AutoCloner

Multiple sequence alignment - TraesCS3B01G538600

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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	TraesCS3B01G538600	chr3B	100.000	3103	0	0	1	3103	778402904	778406006	0.000000e+00	5731.0
1	TraesCS3B01G538600	chr3B	89.822	1405	84	24	1	1386	778441525	778442889	0.000000e+00	1748.0
2	TraesCS3B01G538600	chr3B	91.866	836	63	3	1345	2179	778392693	778393524	0.000000e+00	1162.0
3	TraesCS3B01G538600	chr3B	94.775	689	32	3	1468	2153	778442890	778443577	0.000000e+00	1070.0
4	TraesCS3B01G538600	chr3B	94.762	630	31	1	721	1350	778392045	778392672	0.000000e+00	979.0
5	TraesCS3B01G538600	chr3B	96.000	475	19	0	912	1386	778432029	778432503	0.000000e+00	773.0
6	TraesCS3B01G538600	chr3B	88.060	603	57	9	1582	2179	778432593	778433185	0.000000e+00	701.0
7	TraesCS3B01G538600	chr3B	78.378	185	29	7	516	693	778390621	778390801	3.270000e-20	110.0
8	TraesCS3B01G538600	chr3B	80.576	139	14	3	1916	2054	775972557	775972432	9.160000e-16	95.3
9	TraesCS3B01G538600	chr7A	99.567	924	4	0	2180	3103	732908344	732907421	0.000000e+00	1685.0
10	TraesCS3B01G538600	chr4A	99.356	931	4	1	2173	3103	729294197	729295125	0.000000e+00	1685.0
11	TraesCS3B01G538600	chr4A	87.393	349	27	12	3	347	628691999	628692334	4.850000e-103	385.0
12	TraesCS3B01G538600	chr2B	99.459	925	5	0	2179	3103	77770843	77769919	0.000000e+00	1681.0
13	TraesCS3B01G538600	chr2B	87.912	91	11	0	1379	1469	247368532	247368622	1.180000e-19	108.0
14	TraesCS3B01G538600	chr2A	99.460	926	4	1	2179	3103	755847950	755847025	0.000000e+00	1681.0
15	TraesCS3B01G538600	chr7B	99.459	924	5	0	2180	3103	423166880	423167803	0.000000e+00	1679.0
16	TraesCS3B01G538600	chr7B	99.353	927	6	0	2177	3103	537250977	537251903	0.000000e+00	1679.0
17	TraesCS3B01G538600	chr6B	99.459	924	5	0	2180	3103	555205471	555204548	0.000000e+00	1679.0
18	TraesCS3B01G538600	chr6B	85.849	106	13	2	32	137	571723639	571723536	9.100000e-21	111.0
19	TraesCS3B01G538600	chr6B	87.356	87	10	1	1384	1470	85383764	85383679	7.080000e-17	99.0
20	TraesCS3B01G538600	chr4B	99.459	924	5	0	2180	3103	481232405	481231482	0.000000e+00	1679.0
21	TraesCS3B01G538600	chr4B	78.947	152	19	9	32	174	522888692	522888545	1.190000e-14	91.6
22	TraesCS3B01G538600	chr3A	99.459	924	5	0	2180	3103	120581	119658	0.000000e+00	1679.0
23	TraesCS3B01G538600	chr6A	89.157	249	25	2	1	249	146782689	146782443	3.010000e-80	309.0
24	TraesCS3B01G538600	chr6A	86.364	88	12	0	1382	1469	263872888	263872801	2.550000e-16	97.1
25	TraesCS3B01G538600	chr3D	80.964	394	71	3	1712	2103	580587230	580586839	3.010000e-80	309.0
26	TraesCS3B01G538600	chr3D	78.816	321	63	3	1000	1316	582826283	582825964	8.720000e-51	211.0
27	TraesCS3B01G538600	chr3D	79.233	313	33	14	349	635	582842585	582842279	4.080000e-44	189.0
28	TraesCS3B01G538600	chr5B	86.047	258	24	8	75	330	210732119	210732366	1.830000e-67	267.0
29	TraesCS3B01G538600	chr5B	81.529	157	26	3	29	184	624957455	624957609	3.250000e-25	126.0
30	TraesCS3B01G538600	chr5B	80.255	157	28	3	29	184	628530536	628530690	7.030000e-22	115.0
31	TraesCS3B01G538600	chr5A	88.350	206	23	1	1	206	513888667	513888871	2.390000e-61	246.0
32	TraesCS3B01G538600	chr5D	87.640	89	10	1	1385	1472	441906490	441906578	5.470000e-18	102.0
33	TraesCS3B01G538600	chr5D	87.640	89	8	2	1384	1472	546857277	546857362	1.970000e-17	100.0
34	TraesCS3B01G538600	chr4D	88.235	85	10	0	1385	1469	482363635	482363719	5.470000e-18	102.0
35	TraesCS3B01G538600	chr2D	88.235	85	10	0	1385	1469	74975994	74975910	5.470000e-18	102.0
36	TraesCS3B01G538600	chr1A	86.667	90	11	1	1384	1472	546795219	546795130	7.080000e-17	99.0

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	TraesCS3B01G538600	chr3B	778402904	778406006	3102	False	5731.000000	5731	100.000000	1	3103	1	chr3B.!!$F1	3102
1	TraesCS3B01G538600	chr3B	778441525	778443577	2052	False	1409.000000	1748	92.298500	1	2153	2	chr3B.!!$F4	2152
2	TraesCS3B01G538600	chr3B	778390621	778393524	2903	False	750.333333	1162	88.335333	516	2179	3	chr3B.!!$F2	1663
3	TraesCS3B01G538600	chr3B	778432029	778433185	1156	False	737.000000	773	92.030000	912	2179	2	chr3B.!!$F3	1267
4	TraesCS3B01G538600	chr7A	732907421	732908344	923	True	1685.000000	1685	99.567000	2180	3103	1	chr7A.!!$R1	923
5	TraesCS3B01G538600	chr4A	729294197	729295125	928	False	1685.000000	1685	99.356000	2173	3103	1	chr4A.!!$F2	930
6	TraesCS3B01G538600	chr2B	77769919	77770843	924	True	1681.000000	1681	99.459000	2179	3103	1	chr2B.!!$R1	924
7	TraesCS3B01G538600	chr2A	755847025	755847950	925	True	1681.000000	1681	99.460000	2179	3103	1	chr2A.!!$R1	924
8	TraesCS3B01G538600	chr7B	423166880	423167803	923	False	1679.000000	1679	99.459000	2180	3103	1	chr7B.!!$F1	923
9	TraesCS3B01G538600	chr7B	537250977	537251903	926	False	1679.000000	1679	99.353000	2177	3103	1	chr7B.!!$F2	926
10	TraesCS3B01G538600	chr6B	555204548	555205471	923	True	1679.000000	1679	99.459000	2180	3103	1	chr6B.!!$R2	923
11	TraesCS3B01G538600	chr4B	481231482	481232405	923	True	1679.000000	1679	99.459000	2180	3103	1	chr4B.!!$R1	923
12	TraesCS3B01G538600	chr3A	119658	120581	923	True	1679.000000	1679	99.459000	2180	3103	1	chr3A.!!$R1	923

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
376	377	0.250234	TGCAGGGAGAGATGTTTCGG	59.750	55.0	0.0	0.0	0.0	4.30	F
377	378	0.250513	GCAGGGAGAGATGTTTCGGT	59.749	55.0	0.0	0.0	0.0	4.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1979	3275	0.039074	ACTCCTTGACAGCTTCGTCG	60.039	55.0	0.26	0.0	38.84	5.12	R
2159	3455	2.593925	AGCTCCCCCTTCTCTTTTTG	57.406	50.0	0.00	0.0	0.00	2.44	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
49	50	4.582656	AGATCAGGAGAGTTAGATGGTTCG	59.417	45.833	0.00	0.00	0.00	3.95
67	68	4.857037	GGTTCGTCTAATTGCCAAACATTC	59.143	41.667	0.00	0.00	0.00	2.67
69	70	5.895636	TCGTCTAATTGCCAAACATTCAT	57.104	34.783	0.00	0.00	0.00	2.57
85	86	4.142403	ACATTCATGCGTAACCTCCAATTG	60.142	41.667	0.00	0.00	0.00	2.32
109	110	8.877808	TGATATCTGCTGTGTTATCAGTTTAG	57.122	34.615	3.98	0.00	37.70	1.85
114	115	7.861630	TCTGCTGTGTTATCAGTTTAGTTTTC	58.138	34.615	0.00	0.00	37.70	2.29
139	140	8.286800	TCTTTTATCCGTGTTTTGTATCTTGTG	58.713	33.333	0.00	0.00	0.00	3.33
195	196	9.388506	AGGAAACATCATTCTAGTAAGACATTG	57.611	33.333	0.00	0.00	0.00	2.82
282	283	7.790782	TTTTTCTTGTAAAATAGGGCCTCAT	57.209	32.000	10.74	0.00	0.00	2.90
283	284	7.404671	TTTTCTTGTAAAATAGGGCCTCATC	57.595	36.000	10.74	0.00	0.00	2.92
284	285	5.048846	TCTTGTAAAATAGGGCCTCATCC	57.951	43.478	10.74	0.00	0.00	3.51
285	286	4.476846	TCTTGTAAAATAGGGCCTCATCCA	59.523	41.667	10.74	0.00	0.00	3.41
286	287	5.134339	TCTTGTAAAATAGGGCCTCATCCAT	59.866	40.000	10.74	0.00	0.00	3.41
307	308	1.681538	TTTTAGTTTCGCACAGGGCA	58.318	45.000	0.00	0.00	45.17	5.36
308	309	1.904287	TTTAGTTTCGCACAGGGCAT	58.096	45.000	0.00	0.00	45.17	4.40
341	342	2.203070	CAGCCCTGGTCGCCATAC	60.203	66.667	0.00	0.00	30.82	2.39
342	343	2.687200	AGCCCTGGTCGCCATACA	60.687	61.111	0.00	0.00	30.82	2.29
343	344	2.513897	GCCCTGGTCGCCATACAC	60.514	66.667	0.00	0.00	30.82	2.90
347	348	1.000955	CCCTGGTCGCCATACACTATC	59.999	57.143	0.00	0.00	30.82	2.08
368	369	2.861730	TCCACCTGCAGGGAGAGA	59.138	61.111	35.42	22.26	40.27	3.10
370	371	0.979709	TCCACCTGCAGGGAGAGATG	60.980	60.000	35.42	22.62	40.27	2.90
372	373	0.617413	CACCTGCAGGGAGAGATGTT	59.383	55.000	35.42	9.41	40.27	2.71
373	374	1.004044	CACCTGCAGGGAGAGATGTTT	59.996	52.381	35.42	8.61	40.27	2.83
374	375	1.280421	ACCTGCAGGGAGAGATGTTTC	59.720	52.381	35.42	0.00	40.27	2.78
375	376	1.649664	CTGCAGGGAGAGATGTTTCG	58.350	55.000	5.57	0.00	0.00	3.46
376	377	0.250234	TGCAGGGAGAGATGTTTCGG	59.750	55.000	0.00	0.00	0.00	4.30
377	378	0.250513	GCAGGGAGAGATGTTTCGGT	59.749	55.000	0.00	0.00	0.00	4.69
378	379	2.009042	GCAGGGAGAGATGTTTCGGTG	61.009	57.143	0.00	0.00	0.00	4.94
379	380	1.550524	CAGGGAGAGATGTTTCGGTGA	59.449	52.381	0.00	0.00	0.00	4.02
380	381	2.028112	CAGGGAGAGATGTTTCGGTGAA	60.028	50.000	0.00	0.00	0.00	3.18
381	382	2.840651	AGGGAGAGATGTTTCGGTGAAT	59.159	45.455	0.00	0.00	0.00	2.57
382	383	3.118592	AGGGAGAGATGTTTCGGTGAATC	60.119	47.826	0.00	0.00	0.00	2.52
383	384	3.369471	GGGAGAGATGTTTCGGTGAATCA	60.369	47.826	0.00	0.00	0.00	2.57
384	385	3.868077	GGAGAGATGTTTCGGTGAATCAG	59.132	47.826	0.00	0.00	0.00	2.90
385	386	4.382040	GGAGAGATGTTTCGGTGAATCAGA	60.382	45.833	0.00	0.00	0.00	3.27
386	387	5.152623	AGAGATGTTTCGGTGAATCAGAA	57.847	39.130	0.00	0.00	0.00	3.02
387	388	5.174395	AGAGATGTTTCGGTGAATCAGAAG	58.826	41.667	0.00	0.00	32.49	2.85
388	389	4.899502	AGATGTTTCGGTGAATCAGAAGT	58.100	39.130	0.00	0.00	32.49	3.01
389	390	4.692625	AGATGTTTCGGTGAATCAGAAGTG	59.307	41.667	0.00	0.00	32.49	3.16
390	391	4.066646	TGTTTCGGTGAATCAGAAGTGA	57.933	40.909	0.00	0.00	37.02	3.41
391	392	3.807622	TGTTTCGGTGAATCAGAAGTGAC	59.192	43.478	0.00	0.00	34.75	3.67
392	393	2.743636	TCGGTGAATCAGAAGTGACC	57.256	50.000	0.00	0.00	34.75	4.02
393	394	1.275291	TCGGTGAATCAGAAGTGACCC	59.725	52.381	0.00	0.00	34.75	4.46
394	395	1.276421	CGGTGAATCAGAAGTGACCCT	59.724	52.381	0.00	0.00	34.75	4.34
395	396	2.675317	CGGTGAATCAGAAGTGACCCTC	60.675	54.545	0.00	0.00	34.75	4.30
396	397	2.569404	GGTGAATCAGAAGTGACCCTCT	59.431	50.000	0.00	0.00	34.75	3.69
397	398	3.008485	GGTGAATCAGAAGTGACCCTCTT	59.992	47.826	0.00	0.00	34.75	2.85
398	399	4.223032	GGTGAATCAGAAGTGACCCTCTTA	59.777	45.833	0.00	0.00	34.75	2.10
399	400	5.104735	GGTGAATCAGAAGTGACCCTCTTAT	60.105	44.000	0.00	0.00	34.75	1.73
400	401	5.814705	GTGAATCAGAAGTGACCCTCTTATG	59.185	44.000	0.00	0.00	34.75	1.90
401	402	5.721480	TGAATCAGAAGTGACCCTCTTATGA	59.279	40.000	8.04	8.04	43.74	2.15
429	430	0.671472	TCTCGAGTCGTCGGTGCTAA	60.671	55.000	13.13	0.00	46.80	3.09
455	456	1.915489	TGGTTATGAGCCATGGACTGT	59.085	47.619	18.40	5.99	0.00	3.55
546	547	5.551233	CTTTCTACTCAAGGATGGTGTCAA	58.449	41.667	0.00	0.00	0.00	3.18
593	595	2.408271	TCAGCTTCGCCATCAAGATT	57.592	45.000	0.00	0.00	0.00	2.40
749	1998	7.633621	TGCTTAAATAAATCTCTCTGATTGCG	58.366	34.615	0.00	0.00	43.99	4.85
750	1999	7.280876	TGCTTAAATAAATCTCTCTGATTGCGT	59.719	33.333	0.00	0.00	43.99	5.24
853	2102	8.469200	CCTTTTGACCATAGCAATTGATAAGAA	58.531	33.333	10.34	0.00	0.00	2.52
877	2126	9.604626	GAACAAATGACACTAGAAAAATGAGAG	57.395	33.333	0.00	0.00	0.00	3.20
939	2188	2.105134	ACACCATTTGGACCAACTCGTA	59.895	45.455	6.36	0.00	38.94	3.43
990	2241	7.661968	TGTCCTAGCAAGTGATTCTGATATAC	58.338	38.462	0.00	0.00	0.00	1.47
1083	2334	1.884235	CCTTGCGTCTCAAAGGAGTT	58.116	50.000	0.00	0.00	42.05	3.01
1245	2496	4.660938	GCCTTTGACGGGCCACCT	62.661	66.667	4.39	0.00	43.49	4.00
1397	2674	4.523558	AGCTCATAAATACTCCCTCCGTAC	59.476	45.833	0.00	0.00	0.00	3.67
1411	2688	4.986659	CCCTCCGTACCAAAATATAAGACG	59.013	45.833	0.00	0.00	0.00	4.18
1416	2693	7.962917	TCCGTACCAAAATATAAGACGTTTTC	58.037	34.615	0.00	0.00	0.00	2.29
1417	2694	7.064490	TCCGTACCAAAATATAAGACGTTTTCC	59.936	37.037	0.00	0.00	0.00	3.13
1428	2705	4.830826	AGACGTTTTCCCAGTTCAAATC	57.169	40.909	0.00	0.00	0.00	2.17
1441	2718	8.869109	TCCCAGTTCAAATCAAGATGTAAAAAT	58.131	29.630	0.00	0.00	0.00	1.82
1506	2789	6.096705	TGTGTTGAAAGTTGAATTGGTCTCAT	59.903	34.615	0.00	0.00	0.00	2.90
1719	3012	8.196771	TGACAATTTTCTTCATTTAGTGCTTGT	58.803	29.630	0.00	0.00	0.00	3.16
1724	3017	5.689383	TCTTCATTTAGTGCTTGTTGTCC	57.311	39.130	0.00	0.00	0.00	4.02
1794	3090	1.140052	TGGACGCAAAAGAGAACCTCA	59.860	47.619	0.00	0.00	32.06	3.86
1922	3218	3.775654	GAGGTCGCTGGGGTGAGG	61.776	72.222	0.00	0.00	32.17	3.86
1931	3227	2.244117	CTGGGGTGAGGGTGATGACG	62.244	65.000	0.00	0.00	0.00	4.35
1979	3275	0.248949	GGATCGAGGACTACAACGCC	60.249	60.000	0.00	0.00	0.00	5.68
2038	3334	4.592351	CCATCTCATCTCCTACTTCACCAT	59.408	45.833	0.00	0.00	0.00	3.55
2055	3351	3.054434	CACCATGATCAGGGGAAAGTGTA	60.054	47.826	28.76	0.00	36.39	2.90
2153	3449	5.100259	GTGGCTTGAATCAACATGAAGATG	58.900	41.667	0.00	0.00	35.49	2.90
2159	3455	7.695618	GCTTGAATCAACATGAAGATGAGTTAC	59.304	37.037	0.00	0.00	32.14	2.50
2167	3463	9.390795	CAACATGAAGATGAGTTACAAAAAGAG	57.609	33.333	0.00	0.00	33.36	2.85
2307	3603	8.749354	AGGTTGTCAACAAGAAAAGTAAGAAAT	58.251	29.630	17.29	0.00	36.39	2.17
2688	3984	4.475345	CTCTACCCTAGTTAGCCATGTCT	58.525	47.826	0.00	0.00	0.00	3.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
29	30	3.695060	GACGAACCATCTAACTCTCCTGA	59.305	47.826	0.00	0.00	0.00	3.86
43	44	3.907894	GTTTGGCAATTAGACGAACCA	57.092	42.857	0.00	0.00	42.92	3.67
49	50	4.266029	CGCATGAATGTTTGGCAATTAGAC	59.734	41.667	0.00	0.00	0.00	2.59
67	68	5.702670	AGATATCAATTGGAGGTTACGCATG	59.297	40.000	5.42	0.00	0.00	4.06
69	70	5.056480	CAGATATCAATTGGAGGTTACGCA	58.944	41.667	5.42	0.00	0.00	5.24
85	86	8.879342	ACTAAACTGATAACACAGCAGATATC	57.121	34.615	0.00	0.00	43.68	1.63
109	110	9.673454	AGATACAAAACACGGATAAAAGAAAAC	57.327	29.630	0.00	0.00	0.00	2.43
114	115	8.073768	ACACAAGATACAAAACACGGATAAAAG	58.926	33.333	0.00	0.00	0.00	2.27
167	168	7.258441	TGTCTTACTAGAATGATGTTTCCTCG	58.742	38.462	0.00	0.00	30.65	4.63
168	169	9.606631	AATGTCTTACTAGAATGATGTTTCCTC	57.393	33.333	0.00	0.00	30.65	3.71
261	262	5.044476	TGGATGAGGCCCTATTTTACAAGAA	60.044	40.000	0.00	0.00	0.00	2.52
262	263	4.476846	TGGATGAGGCCCTATTTTACAAGA	59.523	41.667	0.00	0.00	0.00	3.02
265	266	5.402054	AATGGATGAGGCCCTATTTTACA	57.598	39.130	0.00	0.00	0.00	2.41
307	308	1.000233	TGGGCCGGCAAAATCTGAT	60.000	52.632	30.85	0.00	0.00	2.90
308	309	1.678635	CTGGGCCGGCAAAATCTGA	60.679	57.895	30.85	0.59	0.00	3.27
341	342	2.158986	CCTGCAGGTGGAGAAGATAGTG	60.159	54.545	25.53	0.00	35.31	2.74
342	343	2.114616	CCTGCAGGTGGAGAAGATAGT	58.885	52.381	25.53	0.00	35.31	2.12
343	344	1.415659	CCCTGCAGGTGGAGAAGATAG	59.584	57.143	30.63	7.41	35.31	2.08
347	348	3.811702	TCCCTGCAGGTGGAGAAG	58.188	61.111	30.63	13.94	35.31	2.85
367	368	4.690748	TCACTTCTGATTCACCGAAACATC	59.309	41.667	0.00	0.00	0.00	3.06
368	369	4.452455	GTCACTTCTGATTCACCGAAACAT	59.548	41.667	0.00	0.00	0.00	2.71
370	371	3.186613	GGTCACTTCTGATTCACCGAAAC	59.813	47.826	0.00	0.00	0.00	2.78
372	373	2.289444	GGGTCACTTCTGATTCACCGAA	60.289	50.000	0.00	0.00	0.00	4.30
373	374	1.275291	GGGTCACTTCTGATTCACCGA	59.725	52.381	0.00	0.00	0.00	4.69
374	375	1.276421	AGGGTCACTTCTGATTCACCG	59.724	52.381	0.00	0.00	0.00	4.94
375	376	2.569404	AGAGGGTCACTTCTGATTCACC	59.431	50.000	0.00	0.00	0.00	4.02
376	377	3.971245	AGAGGGTCACTTCTGATTCAC	57.029	47.619	0.00	0.00	0.00	3.18
377	378	5.721480	TCATAAGAGGGTCACTTCTGATTCA	59.279	40.000	0.00	0.00	29.86	2.57
378	379	6.227298	TCATAAGAGGGTCACTTCTGATTC	57.773	41.667	0.00	0.00	29.86	2.52
379	380	6.232581	CTCATAAGAGGGTCACTTCTGATT	57.767	41.667	0.00	0.00	38.26	2.57
380	381	5.867903	CTCATAAGAGGGTCACTTCTGAT	57.132	43.478	0.00	0.00	38.26	2.90
393	394	4.447290	TCGAGAGTGAGACCTCATAAGAG	58.553	47.826	2.78	0.00	42.18	2.85
394	395	4.080807	ACTCGAGAGTGAGACCTCATAAGA	60.081	45.833	21.68	0.00	42.18	2.10
395	396	4.196193	ACTCGAGAGTGAGACCTCATAAG	58.804	47.826	21.68	0.00	42.18	1.73
396	397	4.193090	GACTCGAGAGTGAGACCTCATAA	58.807	47.826	21.68	0.00	42.66	1.90
397	398	3.738590	CGACTCGAGAGTGAGACCTCATA	60.739	52.174	21.68	0.00	42.66	2.15
398	399	2.639065	GACTCGAGAGTGAGACCTCAT	58.361	52.381	21.68	0.00	42.66	2.90
399	400	1.673329	CGACTCGAGAGTGAGACCTCA	60.673	57.143	21.68	0.00	42.66	3.86
400	401	1.003851	CGACTCGAGAGTGAGACCTC	58.996	60.000	21.68	1.30	42.66	3.85
401	402	0.322322	ACGACTCGAGAGTGAGACCT	59.678	55.000	21.68	0.00	42.66	3.85
446	447	2.959507	TGTCGACCATACAGTCCATG	57.040	50.000	14.12	0.00	32.91	3.66
447	448	2.483714	GCATGTCGACCATACAGTCCAT	60.484	50.000	14.12	0.00	32.91	3.41
455	456	0.251634	TTGCCAGCATGTCGACCATA	59.748	50.000	14.12	0.00	30.71	2.74
546	547	5.595952	AGAAAAACAGAGCAAGGAGAAACAT	59.404	36.000	0.00	0.00	0.00	2.71
648	681	7.654116	TGACTTTGTTTGACTTGTGTATCGATA	59.346	33.333	0.00	0.00	0.00	2.92
749	1998	4.186926	TGCTCACTAAGATTGATGCAGAC	58.813	43.478	0.00	0.00	0.00	3.51
750	1999	4.476628	TGCTCACTAAGATTGATGCAGA	57.523	40.909	0.00	0.00	0.00	4.26
853	2102	8.682936	ACTCTCATTTTTCTAGTGTCATTTGT	57.317	30.769	0.00	0.00	0.00	2.83
877	2126	5.589050	AGAATGGTCGGGCTCTTTTATTAAC	59.411	40.000	0.00	0.00	0.00	2.01
882	2131	3.343617	CAAGAATGGTCGGGCTCTTTTA	58.656	45.455	0.00	0.00	0.00	1.52
917	2166	1.953686	CGAGTTGGTCCAAATGGTGTT	59.046	47.619	9.77	0.00	36.34	3.32
963	2212	6.737720	ATCAGAATCACTTGCTAGGACATA	57.262	37.500	0.00	0.00	0.00	2.29
964	2213	5.627182	ATCAGAATCACTTGCTAGGACAT	57.373	39.130	0.00	0.00	0.00	3.06
990	2241	2.887649	TGGTTCCACCATTATTGGCTGG	60.888	50.000	14.31	14.31	44.79	4.85
1083	2334	2.039216	CTCTAGGATGAGCTCGTAGGGA	59.961	54.545	8.83	4.55	42.87	4.20
1245	2496	0.755698	GAGGGTCAGTCGGCAGGATA	60.756	60.000	0.00	0.00	0.00	2.59
1374	2651	3.577919	ACGGAGGGAGTATTTATGAGCT	58.422	45.455	0.00	0.00	0.00	4.09
1397	2674	7.153217	ACTGGGAAAACGTCTTATATTTTGG	57.847	36.000	0.00	0.00	0.00	3.28
1411	2688	6.515832	ACATCTTGATTTGAACTGGGAAAAC	58.484	36.000	0.00	0.00	0.00	2.43
1416	2693	8.928733	CATTTTTACATCTTGATTTGAACTGGG	58.071	33.333	0.00	0.00	0.00	4.45
1417	2694	9.480053	ACATTTTTACATCTTGATTTGAACTGG	57.520	29.630	0.00	0.00	0.00	4.00
1490	2773	6.566079	TCTATGGATGAGACCAATTCAACT	57.434	37.500	0.00	0.00	43.47	3.16
1719	3012	2.662596	CGCTAGCCACAGGGACAA	59.337	61.111	9.66	0.00	35.59	3.18
1724	3017	2.816958	CACAGCGCTAGCCACAGG	60.817	66.667	10.99	0.00	46.67	4.00
1794	3090	1.004918	GTTGTGCCTCCACTAGCGT	60.005	57.895	0.00	0.00	42.54	5.07
1922	3218	0.456221	ACTCATCGTCCGTCATCACC	59.544	55.000	0.00	0.00	0.00	4.02
1979	3275	0.039074	ACTCCTTGACAGCTTCGTCG	60.039	55.000	0.26	0.00	38.84	5.12
2038	3334	3.711704	GGAGATACACTTTCCCCTGATCA	59.288	47.826	0.00	0.00	0.00	2.92
2055	3351	4.162690	GGACTTGGCCGCGGAGAT	62.163	66.667	33.48	8.66	0.00	2.75
2153	3449	4.981812	TCCCCCTTCTCTTTTTGTAACTC	58.018	43.478	0.00	0.00	0.00	3.01
2159	3455	2.593925	AGCTCCCCCTTCTCTTTTTG	57.406	50.000	0.00	0.00	0.00	2.44
2232	3528	5.371115	TTTATGCTTAATAAGATGGCCGC	57.629	39.130	3.88	0.00	32.30	6.53
2688	3984	4.200874	AGGTCGGTTAACATGTTGTTTGA	58.799	39.130	21.42	10.74	41.45	2.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.