AutoCloner

Multiple sequence alignment - TraesCS3D01G315400

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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	TraesCS3D01G315400	chr3D	100.000	2415	0	0	1	2415	429045231	429042817	0.000000e+00	4460.0
1	TraesCS3D01G315400	chr3D	84.561	706	42	35	896	1572	429085833	429085166	2.620000e-179	638.0
2	TraesCS3D01G315400	chr3D	89.647	425	38	5	1569	1991	429085063	429084643	9.830000e-149	536.0
3	TraesCS3D01G315400	chr3D	90.865	208	18	1	1213	1419	428994198	428993991	6.580000e-71	278.0
4	TraesCS3D01G315400	chr3D	85.577	208	17	7	931	1133	428994447	428994248	3.150000e-49	206.0
5	TraesCS3D01G315400	chr3D	86.957	161	14	5	969	1129	429647483	429647636	8.880000e-40	174.0
6	TraesCS3D01G315400	chr3D	97.727	44	1	0	2041	2084	429084637	429084594	2.570000e-10	76.8
7	TraesCS3D01G315400	chr3B	89.140	1326	101	33	896	2207	561044842	561043546	0.000000e+00	1611.0
8	TraesCS3D01G315400	chr3B	91.905	210	16	1	1211	1419	561038904	561038695	2.350000e-75	292.0
9	TraesCS3D01G315400	chr3B	83.613	238	26	9	905	1133	561039187	561038954	6.760000e-51	211.0
10	TraesCS3D01G315400	chr3B	88.889	162	14	2	971	1131	561889177	561889335	1.890000e-46	196.0
11	TraesCS3D01G315400	chr2D	88.137	902	91	6	1	886	452673584	452674485	0.000000e+00	1059.0
12	TraesCS3D01G315400	chr4A	88.027	902	92	6	1	886	88518115	88517214	0.000000e+00	1053.0
13	TraesCS3D01G315400	chr4A	86.807	902	101	7	2	886	84881135	84882035	0.000000e+00	990.0
14	TraesCS3D01G315400	chr3A	86.681	901	104	5	2	886	635234088	635234988	0.000000e+00	985.0
15	TraesCS3D01G315400	chr3A	91.097	629	43	9	931	1552	556678376	556678998	0.000000e+00	839.0
16	TraesCS3D01G315400	chr3A	80.828	459	64	14	969	1415	556340664	556340218	2.970000e-89	339.0
17	TraesCS3D01G315400	chr3A	88.942	208	22	1	1213	1419	556683390	556683597	3.080000e-64	255.0
18	TraesCS3D01G315400	chr3A	87.591	137	11	2	996	1132	556260854	556260724	1.160000e-33	154.0
19	TraesCS3D01G315400	chr6B	86.127	901	107	7	1	884	587469634	587470533	0.000000e+00	955.0
20	TraesCS3D01G315400	chr6B	100.000	45	0	0	1682	1726	440581375	440581419	1.540000e-12	84.2
21	TraesCS3D01G315400	chr2A	84.845	904	120	4	2	888	435870148	435869245	0.000000e+00	894.0
22	TraesCS3D01G315400	chr2A	91.071	56	4	1	1684	1738	373869000	373868945	9.260000e-10	75.0
23	TraesCS3D01G315400	chr2A	91.071	56	4	1	1675	1730	488857283	488857337	9.260000e-10	75.0
24	TraesCS3D01G315400	chr7B	83.167	903	133	7	1	886	406549473	406550373	0.000000e+00	808.0
25	TraesCS3D01G315400	chr5A	82.151	902	140	7	2	886	479198173	479199070	0.000000e+00	754.0
26	TraesCS3D01G315400	chr5A	90.638	470	44	0	2	471	163513144	163513613	2.040000e-175	625.0
27	TraesCS3D01G315400	chr5D	95.567	203	9	0	2213	2415	193719628	193719426	2.320000e-85	326.0
28	TraesCS3D01G315400	chr5D	94.554	202	11	0	2214	2415	193721237	193721036	1.800000e-81	313.0
29	TraesCS3D01G315400	chr5D	88.525	61	6	1	1683	1742	519617685	519617625	3.330000e-09	73.1
30	TraesCS3D01G315400	chr5D	87.302	63	5	3	1676	1738	459221577	459221518	4.310000e-08	69.4
31	TraesCS3D01G315400	chr4B	91.228	57	3	2	1684	1738	23667363	23667307	2.570000e-10	76.8
32	TraesCS3D01G315400	chr2B	91.071	56	4	1	1684	1738	358674750	358674805	9.260000e-10	75.0

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	TraesCS3D01G315400	chr3D	429042817	429045231	2414	True	4460.000000	4460	100.0000	1	2415	1	chr3D.!!$R1	2414
1	TraesCS3D01G315400	chr3D	429084594	429085833	1239	True	416.933333	638	90.6450	896	2084	3	chr3D.!!$R3	1188
2	TraesCS3D01G315400	chr3B	561043546	561044842	1296	True	1611.000000	1611	89.1400	896	2207	1	chr3B.!!$R1	1311
3	TraesCS3D01G315400	chr2D	452673584	452674485	901	False	1059.000000	1059	88.1370	1	886	1	chr2D.!!$F1	885
4	TraesCS3D01G315400	chr4A	88517214	88518115	901	True	1053.000000	1053	88.0270	1	886	1	chr4A.!!$R1	885
5	TraesCS3D01G315400	chr4A	84881135	84882035	900	False	990.000000	990	86.8070	2	886	1	chr4A.!!$F1	884
6	TraesCS3D01G315400	chr3A	635234088	635234988	900	False	985.000000	985	86.6810	2	886	1	chr3A.!!$F3	884
7	TraesCS3D01G315400	chr3A	556678376	556678998	622	False	839.000000	839	91.0970	931	1552	1	chr3A.!!$F1	621
8	TraesCS3D01G315400	chr6B	587469634	587470533	899	False	955.000000	955	86.1270	1	884	1	chr6B.!!$F2	883
9	TraesCS3D01G315400	chr2A	435869245	435870148	903	True	894.000000	894	84.8450	2	888	1	chr2A.!!$R2	886
10	TraesCS3D01G315400	chr7B	406549473	406550373	900	False	808.000000	808	83.1670	1	886	1	chr7B.!!$F1	885
11	TraesCS3D01G315400	chr5A	479198173	479199070	897	False	754.000000	754	82.1510	2	886	1	chr5A.!!$F2	884
12	TraesCS3D01G315400	chr5D	193719426	193721237	1811	True	319.500000	326	95.0605	2213	2415	2	chr5D.!!$R3	202

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
896	913	0.107459	GCTTGATGGTGACCTCTCCC	60.107	60.0	2.11	0.0	0.0	4.3	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2107	2270	0.249398	ACCCGTCTGTGGTAAGCATC	59.751	55.0	0.0	0.0	33.26	3.91	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
129	130	2.636893	CAGGATAGTTAGCAGGCAGGAT	59.363	50.000	0.00	0.00	0.00	3.24
288	289	2.795231	TGGCAAGGATGAAGAGGAAG	57.205	50.000	0.00	0.00	0.00	3.46
438	439	7.155328	CAGAAAAACCTAGCTTCTGAAGTAGA	58.845	38.462	17.97	4.02	45.86	2.59
472	473	4.163078	ACTCCCATGAGATTGAATCGAACT	59.837	41.667	0.00	0.00	41.42	3.01
473	474	5.102953	TCCCATGAGATTGAATCGAACTT	57.897	39.130	0.00	0.00	0.00	2.66
683	700	2.488153	CAAAGGAGTTCGGAAATGACCC	59.512	50.000	0.00	0.00	0.00	4.46
728	745	0.966875	GGATGAGCACCACCATTGCA	60.967	55.000	0.00	0.00	42.83	4.08
807	824	3.811497	TCGCATGAGATCAGCTTTTATGG	59.189	43.478	0.00	0.00	0.00	2.74
888	905	0.320683	CGGTGACTGCTTGATGGTGA	60.321	55.000	0.00	0.00	0.00	4.02
889	906	1.160137	GGTGACTGCTTGATGGTGAC	58.840	55.000	0.00	0.00	0.00	3.67
890	907	1.160137	GTGACTGCTTGATGGTGACC	58.840	55.000	0.00	0.00	0.00	4.02
891	908	1.059098	TGACTGCTTGATGGTGACCT	58.941	50.000	2.11	0.00	0.00	3.85
892	909	1.002430	TGACTGCTTGATGGTGACCTC	59.998	52.381	2.11	0.00	0.00	3.85
893	910	1.277557	GACTGCTTGATGGTGACCTCT	59.722	52.381	2.11	0.00	0.00	3.69
894	911	1.277557	ACTGCTTGATGGTGACCTCTC	59.722	52.381	2.11	0.15	0.00	3.20
895	912	0.615331	TGCTTGATGGTGACCTCTCC	59.385	55.000	2.11	0.00	0.00	3.71
896	913	0.107459	GCTTGATGGTGACCTCTCCC	60.107	60.000	2.11	0.00	0.00	4.30
897	914	1.279496	CTTGATGGTGACCTCTCCCA	58.721	55.000	2.11	0.00	0.00	4.37
898	915	1.842562	CTTGATGGTGACCTCTCCCAT	59.157	52.381	2.11	0.00	41.61	4.00
903	920	0.684805	GGTGACCTCTCCCATCTCGT	60.685	60.000	0.00	0.00	0.00	4.18
914	931	5.365619	TCTCCCATCTCGTTATAAAAAGGC	58.634	41.667	0.00	0.00	0.00	4.35
918	936	5.588648	CCCATCTCGTTATAAAAAGGCAAGA	59.411	40.000	0.00	0.00	0.00	3.02
919	937	6.238484	CCCATCTCGTTATAAAAAGGCAAGAG	60.238	42.308	0.00	0.00	0.00	2.85
920	938	5.796350	TCTCGTTATAAAAAGGCAAGAGC	57.204	39.130	0.00	0.00	41.10	4.09
921	939	5.242434	TCTCGTTATAAAAAGGCAAGAGCA	58.758	37.500	0.00	0.00	44.61	4.26
924	942	4.558860	CGTTATAAAAAGGCAAGAGCAAGC	59.441	41.667	0.00	0.00	44.61	4.01
945	969	0.684535	TCTCTCATCACCACCGCAAA	59.315	50.000	0.00	0.00	0.00	3.68
979	1008	1.136336	CAGTTTGTACTTCCTTCGCGC	60.136	52.381	0.00	0.00	30.26	6.86
1050	1079	0.745486	TGATCGCGTCCCTTCTCGTA	60.745	55.000	5.77	0.00	0.00	3.43
1052	1081	2.061182	ATCGCGTCCCTTCTCGTAGC	62.061	60.000	5.77	0.00	0.00	3.58
1090	1131	2.821366	CCAGGATCACCGTGCAGC	60.821	66.667	0.00	0.00	41.83	5.25
1151	1194	1.902918	GCTTGTCCACCCATGCACA	60.903	57.895	0.00	0.00	36.01	4.57
1276	1319	1.725066	CAACAAGGTGAACGCGGTT	59.275	52.632	12.47	1.69	0.00	4.44
1354	1397	1.000896	CCTCGGCTTCAACCCCAAT	60.001	57.895	0.00	0.00	0.00	3.16
1436	1487	2.825532	CCACTTGTATTTTGACCCCCAG	59.174	50.000	0.00	0.00	0.00	4.45
1465	1516	1.001764	TGCCCTTGAGCAGTGGATG	60.002	57.895	0.00	0.00	38.00	3.51
1466	1517	1.300963	GCCCTTGAGCAGTGGATGA	59.699	57.895	0.00	0.00	0.00	2.92
1467	1518	0.106819	GCCCTTGAGCAGTGGATGAT	60.107	55.000	0.00	0.00	0.00	2.45
1470	1521	2.562635	CCTTGAGCAGTGGATGATCTG	58.437	52.381	0.00	0.00	44.89	2.90
1543	1595	0.465705	CCGTGCACCTCCATCACTAT	59.534	55.000	12.15	0.00	0.00	2.12
1572	1730	1.774046	TTTTCGAACGACGCCCAACC	61.774	55.000	0.00	0.00	42.26	3.77
1608	1767	2.866156	TGTCAGACAAAGTTCAAGAGCG	59.134	45.455	0.00	0.00	0.00	5.03
1730	1891	1.694696	GGATCGGAGGGAGTAGCAAAT	59.305	52.381	0.00	0.00	0.00	2.32
1734	1895	3.343617	TCGGAGGGAGTAGCAAATTTTG	58.656	45.455	4.72	4.72	0.00	2.44
1829	1992	1.065551	GAACAACTGCAACAGGGACAC	59.934	52.381	0.00	0.00	35.51	3.67
1839	2002	1.214062	CAGGGACACGAGAGCTGTC	59.786	63.158	0.00	0.00	39.64	3.51
1855	2018	5.474876	AGAGCTGTCAAAGGTTTAAGAATGG	59.525	40.000	0.00	0.00	36.52	3.16
1873	2036	2.364632	TGGTGGAATATTTCACAGCCG	58.635	47.619	24.97	0.00	35.74	5.52
1905	2068	8.723942	ACTACTGAGAAATCATGTATGGAAAC	57.276	34.615	0.00	0.00	0.00	2.78
1979	2142	9.868277	TTGAATTGTTGTGAACTGTTTAAGATT	57.132	25.926	0.00	0.00	0.00	2.40
2024	2187	2.551270	TCAGAATAGCACTGACCCCTT	58.449	47.619	0.00	0.00	39.10	3.95
2031	2194	0.038166	GCACTGACCCCTTCCATGAA	59.962	55.000	0.00	0.00	0.00	2.57
2095	2258	2.099592	ACGCATTGGTGATATGGCTTTG	59.900	45.455	0.00	0.00	0.00	2.77
2098	2261	2.157640	TTGGTGATATGGCTTTGGGG	57.842	50.000	0.00	0.00	0.00	4.96
2099	2262	0.396974	TGGTGATATGGCTTTGGGGC	60.397	55.000	0.00	0.00	41.27	5.80
2100	2263	0.106015	GGTGATATGGCTTTGGGGCT	60.106	55.000	0.00	0.00	41.48	5.19
2101	2264	1.322442	GTGATATGGCTTTGGGGCTC	58.678	55.000	0.00	0.00	41.48	4.70
2114	2277	2.505982	GGCTCGGCTGGATGCTTA	59.494	61.111	0.00	0.00	42.39	3.09
2115	2278	1.889573	GGCTCGGCTGGATGCTTAC	60.890	63.158	0.00	0.00	42.39	2.34
2163	2326	4.759693	GGTTAGTGATCATGTGTTCCAACA	59.240	41.667	0.00	0.00	36.38	3.33
2167	2330	1.131126	GATCATGTGTTCCAACAGCCG	59.869	52.381	0.00	0.00	40.05	5.52
2172	2335	2.852449	TGTGTTCCAACAGCCGAAATA	58.148	42.857	0.00	0.00	40.05	1.40
2178	2341	1.131126	CCAACAGCCGAAATAGCACAG	59.869	52.381	0.00	0.00	0.00	3.66
2179	2342	0.804989	AACAGCCGAAATAGCACAGC	59.195	50.000	0.00	0.00	0.00	4.40
2380	4153	2.289569	TGGGTCCTTTTGAATTGCATGC	60.290	45.455	11.82	11.82	0.00	4.06
2383	4156	3.306225	GGTCCTTTTGAATTGCATGCAGA	60.306	43.478	21.50	12.42	0.00	4.26

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
129	130	0.907704	ACCCATGCAACGAGGAGGTA	60.908	55.000	0.00	0.00	0.00	3.08
197	198	4.379243	CACTTCCTGGGCGCGACT	62.379	66.667	13.91	0.00	0.00	4.18
417	418	7.246171	TGATCTACTTCAGAAGCTAGGTTTT	57.754	36.000	10.33	0.00	36.67	2.43
438	439	7.732140	TCAATCTCATGGGAGTATCTACTTGAT	59.268	37.037	0.00	0.00	42.05	2.57
472	473	7.415989	GCTCTTCAAGATGGATATTGCAAAGAA	60.416	37.037	1.71	0.00	28.29	2.52
473	474	6.039047	GCTCTTCAAGATGGATATTGCAAAGA	59.961	38.462	1.71	0.00	0.00	2.52
533	534	4.377839	TTTCTGTTCGTCAAAAATGCCA	57.622	36.364	0.00	0.00	0.00	4.92
683	700	1.945387	CTCCGGATCCAACTGACATG	58.055	55.000	13.41	0.00	0.00	3.21
728	745	6.571150	GCCACAGTTTCAAAGATCTTAATGCT	60.571	38.462	8.75	1.37	0.00	3.79
815	832	2.572290	GGTGTCTTTTACAGGCAGTGT	58.428	47.619	0.00	0.00	37.99	3.55
888	905	6.408206	CCTTTTTATAACGAGATGGGAGAGGT	60.408	42.308	0.00	0.00	0.00	3.85
889	906	5.992217	CCTTTTTATAACGAGATGGGAGAGG	59.008	44.000	0.00	0.00	0.00	3.69
890	907	5.467063	GCCTTTTTATAACGAGATGGGAGAG	59.533	44.000	0.00	0.00	0.00	3.20
891	908	5.104693	TGCCTTTTTATAACGAGATGGGAGA	60.105	40.000	0.00	0.00	0.00	3.71
892	909	5.123227	TGCCTTTTTATAACGAGATGGGAG	58.877	41.667	0.00	0.00	0.00	4.30
893	910	5.105567	TGCCTTTTTATAACGAGATGGGA	57.894	39.130	0.00	0.00	0.00	4.37
894	911	5.588648	TCTTGCCTTTTTATAACGAGATGGG	59.411	40.000	0.00	0.00	0.00	4.00
895	912	6.677781	TCTTGCCTTTTTATAACGAGATGG	57.322	37.500	0.00	0.00	0.00	3.51
896	913	6.183360	TGCTCTTGCCTTTTTATAACGAGATG	60.183	38.462	0.00	0.00	38.71	2.90
897	914	5.880332	TGCTCTTGCCTTTTTATAACGAGAT	59.120	36.000	0.00	0.00	38.71	2.75
898	915	5.242434	TGCTCTTGCCTTTTTATAACGAGA	58.758	37.500	0.00	0.00	38.71	4.04
899	916	5.545658	TGCTCTTGCCTTTTTATAACGAG	57.454	39.130	0.00	0.00	38.71	4.18
900	917	5.619086	GCTTGCTCTTGCCTTTTTATAACGA	60.619	40.000	0.00	0.00	38.71	3.85
903	920	5.072040	GGCTTGCTCTTGCCTTTTTATAA	57.928	39.130	0.00	0.00	45.26	0.98
914	931	2.093606	TGATGAGAGAGGCTTGCTCTTG	60.094	50.000	15.54	0.00	42.50	3.02
918	936	0.540923	GGTGATGAGAGAGGCTTGCT	59.459	55.000	0.00	0.00	0.00	3.91
919	937	0.251354	TGGTGATGAGAGAGGCTTGC	59.749	55.000	0.00	0.00	0.00	4.01
920	938	1.406614	GGTGGTGATGAGAGAGGCTTG	60.407	57.143	0.00	0.00	0.00	4.01
921	939	0.908198	GGTGGTGATGAGAGAGGCTT	59.092	55.000	0.00	0.00	0.00	4.35
924	942	1.142748	GCGGTGGTGATGAGAGAGG	59.857	63.158	0.00	0.00	0.00	3.69
926	944	0.684535	TTTGCGGTGGTGATGAGAGA	59.315	50.000	0.00	0.00	0.00	3.10
927	945	1.081892	CTTTGCGGTGGTGATGAGAG	58.918	55.000	0.00	0.00	0.00	3.20
928	946	0.955428	GCTTTGCGGTGGTGATGAGA	60.955	55.000	0.00	0.00	0.00	3.27
929	947	1.236616	TGCTTTGCGGTGGTGATGAG	61.237	55.000	0.00	0.00	0.00	2.90
945	969	4.559862	ACAAACTGTATTAGGCTCTGCT	57.440	40.909	0.00	0.00	0.00	4.24
1068	1097	2.994995	ACGGTGATCCTGGCGTGA	60.995	61.111	0.00	0.00	0.00	4.35
1069	1098	2.815211	CACGGTGATCCTGGCGTG	60.815	66.667	0.74	8.91	0.00	5.34
1120	1161	1.586154	GACAAGCCGGTTGACATGGG	61.586	60.000	17.00	0.00	38.60	4.00
1276	1319	3.680786	CAGGTGTCGCCCGACTGA	61.681	66.667	19.88	0.00	44.80	3.41
1339	1382	2.051334	TGATATTGGGGTTGAAGCCG	57.949	50.000	7.39	0.00	36.39	5.52
1471	1522	1.393539	CAGGAACCAACGATGCGTAAG	59.606	52.381	0.00	0.00	39.99	2.34
1472	1523	1.434555	CAGGAACCAACGATGCGTAA	58.565	50.000	0.00	0.00	39.99	3.18
1473	1524	1.017177	GCAGGAACCAACGATGCGTA	61.017	55.000	0.00	0.00	39.99	4.42
1543	1595	5.052502	GGCGTCGTTCGAAAACAAAAATAAA	60.053	36.000	0.00	0.00	42.86	1.40
1557	1609	3.411351	CAGGTTGGGCGTCGTTCG	61.411	66.667	0.00	0.00	43.12	3.95
1572	1730	3.033909	TCTGACACTATCATGGTCCCAG	58.966	50.000	0.00	0.00	36.48	4.45
1660	1820	3.726557	ATCTTTTGGGAGTCTGCATGA	57.273	42.857	0.00	0.00	0.00	3.07
1664	1824	4.327680	ACAACTATCTTTTGGGAGTCTGC	58.672	43.478	0.00	0.00	0.00	4.26
1697	1858	5.546110	TCCCTCCGATCCATATTAATTGTCA	59.454	40.000	0.00	0.00	0.00	3.58
1829	1992	4.307432	TCTTAAACCTTTGACAGCTCTCG	58.693	43.478	0.00	0.00	0.00	4.04
1839	2002	9.942850	AAATATTCCACCATTCTTAAACCTTTG	57.057	29.630	0.00	0.00	0.00	2.77
1855	2018	2.365582	ACCGGCTGTGAAATATTCCAC	58.634	47.619	0.00	0.00	0.00	4.02
1873	2036	7.440523	ACATGATTTCTCAGTAGTTTTCACC	57.559	36.000	0.00	0.00	34.12	4.02
1905	2068	6.253942	ACGTTTTATCCCAAAAGTTTCAAACG	59.746	34.615	10.78	10.78	45.77	3.60
2024	2187	3.767902	TCACTGACACATGTTCATGGA	57.232	42.857	15.71	2.37	0.00	3.41
2031	2194	2.259266	TGCACATCACTGACACATGT	57.741	45.000	0.00	0.00	0.00	3.21
2078	2241	2.681422	CCCCAAAGCCATATCACCAAT	58.319	47.619	0.00	0.00	0.00	3.16
2107	2270	0.249398	ACCCGTCTGTGGTAAGCATC	59.751	55.000	0.00	0.00	33.26	3.91
2114	2277	0.256464	TTTTTGGACCCGTCTGTGGT	59.744	50.000	0.00	0.00	39.32	4.16
2115	2278	3.103637	TTTTTGGACCCGTCTGTGG	57.896	52.632	0.00	0.00	0.00	4.17
2139	2302	4.908601	TGGAACACATGATCACTAACCT	57.091	40.909	0.00	0.00	0.00	3.50
2163	2326	0.321564	TGTGCTGTGCTATTTCGGCT	60.322	50.000	0.00	0.00	36.94	5.52
2178	2341	7.168972	TGTTTAATGAATTTGTAGCACTTGTGC	59.831	33.333	16.98	16.98	0.00	4.57
2179	2342	8.572828	TGTTTAATGAATTTGTAGCACTTGTG	57.427	30.769	0.00	0.00	0.00	3.33
2199	2362	6.350103	TGGCCGTATCATGTTCTAATGTTTA	58.650	36.000	0.00	0.00	0.00	2.01
2200	2363	5.189928	TGGCCGTATCATGTTCTAATGTTT	58.810	37.500	0.00	0.00	0.00	2.83
2207	2370	6.605471	TTAGATATGGCCGTATCATGTTCT	57.395	37.500	35.66	22.60	34.27	3.01
2208	2371	6.238211	GCATTAGATATGGCCGTATCATGTTC	60.238	42.308	35.66	21.96	34.27	3.18
2209	2372	5.586243	GCATTAGATATGGCCGTATCATGTT	59.414	40.000	35.66	22.67	34.27	2.71
2210	2373	5.104776	AGCATTAGATATGGCCGTATCATGT	60.105	40.000	35.66	22.96	34.27	3.21
2211	2374	5.363101	AGCATTAGATATGGCCGTATCATG	58.637	41.667	35.66	30.72	34.27	3.07
2212	2375	5.620738	AGCATTAGATATGGCCGTATCAT	57.379	39.130	35.66	25.44	34.27	2.45
2213	2376	5.891551	TCTAGCATTAGATATGGCCGTATCA	59.108	40.000	35.66	22.52	34.27	2.15
2214	2377	6.263392	TCTCTAGCATTAGATATGGCCGTATC	59.737	42.308	30.32	30.32	35.43	2.24
2215	2378	6.129874	TCTCTAGCATTAGATATGGCCGTAT	58.870	40.000	17.71	17.71	35.43	3.06
2216	2379	5.506708	TCTCTAGCATTAGATATGGCCGTA	58.493	41.667	7.25	7.25	35.43	4.02
2217	2380	4.344978	TCTCTAGCATTAGATATGGCCGT	58.655	43.478	1.35	1.35	35.43	5.68
2218	2381	4.991153	TCTCTAGCATTAGATATGGCCG	57.009	45.455	0.00	0.00	35.43	6.13
2219	2382	6.477053	TCATCTCTAGCATTAGATATGGCC	57.523	41.667	0.00	0.00	39.32	5.36
2220	2383	7.555087	ACTTCATCTCTAGCATTAGATATGGC	58.445	38.462	7.89	0.00	39.32	4.40
2320	4093	7.528481	TGTATGATTGCATGCAATTCTTTTC	57.472	32.000	38.66	28.11	45.50	2.29
2380	4153	3.618594	CCGATGTGGTAATCTTGTGTCTG	59.381	47.826	0.00	0.00	0.00	3.51
2383	4156	2.569853	TCCCGATGTGGTAATCTTGTGT	59.430	45.455	0.00	0.00	35.15	3.72

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.