AutoCloner

Multiple sequence alignment - TraesCS5D01G350400

Loading Multiple Alignment...

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	TraesCS5D01G350400	chr5D	100.000	3559	0	0	1	3559	434651957	434655515	0.000000e+00	6573.0
1	TraesCS5D01G350400	chr5D	91.731	2733	129	35	868	3559	434571953	434569277	0.000000e+00	3705.0
2	TraesCS5D01G350400	chr5D	83.849	743	97	14	1	729	8013696	8014429	0.000000e+00	686.0
3	TraesCS5D01G350400	chr5D	81.459	658	71	22	2939	3559	434576566	434575923	3.190000e-135	492.0
4	TraesCS5D01G350400	chr5D	81.745	619	75	20	2319	2916	434661607	434662208	1.920000e-132	483.0
5	TraesCS5D01G350400	chr5D	84.534	472	47	4	3114	3559	434662445	434662916	9.070000e-121	444.0
6	TraesCS5D01G350400	chr5D	79.016	610	88	25	1711	2305	434554036	434553452	7.210000e-102	381.0
7	TraesCS5D01G350400	chr5D	79.603	554	80	16	3036	3559	435238220	435237670	2.020000e-97	366.0
8	TraesCS5D01G350400	chr5D	80.846	449	61	17	2392	2829	434712395	434712829	2.650000e-86	329.0
9	TraesCS5D01G350400	chr5D	77.935	494	75	15	3092	3557	434393161	434393648	9.730000e-71	278.0
10	TraesCS5D01G350400	chr5D	76.383	470	82	23	2703	3159	434604506	434604053	3.570000e-55	226.0
11	TraesCS5D01G350400	chr5D	93.137	102	6	1	2550	2651	434604742	434604642	7.960000e-32	148.0
12	TraesCS5D01G350400	chr5D	75.088	285	47	14	2054	2320	434605308	434605030	1.040000e-20	111.0
13	TraesCS5D01G350400	chr5B	93.361	2651	113	11	955	3559	527610458	527607825	0.000000e+00	3862.0
14	TraesCS5D01G350400	chr5B	95.669	2055	64	10	866	2917	527789450	527787418	0.000000e+00	3278.0
15	TraesCS5D01G350400	chr5B	91.220	672	29	6	2912	3559	527787381	527786716	0.000000e+00	887.0
16	TraesCS5D01G350400	chr5B	79.320	1030	129	36	1705	2692	527775065	527774078	0.000000e+00	645.0
17	TraesCS5D01G350400	chr5B	96.610	236	7	1	1	235	527791432	527791197	1.200000e-104	390.0
18	TraesCS5D01G350400	chr5B	81.377	494	48	13	3090	3559	527773382	527772909	2.610000e-96	363.0
19	TraesCS5D01G350400	chr5B	76.768	495	75	23	3099	3557	527049212	527049702	1.280000e-59	241.0
20	TraesCS5D01G350400	chr3B	85.121	746	87	13	1	732	361738894	361739629	0.000000e+00	741.0
21	TraesCS5D01G350400	chr4A	84.952	731	104	6	1	729	531253292	531252566	0.000000e+00	736.0
22	TraesCS5D01G350400	chr3D	83.743	732	98	13	26	742	14560068	14559343	0.000000e+00	673.0
23	TraesCS5D01G350400	chr3A	83.311	743	99	16	1	728	327605553	327604821	0.000000e+00	662.0
24	TraesCS5D01G350400	chr5A	83.565	718	102	10	26	730	594714919	594715633	0.000000e+00	658.0
25	TraesCS5D01G350400	chr5A	78.029	487	75	13	3099	3557	548230243	548230725	9.730000e-71	278.0
26	TraesCS5D01G350400	chr1B	84.615	637	90	7	1	634	675930247	675929616	8.390000e-176	627.0
27	TraesCS5D01G350400	chr2B	83.840	625	77	14	1	621	742531045	742530441	1.110000e-159	573.0
28	TraesCS5D01G350400	chr2B	77.132	551	98	20	199	734	72759562	72759025	9.660000e-76	294.0
29	TraesCS5D01G350400	chr7D	80.508	708	127	11	24	726	534434265	534434966	1.880000e-147	532.0
30	TraesCS5D01G350400	chr4B	90.000	90	6	3	3107	3194	671090981	671091069	2.900000e-21	113.0
31	TraesCS5D01G350400	chr4B	96.970	33	1	0	2939	2971	671090947	671090979	4.960000e-04	56.5

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	TraesCS5D01G350400	chr5D	434651957	434655515	3558	False	6573.000000	6573	100.000000	1	3559	1	chr5D.!!$F3	3558
1	TraesCS5D01G350400	chr5D	434569277	434576566	7289	True	2098.500000	3705	86.595000	868	3559	2	chr5D.!!$R3	2691
2	TraesCS5D01G350400	chr5D	8013696	8014429	733	False	686.000000	686	83.849000	1	729	1	chr5D.!!$F1	728
3	TraesCS5D01G350400	chr5D	434661607	434662916	1309	False	463.500000	483	83.139500	2319	3559	2	chr5D.!!$F5	1240
4	TraesCS5D01G350400	chr5D	434553452	434554036	584	True	381.000000	381	79.016000	1711	2305	1	chr5D.!!$R1	594
5	TraesCS5D01G350400	chr5D	435237670	435238220	550	True	366.000000	366	79.603000	3036	3559	1	chr5D.!!$R2	523
6	TraesCS5D01G350400	chr5B	527607825	527610458	2633	True	3862.000000	3862	93.361000	955	3559	1	chr5B.!!$R1	2604
7	TraesCS5D01G350400	chr5B	527786716	527791432	4716	True	1518.333333	3278	94.499667	1	3559	3	chr5B.!!$R3	3558
8	TraesCS5D01G350400	chr5B	527772909	527775065	2156	True	504.000000	645	80.348500	1705	3559	2	chr5B.!!$R2	1854
9	TraesCS5D01G350400	chr3B	361738894	361739629	735	False	741.000000	741	85.121000	1	732	1	chr3B.!!$F1	731
10	TraesCS5D01G350400	chr4A	531252566	531253292	726	True	736.000000	736	84.952000	1	729	1	chr4A.!!$R1	728
11	TraesCS5D01G350400	chr3D	14559343	14560068	725	True	673.000000	673	83.743000	26	742	1	chr3D.!!$R1	716
12	TraesCS5D01G350400	chr3A	327604821	327605553	732	True	662.000000	662	83.311000	1	728	1	chr3A.!!$R1	727
13	TraesCS5D01G350400	chr5A	594714919	594715633	714	False	658.000000	658	83.565000	26	730	1	chr5A.!!$F2	704
14	TraesCS5D01G350400	chr1B	675929616	675930247	631	True	627.000000	627	84.615000	1	634	1	chr1B.!!$R1	633
15	TraesCS5D01G350400	chr2B	742530441	742531045	604	True	573.000000	573	83.840000	1	621	1	chr2B.!!$R2	620
16	TraesCS5D01G350400	chr2B	72759025	72759562	537	True	294.000000	294	77.132000	199	734	1	chr2B.!!$R1	535
17	TraesCS5D01G350400	chr7D	534434265	534434966	701	False	532.000000	532	80.508000	24	726	1	chr7D.!!$F1	702

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
748	2086	0.038618	GGCCCAAATGAACGGACAAC	60.039	55.0	0.0	0.0	0.0	3.32	F
1308	5091	0.040204	AGGTTCATGCTCTTTGGGGG	59.960	55.0	0.0	0.0	0.0	5.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1737	5520	2.969628	GATGTCGTCCATCTTCCTGT	57.030	50.0	9.58	0.0	45.5	4.00	R
3236	7497	1.196766	TGCTGAGCTCCATGGTGACT	61.197	55.0	17.98	13.2	0.0	3.41	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
170	187	2.642427	CCTACCACATGCTTGCACATA	58.358	47.619	0.00	0.00	0.00	2.29
297	549	3.532542	GGTCGAAAAGTTGAGGATAGGG	58.467	50.000	0.00	0.00	0.00	3.53
346	666	0.822164	GAAGGAGCACCGCTTACCTA	59.178	55.000	0.00	0.00	39.88	3.08
532	1348	4.758251	CCATGGTCGCACGAGCCA	62.758	66.667	18.38	15.88	41.45	4.75
613	1792	2.347490	CGTAGCTGTTGGGCCTGT	59.653	61.111	4.53	0.00	0.00	4.00
635	1814	7.589958	TGTTTAGGAGGTGCTTTAAATTTCA	57.410	32.000	0.00	0.00	0.00	2.69
683	2020	1.373435	CTACCAAACAGGCCGGACA	59.627	57.895	11.69	0.00	43.14	4.02
687	2025	1.106944	CCAAACAGGCCGGACACTTT	61.107	55.000	11.69	2.55	0.00	2.66
730	2068	2.027460	GCAGGCAACCAAACACGG	59.973	61.111	0.00	0.00	37.17	4.94
733	2071	4.293648	GGCAACCAAACACGGCCC	62.294	66.667	0.00	0.00	38.70	5.80
738	2076	0.105778	AACCAAACACGGCCCAAATG	59.894	50.000	0.00	0.00	0.00	2.32
743	2081	1.801309	AACACGGCCCAAATGAACGG	61.801	55.000	0.00	0.00	0.00	4.44
744	2082	1.969064	CACGGCCCAAATGAACGGA	60.969	57.895	0.00	0.00	0.00	4.69
745	2083	1.969589	ACGGCCCAAATGAACGGAC	60.970	57.895	0.00	0.00	0.00	4.79
747	2085	1.519751	CGGCCCAAATGAACGGACAA	61.520	55.000	0.00	0.00	0.00	3.18
748	2086	0.038618	GGCCCAAATGAACGGACAAC	60.039	55.000	0.00	0.00	0.00	3.32
790	2128	7.961326	AAGCACCAATATTCAATTTAGGACT	57.039	32.000	0.00	0.00	0.00	3.85
792	2130	7.775120	AGCACCAATATTCAATTTAGGACTTG	58.225	34.615	0.00	0.00	0.00	3.16
793	2131	7.615365	AGCACCAATATTCAATTTAGGACTTGA	59.385	33.333	0.00	0.00	0.00	3.02
794	2132	8.250332	GCACCAATATTCAATTTAGGACTTGAA	58.750	33.333	0.73	0.73	43.37	2.69
803	2141	8.201554	TCAATTTAGGACTTGAAATCTGATCG	57.798	34.615	0.00	0.00	0.00	3.69
805	2143	3.550437	AGGACTTGAAATCTGATCGGG	57.450	47.619	0.62	0.00	0.00	5.14
806	2144	2.840651	AGGACTTGAAATCTGATCGGGT	59.159	45.455	0.62	0.00	0.00	5.28
808	2146	3.369471	GGACTTGAAATCTGATCGGGTGA	60.369	47.826	0.62	0.00	0.00	4.02
809	2147	4.446371	GACTTGAAATCTGATCGGGTGAT	58.554	43.478	0.62	0.00	37.60	3.06
810	2148	4.848357	ACTTGAAATCTGATCGGGTGATT	58.152	39.130	0.62	0.00	34.09	2.57
811	2149	4.878397	ACTTGAAATCTGATCGGGTGATTC	59.122	41.667	0.62	0.00	34.09	2.52
812	2150	4.760530	TGAAATCTGATCGGGTGATTCT	57.239	40.909	0.62	0.00	34.09	2.40
814	2152	5.500234	TGAAATCTGATCGGGTGATTCTTT	58.500	37.500	0.62	0.00	34.09	2.52
815	2153	5.945784	TGAAATCTGATCGGGTGATTCTTTT	59.054	36.000	0.62	0.00	34.09	2.27
816	2154	6.434028	TGAAATCTGATCGGGTGATTCTTTTT	59.566	34.615	0.62	0.00	34.09	1.94
840	2178	7.954666	TTTTATTAAGAGGAACTGATTGGGG	57.045	36.000	0.00	0.00	41.55	4.96
859	2197	4.141233	GGGGGTGCTATTAGTTTTCGTA	57.859	45.455	0.00	0.00	0.00	3.43
861	2199	4.943093	GGGGGTGCTATTAGTTTTCGTAAA	59.057	41.667	0.00	0.00	0.00	2.01
862	2200	5.163723	GGGGGTGCTATTAGTTTTCGTAAAC	60.164	44.000	9.40	9.40	43.19	2.01
875	2213	6.376177	GTTTTCGTAAACTTCCAACCATAGG	58.624	40.000	10.07	0.00	40.38	2.57
876	2214	3.602483	TCGTAAACTTCCAACCATAGGC	58.398	45.455	0.00	0.00	0.00	3.93
877	2215	2.681344	CGTAAACTTCCAACCATAGGCC	59.319	50.000	0.00	0.00	0.00	5.19
887	4635	0.912486	ACCATAGGCCTCTTGTGTCC	59.088	55.000	9.68	0.00	0.00	4.02
895	4643	1.476833	GCCTCTTGTGTCCTTTGGTGA	60.477	52.381	0.00	0.00	0.00	4.02
939	4692	3.321682	TGGCAACCTTCTCATCAAAAAGG	59.678	43.478	0.00	0.00	44.23	3.11
942	4695	5.453198	GGCAACCTTCTCATCAAAAAGGAAA	60.453	40.000	7.34	0.00	41.78	3.13
943	4696	6.048509	GCAACCTTCTCATCAAAAAGGAAAA	58.951	36.000	7.34	0.00	41.78	2.29
1082	4842	0.243907	CAGTATGTATCCGCCTCCCG	59.756	60.000	0.00	0.00	0.00	5.14
1280	5063	4.504858	AGGGTTCAATTAGTGCTAGTTCG	58.495	43.478	0.00	0.00	0.00	3.95
1308	5091	0.040204	AGGTTCATGCTCTTTGGGGG	59.960	55.000	0.00	0.00	0.00	5.40
1379	5162	1.372087	CGGACATCTTTGGGAGCTGC	61.372	60.000	0.00	0.00	0.00	5.25
1552	5335	4.589374	GTGTACTCCTACCTTGGCATAGAT	59.411	45.833	0.00	0.00	0.00	1.98
1737	5520	5.126869	TCCTTGTCAAATTCAGCAACTTCAA	59.873	36.000	0.00	0.00	0.00	2.69
1981	5776	3.897505	TCATCAACCTCTGTGAGAAGACA	59.102	43.478	0.00	0.00	0.00	3.41
2089	5890	2.032634	GCACATTGACCTCGCCGAA	61.033	57.895	0.00	0.00	0.00	4.30
2119	5920	1.228521	TTCACGTCCACCTACCGGA	60.229	57.895	9.46	0.00	0.00	5.14
2490	6310	6.567050	CACCATGCATCTATATATTTTGCCC	58.433	40.000	0.00	0.00	32.39	5.36
2529	6359	6.979465	TGAAGATGCATACAAATGTTCACAA	58.021	32.000	0.00	0.00	35.38	3.33
2654	6487	9.798994	GTTTCAAATGAAGCTGAAGATTATGAT	57.201	29.630	3.13	0.00	35.21	2.45
2701	6778	7.360946	GCGTAATTGTCCTTGAGTATTTTCAGT	60.361	37.037	0.00	0.00	0.00	3.41
2976	7224	6.587226	GCATCTAAATGAACAGTTGCATCAAA	59.413	34.615	0.00	0.00	37.41	2.69
3152	7403	5.440610	ACAGAAAACAGAGGACAAGAACAT	58.559	37.500	0.00	0.00	0.00	2.71
3207	7468	3.005684	CAGCCAATTTGCTCCAACAGTTA	59.994	43.478	0.05	0.00	40.32	2.24
3236	7497	3.202906	GCAACCAGTGTAGTGACAAGAA	58.797	45.455	0.00	0.00	37.31	2.52
3290	7552	1.347707	TCGAAGTGGCATTTCTCCTGT	59.652	47.619	18.79	0.00	0.00	4.00
3426	7700	0.804364	CAATGCTACCTCAAAGCGCA	59.196	50.000	11.47	0.00	43.11	6.09
3483	7758	0.609662	TGCTACAGAGATGCAGCACA	59.390	50.000	4.07	0.00	39.03	4.57
3551	7832	0.473755	TCCTCTGCCACTTCTTTGCA	59.526	50.000	0.00	0.00	0.00	4.08

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
170	187	2.890945	GAGCATGTGGTTGTAGGGTTTT	59.109	45.455	0.00	0.00	0.00	2.43
499	1296	0.829333	ATGGAGATGTTGCGAGCTCT	59.171	50.000	12.85	0.00	0.00	4.09
613	1792	7.096551	GCATGAAATTTAAAGCACCTCCTAAA	58.903	34.615	0.00	0.00	0.00	1.85
706	2044	0.835941	TTTGGTTGCCTGCATTTGGT	59.164	45.000	0.00	0.00	0.00	3.67
730	2068	0.386731	CGTTGTCCGTTCATTTGGGC	60.387	55.000	0.00	0.00	0.00	5.36
733	2071	6.978024	TTTTTATCGTTGTCCGTTCATTTG	57.022	33.333	0.00	0.00	37.94	2.32
763	2101	9.435688	GTCCTAAATTGAATATTGGTGCTTTTT	57.564	29.630	0.00	0.00	0.00	1.94
765	2103	8.366359	AGTCCTAAATTGAATATTGGTGCTTT	57.634	30.769	0.00	0.00	0.00	3.51
766	2104	7.961326	AGTCCTAAATTGAATATTGGTGCTT	57.039	32.000	0.00	0.00	0.00	3.91
767	2105	7.615365	TCAAGTCCTAAATTGAATATTGGTGCT	59.385	33.333	0.00	0.00	32.66	4.40
768	2106	7.771183	TCAAGTCCTAAATTGAATATTGGTGC	58.229	34.615	0.00	0.00	32.66	5.01
777	2115	8.668353	CGATCAGATTTCAAGTCCTAAATTGAA	58.332	33.333	0.00	0.00	42.17	2.69
778	2116	7.280876	CCGATCAGATTTCAAGTCCTAAATTGA	59.719	37.037	0.00	0.00	33.73	2.57
779	2117	7.412853	CCGATCAGATTTCAAGTCCTAAATTG	58.587	38.462	0.00	0.00	0.00	2.32
782	2120	5.045869	ACCCGATCAGATTTCAAGTCCTAAA	60.046	40.000	0.00	0.00	0.00	1.85
783	2121	4.469945	ACCCGATCAGATTTCAAGTCCTAA	59.530	41.667	0.00	0.00	0.00	2.69
784	2122	4.030913	ACCCGATCAGATTTCAAGTCCTA	58.969	43.478	0.00	0.00	0.00	2.94
785	2123	2.840651	ACCCGATCAGATTTCAAGTCCT	59.159	45.455	0.00	0.00	0.00	3.85
786	2124	2.939103	CACCCGATCAGATTTCAAGTCC	59.061	50.000	0.00	0.00	0.00	3.85
787	2125	3.861840	TCACCCGATCAGATTTCAAGTC	58.138	45.455	0.00	0.00	0.00	3.01
788	2126	3.981071	TCACCCGATCAGATTTCAAGT	57.019	42.857	0.00	0.00	0.00	3.16
790	2128	5.102953	AGAATCACCCGATCAGATTTCAA	57.897	39.130	0.00	0.00	32.51	2.69
792	2130	6.442513	AAAAGAATCACCCGATCAGATTTC	57.557	37.500	0.00	0.00	32.51	2.17
793	2131	6.840780	AAAAAGAATCACCCGATCAGATTT	57.159	33.333	0.00	0.00	32.51	2.17
815	2153	7.398904	CCCCCAATCAGTTCCTCTTAATAAAAA	59.601	37.037	0.00	0.00	0.00	1.94
816	2154	6.895204	CCCCCAATCAGTTCCTCTTAATAAAA	59.105	38.462	0.00	0.00	0.00	1.52
817	2155	6.431722	CCCCCAATCAGTTCCTCTTAATAAA	58.568	40.000	0.00	0.00	0.00	1.40
818	2156	6.013554	CCCCCAATCAGTTCCTCTTAATAA	57.986	41.667	0.00	0.00	0.00	1.40
819	2157	5.646692	CCCCCAATCAGTTCCTCTTAATA	57.353	43.478	0.00	0.00	0.00	0.98
820	2158	4.526438	CCCCCAATCAGTTCCTCTTAAT	57.474	45.455	0.00	0.00	0.00	1.40
838	2176	2.995283	ACGAAAACTAATAGCACCCCC	58.005	47.619	0.00	0.00	0.00	5.40
839	2177	5.872635	GTTTACGAAAACTAATAGCACCCC	58.127	41.667	0.00	0.00	41.52	4.95
851	2189	6.376177	CCTATGGTTGGAAGTTTACGAAAAC	58.624	40.000	0.00	0.00	44.47	2.43
853	2191	4.456566	GCCTATGGTTGGAAGTTTACGAAA	59.543	41.667	0.00	0.00	0.00	3.46
854	2192	4.004982	GCCTATGGTTGGAAGTTTACGAA	58.995	43.478	0.00	0.00	0.00	3.85
855	2193	3.602483	GCCTATGGTTGGAAGTTTACGA	58.398	45.455	0.00	0.00	0.00	3.43
856	2194	2.681344	GGCCTATGGTTGGAAGTTTACG	59.319	50.000	0.00	0.00	0.00	3.18
859	2197	2.649816	AGAGGCCTATGGTTGGAAGTTT	59.350	45.455	4.42	0.00	0.00	2.66
861	2199	1.972588	AGAGGCCTATGGTTGGAAGT	58.027	50.000	4.42	0.00	0.00	3.01
862	2200	2.025887	ACAAGAGGCCTATGGTTGGAAG	60.026	50.000	19.33	0.00	0.00	3.46
863	2201	1.992557	ACAAGAGGCCTATGGTTGGAA	59.007	47.619	19.33	0.00	0.00	3.53
864	2202	1.281867	CACAAGAGGCCTATGGTTGGA	59.718	52.381	19.33	0.00	0.00	3.53
865	2203	1.004745	ACACAAGAGGCCTATGGTTGG	59.995	52.381	19.33	6.81	0.00	3.77
866	2204	2.359900	GACACAAGAGGCCTATGGTTG	58.640	52.381	19.33	15.94	0.00	3.77
867	2205	1.282157	GGACACAAGAGGCCTATGGTT	59.718	52.381	19.33	6.21	0.00	3.67
868	2206	0.912486	GGACACAAGAGGCCTATGGT	59.088	55.000	19.33	12.15	0.00	3.55
869	2207	1.207791	AGGACACAAGAGGCCTATGG	58.792	55.000	19.33	11.47	0.00	2.74
870	2208	3.012518	CAAAGGACACAAGAGGCCTATG	58.987	50.000	4.42	11.30	0.00	2.23
871	2209	2.025887	CCAAAGGACACAAGAGGCCTAT	60.026	50.000	4.42	0.00	0.00	2.57
872	2210	1.351017	CCAAAGGACACAAGAGGCCTA	59.649	52.381	4.42	0.00	0.00	3.93
874	2212	0.178990	ACCAAAGGACACAAGAGGCC	60.179	55.000	0.00	0.00	0.00	5.19
875	2213	0.954452	CACCAAAGGACACAAGAGGC	59.046	55.000	0.00	0.00	0.00	4.70
876	2214	2.158755	ACTCACCAAAGGACACAAGAGG	60.159	50.000	0.00	0.00	0.00	3.69
877	2215	3.199880	ACTCACCAAAGGACACAAGAG	57.800	47.619	0.00	0.00	0.00	2.85
887	4635	1.101049	ACCCGCACAACTCACCAAAG	61.101	55.000	0.00	0.00	0.00	2.77
895	4643	2.268076	GCCATTCACCCGCACAACT	61.268	57.895	0.00	0.00	0.00	3.16
939	4692	6.417930	GTGCGAATCTGGCCTTATAATTTTTC	59.582	38.462	3.32	0.00	0.00	2.29
942	4695	4.278419	GGTGCGAATCTGGCCTTATAATTT	59.722	41.667	3.32	0.00	0.00	1.82
943	4696	3.821033	GGTGCGAATCTGGCCTTATAATT	59.179	43.478	3.32	0.00	0.00	1.40
1082	4842	0.741221	CCCGTACTGCAGAAGAAGCC	60.741	60.000	23.35	0.00	0.00	4.35
1116	4876	0.756294	TTCAGTGTCGGACATGGTGT	59.244	50.000	14.78	0.00	0.00	4.16
1167	4928	0.541863	ACATCTGGGCTTAGGGTTCG	59.458	55.000	0.00	0.00	0.00	3.95
1280	5063	3.944087	AGAGCATGAACCTTTACAGGAC	58.056	45.455	0.79	0.00	44.19	3.85
1308	5091	3.059352	ACAGGTTCCACTATGAACTGC	57.941	47.619	4.16	0.00	43.31	4.40
1379	5162	7.538678	GGTTGCGAAAATTAGATGGCTAATATG	59.461	37.037	0.00	0.00	44.49	1.78
1552	5335	3.570550	AGTTTGTAAAAAGTGCCGCCATA	59.429	39.130	0.00	0.00	0.00	2.74
1737	5520	2.969628	GATGTCGTCCATCTTCCTGT	57.030	50.000	9.58	0.00	45.50	4.00
1998	5799	2.989909	TGTACTCCCTGATCGTCGTAA	58.010	47.619	0.00	0.00	0.00	3.18
2119	5920	3.386768	TCGAGCTTTTACTCTGCTTGT	57.613	42.857	0.00	0.00	38.82	3.16
2490	6310	5.122239	TGCATCTTCATCAAACTAAAGGACG	59.878	40.000	0.00	0.00	0.00	4.79
2529	6359	5.717078	ATGTCAATTTGTTCATGTCAGCT	57.283	34.783	0.00	0.00	0.00	4.24
2654	6487	4.517952	CCATCTGGCATGTGTTTGTTAA	57.482	40.909	0.00	0.00	0.00	2.01
3104	7354	9.012161	GTAGTTTACCTGGATAGTGTAGATAGG	57.988	40.741	0.00	0.00	0.00	2.57
3207	7468	3.565482	CACTACACTGGTTGCACAATTCT	59.435	43.478	0.00	0.00	0.00	2.40
3236	7497	1.196766	TGCTGAGCTCCATGGTGACT	61.197	55.000	17.98	13.20	0.00	3.41
3276	7538	1.250328	CTTGCACAGGAGAAATGCCA	58.750	50.000	0.00	0.00	38.63	4.92
3290	7552	2.290197	TGGAGTATGTCATGTGCTTGCA	60.290	45.455	0.00	0.00	0.00	4.08
3350	7624	1.450312	GATGTCCCAGGAGGCGTTG	60.450	63.158	0.00	0.00	34.51	4.10
3426	7700	2.241941	TCATGTACACAGCCAATGGGAT	59.758	45.455	0.00	0.00	35.10	3.85
3483	7758	4.660168	ACAACAGCCAAAGAAGATGAGAT	58.340	39.130	0.00	0.00	0.00	2.75

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.