AutoCloner

Multiple sequence alignment - TraesCS2D01G247500

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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	TraesCS2D01G247500	chr2D	100.000	2896	0	0	1	2896	291706320	291709215	0.000000e+00	5349
1	TraesCS2D01G247500	chr7A	94.636	2293	95	11	1	2282	638508683	638506408	0.000000e+00	3528
2	TraesCS2D01G247500	chr7A	94.241	2292	103	12	1	2282	708244609	708246881	0.000000e+00	3474
3	TraesCS2D01G247500	chr7A	93.536	2274	132	11	1	2266	571635053	571632787	0.000000e+00	3371
4	TraesCS2D01G247500	chr7A	91.462	773	48	6	1659	2429	211336744	211335988	0.000000e+00	1046
5	TraesCS2D01G247500	chr7A	90.944	773	53	8	1659	2429	563549519	563548762	0.000000e+00	1024
6	TraesCS2D01G247500	chr7A	96.218	476	18	0	2421	2896	638504541	638504066	0.000000e+00	780
7	TraesCS2D01G247500	chr7A	91.820	489	22	5	1944	2429	563555054	563555527	0.000000e+00	665
8	TraesCS2D01G247500	chr6B	94.590	2292	98	10	1	2282	596602876	596600601	0.000000e+00	3522
9	TraesCS2D01G247500	chr6B	96.008	476	19	0	2421	2896	596598735	596598260	0.000000e+00	774
10	TraesCS2D01G247500	chr6B	95.570	474	21	0	2421	2894	715987947	715987474	0.000000e+00	760
11	TraesCS2D01G247500	chrUn	94.461	2293	99	11	1	2282	171007268	171009543	0.000000e+00	3506
12	TraesCS2D01G247500	chrUn	95.876	485	19	1	2413	2896	171011400	171011884	0.000000e+00	784
13	TraesCS2D01G247500	chrUn	96.008	476	19	0	2421	2896	393028774	393029249	0.000000e+00	774
14	TraesCS2D01G247500	chrUn	90.281	463	27	9	1915	2375	51079110	51078664	8.940000e-165	590
15	TraesCS2D01G247500	chrUn	93.220	177	4	1	2106	2282	406474311	406474143	1.330000e-63	254
16	TraesCS2D01G247500	chr1B	93.979	2292	111	14	1	2282	672540206	672542480	0.000000e+00	3443
17	TraesCS2D01G247500	chr5B	93.894	2293	113	12	1	2282	567278977	567281253	0.000000e+00	3434
18	TraesCS2D01G247500	chr2B	93.755	2290	119	15	1	2282	391143787	391146060	0.000000e+00	3415
19	TraesCS2D01G247500	chr3B	93.360	2289	135	12	1	2282	39876061	39878339	0.000000e+00	3369
20	TraesCS2D01G247500	chr3B	88.991	109	12	0	2321	2429	730152105	730152213	5.030000e-28	135
21	TraesCS2D01G247500	chr1A	90.415	772	49	10	1659	2429	94760732	94761479	0.000000e+00	992
22	TraesCS2D01G247500	chr1A	95.798	476	20	0	2421	2896	94591791	94591316	0.000000e+00	769
23	TraesCS2D01G247500	chr1A	89.583	336	21	5	2094	2429	566581708	566581387	5.770000e-112	414
24	TraesCS2D01G247500	chr4A	96.218	476	18	0	2421	2896	79641651	79641176	0.000000e+00	780
25	TraesCS2D01G247500	chr1D	96.008	476	19	0	2421	2896	12980769	12980294	0.000000e+00	774
26	TraesCS2D01G247500	chr7D	95.052	485	23	1	2413	2896	307165132	307164648	0.000000e+00	761
27	TraesCS2D01G247500	chr5A	88.021	192	9	5	2238	2429	505898467	505898290	6.290000e-52	215
28	TraesCS2D01G247500	chr4D	93.636	110	7	0	2320	2429	119801367	119801476	6.420000e-37	165

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	TraesCS2D01G247500	chr2D	291706320	291709215	2895	False	5349	5349	100.0000	1	2896	1	chr2D.!!$F1	2895
1	TraesCS2D01G247500	chr7A	708244609	708246881	2272	False	3474	3474	94.2410	1	2282	1	chr7A.!!$F2	2281
2	TraesCS2D01G247500	chr7A	571632787	571635053	2266	True	3371	3371	93.5360	1	2266	1	chr7A.!!$R3	2265
3	TraesCS2D01G247500	chr7A	638504066	638508683	4617	True	2154	3528	95.4270	1	2896	2	chr7A.!!$R4	2895
4	TraesCS2D01G247500	chr7A	211335988	211336744	756	True	1046	1046	91.4620	1659	2429	1	chr7A.!!$R1	770
5	TraesCS2D01G247500	chr7A	563548762	563549519	757	True	1024	1024	90.9440	1659	2429	1	chr7A.!!$R2	770
6	TraesCS2D01G247500	chr6B	596598260	596602876	4616	True	2148	3522	95.2990	1	2896	2	chr6B.!!$R2	2895
7	TraesCS2D01G247500	chrUn	171007268	171011884	4616	False	2145	3506	95.1685	1	2896	2	chrUn.!!$F2	2895
8	TraesCS2D01G247500	chr1B	672540206	672542480	2274	False	3443	3443	93.9790	1	2282	1	chr1B.!!$F1	2281
9	TraesCS2D01G247500	chr5B	567278977	567281253	2276	False	3434	3434	93.8940	1	2282	1	chr5B.!!$F1	2281
10	TraesCS2D01G247500	chr2B	391143787	391146060	2273	False	3415	3415	93.7550	1	2282	1	chr2B.!!$F1	2281
11	TraesCS2D01G247500	chr3B	39876061	39878339	2278	False	3369	3369	93.3600	1	2282	1	chr3B.!!$F1	2281
12	TraesCS2D01G247500	chr1A	94760732	94761479	747	False	992	992	90.4150	1659	2429	1	chr1A.!!$F1	770

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
202	203	0.037232	GAACCCTCAGACGACCCTTG	60.037	60.0	0.0	0.0	0.0	3.61	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2036	2067	0.337428	AAGGTAAGTAGGGGCCTCGA	59.663	55.0	0.84	0.0	0.0	4.04	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
43	44	1.820519	GGGCTTTGCATCTGACATTCA	59.179	47.619	0.00	0.00	0.00	2.57
84	85	1.524008	CCCACGTCCCAGCCTTTTTC	61.524	60.000	0.00	0.00	0.00	2.29
100	101	4.528206	CCTTTTTCTGCAATAAACCCCTCT	59.472	41.667	0.00	0.00	0.00	3.69
128	129	2.585900	AGACTAGTGATAGGTGGTCCCA	59.414	50.000	0.00	0.00	34.66	4.37
202	203	0.037232	GAACCCTCAGACGACCCTTG	60.037	60.000	0.00	0.00	0.00	3.61
260	261	4.991687	CCTTTGACTCTTCCACTGACTTAC	59.008	45.833	0.00	0.00	0.00	2.34
287	288	2.169832	CCGAATGCTCATACGGGAAT	57.830	50.000	0.00	0.00	41.41	3.01
385	388	0.810031	GACACACCTGCGCGGATTAT	60.810	55.000	20.25	0.00	36.31	1.28
398	401	3.572584	GCGGATTATAGGTGACGGTTAG	58.427	50.000	0.00	0.00	0.00	2.34
471	474	1.378762	CCATCGGGCGGGGATAATT	59.621	57.895	0.00	0.00	0.00	1.40
475	478	3.352648	CATCGGGCGGGGATAATTATTT	58.647	45.455	0.00	0.00	0.00	1.40
537	540	1.630369	AGCCAGCCAATTGAGTCACTA	59.370	47.619	7.12	0.00	0.00	2.74
547	550	3.441496	TTGAGTCACTAAAACGACCGT	57.559	42.857	0.00	0.00	32.33	4.83
580	583	0.614979	TAAGCCCAGCTTCTCGGAGT	60.615	55.000	4.87	0.00	46.77	3.85
617	620	9.802039	AAATACGGCTTCCTTAATATCCAAATA	57.198	29.630	0.00	0.00	0.00	1.40
686	689	4.449405	GCCTAGATTAGATGTTCGCCTTTC	59.551	45.833	0.00	0.00	0.00	2.62
781	791	6.331369	CTTCAACAGAAGCCCTTAAAATCA	57.669	37.500	0.00	0.00	33.07	2.57
818	828	5.103515	AGCAAGGGTTATCCATTTCATAGGT	60.104	40.000	0.00	0.00	35.40	3.08
840	850	2.759795	GTGGGGGAGAAGCAAGCT	59.240	61.111	0.00	0.00	0.00	3.74
882	892	0.165944	CGTCAAAAATTCTCGGCGCT	59.834	50.000	7.64	0.00	0.00	5.92
900	910	3.506810	CGCTGAGAGAAAGACGAGATTT	58.493	45.455	0.00	0.00	0.00	2.17
902	912	5.096169	CGCTGAGAGAAAGACGAGATTTAA	58.904	41.667	0.00	0.00	0.00	1.52
903	913	5.003967	CGCTGAGAGAAAGACGAGATTTAAC	59.996	44.000	0.00	0.00	0.00	2.01
925	935	6.064846	ACAAGTAATTCAGTGAGTGCTTTG	57.935	37.500	6.53	6.79	0.00	2.77
941	951	7.228507	TGAGTGCTTTGTTTTATAAGAAGAGCA	59.771	33.333	7.90	7.90	33.12	4.26
1048	1061	2.196595	TCCATTTCAAGGGAGGACGAT	58.803	47.619	0.00	0.00	33.26	3.73
1064	1077	6.015688	GGAGGACGATGTACCATGATACTTTA	60.016	42.308	0.00	0.00	0.00	1.85
1081	1094	8.644216	TGATACTTTATGTTTTATCGAGCCCTA	58.356	33.333	0.00	0.00	0.00	3.53
1130	1143	4.456566	ACGTGCTAAAAATCCGGTACATTT	59.543	37.500	0.00	0.00	0.00	2.32
1133	1146	4.095185	TGCTAAAAATCCGGTACATTTCGG	59.905	41.667	0.00	2.22	46.89	4.30
1137	1150	5.456548	AAAATCCGGTACATTTCGGTTTT	57.543	34.783	0.00	9.06	44.94	2.43
1182	1196	8.962679	TGTGACACTTCTGGTTTACTTATTTTT	58.037	29.630	7.20	0.00	0.00	1.94
1214	1228	2.158385	ACTTCTCCGCTATGATCTCCCT	60.158	50.000	0.00	0.00	0.00	4.20
1409	1424	4.986054	ACTACCAACCCACAGAAATACA	57.014	40.909	0.00	0.00	0.00	2.29
1435	1450	7.005296	ACCTCTCTGAGATATACGGTTTATGT	58.995	38.462	8.00	0.00	0.00	2.29
1445	1460	2.419667	ACGGTTTATGTCGGAAAGGTG	58.580	47.619	0.00	0.00	0.00	4.00
1481	1496	5.708877	ATTTGGAAACATTGGGCAATTTG	57.291	34.783	0.00	0.00	42.32	2.32
1590	1605	6.092807	GCATAGGACTACAAAGGTGAAAAGAG	59.907	42.308	0.00	0.00	0.00	2.85
1596	1611	6.842676	ACTACAAAGGTGAAAAGAGAGGATT	58.157	36.000	0.00	0.00	0.00	3.01
1613	1628	4.545823	GGATTTATTCCGACGAAATGCA	57.454	40.909	0.00	0.00	33.93	3.96
1666	1681	6.071320	GGACTATTTCTCCTTTTGGCCATAT	58.929	40.000	6.09	0.00	40.12	1.78
1679	1694	5.912149	TTGGCCATATCCATAGAAGAAGT	57.088	39.130	6.09	0.00	35.77	3.01
1747	1762	6.054941	CCTTTAAAAGGTGGATTTTGTGCTT	58.945	36.000	0.00	0.00	43.95	3.91
1913	1929	7.465916	GCAATATAATTTCTCACTCGCACAAGA	60.466	37.037	0.00	0.00	0.00	3.02
2036	2067	6.882768	AGGTTTCTCAGGAAATAGAGATGT	57.117	37.500	0.00	0.00	42.45	3.06
2104	2135	1.072331	GTCAGAGGGCTTCCTTCACAA	59.928	52.381	0.00	0.00	41.93	3.33
2129	2160	5.934625	TGCATACCTCTCTTTCTCTTTTGAC	59.065	40.000	0.00	0.00	0.00	3.18
2172	2212	2.555227	GCAAGATCTTTGGTCTTCCCCA	60.555	50.000	4.86	0.00	33.82	4.96
2177	2217	2.140224	TCTTTGGTCTTCCCCAGGAAA	58.860	47.619	0.00	0.00	41.54	3.13
2180	2220	1.002502	GGTCTTCCCCAGGAAACGG	60.003	63.158	0.00	0.00	41.54	4.44
2282	2322	7.518370	GCCATTGATTGAATTCGTACGTCTATT	60.518	37.037	16.05	12.96	0.00	1.73
2283	2323	8.004344	CCATTGATTGAATTCGTACGTCTATTC	58.996	37.037	16.05	19.93	0.00	1.75
2284	2324	8.755941	CATTGATTGAATTCGTACGTCTATTCT	58.244	33.333	25.40	15.39	0.00	2.40
2285	2325	7.909777	TGATTGAATTCGTACGTCTATTCTC	57.090	36.000	25.40	19.97	0.00	2.87
2286	2326	7.704271	TGATTGAATTCGTACGTCTATTCTCT	58.296	34.615	25.40	18.22	0.00	3.10
2288	2328	7.736031	TTGAATTCGTACGTCTATTCTCTTG	57.264	36.000	25.40	0.00	0.00	3.02
2289	2329	7.080353	TGAATTCGTACGTCTATTCTCTTGA	57.920	36.000	25.40	12.95	0.00	3.02
2290	2330	7.532571	TGAATTCGTACGTCTATTCTCTTGAA	58.467	34.615	25.40	9.58	36.54	2.69
2292	2332	6.732531	TTCGTACGTCTATTCTCTTGAAGA	57.267	37.500	16.05	0.00	35.44	2.87
2293	2333	6.347270	TCGTACGTCTATTCTCTTGAAGAG	57.653	41.667	15.90	15.90	43.64	2.85
2326	2366	1.612442	CCGAGGAGAGGGGGTTTCA	60.612	63.158	0.00	0.00	0.00	2.69
2332	2372	0.988063	GAGAGGGGGTTTCAGAAGCT	59.012	55.000	0.00	0.00	33.81	3.74
2419	4201	7.827729	GGAAAATAAAGAAGGAAGCAGGTACTA	59.172	37.037	0.00	0.00	36.02	1.82
2528	4310	9.454859	AAGGAAAGTAAATCAAGTCCATCTTAG	57.545	33.333	0.00	0.00	34.66	2.18
2557	4339	2.949177	TCACTTGCTTGGGCTTAAGA	57.051	45.000	6.67	0.00	39.59	2.10
2644	4426	1.152312	GAATCCCTCTCCGCCCCTA	60.152	63.158	0.00	0.00	0.00	3.53
2647	4429	1.072505	ATCCCTCTCCGCCCCTACTA	61.073	60.000	0.00	0.00	0.00	1.82
2656	4438	0.529378	CGCCCCTACTACGACAAAGT	59.471	55.000	0.00	0.00	0.00	2.66
2671	4453	4.270325	CGACAAAGTAATAAGCACTAGGGC	59.730	45.833	9.62	9.62	0.00	5.19
2697	4479	1.087771	CCACCCGCCAGTTCGAATAC	61.088	60.000	0.00	0.00	0.00	1.89
2700	4482	1.219664	CCGCCAGTTCGAATACCCA	59.780	57.895	0.00	0.00	0.00	4.51
2766	4548	2.166050	TCCGGTTTCGTATTCCGATTCA	59.834	45.455	0.00	0.00	46.75	2.57
2769	4551	3.121463	CGGTTTCGTATTCCGATTCATCG	60.121	47.826	2.01	2.01	46.75	3.84
2817	4599	4.338964	TCATGCCTTGCCAATACAACTATG	59.661	41.667	0.00	0.00	0.00	2.23
2885	4667	3.981071	TTGAGCCATTATAGGATCGGG	57.019	47.619	0.00	0.00	46.90	5.14

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
68	69	1.172812	GCAGAAAAAGGCTGGGACGT	61.173	55.000	0.00	0.00	34.00	4.34
75	76	3.007940	GGGGTTTATTGCAGAAAAAGGCT	59.992	43.478	0.00	0.00	0.00	4.58
84	85	1.106285	GCCAGAGGGGTTTATTGCAG	58.894	55.000	0.00	0.00	39.65	4.41
100	101	2.307768	CCTATCACTAGTCTTCGGCCA	58.692	52.381	2.24	0.00	0.00	5.36
128	129	1.592223	CCTTCTCCGAAAGCTCCGT	59.408	57.895	7.54	0.00	0.00	4.69
225	226	2.367567	GAGTCAAAGGGTCACCACTACA	59.632	50.000	0.00	0.00	40.13	2.74
260	261	4.562789	CCGTATGAGCATTCGGTACATATG	59.437	45.833	17.10	0.00	43.75	1.78
287	288	0.105194	TCCAGACCCAGGAGTTCACA	60.105	55.000	0.00	0.00	0.00	3.58
311	312	0.699399	TTTTATCGGAGCAACCCCCA	59.301	50.000	0.00	0.00	34.64	4.96
385	388	3.118884	GCCATTCTTCTAACCGTCACCTA	60.119	47.826	0.00	0.00	0.00	3.08
398	401	0.035439	TCACTTCCCCGCCATTCTTC	60.035	55.000	0.00	0.00	0.00	2.87
537	540	1.080298	CGCCTCCTACGGTCGTTTT	60.080	57.895	0.16	0.00	0.00	2.43
547	550	2.432300	GCTTAGGGTGCGCCTCCTA	61.432	63.158	17.49	18.26	34.75	2.94
580	583	4.095782	GGAAGCCGTATTTCACAATAGCAA	59.904	41.667	0.00	0.00	0.00	3.91
617	620	2.772924	CCCAGCCCCCTTGTTGAT	59.227	61.111	0.00	0.00	0.00	2.57
744	752	2.290008	TGTTGAAGCGGATAGGAGCAAA	60.290	45.455	0.00	0.00	35.48	3.68
747	755	1.137086	TCTGTTGAAGCGGATAGGAGC	59.863	52.381	0.00	0.00	0.00	4.70
818	828	2.610859	GCTTCTCCCCCACCCTCA	60.611	66.667	0.00	0.00	0.00	3.86
840	850	1.320344	CCGGGTCGATCAGAGGTTCA	61.320	60.000	0.00	0.00	0.00	3.18
882	892	7.434492	ACTTGTTAAATCTCGTCTTTCTCTCA	58.566	34.615	0.00	0.00	0.00	3.27
900	910	7.282224	ACAAAGCACTCACTGAATTACTTGTTA	59.718	33.333	0.00	0.00	0.00	2.41
902	912	5.590259	ACAAAGCACTCACTGAATTACTTGT	59.410	36.000	0.00	0.00	0.00	3.16
903	913	6.064846	ACAAAGCACTCACTGAATTACTTG	57.935	37.500	0.00	0.00	0.00	3.16
941	951	5.964958	TCATTTTCTTCTTTCAAGCCGAT	57.035	34.783	0.00	0.00	0.00	4.18
950	960	7.273381	CGCGGTTCATATTTCATTTTCTTCTTT	59.727	33.333	0.00	0.00	0.00	2.52
1064	1077	4.881850	CCAAAGTAGGGCTCGATAAAACAT	59.118	41.667	0.00	0.00	0.00	2.71
1071	1084	1.867363	AGACCAAAGTAGGGCTCGAT	58.133	50.000	0.00	0.00	46.95	3.59
1081	1094	3.117512	ACCATCAAACCAGAGACCAAAGT	60.118	43.478	0.00	0.00	0.00	2.66
1142	1155	7.819415	CAGAAGTGTCACAAAATACTAGGATGA	59.181	37.037	5.62	0.00	0.00	2.92
1152	1165	7.404671	AAGTAAACCAGAAGTGTCACAAAAT	57.595	32.000	5.62	0.00	0.00	1.82
1182	1196	1.471684	GCGGAGAAGTCGAGACCTAAA	59.528	52.381	0.00	0.00	0.00	1.85
1239	1254	8.786898	CATCATAACCACGAATAGGAATGAAAT	58.213	33.333	0.00	0.00	36.45	2.17
1409	1424	7.506261	ACATAAACCGTATATCTCAGAGAGGTT	59.494	37.037	13.09	13.09	41.85	3.50
1435	1450	0.882927	CCAACTTCGCACCTTTCCGA	60.883	55.000	0.00	0.00	0.00	4.55
1445	1460	4.759516	TTCCAAATTAGTCCAACTTCGC	57.240	40.909	0.00	0.00	0.00	4.70
1481	1496	6.015603	ACCAGACGGAATAGTAGGTATAAAGC	60.016	42.308	0.00	0.00	32.88	3.51
1590	1605	4.272504	TGCATTTCGTCGGAATAAATCCTC	59.727	41.667	0.00	0.00	46.98	3.71
1596	1611	3.942115	TCCAATGCATTTCGTCGGAATAA	59.058	39.130	9.83	0.00	30.88	1.40
1640	1655	4.538490	TGGCCAAAAGGAGAAATAGTCCTA	59.462	41.667	0.61	0.00	44.17	2.94
1666	1681	4.402793	CGGAGGAGAAACTTCTTCTATGGA	59.597	45.833	0.00	0.00	43.19	3.41
1747	1762	5.219739	AGCCAGGGAAAGACTGATATTCTA	58.780	41.667	0.00	0.00	38.20	2.10
1913	1929	2.876581	CCTTTTGGGTAGCTTCCACTT	58.123	47.619	11.91	0.00	33.43	3.16
1971	2002	5.880054	ACCTACCAATTCGAGAAACAATG	57.120	39.130	0.00	0.00	0.00	2.82
2036	2067	0.337428	AAGGTAAGTAGGGGCCTCGA	59.663	55.000	0.84	0.00	0.00	4.04
2104	2135	6.597280	GTCAAAAGAGAAAGAGAGGTATGCAT	59.403	38.462	3.79	3.79	0.00	3.96
2129	2160	1.356938	GACCGGTCCGCTAGAAAAAG	58.643	55.000	24.75	0.00	0.00	2.27
2172	2212	0.666374	CCGCTTTTTCACCGTTTCCT	59.334	50.000	0.00	0.00	0.00	3.36
2177	2217	2.248835	CGACCCGCTTTTTCACCGT	61.249	57.895	0.00	0.00	0.00	4.83
2282	2322	7.147811	GCCTAGATAGGTTTTCTCTTCAAGAGA	60.148	40.741	13.49	13.49	45.84	3.10
2283	2323	6.983890	GCCTAGATAGGTTTTCTCTTCAAGAG	59.016	42.308	8.27	8.27	45.42	2.85
2284	2324	6.127026	GGCCTAGATAGGTTTTCTCTTCAAGA	60.127	42.308	7.71	0.00	45.42	3.02
2285	2325	6.052360	GGCCTAGATAGGTTTTCTCTTCAAG	58.948	44.000	7.71	0.00	45.42	3.02
2286	2326	5.395324	CGGCCTAGATAGGTTTTCTCTTCAA	60.395	44.000	0.00	0.00	45.42	2.69
2288	2328	4.341520	TCGGCCTAGATAGGTTTTCTCTTC	59.658	45.833	0.00	0.00	45.42	2.87
2289	2329	4.287552	TCGGCCTAGATAGGTTTTCTCTT	58.712	43.478	0.00	0.00	45.42	2.85
2290	2330	3.892588	CTCGGCCTAGATAGGTTTTCTCT	59.107	47.826	0.00	0.00	45.42	3.10
2292	2332	2.966516	CCTCGGCCTAGATAGGTTTTCT	59.033	50.000	5.70	0.00	45.42	2.52
2293	2333	2.963782	TCCTCGGCCTAGATAGGTTTTC	59.036	50.000	5.70	0.00	45.42	2.29
2294	2334	2.966516	CTCCTCGGCCTAGATAGGTTTT	59.033	50.000	5.70	0.00	45.42	2.43
2295	2335	2.177233	TCTCCTCGGCCTAGATAGGTTT	59.823	50.000	5.70	0.00	45.42	3.27
2296	2336	1.781529	TCTCCTCGGCCTAGATAGGTT	59.218	52.381	5.70	0.00	45.42	3.50
2297	2337	1.353022	CTCTCCTCGGCCTAGATAGGT	59.647	57.143	5.70	0.00	45.42	3.08
2298	2338	1.340600	CCTCTCCTCGGCCTAGATAGG	60.341	61.905	5.70	5.58	46.42	2.57
2299	2339	1.340600	CCCTCTCCTCGGCCTAGATAG	60.341	61.905	5.70	3.19	0.00	2.08
2300	2340	0.699399	CCCTCTCCTCGGCCTAGATA	59.301	60.000	5.70	0.00	0.00	1.98
2301	2341	1.462928	CCCTCTCCTCGGCCTAGAT	59.537	63.158	5.70	0.00	0.00	1.98
2302	2342	2.769120	CCCCTCTCCTCGGCCTAGA	61.769	68.421	5.70	0.00	0.00	2.43
2303	2343	2.203567	CCCCTCTCCTCGGCCTAG	60.204	72.222	0.00	0.00	0.00	3.02
2304	2344	3.834056	CCCCCTCTCCTCGGCCTA	61.834	72.222	0.00	0.00	0.00	3.93
2326	2366	1.035139	CAAACAAGGGCACAGCTTCT	58.965	50.000	0.00	0.00	0.00	2.85
2332	2372	3.019799	TCCTTTACAAACAAGGGCACA	57.980	42.857	0.00	0.00	41.25	4.57
2419	4201	1.458967	GCCCACGACCCCCTATACT	60.459	63.158	0.00	0.00	0.00	2.12
2528	4310	3.192212	CCCAAGCAAGTGAAGAAATCCTC	59.808	47.826	0.00	0.00	0.00	3.71
2571	4353	6.432472	GGAGAAAGAGAATTGAACCATTCTGT	59.568	38.462	5.98	0.40	37.27	3.41
2572	4354	6.432162	TGGAGAAAGAGAATTGAACCATTCTG	59.568	38.462	5.98	0.00	37.27	3.02
2578	4360	5.707298	TCATGTGGAGAAAGAGAATTGAACC	59.293	40.000	0.00	0.00	0.00	3.62
2583	4365	5.006386	GGTGTCATGTGGAGAAAGAGAATT	58.994	41.667	0.00	0.00	0.00	2.17
2644	4426	7.256286	CCTAGTGCTTATTACTTTGTCGTAGT	58.744	38.462	0.00	0.00	0.00	2.73
2647	4429	5.416947	CCCTAGTGCTTATTACTTTGTCGT	58.583	41.667	0.00	0.00	0.00	4.34
2656	4438	3.072476	GGTGGATGCCCTAGTGCTTATTA	59.928	47.826	0.00	0.00	0.00	0.98
2671	4453	4.802051	CTGGCGGGTGGGTGGATG	62.802	72.222	0.00	0.00	0.00	3.51
2697	4479	1.691823	GGAAGGGGAGGAAACTGGG	59.308	63.158	0.00	0.00	44.43	4.45
2766	4548	5.869888	GGATTTTCTAATGCTATCCGACGAT	59.130	40.000	0.00	0.00	0.00	3.73
2769	4551	5.552178	AGGGATTTTCTAATGCTATCCGAC	58.448	41.667	0.00	0.00	36.46	4.79
2817	4599	4.522114	AGGCTCCTCAGCTAAGAAAAATC	58.478	43.478	0.00	0.00	46.03	2.17
2830	4612	1.628846	GGTACTTCCAAAGGCTCCTCA	59.371	52.381	0.00	0.00	35.97	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.