AutoCloner

Multiple sequence alignment - TraesCS2A01G127400

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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	TraesCS2A01G127400	chr2A	100.000	2639	0	0	1	2639	75308297	75310935	0.000000e+00	4874.0
1	TraesCS2A01G127400	chr2A	93.585	873	51	5	1	870	755811841	755810971	0.000000e+00	1297.0
2	TraesCS2A01G127400	chr2A	93.349	872	53	5	1	870	98147033	98146165	0.000000e+00	1284.0
3	TraesCS2A01G127400	chr2A	92.784	873	61	2	1	873	655847632	655848502	0.000000e+00	1262.0
4	TraesCS2A01G127400	chr2A	86.772	189	14	6	2418	2597	75315644	75315830	1.600000e-47	200.0
5	TraesCS2A01G127400	chr3A	93.843	877	48	5	1	873	584760659	584759785	0.000000e+00	1315.0
6	TraesCS2A01G127400	chr3A	93.593	874	51	5	1	873	451140619	451139750	0.000000e+00	1299.0
7	TraesCS2A01G127400	chr3A	93.600	875	48	7	1	873	623994203	623993335	0.000000e+00	1299.0
8	TraesCS2A01G127400	chr4A	93.021	874	56	5	1	872	149083309	149082439	0.000000e+00	1271.0
9	TraesCS2A01G127400	chr1A	92.997	871	57	4	1	870	131256621	131255754	0.000000e+00	1267.0
10	TraesCS2A01G127400	chr7A	92.702	877	55	7	1	873	661086725	661085854	0.000000e+00	1256.0
11	TraesCS2A01G127400	chr2D	90.248	564	35	9	2077	2639	75550822	75551366	0.000000e+00	719.0
12	TraesCS2A01G127400	chr2D	89.912	565	34	7	1582	2138	75550264	75550813	0.000000e+00	706.0
13	TraesCS2A01G127400	chr2D	94.955	337	17	0	1247	1583	75514304	75514640	1.800000e-146	529.0
14	TraesCS2A01G127400	chr2D	93.293	328	14	5	930	1255	75513953	75514274	6.610000e-131	477.0
15	TraesCS2A01G127400	chr2D	80.387	362	30	26	2273	2599	75555558	75555913	1.220000e-58	237.0
16	TraesCS2A01G127400	chr2B	94.041	386	17	3	871	1255	115885871	115886251	4.900000e-162	580.0
17	TraesCS2A01G127400	chr2B	93.447	351	17	3	1247	1597	115886281	115886625	1.400000e-142	516.0
18	TraesCS2A01G127400	chr2B	86.170	188	18	6	2418	2597	115968000	115968187	2.070000e-46	196.0
19	TraesCS2A01G127400	chr2B	85.938	192	14	9	1908	2094	115888189	115888372	2.680000e-45	193.0
20	TraesCS2A01G127400	chr2B	90.698	43	2	2	2088	2128	753838312	753838270	3.670000e-04	56.5
21	TraesCS2A01G127400	chr7D	96.970	33	1	0	2096	2128	63936066	63936034	3.670000e-04	56.5
22	TraesCS2A01G127400	chr7D	96.970	33	1	0	2097	2129	638348506	638348474	3.670000e-04	56.5
23	TraesCS2A01G127400	chr5D	94.444	36	2	0	2097	2132	35527929	35527894	3.670000e-04	56.5
24	TraesCS2A01G127400	chr7B	100.000	28	0	0	2096	2123	238645880	238645853	5.000000e-03	52.8

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	TraesCS2A01G127400	chr2A	75308297	75310935	2638	False	4874.000000	4874	100.000	1	2639	1	chr2A.!!$F1	2638
1	TraesCS2A01G127400	chr2A	755810971	755811841	870	True	1297.000000	1297	93.585	1	870	1	chr2A.!!$R2	869
2	TraesCS2A01G127400	chr2A	98146165	98147033	868	True	1284.000000	1284	93.349	1	870	1	chr2A.!!$R1	869
3	TraesCS2A01G127400	chr2A	655847632	655848502	870	False	1262.000000	1262	92.784	1	873	1	chr2A.!!$F3	872
4	TraesCS2A01G127400	chr3A	584759785	584760659	874	True	1315.000000	1315	93.843	1	873	1	chr3A.!!$R2	872
5	TraesCS2A01G127400	chr3A	451139750	451140619	869	True	1299.000000	1299	93.593	1	873	1	chr3A.!!$R1	872
6	TraesCS2A01G127400	chr3A	623993335	623994203	868	True	1299.000000	1299	93.600	1	873	1	chr3A.!!$R3	872
7	TraesCS2A01G127400	chr4A	149082439	149083309	870	True	1271.000000	1271	93.021	1	872	1	chr4A.!!$R1	871
8	TraesCS2A01G127400	chr1A	131255754	131256621	867	True	1267.000000	1267	92.997	1	870	1	chr1A.!!$R1	869
9	TraesCS2A01G127400	chr7A	661085854	661086725	871	True	1256.000000	1256	92.702	1	873	1	chr7A.!!$R1	872
10	TraesCS2A01G127400	chr2D	75550264	75551366	1102	False	712.500000	719	90.080	1582	2639	2	chr2D.!!$F3	1057
11	TraesCS2A01G127400	chr2D	75513953	75514640	687	False	503.000000	529	94.124	930	1583	2	chr2D.!!$F2	653
12	TraesCS2A01G127400	chr2B	115885871	115888372	2501	False	429.666667	580	91.142	871	2094	3	chr2B.!!$F2	1223

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
991	998	0.044092	TCTTGACTAGCCCCATCCCA	59.956	55.0	0.0	0.0	0.0	4.37	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2151	3626	0.389817	ACGTATGCTCATGTGTGCGT	60.39	50.0	6.94	6.94	37.35	5.24	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
45	46	2.418777	CCGCTCGGATCTGCATCA	59.581	61.111	1.35	0.00	37.50	3.07
47	48	0.602106	CCGCTCGGATCTGCATCATT	60.602	55.000	1.35	0.00	37.50	2.57
75	76	0.810031	GCCGGCAGATACACGAATGT	60.810	55.000	24.80	0.00	43.30	2.71
157	158	0.465460	GCGACCATTGCCCAAGGATA	60.465	55.000	0.00	0.00	0.00	2.59
167	168	1.141881	CCAAGGATAGTCGTGCGCT	59.858	57.895	9.73	0.00	0.00	5.92
174	175	3.834447	TAGTCGTGCGCTGCGTGTT	62.834	57.895	24.04	6.41	0.00	3.32
275	277	7.462571	TGTGCTCTAGATTTGACTAGTTGTA	57.537	36.000	0.00	0.00	40.26	2.41
316	318	6.012658	TGTGTAGAATGGATGCAAGTTTTC	57.987	37.500	0.00	0.00	0.00	2.29
332	334	6.514376	GCAAGTTTTCGTATTGGGAAGAAGAA	60.514	38.462	0.00	0.00	0.00	2.52
474	476	4.867608	GGTCTGAGAAAGCAACATCTACTC	59.132	45.833	0.00	0.00	0.00	2.59
570	572	2.525592	CCCAACTCAAGGGGGCAA	59.474	61.111	0.00	0.00	42.90	4.52
778	784	2.147387	GGCCACCGTATCCCAGGAT	61.147	63.158	0.00	4.27	38.54	3.24
803	809	0.246635	CGGACACGACTCCAAATCCT	59.753	55.000	0.00	0.00	44.60	3.24
806	812	3.430374	CGGACACGACTCCAAATCCTTAT	60.430	47.826	0.00	0.00	44.60	1.73
873	879	1.078426	CGGTGGAGTTGGCCTAAGG	60.078	63.158	3.32	0.00	0.00	2.69
874	880	1.838073	CGGTGGAGTTGGCCTAAGGT	61.838	60.000	3.32	0.00	0.00	3.50
875	881	0.322546	GGTGGAGTTGGCCTAAGGTG	60.323	60.000	3.32	0.00	0.00	4.00
876	882	0.322546	GTGGAGTTGGCCTAAGGTGG	60.323	60.000	3.32	0.00	0.00	4.61
879	885	0.322546	GAGTTGGCCTAAGGTGGTGG	60.323	60.000	3.32	0.00	0.00	4.61
915	921	3.680196	GCCAAAGCACTACAAAAACCCAA	60.680	43.478	0.00	0.00	39.53	4.12
988	995	1.771255	ACCATCTTGACTAGCCCCATC	59.229	52.381	0.00	0.00	0.00	3.51
989	996	1.072965	CCATCTTGACTAGCCCCATCC	59.927	57.143	0.00	0.00	0.00	3.51
990	997	1.072965	CATCTTGACTAGCCCCATCCC	59.927	57.143	0.00	0.00	0.00	3.85
991	998	0.044092	TCTTGACTAGCCCCATCCCA	59.956	55.000	0.00	0.00	0.00	4.37
992	999	1.143813	CTTGACTAGCCCCATCCCAT	58.856	55.000	0.00	0.00	0.00	4.00
993	1000	1.072965	CTTGACTAGCCCCATCCCATC	59.927	57.143	0.00	0.00	0.00	3.51
1236	1243	2.642254	CGTGTTCCTCCTGGCCGTA	61.642	63.158	0.00	0.00	0.00	4.02
1545	1591	2.223409	GCGGTTCTGGAAAAAGTTTCGT	60.223	45.455	0.00	0.00	0.00	3.85
1554	1600	4.035684	GGAAAAAGTTTCGTCACTCTTGC	58.964	43.478	0.00	0.00	0.00	4.01
1563	1609	1.865865	GTCACTCTTGCAAGTTCGGA	58.134	50.000	25.19	15.52	0.00	4.55
1566	1612	3.067106	TCACTCTTGCAAGTTCGGATTC	58.933	45.455	25.19	0.00	0.00	2.52
1567	1613	2.160417	CACTCTTGCAAGTTCGGATTCC	59.840	50.000	25.19	0.00	0.00	3.01
1778	3181	3.005155	GCATGGGAAATGCTGATTAGGAC	59.995	47.826	3.10	0.00	41.52	3.85
1826	3229	2.342948	TGCGTTGCGTTGTTTTCTTTTC	59.657	40.909	0.00	0.00	0.00	2.29
1832	3235	5.312120	TGCGTTGTTTTCTTTTCTAACCA	57.688	34.783	0.00	0.00	0.00	3.67
1840	3243	8.245195	TGTTTTCTTTTCTAACCAGGCTAAAT	57.755	30.769	0.00	0.00	0.00	1.40
1842	3245	7.462571	TTTCTTTTCTAACCAGGCTAAATCC	57.537	36.000	0.00	0.00	0.00	3.01
1854	3257	2.223805	GGCTAAATCCCTTTCCATTGCG	60.224	50.000	0.00	0.00	0.00	4.85
1862	3265	2.518949	CCTTTCCATTGCGAATGAACG	58.481	47.619	9.56	0.00	41.46	3.95
1863	3266	2.518949	CTTTCCATTGCGAATGAACGG	58.481	47.619	9.56	0.00	41.46	4.44
1872	3275	6.426327	CATTGCGAATGAACGGAAATACATA	58.574	36.000	0.00	0.00	45.21	2.29
1878	3281	5.907197	ATGAACGGAAATACATAAGCTCG	57.093	39.130	0.00	0.00	0.00	5.03
1885	3288	5.518847	CGGAAATACATAAGCTCGAGAAACA	59.481	40.000	18.75	0.00	0.00	2.83
1886	3289	6.201044	CGGAAATACATAAGCTCGAGAAACAT	59.799	38.462	18.75	0.00	0.00	2.71
1887	3290	7.254455	CGGAAATACATAAGCTCGAGAAACATT	60.254	37.037	18.75	4.66	0.00	2.71
1888	3291	7.852945	GGAAATACATAAGCTCGAGAAACATTG	59.147	37.037	18.75	7.72	0.00	2.82
1889	3292	7.849804	AATACATAAGCTCGAGAAACATTGT	57.150	32.000	18.75	13.02	0.00	2.71
1890	3293	5.786401	ACATAAGCTCGAGAAACATTGTC	57.214	39.130	18.75	0.00	0.00	3.18
1891	3294	5.237815	ACATAAGCTCGAGAAACATTGTCA	58.762	37.500	18.75	0.00	0.00	3.58
1892	3295	5.349817	ACATAAGCTCGAGAAACATTGTCAG	59.650	40.000	18.75	0.00	0.00	3.51
1893	3296	2.693069	AGCTCGAGAAACATTGTCAGG	58.307	47.619	18.75	0.00	0.00	3.86
1894	3297	1.734465	GCTCGAGAAACATTGTCAGGG	59.266	52.381	18.75	0.00	0.00	4.45
1895	3298	2.350522	CTCGAGAAACATTGTCAGGGG	58.649	52.381	6.58	0.00	0.00	4.79
1896	3299	1.974957	TCGAGAAACATTGTCAGGGGA	59.025	47.619	0.00	0.00	0.00	4.81
1897	3300	2.370519	TCGAGAAACATTGTCAGGGGAA	59.629	45.455	0.00	0.00	0.00	3.97
1898	3301	3.146066	CGAGAAACATTGTCAGGGGAAA	58.854	45.455	0.00	0.00	0.00	3.13
1899	3302	3.189287	CGAGAAACATTGTCAGGGGAAAG	59.811	47.826	0.00	0.00	0.00	2.62
1900	3303	3.500343	AGAAACATTGTCAGGGGAAAGG	58.500	45.455	0.00	0.00	0.00	3.11
1901	3304	3.140144	AGAAACATTGTCAGGGGAAAGGA	59.860	43.478	0.00	0.00	0.00	3.36
1902	3305	3.611025	AACATTGTCAGGGGAAAGGAA	57.389	42.857	0.00	0.00	0.00	3.36
1903	3306	3.611025	ACATTGTCAGGGGAAAGGAAA	57.389	42.857	0.00	0.00	0.00	3.13
1915	3318	3.119814	GGGAAAGGAAAGAGATTGCGTTC	60.120	47.826	1.10	1.10	43.55	3.95
1959	3362	4.855715	TGATGTATCCTAGCAGCTACAC	57.144	45.455	0.00	0.00	0.00	2.90
1981	3384	6.150318	CACTAGTCAACGTCAGTGTTAATCT	58.850	40.000	0.00	0.00	34.91	2.40
2017	3420	7.748847	TCTTTTTGTAGCCGAATTAAGCTTAG	58.251	34.615	6.24	0.00	40.56	2.18
2068	3471	9.099071	AGATAAGCTACAGGTGAATCTGAATAT	57.901	33.333	0.00	0.00	38.11	1.28
2074	3477	7.095439	GCTACAGGTGAATCTGAATATACAAGC	60.095	40.741	0.00	0.00	38.11	4.01
2087	3492	6.272090	TGAATATACAAGCCATGGATGACCTA	59.728	38.462	18.40	8.27	33.43	3.08
2115	3520	7.566760	AAAGTCAAATGATAAGTGTCACACA	57.433	32.000	11.40	0.00	36.74	3.72
2129	3604	1.152694	ACACATGTGGCACCAAGCT	60.153	52.632	28.64	2.30	44.79	3.74
2140	3615	4.148825	CCAAGCTCTCCGACCGGG	62.149	72.222	6.32	0.00	35.59	5.73
2151	3626	0.321830	CCGACCGGGAAAGCCTAAAA	60.322	55.000	6.32	0.00	38.47	1.52
2152	3627	0.800631	CGACCGGGAAAGCCTAAAAC	59.199	55.000	6.32	0.00	0.00	2.43
2168	3643	2.900122	AAACGCACACATGAGCATAC	57.100	45.000	0.00	0.00	0.00	2.39
2265	3740	5.136828	TCACCAGTTCACCACAATGTAAAT	58.863	37.500	0.00	0.00	0.00	1.40
2274	3749	3.621268	ACCACAATGTAAATGATCCGACG	59.379	43.478	0.00	0.00	0.00	5.12
2309	3784	5.394224	CCGACCATAAGTAGACATGTCAACT	60.394	44.000	27.02	9.85	0.00	3.16
2316	3791	9.025020	CATAAGTAGACATGTCAACTATGTGAC	57.975	37.037	27.02	10.21	46.74	3.67
2372	3848	2.976903	GCGATGATGCAGAGGCCC	60.977	66.667	0.00	0.00	40.13	5.80
2374	3850	2.824546	GATGATGCAGAGGCCCGA	59.175	61.111	0.00	0.00	40.13	5.14
2376	3852	2.728443	GATGATGCAGAGGCCCGAGG	62.728	65.000	0.00	0.00	40.13	4.63
2452	3928	5.522456	ACATATTATCCTGCGTTGCAAATG	58.478	37.500	0.00	0.00	38.41	2.32
2470	3946	8.117758	TGCAAATGTTATCAAATTAGCATTCG	57.882	30.769	0.00	0.00	33.53	3.34
2479	3955	7.624360	ATCAAATTAGCATTCGGAGTAACAA	57.376	32.000	0.00	0.00	0.00	2.83
2499	3975	5.605534	ACAAGATATACAGCCTAGCAACTG	58.394	41.667	4.61	4.61	39.86	3.16
2528	4004	9.760660	GGATATAACAATGCGTTCTATGAAATC	57.239	33.333	0.00	0.00	39.14	2.17
2561	4037	5.636965	GCATCTGTGTATACCAGATTAGCAG	59.363	44.000	23.41	16.72	45.12	4.24
2563	4039	6.791867	TCTGTGTATACCAGATTAGCAGTT	57.208	37.500	15.83	0.00	34.12	3.16
2578	4054	1.136336	GCAGTTCACCGATTGTTCGTC	60.136	52.381	0.00	0.00	43.97	4.20
2617	4093	1.093972	TCAAATGCACGCGATCCATT	58.906	45.000	15.93	14.92	0.00	3.16
2624	4100	1.143305	CACGCGATCCATTGATCCTC	58.857	55.000	15.93	0.00	43.82	3.71
2626	4102	1.269988	ACGCGATCCATTGATCCTCTG	60.270	52.381	15.93	0.00	43.82	3.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
145	146	0.392461	GCACGACTATCCTTGGGCAA	60.392	55.000	0.00	0.00	0.00	4.52
174	175	0.674269	GGGATGTTCCGGCGTTGTAA	60.674	55.000	6.01	0.00	37.43	2.41
205	206	7.416213	GCATACCCATTGTTTAAGCACTTGATA	60.416	37.037	0.00	0.00	0.00	2.15
316	318	6.213677	TCGATGTATTCTTCTTCCCAATACG	58.786	40.000	0.00	0.00	36.27	3.06
474	476	3.080319	CTCCTTTCTTCTTCAAGCCAGG	58.920	50.000	0.00	0.00	32.98	4.45
570	572	9.920946	TTTTAGAAGATAGCCAACTTCCATAAT	57.079	29.630	0.00	0.00	42.09	1.28
768	774	4.107029	CGGGCGTATCCTGGGATA	57.893	61.111	5.32	5.32	37.58	2.59
778	784	3.434319	GAGTCGTGTCCGGGCGTA	61.434	66.667	0.00	0.00	33.95	4.42
834	840	1.888638	CGACCCCAAAACGGACGTT	60.889	57.895	3.99	3.99	40.45	3.99
1031	1038	2.351244	TAGCAGTCGTCTGGGCTGG	61.351	63.158	11.61	0.00	41.57	4.85
1515	1561	1.223187	TCCAGAACCGCGACTTTTTC	58.777	50.000	8.23	1.83	0.00	2.29
1524	1570	2.223409	ACGAAACTTTTTCCAGAACCGC	60.223	45.455	0.00	0.00	0.00	5.68
1545	1591	2.839486	ATCCGAACTTGCAAGAGTGA	57.161	45.000	32.50	20.82	0.00	3.41
1554	1600	2.094182	TCTTCCGAGGAATCCGAACTTG	60.094	50.000	4.88	0.00	33.28	3.16
1563	1609	4.086706	ACAACAAAGTCTTCCGAGGAAT	57.913	40.909	4.88	0.00	33.28	3.01
1566	1612	2.943033	ACAACAACAAAGTCTTCCGAGG	59.057	45.455	0.00	0.00	0.00	4.63
1567	1613	3.374058	ACACAACAACAAAGTCTTCCGAG	59.626	43.478	0.00	0.00	0.00	4.63
1684	3085	7.278135	ACAGCCATACATATCCAAGCATATAG	58.722	38.462	0.00	0.00	0.00	1.31
1778	3181	5.344066	ACATACAAGACGAAGCTCACATAG	58.656	41.667	0.00	0.00	0.00	2.23
1826	3229	4.207955	GGAAAGGGATTTAGCCTGGTTAG	58.792	47.826	0.00	0.00	0.00	2.34
1832	3235	3.033909	GCAATGGAAAGGGATTTAGCCT	58.966	45.455	0.00	0.00	0.00	4.58
1840	3243	2.491693	GTTCATTCGCAATGGAAAGGGA	59.508	45.455	8.40	0.00	39.38	4.20
1842	3245	2.518949	CGTTCATTCGCAATGGAAAGG	58.481	47.619	8.40	1.32	39.38	3.11
1854	3257	6.200286	TCGAGCTTATGTATTTCCGTTCATTC	59.800	38.462	0.00	0.00	0.00	2.67
1862	3265	6.903883	TGTTTCTCGAGCTTATGTATTTCC	57.096	37.500	7.81	0.00	0.00	3.13
1863	3266	8.391106	ACAATGTTTCTCGAGCTTATGTATTTC	58.609	33.333	7.81	0.00	0.00	2.17
1872	3275	3.070018	CCTGACAATGTTTCTCGAGCTT	58.930	45.455	7.81	0.00	0.00	3.74
1878	3281	3.507622	CCTTTCCCCTGACAATGTTTCTC	59.492	47.826	0.00	0.00	0.00	2.87
1885	3288	3.657727	TCTCTTTCCTTTCCCCTGACAAT	59.342	43.478	0.00	0.00	0.00	2.71
1886	3289	3.053077	TCTCTTTCCTTTCCCCTGACAA	58.947	45.455	0.00	0.00	0.00	3.18
1887	3290	2.701551	TCTCTTTCCTTTCCCCTGACA	58.298	47.619	0.00	0.00	0.00	3.58
1888	3291	4.013050	CAATCTCTTTCCTTTCCCCTGAC	58.987	47.826	0.00	0.00	0.00	3.51
1889	3292	3.562176	GCAATCTCTTTCCTTTCCCCTGA	60.562	47.826	0.00	0.00	0.00	3.86
1890	3293	2.757314	GCAATCTCTTTCCTTTCCCCTG	59.243	50.000	0.00	0.00	0.00	4.45
1891	3294	2.619074	CGCAATCTCTTTCCTTTCCCCT	60.619	50.000	0.00	0.00	0.00	4.79
1892	3295	1.745653	CGCAATCTCTTTCCTTTCCCC	59.254	52.381	0.00	0.00	0.00	4.81
1893	3296	2.437413	ACGCAATCTCTTTCCTTTCCC	58.563	47.619	0.00	0.00	0.00	3.97
1894	3297	3.119814	GGAACGCAATCTCTTTCCTTTCC	60.120	47.826	0.00	0.00	35.56	3.13
1895	3298	4.084889	GGAACGCAATCTCTTTCCTTTC	57.915	45.455	0.00	0.00	35.56	2.62
1915	3318	1.031571	CCATGACCCATCCACAACGG	61.032	60.000	0.00	0.00	0.00	4.44
1959	3362	6.469595	GCTAGATTAACACTGACGTTGACTAG	59.530	42.308	0.00	0.00	34.38	2.57
1981	3384	5.353123	CGGCTACAAAAAGATTGGTAAGCTA	59.647	40.000	0.00	0.00	0.00	3.32
2068	3471	4.853468	TTTAGGTCATCCATGGCTTGTA	57.147	40.909	6.96	0.00	35.89	2.41
2115	3520	1.001641	GGAGAGCTTGGTGCCACAT	60.002	57.895	0.00	0.00	44.23	3.21
2129	3604	2.503846	TAGGCTTTCCCGGTCGGAGA	62.504	60.000	11.39	3.88	43.39	3.71
2140	3615	2.766970	TGTGTGCGTTTTAGGCTTTC	57.233	45.000	0.00	0.00	0.00	2.62
2151	3626	0.389817	ACGTATGCTCATGTGTGCGT	60.390	50.000	6.94	6.94	37.35	5.24
2152	3627	1.518515	CTACGTATGCTCATGTGTGCG	59.481	52.381	0.00	0.00	37.35	5.34
2168	3643	4.523173	TGTCCCTATCAATCCTAAGCTACG	59.477	45.833	0.00	0.00	0.00	3.51
2224	3699	3.698040	GGTGATGGAGATTGCTGATGTTT	59.302	43.478	0.00	0.00	0.00	2.83
2265	3740	1.589630	CCTGACCAACGTCGGATCA	59.410	57.895	0.00	0.00	46.80	2.92
2355	3831	2.976903	GGGCCTCTGCATCATCGC	60.977	66.667	0.84	0.00	40.13	4.58
2361	3837	1.271840	TAAACCTCGGGCCTCTGCAT	61.272	55.000	0.84	0.00	40.13	3.96
2362	3838	1.485294	TTAAACCTCGGGCCTCTGCA	61.485	55.000	0.84	0.00	40.13	4.41
2363	3839	1.025113	GTTAAACCTCGGGCCTCTGC	61.025	60.000	0.84	0.00	0.00	4.26
2364	3840	0.392595	GGTTAAACCTCGGGCCTCTG	60.393	60.000	0.84	0.00	34.73	3.35
2395	3871	8.390354	CGTCTGATGCTGATTTGAGTAAAAATA	58.610	33.333	0.00	0.00	29.89	1.40
2396	3872	7.246311	CGTCTGATGCTGATTTGAGTAAAAAT	58.754	34.615	0.00	0.00	32.43	1.82
2414	3890	0.460109	TATGTTGCTGCGCGTCTGAT	60.460	50.000	8.43	0.00	0.00	2.90
2420	3896	1.800586	AGGATAATATGTTGCTGCGCG	59.199	47.619	0.00	0.00	0.00	6.86
2437	3913	2.816672	TGATAACATTTGCAACGCAGGA	59.183	40.909	0.00	0.00	40.61	3.86
2452	3928	8.609176	TGTTACTCCGAATGCTAATTTGATAAC	58.391	33.333	0.00	0.00	29.60	1.89
2470	3946	6.015350	TGCTAGGCTGTATATCTTGTTACTCC	60.015	42.308	0.00	0.00	0.00	3.85
2479	3955	3.007398	GGCAGTTGCTAGGCTGTATATCT	59.993	47.826	0.00	0.00	41.70	1.98
2499	3975	2.806244	AGAACGCATTGTTATATCCGGC	59.194	45.455	0.00	0.00	42.09	6.13
2545	4021	4.982916	CGGTGAACTGCTAATCTGGTATAC	59.017	45.833	0.00	0.00	0.00	1.47
2546	4022	4.891168	TCGGTGAACTGCTAATCTGGTATA	59.109	41.667	0.00	0.00	0.00	1.47
2578	4054	1.953559	ATACACAACAGCGGCATAGG	58.046	50.000	1.45	0.00	0.00	2.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.