AutoCloner

Multiple sequence alignment - TraesCS6A01G101700

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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	TraesCS6A01G101700	chr6A	100.000	4572	0	0	1	4572	70424513	70429084	0.000000e+00	8444.0
1	TraesCS6A01G101700	chr6D	93.417	4405	198	44	1	4348	55929288	55933657	0.000000e+00	6444.0
2	TraesCS6A01G101700	chr6B	92.376	2833	143	40	1	2804	126141585	126144373	0.000000e+00	3967.0
3	TraesCS6A01G101700	chr6B	93.826	907	38	12	3082	3976	126144810	126145710	0.000000e+00	1349.0
4	TraesCS6A01G101700	chr6B	92.857	210	15	0	4217	4426	126145825	126146034	5.750000e-79	305.0
5	TraesCS6A01G101700	chr6B	94.286	105	6	0	4430	4534	126146081	126146185	1.320000e-35	161.0
6	TraesCS6A01G101700	chr6B	91.453	117	7	2	4047	4161	126145709	126145824	1.700000e-34	158.0
7	TraesCS6A01G101700	chr6B	83.951	81	13	0	4433	4513	189274757	189274677	1.360000e-10	78.7
8	TraesCS6A01G101700	chr5A	91.850	2000	136	12	1021	3003	700466654	700468643	0.000000e+00	2765.0
9	TraesCS6A01G101700	chr2A	91.696	1999	127	16	1021	3003	585311692	585309717	0.000000e+00	2736.0
10	TraesCS6A01G101700	chr2A	88.206	407	30	8	1021	1415	756801790	756802190	1.930000e-128	470.0
11	TraesCS6A01G101700	chr4A	90.040	1506	127	10	1024	2515	422206987	422205491	0.000000e+00	1929.0
12	TraesCS6A01G101700	chr4A	98.113	53	1	0	2951	3003	422204488	422204436	4.870000e-15	93.5
13	TraesCS6A01G101700	chr3B	89.705	1117	87	13	1021	2117	10904050	10905158	0.000000e+00	1400.0
14	TraesCS6A01G101700	chr3B	97.150	421	11	1	2583	3003	547647906	547648325	0.000000e+00	710.0
15	TraesCS6A01G101700	chr3B	96.437	421	14	1	2583	3003	10905156	10905575	0.000000e+00	693.0
16	TraesCS6A01G101700	chr3B	93.717	382	24	0	1736	2117	547647527	547647908	1.430000e-159	573.0
17	TraesCS6A01G101700	chr3B	92.478	226	12	2	1021	1246	547646610	547646830	7.380000e-83	318.0
18	TraesCS6A01G101700	chr1B	89.844	1093	88	12	1045	2117	86948705	86949794	0.000000e+00	1382.0
19	TraesCS6A01G101700	chr1B	97.387	421	9	2	2583	3003	86949792	86950210	0.000000e+00	715.0
20	TraesCS6A01G101700	chr1B	82.156	269	48	0	4161	4429	194778764	194779032	9.890000e-57	231.0
21	TraesCS6A01G101700	chr7D	97.869	610	11	1	2394	3003	530088931	530088324	0.000000e+00	1053.0
22	TraesCS6A01G101700	chr7D	91.977	698	38	8	1051	1734	530089616	530088923	0.000000e+00	963.0
23	TraesCS6A01G101700	chr7D	81.413	269	50	0	4161	4429	16202133	16201865	2.140000e-53	220.0
24	TraesCS6A01G101700	chr7B	98.100	421	8	0	2583	3003	714860682	714860262	0.000000e+00	734.0
25	TraesCS6A01G101700	chr7B	93.123	349	24	0	1769	2117	714861028	714860680	3.150000e-141	512.0
26	TraesCS6A01G101700	chr7B	90.667	225	16	2	1022	1246	714861677	714861458	1.240000e-75	294.0
27	TraesCS6A01G101700	chr3D	83.267	251	42	0	4161	4411	584686305	584686555	9.890000e-57	231.0
28	TraesCS6A01G101700	chrUn	81.955	266	48	0	4164	4429	1372797	1372532	4.600000e-55	226.0
29	TraesCS6A01G101700	chr5D	82.937	252	41	2	4161	4411	310532411	310532661	4.600000e-55	226.0
30	TraesCS6A01G101700	chr7A	81.413	269	50	0	4161	4429	418714204	418714472	2.140000e-53	220.0
31	TraesCS6A01G101700	chr1D	81.481	270	48	2	4161	4429	80667984	80667716	2.140000e-53	220.0
32	TraesCS6A01G101700	chr2B	83.333	84	13	1	4430	4513	583419334	583419252	4.900000e-10	76.8

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	TraesCS6A01G101700	chr6A	70424513	70429084	4571	False	8444.000000	8444	100.000000	1	4572	1	chr6A.!!$F1	4571
1	TraesCS6A01G101700	chr6D	55929288	55933657	4369	False	6444.000000	6444	93.417000	1	4348	1	chr6D.!!$F1	4347
2	TraesCS6A01G101700	chr6B	126141585	126146185	4600	False	1188.000000	3967	92.959600	1	4534	5	chr6B.!!$F1	4533
3	TraesCS6A01G101700	chr5A	700466654	700468643	1989	False	2765.000000	2765	91.850000	1021	3003	1	chr5A.!!$F1	1982
4	TraesCS6A01G101700	chr2A	585309717	585311692	1975	True	2736.000000	2736	91.696000	1021	3003	1	chr2A.!!$R1	1982
5	TraesCS6A01G101700	chr4A	422204436	422206987	2551	True	1011.250000	1929	94.076500	1024	3003	2	chr4A.!!$R1	1979
6	TraesCS6A01G101700	chr3B	10904050	10905575	1525	False	1046.500000	1400	93.071000	1021	3003	2	chr3B.!!$F1	1982
7	TraesCS6A01G101700	chr3B	547646610	547648325	1715	False	533.666667	710	94.448333	1021	3003	3	chr3B.!!$F2	1982
8	TraesCS6A01G101700	chr1B	86948705	86950210	1505	False	1048.500000	1382	93.615500	1045	3003	2	chr1B.!!$F2	1958
9	TraesCS6A01G101700	chr7D	530088324	530089616	1292	True	1008.000000	1053	94.923000	1051	3003	2	chr7D.!!$R2	1952
10	TraesCS6A01G101700	chr7B	714860262	714861677	1415	True	513.333333	734	93.963333	1022	3003	3	chr7B.!!$R1	1981

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
901	925	0.107945	GTCTACTGAAGCCAGCCCAG	60.108	60.0	7.76	7.76	44.16	4.45	F
1836	2395	0.039618	TGGGATTTGCAGAGGGGAAC	59.960	55.0	0.00	0.00	0.00	3.62	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1914	2473	1.414158	TGAGATCCGTCTTCATCCCC	58.586	55.000	0.00	0.00	33.97	4.81	R
3744	5110	1.827969	AGCGTTAGAGAGGCTCACAAT	59.172	47.619	18.26	1.65	45.89	2.71	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
66	67	4.489810	CAATTAATTTAAGTGTGGCGCCA	58.510	39.130	29.03	29.03	0.00	5.69
79	80	1.742831	TGGCGCCACAGTTTAATCATC	59.257	47.619	29.03	0.00	0.00	2.92
476	483	3.461773	ACCGGCATGACCTCCTCG	61.462	66.667	0.00	0.00	35.61	4.63
477	484	3.461773	CCGGCATGACCTCCTCGT	61.462	66.667	0.00	0.00	35.61	4.18
566	576	1.294659	GGTCCTTGTCGAGCTGCTTG	61.295	60.000	10.76	10.76	0.00	4.01
742	752	2.947652	CCATCAGATAGCTTGGTTGGTG	59.052	50.000	0.00	0.00	0.00	4.17
901	925	0.107945	GTCTACTGAAGCCAGCCCAG	60.108	60.000	7.76	7.76	44.16	4.45
941	973	3.976339	CTGGAGCCCAGTTATCTCG	57.024	57.895	11.85	0.00	45.82	4.04
942	974	0.390860	CTGGAGCCCAGTTATCTCGG	59.609	60.000	11.85	0.00	45.82	4.63
943	975	1.069935	GGAGCCCAGTTATCTCGGC	59.930	63.158	1.44	1.44	46.01	5.54
944	976	1.069935	GAGCCCAGTTATCTCGGCC	59.930	63.158	5.88	0.00	46.67	6.13
945	977	2.111251	GCCCAGTTATCTCGGCCC	59.889	66.667	0.00	0.00	41.12	5.80
965	997	2.765807	CCCGAGACCATCAGGCCT	60.766	66.667	0.00	0.00	39.06	5.19
1377	1431	1.817099	GCACGATCCTTGAGCTGGG	60.817	63.158	0.00	0.00	0.00	4.45
1480	1630	2.906389	TGCAGAGAGGGTTTGAGTATGT	59.094	45.455	0.00	0.00	0.00	2.29
1483	1633	4.753233	CAGAGAGGGTTTGAGTATGTGAG	58.247	47.826	0.00	0.00	0.00	3.51
1500	1650	8.046708	AGTATGTGAGGCTGATTGTATTTGTTA	58.953	33.333	0.00	0.00	0.00	2.41
1501	1651	7.701539	ATGTGAGGCTGATTGTATTTGTTAA	57.298	32.000	0.00	0.00	0.00	2.01
1502	1652	6.908825	TGTGAGGCTGATTGTATTTGTTAAC	58.091	36.000	0.00	0.00	0.00	2.01
1503	1653	6.714810	TGTGAGGCTGATTGTATTTGTTAACT	59.285	34.615	7.22	0.00	0.00	2.24
1519	1669	4.081309	TGTTAACTCGTTAGGATGGGGAAG	60.081	45.833	7.22	0.00	0.00	3.46
1615	2140	6.128363	GCTTTGGTTACTGTTAGTGTATCCAC	60.128	42.308	0.00	0.00	38.63	4.02
1636	2189	1.618837	TGTAACTGTGAGGGCTGACTC	59.381	52.381	0.00	0.00	37.99	3.36
1722	2281	2.047655	TTCGCGGCGAATCTTGGT	60.048	55.556	31.54	0.00	41.05	3.67
1836	2395	0.039618	TGGGATTTGCAGAGGGGAAC	59.960	55.000	0.00	0.00	0.00	3.62
1889	2448	2.719979	GCATGCCGCAATGGAGAG	59.280	61.111	6.36	0.00	42.00	3.20
1905	2464	2.672307	AGCACAGCCAGCAAGCTC	60.672	61.111	0.00	0.00	42.61	4.09
1906	2465	2.981909	GCACAGCCAGCAAGCTCA	60.982	61.111	0.00	0.00	42.61	4.26
1914	2473	1.403780	GCCAGCAAGCTCAGGAAATTG	60.404	52.381	2.87	0.00	0.00	2.32
2037	2596	3.644738	TGATCTTGAGCTATGGATCTGCA	59.355	43.478	17.37	0.00	36.51	4.41
2328	2888	8.637099	TGTTTGTCATTTCCAGTCAATATTTCA	58.363	29.630	0.00	0.00	0.00	2.69
2354	2914	2.028748	ACAAAATGACTCTGCAATGGCC	60.029	45.455	0.00	0.00	40.13	5.36
3025	4271	1.185315	CCATGGCTGGTTACCCAAAG	58.815	55.000	0.00	0.00	41.27	2.77
3036	4282	4.582656	TGGTTACCCAAAGAACATCTTGTG	59.417	41.667	0.00	0.00	36.71	3.33
3076	4327	6.930667	AAATAATTGCTCATTTTCATGGCC	57.069	33.333	0.00	0.00	0.00	5.36
3113	4468	5.516696	CGTGTATCATCTTTATAGGATGCCG	59.483	44.000	10.89	0.00	40.02	5.69
3266	4623	1.064906	CCCCATCTGTGTGCTCATCTT	60.065	52.381	0.00	0.00	0.00	2.40
3372	4731	5.983118	CCAAACACAGGTCTTACCATTTTTC	59.017	40.000	0.00	0.00	41.95	2.29
3440	4799	4.000325	TGTAATGTAATCAACAGCGTGCT	59.000	39.130	0.00	0.00	42.70	4.40
3710	5072	3.105283	GTGGTACTGGGAACTCATAGGT	58.895	50.000	0.00	0.00	0.00	3.08
3744	5110	7.710044	CAGTAGTAGTTACTTCGTGGAGATCTA	59.290	40.741	0.00	0.00	40.68	1.98
3771	5137	3.097614	AGCCTCTCTAACGCTTTCCTTA	58.902	45.455	0.00	0.00	0.00	2.69
3772	5138	3.514309	AGCCTCTCTAACGCTTTCCTTAA	59.486	43.478	0.00	0.00	0.00	1.85
3834	5200	1.459450	AACGTGGCAGTTGTTTCTGT	58.541	45.000	0.00	0.00	37.70	3.41
3955	5321	8.472007	ACAAATACTGGAATGTGTTTTCCTAA	57.528	30.769	4.96	0.00	44.63	2.69
3984	5353	1.095228	ATGAAAGCATGGCGGTACCG	61.095	55.000	30.06	30.06	43.94	4.02
3998	5367	3.853475	CGGTACCGATCACCTTTACTTT	58.147	45.455	30.64	0.00	42.83	2.66
4011	5380	5.412594	CACCTTTACTTTGCAGCTTCAGATA	59.587	40.000	0.00	0.00	0.00	1.98
4022	5391	5.591472	TGCAGCTTCAGATATGTGCTTTTAT	59.409	36.000	7.61	0.00	0.00	1.40
4118	5493	7.410174	TCCCTGTGGTACAAAATTATTCATCT	58.590	34.615	0.00	0.00	44.16	2.90
4148	5523	4.508662	GTCCTATATGTTGGCTATCCTGC	58.491	47.826	0.00	0.00	0.00	4.85
4174	5551	1.517257	CGAAGCAGGAGTAGTGCCG	60.517	63.158	0.00	0.00	42.24	5.69
4184	5561	1.301401	GTAGTGCCGCACCTTGTCA	60.301	57.895	19.96	0.00	34.49	3.58
4195	5572	0.251341	ACCTTGTCAATGGTGCCCTC	60.251	55.000	6.06	0.00	34.90	4.30
4198	5575	1.004044	CTTGTCAATGGTGCCCTCTCT	59.996	52.381	0.00	0.00	0.00	3.10
4215	5592	3.329386	TCTCTATCTTGCAATATGCCGC	58.671	45.455	7.53	0.00	44.23	6.53
4221	5598	3.475575	TCTTGCAATATGCCGCTGATAA	58.524	40.909	0.00	0.00	44.23	1.75
4257	5634	9.601810	TTAGGAATATGACCTAGATAAAGCTCA	57.398	33.333	8.35	0.00	40.46	4.26
4297	5674	4.652421	TTCAGCTTTTGAGCAAATGTCA	57.348	36.364	9.60	0.00	37.07	3.58
4300	5677	2.961062	AGCTTTTGAGCAAATGTCAGGT	59.039	40.909	9.60	2.28	37.25	4.00
4348	5725	6.641314	GTGAATTGTTCTACTTCGAAGAGACA	59.359	38.462	31.08	22.58	38.43	3.41
4384	5761	5.820423	TGCTAAATACGCTGACATATTTGGT	59.180	36.000	3.73	0.00	33.87	3.67
4392	5769	4.107622	GCTGACATATTTGGTTGTGCATC	58.892	43.478	0.00	0.00	0.00	3.91
4404	5781	3.119708	GGTTGTGCATCAGGTCAATTCTC	60.120	47.826	0.00	0.00	0.00	2.87
4416	5793	8.515695	TCAGGTCAATTCTCGATTAAGTACTA	57.484	34.615	0.00	0.00	0.00	1.82
4457	5877	3.476552	AGAGAAACGGTTGAGCAATTGA	58.523	40.909	10.34	0.00	0.00	2.57
4470	5890	2.874086	AGCAATTGAAAAGGCAAGTTGC	59.126	40.909	19.87	19.87	44.08	4.17
4473	5893	4.201940	GCAATTGAAAAGGCAAGTTGCTTT	60.202	37.500	26.16	22.41	44.88	3.51
4489	5909	4.789012	TGCTTTTCATTGGAGGACAATC	57.211	40.909	0.00	0.00	46.67	2.67
4512	5932	7.112452	TCGATTTTGATCAAGTCTATCCTCA	57.888	36.000	8.41	0.00	0.00	3.86
4527	5947	8.831738	AGTCTATCCTCAGTTCTCTATATGCTA	58.168	37.037	0.00	0.00	0.00	3.49
4534	5954	8.592809	CCTCAGTTCTCTATATGCTATCCTTTT	58.407	37.037	0.00	0.00	0.00	2.27
4535	5955	9.995003	CTCAGTTCTCTATATGCTATCCTTTTT	57.005	33.333	0.00	0.00	0.00	1.94
4562	5982	9.911138	TCAAAGATTTTGATCAATCGATTTTGA	57.089	25.926	20.10	20.10	38.10	2.69
4563	5983	9.947897	CAAAGATTTTGATCAATCGATTTTGAC	57.052	29.630	8.21	1.51	38.37	3.18
4564	5984	8.693542	AAGATTTTGATCAATCGATTTTGACC	57.306	30.769	8.21	0.00	38.37	4.02
4565	5985	7.260603	AGATTTTGATCAATCGATTTTGACCC	58.739	34.615	8.21	2.44	38.37	4.46
4566	5986	6.588719	TTTTGATCAATCGATTTTGACCCT	57.411	33.333	8.21	0.00	38.37	4.34
4567	5987	7.695480	TTTTGATCAATCGATTTTGACCCTA	57.305	32.000	8.21	0.00	38.37	3.53
4568	5988	7.695480	TTTGATCAATCGATTTTGACCCTAA	57.305	32.000	8.21	2.62	38.37	2.69
4569	5989	6.925610	TGATCAATCGATTTTGACCCTAAG	57.074	37.500	8.21	0.00	38.37	2.18
4570	5990	5.822519	TGATCAATCGATTTTGACCCTAAGG	59.177	40.000	8.21	0.00	38.37	2.69
4571	5991	5.429681	TCAATCGATTTTGACCCTAAGGA	57.570	39.130	8.21	0.00	36.73	3.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
61	62	1.065551	GGGATGATTAAACTGTGGCGC	59.934	52.381	0.00	0.00	0.00	6.53
66	67	7.833682	TGTGATGTAATGGGATGATTAAACTGT	59.166	33.333	0.00	0.00	0.00	3.55
79	80	4.119862	CCTACGTTCTGTGATGTAATGGG	58.880	47.826	0.00	0.00	0.00	4.00
248	255	3.157949	GAGGAAGAGGCGGGGGAG	61.158	72.222	0.00	0.00	0.00	4.30
250	257	4.806339	AGGAGGAAGAGGCGGGGG	62.806	72.222	0.00	0.00	0.00	5.40
251	258	3.157949	GAGGAGGAAGAGGCGGGG	61.158	72.222	0.00	0.00	0.00	5.73
252	259	3.157949	GGAGGAGGAAGAGGCGGG	61.158	72.222	0.00	0.00	0.00	6.13
255	262	2.770475	GGGGGAGGAGGAAGAGGC	60.770	72.222	0.00	0.00	0.00	4.70
384	391	3.084039	GGCTCCACATGAATGTCTTCAA	58.916	45.455	0.00	0.00	44.29	2.69
455	462	2.436646	GAGGTCATGCCGGTGGTG	60.437	66.667	1.90	0.00	43.70	4.17
463	470	2.105128	CGGACGAGGAGGTCATGC	59.895	66.667	0.00	0.00	38.70	4.06
465	472	3.148279	GGCGGACGAGGAGGTCAT	61.148	66.667	0.00	0.00	38.70	3.06
566	576	2.817396	GAGGTCAGGAAGCAGCGC	60.817	66.667	0.00	0.00	0.00	5.92
742	752	3.902086	GCTAGGACGCGGAGACCC	61.902	72.222	12.47	3.20	35.19	4.46
767	782	0.815615	CTCGGGCATAAACCTCAGCC	60.816	60.000	0.00	0.00	46.28	4.85
827	851	2.753452	GAGCAAAAACCCTAACCCTAGC	59.247	50.000	0.00	0.00	0.00	3.42
911	935	4.394712	CTCCAGGACCGTGGTGCC	62.395	72.222	6.95	3.44	38.88	5.01
924	949	2.516448	CCGAGATAACTGGGCTCCA	58.484	57.895	0.00	0.00	35.40	3.86
944	976	4.227134	CTGATGGTCTCGGGCCGG	62.227	72.222	27.98	17.02	0.00	6.13
945	977	4.227134	CCTGATGGTCTCGGGCCG	62.227	72.222	22.51	22.51	43.54	6.13
965	997	5.744171	TGCCAGAGAGAATTAATGCTTACA	58.256	37.500	0.00	0.00	0.00	2.41
1019	1055	2.965462	CCCGTCGCCTTATTCCGC	60.965	66.667	0.00	0.00	0.00	5.54
1480	1630	6.092122	CGAGTTAACAAATACAATCAGCCTCA	59.908	38.462	8.61	0.00	0.00	3.86
1483	1633	6.178239	ACGAGTTAACAAATACAATCAGCC	57.822	37.500	8.61	0.00	0.00	4.85
1500	1650	2.547990	ACTTCCCCATCCTAACGAGTT	58.452	47.619	0.00	0.00	0.00	3.01
1501	1651	2.236395	CAACTTCCCCATCCTAACGAGT	59.764	50.000	0.00	0.00	0.00	4.18
1502	1652	2.906354	CAACTTCCCCATCCTAACGAG	58.094	52.381	0.00	0.00	0.00	4.18
1503	1653	1.065709	GCAACTTCCCCATCCTAACGA	60.066	52.381	0.00	0.00	0.00	3.85
1615	2140	1.620819	AGTCAGCCCTCACAGTTACAG	59.379	52.381	0.00	0.00	0.00	2.74
1636	2189	0.883833	AACCTGGATTTTCAGCAGCG	59.116	50.000	0.00	0.00	33.64	5.18
1722	2281	2.630158	TCAGTTCCGAAAACGTGGAAA	58.370	42.857	6.65	0.00	45.35	3.13
1889	2448	2.979197	CTGAGCTTGCTGGCTGTGC	61.979	63.158	8.58	0.00	43.20	4.57
1905	2464	2.684881	CGTCTTCATCCCCAATTTCCTG	59.315	50.000	0.00	0.00	0.00	3.86
1906	2465	2.357154	CCGTCTTCATCCCCAATTTCCT	60.357	50.000	0.00	0.00	0.00	3.36
1914	2473	1.414158	TGAGATCCGTCTTCATCCCC	58.586	55.000	0.00	0.00	33.97	4.81
2037	2596	4.455877	CACGCCTCTTCCTTATTTTCTGTT	59.544	41.667	0.00	0.00	0.00	3.16
2328	2888	5.048504	CCATTGCAGAGTCATTTTGTACACT	60.049	40.000	0.00	0.00	0.00	3.55
2354	2914	4.816385	AGATGCTAAATGGTTGTGATACGG	59.184	41.667	0.00	0.00	0.00	4.02
3025	4271	4.513442	TGCATACCTACCACAAGATGTTC	58.487	43.478	0.00	0.00	0.00	3.18
3036	4282	7.542130	GCAATTATTTTATGCTGCATACCTACC	59.458	37.037	21.19	1.93	37.12	3.18
3076	4327	2.094234	TGATACACGTCACCATCCAGTG	60.094	50.000	0.00	0.00	39.20	3.66
3113	4468	5.330455	TCTGGTCAGTGACAATCATCTAC	57.670	43.478	24.20	4.67	33.68	2.59
3266	4623	3.007290	GCATAGGCTCTACATCATGACCA	59.993	47.826	0.00	0.00	36.96	4.02
3440	4799	2.029110	GGCAAGCATAGCAAAGTTTCCA	60.029	45.455	0.00	0.00	0.00	3.53
3710	5072	8.239314	CACGAAGTAACTACTACTGGTAATGAA	58.761	37.037	0.00	0.00	41.61	2.57
3744	5110	1.827969	AGCGTTAGAGAGGCTCACAAT	59.172	47.619	18.26	1.65	45.89	2.71
3771	5137	3.057315	CGAAGGATGGCATTGTTTCACTT	60.057	43.478	0.00	0.00	0.00	3.16
3772	5138	2.489329	CGAAGGATGGCATTGTTTCACT	59.511	45.455	0.00	0.00	0.00	3.41
3834	5200	2.350057	AGCCGATACAGAGCTAGACA	57.650	50.000	0.00	0.00	34.38	3.41
3955	5321	4.037208	CGCCATGCTTTCATTATCCTTCTT	59.963	41.667	0.00	0.00	0.00	2.52
3984	5353	4.216257	TGAAGCTGCAAAGTAAAGGTGATC	59.784	41.667	1.02	0.00	0.00	2.92
3998	5367	2.704464	AGCACATATCTGAAGCTGCA	57.296	45.000	1.02	0.00	36.45	4.41
4011	5380	9.956720	GACAAAAGCTGATATATAAAAGCACAT	57.043	29.630	17.58	5.50	38.14	3.21
4022	5391	4.702831	TCATGCGGACAAAAGCTGATATA	58.297	39.130	0.00	0.00	0.00	0.86
4118	5493	4.100963	AGCCAACATATAGGACGACATTCA	59.899	41.667	0.00	0.00	0.00	2.57
4148	5523	2.433145	TCCTGCTTCGCGCTCAAG	60.433	61.111	5.56	8.78	40.11	3.02
4246	5623	7.001073	AGAGTTTCAGGTTTTGAGCTTTATCT	58.999	34.615	0.00	0.00	37.07	1.98
4257	5634	5.659440	TGAAAGCAAGAGTTTCAGGTTTT	57.341	34.783	0.00	0.00	38.66	2.43
4297	5674	8.934023	TTTTATGGAAGTTCATAACAAGACCT	57.066	30.769	5.01	0.00	38.76	3.85
4300	5677	9.567776	TCACTTTTATGGAAGTTCATAACAAGA	57.432	29.630	5.01	1.77	38.76	3.02
4335	5712	5.174395	CCATCTCATTTGTCTCTTCGAAGT	58.826	41.667	23.85	0.49	0.00	3.01
4348	5725	4.023707	GCGTATTTAGCAGCCATCTCATTT	60.024	41.667	0.00	0.00	34.19	2.32
4384	5761	2.743664	CGAGAATTGACCTGATGCACAA	59.256	45.455	0.00	0.00	0.00	3.33
4392	5769	8.188799	TGTAGTACTTAATCGAGAATTGACCTG	58.811	37.037	0.00	0.00	0.00	4.00
4416	5793	7.652524	TCTCTAAGCACTATCAGAATTCTGT	57.347	36.000	29.80	20.70	44.12	3.41
4426	5803	5.408356	TCAACCGTTTCTCTAAGCACTATC	58.592	41.667	0.00	0.00	0.00	2.08
4457	5877	4.336153	CCAATGAAAAGCAACTTGCCTTTT	59.664	37.500	10.25	14.45	46.52	2.27
4470	5890	5.824904	ATCGATTGTCCTCCAATGAAAAG	57.175	39.130	0.00	0.00	43.87	2.27
4473	5893	5.709631	TCAAAATCGATTGTCCTCCAATGAA	59.290	36.000	12.25	0.00	43.87	2.57
4489	5909	6.983307	ACTGAGGATAGACTTGATCAAAATCG	59.017	38.462	9.88	0.06	34.39	3.34
4536	5956	9.911138	TCAAAATCGATTGATCAAAATCTTTGA	57.089	25.926	13.09	18.14	36.69	2.69
4537	5957	9.947897	GTCAAAATCGATTGATCAAAATCTTTG	57.052	29.630	13.09	16.46	41.09	2.77
4538	5958	9.143631	GGTCAAAATCGATTGATCAAAATCTTT	57.856	29.630	13.09	7.74	41.09	2.52
4539	5959	7.761249	GGGTCAAAATCGATTGATCAAAATCTT	59.239	33.333	13.09	1.81	41.29	2.40
4540	5960	7.123247	AGGGTCAAAATCGATTGATCAAAATCT	59.877	33.333	13.09	0.00	41.29	2.40
4541	5961	7.260603	AGGGTCAAAATCGATTGATCAAAATC	58.739	34.615	13.09	5.60	41.29	2.17
4542	5962	7.174107	AGGGTCAAAATCGATTGATCAAAAT	57.826	32.000	13.09	3.99	41.29	1.82
4543	5963	6.588719	AGGGTCAAAATCGATTGATCAAAA	57.411	33.333	13.09	1.54	41.29	2.44
4544	5964	7.148086	CCTTAGGGTCAAAATCGATTGATCAAA	60.148	37.037	13.09	5.37	41.29	2.69
4545	5965	6.318648	CCTTAGGGTCAAAATCGATTGATCAA	59.681	38.462	12.25	11.26	41.29	2.57
4546	5966	5.822519	CCTTAGGGTCAAAATCGATTGATCA	59.177	40.000	12.25	0.00	41.29	2.92
4547	5967	6.055588	TCCTTAGGGTCAAAATCGATTGATC	58.944	40.000	12.25	7.45	41.09	2.92
4548	5968	6.001449	TCCTTAGGGTCAAAATCGATTGAT	57.999	37.500	12.25	0.77	41.09	2.57
4549	5969	5.429681	TCCTTAGGGTCAAAATCGATTGA	57.570	39.130	12.25	4.19	36.99	2.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.