AutoCloner

Multiple sequence alignment - TraesCS3D01G525100

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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	TraesCS3D01G525100	chr3D	100.000	2546	0	0	1	2546	604634814	604637359	0.000000e+00	4702
1	TraesCS3D01G525100	chr3D	92.761	815	33	18	1	804	614888967	614889766	0.000000e+00	1155
2	TraesCS3D01G525100	chr3D	91.829	820	39	16	1	808	6341578	6342381	0.000000e+00	1118
3	TraesCS3D01G525100	chr3D	95.186	644	23	8	1	642	435131944	435132581	0.000000e+00	1011
4	TraesCS3D01G525100	chr3D	93.583	187	3	6	631	809	29615754	29615569	1.160000e-68	270
5	TraesCS3D01G525100	chr3A	96.263	1124	33	6	876	1993	734738990	734740110	0.000000e+00	1834
6	TraesCS3D01G525100	chr3A	98.291	234	2	2	2313	2546	734741253	734741484	2.360000e-110	409
7	TraesCS3D01G525100	chr3A	87.308	260	10	7	1985	2222	734740261	734740519	2.500000e-70	276
8	TraesCS3D01G525100	chr3A	94.565	92	3	2	2220	2310	734740934	734741024	9.500000e-30	141
9	TraesCS3D01G525100	chr7D	91.636	825	37	24	1	812	425726096	425725291	0.000000e+00	1112
10	TraesCS3D01G525100	chr7D	91.749	812	18	14	1	804	14186825	14186055	0.000000e+00	1083
11	TraesCS3D01G525100	chr7D	92.788	721	38	10	1	712	497977156	497977871	0.000000e+00	1031
12	TraesCS3D01G525100	chr1D	91.584	808	41	14	1	798	224143481	224142691	0.000000e+00	1090
13	TraesCS3D01G525100	chr4D	91.852	810	20	14	1	804	401771971	401772740	0.000000e+00	1088
14	TraesCS3D01G525100	chr2B	91.122	811	44	16	1	804	748988166	748987377	0.000000e+00	1074
15	TraesCS3D01G525100	chr3B	90.482	809	46	16	984	1784	811787775	811788560	0.000000e+00	1038
16	TraesCS3D01G525100	chr3B	92.216	167	11	2	805	969	811778748	811778914	4.230000e-58	235
17	TraesCS3D01G525100	chr5B	90.061	815	54	16	1	804	665758717	665757919	0.000000e+00	1031
18	TraesCS3D01G525100	chr2D	93.137	204	5	6	611	807	557141482	557141281	8.910000e-75	291
19	TraesCS3D01G525100	chr2D	91.943	211	7	5	604	805	157393909	157394118	1.150000e-73	287
20	TraesCS3D01G525100	chr2D	92.233	206	7	3	604	804	630810437	630810638	1.490000e-72	283
21	TraesCS3D01G525100	chr2D	88.384	198	9	5	621	805	637835695	637835499	2.550000e-55	226
22	TraesCS3D01G525100	chr2D	89.205	176	11	3	633	804	400067841	400067670	1.980000e-51	213
23	TraesCS3D01G525100	chr2D	82.251	231	17	15	582	807	401946130	401945919	7.240000e-41	178
24	TraesCS3D01G525100	chr2D	89.565	115	8	3	689	799	401947116	401947230	2.640000e-30	143
25	TraesCS3D01G525100	chr5D	91.351	185	8	4	627	804	367986108	367986291	1.960000e-61	246

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	TraesCS3D01G525100	chr3D	604634814	604637359	2545	False	4702	4702	100.00000	1	2546	1	chr3D.!!$F3	2545
1	TraesCS3D01G525100	chr3D	614888967	614889766	799	False	1155	1155	92.76100	1	804	1	chr3D.!!$F4	803
2	TraesCS3D01G525100	chr3D	6341578	6342381	803	False	1118	1118	91.82900	1	808	1	chr3D.!!$F1	807
3	TraesCS3D01G525100	chr3D	435131944	435132581	637	False	1011	1011	95.18600	1	642	1	chr3D.!!$F2	641
4	TraesCS3D01G525100	chr3A	734738990	734741484	2494	False	665	1834	94.10675	876	2546	4	chr3A.!!$F1	1670
5	TraesCS3D01G525100	chr7D	425725291	425726096	805	True	1112	1112	91.63600	1	812	1	chr7D.!!$R2	811
6	TraesCS3D01G525100	chr7D	14186055	14186825	770	True	1083	1083	91.74900	1	804	1	chr7D.!!$R1	803
7	TraesCS3D01G525100	chr7D	497977156	497977871	715	False	1031	1031	92.78800	1	712	1	chr7D.!!$F1	711
8	TraesCS3D01G525100	chr1D	224142691	224143481	790	True	1090	1090	91.58400	1	798	1	chr1D.!!$R1	797
9	TraesCS3D01G525100	chr4D	401771971	401772740	769	False	1088	1088	91.85200	1	804	1	chr4D.!!$F1	803
10	TraesCS3D01G525100	chr2B	748987377	748988166	789	True	1074	1074	91.12200	1	804	1	chr2B.!!$R1	803
11	TraesCS3D01G525100	chr3B	811787775	811788560	785	False	1038	1038	90.48200	984	1784	1	chr3B.!!$F2	800
12	TraesCS3D01G525100	chr5B	665757919	665758717	798	True	1031	1031	90.06100	1	804	1	chr5B.!!$R1	803

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
861	1013	0.250124	TTGACTGCCGGATTCACGTT	60.25	50.0	5.05	0.0	0.0	3.99	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2121	2445	0.309922	GATGAGATGTGCATTGCGGG	59.69	55.0	3.84	0.0	0.0	6.13	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
43	44	7.942990	TGTATTGGAATGAAAGGTTAAACGTT	58.057	30.769	0.00	0.00	0.00	3.99
629	734	4.704833	CCACAGTGGGCCGACAGG	62.705	72.222	20.91	14.33	41.62	4.00
630	735	3.625897	CACAGTGGGCCGACAGGA	61.626	66.667	20.91	0.00	41.02	3.86
637	742	2.124695	GGCCGACAGGACCCAATC	60.125	66.667	0.00	0.00	40.69	2.67
638	743	2.668632	GCCGACAGGACCCAATCA	59.331	61.111	0.00	0.00	41.02	2.57
639	744	1.450312	GCCGACAGGACCCAATCAG	60.450	63.158	0.00	0.00	41.02	2.90
640	745	1.450312	CCGACAGGACCCAATCAGC	60.450	63.158	0.00	0.00	41.02	4.26
641	746	1.450312	CGACAGGACCCAATCAGCC	60.450	63.158	0.00	0.00	0.00	4.85
642	747	1.077429	GACAGGACCCAATCAGCCC	60.077	63.158	0.00	0.00	0.00	5.19
643	748	1.852157	ACAGGACCCAATCAGCCCA	60.852	57.895	0.00	0.00	0.00	5.36
644	749	1.379044	CAGGACCCAATCAGCCCAC	60.379	63.158	0.00	0.00	0.00	4.61
645	750	1.852157	AGGACCCAATCAGCCCACA	60.852	57.895	0.00	0.00	0.00	4.17
646	751	1.379044	GGACCCAATCAGCCCACAG	60.379	63.158	0.00	0.00	0.00	3.66
647	752	1.380302	GACCCAATCAGCCCACAGT	59.620	57.895	0.00	0.00	0.00	3.55
648	753	0.962356	GACCCAATCAGCCCACAGTG	60.962	60.000	0.00	0.00	0.00	3.66
687	820	1.889530	GCTGTAGGCCGACTGGAGTT	61.890	60.000	21.31	0.00	37.49	3.01
827	979	9.905713	AGCAGGAATTGATTACAGTAATAAAGA	57.094	29.630	5.75	0.00	0.00	2.52
849	1001	4.668576	TTGACGAATCAATCTTGACTGC	57.331	40.909	0.00	0.00	40.01	4.40
850	1002	3.002791	TGACGAATCAATCTTGACTGCC	58.997	45.455	0.00	0.00	40.49	4.85
851	1003	2.002586	ACGAATCAATCTTGACTGCCG	58.997	47.619	0.00	0.35	40.49	5.69
852	1004	1.328680	CGAATCAATCTTGACTGCCGG	59.671	52.381	0.00	0.00	40.49	6.13
853	1005	2.632377	GAATCAATCTTGACTGCCGGA	58.368	47.619	5.05	0.00	40.49	5.14
854	1006	3.209410	GAATCAATCTTGACTGCCGGAT	58.791	45.455	5.05	0.00	40.49	4.18
855	1007	2.787473	TCAATCTTGACTGCCGGATT	57.213	45.000	5.05	0.00	31.01	3.01
856	1008	2.632377	TCAATCTTGACTGCCGGATTC	58.368	47.619	5.05	0.00	31.01	2.52
857	1009	2.027285	TCAATCTTGACTGCCGGATTCA	60.027	45.455	5.05	0.00	31.01	2.57
858	1010	2.029838	ATCTTGACTGCCGGATTCAC	57.970	50.000	5.05	0.00	0.00	3.18
859	1011	0.389817	TCTTGACTGCCGGATTCACG	60.390	55.000	5.05	1.22	0.00	4.35
860	1012	0.670546	CTTGACTGCCGGATTCACGT	60.671	55.000	5.05	0.00	0.00	4.49
861	1013	0.250124	TTGACTGCCGGATTCACGTT	60.250	50.000	5.05	0.00	0.00	3.99
862	1014	0.604073	TGACTGCCGGATTCACGTTA	59.396	50.000	5.05	0.00	0.00	3.18
863	1015	1.206132	TGACTGCCGGATTCACGTTAT	59.794	47.619	5.05	0.00	0.00	1.89
864	1016	1.593006	GACTGCCGGATTCACGTTATG	59.407	52.381	5.05	0.00	0.00	1.90
865	1017	1.206132	ACTGCCGGATTCACGTTATGA	59.794	47.619	5.05	0.00	34.65	2.15
913	1065	7.381766	TGTGACTAACGAGTAGCTGTATAAA	57.618	36.000	0.00	0.00	35.45	1.40
915	1067	8.464404	TGTGACTAACGAGTAGCTGTATAAATT	58.536	33.333	0.00	0.00	35.45	1.82
916	1068	9.941664	GTGACTAACGAGTAGCTGTATAAATTA	57.058	33.333	0.00	0.00	35.45	1.40
929	1082	9.060347	AGCTGTATAAATTAACATGTCATCCTG	57.940	33.333	0.00	0.00	0.00	3.86
1234	1387	2.179517	CAGTCGACCTCCTGACGC	59.820	66.667	13.01	0.00	40.05	5.19
1426	1579	1.684391	TCCCTGGAGAAATCGGCGA	60.684	57.895	13.87	13.87	0.00	5.54
1616	1777	6.441093	AATAAGATGCGATGCTCTTTTTCA	57.559	33.333	8.17	0.00	33.83	2.69
1654	1815	8.018537	ACTAATTTTGGCAGAAAGTAAGGTTT	57.981	30.769	0.00	0.00	0.00	3.27
1655	1816	8.482943	ACTAATTTTGGCAGAAAGTAAGGTTTT	58.517	29.630	0.00	0.00	0.00	2.43
1728	1889	2.301870	TGGCACTAATCGGAGTTGAACT	59.698	45.455	0.00	0.00	0.00	3.01
1820	1982	6.950428	CGTTTGTTCTATTCTCGTTCTGAATG	59.050	38.462	3.17	3.17	35.90	2.67
1834	1996	3.515630	TCTGAATGAGCACGAGACATTC	58.484	45.455	18.26	18.26	45.46	2.67
1853	2015	7.937942	AGACATTCTATTCTCATCCTCAAATGG	59.062	37.037	0.00	0.00	0.00	3.16
1855	2017	5.901413	TCTATTCTCATCCTCAAATGGCT	57.099	39.130	0.00	0.00	0.00	4.75
1872	2034	3.717707	TGGCTCGCAGATACTAATTCAC	58.282	45.455	0.00	0.00	33.89	3.18
1901	2063	9.956720	AATATAGCATAATTTCAAGCTTGACAC	57.043	29.630	28.46	10.04	38.47	3.67
1903	2065	6.336842	AGCATAATTTCAAGCTTGACACTT	57.663	33.333	28.46	21.47	36.83	3.16
1904	2066	6.154445	AGCATAATTTCAAGCTTGACACTTG	58.846	36.000	28.46	20.74	44.76	3.16
1905	2067	5.922544	GCATAATTTCAAGCTTGACACTTGT	59.077	36.000	28.46	16.17	43.97	3.16
1906	2068	6.421801	GCATAATTTCAAGCTTGACACTTGTT	59.578	34.615	28.46	15.09	43.97	2.83
1932	2095	5.718130	TCTCATCTTCCAGCCAATCAAATTT	59.282	36.000	0.00	0.00	0.00	1.82
1939	2102	3.055240	CCAGCCAATCAAATTTAAGGGCA	60.055	43.478	18.65	0.00	42.26	5.36
1946	2109	7.282901	GCCAATCAAATTTAAGGGCATTACAAT	59.717	33.333	14.08	0.00	39.66	2.71
2057	2381	1.350684	TGTCAGACTAGCATTTGGCCA	59.649	47.619	0.00	0.00	46.50	5.36
2074	2398	1.604278	GCCATACGATTGAAAGAGGCC	59.396	52.381	0.00	0.00	34.94	5.19
2121	2445	2.107953	GCGGCTCTCTGGGTGATC	59.892	66.667	0.00	0.00	0.00	2.92
2136	2477	0.107066	TGATCCCGCAATGCACATCT	60.107	50.000	5.91	0.00	0.00	2.90
2167	2508	9.449719	TCTATCTGAAACAATCCCTTACTTTTC	57.550	33.333	0.00	0.00	0.00	2.29
2168	2509	9.231297	CTATCTGAAACAATCCCTTACTTTTCA	57.769	33.333	0.00	0.00	33.23	2.69
2206	2547	9.694137	GCGAAATTATGAGTAGTTTCCTAGTAT	57.306	33.333	0.00	0.00	34.71	2.12
2259	3019	6.187682	ACCTTTTATCCCCAGTCACATAAAG	58.812	40.000	0.00	0.00	0.00	1.85
2268	3028	6.377996	TCCCCAGTCACATAAAGAAAATCATG	59.622	38.462	0.00	0.00	0.00	3.07
2507	3492	9.853177	AGGGAGTACTATTTTATTTCCATCTTG	57.147	33.333	0.00	0.00	0.00	3.02

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
10	11	7.378181	ACCTTTCATTCCAATACATGAAACAC	58.622	34.615	0.00	0.00	42.06	3.32
624	729	1.077429	GGGCTGATTGGGTCCTGTC	60.077	63.158	0.00	0.00	0.00	3.51
625	730	1.852157	TGGGCTGATTGGGTCCTGT	60.852	57.895	0.00	0.00	0.00	4.00
626	731	1.379044	GTGGGCTGATTGGGTCCTG	60.379	63.158	0.00	0.00	0.00	3.86
627	732	1.852157	TGTGGGCTGATTGGGTCCT	60.852	57.895	0.00	0.00	0.00	3.85
628	733	1.379044	CTGTGGGCTGATTGGGTCC	60.379	63.158	0.00	0.00	0.00	4.46
629	734	0.962356	CACTGTGGGCTGATTGGGTC	60.962	60.000	0.00	0.00	0.00	4.46
630	735	1.075482	CACTGTGGGCTGATTGGGT	59.925	57.895	0.00	0.00	0.00	4.51
631	736	1.679977	CCACTGTGGGCTGATTGGG	60.680	63.158	19.23	0.00	32.67	4.12
632	737	0.962356	GTCCACTGTGGGCTGATTGG	60.962	60.000	23.66	0.00	39.55	3.16
633	738	0.250858	TGTCCACTGTGGGCTGATTG	60.251	55.000	29.60	1.68	44.07	2.67
634	739	0.037303	CTGTCCACTGTGGGCTGATT	59.963	55.000	29.60	0.00	44.07	2.57
635	740	1.681666	CTGTCCACTGTGGGCTGAT	59.318	57.895	29.60	0.00	44.07	2.90
636	741	2.519622	CCTGTCCACTGTGGGCTGA	61.520	63.158	31.88	14.42	44.07	4.26
637	742	2.033141	CCTGTCCACTGTGGGCTG	59.967	66.667	29.60	27.63	44.07	4.85
638	743	3.252284	CCCTGTCCACTGTGGGCT	61.252	66.667	29.60	0.00	44.07	5.19
639	744	4.351054	CCCCTGTCCACTGTGGGC	62.351	72.222	24.13	24.13	43.98	5.36
640	745	4.351054	GCCCCTGTCCACTGTGGG	62.351	72.222	25.67	10.46	38.32	4.61
641	746	4.351054	GGCCCCTGTCCACTGTGG	62.351	72.222	20.86	20.86	39.43	4.17
642	747	3.557903	CTGGCCCCTGTCCACTGTG	62.558	68.421	0.00	0.00	0.00	3.66
643	748	3.252284	CTGGCCCCTGTCCACTGT	61.252	66.667	0.00	0.00	0.00	3.55
644	749	3.252284	ACTGGCCCCTGTCCACTG	61.252	66.667	0.00	0.00	0.00	3.66
645	750	2.930562	GACTGGCCCCTGTCCACT	60.931	66.667	11.92	0.00	38.44	4.00
646	751	4.394712	CGACTGGCCCCTGTCCAC	62.395	72.222	15.82	0.00	40.35	4.02
687	820	2.046023	CCACAGCAGGCCGATTGA	60.046	61.111	9.88	0.00	0.00	2.57
827	979	4.095483	GGCAGTCAAGATTGATTCGTCAAT	59.905	41.667	3.50	3.50	42.39	2.57
828	980	3.436704	GGCAGTCAAGATTGATTCGTCAA	59.563	43.478	0.00	0.00	39.73	3.18
829	981	3.002791	GGCAGTCAAGATTGATTCGTCA	58.997	45.455	0.00	0.00	39.73	4.35
830	982	2.029728	CGGCAGTCAAGATTGATTCGTC	59.970	50.000	0.00	0.00	39.73	4.20
831	983	2.002586	CGGCAGTCAAGATTGATTCGT	58.997	47.619	0.00	0.00	39.73	3.85
832	984	1.328680	CCGGCAGTCAAGATTGATTCG	59.671	52.381	0.00	1.78	39.73	3.34
833	985	2.632377	TCCGGCAGTCAAGATTGATTC	58.368	47.619	0.00	0.00	39.73	2.52
834	986	2.787473	TCCGGCAGTCAAGATTGATT	57.213	45.000	0.00	0.00	39.73	2.57
835	987	3.209410	GAATCCGGCAGTCAAGATTGAT	58.791	45.455	0.00	0.00	39.73	2.57
836	988	2.027285	TGAATCCGGCAGTCAAGATTGA	60.027	45.455	0.00	0.00	34.20	2.57
837	989	2.096496	GTGAATCCGGCAGTCAAGATTG	59.904	50.000	0.00	0.00	0.00	2.67
838	990	2.359900	GTGAATCCGGCAGTCAAGATT	58.640	47.619	0.00	0.00	0.00	2.40
839	991	1.740380	CGTGAATCCGGCAGTCAAGAT	60.740	52.381	0.00	0.00	0.00	2.40
840	992	0.389817	CGTGAATCCGGCAGTCAAGA	60.390	55.000	0.00	0.00	0.00	3.02
841	993	0.670546	ACGTGAATCCGGCAGTCAAG	60.671	55.000	12.73	12.73	0.00	3.02
842	994	0.250124	AACGTGAATCCGGCAGTCAA	60.250	50.000	0.00	0.00	0.00	3.18
843	995	0.604073	TAACGTGAATCCGGCAGTCA	59.396	50.000	0.00	0.00	0.00	3.41
844	996	1.593006	CATAACGTGAATCCGGCAGTC	59.407	52.381	0.00	0.00	0.00	3.51
845	997	1.206132	TCATAACGTGAATCCGGCAGT	59.794	47.619	0.00	0.00	32.78	4.40
846	998	1.934589	TCATAACGTGAATCCGGCAG	58.065	50.000	0.00	0.00	32.78	4.85
847	999	2.388310	TTCATAACGTGAATCCGGCA	57.612	45.000	0.00	0.00	41.79	5.69
848	1000	3.311322	TGATTTCATAACGTGAATCCGGC	59.689	43.478	0.00	0.00	45.77	6.13
849	1001	5.478233	TTGATTTCATAACGTGAATCCGG	57.522	39.130	0.00	0.00	45.77	5.14
850	1002	6.632834	GGATTTGATTTCATAACGTGAATCCG	59.367	38.462	0.00	0.00	45.77	4.18
851	1003	6.918022	GGGATTTGATTTCATAACGTGAATCC	59.082	38.462	8.45	8.45	45.77	3.01
852	1004	7.707104	AGGGATTTGATTTCATAACGTGAATC	58.293	34.615	0.00	0.00	45.77	2.52
853	1005	7.645058	AGGGATTTGATTTCATAACGTGAAT	57.355	32.000	0.00	0.00	45.77	2.57
854	1006	8.568676	TTAGGGATTTGATTTCATAACGTGAA	57.431	30.769	0.00	0.00	44.87	3.18
855	1007	8.746052	ATTAGGGATTTGATTTCATAACGTGA	57.254	30.769	0.00	0.00	34.25	4.35
856	1008	9.236691	CAATTAGGGATTTGATTTCATAACGTG	57.763	33.333	0.00	0.00	0.00	4.49
857	1009	8.413229	CCAATTAGGGATTTGATTTCATAACGT	58.587	33.333	0.00	0.00	0.00	3.99
858	1010	8.413229	ACCAATTAGGGATTTGATTTCATAACG	58.587	33.333	0.00	0.00	43.89	3.18
859	1011	9.533253	CACCAATTAGGGATTTGATTTCATAAC	57.467	33.333	0.00	0.00	43.89	1.89
860	1012	8.703743	CCACCAATTAGGGATTTGATTTCATAA	58.296	33.333	0.00	0.00	43.89	1.90
861	1013	8.248904	CCACCAATTAGGGATTTGATTTCATA	57.751	34.615	0.00	0.00	43.89	2.15
862	1014	7.128234	CCACCAATTAGGGATTTGATTTCAT	57.872	36.000	0.00	0.00	43.89	2.57
863	1015	6.543430	CCACCAATTAGGGATTTGATTTCA	57.457	37.500	0.00	0.00	43.89	2.69
913	1065	3.873361	CAGACGCAGGATGACATGTTAAT	59.127	43.478	0.00	0.00	39.69	1.40
915	1067	2.233676	ACAGACGCAGGATGACATGTTA	59.766	45.455	0.00	0.00	39.69	2.41
916	1068	1.002430	ACAGACGCAGGATGACATGTT	59.998	47.619	0.00	0.00	39.69	2.71
917	1069	0.610174	ACAGACGCAGGATGACATGT	59.390	50.000	0.00	0.00	39.69	3.21
999	1152	1.688772	CATTGAAGGAGGAGGCCATG	58.311	55.000	5.01	0.00	0.00	3.66
1234	1387	3.357079	GGTGCTGGTGGCGTTGAG	61.357	66.667	0.00	0.00	45.43	3.02
1625	1786	8.739972	CCTTACTTTCTGCCAAAATTAGTACAT	58.260	33.333	0.00	0.00	0.00	2.29
1626	1787	7.722285	ACCTTACTTTCTGCCAAAATTAGTACA	59.278	33.333	0.00	0.00	0.00	2.90
1654	1815	7.994425	TCAGTGGAAAACTATTGAGCAATAA	57.006	32.000	4.66	0.00	36.83	1.40
1655	1816	7.882791	TCTTCAGTGGAAAACTATTGAGCAATA	59.117	33.333	3.20	3.20	36.83	1.90
1745	1906	5.940617	ACTCAAGCCATGTATATGCCTTAA	58.059	37.500	0.00	0.00	30.82	1.85
1759	1920	3.486383	CTTGAACCCTAAACTCAAGCCA	58.514	45.455	0.00	0.00	39.57	4.75
1820	1982	4.926244	TGAGAATAGAATGTCTCGTGCTC	58.074	43.478	0.00	0.00	42.73	4.26
1834	1996	4.689812	CGAGCCATTTGAGGATGAGAATAG	59.310	45.833	0.00	0.00	0.00	1.73
1853	2015	3.717707	TGGTGAATTAGTATCTGCGAGC	58.282	45.455	0.00	0.00	0.00	5.03
1855	2017	9.639601	CTATATTTGGTGAATTAGTATCTGCGA	57.360	33.333	0.00	0.00	0.00	5.10
1872	2034	9.970395	TCAAGCTTGAAATTATGCTATATTTGG	57.030	29.630	26.61	0.00	35.09	3.28
1899	2061	4.320788	GGCTGGAAGATGAGAAAACAAGTG	60.321	45.833	0.00	0.00	34.07	3.16
1901	2063	3.822735	TGGCTGGAAGATGAGAAAACAAG	59.177	43.478	0.00	0.00	34.07	3.16
1903	2065	3.507162	TGGCTGGAAGATGAGAAAACA	57.493	42.857	0.00	0.00	34.07	2.83
1904	2066	4.460382	TGATTGGCTGGAAGATGAGAAAAC	59.540	41.667	0.00	0.00	34.07	2.43
1905	2067	4.665451	TGATTGGCTGGAAGATGAGAAAA	58.335	39.130	0.00	0.00	34.07	2.29
1906	2068	4.305539	TGATTGGCTGGAAGATGAGAAA	57.694	40.909	0.00	0.00	34.07	2.52
1932	2095	7.957002	TGAAAAACAGAATTGTAATGCCCTTA	58.043	30.769	0.00	0.00	36.23	2.69
2024	2346	5.819901	GCTAGTCTGACAGGAAGCAAATATT	59.180	40.000	10.88	0.00	0.00	1.28
2032	2354	3.937706	CCAAATGCTAGTCTGACAGGAAG	59.062	47.826	10.88	3.21	0.00	3.46
2038	2360	2.113860	TGGCCAAATGCTAGTCTGAC	57.886	50.000	0.61	0.00	40.92	3.51
2057	2381	2.746472	GCCAGGCCTCTTTCAATCGTAT	60.746	50.000	0.00	0.00	0.00	3.06
2079	2403	0.811281	GCCTGGTTGAAAATCCGGAG	59.189	55.000	11.34	0.00	32.26	4.63
2121	2445	0.309922	GATGAGATGTGCATTGCGGG	59.690	55.000	3.84	0.00	0.00	6.13
2136	2477	7.443302	AAGGGATTGTTTCAGATAGAGATGA	57.557	36.000	0.00	0.00	0.00	2.92
2237	2997	7.938140	TTCTTTATGTGACTGGGGATAAAAG	57.062	36.000	0.00	0.00	0.00	2.27
2259	3019	7.223387	GGTGGAAATACTGATTGCATGATTTTC	59.777	37.037	0.00	0.00	30.70	2.29
2474	3459	2.491312	AATAGTACTCCCTCCACCCC	57.509	55.000	0.00	0.00	0.00	4.95

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.