AutoCloner

Multiple sequence alignment - TraesCS7B01G492800

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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	TraesCS7B01G492800	chr7B	100.000	2492	0	0	1	2492	744610626	744608135	0.000000e+00	4602.0
1	TraesCS7B01G492800	chr7B	96.231	1698	28	6	701	2390	747832227	747830558	0.000000e+00	2748.0
2	TraesCS7B01G492800	chr7B	93.367	603	17	9	1	603	747833247	747832668	0.000000e+00	870.0
3	TraesCS7B01G492800	chr7B	91.087	460	38	2	815	1271	749137927	749137468	9.790000e-174	619.0
4	TraesCS7B01G492800	chr7B	94.702	151	8	0	453	603	399214358	399214208	4.140000e-58	235.0
5	TraesCS7B01G492800	chr7B	99.083	109	1	0	2384	2492	102265228	102265120	1.960000e-46	196.0
6	TraesCS7B01G492800	chr7B	93.578	109	6	1	602	709	747832603	747832495	7.130000e-36	161.0
7	TraesCS7B01G492800	chr7B	90.000	70	4	3	53	119	639796253	639796184	1.230000e-13	87.9
8	TraesCS7B01G492800	chr7B	89.091	55	6	0	638	692	446164868	446164922	4.450000e-08	69.4
9	TraesCS7B01G492800	chr7D	89.720	1391	80	28	935	2310	632461059	632459717	0.000000e+00	1718.0
10	TraesCS7B01G492800	chr7D	85.347	662	62	8	1240	1885	632842363	632843005	0.000000e+00	652.0
11	TraesCS7B01G492800	chr7D	90.339	383	31	1	1	377	632463363	632462981	4.790000e-137	497.0
12	TraesCS7B01G492800	chr7D	92.391	276	19	2	924	1197	632842093	632842368	2.320000e-105	392.0
13	TraesCS7B01G492800	chr7D	90.175	285	20	3	690	966	632461344	632461060	5.070000e-97	364.0
14	TraesCS7B01G492800	chr7D	82.524	309	34	12	1904	2209	632848180	632848471	1.140000e-63	254.0
15	TraesCS7B01G492800	chr7D	90.741	54	5	0	2218	2271	632848753	632848806	3.440000e-09	73.1
16	TraesCS7B01G492800	chr7D	89.091	55	6	0	638	692	428730499	428730553	4.450000e-08	69.4
17	TraesCS7B01G492800	chr7D	100.000	29	0	0	2267	2295	522870738	522870766	1.000000e-03	54.7
18	TraesCS7B01G492800	chr7A	91.176	408	36	0	1175	1582	734570591	734570998	2.800000e-154	555.0
19	TraesCS7B01G492800	chr2B	98.693	153	2	0	451	603	650480873	650481025	3.160000e-69	272.0
20	TraesCS7B01G492800	chr2B	98.039	153	3	0	451	603	500650933	500651085	1.470000e-67	267.0
21	TraesCS7B01G492800	chr2B	94.444	90	5	0	602	691	650481090	650481179	3.340000e-29	139.0
22	TraesCS7B01G492800	chr2B	81.429	70	13	0	622	691	154507543	154507612	9.630000e-05	58.4
23	TraesCS7B01G492800	chr2B	100.000	29	0	0	2263	2291	622302154	622302182	1.000000e-03	54.7
24	TraesCS7B01G492800	chr3B	97.403	154	4	0	450	603	229471850	229471697	1.900000e-66	263.0
25	TraesCS7B01G492800	chr3B	97.414	116	3	0	2377	2492	797485698	797485813	5.440000e-47	198.0
26	TraesCS7B01G492800	chr3B	97.414	116	3	0	2377	2492	797492621	797492736	5.440000e-47	198.0
27	TraesCS7B01G492800	chr3B	99.083	109	1	0	2384	2492	756376898	756377006	1.960000e-46	196.0
28	TraesCS7B01G492800	chr3B	99.083	109	1	0	2384	2492	773757348	773757240	1.960000e-46	196.0
29	TraesCS7B01G492800	chr3B	96.552	116	4	0	2377	2492	797508807	797508922	2.530000e-45	193.0
30	TraesCS7B01G492800	chr3B	96.667	90	3	0	602	691	229471632	229471543	1.540000e-32	150.0
31	TraesCS7B01G492800	chr3B	88.525	61	3	3	637	695	15104462	15104520	1.240000e-08	71.3
32	TraesCS7B01G492800	chr3B	83.099	71	10	2	635	704	237630901	237630970	2.070000e-06	63.9
33	TraesCS7B01G492800	chr3B	83.871	62	10	0	631	692	641808427	641808366	2.680000e-05	60.2
34	TraesCS7B01G492800	chr6A	97.403	154	3	1	451	603	40219391	40219544	6.840000e-66	261.0
35	TraesCS7B01G492800	chr4D	96.104	154	6	0	450	603	15063711	15063864	4.110000e-63	252.0
36	TraesCS7B01G492800	chr4D	91.447	152	13	0	452	603	54665452	54665301	2.510000e-50	209.0
37	TraesCS7B01G492800	chr4D	100.000	30	0	0	2263	2292	484976708	484976737	3.460000e-04	56.5
38	TraesCS7B01G492800	chr4D	100.000	28	0	0	2267	2294	405653415	405653388	4.000000e-03	52.8
39	TraesCS7B01G492800	chr4A	96.694	121	1	3	2375	2492	722750793	722750913	5.440000e-47	198.0
40	TraesCS7B01G492800	chr4A	94.915	59	2	1	53	110	634348237	634348179	9.490000e-15	91.6
41	TraesCS7B01G492800	chr6B	97.391	115	3	0	2378	2492	679733579	679733693	1.960000e-46	196.0
42	TraesCS7B01G492800	chr5B	97.368	114	3	0	2379	2492	547549423	547549310	7.030000e-46	195.0
43	TraesCS7B01G492800	chr5D	92.537	67	2	3	53	117	24098923	24098858	2.640000e-15	93.5
44	TraesCS7B01G492800	chr4B	95.000	60	1	2	53	110	512752844	512752903	2.640000e-15	93.5
45	TraesCS7B01G492800	chr4B	89.855	69	4	3	53	118	476358173	476358105	4.420000e-13	86.1
46	TraesCS7B01G492800	chrUn	94.915	59	2	1	53	110	377707882	377707940	9.490000e-15	91.6
47	TraesCS7B01G492800	chrUn	94.915	59	2	1	53	110	399203680	399203738	9.490000e-15	91.6
48	TraesCS7B01G492800	chr3D	83.562	73	10	2	625	696	422951414	422951343	1.600000e-07	67.6
49	TraesCS7B01G492800	chr1A	85.714	56	6	2	639	693	553466113	553466059	9.630000e-05	58.4
50	TraesCS7B01G492800	chr1A	80.263	76	13	2	617	691	465229365	465229439	3.460000e-04	56.5
51	TraesCS7B01G492800	chr2D	100.000	30	0	0	2263	2292	85002320	85002349	3.460000e-04	56.5
52	TraesCS7B01G492800	chr6D	100.000	28	0	0	2263	2290	261178009	261178036	4.000000e-03	52.8
53	TraesCS7B01G492800	chr1D	100.000	28	0	0	2266	2293	348233328	348233301	4.000000e-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	TraesCS7B01G492800	chr7B	744608135	744610626	2491	True	4602.000000	4602	100.000	1	2492	1	chr7B.!!$R4	2491
1	TraesCS7B01G492800	chr7B	747830558	747833247	2689	True	1259.666667	2748	94.392	1	2390	3	chr7B.!!$R6	2389
2	TraesCS7B01G492800	chr7D	632459717	632463363	3646	True	859.666667	1718	90.078	1	2310	3	chr7D.!!$R1	2309
3	TraesCS7B01G492800	chr7D	632842093	632843005	912	False	522.000000	652	88.869	924	1885	2	chr7D.!!$F3	961

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
436	1865	0.627451	TTGGCTACTCCCTCCGTCTA	59.373	55.0	0.0	0.0	0.0	2.59	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2405	4294	1.749258	GCTTTTAGACGCCCCCTGG	60.749	63.158	0.0	0.0	0.0	4.45	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
59	60	6.548622	ACCTGCATGCTCTGTTAATTAATCAT	59.451	34.615	20.33	0.00	0.00	2.45
145	146	3.505680	TGATATGTTCAAACTGTGTGGGC	59.494	43.478	0.00	0.00	0.00	5.36
232	233	7.081349	CAGAGAATCGGATATGTACTCTGAAC	58.919	42.308	20.79	0.00	46.94	3.18
314	321	5.585500	TGTTTACGGTTGAAATCTTCTCG	57.415	39.130	0.00	0.00	0.00	4.04
390	1819	6.656693	CAGATAAGGTGGTGGATATCAAATCC	59.343	42.308	4.83	1.91	38.66	3.01
436	1865	0.627451	TTGGCTACTCCCTCCGTCTA	59.373	55.000	0.00	0.00	0.00	2.59
444	1873	3.564264	ACTCCCTCCGTCTAGGTTTATC	58.436	50.000	0.00	0.00	41.99	1.75
479	1908	4.540502	AGTATGTTTTTCTAAGGCCCCTCT	59.459	41.667	0.00	0.00	0.00	3.69
481	1910	4.569719	TGTTTTTCTAAGGCCCCTCTAG	57.430	45.455	0.00	0.00	0.00	2.43
482	1911	4.172807	TGTTTTTCTAAGGCCCCTCTAGA	58.827	43.478	0.00	0.00	0.00	2.43
483	1912	4.788617	TGTTTTTCTAAGGCCCCTCTAGAT	59.211	41.667	0.00	0.00	0.00	1.98
484	1913	5.968167	TGTTTTTCTAAGGCCCCTCTAGATA	59.032	40.000	0.00	0.00	0.00	1.98
485	1914	6.619852	TGTTTTTCTAAGGCCCCTCTAGATAT	59.380	38.462	0.00	0.00	0.00	1.63
486	1915	7.792736	TGTTTTTCTAAGGCCCCTCTAGATATA	59.207	37.037	0.00	0.00	0.00	0.86
487	1916	7.793948	TTTTCTAAGGCCCCTCTAGATATAC	57.206	40.000	0.00	0.00	0.00	1.47
489	1918	3.829728	AAGGCCCCTCTAGATATACGT	57.170	47.619	0.00	0.00	0.00	3.57
490	1919	3.088789	AGGCCCCTCTAGATATACGTG	57.911	52.381	0.00	0.00	0.00	4.49
491	1920	2.379226	AGGCCCCTCTAGATATACGTGT	59.621	50.000	0.00	0.00	0.00	4.49
492	1921	3.163467	GGCCCCTCTAGATATACGTGTT	58.837	50.000	0.00	0.00	0.00	3.32
493	1922	3.577415	GGCCCCTCTAGATATACGTGTTT	59.423	47.826	0.00	0.00	0.00	2.83
494	1923	4.557205	GCCCCTCTAGATATACGTGTTTG	58.443	47.826	0.00	0.00	0.00	2.93
496	1925	4.281182	CCCCTCTAGATATACGTGTTTGCT	59.719	45.833	0.00	0.00	0.00	3.91
497	1926	5.221461	CCCCTCTAGATATACGTGTTTGCTT	60.221	44.000	0.00	0.00	0.00	3.91
498	1927	6.281405	CCCTCTAGATATACGTGTTTGCTTT	58.719	40.000	0.00	0.00	0.00	3.51
499	1928	6.421202	CCCTCTAGATATACGTGTTTGCTTTC	59.579	42.308	0.00	0.00	0.00	2.62
512	1941	1.115467	TGCTTTCCTCGATCTCCTCC	58.885	55.000	0.00	0.00	0.00	4.30
623	2118	4.463891	CCTTTGGAATTCACAAGTGCCTAT	59.536	41.667	7.93	0.00	0.00	2.57
677	2173	1.071071	TCGATAGGCCCAATAAACCCG	59.929	52.381	0.00	0.00	0.00	5.28
1073	2887	0.528684	GGGATTCTTCTCGTCGCAGG	60.529	60.000	0.00	0.00	0.00	4.85
1168	2982	3.190738	TACCGCTGCTGGTTTGGCT	62.191	57.895	18.37	0.00	43.56	4.75
1540	3357	1.748403	GCCGACATAGAGGATGCCA	59.252	57.895	0.00	0.00	39.39	4.92
1661	3478	7.201644	GCATCGAATAAATATGGATCCGTTGAT	60.202	37.037	12.82	0.00	0.00	2.57
1823	3642	8.828688	GGTAGTGGACCTAACATATTGTATTC	57.171	38.462	0.00	0.00	45.89	1.75
1869	3697	1.368641	TGATGTGGTCTATGTTGCGC	58.631	50.000	0.00	0.00	0.00	6.09
1963	3793	3.428870	AGTTGTAAAAGATGACGCGTGAG	59.571	43.478	20.70	0.00	0.00	3.51
2007	3837	4.696402	ACATCACGTAGATAGCTAGTAGCC	59.304	45.833	18.65	3.67	37.00	3.93
2142	4004	3.320879	CTGCAGATCCACGCCCTGT	62.321	63.158	8.42	0.00	0.00	4.00
2219	4081	1.333931	CTAGCTCGATTAGTGCGGACA	59.666	52.381	10.52	0.00	43.54	4.02
2240	4129	3.324930	CAGCCTCCTCCCAGTGCA	61.325	66.667	0.00	0.00	0.00	4.57
2241	4130	2.285969	AGCCTCCTCCCAGTGCAT	60.286	61.111	0.00	0.00	0.00	3.96
2242	4131	2.124403	GCCTCCTCCCAGTGCATG	60.124	66.667	0.00	0.00	0.00	4.06
2243	4132	2.976490	GCCTCCTCCCAGTGCATGT	61.976	63.158	0.00	0.00	0.00	3.21
2244	4133	1.626356	GCCTCCTCCCAGTGCATGTA	61.626	60.000	0.00	0.00	0.00	2.29
2245	4134	0.179000	CCTCCTCCCAGTGCATGTAC	59.821	60.000	5.71	5.71	0.00	2.90
2246	4135	0.904649	CTCCTCCCAGTGCATGTACA	59.095	55.000	16.62	0.00	0.00	2.90
2247	4136	1.487976	CTCCTCCCAGTGCATGTACAT	59.512	52.381	16.62	1.41	0.00	2.29
2248	4137	2.700371	CTCCTCCCAGTGCATGTACATA	59.300	50.000	16.62	0.00	0.00	2.29
2249	4138	3.111484	TCCTCCCAGTGCATGTACATAA	58.889	45.455	16.62	0.00	0.00	1.90
2250	4139	3.521531	TCCTCCCAGTGCATGTACATAAA	59.478	43.478	16.62	0.00	0.00	1.40
2251	4140	4.165950	TCCTCCCAGTGCATGTACATAAAT	59.834	41.667	16.62	0.00	0.00	1.40
2252	4141	5.368230	TCCTCCCAGTGCATGTACATAAATA	59.632	40.000	16.62	0.00	0.00	1.40
2253	4142	5.470098	CCTCCCAGTGCATGTACATAAATAC	59.530	44.000	16.62	5.57	0.00	1.89
2254	4143	5.373222	TCCCAGTGCATGTACATAAATACC	58.627	41.667	16.62	0.00	0.00	2.73
2255	4144	5.104318	TCCCAGTGCATGTACATAAATACCA	60.104	40.000	16.62	0.00	0.00	3.25
2256	4145	5.008613	CCCAGTGCATGTACATAAATACCAC	59.991	44.000	16.62	8.90	0.00	4.16
2257	4146	5.008613	CCAGTGCATGTACATAAATACCACC	59.991	44.000	16.62	0.00	0.00	4.61
2258	4147	5.588246	CAGTGCATGTACATAAATACCACCA	59.412	40.000	16.62	0.00	0.00	4.17
2259	4148	6.094742	CAGTGCATGTACATAAATACCACCAA	59.905	38.462	16.62	0.00	0.00	3.67
2260	4149	6.661377	AGTGCATGTACATAAATACCACCAAA	59.339	34.615	16.62	0.00	0.00	3.28
2261	4150	6.972328	GTGCATGTACATAAATACCACCAAAG	59.028	38.462	8.32	0.00	0.00	2.77
2262	4151	6.661377	TGCATGTACATAAATACCACCAAAGT	59.339	34.615	8.32	0.00	0.00	2.66
2263	4152	7.829706	TGCATGTACATAAATACCACCAAAGTA	59.170	33.333	8.32	0.00	0.00	2.24
2264	4153	8.846211	GCATGTACATAAATACCACCAAAGTAT	58.154	33.333	8.32	0.00	31.71	2.12
2266	4155	8.215926	TGTACATAAATACCACCAAAGTATGC	57.784	34.615	0.00	0.00	30.86	3.14
2329	4218	2.825532	TGCATGCTGTCAGTACTGTCTA	59.174	45.455	21.99	9.11	0.00	2.59
2355	4244	3.887716	GGATGCCTAGAGTCAATGCAAAT	59.112	43.478	0.00	0.00	35.30	2.32
2357	4246	4.707030	TGCCTAGAGTCAATGCAAATTG	57.293	40.909	0.00	0.00	0.00	2.32
2382	4271	4.843728	CCTCATTGGGCAACTCTACTAAA	58.156	43.478	0.00	0.00	0.00	1.85
2384	4273	4.843728	TCATTGGGCAACTCTACTAAAGG	58.156	43.478	0.00	0.00	0.00	3.11
2385	4274	2.781681	TGGGCAACTCTACTAAAGGC	57.218	50.000	0.00	0.00	0.00	4.35
2386	4275	1.982226	TGGGCAACTCTACTAAAGGCA	59.018	47.619	0.00	0.00	0.00	4.75
2387	4276	2.576191	TGGGCAACTCTACTAAAGGCAT	59.424	45.455	0.00	0.00	0.00	4.40
2388	4277	3.206964	GGGCAACTCTACTAAAGGCATC	58.793	50.000	0.00	0.00	0.00	3.91
2389	4278	3.118223	GGGCAACTCTACTAAAGGCATCT	60.118	47.826	0.00	0.00	0.00	2.90
2390	4279	4.123506	GGCAACTCTACTAAAGGCATCTC	58.876	47.826	0.00	0.00	0.00	2.75
2391	4280	4.123506	GCAACTCTACTAAAGGCATCTCC	58.876	47.826	0.00	0.00	0.00	3.71
2392	4281	4.383118	GCAACTCTACTAAAGGCATCTCCA	60.383	45.833	0.00	0.00	37.29	3.86
2393	4282	5.355596	CAACTCTACTAAAGGCATCTCCAG	58.644	45.833	0.00	0.00	37.29	3.86
2394	4283	3.386402	ACTCTACTAAAGGCATCTCCAGC	59.614	47.826	0.00	0.00	37.29	4.85
2421	4310	3.083386	CCCAGGGGGCGTCTAAAA	58.917	61.111	0.00	0.00	35.35	1.52
2422	4311	1.077716	CCCAGGGGGCGTCTAAAAG	60.078	63.158	0.00	0.00	35.35	2.27
2423	4312	1.749258	CCAGGGGGCGTCTAAAAGC	60.749	63.158	0.00	0.00	0.00	3.51
2424	4313	2.106683	CAGGGGGCGTCTAAAAGCG	61.107	63.158	0.00	0.00	0.00	4.68
2429	4318	4.516135	GCGTCTAAAAGCGCCGCC	62.516	66.667	4.98	0.00	46.93	6.13
2430	4319	2.813908	CGTCTAAAAGCGCCGCCT	60.814	61.111	4.98	0.00	0.00	5.52
2431	4320	2.785258	GTCTAAAAGCGCCGCCTG	59.215	61.111	4.98	0.00	0.00	4.85
2432	4321	2.435938	TCTAAAAGCGCCGCCTGG	60.436	61.111	4.98	0.00	38.77	4.45
2433	4322	3.508840	CTAAAAGCGCCGCCTGGG	61.509	66.667	4.98	0.00	39.58	4.45
2460	4349	4.771356	GCGACACACTCGGCGCTA	62.771	66.667	7.64	0.00	45.41	4.26
2461	4350	2.577112	CGACACACTCGGCGCTAG	60.577	66.667	7.64	8.16	38.87	3.42
2462	4351	2.202623	GACACACTCGGCGCTAGG	60.203	66.667	7.64	0.00	0.00	3.02
2463	4352	3.701604	GACACACTCGGCGCTAGGG	62.702	68.421	7.64	9.36	0.00	3.53
2464	4353	4.514577	CACACTCGGCGCTAGGGG	62.515	72.222	7.64	0.00	0.00	4.79
2474	4363	3.810896	GCTAGGGGCGGTTTTGCG	61.811	66.667	0.00	0.00	35.06	4.85
2475	4364	3.810896	CTAGGGGCGGTTTTGCGC	61.811	66.667	0.00	0.00	46.11	6.09
2481	4370	4.700365	GCGGTTTTGCGCCCAGTC	62.700	66.667	4.18	0.00	0.00	3.51
2482	4371	4.383602	CGGTTTTGCGCCCAGTCG	62.384	66.667	4.18	0.00	0.00	4.18
2483	4372	3.284449	GGTTTTGCGCCCAGTCGT	61.284	61.111	4.18	0.00	0.00	4.34
2484	4373	2.251371	GTTTTGCGCCCAGTCGTC	59.749	61.111	4.18	0.00	0.00	4.20
2485	4374	3.342627	TTTTGCGCCCAGTCGTCG	61.343	61.111	4.18	0.00	0.00	5.12

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
232	233	2.872245	TGAAGAAGCTTCGGTTTGTCTG	59.128	45.455	20.43	0.00	0.00	3.51
288	295	8.388103	CGAGAAGATTTCAACCGTAAACATTAT	58.612	33.333	0.00	0.00	0.00	1.28
314	321	3.702045	AGGATGTCCTAGACTGTAAGCAC	59.298	47.826	0.00	0.00	46.48	4.40
436	1865	0.929244	ATGGCAGGCCTGATAAACCT	59.071	50.000	37.21	13.55	36.94	3.50
444	1873	2.645838	AACATACTATGGCAGGCCTG	57.354	50.000	29.34	29.34	36.94	4.85
479	1908	5.975344	CGAGGAAAGCAAACACGTATATCTA	59.025	40.000	0.00	0.00	0.00	1.98
481	1910	4.802039	TCGAGGAAAGCAAACACGTATATC	59.198	41.667	0.00	0.00	0.00	1.63
482	1911	4.751060	TCGAGGAAAGCAAACACGTATAT	58.249	39.130	0.00	0.00	0.00	0.86
483	1912	4.177165	TCGAGGAAAGCAAACACGTATA	57.823	40.909	0.00	0.00	0.00	1.47
484	1913	3.034721	TCGAGGAAAGCAAACACGTAT	57.965	42.857	0.00	0.00	0.00	3.06
485	1914	2.512485	TCGAGGAAAGCAAACACGTA	57.488	45.000	0.00	0.00	0.00	3.57
486	1915	1.798813	GATCGAGGAAAGCAAACACGT	59.201	47.619	0.00	0.00	0.00	4.49
487	1916	2.069273	AGATCGAGGAAAGCAAACACG	58.931	47.619	0.00	0.00	0.00	4.49
489	1918	2.303022	AGGAGATCGAGGAAAGCAAACA	59.697	45.455	0.00	0.00	0.00	2.83
490	1919	2.933260	GAGGAGATCGAGGAAAGCAAAC	59.067	50.000	0.00	0.00	0.00	2.93
491	1920	2.093447	GGAGGAGATCGAGGAAAGCAAA	60.093	50.000	0.00	0.00	0.00	3.68
492	1921	1.482593	GGAGGAGATCGAGGAAAGCAA	59.517	52.381	0.00	0.00	0.00	3.91
493	1922	1.115467	GGAGGAGATCGAGGAAAGCA	58.885	55.000	0.00	0.00	0.00	3.91
494	1923	0.031449	CGGAGGAGATCGAGGAAAGC	59.969	60.000	0.00	0.00	0.00	3.51
496	1925	0.395862	AGCGGAGGAGATCGAGGAAA	60.396	55.000	0.00	0.00	0.00	3.13
497	1926	1.103987	CAGCGGAGGAGATCGAGGAA	61.104	60.000	0.00	0.00	0.00	3.36
498	1927	1.527148	CAGCGGAGGAGATCGAGGA	60.527	63.158	0.00	0.00	0.00	3.71
499	1928	1.103987	TTCAGCGGAGGAGATCGAGG	61.104	60.000	0.00	0.00	0.00	4.63
532	1961	1.252904	TTCAATGGAAGCAGCAGCCC	61.253	55.000	0.00	0.00	43.56	5.19
674	2170	2.832201	GTACTCCCTCCGTCCGGG	60.832	72.222	0.00	0.00	43.38	5.73
677	2173	1.064537	AGAGAAGTACTCCCTCCGTCC	60.065	57.143	16.95	0.00	45.96	4.79
791	2563	0.740868	TGTGCATCGTGCTAGCTTCC	60.741	55.000	17.23	2.93	45.31	3.46
1043	2857	0.035439	AAGAATCCCGGCGACAACAT	60.035	50.000	9.30	0.00	0.00	2.71
1073	2887	2.821366	CCTCCGCCATGACAGCAC	60.821	66.667	0.00	0.00	0.00	4.40
1431	3248	5.739959	TCCATGAATTCTGTCGTATTTCCA	58.260	37.500	7.05	0.00	0.00	3.53
1963	3793	5.220381	TGTGTTCTCTTCGACAACATACTC	58.780	41.667	0.00	0.00	32.80	2.59
2007	3837	5.919272	ATGTATCAACTTGCATCGATCTG	57.081	39.130	0.00	0.00	0.00	2.90
2219	4081	3.007920	CTGGGAGGAGGCTGCACT	61.008	66.667	9.23	0.00	0.00	4.40
2240	4129	8.846211	GCATACTTTGGTGGTATTTATGTACAT	58.154	33.333	13.93	13.93	0.00	2.29
2241	4130	7.283580	GGCATACTTTGGTGGTATTTATGTACA	59.716	37.037	0.00	0.00	0.00	2.90
2242	4131	7.501225	AGGCATACTTTGGTGGTATTTATGTAC	59.499	37.037	0.00	0.00	0.00	2.90
2243	4132	7.579105	AGGCATACTTTGGTGGTATTTATGTA	58.421	34.615	0.00	0.00	0.00	2.29
2244	4133	6.431722	AGGCATACTTTGGTGGTATTTATGT	58.568	36.000	0.00	0.00	0.00	2.29
2245	4134	6.959639	AGGCATACTTTGGTGGTATTTATG	57.040	37.500	0.00	0.00	0.00	1.90
2248	4137	8.909923	GTTTATAGGCATACTTTGGTGGTATTT	58.090	33.333	0.00	0.00	0.00	1.40
2249	4138	7.504574	GGTTTATAGGCATACTTTGGTGGTATT	59.495	37.037	0.00	0.00	0.00	1.89
2250	4139	7.002276	GGTTTATAGGCATACTTTGGTGGTAT	58.998	38.462	0.00	0.00	0.00	2.73
2251	4140	6.358991	GGTTTATAGGCATACTTTGGTGGTA	58.641	40.000	0.00	0.00	0.00	3.25
2252	4141	5.198207	GGTTTATAGGCATACTTTGGTGGT	58.802	41.667	0.00	0.00	0.00	4.16
2253	4142	4.274950	CGGTTTATAGGCATACTTTGGTGG	59.725	45.833	0.00	0.00	0.00	4.61
2254	4143	4.274950	CCGGTTTATAGGCATACTTTGGTG	59.725	45.833	0.00	0.00	0.00	4.17
2255	4144	4.164604	TCCGGTTTATAGGCATACTTTGGT	59.835	41.667	0.00	0.00	0.00	3.67
2256	4145	4.710324	TCCGGTTTATAGGCATACTTTGG	58.290	43.478	0.00	0.00	0.00	3.28
2257	4146	6.238648	CCTTTCCGGTTTATAGGCATACTTTG	60.239	42.308	0.00	0.00	0.00	2.77
2258	4147	5.826208	CCTTTCCGGTTTATAGGCATACTTT	59.174	40.000	0.00	0.00	0.00	2.66
2259	4148	5.131475	TCCTTTCCGGTTTATAGGCATACTT	59.869	40.000	0.00	0.00	0.00	2.24
2260	4149	4.657039	TCCTTTCCGGTTTATAGGCATACT	59.343	41.667	0.00	0.00	0.00	2.12
2261	4150	4.964593	TCCTTTCCGGTTTATAGGCATAC	58.035	43.478	0.00	0.00	0.00	2.39
2262	4151	4.041198	CCTCCTTTCCGGTTTATAGGCATA	59.959	45.833	0.00	0.00	0.00	3.14
2263	4152	3.181443	CCTCCTTTCCGGTTTATAGGCAT	60.181	47.826	0.00	0.00	0.00	4.40
2264	4153	2.171870	CCTCCTTTCCGGTTTATAGGCA	59.828	50.000	0.00	0.00	0.00	4.75
2265	4154	2.486727	CCCTCCTTTCCGGTTTATAGGC	60.487	54.545	0.00	0.00	0.00	3.93
2266	4155	3.043418	TCCCTCCTTTCCGGTTTATAGG	58.957	50.000	0.00	4.62	0.00	2.57
2329	4218	3.323403	GCATTGACTCTAGGCATCCTACT	59.677	47.826	0.00	0.00	34.61	2.57
2375	4264	3.118905	GGCTGGAGATGCCTTTAGTAG	57.881	52.381	0.00	0.00	46.38	2.57
2405	4294	1.749258	GCTTTTAGACGCCCCCTGG	60.749	63.158	0.00	0.00	0.00	4.45
2406	4295	2.106683	CGCTTTTAGACGCCCCCTG	61.107	63.158	0.00	0.00	0.00	4.45
2407	4296	2.267961	CGCTTTTAGACGCCCCCT	59.732	61.111	0.00	0.00	0.00	4.79
2413	4302	2.813908	AGGCGGCGCTTTTAGACG	60.814	61.111	32.30	0.56	0.00	4.18
2414	4303	2.750888	CCAGGCGGCGCTTTTAGAC	61.751	63.158	32.30	13.09	0.00	2.59
2415	4304	2.435938	CCAGGCGGCGCTTTTAGA	60.436	61.111	32.30	0.00	0.00	2.10
2416	4305	3.508840	CCCAGGCGGCGCTTTTAG	61.509	66.667	32.30	14.75	0.00	1.85
2445	4334	2.202623	CCTAGCGCCGAGTGTGTC	60.203	66.667	2.29	0.00	0.00	3.67
2446	4335	3.760035	CCCTAGCGCCGAGTGTGT	61.760	66.667	2.29	0.00	0.00	3.72
2447	4336	4.514577	CCCCTAGCGCCGAGTGTG	62.515	72.222	2.29	0.00	0.00	3.82
2457	4346	3.810896	CGCAAAACCGCCCCTAGC	61.811	66.667	0.00	0.00	38.52	3.42
2465	4354	4.383602	CGACTGGGCGCAAAACCG	62.384	66.667	10.83	2.69	0.00	4.44
2466	4355	3.249973	GACGACTGGGCGCAAAACC	62.250	63.158	10.83	0.47	33.86	3.27
2467	4356	2.251371	GACGACTGGGCGCAAAAC	59.749	61.111	10.83	0.00	33.86	2.43
2468	4357	3.342627	CGACGACTGGGCGCAAAA	61.343	61.111	10.83	0.00	33.86	2.44

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.