AutoCloner

Multiple sequence alignment - TraesCS2D01G107100

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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	TraesCS2D01G107100	chr2D	100.000	3311	0	0	1	3311	59453876	59450566	0.000000e+00	6115.0
1	TraesCS2D01G107100	chr2D	88.321	548	59	3	1789	2335	59164674	59164131	0.000000e+00	652.0
2	TraesCS2D01G107100	chr2D	83.884	484	55	9	2130	2613	59326583	59326123	1.090000e-119	440.0
3	TraesCS2D01G107100	chr2D	79.806	515	54	19	35	538	59459404	59458929	2.460000e-86	329.0
4	TraesCS2D01G107100	chr2D	76.512	430	76	17	1451	1860	619372055	619371631	9.310000e-51	211.0
5	TraesCS2D01G107100	chr2D	75.878	427	80	18	1451	1858	619333700	619333278	2.610000e-46	196.0
6	TraesCS2D01G107100	chr2D	86.517	89	9	3	2646	2732	59256785	59256872	9.780000e-16	95.3
7	TraesCS2D01G107100	chr2B	89.227	2794	189	57	1	2732	92491938	92489195	0.000000e+00	3389.0
8	TraesCS2D01G107100	chr2B	85.766	548	72	4	1789	2335	92164258	92163716	2.870000e-160	575.0
9	TraesCS2D01G107100	chr2B	80.597	737	89	33	2310	3012	92358783	92358067	1.360000e-143	520.0
10	TraesCS2D01G107100	chr2B	85.714	308	21	7	3023	3311	92298182	92297879	1.490000e-78	303.0
11	TraesCS2D01G107100	chr2B	77.530	583	69	28	1	571	92494272	92493740	8.990000e-76	294.0
12	TraesCS2D01G107100	chr2B	90.110	182	9	5	3126	3301	92487786	92487608	9.240000e-56	228.0
13	TraesCS2D01G107100	chr2B	75.814	430	75	23	1451	1858	758808027	758808449	1.210000e-44	191.0
14	TraesCS2D01G107100	chr2B	85.119	168	17	8	2572	2736	92258165	92258003	7.350000e-37	165.0
15	TraesCS2D01G107100	chr2B	85.333	150	21	1	2952	3101	92257533	92257385	1.590000e-33	154.0
16	TraesCS2D01G107100	chr2A	92.392	1919	90	24	811	2713	58550850	58548972	0.000000e+00	2684.0
17	TraesCS2D01G107100	chr2A	83.464	768	78	15	1	744	58551587	58550845	0.000000e+00	669.0
18	TraesCS2D01G107100	chr2A	84.630	540	80	2	1797	2333	58538088	58537549	4.860000e-148	534.0
19	TraesCS2D01G107100	chr2A	82.390	477	51	12	2862	3311	58548787	58548317	5.180000e-103	385.0
20	TraesCS2D01G107100	chr2A	85.638	188	19	5	47	229	58559488	58559304	1.210000e-44	191.0
21	TraesCS2D01G107100	chr2A	74.884	430	79	22	1451	1858	750531079	750530657	5.680000e-38	169.0
22	TraesCS2D01G107100	chr2A	97.143	35	1	0	2837	2871	58537150	58537116	3.570000e-05	60.2
23	TraesCS2D01G107100	chr5D	75.123	406	77	19	1348	1736	339712426	339712824	5.680000e-38	169.0
24	TraesCS2D01G107100	chr5A	75.123	406	77	19	1348	1736	440947526	440947924	5.680000e-38	169.0
25	TraesCS2D01G107100	chr5B	74.321	405	82	17	1348	1736	398708807	398709205	5.720000e-33	152.0

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	TraesCS2D01G107100	chr2D	59450566	59453876	3310	True	6115.000000	6115	100.000000	1	3311	1	chr2D.!!$R3	3310
1	TraesCS2D01G107100	chr2D	59164131	59164674	543	True	652.000000	652	88.321000	1789	2335	1	chr2D.!!$R1	546
2	TraesCS2D01G107100	chr2B	92487608	92494272	6664	True	1303.666667	3389	85.622333	1	3301	3	chr2B.!!$R5	3300
3	TraesCS2D01G107100	chr2B	92163716	92164258	542	True	575.000000	575	85.766000	1789	2335	1	chr2B.!!$R1	546
4	TraesCS2D01G107100	chr2B	92358067	92358783	716	True	520.000000	520	80.597000	2310	3012	1	chr2B.!!$R3	702
5	TraesCS2D01G107100	chr2A	58548317	58551587	3270	True	1246.000000	2684	86.082000	1	3311	3	chr2A.!!$R4	3310
6	TraesCS2D01G107100	chr2A	58537116	58538088	972	True	297.100000	534	90.886500	1797	2871	2	chr2A.!!$R3	1074

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
390	2720	0.037326	ACATGCACCACTACCTCACG	60.037	55.0	0.0	0.0	0.0	4.35	F
525	2864	0.250234	CTCCTCGCCATTCACTCCAA	59.750	55.0	0.0	0.0	0.0	3.53	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1546	3920	2.122167	GGAGGCTCTCGTCCGTGAT	61.122	63.158	15.23	0.0	37.49	3.06	R
2401	4780	0.521735	AAACAAGAAATCTCCGCGCC	59.478	50.000	0.00	0.0	0.00	6.53	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
24	25	4.641645	CTTCGGTGCTGGCCCACA	62.642	66.667	13.34	2.58	37.46	4.17
27	28	3.443045	CGGTGCTGGCCCACATTC	61.443	66.667	13.34	2.40	37.46	2.67
30	31	2.046023	TGCTGGCCCACATTCTCG	60.046	61.111	0.00	0.00	0.00	4.04
32	33	2.046023	CTGGCCCACATTCTCGCA	60.046	61.111	0.00	0.00	0.00	5.10
83	90	7.064609	TCTCAAAGAGATCGCATCGTTAAAAAT	59.935	33.333	0.00	0.00	33.35	1.82
95	102	7.177407	GCATCGTTAAAAATTCGACTGTGATA	58.823	34.615	0.00	0.00	36.46	2.15
179	186	4.833390	CACGAACCTTCCTTCTCCTATTT	58.167	43.478	0.00	0.00	0.00	1.40
180	187	4.870991	CACGAACCTTCCTTCTCCTATTTC	59.129	45.833	0.00	0.00	0.00	2.17
184	2509	3.039011	CCTTCCTTCTCCTATTTCCCGA	58.961	50.000	0.00	0.00	0.00	5.14
185	2510	3.454812	CCTTCCTTCTCCTATTTCCCGAA	59.545	47.826	0.00	0.00	0.00	4.30
188	2513	4.557705	TCCTTCTCCTATTTCCCGAAGAT	58.442	43.478	0.00	0.00	34.50	2.40
190	2515	4.101741	CCTTCTCCTATTTCCCGAAGATGT	59.898	45.833	0.00	0.00	34.50	3.06
253	2578	4.838486	CAGCCTCCGACGTCGCTC	62.838	72.222	31.73	18.41	38.18	5.03
270	2595	4.742201	CCCCGACCTGTGTCAGCG	62.742	72.222	0.00	0.00	41.85	5.18
298	2623	4.078639	CCACCTTACTCATGGGAGAATC	57.921	50.000	0.00	0.00	44.26	2.52
326	2651	4.096081	TCAAAGAAACCGCGGAGTTAAAAA	59.904	37.500	35.90	8.58	0.00	1.94
350	2676	2.736719	CGACCGTGATCTGCAAAGATCT	60.737	50.000	14.87	0.00	43.66	2.75
382	2712	1.614903	CATCCACAAACATGCACCACT	59.385	47.619	0.00	0.00	0.00	4.00
390	2720	0.037326	ACATGCACCACTACCTCACG	60.037	55.000	0.00	0.00	0.00	4.35
392	2722	0.532573	ATGCACCACTACCTCACGAG	59.467	55.000	0.00	0.00	0.00	4.18
524	2863	0.904865	ACTCCTCGCCATTCACTCCA	60.905	55.000	0.00	0.00	0.00	3.86
525	2864	0.250234	CTCCTCGCCATTCACTCCAA	59.750	55.000	0.00	0.00	0.00	3.53
526	2865	0.690192	TCCTCGCCATTCACTCCAAA	59.310	50.000	0.00	0.00	0.00	3.28
527	2866	0.804989	CCTCGCCATTCACTCCAAAC	59.195	55.000	0.00	0.00	0.00	2.93
528	2867	1.522668	CTCGCCATTCACTCCAAACA	58.477	50.000	0.00	0.00	0.00	2.83
529	2868	1.466167	CTCGCCATTCACTCCAAACAG	59.534	52.381	0.00	0.00	0.00	3.16
549	2888	1.451207	AACAGCAACAGCACACGGA	60.451	52.632	0.00	0.00	0.00	4.69
551	2890	0.819259	ACAGCAACAGCACACGGAAT	60.819	50.000	0.00	0.00	0.00	3.01
739	3089	2.590391	TAACACCACAACACGCGGGT	62.590	55.000	9.01	9.01	0.00	5.28
833	3185	1.550524	CCAGATCGTCTTCAACCCAGA	59.449	52.381	0.00	0.00	0.00	3.86
842	3194	3.045634	TCTTCAACCCAGAAACCAGAGA	58.954	45.455	0.00	0.00	0.00	3.10
843	3195	2.930826	TCAACCCAGAAACCAGAGAC	57.069	50.000	0.00	0.00	0.00	3.36
854	3220	3.710209	AACCAGAGACAGAATCCCAAG	57.290	47.619	0.00	0.00	0.00	3.61
910	3284	3.244814	CGAGCGATCTCCAATCTCTTTTG	59.755	47.826	0.00	0.00	35.94	2.44
1182	3556	3.474806	GACGTGGCCATCAAGTCG	58.525	61.111	9.72	9.53	42.91	4.18
1332	3706	1.507141	CGCGCAAGAAGGTCCACTTT	61.507	55.000	8.75	0.00	40.21	2.66
1434	3808	4.717629	TTCCGCCAGCTCGTGTCG	62.718	66.667	0.00	0.00	0.00	4.35
1497	3871	1.453155	TCAAGCCGGAGAATTTGCTC	58.547	50.000	5.05	0.00	32.62	4.26
1674	4048	3.414700	GGCGTGGTGCTCTTCGTG	61.415	66.667	0.00	0.00	45.43	4.35
1816	4190	3.918328	ATCCTCGACCCCAACCCGT	62.918	63.158	0.00	0.00	0.00	5.28
1894	4271	4.803426	GTGACGGCGAGCTGGAGG	62.803	72.222	16.62	0.00	0.00	4.30
2338	4716	4.329545	GAGTGTGAGCCGGGCCAA	62.330	66.667	17.02	0.28	0.00	4.52
2353	4731	2.017049	GGCCAAGAATGTTATGTCGCT	58.983	47.619	0.00	0.00	0.00	4.93
2540	4934	2.202623	GCGGACCTGCTCTGTACG	60.203	66.667	1.77	1.77	42.94	3.67
2560	4957	2.438021	CGATATGGTGGGAGGGAAGAAA	59.562	50.000	0.00	0.00	0.00	2.52
2566	4963	2.621668	GGTGGGAGGGAAGAAATCTTGG	60.622	54.545	0.00	0.00	36.11	3.61
2609	5006	1.831389	CGTCAACAACTCACAGGGCG	61.831	60.000	0.00	0.00	0.00	6.13
2700	5118	1.892209	ACAATGAACCTGGACCGAAC	58.108	50.000	0.00	0.00	0.00	3.95
2715	5171	0.307760	CGAACACTTGCACAGAACCC	59.692	55.000	0.00	0.00	0.00	4.11
2716	5172	1.388547	GAACACTTGCACAGAACCCA	58.611	50.000	0.00	0.00	0.00	4.51
2717	5173	1.956477	GAACACTTGCACAGAACCCAT	59.044	47.619	0.00	0.00	0.00	4.00
2718	5174	1.609208	ACACTTGCACAGAACCCATC	58.391	50.000	0.00	0.00	0.00	3.51
2721	5177	1.145738	ACTTGCACAGAACCCATCCTT	59.854	47.619	0.00	0.00	0.00	3.36
2723	5179	0.251297	TGCACAGAACCCATCCTTGG	60.251	55.000	0.00	0.00	43.23	3.61
2725	5181	0.251297	CACAGAACCCATCCTTGGCA	60.251	55.000	0.00	0.00	42.15	4.92
2727	5183	0.890683	CAGAACCCATCCTTGGCAAC	59.109	55.000	0.00	0.00	42.15	4.17
2728	5184	0.609131	AGAACCCATCCTTGGCAACG	60.609	55.000	0.00	0.00	42.15	4.10
2729	5185	1.595093	GAACCCATCCTTGGCAACGG	61.595	60.000	0.00	2.42	42.15	4.44
2730	5186	3.451894	CCCATCCTTGGCAACGGC	61.452	66.667	0.00	0.00	42.15	5.68
2745	5234	4.208686	GGCCGTGGTAGGAGAGCG	62.209	72.222	0.00	0.00	0.00	5.03
2751	5240	0.955905	GTGGTAGGAGAGCGAGATCC	59.044	60.000	0.00	0.00	35.71	3.36
2792	5281	2.104928	CGGCAGCGTGATGAGCTA	59.895	61.111	0.00	0.00	44.06	3.32
2872	5406	2.459934	CGAACTGTTTTCCTGTTTGGC	58.540	47.619	0.00	0.00	35.60	4.52
2899	5434	0.032952	GTAAGCAGGACGTGTGGTGA	59.967	55.000	0.00	0.00	0.00	4.02
2900	5435	0.753867	TAAGCAGGACGTGTGGTGAA	59.246	50.000	0.00	0.00	0.00	3.18
2901	5436	0.814010	AAGCAGGACGTGTGGTGAAC	60.814	55.000	0.00	0.00	0.00	3.18
2905	5440	1.120530	AGGACGTGTGGTGAACTCTT	58.879	50.000	0.00	0.00	0.00	2.85
2948	5600	0.900647	ACTCTGGCGCAAGGAGTAGT	60.901	55.000	21.52	11.69	38.37	2.73
3005	5658	3.644884	AATTGTCGTCGTCAGAGAAGT	57.355	42.857	0.00	0.00	0.00	3.01
3006	5659	3.644884	ATTGTCGTCGTCAGAGAAGTT	57.355	42.857	0.00	0.00	0.00	2.66
3036	5693	0.947660	CGACGGCATGGATGGATGAG	60.948	60.000	0.00	0.00	0.00	2.90
3066	5723	1.165907	TGTCAACCCTGCGCAAGAAG	61.166	55.000	13.05	0.00	45.27	2.85
3095	5752	1.305201	GTTCGGTTCCTCAACTGCAA	58.695	50.000	0.00	0.00	38.62	4.08
3122	6618	0.886043	TGCTCAATCGTGCAAGCAGT	60.886	50.000	4.41	0.00	38.62	4.40
3179	6689	3.050275	GTGGCTGGTCGTTGGCTC	61.050	66.667	0.00	0.00	0.00	4.70
3206	6716	2.202570	AGTGCGCGTACCGATCAC	60.203	61.111	23.95	12.90	40.02	3.06
3243	6759	1.524863	CGGCTATAGGCTGCCTACGT	61.525	60.000	29.54	17.73	46.42	3.57
3258	6774	1.604278	CTACGTGATCTGATCTCGCCA	59.396	52.381	30.66	21.52	46.66	5.69

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
16	17	2.046023	CTGCGAGAATGTGGGCCA	60.046	61.111	0.00	0.00	0.00	5.36
18	19	0.169009	GAAACTGCGAGAATGTGGGC	59.831	55.000	0.00	0.00	0.00	5.36
83	90	7.996385	TGAGATCTTTGTATATCACAGTCGAA	58.004	34.615	0.00	0.00	38.72	3.71
114	121	0.810648	GAAGCCCGTGCATCAATCAA	59.189	50.000	0.00	0.00	41.13	2.57
135	142	3.181475	GCATCGATGGTCAGAGTTTAGGA	60.181	47.826	26.00	0.00	0.00	2.94
179	186	1.471501	CGCAGAATCACATCTTCGGGA	60.472	52.381	0.00	0.00	33.37	5.14
180	187	0.933097	CGCAGAATCACATCTTCGGG	59.067	55.000	0.00	0.00	33.37	5.14
184	2509	2.289631	TGACACCGCAGAATCACATCTT	60.290	45.455	0.00	0.00	0.00	2.40
185	2510	1.276138	TGACACCGCAGAATCACATCT	59.724	47.619	0.00	0.00	0.00	2.90
188	2513	0.602638	GGTGACACCGCAGAATCACA	60.603	55.000	9.33	0.00	42.66	3.58
190	2515	1.751563	TGGTGACACCGCAGAATCA	59.248	52.632	19.67	0.00	42.58	2.57
270	2595	2.301346	CATGAGTAAGGTGGGAATGGC	58.699	52.381	0.00	0.00	0.00	4.40
295	2620	3.119849	CCGCGGTTTCTTTGAGATTGATT	60.120	43.478	19.50	0.00	0.00	2.57
296	2621	2.420022	CCGCGGTTTCTTTGAGATTGAT	59.580	45.455	19.50	0.00	0.00	2.57
297	2622	1.804151	CCGCGGTTTCTTTGAGATTGA	59.196	47.619	19.50	0.00	0.00	2.57
298	2623	1.804151	TCCGCGGTTTCTTTGAGATTG	59.196	47.619	27.15	0.00	0.00	2.67
326	2651	0.317160	TTTGCAGATCACGGTCGAGT	59.683	50.000	0.00	0.00	0.00	4.18
350	2676	7.760794	GCATGTTTGTGGATGAATGAGAATTTA	59.239	33.333	0.00	0.00	0.00	1.40
390	2720	4.761739	TGGGTTTGATGAATGTTCTCACTC	59.238	41.667	0.00	0.00	0.00	3.51
392	2722	5.452078	TTGGGTTTGATGAATGTTCTCAC	57.548	39.130	0.00	0.00	0.00	3.51
524	2863	0.531657	TGCTGTTGCTGTTGCTGTTT	59.468	45.000	0.00	0.00	40.48	2.83
525	2864	0.179129	GTGCTGTTGCTGTTGCTGTT	60.179	50.000	0.00	0.00	40.48	3.16
526	2865	1.314534	TGTGCTGTTGCTGTTGCTGT	61.315	50.000	0.00	0.00	40.48	4.40
527	2866	0.868602	GTGTGCTGTTGCTGTTGCTG	60.869	55.000	0.00	0.00	40.48	4.41
528	2867	1.434696	GTGTGCTGTTGCTGTTGCT	59.565	52.632	0.00	0.00	40.48	3.91
529	2868	1.940758	CGTGTGCTGTTGCTGTTGC	60.941	57.895	0.00	0.00	40.48	4.17
549	2888	1.010419	GTACGGTGCAACGACGGATT	61.010	55.000	34.07	9.93	38.12	3.01
551	2890	2.050168	GTACGGTGCAACGACGGA	60.050	61.111	34.07	10.07	38.12	4.69
739	3089	2.363975	GCCAGTATGACCGGTGGGA	61.364	63.158	14.63	0.00	39.69	4.37
765	3115	2.682136	TGCGGGGGAGATTCGTGA	60.682	61.111	0.00	0.00	0.00	4.35
767	3117	4.162690	GCTGCGGGGGAGATTCGT	62.163	66.667	0.00	0.00	0.00	3.85
833	3185	3.812167	GCTTGGGATTCTGTCTCTGGTTT	60.812	47.826	0.00	0.00	0.00	3.27
842	3194	1.915078	CTCGGGGCTTGGGATTCTGT	61.915	60.000	0.00	0.00	0.00	3.41
843	3195	1.153086	CTCGGGGCTTGGGATTCTG	60.153	63.158	0.00	0.00	0.00	3.02
854	3220	2.776913	CGGAGAGTTCTCTCGGGGC	61.777	68.421	21.63	10.09	44.65	5.80
876	3242	4.421479	CGCTCGCTCCCGTGTTCT	62.421	66.667	0.00	0.00	35.54	3.01
922	3296	3.370209	GGGTAGTAATTTTCTCCGGCTGT	60.370	47.826	0.00	0.00	0.00	4.40
930	3304	5.557866	GTGACTGTGGGGTAGTAATTTTCT	58.442	41.667	0.00	0.00	0.00	2.52
1044	3418	2.995574	AGGGGTTGGGACTCGTCG	60.996	66.667	0.00	0.00	0.00	5.12
1083	3457	3.155167	CCCAGCTCGTACCTCCCC	61.155	72.222	0.00	0.00	0.00	4.81
1311	3685	2.664851	TGGACCTTCTTGCGCGTG	60.665	61.111	8.43	0.00	0.00	5.34
1434	3808	3.384532	TGGAAGTACCGGACGGCC	61.385	66.667	9.46	0.00	42.61	6.13
1546	3920	2.122167	GGAGGCTCTCGTCCGTGAT	61.122	63.158	15.23	0.00	37.49	3.06
2335	4713	3.928211	CGAAGCGACATAACATTCTTGG	58.072	45.455	0.00	0.00	0.00	3.61
2401	4780	0.521735	AAACAAGAAATCTCCGCGCC	59.478	50.000	0.00	0.00	0.00	6.53
2492	4884	1.523711	AGTCACCACCACACTTGCG	60.524	57.895	0.00	0.00	0.00	4.85
2540	4934	4.352298	AGATTTCTTCCCTCCCACCATATC	59.648	45.833	0.00	0.00	0.00	1.63
2560	4957	0.036732	TTGCCTCGAGTTGCCAAGAT	59.963	50.000	12.31	0.00	0.00	2.40
2566	4963	0.179215	CGATTGTTGCCTCGAGTTGC	60.179	55.000	12.31	9.23	37.05	4.17
2626	5023	3.379865	GAGGTTCATGCCGCCGGTA	62.380	63.158	4.45	0.00	0.00	4.02
2700	5118	0.883833	GGATGGGTTCTGTGCAAGTG	59.116	55.000	0.00	0.00	0.00	3.16
2723	5179	4.382320	TCCTACCACGGCCGTTGC	62.382	66.667	32.11	0.00	0.00	4.17
2725	5181	2.283388	TCTCCTACCACGGCCGTT	60.283	61.111	32.11	19.07	0.00	4.44
2727	5183	4.208686	GCTCTCCTACCACGGCCG	62.209	72.222	26.86	26.86	0.00	6.13
2728	5184	4.208686	CGCTCTCCTACCACGGCC	62.209	72.222	0.00	0.00	0.00	6.13
2729	5185	3.127352	CTCGCTCTCCTACCACGGC	62.127	68.421	0.00	0.00	0.00	5.68
2730	5186	0.820074	ATCTCGCTCTCCTACCACGG	60.820	60.000	0.00	0.00	0.00	4.94
2731	5187	0.589223	GATCTCGCTCTCCTACCACG	59.411	60.000	0.00	0.00	0.00	4.94
2732	5188	0.955905	GGATCTCGCTCTCCTACCAC	59.044	60.000	0.00	0.00	0.00	4.16
2734	5190	0.955905	GTGGATCTCGCTCTCCTACC	59.044	60.000	0.00	0.00	32.47	3.18
2735	5191	1.606668	CTGTGGATCTCGCTCTCCTAC	59.393	57.143	0.00	0.00	32.47	3.18
2736	5192	1.477740	CCTGTGGATCTCGCTCTCCTA	60.478	57.143	0.00	0.00	32.47	2.94
2745	5234	2.914289	CAGCCCCCTGTGGATCTC	59.086	66.667	0.00	0.00	35.39	2.75
2823	5356	5.530915	TGAAACATCAAAATCTCGACAACCT	59.469	36.000	0.00	0.00	0.00	3.50
2825	5358	5.340667	GCTGAAACATCAAAATCTCGACAAC	59.659	40.000	0.00	0.00	0.00	3.32
2826	5359	5.451908	GCTGAAACATCAAAATCTCGACAA	58.548	37.500	0.00	0.00	0.00	3.18
2827	5360	4.377328	CGCTGAAACATCAAAATCTCGACA	60.377	41.667	0.00	0.00	0.00	4.35
2899	5434	1.300697	GTCGCCGACCACAAGAGTT	60.301	57.895	5.81	0.00	0.00	3.01
2900	5435	2.338984	GTCGCCGACCACAAGAGT	59.661	61.111	5.81	0.00	0.00	3.24
2948	5600	5.122239	CGCAAGAACTTTCTTCCATCATACA	59.878	40.000	1.04	0.00	45.23	2.29
2979	5632	4.026062	TCTCTGACGACGACAATTTTGTTG	60.026	41.667	0.00	8.77	45.90	3.33
3036	5693	3.004419	GCAGGGTTGACAAGGTAAAAGAC	59.996	47.826	0.00	0.00	0.00	3.01
3066	5723	0.389556	GGAACCGAACGTCCTTCCTC	60.390	60.000	0.00	0.00	31.11	3.71
3072	5729	0.033090	AGTTGAGGAACCGAACGTCC	59.967	55.000	0.00	0.00	31.81	4.79
3095	5752	2.507102	CGATTGAGCAGTCGCGGT	60.507	61.111	6.13	0.00	45.49	5.68
3122	6618	4.821805	AGAAGAACGGAAAATGCTCTGAAA	59.178	37.500	0.00	0.00	0.00	2.69
3179	6689	0.248336	TACGCGCACTGATTACTCCG	60.248	55.000	5.73	0.00	0.00	4.63
3221	6731	2.659610	GGCAGCCTATAGCCGAGG	59.340	66.667	3.29	0.00	45.47	4.63
3243	6759	0.687427	TGGGTGGCGAGATCAGATCA	60.687	55.000	13.14	0.00	0.00	2.92
3258	6774	3.691118	CAGTTCATTCATGATTCGTGGGT	59.309	43.478	6.05	0.00	36.56	4.51

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.