00	0.00	2.01
2182	5439	0.975135	TCGTGTTAAATCCCCCGACA	59.025	50.000	0.00	0.00	0.00	4.35
2186	5443	0.750546	GTTAAATCCCCCGACAGGCC	60.751	60.000	0.00	0.00	35.76	5.19
2200	5457	3.583086	GGCCGACAATAAGCCCGC	61.583	66.667	0.00	0.00	41.00	6.13
2203	5460	3.937062	CGACAATAAGCCCGCGCC	61.937	66.667	0.00	0.00	34.57	6.53
2204	5461	2.822255	GACAATAAGCCCGCGCCA	60.822	61.111	0.00	0.00	34.57	5.69
2221	5478	0.466189	CCAGCGCAATGACCCCTTAT	60.466	55.000	11.47	0.00	0.00	1.73
2249	5506	0.872021	CCTCTACGTCGCTCATTGCC	60.872	60.000	0.00	0.00	38.78	4.52
2251	5508	0.179137	TCTACGTCGCTCATTGCCAG	60.179	55.000	0.00	0.00	38.78	4.85
2277	5537	1.446792	CGGAGCGCATAGGGCATAG	60.447	63.158	11.47	0.00	44.06	2.23
2288	5548	2.707902	GGGCATAGCTTCCCTTTCG	58.292	57.895	10.22	0.00	39.46	3.46
2295	5556	4.441634	GCATAGCTTCCCTTTCGTCTTCTA	60.442	45.833	0.00	0.00	0.00	2.10

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
107	120	3.396491	GCTTGTCAGCTTCACATGC	57.604	52.632	14.37	14.37	43.51	4.06
211	227	1.079127	TTGGCACCGAAGCTAGAGC	60.079	57.895	0.00	0.00	42.49	4.09
278	294	9.237846	GTTCTGAAATTGTTCTCGAAAAAGAAT	57.762	29.630	0.00	0.00	37.59	2.40
285	301	4.456535	TGGGTTCTGAAATTGTTCTCGAA	58.543	39.130	0.00	0.00	34.60	3.71
293	309	5.990120	AGATTTCCTGGGTTCTGAAATTG	57.010	39.130	0.00	0.00	38.47	2.32
330	346	9.113838	GACTTCATATTCATTTTGAGCCTTCTA	57.886	33.333	0.00	0.00	0.00	2.10
426	455	2.770164	AGCTGCGAAGAACTTATGGT	57.230	45.000	0.00	0.00	0.00	3.55
526	3442	0.807275	GCCCAAAATCGCATTGAGGC	60.807	55.000	9.50	9.50	37.14	4.70
760	3694	0.947244	CCTTTGCACCACTCAGTGTC	59.053	55.000	3.56	0.00	40.04	3.67
977	4141	2.743718	CGGCCAGGTCTTCAGTGT	59.256	61.111	2.24	0.00	0.00	3.55
1028	4242	3.628646	AAGATCACCACTGCCCGCC	62.629	63.158	0.00	0.00	0.00	6.13
1035	4249	0.904649	TCATGCCGAAGATCACCACT	59.095	50.000	0.00	0.00	0.00	4.00
1137	4351	0.269173	CCATCTCCTTCCCCCTAGGT	59.731	60.000	8.29	0.00	36.75	3.08
1299	4513	0.615331	CCATGCACTACACCCAGACT	59.385	55.000	0.00	0.00	0.00	3.24
1321	4535	4.163458	TCAGGCCGAATATCTACAAAACCT	59.837	41.667	0.00	0.00	0.00	3.50
1455	4698	0.905337	ACAGGACAGGTACTCCCAGC	60.905	60.000	0.00	0.00	34.60	4.85
1534	4788	8.765219	CGAGGGAGTACTGTTCATATTTTAATG	58.235	37.037	0.00	0.00	0.00	1.90
1556	4810	9.765795	AGAACATCTTATAATTTAGAACCGAGG	57.234	33.333	0.00	0.00	0.00	4.63
1614	4868	8.994429	AATGAATGAACAAACACACTAAAACA	57.006	26.923	0.00	0.00	0.00	2.83
1621	4875	6.198966	GGACTGAAATGAATGAACAAACACAC	59.801	38.462	0.00	0.00	0.00	3.82
1634	4888	4.379813	GGACTACGTACGGACTGAAATGAA	60.380	45.833	21.06	0.00	0.00	2.57
1640	4894	1.002430	ACTGGACTACGTACGGACTGA	59.998	52.381	21.06	0.00	0.00	3.41
1646	4900	7.274033	TCAATATTTGAAACTGGACTACGTACG	59.726	37.037	15.01	15.01	36.59	3.67
1709	4963	9.866655	TTCTTATATTAGTTTACGGAGGGAGTA	57.133	33.333	0.00	0.00	0.00	2.59
1710	4964	8.637099	GTTCTTATATTAGTTTACGGAGGGAGT	58.363	37.037	0.00	0.00	0.00	3.85
1711	4965	7.806960	CGTTCTTATATTAGTTTACGGAGGGAG	59.193	40.741	0.00	0.00	0.00	4.30
1712	4966	7.285401	ACGTTCTTATATTAGTTTACGGAGGGA	59.715	37.037	13.71	0.00	32.54	4.20
1713	4967	7.428826	ACGTTCTTATATTAGTTTACGGAGGG	58.571	38.462	13.71	0.00	32.54	4.30
1714	4968	8.862550	AACGTTCTTATATTAGTTTACGGAGG	57.137	34.615	0.00	0.00	32.54	4.30
1764	5018	9.710818	TCCCTCTGTAAACTAATATAAGAGTGT	57.289	33.333	0.00	0.00	0.00	3.55
1766	5020	9.939424	ACTCCCTCTGTAAACTAATATAAGAGT	57.061	33.333	0.00	0.00	0.00	3.24
1773	5027	9.925545	TGTATGTACTCCCTCTGTAAACTAATA	57.074	33.333	0.00	0.00	0.00	0.98
1774	5028	8.834004	TGTATGTACTCCCTCTGTAAACTAAT	57.166	34.615	0.00	0.00	0.00	1.73
1775	5029	8.654485	TTGTATGTACTCCCTCTGTAAACTAA	57.346	34.615	0.00	0.00	0.00	2.24
1776	5030	8.834004	ATTGTATGTACTCCCTCTGTAAACTA	57.166	34.615	0.00	0.00	0.00	2.24
1777	5031	7.735326	ATTGTATGTACTCCCTCTGTAAACT	57.265	36.000	0.00	0.00	0.00	2.66
1778	5032	9.477484	CATATTGTATGTACTCCCTCTGTAAAC	57.523	37.037	0.00	0.00	0.00	2.01
1779	5033	9.429109	TCATATTGTATGTACTCCCTCTGTAAA	57.571	33.333	0.00	0.00	0.00	2.01
1780	5034	9.429109	TTCATATTGTATGTACTCCCTCTGTAA	57.571	33.333	0.00	0.00	0.00	2.41
1781	5035	9.429109	TTTCATATTGTATGTACTCCCTCTGTA	57.571	33.333	0.00	0.00	0.00	2.74
1782	5036	7.914427	TTCATATTGTATGTACTCCCTCTGT	57.086	36.000	0.00	0.00	0.00	3.41
1783	5037	9.784531	ATTTTCATATTGTATGTACTCCCTCTG	57.215	33.333	0.00	0.00	0.00	3.35
1840	5094	6.433847	AAATATCACCATTCAGGATACCGA	57.566	37.500	0.00	0.00	41.22	4.69
1910	5164	6.591001	ACCTCGGTTTTGTTTACTTAACCTA	58.409	36.000	0.00	0.00	38.27	3.08
1940	5194	8.458843	CACCTAGTTTGTTCTCAAAAGAAGAAA	58.541	33.333	6.43	6.43	46.61	2.52
1943	5197	7.553881	TCACCTAGTTTGTTCTCAAAAGAAG	57.446	36.000	0.00	0.00	43.78	2.85
1959	5213	8.847196	GGAAAGTTGAATTTTACTTCACCTAGT	58.153	33.333	6.60	0.00	34.96	2.57
1965	5219	9.810545	AATTTCGGAAAGTTGAATTTTACTTCA	57.189	25.926	9.30	0.00	33.66	3.02
1974	5228	8.603181	CAAAAGTTCAATTTCGGAAAGTTGAAT	58.397	29.630	25.68	16.95	46.32	2.57
1977	5231	7.518731	TCAAAAGTTCAATTTCGGAAAGTTG	57.481	32.000	9.30	12.38	34.39	3.16
1983	5237	7.815068	TCAAGTTTTCAAAAGTTCAATTTCGGA	59.185	29.630	0.00	0.00	0.00	4.55
1985	5239	9.249844	GTTCAAGTTTTCAAAAGTTCAATTTCG	57.750	29.630	0.00	0.00	0.00	3.46
2034	5288	5.868257	TCTATGCAACGTTCATCACAATTC	58.132	37.500	13.94	0.00	0.00	2.17
2061	5315	6.073331	CCCACACGTGCAAAAATTTCATATTT	60.073	34.615	17.22	0.00	0.00	1.40
2071	5328	2.496817	GGCCCACACGTGCAAAAA	59.503	55.556	17.22	0.00	0.00	1.94
2103	5360	2.294233	GGAGCTGCATGAACACAAAGAA	59.706	45.455	0.00	0.00	0.00	2.52
2111	5368	2.105006	TTCTGAGGAGCTGCATGAAC	57.895	50.000	8.35	0.00	0.00	3.18
2112	5369	2.865119	TTTCTGAGGAGCTGCATGAA	57.135	45.000	8.35	5.76	0.00	2.57
2127	5384	2.719354	GCGGCCACACGTTTTTCT	59.281	55.556	2.24	0.00	35.98	2.52
2142	5399	2.417516	CCCTACTCATGTCGGGCG	59.582	66.667	0.00	0.00	41.43	6.13
2147	5404	1.299468	CGAGCGCCCTACTCATGTC	60.299	63.158	2.29	0.00	33.58	3.06
2149	5406	1.589993	CACGAGCGCCCTACTCATG	60.590	63.158	2.29	0.00	33.58	3.07
2156	5413	0.743345	GGATTTAACACGAGCGCCCT	60.743	55.000	2.29	0.00	0.00	5.19
2157	5414	1.712018	GGGATTTAACACGAGCGCCC	61.712	60.000	2.29	0.00	0.00	6.13
2158	5415	1.712018	GGGGATTTAACACGAGCGCC	61.712	60.000	2.29	0.00	0.00	6.53
2159	5416	1.712018	GGGGGATTTAACACGAGCGC	61.712	60.000	0.00	0.00	0.00	5.92
2160	5417	1.426041	CGGGGGATTTAACACGAGCG	61.426	60.000	0.00	0.00	0.00	5.03
2161	5418	0.108041	TCGGGGGATTTAACACGAGC	60.108	55.000	0.00	0.00	0.00	5.03
2162	5419	1.066716	TGTCGGGGGATTTAACACGAG	60.067	52.381	0.00	0.00	0.00	4.18
2163	5420	0.975135	TGTCGGGGGATTTAACACGA	59.025	50.000	0.00	0.00	0.00	4.35
2164	5421	1.365699	CTGTCGGGGGATTTAACACG	58.634	55.000	0.00	0.00	0.00	4.49
2165	5422	1.746470	CCTGTCGGGGGATTTAACAC	58.254	55.000	0.00	0.00	0.00	3.32
2166	5423	0.034863	GCCTGTCGGGGGATTTAACA	60.035	55.000	0.00	0.00	35.12	2.41
2167	5424	0.750546	GGCCTGTCGGGGGATTTAAC	60.751	60.000	0.00	0.00	35.12	2.01
2168	5425	1.610873	GGCCTGTCGGGGGATTTAA	59.389	57.895	0.00	0.00	35.12	1.52
2169	5426	2.737881	CGGCCTGTCGGGGGATTTA	61.738	63.158	0.00	0.00	35.12	1.40
2170	5427	4.109675	CGGCCTGTCGGGGGATTT	62.110	66.667	0.00	0.00	35.12	2.17
2182	5439	2.189521	CGGGCTTATTGTCGGCCT	59.810	61.111	0.00	0.00	44.70	5.19
2186	5443	3.937062	GGCGCGGGCTTATTGTCG	61.937	66.667	24.48	0.00	39.81	4.35
2189	5446	4.256090	GCTGGCGCGGGCTTATTG	62.256	66.667	24.48	10.67	39.81	1.90
2203	5460	0.664761	CATAAGGGGTCATTGCGCTG	59.335	55.000	9.73	0.00	0.00	5.18
2204	5461	0.466189	CCATAAGGGGTCATTGCGCT	60.466	55.000	9.73	0.00	0.00	5.92
2209	5466	0.853530	GGCCTCCATAAGGGGTCATT	59.146	55.000	0.00	0.00	46.32	2.57
2214	5471	3.185941	GGGGGCCTCCATAAGGGG	61.186	72.222	20.04	0.00	46.32	4.79
2265	5525	3.256281	GGGAAGCTATGCCCTATGC	57.744	57.895	11.04	0.00	41.31	3.14
2274	5534	4.957327	ACTAGAAGACGAAAGGGAAGCTAT	59.043	41.667	0.00	0.00	0.00	2.97
2277	5537	3.596310	ACTAGAAGACGAAAGGGAAGC	57.404	47.619	0.00	0.00	0.00	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.