AutoCloner

Multiple sequence alignment - TraesCS5D01G538200

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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	TraesCS5D01G538200	chr5D	100.000	5219	0	0	1	5219	550437655	550442873	0.000000e+00	9638
1	TraesCS5D01G538200	chr5D	81.272	283	47	5	4927	5207	99379504	99379226	1.890000e-54	224
2	TraesCS5D01G538200	chr4A	95.217	3115	96	16	1835	4906	617233204	617230100	0.000000e+00	4878
3	TraesCS5D01G538200	chr4A	92.261	1809	102	10	41	1837	617235168	617233386	0.000000e+00	2531
4	TraesCS5D01G538200	chr4A	95.685	394	10	3	4830	5219	617230100	617229710	1.230000e-175	627
5	TraesCS5D01G538200	chr5B	96.052	1621	59	5	1835	3450	702889925	702891545	0.000000e+00	2634
6	TraesCS5D01G538200	chr5B	91.497	1870	103	27	1	1837	702887871	702889717	0.000000e+00	2521
7	TraesCS5D01G538200	chr5B	92.233	1442	59	16	3795	5219	702892022	702893427	0.000000e+00	1993
8	TraesCS5D01G538200	chr5B	95.135	185	9	0	3479	3663	702891658	702891842	5.110000e-75	292
9	TraesCS5D01G538200	chr3D	90.538	1839	134	23	1860	3663	602328526	602326693	0.000000e+00	2396
10	TraesCS5D01G538200	chr3D	88.363	1289	111	21	566	1834	602330044	602328775	0.000000e+00	1513
11	TraesCS5D01G538200	chr3D	87.194	859	70	24	4058	4883	602326139	602325288	0.000000e+00	941
12	TraesCS5D01G538200	chr3D	84.039	307	31	15	3751	4052	602326510	602326217	3.980000e-71	279
13	TraesCS5D01G538200	chr3D	85.185	189	19	4	2040	2228	602869323	602869502	8.920000e-43	185
14	TraesCS5D01G538200	chr3B	90.754	1817	135	18	1860	3663	809605254	809603458	0.000000e+00	2394
15	TraesCS5D01G538200	chr3B	89.294	1289	112	13	566	1834	809606855	809605573	0.000000e+00	1592
16	TraesCS5D01G538200	chr3B	86.243	865	76	20	4057	4890	809602872	809602020	0.000000e+00	898
17	TraesCS5D01G538200	chr3A	90.988	1609	125	15	1860	3453	732060808	732059205	0.000000e+00	2150
18	TraesCS5D01G538200	chr3A	89.096	1183	103	13	670	1834	732062262	732061088	0.000000e+00	1447
19	TraesCS5D01G538200	chr3A	87.640	534	35	12	4057	4565	732058361	732057834	4.500000e-165	592
20	TraesCS5D01G538200	chr3A	86.170	282	29	7	4616	4890	732057835	732057557	3.950000e-76	296
21	TraesCS5D01G538200	chr3A	90.991	222	17	3	3443	3663	732059164	732058945	3.950000e-76	296
22	TraesCS5D01G538200	chr5A	82.534	292	47	4	4919	5206	667036554	667036845	2.410000e-63	254
23	TraesCS5D01G538200	chr7A	81.329	316	50	4	4898	5206	306225210	306225523	1.120000e-61	248
24	TraesCS5D01G538200	chr4D	79.443	287	51	7	4924	5206	446644904	446644622	4.120000e-46	196
25	TraesCS5D01G538200	chr4D	85.714	189	18	4	2040	2228	123391965	123391786	1.920000e-44	191
26	TraesCS5D01G538200	chr4D	85.714	189	18	4	2040	2228	134953453	134953274	1.920000e-44	191
27	TraesCS5D01G538200	chr1D	85.714	189	18	4	2040	2228	212455132	212455311	1.920000e-44	191
28	TraesCS5D01G538200	chr2A	78.261	207	45	0	4984	5190	61669960	61669754	3.280000e-27	134
29	TraesCS5D01G538200	chr7D	75.000	260	61	4	4932	5189	28857764	28858021	3.300000e-22	117

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	TraesCS5D01G538200	chr5D	550437655	550442873	5218	False	9638.000000	9638	100.000000	1	5219	1	chr5D.!!$F1	5218
1	TraesCS5D01G538200	chr4A	617229710	617235168	5458	True	2678.666667	4878	94.387667	41	5219	3	chr4A.!!$R1	5178
2	TraesCS5D01G538200	chr5B	702887871	702893427	5556	False	1860.000000	2634	93.729250	1	5219	4	chr5B.!!$F1	5218
3	TraesCS5D01G538200	chr3D	602325288	602330044	4756	True	1282.250000	2396	87.533500	566	4883	4	chr3D.!!$R1	4317
4	TraesCS5D01G538200	chr3B	809602020	809606855	4835	True	1628.000000	2394	88.763667	566	4890	3	chr3B.!!$R1	4324
5	TraesCS5D01G538200	chr3A	732057557	732062262	4705	True	956.200000	2150	88.977000	670	4890	5	chr3A.!!$R1	4220

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	Hairpin	End Stability	Orientation
125	147	0.178301	CGCCTAGGGTTTCTCTTCCC	59.822	60.000	11.72	43.71	3.97	F
1200	1272	0.327924	ATTCCATCCGGCAACAGACA	59.672	50.000	0.00	0.00	3.41	F
1252	1324	1.067516	CTGGTGCTGACAAAAGGGTTG	59.932	52.381	0.00	0.00	3.77	F
2010	2407	2.787473	TCCATTCTTCAGCATTCCGT	57.213	45.000	0.00	0.00	4.69	F
2891	3294	2.803133	GCTTGTTGAGGTTTGCCCTTTC	60.803	50.000	0.00	46.51	2.62	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1468	1546	1.005340	CGAAGCCTCTTGATGACAGC	58.995	55.000	0.00	0.00	4.40	R
2628	3031	0.109532	TCGGTGGCCTGACATGAAAA	59.890	50.000	3.32	0.00	2.29	R
2946	3351	0.251121	TCCCCGAACACCTACACGTA	60.251	55.000	0.00	0.00	3.57	R
2947	3352	1.114722	TTCCCCGAACACCTACACGT	61.115	55.000	0.00	0.00	4.49	R
4743	5659	1.983605	CATGTACCACGTGTTCGACTC	59.016	52.381	15.65	40.62	3.36	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
21	22	2.640316	AAGGCCGGATTTAGACATCC	57.360	50.000	5.05	0.00	39.69	3.51
66	67	7.201644	GCTTAATTTAGGGTTTAGGGTTACGAC	60.202	40.741	0.00	0.00	0.00	4.34
76	77	1.574702	GGGTTACGACTTGTGCTGCC	61.575	60.000	0.00	0.00	0.00	4.85
121	143	1.187087	CTGTCGCCTAGGGTTTCTCT	58.813	55.000	11.72	0.00	0.00	3.10
125	147	0.178301	CGCCTAGGGTTTCTCTTCCC	59.822	60.000	11.72	0.00	43.71	3.97
130	152	3.745723	GGGTTTCTCTTCCCTTGCA	57.254	52.632	0.00	0.00	40.48	4.08
131	153	1.539157	GGGTTTCTCTTCCCTTGCAG	58.461	55.000	0.00	0.00	40.48	4.41
132	154	1.073923	GGGTTTCTCTTCCCTTGCAGA	59.926	52.381	0.00	0.00	40.48	4.26
133	155	2.291217	GGGTTTCTCTTCCCTTGCAGAT	60.291	50.000	0.00	0.00	40.48	2.90
134	156	3.054361	GGGTTTCTCTTCCCTTGCAGATA	60.054	47.826	0.00	0.00	40.48	1.98
135	157	4.567747	GGGTTTCTCTTCCCTTGCAGATAA	60.568	45.833	0.00	0.00	40.48	1.75
136	158	4.396478	GGTTTCTCTTCCCTTGCAGATAAC	59.604	45.833	0.00	0.00	0.00	1.89
137	159	3.914426	TCTCTTCCCTTGCAGATAACC	57.086	47.619	0.00	0.00	0.00	2.85
138	160	2.505819	TCTCTTCCCTTGCAGATAACCC	59.494	50.000	0.00	0.00	0.00	4.11
139	161	1.564348	TCTTCCCTTGCAGATAACCCC	59.436	52.381	0.00	0.00	0.00	4.95
140	162	0.629058	TTCCCTTGCAGATAACCCCC	59.371	55.000	0.00	0.00	0.00	5.40
141	163	0.551377	TCCCTTGCAGATAACCCCCA	60.551	55.000	0.00	0.00	0.00	4.96
155	177	3.056201	ACCCCCATCTACGAAACCTAT	57.944	47.619	0.00	0.00	0.00	2.57
159	181	4.503296	CCCCCATCTACGAAACCTATTGAG	60.503	50.000	0.00	0.00	0.00	3.02
178	200	5.762179	TGAGAAAGGACTGGTTGATATGT	57.238	39.130	0.00	0.00	0.00	2.29
185	207	3.877508	GGACTGGTTGATATGTTGTAGGC	59.122	47.826	0.00	0.00	0.00	3.93
190	212	3.278574	GTTGATATGTTGTAGGCTGGCA	58.721	45.455	3.38	0.00	0.00	4.92
211	237	6.149633	GGCAATGTTTCTTTTAATCGTCACT	58.850	36.000	0.00	0.00	0.00	3.41
290	322	9.990360	TTTTAGAGGGTCAATAAATTTTGTTCC	57.010	29.630	0.00	0.00	0.00	3.62
296	328	4.028648	GTCAATAAATTTTGTTCCGTCGCG	59.971	41.667	0.00	0.00	0.00	5.87
366	401	4.899502	AGTAGCATTTATCCTGGAATCCG	58.100	43.478	0.00	0.00	0.00	4.18
408	443	3.270877	GCCTACCGATTCAGTCACATTT	58.729	45.455	0.00	0.00	0.00	2.32
414	449	3.120199	CCGATTCAGTCACATTTGTCACC	60.120	47.826	0.00	0.00	0.00	4.02
434	469	6.316390	GTCACCGGATCTAATTTCTTGACATT	59.684	38.462	9.46	0.00	32.80	2.71
472	507	5.220586	CGTTGACGGTTATGTAGCAATCAAT	60.221	40.000	0.00	0.00	33.89	2.57
529	564	1.237285	AATTGGTGGCGTGACTCTGC	61.237	55.000	0.00	0.00	0.00	4.26
635	673	1.937899	GTTGGTGTAGCTGTCGTGTTT	59.062	47.619	0.00	0.00	0.00	2.83
679	726	1.725973	GTTTTCTCTTGCACGCGCC	60.726	57.895	5.73	0.00	37.32	6.53
743	795	6.430000	GGCTACTTGTTGAGTTCTTATGGAAA	59.570	38.462	0.00	0.00	39.86	3.13
781	841	5.593909	TGATTTATTCTTGGTGAATGCCGAT	59.406	36.000	0.00	0.00	44.40	4.18
977	1049	7.007725	GTGCTTGTCATTAATCATTTCGTTCAG	59.992	37.037	0.00	0.00	0.00	3.02
990	1062	5.728351	TTTCGTTCAGTTTCTTGTGTAGG	57.272	39.130	0.00	0.00	0.00	3.18
993	1065	4.124238	CGTTCAGTTTCTTGTGTAGGGAA	58.876	43.478	0.00	0.00	0.00	3.97
1089	1161	4.087892	CCGGCTCACACCCAGGAG	62.088	72.222	0.00	0.00	0.00	3.69
1200	1272	0.327924	ATTCCATCCGGCAACAGACA	59.672	50.000	0.00	0.00	0.00	3.41
1252	1324	1.067516	CTGGTGCTGACAAAAGGGTTG	59.932	52.381	0.00	0.00	0.00	3.77
1468	1546	5.634859	GCAAGTGTTATTGGAAAATCTGGTG	59.365	40.000	0.00	0.00	0.00	4.17
1759	1838	4.935352	TGGTGCAGAAATTAGCAAGTTT	57.065	36.364	0.00	0.00	43.20	2.66
1780	1859	5.446260	TTTTTAATACTCCCTCTGTCCCC	57.554	43.478	0.00	0.00	0.00	4.81
1837	1917	8.062065	TCAAACTTTGTCTAACTTTGACCAAT	57.938	30.769	1.44	0.00	33.83	3.16
1838	1918	9.179909	TCAAACTTTGTCTAACTTTGACCAATA	57.820	29.630	1.44	0.00	33.83	1.90
2010	2407	2.787473	TCCATTCTTCAGCATTCCGT	57.213	45.000	0.00	0.00	0.00	4.69
2130	2527	7.869429	ACAAATGTCCATCAAAAGAGAACATTC	59.131	33.333	0.00	0.00	0.00	2.67
2723	3126	8.777865	TCAACGATGAAACTGAAGATAGAATT	57.222	30.769	0.00	0.00	30.99	2.17
2891	3294	2.803133	GCTTGTTGAGGTTTGCCCTTTC	60.803	50.000	0.00	0.00	46.51	2.62
2911	3315	9.667107	CCCTTTCTGTTATTGTTTGAGATAGTA	57.333	33.333	0.00	0.00	0.00	1.82
3211	3618	5.001237	TCGAATGTATTTCCTCGTAGCAA	57.999	39.130	0.00	0.00	33.15	3.91
3256	3663	6.127196	CCCAGGCAGGTAAAATATTTTGCTTA	60.127	38.462	22.89	3.50	33.94	3.09
3300	3707	5.429762	TCCCTGTTGACCTTCATAATGAGAT	59.570	40.000	0.00	0.00	0.00	2.75
3346	3754	4.035112	ACTTAACCGGTGATATCCTCCAA	58.965	43.478	8.52	0.00	0.00	3.53
3450	3858	0.608308	AACCCTTTCTAAGCCGTGCC	60.608	55.000	0.00	0.00	0.00	5.01
3455	3888	0.608035	TTTCTAAGCCGTGCCCCTTG	60.608	55.000	0.00	0.00	0.00	3.61
3475	4029	2.289565	GTTGTGCAGGCCTCCTTATAC	58.710	52.381	0.00	0.00	0.00	1.47
3557	4111	1.977009	ACTGATCAGACGCGTCCCA	60.977	57.895	34.08	23.85	0.00	4.37
3611	4165	4.864704	TTCAAAAGTAATGGGGAAGCAC	57.135	40.909	0.00	0.00	0.00	4.40
3703	4341	4.559835	TCTGAAAGAGTGCGCTCG	57.440	55.556	21.01	7.17	46.03	5.03
3729	4367	3.045634	CCAGTTCATATGGGGTCCTACA	58.954	50.000	2.13	0.00	33.94	2.74
3949	4761	4.072131	TGAAGCAACCTTTGTACAGGATC	58.928	43.478	8.09	0.00	37.39	3.36
3973	4786	4.923893	ACATGCATGACATATGGAAAACG	58.076	39.130	32.75	0.59	36.64	3.60
4324	5219	6.434028	TCAAAAACTATGTTCTCCATCCCTTG	59.566	38.462	0.00	0.00	34.86	3.61
4670	5585	9.077885	TGCATTATTACCAATTAGAATTCTCCC	57.922	33.333	12.24	0.00	0.00	4.30
4743	5659	7.082602	GCTGCTTACCATGATTGATAATCTTG	58.917	38.462	0.00	9.30	40.70	3.02
4976	5980	2.240921	TGCTACCCATGCATGTTTCCTA	59.759	45.455	24.58	5.01	35.31	2.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
9	10	2.139118	GCGAGCCTGGATGTCTAAATC	58.861	52.381	0.00	0.00	0.00	2.17
40	41	6.823182	TCGTAACCCTAAACCCTAAATTAAGC	59.177	38.462	0.00	0.00	0.00	3.09
43	44	7.494922	AGTCGTAACCCTAAACCCTAAATTA	57.505	36.000	0.00	0.00	0.00	1.40
45	46	6.175471	CAAGTCGTAACCCTAAACCCTAAAT	58.825	40.000	0.00	0.00	0.00	1.40
47	48	4.592778	ACAAGTCGTAACCCTAAACCCTAA	59.407	41.667	0.00	0.00	0.00	2.69
66	67	0.895100	TTTAGGCCTGGCAGCACAAG	60.895	55.000	22.05	0.00	0.00	3.16
76	77	9.267084	GAAAGTAGAAGATAAGATTTAGGCCTG	57.733	37.037	17.99	0.00	0.00	4.85
121	143	0.629058	GGGGGTTATCTGCAAGGGAA	59.371	55.000	0.00	0.00	0.00	3.97
125	147	3.744660	GTAGATGGGGGTTATCTGCAAG	58.255	50.000	0.00	0.00	37.27	4.01
126	148	2.104111	CGTAGATGGGGGTTATCTGCAA	59.896	50.000	0.00	0.00	37.19	4.08
127	149	1.691976	CGTAGATGGGGGTTATCTGCA	59.308	52.381	0.00	0.00	37.19	4.41
128	150	1.968493	TCGTAGATGGGGGTTATCTGC	59.032	52.381	0.00	0.00	36.38	4.26
129	151	4.377897	GTTTCGTAGATGGGGGTTATCTG	58.622	47.826	0.00	0.00	36.38	2.90
130	152	3.390311	GGTTTCGTAGATGGGGGTTATCT	59.610	47.826	0.00	0.00	38.40	1.98
131	153	3.390311	AGGTTTCGTAGATGGGGGTTATC	59.610	47.826	0.00	0.00	35.04	1.75
132	154	3.390819	AGGTTTCGTAGATGGGGGTTAT	58.609	45.455	0.00	0.00	35.04	1.89
133	155	2.836667	AGGTTTCGTAGATGGGGGTTA	58.163	47.619	0.00	0.00	35.04	2.85
134	156	1.665137	AGGTTTCGTAGATGGGGGTT	58.335	50.000	0.00	0.00	35.04	4.11
135	157	2.555732	TAGGTTTCGTAGATGGGGGT	57.444	50.000	0.00	0.00	35.04	4.95
136	158	3.389983	TCAATAGGTTTCGTAGATGGGGG	59.610	47.826	0.00	0.00	35.04	5.40
137	159	4.344102	TCTCAATAGGTTTCGTAGATGGGG	59.656	45.833	0.00	0.00	35.04	4.96
138	160	5.531122	TCTCAATAGGTTTCGTAGATGGG	57.469	43.478	0.00	0.00	35.04	4.00
139	161	6.480320	CCTTTCTCAATAGGTTTCGTAGATGG	59.520	42.308	0.00	0.00	35.04	3.51
140	162	7.222999	GTCCTTTCTCAATAGGTTTCGTAGATG	59.777	40.741	0.00	0.00	31.98	2.90
141	163	7.124448	AGTCCTTTCTCAATAGGTTTCGTAGAT	59.876	37.037	0.00	0.00	31.98	1.98
155	177	6.126863	ACATATCAACCAGTCCTTTCTCAA	57.873	37.500	0.00	0.00	0.00	3.02
159	181	6.316390	CCTACAACATATCAACCAGTCCTTTC	59.684	42.308	0.00	0.00	0.00	2.62
178	200	2.875296	AGAAACATTGCCAGCCTACAA	58.125	42.857	0.00	0.00	0.00	2.41
185	207	6.088085	GTGACGATTAAAAGAAACATTGCCAG	59.912	38.462	0.00	0.00	0.00	4.85
190	212	7.416154	TCGAGTGACGATTAAAAGAAACATT	57.584	32.000	0.00	0.00	46.45	2.71
296	328	1.580437	GGACTAGCCGATAGACGCC	59.420	63.158	0.00	0.00	41.07	5.68
408	443	5.175859	GTCAAGAAATTAGATCCGGTGACA	58.824	41.667	0.00	0.00	34.42	3.58
414	449	6.683974	ACCAATGTCAAGAAATTAGATCCG	57.316	37.500	0.00	0.00	0.00	4.18
464	499	0.248054	CGTGGCACGGTATTGATTGC	60.248	55.000	31.19	0.00	38.08	3.56
561	596	9.871238	ACAGAGAATGTCTATTAATTACGTGTT	57.129	29.630	0.00	0.00	37.75	3.32
562	597	9.871238	AACAGAGAATGTCTATTAATTACGTGT	57.129	29.630	0.00	0.00	43.00	4.49
594	629	4.411927	ACCACAACCAGCATACCATTAAA	58.588	39.130	0.00	0.00	0.00	1.52
605	641	0.951558	CTACACCAACCACAACCAGC	59.048	55.000	0.00	0.00	0.00	4.85
949	1021	6.317088	ACGAAATGATTAATGACAAGCACAG	58.683	36.000	0.00	0.00	0.00	3.66
977	1049	6.887626	TGGTTTATTCCCTACACAAGAAAC	57.112	37.500	0.00	0.00	34.42	2.78
990	1062	4.098501	CCAGAAGGCTTCATGGTTTATTCC	59.901	45.833	27.70	0.00	0.00	3.01
993	1065	4.322057	ACCAGAAGGCTTCATGGTTTAT	57.678	40.909	29.69	16.91	37.69	1.40
1200	1272	4.278170	TCGACAATCTTGACTTTGGCATTT	59.722	37.500	0.00	0.00	29.85	2.32
1252	1324	9.801873	ATGCTTGACATAACAATATACCAAAAC	57.198	29.630	0.00	0.00	37.17	2.43
1284	1356	6.331369	TCATCTATGTCGCTAATCATGACA	57.669	37.500	0.00	0.00	45.71	3.58
1468	1546	1.005340	CGAAGCCTCTTGATGACAGC	58.995	55.000	0.00	0.00	0.00	4.40
1583	1662	9.983024	TCACCAAACTATTATATGGAGGAAAAA	57.017	29.630	0.00	0.00	36.75	1.94
1759	1838	4.440808	TGGGGACAGAGGGAGTATTAAAA	58.559	43.478	0.00	0.00	35.01	1.52
1909	2303	7.651704	GCACCACACAAACAGAAAGTAAAATAT	59.348	33.333	0.00	0.00	0.00	1.28
2237	2634	0.617413	ACAGACTTGGATGCCCAGAG	59.383	55.000	0.00	0.00	44.60	3.35
2425	2822	6.893554	ACCTTTACCAATAACTAACCCAATCC	59.106	38.462	0.00	0.00	0.00	3.01
2628	3031	0.109532	TCGGTGGCCTGACATGAAAA	59.890	50.000	3.32	0.00	0.00	2.29
2723	3126	1.066143	GGAACAAGAAGGCGGAGATGA	60.066	52.381	0.00	0.00	0.00	2.92
2946	3351	0.251121	TCCCCGAACACCTACACGTA	60.251	55.000	0.00	0.00	0.00	3.57
2947	3352	1.114722	TTCCCCGAACACCTACACGT	61.115	55.000	0.00	0.00	0.00	4.49
3256	3663	5.359860	AGGGAAACAGAGAAAATTGACGTTT	59.640	36.000	0.00	0.00	0.00	3.60
3315	3723	9.886132	GGATATCACCGGTTAAGTTAATATCAT	57.114	33.333	2.97	0.00	30.18	2.45
3322	3730	5.210430	TGGAGGATATCACCGGTTAAGTTA	58.790	41.667	2.97	0.00	34.73	2.24
3346	3754	4.458397	CAAATCCATCATCTACAGCCTGT	58.542	43.478	1.54	1.54	0.00	4.00
3450	3858	2.203538	AGGCCTGCACAACAAGGG	60.204	61.111	3.11	0.00	0.00	3.95
3455	3888	2.092914	AGTATAAGGAGGCCTGCACAAC	60.093	50.000	27.56	17.43	32.13	3.32
3611	4165	4.561735	AATGTTGTCCAAGTTTGTACCG	57.438	40.909	0.00	0.00	0.00	4.02
3703	4341	2.104963	GACCCCATATGAACTGGAGTCC	59.895	54.545	3.65	0.73	35.97	3.85
3949	4761	4.816786	TTTCCATATGTCATGCATGTCG	57.183	40.909	25.43	7.85	38.47	4.35
4016	4829	8.005192	ACCTACCTACGAAGTAATCCTAAAAG	57.995	38.462	0.00	0.00	45.13	2.27
4052	4865	9.373603	ACAATCAATAATTTCATGTCAATGGTG	57.626	29.630	0.00	0.00	34.30	4.17
4324	5219	5.189180	AGCATGAGGTTTATTGGAGAGTTC	58.811	41.667	0.00	0.00	0.00	3.01
4670	5585	9.177608	TGTTTAAGTCTATCATGAAAAGGATGG	57.822	33.333	0.00	0.00	0.00	3.51
4743	5659	1.983605	CATGTACCACGTGTTCGACTC	59.016	52.381	15.65	0.00	40.62	3.36
4968	5971	7.173032	GGGAGTAAAGAAGGAAATAGGAAACA	58.827	38.462	0.00	0.00	0.00	2.83
4976	5980	3.011369	GGTGGGGGAGTAAAGAAGGAAAT	59.989	47.826	0.00	0.00	0.00	2.17
5024	6028	0.954452	CAAGGGGTCTTTGTGAGCAC	59.046	55.000	0.00	0.00	46.26	4.40
5093	6097	4.765339	GCTTGTAAGGAGGTGTTGGTAAAT	59.235	41.667	0.00	0.00	0.00	1.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.