AutoCloner

Multiple sequence alignment - TraesCS3A01G030600

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	TraesCS3A01G030600	chr3A	100.000	3561	0	0	1	3561	16623170	16619610	0.000000e+00	6577
1	TraesCS3A01G030600	chr3A	87.322	915	95	11	1714	2626	16662926	16663821	0.000000e+00	1027
2	TraesCS3A01G030600	chr3A	85.393	445	49	6	2783	3212	16663821	16664264	7.010000e-122	448
3	TraesCS3A01G030600	chr3A	90.533	169	16	0	2623	2791	356085367	356085199	1.290000e-54	224
4	TraesCS3A01G030600	chr3A	80.982	163	13	6	984	1146	16661998	16662142	2.910000e-21	113
5	TraesCS3A01G030600	chr3D	94.178	2061	88	15	969	3015	10530903	10532945	0.000000e+00	3112
6	TraesCS3A01G030600	chr3D	91.537	1666	115	20	967	2624	10410911	10409264	0.000000e+00	2272
7	TraesCS3A01G030600	chr3D	86.596	1231	112	29	1413	2624	10460248	10461444	0.000000e+00	1310
8	TraesCS3A01G030600	chr3D	91.821	758	34	11	2779	3529	10409263	10408527	0.000000e+00	1031
9	TraesCS3A01G030600	chr3D	85.546	1017	88	32	1	970	10411949	10410945	0.000000e+00	1009
10	TraesCS3A01G030600	chr3D	96.043	556	17	3	3006	3561	10533125	10533675	0.000000e+00	900
11	TraesCS3A01G030600	chr3D	91.962	423	28	4	3140	3561	10461840	10462257	3.960000e-164	588
12	TraesCS3A01G030600	chr3D	90.955	398	29	4	576	970	10530475	10530868	2.430000e-146	529
13	TraesCS3A01G030600	chr3D	91.339	381	16	6	2782	3148	10461442	10461819	4.100000e-139	505
14	TraesCS3A01G030600	chr3D	87.778	180	18	1	987	1166	10459517	10459692	1.300000e-49	207
15	TraesCS3A01G030600	chr3B	92.651	1769	81	19	1793	3558	14963763	14965485	0.000000e+00	2501
16	TraesCS3A01G030600	chr3B	89.712	1808	123	31	1437	3225	26747633	26745870	0.000000e+00	2250
17	TraesCS3A01G030600	chr3B	90.196	1632	122	23	967	2582	14547077	14548686	0.000000e+00	2093
18	TraesCS3A01G030600	chr3B	86.312	1673	183	30	967	2624	26757739	26759380	0.000000e+00	1779
19	TraesCS3A01G030600	chr3B	95.936	935	34	3	2627	3561	14548687	14549617	0.000000e+00	1513
20	TraesCS3A01G030600	chr3B	84.648	1420	153	43	1223	2624	26812013	26813385	0.000000e+00	1354
21	TraesCS3A01G030600	chr3B	94.049	773	42	1	1854	2626	14415810	14415042	0.000000e+00	1170
22	TraesCS3A01G030600	chr3B	90.585	786	34	11	2783	3561	14414561	14413809	0.000000e+00	1005
23	TraesCS3A01G030600	chr3B	83.006	1018	102	35	4	970	26756708	26757705	0.000000e+00	856
24	TraesCS3A01G030600	chr3B	87.500	512	36	13	467	970	14546482	14546973	1.860000e-157	566
25	TraesCS3A01G030600	chr3B	90.643	342	21	4	1424	1764	14963438	14963769	9.070000e-121	444
26	TraesCS3A01G030600	chr3B	86.534	401	22	13	4	377	14540596	14540991	2.560000e-111	412
27	TraesCS3A01G030600	chr3B	95.312	256	8	3	3056	3311	26836360	26836611	1.540000e-108	403
28	TraesCS3A01G030600	chr3B	95.763	236	8	2	3326	3561	26851816	26852049	2.590000e-101	379
29	TraesCS3A01G030600	chr3B	89.474	266	23	3	2785	3046	14415039	14414775	7.370000e-87	331
30	TraesCS3A01G030600	chr3B	85.758	330	26	10	980	1295	14475300	14474978	2.650000e-86	329
31	TraesCS3A01G030600	chr3B	87.218	266	28	4	2781	3043	14470084	14469822	7.470000e-77	298
32	TraesCS3A01G030600	chr3B	87.179	234	26	3	973	1204	14471539	14471308	2.730000e-66	263
33	TraesCS3A01G030600	chr3B	78.701	385	51	18	529	891	14475784	14475409	9.950000e-56	228
34	TraesCS3A01G030600	chr3B	87.222	180	23	0	987	1166	26748250	26748071	4.660000e-49	206
35	TraesCS3A01G030600	chr3B	87.075	147	19	0	2623	2769	5453661	5453807	2.200000e-37	167
36	TraesCS3A01G030600	chr3B	84.564	149	20	2	1225	1373	26747776	26747631	1.030000e-30	145
37	TraesCS3A01G030600	chr2D	87.654	567	44	16	427	970	303084483	303083920	1.390000e-178	636
38	TraesCS3A01G030600	chr2D	91.411	163	13	1	2623	2785	79992031	79991870	4.630000e-54	222
39	TraesCS3A01G030600	chr4A	84.452	283	29	9	427	695	298304742	298305023	7.580000e-67	265
40	TraesCS3A01G030600	chr7A	91.515	165	14	0	2623	2787	59407068	59406904	9.950000e-56	228
41	TraesCS3A01G030600	chr7A	83.270	263	15	2	427	668	642696145	642695891	7.740000e-52	215
42	TraesCS3A01G030600	chr7D	91.463	164	14	0	2623	2786	454079247	454079410	3.580000e-55	226
43	TraesCS3A01G030600	chr5D	91.463	164	14	0	2623	2786	529218327	529218164	3.580000e-55	226
44	TraesCS3A01G030600	chr4D	91.667	156	13	0	550	705	156375820	156375975	2.150000e-52	217
45	TraesCS3A01G030600	chr1A	82.101	257	29	11	427	668	129870407	129870153	1.680000e-48	204
46	TraesCS3A01G030600	chr6B	91.589	107	8	1	477	583	603158327	603158222	2.860000e-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	TraesCS3A01G030600	chr3A	16619610	16623170	3560	True	6577.000000	6577	100.000000	1	3561	1	chr3A.!!$R1	3560
1	TraesCS3A01G030600	chr3A	16661998	16664264	2266	False	529.333333	1027	84.565667	984	3212	3	chr3A.!!$F1	2228
2	TraesCS3A01G030600	chr3D	10530475	10533675	3200	False	1513.666667	3112	93.725333	576	3561	3	chr3D.!!$F2	2985
3	TraesCS3A01G030600	chr3D	10408527	10411949	3422	True	1437.333333	2272	89.634667	1	3529	3	chr3D.!!$R1	3528
4	TraesCS3A01G030600	chr3D	10459517	10462257	2740	False	652.500000	1310	89.418750	987	3561	4	chr3D.!!$F1	2574
5	TraesCS3A01G030600	chr3B	14963438	14965485	2047	False	1472.500000	2501	91.647000	1424	3558	2	chr3B.!!$F7	2134
6	TraesCS3A01G030600	chr3B	14546482	14549617	3135	False	1390.666667	2093	91.210667	467	3561	3	chr3B.!!$F6	3094
7	TraesCS3A01G030600	chr3B	26812013	26813385	1372	False	1354.000000	1354	84.648000	1223	2624	1	chr3B.!!$F3	1401
8	TraesCS3A01G030600	chr3B	26756708	26759380	2672	False	1317.500000	1779	84.659000	4	2624	2	chr3B.!!$F8	2620
9	TraesCS3A01G030600	chr3B	26745870	26748250	2380	True	867.000000	2250	87.166000	987	3225	3	chr3B.!!$R3	2238
10	TraesCS3A01G030600	chr3B	14413809	14415810	2001	True	835.333333	1170	91.369333	1854	3561	3	chr3B.!!$R1	1707
11	TraesCS3A01G030600	chr3B	14469822	14475784	5962	True	279.500000	329	84.714000	529	3043	4	chr3B.!!$R2	2514
12	TraesCS3A01G030600	chr2D	303083920	303084483	563	True	636.000000	636	87.654000	427	970	1	chr2D.!!$R2	543

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
662	758	0.538746	TTTCTTCCCTTTGGACCGCC	60.539	55.000	0.0	0.0	41.57	6.13	F
1140	1371	1.274650	CCCCTCAGGCCTCCCATATAT	60.275	57.143	0.0	0.0	0.00	0.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2510	7330	0.796927	GGCTCACGCACCTTTACTTC	59.203	55.000	0.0	0.0	38.1	3.01	R
3119	8646	1.804151	TGACAGCGTATCCAACAAAGC	59.196	47.619	0.0	0.0	0.0	3.51	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
70	71	9.986833	AAAATGCTCTCAAATTTGTAAAAACAC	57.013	25.926	17.47	2.40	0.00	3.32
112	113	9.522804	TTTCACAAAGTATGAACAATGTTTACC	57.477	29.630	0.00	0.00	35.82	2.85
113	114	8.226819	TCACAAAGTATGAACAATGTTTACCA	57.773	30.769	0.00	0.00	0.00	3.25
115	116	8.914654	CACAAAGTATGAACAATGTTTACCATG	58.085	33.333	0.00	4.94	32.82	3.66
291	315	8.127150	ACAAAGAAATGGAAGGGATAAGAAAG	57.873	34.615	0.00	0.00	0.00	2.62
294	318	9.552695	AAAGAAATGGAAGGGATAAGAAAGAAT	57.447	29.630	0.00	0.00	0.00	2.40
295	319	9.552695	AAGAAATGGAAGGGATAAGAAAGAATT	57.447	29.630	0.00	0.00	0.00	2.17
325	358	4.584518	TGGCACCAGCACAGTGGG	62.585	66.667	1.84	0.00	42.54	4.61
352	385	4.309950	GAGTGACGCGGGGTGGTT	62.310	66.667	12.47	0.00	0.00	3.67
353	386	2.918802	AGTGACGCGGGGTGGTTA	60.919	61.111	12.47	0.00	0.00	2.85
355	388	4.382320	TGACGCGGGGTGGTTAGC	62.382	66.667	12.47	0.00	0.00	3.09
356	389	4.078516	GACGCGGGGTGGTTAGCT	62.079	66.667	12.47	0.00	0.00	3.32
357	390	4.388499	ACGCGGGGTGGTTAGCTG	62.388	66.667	12.47	0.00	0.00	4.24
358	391	4.388499	CGCGGGGTGGTTAGCTGT	62.388	66.667	0.00	0.00	0.00	4.40
359	392	2.746277	GCGGGGTGGTTAGCTGTG	60.746	66.667	0.00	0.00	0.00	3.66
360	393	2.046314	CGGGGTGGTTAGCTGTGG	60.046	66.667	0.00	0.00	0.00	4.17
361	394	2.355115	GGGGTGGTTAGCTGTGGG	59.645	66.667	0.00	0.00	0.00	4.61
362	395	2.361230	GGGTGGTTAGCTGTGGGC	60.361	66.667	0.00	0.00	42.19	5.36
371	404	4.617875	GCTGTGGGCTTATGTCGT	57.382	55.556	0.00	0.00	38.06	4.34
373	406	1.571919	GCTGTGGGCTTATGTCGTAG	58.428	55.000	0.00	0.00	38.06	3.51
396	443	4.209866	CAGCCCATACCCAGCCCC	62.210	72.222	0.00	0.00	0.00	5.80
410	457	3.009115	CCCCGCCCTTCTTCCTCA	61.009	66.667	0.00	0.00	0.00	3.86
424	471	2.734723	CTCACACACCGCACCTCG	60.735	66.667	0.00	0.00	38.08	4.63
662	758	0.538746	TTTCTTCCCTTTGGACCGCC	60.539	55.000	0.00	0.00	41.57	6.13
700	796	2.368548	TCCAGTTGCATGTAGTCACTGT	59.631	45.455	11.59	0.00	0.00	3.55
763	863	4.154918	CAGCCTAGATGTTTCTGAACCAAC	59.845	45.833	0.00	0.00	34.80	3.77
853	970	2.811317	GCTCCGGAGTGTCGCTTG	60.811	66.667	31.43	5.20	0.00	4.01
898	1015	9.522804	GAAACACATGAAACCTTTTTATACACA	57.477	29.630	0.00	0.00	0.00	3.72
899	1016	9.528018	AAACACATGAAACCTTTTTATACACAG	57.472	29.630	0.00	0.00	0.00	3.66
927	1044	3.596214	ACTTGTGTGGCTCTTATTACCG	58.404	45.455	0.00	0.00	0.00	4.02
970	1088	2.555757	AGCAGATTTGTGAGGCTGTTTC	59.444	45.455	0.00	0.00	32.76	2.78
978	1203	6.403866	TTTGTGAGGCTGTTTCATTGTAAT	57.596	33.333	0.00	0.00	0.00	1.89
1015	1240	3.151710	CGATGGACGGGGGCACTA	61.152	66.667	0.00	0.00	38.46	2.74
1140	1371	1.274650	CCCCTCAGGCCTCCCATATAT	60.275	57.143	0.00	0.00	0.00	0.86
1146	1377	2.238144	CAGGCCTCCCATATATCAGGTG	59.762	54.545	0.00	0.54	0.00	4.00
1227	1859	7.719871	AACCATCGGATATAATGCTAGTACT	57.280	36.000	0.00	0.00	0.00	2.73
1229	1861	7.548097	ACCATCGGATATAATGCTAGTACTTG	58.452	38.462	0.00	0.00	0.00	3.16
1230	1862	6.477033	CCATCGGATATAATGCTAGTACTTGC	59.523	42.308	20.53	20.53	0.00	4.01
1231	1863	6.835819	TCGGATATAATGCTAGTACTTGCT	57.164	37.500	25.89	12.39	32.65	3.91
1233	1865	8.344446	TCGGATATAATGCTAGTACTTGCTAA	57.656	34.615	25.89	13.89	32.65	3.09
1307	2198	9.463443	CTGAAATTTTGTTTCCGTAGAGAATTT	57.537	29.630	0.00	0.00	0.00	1.82
1310	2201	5.699097	TTTGTTTCCGTAGAGAATTTGGG	57.301	39.130	0.00	0.00	0.00	4.12
1385	2281	2.458620	AGTCTACAGGTGTTCCCTAGC	58.541	52.381	0.00	0.00	43.86	3.42
1396	2380	5.071923	AGGTGTTCCCTAGCAGGATATTAAC	59.928	44.000	4.00	0.00	43.87	2.01
1477	2602	2.028930	GGATCGGAGTAGCTATGGTTGG	60.029	54.545	0.00	0.00	0.00	3.77
1482	2607	3.738281	CGGAGTAGCTATGGTTGGTGAAG	60.738	52.174	0.00	0.00	0.00	3.02
1542	2856	6.609237	TTTTGATCTGAGACTGAAACTGTG	57.391	37.500	0.00	0.00	0.00	3.66
1577	2900	4.286032	ACACCATTTTCTAGTCCACAGCTA	59.714	41.667	0.00	0.00	0.00	3.32
1631	3043	8.329502	GGATCATTTATACCCCTTTACTAGCAT	58.670	37.037	0.00	0.00	0.00	3.79
1632	3044	9.740710	GATCATTTATACCCCTTTACTAGCATT	57.259	33.333	0.00	0.00	0.00	3.56
1654	3066	8.413229	GCATTATGTATTTATGTTTGGTCTGGT	58.587	33.333	0.00	0.00	0.00	4.00
1750	3197	7.518689	GCGTAATTTTGTGTGGTACTGACTTAA	60.519	37.037	0.00	0.00	0.00	1.85
1828	3281	4.684484	AAAAGTTCTAACACGAGGACCT	57.316	40.909	0.00	0.00	0.00	3.85
1960	3414	2.067365	TCAAGCGCTGTCTAGGGATA	57.933	50.000	12.58	0.00	39.07	2.59
2510	7330	6.370186	TCTCCATTGATGATCCTAATCCTG	57.630	41.667	0.00	0.00	0.00	3.86
2552	7372	2.831685	ATGTCTGAAACCAGTACGCA	57.168	45.000	0.00	0.00	33.49	5.24
2636	7940	1.891150	GACTTGTACTCCCTCCGTTCA	59.109	52.381	0.00	0.00	0.00	3.18
2650	7954	8.945195	TCCCTCCGTTCATAAATATAAGTCTA	57.055	34.615	0.00	0.00	0.00	2.59
2697	8001	7.472334	ACATAAGGAGCAAAATGAGTGAATT	57.528	32.000	0.00	0.00	0.00	2.17
2861	8180	2.358898	CACTCTGTTTTGGTGTTCCAGG	59.641	50.000	0.00	0.00	45.22	4.45
2901	8220	4.796495	ATTTGGGAGGCGCCGGAC	62.796	66.667	23.20	16.43	37.63	4.79
3019	8537	5.163744	TGTTGTTTGCTGCTTTTAAGTCGTA	60.164	36.000	0.00	0.00	0.00	3.43
3092	8618	7.175119	TGAAATGGGTTACGTTGATCATGTAAA	59.825	33.333	17.70	7.68	38.38	2.01
3119	8646	4.516698	ACCTAGCCATAGATTTCAAATGCG	59.483	41.667	0.00	0.00	0.00	4.73
3477	9036	1.571773	ATTACCACCCAGACCCAGCC	61.572	60.000	0.00	0.00	0.00	4.85
3516	9075	2.289819	ACATGCCATTTGCCCTCTTTTG	60.290	45.455	0.00	0.00	40.16	2.44
3532	9091	2.286365	TTTGCCGATTTCCTTGTCCT	57.714	45.000	0.00	0.00	0.00	3.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
271	295	8.971073	TCAATTCTTTCTTATCCCTTCCATTTC	58.029	33.333	0.00	0.00	0.00	2.17
272	296	8.899887	TCAATTCTTTCTTATCCCTTCCATTT	57.100	30.769	0.00	0.00	0.00	2.32
335	368	2.830704	CTAACCACCCCGCGTCACTC	62.831	65.000	4.92	0.00	0.00	3.51
338	371	4.382320	GCTAACCACCCCGCGTCA	62.382	66.667	4.92	0.00	0.00	4.35
345	378	2.361230	GCCCACAGCTAACCACCC	60.361	66.667	0.00	0.00	38.99	4.61
355	388	2.540515	CACTACGACATAAGCCCACAG	58.459	52.381	0.00	0.00	0.00	3.66
356	389	1.206132	CCACTACGACATAAGCCCACA	59.794	52.381	0.00	0.00	0.00	4.17
357	390	1.935933	CCACTACGACATAAGCCCAC	58.064	55.000	0.00	0.00	0.00	4.61
358	391	0.177141	GCCACTACGACATAAGCCCA	59.823	55.000	0.00	0.00	0.00	5.36
359	392	0.532196	GGCCACTACGACATAAGCCC	60.532	60.000	0.00	0.00	32.68	5.19
360	393	0.532196	GGGCCACTACGACATAAGCC	60.532	60.000	4.39	0.00	38.21	4.35
361	394	0.177141	TGGGCCACTACGACATAAGC	59.823	55.000	0.00	0.00	0.00	3.09
362	395	1.806623	GCTGGGCCACTACGACATAAG	60.807	57.143	0.00	0.00	0.00	1.73
364	397	1.820581	GCTGGGCCACTACGACATA	59.179	57.895	0.00	0.00	0.00	2.29
365	398	2.584608	GCTGGGCCACTACGACAT	59.415	61.111	0.00	0.00	0.00	3.06
396	443	0.951040	GTGTGTGAGGAAGAAGGGCG	60.951	60.000	0.00	0.00	0.00	6.13
397	444	0.606673	GGTGTGTGAGGAAGAAGGGC	60.607	60.000	0.00	0.00	0.00	5.19
662	758	6.479660	GCAACTGGAGATAATCTCAAGAAGAG	59.520	42.308	0.00	0.00	45.44	2.85
802	914	8.658619	AGAGATGTGCTAAATCTAATCATCCTT	58.341	33.333	0.00	0.00	34.50	3.36
898	1015	5.746990	AAGAGCCACACAAGTTATACTCT	57.253	39.130	0.00	0.00	34.85	3.24
899	1016	9.032420	GTAATAAGAGCCACACAAGTTATACTC	57.968	37.037	0.00	0.00	0.00	2.59
927	1044	4.497291	TCCCTGTTCCACAACATATACC	57.503	45.455	0.00	0.00	41.82	2.73
970	1088	6.129393	CCAAAACTCGCTCGATATTACAATG	58.871	40.000	0.00	0.00	0.00	2.82
978	1203	2.004583	CCACCAAAACTCGCTCGATA	57.995	50.000	0.00	0.00	0.00	2.92
1015	1240	3.537580	CTCCTACTCGTCTCTTGCTAGT	58.462	50.000	0.00	0.00	0.00	2.57
1146	1377	9.345517	CAGGTAAAAATATATGCACATGTATGC	57.654	33.333	0.00	0.00	46.32	3.14
1209	1832	8.981724	TTTAGCAAGTACTAGCATTATATCCG	57.018	34.615	0.00	0.00	0.00	4.18
1307	2198	4.080807	TCTCGACCAAAATATTAGTGCCCA	60.081	41.667	0.00	0.00	0.00	5.36
1374	2267	5.163237	TGGTTAATATCCTGCTAGGGAACAC	60.163	44.000	0.00	0.00	39.02	3.32
1385	2281	1.882352	GCGCCCCTGGTTAATATCCTG	60.882	57.143	0.00	0.00	0.00	3.86
1477	2602	5.878261	TCTCTACGAAAACGAAACTTCAC	57.122	39.130	0.00	0.00	0.00	3.18
1542	2856	4.275936	AGAAAATGGTGTACAGAGTTGCAC	59.724	41.667	0.00	0.00	0.00	4.57
1577	2900	6.296894	CCTTGATCCATATGCTTCTAGGGAAT	60.297	42.308	17.89	0.00	35.38	3.01
1631	3043	7.558444	GGGACCAGACCAAACATAAATACATAA	59.442	37.037	0.00	0.00	0.00	1.90
1632	3044	7.057894	GGGACCAGACCAAACATAAATACATA	58.942	38.462	0.00	0.00	0.00	2.29
1633	3045	5.891551	GGGACCAGACCAAACATAAATACAT	59.108	40.000	0.00	0.00	0.00	2.29
1634	3046	5.258051	GGGACCAGACCAAACATAAATACA	58.742	41.667	0.00	0.00	0.00	2.29
1635	3047	5.830000	GGGACCAGACCAAACATAAATAC	57.170	43.478	0.00	0.00	0.00	1.89
1654	3066	2.027561	CGACATACAACTCCAAAGGGGA	60.028	50.000	0.00	0.00	45.89	4.81
1700	3112	8.817100	CGCAACTATTCATGAGTCTGTAAATTA	58.183	33.333	0.00	0.00	0.00	1.40
1750	3197	9.137459	AGTACTCTACTACAATAGCAACATGAT	57.863	33.333	0.00	0.00	37.23	2.45
1808	3261	3.244112	CCAGGTCCTCGTGTTAGAACTTT	60.244	47.826	0.00	0.00	0.00	2.66
1809	3262	2.299297	CCAGGTCCTCGTGTTAGAACTT	59.701	50.000	0.00	0.00	0.00	2.66
1810	3263	1.893801	CCAGGTCCTCGTGTTAGAACT	59.106	52.381	0.00	0.00	0.00	3.01
1811	3264	1.617357	ACCAGGTCCTCGTGTTAGAAC	59.383	52.381	0.00	0.00	0.00	3.01
1816	3269	2.027469	GGATTAACCAGGTCCTCGTGTT	60.027	50.000	0.00	0.00	38.79	3.32
1828	3281	4.830600	GGAACAAACAGGAAGGATTAACCA	59.169	41.667	0.00	0.00	42.04	3.67
1960	3414	3.511540	TGACTGATTCCATGAGACGTTCT	59.488	43.478	0.00	0.00	0.00	3.01
2510	7330	0.796927	GGCTCACGCACCTTTACTTC	59.203	55.000	0.00	0.00	38.10	3.01
2552	7372	6.374417	ACCTTACCACTTCAATCATACACT	57.626	37.500	0.00	0.00	0.00	3.55
2756	8060	8.755977	ACTTCCTTCGTTCCTAAATATAAGTCA	58.244	33.333	0.00	0.00	0.00	3.41
2901	8220	8.723311	ACAATTTTCATAGCATCAAACATTTGG	58.277	29.630	4.58	0.00	38.66	3.28
3092	8618	7.175641	GCATTTGAAATCTATGGCTAGGTACAT	59.824	37.037	0.00	0.00	0.00	2.29
3119	8646	1.804151	TGACAGCGTATCCAACAAAGC	59.196	47.619	0.00	0.00	0.00	3.51
3248	8805	9.095065	GGCGAAGAATCTGTTAGAAAGTTATTA	57.905	33.333	0.00	0.00	0.00	0.98
3314	8873	7.511268	AGCATGCACCATTTTGGATATTAATT	58.489	30.769	21.98	0.00	40.96	1.40
3316	8875	6.482898	AGCATGCACCATTTTGGATATTAA	57.517	33.333	21.98	0.00	40.96	1.40
3395	8954	4.024556	CAGATGTTCAGCGTCAAATATCCC	60.025	45.833	0.00	0.00	35.60	3.85
3477	9036	4.722194	CATGTTAATCAAGGTGTTCACCG	58.278	43.478	15.07	3.85	34.28	4.94
3516	9075	3.660501	AAAAAGGACAAGGAAATCGGC	57.339	42.857	0.00	0.00	0.00	5.54

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.