AutoCloner

Multiple sequence alignment - TraesCS5B01G125000

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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	TraesCS5B01G125000	chr5B	100.000	2627	0	0	1	2627	227119980	227122606	0.000000e+00	4852.0
1	TraesCS5B01G125000	chr5B	86.969	1082	88	25	722	1790	226759033	226760074	0.000000e+00	1168.0
2	TraesCS5B01G125000	chr5B	85.375	506	50	14	2	503	621804495	621804980	1.090000e-138	503.0
3	TraesCS5B01G125000	chr5B	72.989	522	109	29	1032	1540	664998728	664998226	1.260000e-33	154.0
4	TraesCS5B01G125000	chr5A	93.651	1323	44	20	504	1790	276981357	276980039	0.000000e+00	1941.0
5	TraesCS5B01G125000	chr5A	95.539	807	14	9	1839	2627	276980042	276979240	0.000000e+00	1271.0
6	TraesCS5B01G125000	chr5A	89.693	815	54	11	722	1535	276111537	276112322	0.000000e+00	1013.0
7	TraesCS5B01G125000	chr5A	86.182	275	23	5	1527	1790	276113897	276114167	1.540000e-72	283.0
8	TraesCS5B01G125000	chr5A	88.636	220	18	3	1848	2066	276123629	276123842	7.210000e-66	261.0
9	TraesCS5B01G125000	chr5A	73.194	526	115	23	1032	1547	656210706	656210197	1.620000e-37	167.0
10	TraesCS5B01G125000	chr5D	97.568	1069	14	3	730	1790	213128941	213130005	0.000000e+00	1820.0
11	TraesCS5B01G125000	chr5D	95.911	807	15	6	1839	2627	213130002	213130808	0.000000e+00	1291.0
12	TraesCS5B01G125000	chr5D	89.173	1016	66	19	786	1790	212627070	212628052	0.000000e+00	1227.0
13	TraesCS5B01G125000	chr5D	88.560	507	39	10	2	503	500394558	500395050	4.840000e-167	597.0
14	TraesCS5B01G125000	chr5D	86.818	220	23	2	1848	2066	219540290	219540504	9.400000e-60	241.0
15	TraesCS5B01G125000	chr5D	85.635	181	14	8	504	672	213128379	213128559	2.080000e-41	180.0
16	TraesCS5B01G125000	chr5D	73.745	518	110	23	1032	1539	528230612	528230111	2.080000e-41	180.0
17	TraesCS5B01G125000	chr5D	83.051	118	8	9	622	728	500432997	500432881	2.150000e-16	97.1
18	TraesCS5B01G125000	chr4B	91.519	507	32	7	2	503	373023044	373022544	0.000000e+00	688.0
19	TraesCS5B01G125000	chr4B	88.824	510	40	14	4	503	366422326	366421824	6.220000e-171	610.0
20	TraesCS5B01G125000	chr4B	88.605	509	45	10	1	503	115114027	115113526	8.040000e-170	606.0
21	TraesCS5B01G125000	chr4B	84.129	649	80	13	998	1627	132331565	132332209	8.040000e-170	606.0
22	TraesCS5B01G125000	chr4B	87.984	516	41	11	1	503	115105719	115105212	8.100000e-165	590.0
23	TraesCS5B01G125000	chr4B	86.522	460	49	11	4	456	366406313	366405860	6.530000e-136	494.0
24	TraesCS5B01G125000	chr4A	84.900	649	75	12	998	1627	487868994	487868350	3.690000e-178	634.0
25	TraesCS5B01G125000	chr4D	84.284	649	79	13	998	1627	93841194	93841838	1.730000e-171	612.0
26	TraesCS5B01G125000	chr3B	88.431	510	45	11	1	503	590783075	590783577	1.040000e-168	603.0
27	TraesCS5B01G125000	chr3B	88.189	508	40	11	1	503	591314875	591315367	2.910000e-164	588.0
28	TraesCS5B01G125000	chr3B	87.819	509	40	11	1	503	591266814	591267306	6.300000e-161	577.0
29	TraesCS5B01G125000	chr2B	88.957	489	43	7	19	503	454491626	454492107	6.260000e-166	593.0
30	TraesCS5B01G125000	chr6D	84.034	119	7	9	622	731	56018459	56018344	1.290000e-18	104.0
31	TraesCS5B01G125000	chr7A	83.898	118	4	12	622	727	11576234	11576120	5.980000e-17	99.0
32	TraesCS5B01G125000	chr7D	81.679	131	10	11	622	739	137021192	137021063	2.150000e-16	97.1
33	TraesCS5B01G125000	chr7D	80.597	134	14	9	622	746	449525688	449525818	2.780000e-15	93.5
34	TraesCS5B01G125000	chr3D	83.621	116	6	8	622	726	511566399	511566512	2.150000e-16	97.1
35	TraesCS5B01G125000	chr2D	83.478	115	8	8	622	727	637860701	637860589	2.150000e-16	97.1
36	TraesCS5B01G125000	chr2A	82.114	123	11	10	624	741	53931209	53931093	7.740000e-16	95.3

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	TraesCS5B01G125000	chr5B	227119980	227122606	2626	False	4852	4852	100.0000	1	2627	1	chr5B.!!$F2	2626
1	TraesCS5B01G125000	chr5B	226759033	226760074	1041	False	1168	1168	86.9690	722	1790	1	chr5B.!!$F1	1068
2	TraesCS5B01G125000	chr5A	276979240	276981357	2117	True	1606	1941	94.5950	504	2627	2	chr5A.!!$R2	2123
3	TraesCS5B01G125000	chr5A	276111537	276114167	2630	False	648	1013	87.9375	722	1790	2	chr5A.!!$F2	1068
4	TraesCS5B01G125000	chr5D	212627070	212628052	982	False	1227	1227	89.1730	786	1790	1	chr5D.!!$F1	1004
5	TraesCS5B01G125000	chr5D	213128379	213130808	2429	False	1097	1820	93.0380	504	2627	3	chr5D.!!$F4	2123
6	TraesCS5B01G125000	chr4B	373022544	373023044	500	True	688	688	91.5190	2	503	1	chr4B.!!$R5	501
7	TraesCS5B01G125000	chr4B	366421824	366422326	502	True	610	610	88.8240	4	503	1	chr4B.!!$R4	499
8	TraesCS5B01G125000	chr4B	115113526	115114027	501	True	606	606	88.6050	1	503	1	chr4B.!!$R2	502
9	TraesCS5B01G125000	chr4B	132331565	132332209	644	False	606	606	84.1290	998	1627	1	chr4B.!!$F1	629
10	TraesCS5B01G125000	chr4B	115105212	115105719	507	True	590	590	87.9840	1	503	1	chr4B.!!$R1	502
11	TraesCS5B01G125000	chr4A	487868350	487868994	644	True	634	634	84.9000	998	1627	1	chr4A.!!$R1	629
12	TraesCS5B01G125000	chr4D	93841194	93841838	644	False	612	612	84.2840	998	1627	1	chr4D.!!$F1	629
13	TraesCS5B01G125000	chr3B	590783075	590783577	502	False	603	603	88.4310	1	503	1	chr3B.!!$F1	502

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
592	622	0.036732	TTTGCCCAGCTTCGATGAGT	59.963	50.0	1.89	0.0	0.0	3.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1950	3952	1.341156	ACCATGGGAGAGCTGCCTAC	61.341	60.0	18.09	0.0	42.12	3.18	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
115	116	5.935945	TGACCTAGTGAACATTTTTCTGGA	58.064	37.500	0.00	0.00	0.00	3.86
168	169	7.807687	ATTAGTACTTATTACGCCGCAATAG	57.192	36.000	0.00	0.00	35.61	1.73
382	410	6.238648	GGAAACCTCCAACTCTCTCAATTTA	58.761	40.000	0.00	0.00	41.96	1.40
398	426	6.428159	TCTCAATTTAGTCCTTGAGTTGCTTC	59.572	38.462	10.96	0.00	45.49	3.86
403	432	2.147150	GTCCTTGAGTTGCTTCAGGTC	58.853	52.381	0.00	0.00	0.00	3.85
407	436	3.495806	CCTTGAGTTGCTTCAGGTCTCTT	60.496	47.826	0.00	0.00	0.00	2.85
516	545	0.638292	ATTGGGCATCCATCAACCCT	59.362	50.000	0.00	0.00	43.63	4.34
517	546	1.303898	TTGGGCATCCATCAACCCTA	58.696	50.000	0.00	0.00	43.63	3.53
518	547	1.533187	TGGGCATCCATCAACCCTAT	58.467	50.000	0.00	0.00	43.25	2.57
528	558	3.371487	CCATCAACCCTATGTGCCAACTA	60.371	47.826	0.00	0.00	0.00	2.24
592	622	0.036732	TTTGCCCAGCTTCGATGAGT	59.963	50.000	1.89	0.00	0.00	3.41
606	636	1.071385	GATGAGTGAGGGGCGATGATT	59.929	52.381	0.00	0.00	0.00	2.57
697	746	9.559732	TTTGGTATTCATCATACTAGTTGATGG	57.440	33.333	28.41	18.65	46.75	3.51
712	761	9.440761	ACTAGTTGATGGATAGATAGGAAGTTT	57.559	33.333	0.00	0.00	0.00	2.66
713	762	9.921637	CTAGTTGATGGATAGATAGGAAGTTTC	57.078	37.037	0.00	0.00	0.00	2.78
972	1351	0.586319	ACAACCAAATCACACGCGAG	59.414	50.000	15.93	7.88	0.00	5.03
1795	3794	4.210724	TGGTTTACCATTTACTCCTCCG	57.789	45.455	0.00	0.00	42.01	4.63
1796	3795	3.583966	TGGTTTACCATTTACTCCTCCGT	59.416	43.478	0.00	0.00	42.01	4.69
1797	3796	4.041938	TGGTTTACCATTTACTCCTCCGTT	59.958	41.667	0.00	0.00	42.01	4.44
1798	3797	4.633126	GGTTTACCATTTACTCCTCCGTTC	59.367	45.833	0.00	0.00	35.64	3.95
1799	3798	5.240121	GTTTACCATTTACTCCTCCGTTCA	58.760	41.667	0.00	0.00	0.00	3.18
1800	3799	5.486735	TTACCATTTACTCCTCCGTTCAA	57.513	39.130	0.00	0.00	0.00	2.69
1801	3800	4.360951	ACCATTTACTCCTCCGTTCAAA	57.639	40.909	0.00	0.00	0.00	2.69
1802	3801	4.721132	ACCATTTACTCCTCCGTTCAAAA	58.279	39.130	0.00	0.00	0.00	2.44
1803	3802	5.134661	ACCATTTACTCCTCCGTTCAAAAA	58.865	37.500	0.00	0.00	0.00	1.94
1804	3803	5.773176	ACCATTTACTCCTCCGTTCAAAAAT	59.227	36.000	0.00	0.00	0.00	1.82
1805	3804	6.266786	ACCATTTACTCCTCCGTTCAAAAATT	59.733	34.615	0.00	0.00	0.00	1.82
1806	3805	6.806739	CCATTTACTCCTCCGTTCAAAAATTC	59.193	38.462	0.00	0.00	0.00	2.17
1807	3806	7.309194	CCATTTACTCCTCCGTTCAAAAATTCT	60.309	37.037	0.00	0.00	0.00	2.40
1808	3807	7.576861	TTTACTCCTCCGTTCAAAAATTCTT	57.423	32.000	0.00	0.00	0.00	2.52
1809	3808	5.438761	ACTCCTCCGTTCAAAAATTCTTG	57.561	39.130	0.00	0.00	0.00	3.02
1810	3809	4.887655	ACTCCTCCGTTCAAAAATTCTTGT	59.112	37.500	0.00	0.00	0.00	3.16
1811	3810	5.181690	TCCTCCGTTCAAAAATTCTTGTG	57.818	39.130	0.00	0.00	0.00	3.33
1812	3811	4.642885	TCCTCCGTTCAAAAATTCTTGTGT	59.357	37.500	0.00	0.00	0.00	3.72
1813	3812	5.126384	TCCTCCGTTCAAAAATTCTTGTGTT	59.874	36.000	0.00	0.00	0.00	3.32
1814	3813	6.319152	TCCTCCGTTCAAAAATTCTTGTGTTA	59.681	34.615	0.00	0.00	0.00	2.41
1815	3814	6.416750	CCTCCGTTCAAAAATTCTTGTGTTAC	59.583	38.462	0.00	0.00	0.00	2.50
1816	3815	6.853720	TCCGTTCAAAAATTCTTGTGTTACA	58.146	32.000	0.00	0.00	0.00	2.41
1817	3816	7.484975	TCCGTTCAAAAATTCTTGTGTTACAT	58.515	30.769	0.00	0.00	0.00	2.29
1818	3817	7.976734	TCCGTTCAAAAATTCTTGTGTTACATT	59.023	29.630	0.00	0.00	0.00	2.71
1819	3818	8.599774	CCGTTCAAAAATTCTTGTGTTACATTT	58.400	29.630	0.00	0.00	0.00	2.32
1820	3819	9.407514	CGTTCAAAAATTCTTGTGTTACATTTG	57.592	29.630	0.00	0.00	0.00	2.32
1823	3822	9.429359	TCAAAAATTCTTGTGTTACATTTGTGT	57.571	25.926	0.00	0.00	0.00	3.72
1830	3829	8.234887	TCTTGTGTTACATTTGTGTAGATACG	57.765	34.615	0.00	0.00	0.00	3.06
1831	3830	6.954616	TGTGTTACATTTGTGTAGATACGG	57.045	37.500	0.00	0.00	0.00	4.02
1832	3831	6.689554	TGTGTTACATTTGTGTAGATACGGA	58.310	36.000	0.00	0.00	0.00	4.69
1833	3832	7.324935	TGTGTTACATTTGTGTAGATACGGAT	58.675	34.615	0.00	0.00	0.00	4.18
1834	3833	7.276878	TGTGTTACATTTGTGTAGATACGGATG	59.723	37.037	0.00	0.00	0.00	3.51
1835	3834	6.759356	TGTTACATTTGTGTAGATACGGATGG	59.241	38.462	0.00	0.00	0.00	3.51
1836	3835	5.607939	ACATTTGTGTAGATACGGATGGA	57.392	39.130	0.00	0.00	0.00	3.41
1837	3836	5.601662	ACATTTGTGTAGATACGGATGGAG	58.398	41.667	0.00	0.00	0.00	3.86
1838	3837	5.128827	ACATTTGTGTAGATACGGATGGAGT	59.871	40.000	0.00	0.00	0.00	3.85
1839	3838	6.322969	ACATTTGTGTAGATACGGATGGAGTA	59.677	38.462	0.00	0.00	0.00	2.59
1840	3839	5.762825	TTGTGTAGATACGGATGGAGTAC	57.237	43.478	0.00	0.00	0.00	2.73
1841	3840	5.045012	TGTGTAGATACGGATGGAGTACT	57.955	43.478	0.00	0.00	0.00	2.73
1842	3841	5.443283	TGTGTAGATACGGATGGAGTACTT	58.557	41.667	0.00	0.00	0.00	2.24
1843	3842	5.889853	TGTGTAGATACGGATGGAGTACTTT	59.110	40.000	0.00	0.00	0.00	2.66
1874	3873	0.179094	CATGGGGCAATGCACATGAC	60.179	55.000	26.90	5.54	43.19	3.06
1950	3952	1.877637	TGGTGTCAACAACCAGATCG	58.122	50.000	0.00	0.00	31.06	3.69
1973	3975	1.908340	GCAGCTCTCCCATGGTCTGT	61.908	60.000	11.73	0.00	0.00	3.41
2020	4022	3.222603	ACAAATGGGGACTCTGTGTTTC	58.777	45.455	0.00	0.00	0.00	2.78
2204	4206	5.172687	TGTGGAAGCATATGTTCTTGGTA	57.827	39.130	4.29	0.00	0.00	3.25
2247	4265	5.577945	ACTTTGACTTTGCAATCAGTGTTTG	59.422	36.000	8.50	9.21	0.00	2.93
2252	4270	2.780065	TGCAATCAGTGTTTGACAGC	57.220	45.000	16.44	3.18	38.99	4.40
2335	4353	5.751680	CGACTTTCTGAAAAGATTGCAGAA	58.248	37.500	9.03	9.03	43.90	3.02
2336	4354	6.376978	CGACTTTCTGAAAAGATTGCAGAAT	58.623	36.000	12.97	1.43	45.06	2.40
2439	4459	4.292186	TGCTGAGATAGTGGCTTCTTTT	57.708	40.909	0.00	0.00	0.00	2.27
2581	4601	6.058183	GGTATATGTGCCTTCAGAAAGATGT	58.942	40.000	0.00	0.00	34.14	3.06

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
75	76	8.950210	CACTAGGTCATTAATAAGGCCATATTG	58.050	37.037	20.86	7.52	0.00	1.90
153	154	7.892778	TCATTTATTCTATTGCGGCGTAATA	57.107	32.000	25.02	25.02	0.00	0.98
159	160	5.173854	GCAAGTTCATTTATTCTATTGCGGC	59.826	40.000	0.00	0.00	33.35	6.53
229	250	9.599866	AGATAAAAGGACTTTTTCAAAAACAGG	57.400	29.630	14.46	0.00	42.22	4.00
382	410	1.771255	ACCTGAAGCAACTCAAGGACT	59.229	47.619	0.00	0.00	0.00	3.85
482	511	5.373981	TGCCCAATTTTCAATTTGAATGC	57.626	34.783	12.39	9.10	36.11	3.56
486	515	5.238624	TGGATGCCCAATTTTCAATTTGA	57.761	34.783	0.00	0.00	40.09	2.69
516	545	6.486657	GGATTAGAAAGCATAGTTGGCACATA	59.513	38.462	0.00	0.00	39.30	2.29
517	546	5.300286	GGATTAGAAAGCATAGTTGGCACAT	59.700	40.000	0.00	0.00	39.30	3.21
518	547	4.640201	GGATTAGAAAGCATAGTTGGCACA	59.360	41.667	0.00	0.00	0.00	4.57
528	558	3.967987	AGGTAGGACGGATTAGAAAGCAT	59.032	43.478	0.00	0.00	0.00	3.79
592	622	2.203056	CGCAATCATCGCCCCTCA	60.203	61.111	0.00	0.00	0.00	3.86
618	659	2.520979	CTAGCACGACTACAAGCAGTC	58.479	52.381	0.00	0.00	41.33	3.51
696	745	7.513371	TTCTCGAGAAACTTCCTATCTATCC	57.487	40.000	25.19	0.00	0.00	2.59
697	746	9.804758	TTTTTCTCGAGAAACTTCCTATCTATC	57.195	33.333	34.29	0.00	43.01	2.08
1790	3789	4.932146	ACACAAGAATTTTTGAACGGAGG	58.068	39.130	15.10	0.00	0.00	4.30
1792	3791	6.853720	TGTAACACAAGAATTTTTGAACGGA	58.146	32.000	15.10	0.00	0.00	4.69
1793	3792	7.692908	ATGTAACACAAGAATTTTTGAACGG	57.307	32.000	15.10	4.79	0.00	4.44
1794	3793	9.407514	CAAATGTAACACAAGAATTTTTGAACG	57.592	29.630	15.10	6.00	27.78	3.95
1797	3796	9.429359	ACACAAATGTAACACAAGAATTTTTGA	57.571	25.926	15.10	0.00	37.26	2.69
1804	3803	8.705134	CGTATCTACACAAATGTAACACAAGAA	58.295	33.333	0.00	0.00	40.84	2.52
1805	3804	7.329962	CCGTATCTACACAAATGTAACACAAGA	59.670	37.037	0.00	0.00	40.84	3.02
1806	3805	7.329962	TCCGTATCTACACAAATGTAACACAAG	59.670	37.037	0.00	0.00	40.84	3.16
1807	3806	7.153315	TCCGTATCTACACAAATGTAACACAA	58.847	34.615	0.00	0.00	40.84	3.33
1808	3807	6.689554	TCCGTATCTACACAAATGTAACACA	58.310	36.000	0.00	0.00	40.84	3.72
1809	3808	7.254319	CCATCCGTATCTACACAAATGTAACAC	60.254	40.741	0.00	0.00	40.84	3.32
1810	3809	6.759356	CCATCCGTATCTACACAAATGTAACA	59.241	38.462	0.00	0.00	40.84	2.41
1811	3810	6.982141	TCCATCCGTATCTACACAAATGTAAC	59.018	38.462	0.00	0.00	40.84	2.50
1812	3811	7.114866	TCCATCCGTATCTACACAAATGTAA	57.885	36.000	0.00	0.00	40.84	2.41
1813	3812	6.322969	ACTCCATCCGTATCTACACAAATGTA	59.677	38.462	0.00	0.00	40.48	2.29
1814	3813	5.128827	ACTCCATCCGTATCTACACAAATGT	59.871	40.000	0.00	0.00	43.30	2.71
1815	3814	5.601662	ACTCCATCCGTATCTACACAAATG	58.398	41.667	0.00	0.00	0.00	2.32
1816	3815	5.871396	ACTCCATCCGTATCTACACAAAT	57.129	39.130	0.00	0.00	0.00	2.32
1817	3816	5.889853	AGTACTCCATCCGTATCTACACAAA	59.110	40.000	0.00	0.00	0.00	2.83
1818	3817	5.443283	AGTACTCCATCCGTATCTACACAA	58.557	41.667	0.00	0.00	0.00	3.33
1819	3818	5.045012	AGTACTCCATCCGTATCTACACA	57.955	43.478	0.00	0.00	0.00	3.72
1820	3819	6.388435	AAAGTACTCCATCCGTATCTACAC	57.612	41.667	0.00	0.00	0.00	2.90
1821	3820	5.533903	GGAAAGTACTCCATCCGTATCTACA	59.466	44.000	0.00	0.00	35.36	2.74
1822	3821	5.533903	TGGAAAGTACTCCATCCGTATCTAC	59.466	44.000	14.25	0.00	40.71	2.59
1823	3822	5.698104	TGGAAAGTACTCCATCCGTATCTA	58.302	41.667	14.25	0.00	40.71	1.98
1824	3823	4.543689	TGGAAAGTACTCCATCCGTATCT	58.456	43.478	14.25	0.00	40.71	1.98
1825	3824	4.931661	TGGAAAGTACTCCATCCGTATC	57.068	45.455	14.25	0.00	40.71	2.24
1834	3833	7.175641	CCCATGATTATCAATGGAAAGTACTCC	59.824	40.741	18.53	0.00	36.31	3.85
1835	3834	7.175641	CCCCATGATTATCAATGGAAAGTACTC	59.824	40.741	18.53	0.00	36.31	2.59
1836	3835	7.006509	CCCCATGATTATCAATGGAAAGTACT	58.993	38.462	18.53	0.00	36.31	2.73
1837	3836	6.294731	GCCCCATGATTATCAATGGAAAGTAC	60.295	42.308	18.53	0.00	36.31	2.73
1838	3837	5.774690	GCCCCATGATTATCAATGGAAAGTA	59.225	40.000	18.53	0.00	36.31	2.24
1839	3838	4.590222	GCCCCATGATTATCAATGGAAAGT	59.410	41.667	18.53	0.00	36.31	2.66
1840	3839	4.589798	TGCCCCATGATTATCAATGGAAAG	59.410	41.667	18.53	11.32	36.31	2.62
1841	3840	4.554683	TGCCCCATGATTATCAATGGAAA	58.445	39.130	18.53	5.21	36.31	3.13
1842	3841	4.196118	TGCCCCATGATTATCAATGGAA	57.804	40.909	18.53	5.34	36.31	3.53
1843	3842	3.899612	TGCCCCATGATTATCAATGGA	57.100	42.857	18.53	1.24	36.31	3.41
1874	3873	9.909644	ACAGTACTACTACAGTTATGAAACAAG	57.090	33.333	0.00	0.00	38.80	3.16
1950	3952	1.341156	ACCATGGGAGAGCTGCCTAC	61.341	60.000	18.09	0.00	42.12	3.18
1973	3975	2.038426	TCTCCGAAGCTTCACCAAATCA	59.962	45.455	25.47	0.00	0.00	2.57
2020	4022	3.354948	TGTTCTTGGACATGGGATCAG	57.645	47.619	0.00	0.00	0.00	2.90
2247	4265	2.092211	CGACTGTAATTGTTCGGCTGTC	59.908	50.000	0.00	0.00	0.00	3.51
2252	4270	4.178540	ACATACCGACTGTAATTGTTCGG	58.821	43.478	13.97	13.97	45.13	4.30
2581	4601	4.202090	CGAATCATCTCCACTGTCATCTCA	60.202	45.833	0.00	0.00	0.00	3.27

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.