AutoCloner

Multiple sequence alignment - TraesCS2D01G107800

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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	TraesCS2D01G107800	chr2D	100.000	3142	0	0	1	3142	60017179	60014038	0.000000e+00	5803.0
1	TraesCS2D01G107800	chr2D	85.451	1086	124	18	1290	2359	59731313	59730246	0.000000e+00	1099.0
2	TraesCS2D01G107800	chr2D	81.458	782	112	22	1584	2352	60022653	60021892	7.450000e-171	610.0
3	TraesCS2D01G107800	chr2D	90.043	231	22	1	984	1213	59657859	59658089	6.590000e-77	298.0
4	TraesCS2D01G107800	chr2B	88.207	2671	172	52	384	3013	93689994	93687426	0.000000e+00	3055.0
5	TraesCS2D01G107800	chr2B	86.761	1843	160	49	578	2375	93639722	93637919	0.000000e+00	1975.0
6	TraesCS2D01G107800	chr2B	86.351	1392	151	20	995	2359	93139380	93138001	0.000000e+00	1482.0
7	TraesCS2D01G107800	chr2B	84.678	1103	110	32	1540	2595	93446833	93445743	0.000000e+00	1046.0
8	TraesCS2D01G107800	chr2B	90.431	742	50	13	2419	3140	93636667	93635927	0.000000e+00	957.0
9	TraesCS2D01G107800	chr2B	82.554	556	66	19	949	1474	93447383	93446829	7.940000e-126	460.0
10	TraesCS2D01G107800	chr2B	80.568	458	70	12	1046	1484	94034309	94033852	5.020000e-88	335.0
11	TraesCS2D01G107800	chr2B	86.545	275	34	3	14	287	93692036	93691764	1.830000e-77	300.0
12	TraesCS2D01G107800	chr2B	86.572	283	19	9	384	647	93140011	93139729	8.520000e-76	294.0
13	TraesCS2D01G107800	chr2B	92.126	127	9	1	578	704	93453087	93452962	8.950000e-41	178.0
14	TraesCS2D01G107800	chr2B	95.000	80	4	0	847	926	93452773	93452694	3.290000e-25	126.0
15	TraesCS2D01G107800	chr2A	86.773	2442	171	65	386	2760	59874436	59872080	0.000000e+00	2580.0
16	TraesCS2D01G107800	chr2A	86.647	2434	181	60	386	2760	59934458	59932110	0.000000e+00	2562.0
17	TraesCS2D01G107800	chr2A	85.276	1596	176	27	799	2359	59728664	59727093	0.000000e+00	1591.0
18	TraesCS2D01G107800	chr2A	81.888	784	103	28	1585	2352	59880118	59879358	2.660000e-175	625.0
19	TraesCS2D01G107800	chr2A	88.219	365	38	4	2777	3139	59871634	59871273	6.230000e-117	431.0
20	TraesCS2D01G107800	chr2A	88.219	365	38	4	2777	3139	59931660	59931299	6.230000e-117	431.0
21	TraesCS2D01G107800	chr2A	87.640	267	26	6	384	647	59729215	59728953	1.420000e-78	303.0
22	TraesCS2D01G107800	chr2A	90.667	225	20	1	990	1213	59587302	59587526	6.590000e-77	298.0
23	TraesCS2D01G107800	chr2A	89.005	191	21	0	1294	1484	59723815	59724005	1.460000e-58	237.0
24	TraesCS2D01G107800	chr2A	83.333	60	9	1	384	442	59730178	59730119	2.000000e-03	54.7
25	TraesCS2D01G107800	chr7B	88.710	62	7	0	220	281	689902956	689903017	3.360000e-10	76.8
26	TraesCS2D01G107800	chr7B	85.000	60	9	0	222	281	488373932	488373873	9.410000e-06	62.1
27	TraesCS2D01G107800	chr1B	88.136	59	7	0	221	279	686917343	686917401	1.560000e-08	71.3
28	TraesCS2D01G107800	chr5B	85.714	63	9	0	225	287	539017884	539017822	2.020000e-07	67.6
29	TraesCS2D01G107800	chr3D	86.667	60	8	0	222	281	564808646	564808587	2.020000e-07	67.6
30	TraesCS2D01G107800	chr3B	87.273	55	7	0	225	279	752304851	752304797	2.620000e-06	63.9
31	TraesCS2D01G107800	chr7D	86.207	58	6	2	222	278	463699734	463699790	9.410000e-06	62.1

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	TraesCS2D01G107800	chr2D	60014038	60017179	3141	True	5803.000000	5803	100.000000	1	3142	1	chr2D.!!$R2	3141
1	TraesCS2D01G107800	chr2D	59730246	59731313	1067	True	1099.000000	1099	85.451000	1290	2359	1	chr2D.!!$R1	1069
2	TraesCS2D01G107800	chr2D	60021892	60022653	761	True	610.000000	610	81.458000	1584	2352	1	chr2D.!!$R3	768
3	TraesCS2D01G107800	chr2B	93687426	93692036	4610	True	1677.500000	3055	87.376000	14	3013	2	chr2B.!!$R6	2999
4	TraesCS2D01G107800	chr2B	93635927	93639722	3795	True	1466.000000	1975	88.596000	578	3140	2	chr2B.!!$R5	2562
5	TraesCS2D01G107800	chr2B	93138001	93140011	2010	True	888.000000	1482	86.461500	384	2359	2	chr2B.!!$R2	1975
6	TraesCS2D01G107800	chr2B	93445743	93447383	1640	True	753.000000	1046	83.616000	949	2595	2	chr2B.!!$R3	1646
7	TraesCS2D01G107800	chr2A	59871273	59874436	3163	True	1505.500000	2580	87.496000	386	3139	2	chr2A.!!$R3	2753
8	TraesCS2D01G107800	chr2A	59931299	59934458	3159	True	1496.500000	2562	87.433000	386	3139	2	chr2A.!!$R4	2753
9	TraesCS2D01G107800	chr2A	59727093	59730178	3085	True	649.566667	1591	85.416333	384	2359	3	chr2A.!!$R2	1975
10	TraesCS2D01G107800	chr2A	59879358	59880118	760	True	625.000000	625	81.888000	1585	2352	1	chr2A.!!$R1	767

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
135	136	0.104934	CCTAGCCTCACCTGGGGTAT	60.105	60.0	0.00	0.0	36.43	2.73	F
1321	3228	0.386858	GCTGTGACGCGTCTGTTCTA	60.387	55.0	36.27	15.5	0.00	2.10	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1689	3605	0.603569	AACGCGTCCTCAAGATCTGT	59.396	50.0	14.44	0.0	0.0	3.41	R
2543	5737	0.187606	TAGGAATAGGGGAGCGCAGA	59.812	55.0	11.47	0.0	0.0	4.26	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
67	68	0.605589	AAGACAACACCGGGCTAAGC	60.606	55.000	6.32	0.00	0.00	3.09
92	93	2.615240	GGCTTGGCATTTTTAGGTTGGG	60.615	50.000	0.00	0.00	0.00	4.12
98	99	3.501828	GGCATTTTTAGGTTGGGCTTTTG	59.498	43.478	0.00	0.00	0.00	2.44
125	126	2.355716	CCGATCCAAAAACCTAGCCTCA	60.356	50.000	0.00	0.00	0.00	3.86
128	129	2.062636	TCCAAAAACCTAGCCTCACCT	58.937	47.619	0.00	0.00	0.00	4.00
129	130	2.162681	CCAAAAACCTAGCCTCACCTG	58.837	52.381	0.00	0.00	0.00	4.00
135	136	0.104934	CCTAGCCTCACCTGGGGTAT	60.105	60.000	0.00	0.00	36.43	2.73
220	221	7.231317	ACCGATGGATGATTTGTTTATTGCTAT	59.769	33.333	0.00	0.00	0.00	2.97
228	229	7.499292	TGATTTGTTTATTGCTATGGGATTGG	58.501	34.615	0.00	0.00	0.00	3.16
246	247	1.278238	GGTAAATCTCACGCGACTGG	58.722	55.000	15.93	0.00	0.00	4.00
254	255	2.095567	TCTCACGCGACTGGTACTTAAC	60.096	50.000	15.93	0.00	0.00	2.01
278	279	7.203910	ACCAAGTCTCAGTCGATGTTATATTC	58.796	38.462	0.00	0.00	0.00	1.75
287	1304	4.617645	GTCGATGTTATATTCGTCTGCTCC	59.382	45.833	0.00	0.00	36.74	4.70
308	1325	6.682113	GCTCCATCATTGCACTTGATGTTATT	60.682	38.462	25.81	1.39	45.83	1.40
313	1330	7.155655	TCATTGCACTTGATGTTATTGCTAA	57.844	32.000	0.00	0.00	34.18	3.09
336	1353	3.749954	GCCTAGCCTTGATTGATCCATGT	60.750	47.826	0.00	0.00	0.00	3.21
337	1354	4.505566	GCCTAGCCTTGATTGATCCATGTA	60.506	45.833	0.00	0.00	0.00	2.29
358	1375	2.684943	TGGTCACCTGGTGTTAGAGAA	58.315	47.619	25.15	2.29	34.79	2.87
372	1389	6.975772	GGTGTTAGAGAACAGATAGCTACTTG	59.024	42.308	0.00	0.00	46.20	3.16
392	2066	4.008933	GGTCGTGACCCAGCTGCT	62.009	66.667	8.66	0.00	45.68	4.24
455	2130	3.015677	CGCACCGGTCAAAACGAA	58.984	55.556	2.59	0.00	0.00	3.85
472	2148	2.009774	CGAAGTGAATCGCCTTGGAAT	58.990	47.619	0.00	0.00	35.85	3.01
487	2183	0.539986	GGAATAACGCTGACTCCCCA	59.460	55.000	0.00	0.00	0.00	4.96
514	2210	1.240256	ATTCGCACGTAAGGCCAAAA	58.760	45.000	5.01	0.00	46.39	2.44
561	2257	2.659897	GCGTCCGCTAGCATGGAG	60.660	66.667	16.45	9.10	38.26	3.86
718	2422	2.004583	CCACGAATACGCCAAGAGAA	57.995	50.000	0.00	0.00	43.96	2.87
753	2505	0.598562	AGCTCGCAGTATACCCGATG	59.401	55.000	14.28	10.58	0.00	3.84
791	2568	5.475909	TCAGAGACTAACGTTGGACTAATGT	59.524	40.000	19.29	0.92	40.19	2.71
884	2738	7.713734	ATCTTTGGCTATAAATATGCATGCT	57.286	32.000	20.33	7.07	0.00	3.79
932	2794	2.431683	CCACCACCACTCCACCAG	59.568	66.667	0.00	0.00	0.00	4.00
933	2795	2.452064	CCACCACCACTCCACCAGT	61.452	63.158	0.00	0.00	34.67	4.00
934	2796	1.125093	CCACCACCACTCCACCAGTA	61.125	60.000	0.00	0.00	32.21	2.74
935	2797	0.762418	CACCACCACTCCACCAGTAA	59.238	55.000	0.00	0.00	32.21	2.24
936	2798	1.056660	ACCACCACTCCACCAGTAAG	58.943	55.000	0.00	0.00	32.21	2.34
937	2799	1.348064	CCACCACTCCACCAGTAAGA	58.652	55.000	0.00	0.00	32.21	2.10
938	2800	1.697432	CCACCACTCCACCAGTAAGAA	59.303	52.381	0.00	0.00	32.21	2.52
939	2801	2.550208	CCACCACTCCACCAGTAAGAAC	60.550	54.545	0.00	0.00	32.21	3.01
1011	2886	1.692173	TACTAACCATGGCCGCCTCC	61.692	60.000	13.04	0.00	0.00	4.30
1038	2916	1.419762	TGCCTTTCTCTTGTGGTGCTA	59.580	47.619	0.00	0.00	0.00	3.49
1213	3091	2.731976	GACTGCTTCGTCCAAGTAAGTG	59.268	50.000	0.00	0.00	33.60	3.16
1243	3129	2.288825	GCATAGCCTGATAGCCGTTACA	60.289	50.000	0.00	0.00	0.00	2.41
1247	3135	2.963101	AGCCTGATAGCCGTTACATACA	59.037	45.455	0.00	0.00	0.00	2.29
1261	3149	6.291374	CCGTTACATACACTGTTTTGTTTTGC	60.291	38.462	3.56	0.00	39.39	3.68
1321	3228	0.386858	GCTGTGACGCGTCTGTTCTA	60.387	55.000	36.27	15.50	0.00	2.10
1351	3258	0.536460	TGGAACAAAACGCTCTCCCC	60.536	55.000	0.00	0.00	31.92	4.81
1484	3391	2.044832	CTCCGTCGTCGCCGTAAGAT	62.045	60.000	0.00	0.00	35.77	2.40
1485	3392	1.653533	CCGTCGTCGCCGTAAGATC	60.654	63.158	0.00	0.00	35.77	2.75
1499	3409	5.230936	GCCGTAAGATCATCATACGATCATG	59.769	44.000	21.14	7.45	43.99	3.07
1508	3418	7.873739	TCATCATACGATCATGTTACATCAC	57.126	36.000	0.00	0.00	0.00	3.06
1509	3419	7.661040	TCATCATACGATCATGTTACATCACT	58.339	34.615	0.00	0.00	0.00	3.41
1511	3421	6.215845	TCATACGATCATGTTACATCACTGG	58.784	40.000	0.00	0.00	0.00	4.00
1582	3493	1.559149	TTGTTTCGTACCCTTCGCGC	61.559	55.000	0.00	0.00	0.00	6.86
1645	3561	3.452627	AGAGATTCCCTAGATGCAAACGT	59.547	43.478	0.00	0.00	0.00	3.99
1689	3605	1.533273	GGCCCTACATCTAGCCGGA	60.533	63.158	5.05	0.00	35.30	5.14
1702	3618	0.324738	AGCCGGACAGATCTTGAGGA	60.325	55.000	5.05	0.00	0.00	3.71
1724	3643	0.512952	CGTTCCGCAAGAAGAACCTG	59.487	55.000	0.00	0.00	43.02	4.00
1726	3645	1.531578	GTTCCGCAAGAAGAACCTGAC	59.468	52.381	0.00	0.00	43.02	3.51
1727	3646	0.756294	TCCGCAAGAAGAACCTGACA	59.244	50.000	0.00	0.00	43.02	3.58
1745	3664	2.879233	AACGGTCGACATGGTGGCT	61.879	57.895	18.91	0.00	0.00	4.75
1848	3770	3.371097	TTCGCCACATCTCTCCGGC	62.371	63.158	0.00	0.00	41.30	6.13
2087	4015	2.755469	ATGGGCAACATCGCACCC	60.755	61.111	0.00	0.00	43.14	4.61
2158	4086	5.468233	CTCGTGATTGACAGACGAGTTACG	61.468	50.000	18.48	0.00	43.40	3.18
2159	4087	2.341760	GTGATTGACAGACGAGTTACGC	59.658	50.000	0.00	0.00	46.94	4.42
2160	4088	2.030628	TGATTGACAGACGAGTTACGCA	60.031	45.455	0.00	0.00	46.94	5.24
2161	4089	1.762419	TTGACAGACGAGTTACGCAC	58.238	50.000	0.00	0.00	46.94	5.34
2169	4097	1.132199	CGAGTTACGCACTGCCTACG	61.132	60.000	0.00	0.00	35.01	3.51
2233	4203	6.272324	AGTGGCCAATATAAATACCAGCTCTA	59.728	38.462	7.24	0.00	0.00	2.43
2291	4264	6.973229	TCATGCATGCATCTACACATATAC	57.027	37.500	30.07	0.00	33.90	1.47
2344	4319	6.396829	GCAAAGGCATGGAGAATTACTATT	57.603	37.500	0.00	0.00	40.72	1.73
2460	5645	5.922544	CACTTCTCTTTCGAAATTTGGCATT	59.077	36.000	11.70	0.00	0.00	3.56
2483	5668	3.319972	AGGTAGCCGTGCTCGATTATTTA	59.680	43.478	10.21	0.00	40.44	1.40
2492	5678	6.411652	CGTGCTCGATTATTTAAGGAGAAAC	58.588	40.000	1.00	3.37	39.71	2.78
2536	5730	7.201478	GGAGAAAACTCGAGAATGTGAACTATG	60.201	40.741	21.68	0.00	0.00	2.23
2543	5737	5.069119	TCGAGAATGTGAACTATGGTATGCT	59.931	40.000	0.00	0.00	0.00	3.79
2555	5749	2.444706	TATGCTCTGCGCTCCCCT	60.445	61.111	9.73	0.00	40.11	4.79
2568	5762	5.216622	TGCGCTCCCCTATTCCTATATATT	58.783	41.667	9.73	0.00	0.00	1.28
2674	5881	8.835439	GTTCTTTCTTCTCTGTTCTTCTCAATT	58.165	33.333	0.00	0.00	0.00	2.32
2676	5883	9.050601	TCTTTCTTCTCTGTTCTTCTCAATTTC	57.949	33.333	0.00	0.00	0.00	2.17
2678	5885	8.600449	TTCTTCTCTGTTCTTCTCAATTTCTC	57.400	34.615	0.00	0.00	0.00	2.87
2713	5920	5.820423	CCCTTTTCCTTTTTGTTTGTTAGGG	59.180	40.000	0.00	0.00	0.00	3.53
2721	5940	9.384764	TCCTTTTTGTTTGTTAGGGTAAAAATG	57.615	29.630	0.00	0.00	0.00	2.32
2722	5941	9.168451	CCTTTTTGTTTGTTAGGGTAAAAATGT	57.832	29.630	0.00	0.00	0.00	2.71
3052	7109	7.010460	GTGAGCCATTTTAAAATATGAGTTGCC	59.990	37.037	12.98	0.00	0.00	4.52
3067	7124	7.671495	ATGAGTTGCCCATGTTTTAAAATTC	57.329	32.000	3.52	0.00	0.00	2.17

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
40	41	3.142951	CCCGGTGTTGTCTTATCACAAA	58.857	45.455	0.00	0.00	38.01	2.83
41	42	2.773487	CCCGGTGTTGTCTTATCACAA	58.227	47.619	0.00	0.00	33.75	3.33
67	68	1.207811	CCTAAAAATGCCAAGCCAGGG	59.792	52.381	0.00	0.00	0.00	4.45
71	72	2.615240	CCCAACCTAAAAATGCCAAGCC	60.615	50.000	0.00	0.00	0.00	4.35
81	82	2.032620	TCGCAAAAGCCCAACCTAAAA	58.967	42.857	0.00	0.00	0.00	1.52
92	93	1.136774	GGATCGGGTTCGCAAAAGC	59.863	57.895	0.00	0.00	36.13	3.51
98	99	0.109458	GGTTTTTGGATCGGGTTCGC	60.109	55.000	0.00	0.00	36.13	4.70
102	103	1.340697	GGCTAGGTTTTTGGATCGGGT	60.341	52.381	0.00	0.00	0.00	5.28
107	108	2.649816	AGGTGAGGCTAGGTTTTTGGAT	59.350	45.455	0.00	0.00	0.00	3.41
108	109	2.062636	AGGTGAGGCTAGGTTTTTGGA	58.937	47.619	0.00	0.00	0.00	3.53
125	126	5.159637	TGTATAGCATAACATACCCCAGGT	58.840	41.667	0.00	0.00	40.16	4.00
128	129	5.221966	GGGTTGTATAGCATAACATACCCCA	60.222	44.000	16.22	0.00	39.02	4.96
129	130	5.221966	TGGGTTGTATAGCATAACATACCCC	60.222	44.000	20.12	14.42	41.38	4.95
135	136	4.141287	GCCATGGGTTGTATAGCATAACA	58.859	43.478	15.13	0.00	30.22	2.41
169	170	1.250840	AATCCAAACGCTGGGAAGGC	61.251	55.000	4.41	0.00	46.44	4.35
172	173	1.611491	GTTCAATCCAAACGCTGGGAA	59.389	47.619	4.41	0.00	46.44	3.97
179	180	3.063452	CCATCGGTAGTTCAATCCAAACG	59.937	47.826	0.00	0.00	0.00	3.60
194	195	5.360714	AGCAATAAACAAATCATCCATCGGT	59.639	36.000	0.00	0.00	0.00	4.69
220	221	2.639065	GCGTGAGATTTACCAATCCCA	58.361	47.619	0.00	0.00	39.95	4.37
228	229	1.992170	ACCAGTCGCGTGAGATTTAC	58.008	50.000	5.77	0.00	0.00	2.01
246	247	5.368256	TCGACTGAGACTTGGTTAAGTAC	57.632	43.478	0.00	0.00	46.79	2.73
254	255	6.360947	CGAATATAACATCGACTGAGACTTGG	59.639	42.308	0.00	0.00	41.43	3.61
278	279	0.376152	GTGCAATGATGGAGCAGACG	59.624	55.000	0.00	0.00	39.21	4.18
313	1330	2.130193	TGGATCAATCAAGGCTAGGCT	58.870	47.619	14.10	14.10	0.00	4.58
336	1353	4.055710	TCTCTAACACCAGGTGACCATA	57.944	45.455	27.39	11.81	36.96	2.74
337	1354	2.902608	TCTCTAACACCAGGTGACCAT	58.097	47.619	27.39	11.30	36.96	3.55
345	1362	5.590530	AGCTATCTGTTCTCTAACACCAG	57.409	43.478	0.00	0.00	40.69	4.00
348	1365	7.763356	TCAAGTAGCTATCTGTTCTCTAACAC	58.237	38.462	0.00	0.00	40.69	3.32
358	1375	4.017808	ACGACCTTCAAGTAGCTATCTGT	58.982	43.478	0.00	0.00	0.00	3.41
392	2066	2.336341	GGCCAACACGGACAATTCA	58.664	52.632	0.00	0.00	45.64	2.57
455	2130	2.936498	CGTTATTCCAAGGCGATTCACT	59.064	45.455	0.00	0.00	0.00	3.41
472	2148	0.830444	AGTGTGGGGAGTCAGCGTTA	60.830	55.000	0.00	0.00	0.00	3.18
487	2183	3.733077	GCCTTACGTGCGAATAGTAGTGT	60.733	47.826	0.00	0.00	0.00	3.55
526	2222	3.807538	CTGGAGCCATGTGTGCGC	61.808	66.667	0.00	0.00	0.00	6.09
753	2505	0.382515	CTCTGACTCCCGTTCGATCC	59.617	60.000	0.00	0.00	0.00	3.36
791	2568	6.483307	CGATAGCTCATCCAAAATTTAGGTCA	59.517	38.462	0.00	0.00	0.00	4.02
932	2794	5.577554	GCTACCTGCACTTCTTAGTTCTTAC	59.422	44.000	0.00	0.00	42.31	2.34
933	2795	5.480772	AGCTACCTGCACTTCTTAGTTCTTA	59.519	40.000	0.00	0.00	45.94	2.10
934	2796	4.284746	AGCTACCTGCACTTCTTAGTTCTT	59.715	41.667	0.00	0.00	45.94	2.52
935	2797	3.835395	AGCTACCTGCACTTCTTAGTTCT	59.165	43.478	0.00	0.00	45.94	3.01
936	2798	4.195225	AGCTACCTGCACTTCTTAGTTC	57.805	45.455	0.00	0.00	45.94	3.01
937	2799	4.773149	ACTAGCTACCTGCACTTCTTAGTT	59.227	41.667	0.00	0.00	45.94	2.24
938	2800	4.345854	ACTAGCTACCTGCACTTCTTAGT	58.654	43.478	0.00	0.00	45.94	2.24
939	2801	4.993029	ACTAGCTACCTGCACTTCTTAG	57.007	45.455	0.00	0.00	45.94	2.18
965	2830	1.577328	GCAAGAGCAAAGCTACGCCA	61.577	55.000	3.76	0.00	39.88	5.69
986	2859	1.000955	CGGCCATGGTTAGTAGCTAGG	59.999	57.143	14.67	0.00	0.00	3.02
1011	2886	0.801251	CAAGAGAAAGGCAAGAGGCG	59.199	55.000	0.00	0.00	46.16	5.52
1213	3091	2.196776	AGGCTATGCATGTGGCCC	59.803	61.111	25.78	13.05	45.07	5.80
1243	3129	6.371271	AGCAAAAGCAAAACAAAACAGTGTAT	59.629	30.769	0.00	0.00	0.00	2.29
1247	3135	5.451039	CAAGCAAAAGCAAAACAAAACAGT	58.549	33.333	0.00	0.00	0.00	3.55
1261	3149	7.537306	ACGTATAGTGTTTATTGCAAGCAAAAG	59.463	33.333	11.89	0.00	39.55	2.27
1272	3161	8.761497	GCACATCACATACGTATAGTGTTTATT	58.239	33.333	24.47	12.02	34.94	1.40
1273	3162	7.923878	TGCACATCACATACGTATAGTGTTTAT	59.076	33.333	24.47	15.21	34.94	1.40
1321	3228	2.362077	GTTTTGTTCCATGCCAGACAGT	59.638	45.455	0.00	0.00	0.00	3.55
1351	3258	4.368808	CGCAGCGACCCGTTGTTG	62.369	66.667	9.98	0.00	40.05	3.33
1377	3284	3.257393	GTCTTGATGCTGTCGATGACTT	58.743	45.455	0.00	0.00	33.15	3.01
1378	3285	2.733542	CGTCTTGATGCTGTCGATGACT	60.734	50.000	0.00	0.00	33.15	3.41
1484	3391	7.596248	CAGTGATGTAACATGATCGTATGATGA	59.404	37.037	1.08	0.00	34.09	2.92
1485	3392	7.148689	CCAGTGATGTAACATGATCGTATGATG	60.149	40.741	1.08	0.00	34.09	3.07
1499	3409	1.672881	GCATCCAGCCAGTGATGTAAC	59.327	52.381	0.00	0.00	40.37	2.50
1564	3475	2.023223	GCGCGAAGGGTACGAAACA	61.023	57.895	12.10	0.00	44.71	2.83
1565	3476	2.774126	GCGCGAAGGGTACGAAAC	59.226	61.111	12.10	0.00	44.71	2.78
1647	3563	3.423154	GTCGCTGTTTGCCTCCGG	61.423	66.667	0.00	0.00	38.78	5.14
1689	3605	0.603569	AACGCGTCCTCAAGATCTGT	59.396	50.000	14.44	0.00	0.00	3.41
1724	3643	1.289109	CCACCATGTCGACCGTTGTC	61.289	60.000	14.12	0.00	38.18	3.18
1726	3645	2.677003	GCCACCATGTCGACCGTTG	61.677	63.158	14.12	8.11	0.00	4.10
1727	3646	2.358247	GCCACCATGTCGACCGTT	60.358	61.111	14.12	0.00	0.00	4.44
1924	3852	4.219944	GTGACATGAGGTTGGTGTAGTAGA	59.780	45.833	0.00	0.00	0.00	2.59
2087	4015	4.760047	CCCTGCGTCCCCGTCTTG	62.760	72.222	0.00	0.00	36.15	3.02
2233	4203	7.116662	TGCTCGTACATAAAATACACGTTTTCT	59.883	33.333	0.00	0.00	33.62	2.52
2291	4264	4.119862	AGTGGGAATTCGATCGTTACATG	58.880	43.478	15.94	0.00	0.00	3.21
2460	5645	1.971481	TAATCGAGCACGGCTACCTA	58.029	50.000	3.11	0.00	39.88	3.08
2505	5693	5.061064	CACATTCTCGAGTTTTCTCCTAACG	59.939	44.000	13.13	0.00	43.49	3.18
2543	5737	0.187606	TAGGAATAGGGGAGCGCAGA	59.812	55.000	11.47	0.00	0.00	4.26
2555	5749	9.555411	TTCTGCAGTGGGTAATATATAGGAATA	57.445	33.333	14.67	0.00	0.00	1.75
2568	5762	3.133003	GCTTCTATCTTCTGCAGTGGGTA	59.867	47.826	14.67	7.46	0.00	3.69
2674	5881	1.529744	AAGGGAAAGTGGTGGGAGAA	58.470	50.000	0.00	0.00	0.00	2.87
2676	5883	2.239400	GAAAAGGGAAAGTGGTGGGAG	58.761	52.381	0.00	0.00	0.00	4.30
2678	5885	1.133167	AGGAAAAGGGAAAGTGGTGGG	60.133	52.381	0.00	0.00	0.00	4.61
2723	5942	9.776158	GGTTTTCGTGTAATTTTGGAAAAATTT	57.224	25.926	14.03	0.00	38.05	1.82
2724	5943	9.168451	AGGTTTTCGTGTAATTTTGGAAAAATT	57.832	25.926	13.49	13.49	38.05	1.82
2725	5944	8.608317	CAGGTTTTCGTGTAATTTTGGAAAAAT	58.392	29.630	7.50	0.00	38.05	1.82
2726	5945	7.603024	ACAGGTTTTCGTGTAATTTTGGAAAAA	59.397	29.630	7.50	0.00	45.34	1.94
2727	5946	7.097834	ACAGGTTTTCGTGTAATTTTGGAAAA	58.902	30.769	0.00	0.00	45.34	2.29
2728	5947	6.631962	ACAGGTTTTCGTGTAATTTTGGAAA	58.368	32.000	0.00	0.00	45.34	3.13
2729	5948	6.095720	AGACAGGTTTTCGTGTAATTTTGGAA	59.904	34.615	0.00	0.00	46.80	3.53
2990	7046	2.971901	TCATATACTCCCTCCTCGCA	57.028	50.000	0.00	0.00	0.00	5.10

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.