AutoCloner

Multiple sequence alignment - TraesCS4B01G232600

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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	TraesCS4B01G232600	chr4B	100.000	2288	0	0	1	2288	483940151	483942438	0.000000e+00	4226
1	TraesCS4B01G232600	chr6B	93.874	1714	89	6	1	1708	618934449	618936152	0.000000e+00	2569
2	TraesCS4B01G232600	chr6B	91.623	1719	123	12	1	1708	341762323	341760615	0.000000e+00	2357
3	TraesCS4B01G232600	chr7D	93.419	1717	88	12	1	1708	621162332	621164032	0.000000e+00	2521
4	TraesCS4B01G232600	chr7D	90.291	103	10	0	1801	1903	578789881	578789779	3.960000e-28	135
5	TraesCS4B01G232600	chr3B	92.853	1721	105	10	1	1712	97752876	97751165	0.000000e+00	2481
6	TraesCS4B01G232600	chr3B	91.744	1720	123	10	1	1708	200855008	200856720	0.000000e+00	2372
7	TraesCS4B01G232600	chr3B	87.582	153	14	4	1923	2072	493121729	493121879	3.020000e-39	172
8	TraesCS4B01G232600	chr7B	92.603	1717	111	10	1	1708	457414301	457416010	0.000000e+00	2453
9	TraesCS4B01G232600	chr7B	89.437	142	13	2	1923	2063	217461810	217461670	6.500000e-41	178
10	TraesCS4B01G232600	chr7B	87.838	148	16	2	1921	2066	741254921	741255068	3.020000e-39	172
11	TraesCS4B01G232600	chr7A	92.523	1712	109	11	1	1703	86218348	86216647	0.000000e+00	2435
12	TraesCS4B01G232600	chr1D	92.160	1722	116	11	1	1711	481925575	481927288	0.000000e+00	2414
13	TraesCS4B01G232600	chr1D	90.411	146	12	2	1923	2066	1131886	1131741	8.340000e-45	191
14	TraesCS4B01G232600	chr5D	92.150	1707	111	11	12	1708	353957345	353959038	0.000000e+00	2388
15	TraesCS4B01G232600	chr5D	88.079	151	10	6	1921	2066	494083028	494083175	3.020000e-39	172
16	TraesCS4B01G232600	chr4D	88.298	376	33	8	1921	2288	394301943	394302315	7.500000e-120	440
17	TraesCS4B01G232600	chr4D	91.878	197	15	1	1709	1904	394301757	394301953	8.050000e-70	274
18	TraesCS4B01G232600	chr5A	89.189	148	14	2	1921	2066	493864196	493864343	1.400000e-42	183
19	TraesCS4B01G232600	chr5A	88.591	149	13	3	1921	2066	663303870	663304017	6.500000e-41	178
20	TraesCS4B01G232600	chr1B	89.262	149	12	3	1923	2068	589055759	589055906	1.400000e-42	183
21	TraesCS4B01G232600	chr3D	88.462	104	11	1	1800	1903	582045583	582045685	8.580000e-25	124
22	TraesCS4B01G232600	chr3A	89.000	100	11	0	1805	1904	24786521	24786422	8.580000e-25	124
23	TraesCS4B01G232600	chr6D	86.486	111	13	2	1794	1904	389297452	389297344	1.110000e-23	121
24	TraesCS4B01G232600	chr6D	86.408	103	14	0	1802	1904	319259231	319259129	1.860000e-21	113
25	TraesCS4B01G232600	chr2B	86.735	98	13	0	1807	1904	785273577	785273480	2.400000e-20	110

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	TraesCS4B01G232600	chr4B	483940151	483942438	2287	False	4226	4226	100.000	1	2288	1	chr4B.!!$F1	2287
1	TraesCS4B01G232600	chr6B	618934449	618936152	1703	False	2569	2569	93.874	1	1708	1	chr6B.!!$F1	1707
2	TraesCS4B01G232600	chr6B	341760615	341762323	1708	True	2357	2357	91.623	1	1708	1	chr6B.!!$R1	1707
3	TraesCS4B01G232600	chr7D	621162332	621164032	1700	False	2521	2521	93.419	1	1708	1	chr7D.!!$F1	1707
4	TraesCS4B01G232600	chr3B	97751165	97752876	1711	True	2481	2481	92.853	1	1712	1	chr3B.!!$R1	1711
5	TraesCS4B01G232600	chr3B	200855008	200856720	1712	False	2372	2372	91.744	1	1708	1	chr3B.!!$F1	1707
6	TraesCS4B01G232600	chr7B	457414301	457416010	1709	False	2453	2453	92.603	1	1708	1	chr7B.!!$F1	1707
7	TraesCS4B01G232600	chr7A	86216647	86218348	1701	True	2435	2435	92.523	1	1703	1	chr7A.!!$R1	1702
8	TraesCS4B01G232600	chr1D	481925575	481927288	1713	False	2414	2414	92.160	1	1711	1	chr1D.!!$F1	1710
9	TraesCS4B01G232600	chr5D	353957345	353959038	1693	False	2388	2388	92.150	12	1708	1	chr5D.!!$F1	1696
10	TraesCS4B01G232600	chr4D	394301757	394302315	558	False	357	440	90.088	1709	2288	2	chr4D.!!$F1	579

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
353	366	0.03601	CTGGGTCAGGAATCAGCGTT	60.036	55.0	0.0	0.0	0.0	4.84	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1880	1909	0.03659	ATTGCCATGTTTGCCAACCC	59.963	50.0	0.0	0.0	31.02	4.11	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
163	176	0.931757	TCCTCCTCCTTAGGCTCCCT	60.932	60.000	0.00	0.00	43.31	4.20
250	263	2.607187	CCAGTAGGTCTTGTACTTGCG	58.393	52.381	0.00	0.00	0.00	4.85
322	335	2.000447	GCGAAGGATGTCAACTACCAC	59.000	52.381	0.00	0.00	0.00	4.16
353	366	0.036010	CTGGGTCAGGAATCAGCGTT	60.036	55.000	0.00	0.00	0.00	4.84
387	400	0.330604	AGTGGCCTTCATGAGCACAT	59.669	50.000	3.32	0.00	37.19	3.21
392	405	2.223735	GGCCTTCATGAGCACATCATTG	60.224	50.000	8.97	0.00	46.97	2.82
655	675	1.713647	TGGAGAGGAGGAGAAGAGTGT	59.286	52.381	0.00	0.00	0.00	3.55
697	719	3.698040	ACAAGCTCTTGAATTAGCCATGG	59.302	43.478	15.74	7.63	42.93	3.66
756	780	2.301296	CGAGGATAGCAATGAGATGGGT	59.699	50.000	0.00	0.00	0.00	4.51
815	839	2.043652	CCTCCACCCAATGCCTGG	60.044	66.667	0.00	0.00	45.97	4.45
886	910	4.492160	GCGTCGACGAGGGCATGA	62.492	66.667	39.74	0.00	43.02	3.07
937	962	0.734942	CAACTACGGCCACTACCACG	60.735	60.000	2.24	0.00	0.00	4.94
1016	1041	1.616921	CCATGCCCCTGGACTTCAT	59.383	57.895	0.00	0.00	38.69	2.57
1066	1091	2.997980	TCAAGCTCAAGAACAACACCA	58.002	42.857	0.00	0.00	0.00	4.17
1102	1127	1.069978	TGACGGTCAAGCTGATGAACA	59.930	47.619	8.68	0.00	36.82	3.18
1158	1183	2.253603	GCAGCCGTTCATCAAATCAAC	58.746	47.619	0.00	0.00	0.00	3.18
1162	1187	3.758023	AGCCGTTCATCAAATCAACATCA	59.242	39.130	0.00	0.00	0.00	3.07
1294	1319	2.365105	CCAAGGAGTAGGGCCGGA	60.365	66.667	5.05	0.00	0.00	5.14
1439	1466	2.781923	TGTGCTTATGATGTGTGCTGT	58.218	42.857	0.00	0.00	0.00	4.40
1449	1476	0.174617	TGTGTGCTGTCGAAGTGTGA	59.825	50.000	0.00	0.00	0.00	3.58
1535	1562	1.202879	TGCCTTGGGTTTGTGGACTAG	60.203	52.381	0.00	0.00	0.00	2.57
1542	1569	1.885887	GGTTTGTGGACTAGCATGCAA	59.114	47.619	21.98	0.00	0.00	4.08
1557	1584	0.610174	TGCAAGCAACCAAACACCAA	59.390	45.000	0.00	0.00	0.00	3.67
1598	1626	0.621571	AGGTAAGAGGGCATGCAGGA	60.622	55.000	21.36	0.00	0.00	3.86
1766	1795	6.038271	CGTTGCCCTAAATATCTACTGCTTTT	59.962	38.462	0.00	0.00	0.00	2.27
1809	1838	7.163441	ACCTACTGCTTTCTTTTACGGAAATA	58.837	34.615	0.00	0.00	33.12	1.40
1823	1852	8.735692	TTTACGGAAATAATAAATCCCGAACT	57.264	30.769	0.00	0.00	40.10	3.01
1827	1856	7.337436	ACGGAAATAATAAATCCCGAACTTTCA	59.663	33.333	0.00	0.00	40.10	2.69
1837	1866	6.759497	ATCCCGAACTTTCAGATTTTAAGG	57.241	37.500	0.00	0.00	0.00	2.69
1844	1873	6.916360	ACTTTCAGATTTTAAGGATGGCAA	57.084	33.333	0.00	0.00	0.00	4.52
1845	1874	6.691508	ACTTTCAGATTTTAAGGATGGCAAC	58.308	36.000	0.00	0.00	0.00	4.17
1847	1876	4.934356	TCAGATTTTAAGGATGGCAACCT	58.066	39.130	10.99	10.99	39.69	3.50
1851	1880	5.960202	AGATTTTAAGGATGGCAACCTGAAT	59.040	36.000	17.80	16.32	37.85	2.57
1880	1909	0.110373	GGCAACTTTAGTTCACGCGG	60.110	55.000	12.47	0.00	35.83	6.46
1884	1913	0.107268	ACTTTAGTTCACGCGGGGTT	59.893	50.000	9.32	0.00	0.00	4.11
1891	1920	4.639171	CACGCGGGGTTGGCAAAC	62.639	66.667	12.47	6.75	35.40	2.93
1893	1922	3.679738	CGCGGGGTTGGCAAACAT	61.680	61.111	18.36	0.00	38.10	2.71
1894	1923	2.048316	GCGGGGTTGGCAAACATG	60.048	61.111	18.36	9.58	38.10	3.21
1895	1924	2.656055	CGGGGTTGGCAAACATGG	59.344	61.111	18.36	1.12	38.10	3.66
1896	1925	2.347114	GGGGTTGGCAAACATGGC	59.653	61.111	18.36	0.00	38.10	4.40
1897	1926	2.515071	GGGGTTGGCAAACATGGCA	61.515	57.895	18.36	0.51	42.75	4.92
1904	1933	3.204306	TGGCAAACATGGCAATTTTCA	57.796	38.095	2.31	0.00	41.49	2.69
1905	1934	3.548770	TGGCAAACATGGCAATTTTCAA	58.451	36.364	2.31	0.00	41.49	2.69
1906	1935	3.314635	TGGCAAACATGGCAATTTTCAAC	59.685	39.130	2.31	0.00	41.49	3.18
1907	1936	3.304592	GGCAAACATGGCAATTTTCAACC	60.305	43.478	0.00	0.00	0.00	3.77
1908	1937	3.304592	GCAAACATGGCAATTTTCAACCC	60.305	43.478	0.00	0.00	0.00	4.11
1909	1938	2.857186	ACATGGCAATTTTCAACCCC	57.143	45.000	0.00	0.00	0.00	4.95
1910	1939	2.337849	ACATGGCAATTTTCAACCCCT	58.662	42.857	0.00	0.00	0.00	4.79
1911	1940	2.302733	ACATGGCAATTTTCAACCCCTC	59.697	45.455	0.00	0.00	0.00	4.30
1912	1941	2.094100	TGGCAATTTTCAACCCCTCA	57.906	45.000	0.00	0.00	0.00	3.86
1913	1942	2.402564	TGGCAATTTTCAACCCCTCAA	58.597	42.857	0.00	0.00	0.00	3.02
1914	1943	2.978278	TGGCAATTTTCAACCCCTCAAT	59.022	40.909	0.00	0.00	0.00	2.57
1915	1944	3.393941	TGGCAATTTTCAACCCCTCAATT	59.606	39.130	0.00	0.00	0.00	2.32
1916	1945	4.141298	TGGCAATTTTCAACCCCTCAATTT	60.141	37.500	0.00	0.00	0.00	1.82
1917	1946	4.826733	GGCAATTTTCAACCCCTCAATTTT	59.173	37.500	0.00	0.00	0.00	1.82
1918	1947	5.301551	GGCAATTTTCAACCCCTCAATTTTT	59.698	36.000	0.00	0.00	0.00	1.94
1978	2009	6.735130	AGTTGCCATGTCTTAACAACTAAAC	58.265	36.000	4.97	0.00	46.66	2.01
1982	2013	5.629435	GCCATGTCTTAACAACTAAACTTGC	59.371	40.000	0.00	0.00	39.30	4.01
1989	2020	3.290948	ACAACTAAACTTGCCACCTCA	57.709	42.857	0.00	0.00	0.00	3.86
1991	2022	2.271944	ACTAAACTTGCCACCTCACC	57.728	50.000	0.00	0.00	0.00	4.02
1994	2025	0.550914	AAACTTGCCACCTCACCTCA	59.449	50.000	0.00	0.00	0.00	3.86
2001	2032	2.152016	GCCACCTCACCTCAACTAAAC	58.848	52.381	0.00	0.00	0.00	2.01
2034	2065	2.425143	ATGTTCGGGATGACATGCTT	57.575	45.000	6.91	0.00	0.00	3.91
2045	2077	5.105392	GGGATGACATGCTTAAAATCCAACA	60.105	40.000	6.91	0.00	36.17	3.33
2066	2098	1.335145	TCGGGATTTATCGAGGTCCC	58.665	55.000	14.10	14.10	45.57	4.46
2068	2100	1.692519	CGGGATTTATCGAGGTCCCTT	59.307	52.381	19.04	0.00	46.60	3.95
2071	2103	4.202284	CGGGATTTATCGAGGTCCCTTTTA	60.202	45.833	19.04	0.00	46.60	1.52
2072	2104	5.061853	GGGATTTATCGAGGTCCCTTTTAC	58.938	45.833	15.94	0.00	45.57	2.01
2073	2105	5.061853	GGATTTATCGAGGTCCCTTTTACC	58.938	45.833	0.00	0.00	37.27	2.85
2074	2106	3.806625	TTATCGAGGTCCCTTTTACCG	57.193	47.619	0.00	0.00	42.15	4.02
2075	2107	1.856629	ATCGAGGTCCCTTTTACCGA	58.143	50.000	0.00	0.00	42.15	4.69
2076	2108	1.631405	TCGAGGTCCCTTTTACCGAA	58.369	50.000	0.00	0.00	42.15	4.30
2077	2109	1.969923	TCGAGGTCCCTTTTACCGAAA	59.030	47.619	0.00	0.00	42.15	3.46
2078	2110	2.071540	CGAGGTCCCTTTTACCGAAAC	58.928	52.381	0.00	0.00	42.15	2.78
2079	2111	2.289257	CGAGGTCCCTTTTACCGAAACT	60.289	50.000	0.00	0.00	42.15	2.66
2080	2112	3.056607	CGAGGTCCCTTTTACCGAAACTA	60.057	47.826	0.00	0.00	42.15	2.24
2084	2117	5.942236	AGGTCCCTTTTACCGAAACTAAATC	59.058	40.000	0.00	0.00	42.15	2.17
2087	2120	6.093219	GTCCCTTTTACCGAAACTAAATCTCC	59.907	42.308	0.00	0.00	0.00	3.71
2130	2164	5.585894	ACTAAAAGGACTAAGAGCCTCTCT	58.414	41.667	0.00	0.00	43.37	3.10
2132	2166	6.831868	ACTAAAAGGACTAAGAGCCTCTCTAG	59.168	42.308	0.00	2.36	40.28	2.43
2133	2167	3.223674	AGGACTAAGAGCCTCTCTAGC	57.776	52.381	0.00	0.00	40.28	3.42
2145	2179	3.689569	GCCTCTCTAGCAATTCCCCAATT	60.690	47.826	0.00	0.00	31.91	2.32
2230	2265	4.696877	CACTTGTCAATCAGTAGGCAATGA	59.303	41.667	0.00	0.00	0.00	2.57
2256	2291	0.676782	GGTGCTTCGGTGGCTATTGT	60.677	55.000	0.00	0.00	0.00	2.71
2265	2300	0.802494	GTGGCTATTGTGGTGGTTCG	59.198	55.000	0.00	0.00	0.00	3.95
2268	2303	1.609580	GGCTATTGTGGTGGTTCGACA	60.610	52.381	0.00	0.00	33.18	4.35
2277	2312	1.670791	GTGGTTCGACAAAGGTCCAA	58.329	50.000	0.00	0.00	41.13	3.53
2284	2319	1.202651	CGACAAAGGTCCAACAGAGGT	60.203	52.381	0.00	0.00	41.13	3.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
88	98	2.579201	CAGTCCGTACCTGGCAGG	59.421	66.667	31.62	31.62	42.49	4.85
123	136	3.557903	AAGAGGCGGTGCACATGCT	62.558	57.895	26.10	15.66	42.66	3.79
250	263	3.339141	CCTAAACAGAGGAAGAAGTGGC	58.661	50.000	0.00	0.00	39.15	5.01
387	400	3.346315	ACATGCAGAACGAATCCAATGA	58.654	40.909	0.00	0.00	0.00	2.57
392	405	0.652592	CGGACATGCAGAACGAATCC	59.347	55.000	0.00	0.00	0.00	3.01
424	437	1.354337	CCATGAGGTGTGCTCGAACG	61.354	60.000	0.00	0.00	0.00	3.95
655	675	6.349280	GCTTGTAGTTAAAATGGCATGACTGA	60.349	38.462	0.00	0.00	0.00	3.41
697	719	0.801251	GAGTCAGGCATTGCACAGAC	59.199	55.000	11.39	13.80	0.00	3.51
772	796	2.594592	GCCCTTGCTGTCAACGGT	60.595	61.111	0.00	0.00	32.91	4.83
815	839	4.090057	GCGGCAACTCAACCTCGC	62.090	66.667	0.00	0.00	36.51	5.03
872	896	1.667154	CTCCTTCATGCCCTCGTCGA	61.667	60.000	0.00	0.00	0.00	4.20
894	918	1.607467	CTTGTTGCTTGGGAGGGGG	60.607	63.158	0.00	0.00	0.00	5.40
895	919	2.278330	GCTTGTTGCTTGGGAGGGG	61.278	63.158	0.00	0.00	38.95	4.79
896	920	2.629656	CGCTTGTTGCTTGGGAGGG	61.630	63.158	0.00	0.00	40.11	4.30
897	921	2.956987	CGCTTGTTGCTTGGGAGG	59.043	61.111	0.00	0.00	40.11	4.30
898	922	2.256461	GCGCTTGTTGCTTGGGAG	59.744	61.111	0.00	0.00	40.11	4.30
899	923	3.294493	GGCGCTTGTTGCTTGGGA	61.294	61.111	7.64	0.00	40.11	4.37
903	927	3.898509	TTGCGGCGCTTGTTGCTT	61.899	55.556	33.26	0.00	40.11	3.91
937	962	1.274703	TGAGTTGGGCCATCCTCCTC	61.275	60.000	23.43	16.44	35.17	3.71
1055	1080	0.536006	GGAGCAGCTGGTGTTGTTCT	60.536	55.000	25.60	4.29	35.61	3.01
1066	1091	1.537397	TCACCTTCCAGGAGCAGCT	60.537	57.895	0.00	0.00	37.67	4.24
1130	1155	2.048503	GAACGGCTGCGTAGGTGT	60.049	61.111	1.76	0.00	0.00	4.16
1152	1177	4.637534	GTCACCATGTAGCTGATGTTGATT	59.362	41.667	9.89	0.00	26.74	2.57
1158	1183	2.299993	ACGTCACCATGTAGCTGATG	57.700	50.000	0.00	0.00	0.00	3.07
1162	1187	2.688507	CTTGAACGTCACCATGTAGCT	58.311	47.619	0.00	0.00	0.00	3.32
1294	1319	9.915629	CTCGATAGTAATTAAAATAGAGGTGCT	57.084	33.333	9.06	0.00	37.40	4.40
1348	1374	4.827692	ACCGCAGATATAACAGTTCAACA	58.172	39.130	0.00	0.00	0.00	3.33
1404	1431	9.618890	ATCATAAGCACAACAGAGTATAAACAT	57.381	29.630	0.00	0.00	0.00	2.71
1439	1466	2.894765	TGAGGTTACCATCACACTTCGA	59.105	45.455	3.51	0.00	0.00	3.71
1535	1562	0.582960	GTGTTTGGTTGCTTGCATGC	59.417	50.000	17.19	17.19	0.00	4.06
1542	1569	0.461135	CTGCTTGGTGTTTGGTTGCT	59.539	50.000	0.00	0.00	0.00	3.91
1557	1584	2.072874	ATGGGCTGAACCACACTGCT	62.073	55.000	0.00	0.00	44.72	4.24
1598	1626	4.996122	CACCATATGCATGTTGTTTGGTTT	59.004	37.500	10.16	0.00	33.88	3.27
1743	1771	7.954666	AAAAAGCAGTAGATATTTAGGGCAA	57.045	32.000	0.00	0.00	0.00	4.52
1783	1812	4.964593	TCCGTAAAAGAAAGCAGTAGGTT	58.035	39.130	0.00	0.00	36.96	3.50
1785	1814	5.934935	TTTCCGTAAAAGAAAGCAGTAGG	57.065	39.130	0.00	0.00	0.00	3.18
1823	1852	5.779771	AGGTTGCCATCCTTAAAATCTGAAA	59.220	36.000	0.00	0.00	30.18	2.69
1827	1856	4.934356	TCAGGTTGCCATCCTTAAAATCT	58.066	39.130	0.00	0.00	32.37	2.40
1837	1866	6.480981	CCATGAAAAATATTCAGGTTGCCATC	59.519	38.462	0.00	0.00	0.00	3.51
1844	1873	6.610075	AGTTGCCATGAAAAATATTCAGGT	57.390	33.333	0.00	0.00	0.00	4.00
1845	1874	7.910441	AAAGTTGCCATGAAAAATATTCAGG	57.090	32.000	0.00	0.00	0.00	3.86
1847	1876	9.995003	AACTAAAGTTGCCATGAAAAATATTCA	57.005	25.926	0.00	0.00	36.80	2.57
1851	1880	7.593273	CGTGAACTAAAGTTGCCATGAAAAATA	59.407	33.333	0.00	0.00	38.56	1.40
1880	1909	0.036590	ATTGCCATGTTTGCCAACCC	59.963	50.000	0.00	0.00	31.02	4.11
1884	1913	3.204306	TGAAAATTGCCATGTTTGCCA	57.796	38.095	0.00	0.00	0.00	4.92
1891	1920	2.302445	TGAGGGGTTGAAAATTGCCATG	59.698	45.455	0.00	0.00	0.00	3.66
1893	1922	2.094100	TGAGGGGTTGAAAATTGCCA	57.906	45.000	0.00	0.00	0.00	4.92
1894	1923	3.701205	ATTGAGGGGTTGAAAATTGCC	57.299	42.857	0.00	0.00	0.00	4.52
1895	1924	6.389830	AAAAATTGAGGGGTTGAAAATTGC	57.610	33.333	0.00	0.00	0.00	3.56
1942	1971	4.379652	ACATGGCAACTTTGTTCCAATTC	58.620	39.130	0.00	0.00	30.91	2.17
1943	1972	4.101430	AGACATGGCAACTTTGTTCCAATT	59.899	37.500	0.00	0.00	34.45	2.32
1945	1974	3.030291	AGACATGGCAACTTTGTTCCAA	58.970	40.909	0.00	0.00	34.45	3.53
1946	1975	2.665165	AGACATGGCAACTTTGTTCCA	58.335	42.857	0.00	0.00	34.45	3.53
1947	1976	3.733443	AAGACATGGCAACTTTGTTCC	57.267	42.857	0.00	0.00	34.45	3.62
1948	1977	5.587289	TGTTAAGACATGGCAACTTTGTTC	58.413	37.500	0.00	0.00	34.45	3.18
1949	1978	5.590530	TGTTAAGACATGGCAACTTTGTT	57.409	34.783	0.00	0.00	34.45	2.83
1978	2009	0.109342	AGTTGAGGTGAGGTGGCAAG	59.891	55.000	0.00	0.00	0.00	4.01
1982	2013	3.771577	AGTTTAGTTGAGGTGAGGTGG	57.228	47.619	0.00	0.00	0.00	4.61
1989	2020	4.098914	TCATGGCAAGTTTAGTTGAGGT	57.901	40.909	0.00	0.00	0.00	3.85
2016	2047	3.342377	TTAAGCATGTCATCCCGAACA	57.658	42.857	0.00	0.00	0.00	3.18
2045	2077	2.302157	GGGACCTCGATAAATCCCGAAT	59.698	50.000	7.46	0.00	41.52	3.34
2071	2103	9.901172	AAGTATAAATGGAGATTTAGTTTCGGT	57.099	29.630	0.00	0.00	37.44	4.69
2108	2141	6.238925	GCTAGAGAGGCTCTTAGTCCTTTTAG	60.239	46.154	19.80	6.31	41.50	1.85
2114	2147	2.938838	TGCTAGAGAGGCTCTTAGTCC	58.061	52.381	19.80	5.19	41.50	3.85
2120	2154	2.046292	GGGAATTGCTAGAGAGGCTCT	58.954	52.381	18.80	18.80	43.83	4.09
2130	2164	4.601406	AGTGGTAATTGGGGAATTGCTA	57.399	40.909	0.00	0.00	0.00	3.49
2132	2166	5.869649	ATAAGTGGTAATTGGGGAATTGC	57.130	39.130	0.00	0.00	0.00	3.56
2133	2167	6.581712	CCAATAAGTGGTAATTGGGGAATTG	58.418	40.000	6.24	0.00	45.58	2.32
2198	2232	2.894765	TGATTGACAAGTGGGTACTCGA	59.105	45.455	0.00	0.00	35.69	4.04
2247	2282	0.687920	TCGAACCACCACAATAGCCA	59.312	50.000	0.00	0.00	0.00	4.75
2256	2291	0.179040	GGACCTTTGTCGAACCACCA	60.179	55.000	0.00	0.00	42.73	4.17
2265	2300	2.222027	CACCTCTGTTGGACCTTTGTC	58.778	52.381	0.00	0.00	40.98	3.18
2268	2303	0.178990	GCCACCTCTGTTGGACCTTT	60.179	55.000	0.00	0.00	0.00	3.11

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.