AutoCloner

Multiple sequence alignment - TraesCS5D01G306300

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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	TraesCS5D01G306300	chr5D	100.000	7898	0	0	1	7898	402764816	402772713	0.000000e+00	14585.0
1	TraesCS5D01G306300	chr5D	95.294	85	4	0	6652	6736	373214573	373214657	1.380000e-27	135.0
2	TraesCS5D01G306300	chr5D	90.722	97	8	1	6652	6748	2137468	2137373	2.310000e-25	128.0
3	TraesCS5D01G306300	chr5D	96.154	52	2	0	6304	6355	79614555	79614606	1.410000e-12	86.1
4	TraesCS5D01G306300	chr5A	97.676	6410	127	12	311	6707	510558736	510552336	0.000000e+00	10992.0
5	TraesCS5D01G306300	chr5A	94.759	706	7	4	6733	7437	510552344	510551668	0.000000e+00	1072.0
6	TraesCS5D01G306300	chr5A	96.207	290	9	2	7610	7898	510551374	510551086	2.580000e-129	473.0
7	TraesCS5D01G306300	chr5A	96.602	206	7	0	1	206	510559271	510559066	7.590000e-90	342.0
8	TraesCS5D01G306300	chr5A	96.947	131	4	0	7436	7566	510551504	510551374	3.710000e-53	220.0
9	TraesCS5D01G306300	chr5A	94.382	89	5	0	6648	6736	632901214	632901302	3.840000e-28	137.0
10	TraesCS5D01G306300	chr5B	97.244	3773	96	7	322	4090	482273485	482277253	0.000000e+00	6384.0
11	TraesCS5D01G306300	chr5B	93.920	3816	138	25	4088	7856	482277414	482281182	0.000000e+00	5675.0
12	TraesCS5D01G306300	chr5B	95.333	300	8	2	3	300	482272917	482273212	9.280000e-129	472.0
13	TraesCS5D01G306300	chr6B	93.989	549	31	2	6710	7258	24747612	24748158	0.000000e+00	830.0
14	TraesCS5D01G306300	chr3D	93.989	549	31	1	6710	7258	599893879	599894425	0.000000e+00	830.0
15	TraesCS5D01G306300	chr3D	93.078	549	36	2	6710	7258	599882359	599882905	0.000000e+00	802.0
16	TraesCS5D01G306300	chr3D	95.740	493	19	2	6767	7258	348485747	348486238	0.000000e+00	793.0
17	TraesCS5D01G306300	chr7D	95.935	492	19	1	6767	7258	59279216	59279706	0.000000e+00	797.0
18	TraesCS5D01G306300	chr7D	95.455	88	3	1	6649	6735	605964340	605964253	1.070000e-28	139.0
19	TraesCS5D01G306300	chr7D	91.579	95	8	0	6649	6743	41837677	41837771	1.790000e-26	132.0
20	TraesCS5D01G306300	chr7D	96.154	52	2	0	6304	6355	271126440	271126491	1.410000e-12	86.1
21	TraesCS5D01G306300	chr7D	96.154	52	2	0	6304	6355	611960205	611960256	1.410000e-12	86.1
22	TraesCS5D01G306300	chr1A	92.896	549	38	1	6710	7258	584981650	584981103	0.000000e+00	797.0
23	TraesCS5D01G306300	chr1A	96.154	52	2	0	6304	6355	31553725	31553674	1.410000e-12	86.1
24	TraesCS5D01G306300	chr2B	95.547	494	20	1	6767	7258	692691347	692690854	0.000000e+00	789.0
25	TraesCS5D01G306300	chr2B	91.993	562	42	3	6697	7258	98053089	98052531	0.000000e+00	785.0
26	TraesCS5D01G306300	chr1D	89.423	104	9	2	6634	6736	467810074	467810176	6.430000e-26	130.0
27	TraesCS5D01G306300	chr1D	96.154	52	2	0	6304	6355	32441702	32441753	1.410000e-12	86.1
28	TraesCS5D01G306300	chr6D	89.109	101	11	0	6636	6736	433443720	433443820	8.320000e-25	126.0
29	TraesCS5D01G306300	chr4B	94.643	56	3	0	6304	6359	565626463	565626408	3.930000e-13	87.9
30	TraesCS5D01G306300	chr6A	96.154	52	2	0	6304	6355	69496230	69496179	1.410000e-12	86.1

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	TraesCS5D01G306300	chr5D	402764816	402772713	7897	False	14585.0	14585	100.0000	1	7898	1	chr5D.!!$F3	7897
1	TraesCS5D01G306300	chr5A	510551086	510559271	8185	True	2619.8	10992	96.4382	1	7898	5	chr5A.!!$R1	7897
2	TraesCS5D01G306300	chr5B	482272917	482281182	8265	False	4177.0	6384	95.4990	3	7856	3	chr5B.!!$F1	7853
3	TraesCS5D01G306300	chr6B	24747612	24748158	546	False	830.0	830	93.9890	6710	7258	1	chr6B.!!$F1	548
4	TraesCS5D01G306300	chr3D	599893879	599894425	546	False	830.0	830	93.9890	6710	7258	1	chr3D.!!$F3	548
5	TraesCS5D01G306300	chr3D	599882359	599882905	546	False	802.0	802	93.0780	6710	7258	1	chr3D.!!$F2	548
6	TraesCS5D01G306300	chr1A	584981103	584981650	547	True	797.0	797	92.8960	6710	7258	1	chr1A.!!$R2	548
7	TraesCS5D01G306300	chr2B	98052531	98053089	558	True	785.0	785	91.9930	6697	7258	1	chr2B.!!$R1	561

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
776	1036	0.517316	GAATTTCAGGCGCAACGAGT	59.483	50.000	10.83	0.00	0.00	4.18	F
778	1038	0.951558	ATTTCAGGCGCAACGAGTTT	59.048	45.000	10.83	0.00	0.00	2.66	F
792	1052	2.127232	GTTTCCAAGTGCTCGCGC	60.127	61.111	0.00	0.00	0.00	6.86	F
1053	1315	2.501723	CAGCCTTAGTCTCCAAAGCCTA	59.498	50.000	0.00	0.00	0.00	3.93	F
2984	3249	1.133668	GCCTCCCAGCCATATGAAAGT	60.134	52.381	3.65	0.00	0.00	2.66	F
3404	3669	1.018910	TCATCTGCATCCACATTGCG	58.981	50.000	0.00	0.00	43.10	4.85	F
4722	5156	1.003355	TTCTTCCCTGCAGCTTCGG	60.003	57.895	8.66	4.04	0.00	4.30	F
4765	5199	1.858458	ACACTGTTCACATCGTTCACG	59.142	47.619	0.00	0.00	41.45	4.35	F
6271	6717	1.879380	GTGCAGGACAATGCTGTTACA	59.121	47.619	0.00	0.00	46.63	2.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2412	2677	2.034939	TCCAAGCACAATTCAGCAACAG	59.965	45.455	1.89	0.00	0.00	3.16	R
2622	2887	5.763204	TCACAGAGAAACACCATCTTAAACC	59.237	40.000	0.00	0.00	0.00	3.27	R
2984	3249	6.068010	CCCTTATCTATGCCATTTGTACCAA	58.932	40.000	0.00	0.00	0.00	3.67	R
3161	3426	8.314021	ACATATCAGTTTCAGAGTTATGTGTGA	58.686	33.333	0.00	0.00	30.90	3.58	R
4707	5141	0.321298	GTTACCGAAGCTGCAGGGAA	60.321	55.000	17.12	0.00	0.00	3.97	R
4765	5199	0.741915	TCAAAAGGGCCAACGTTGAC	59.258	50.000	29.35	18.46	0.00	3.18	R
6271	6717	2.308722	ATGATTCGTGGCCAGGGGT	61.309	57.895	24.54	13.68	0.00	4.95	R
6556	7002	4.713553	TGAGTACCAAATTCAACAGCAGA	58.286	39.130	0.00	0.00	0.00	4.26	R
7292	7764	0.179009	GGCTCCTGCATGGATAGCAA	60.179	55.000	18.97	0.00	45.16	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
207	210	2.446994	ACCGAACCCCACACCAGA	60.447	61.111	0.00	0.00	0.00	3.86
286	289	2.520741	CTCCTCCTCCTCCTCCGC	60.521	72.222	0.00	0.00	0.00	5.54
288	291	4.150454	CCTCCTCCTCCTCCGCCT	62.150	72.222	0.00	0.00	0.00	5.52
507	767	2.276994	CGCGTGCGTTGTTGTTGT	60.277	55.556	6.00	0.00	34.35	3.32
508	768	1.865622	CGCGTGCGTTGTTGTTGTT	60.866	52.632	6.00	0.00	34.35	2.83
509	769	1.623295	GCGTGCGTTGTTGTTGTTG	59.377	52.632	0.00	0.00	0.00	3.33
510	770	1.623295	CGTGCGTTGTTGTTGTTGC	59.377	52.632	0.00	0.00	0.00	4.17
517	777	3.359654	CGTTGTTGTTGTTGCCTAGTTC	58.640	45.455	0.00	0.00	0.00	3.01
543	803	3.808218	TTTTCGCTTGGGGCTGGCT	62.808	57.895	0.00	0.00	39.13	4.75
608	868	3.474570	GCCTGGATCTGGCTCCGT	61.475	66.667	18.54	0.00	43.62	4.69
714	974	2.755650	AGAGTCATGTGTTTCGTGGTC	58.244	47.619	0.00	0.00	34.14	4.02
715	975	2.102420	AGAGTCATGTGTTTCGTGGTCA	59.898	45.455	0.00	0.00	34.14	4.02
750	1010	1.353022	TCCTTTAGGGGAACGCAATGT	59.647	47.619	0.00	0.00	46.88	2.71
776	1036	0.517316	GAATTTCAGGCGCAACGAGT	59.483	50.000	10.83	0.00	0.00	4.18
778	1038	0.951558	ATTTCAGGCGCAACGAGTTT	59.048	45.000	10.83	0.00	0.00	2.66
792	1052	2.127232	GTTTCCAAGTGCTCGCGC	60.127	61.111	0.00	0.00	0.00	6.86
797	1057	2.792543	CAAGTGCTCGCGCGTTTG	60.793	61.111	30.98	20.96	39.65	2.93
850	1110	3.348119	TCAGATAGAGTCGTGTGCTCTT	58.652	45.455	0.00	0.00	42.63	2.85
977	1239	7.727181	AGTGTACTAATTCTGTTGTGTCTTCT	58.273	34.615	0.00	0.00	0.00	2.85
978	1240	7.653713	AGTGTACTAATTCTGTTGTGTCTTCTG	59.346	37.037	0.00	0.00	0.00	3.02
981	1243	4.558538	AATTCTGTTGTGTCTTCTGTGC	57.441	40.909	0.00	0.00	0.00	4.57
1053	1315	2.501723	CAGCCTTAGTCTCCAAAGCCTA	59.498	50.000	0.00	0.00	0.00	3.93
1437	1699	7.396540	ACTTCTTTATTAGTTTGGCAGATGG	57.603	36.000	0.00	0.00	0.00	3.51
1798	2062	8.815565	TTGTAATCCAGGCAATTTCATACTTA	57.184	30.769	0.00	0.00	0.00	2.24
2015	2280	8.871125	ACGAATAGAGTCATATATTTCCCAGTT	58.129	33.333	0.00	0.00	0.00	3.16
2316	2581	3.323691	AGCCCCAACACTTATTTTGGAAC	59.676	43.478	1.82	0.00	44.51	3.62
2317	2582	3.070302	GCCCCAACACTTATTTTGGAACA	59.930	43.478	1.82	0.00	44.51	3.18
2320	2585	5.245977	CCCCAACACTTATTTTGGAACAGAT	59.754	40.000	1.82	0.00	44.51	2.90
2412	2677	8.379161	CGTGTACATACTACCTAGATAACGATC	58.621	40.741	0.00	0.00	0.00	3.69
2984	3249	1.133668	GCCTCCCAGCCATATGAAAGT	60.134	52.381	3.65	0.00	0.00	2.66
3239	3504	9.713740	GAATAAGAATGATCAGAACACAATGTC	57.286	33.333	0.09	0.00	0.00	3.06
3368	3633	3.924114	ATCCAATCCACGTGATACCAA	57.076	42.857	19.30	0.00	31.83	3.67
3370	3635	4.229304	TCCAATCCACGTGATACCAATT	57.771	40.909	19.30	4.01	31.83	2.32
3373	3638	5.129650	TCCAATCCACGTGATACCAATTCTA	59.870	40.000	19.30	0.00	31.83	2.10
3375	3640	6.486657	CCAATCCACGTGATACCAATTCTATT	59.513	38.462	19.30	0.00	31.83	1.73
3404	3669	1.018910	TCATCTGCATCCACATTGCG	58.981	50.000	0.00	0.00	43.10	4.85
3684	3949	3.611057	GCTGCACTCAGAATGTTTTGGAG	60.611	47.826	0.00	0.00	42.95	3.86
3738	4003	4.464008	CAGGGCATGTGGTTATAAGTGAT	58.536	43.478	0.00	0.00	0.00	3.06
3808	4073	4.366267	AGATGTTACTTCAGGGGATCAGT	58.634	43.478	0.00	0.00	0.00	3.41
3849	4114	6.590234	ACAAATGGACTCCTAATGGAAAAC	57.410	37.500	0.00	0.00	42.66	2.43
3927	4192	3.935203	CAGTTCGTCAACTAGCCAATCAT	59.065	43.478	0.00	0.00	41.24	2.45
4014	4279	2.632996	TGGAAACTTCGACCTCACAGAT	59.367	45.455	0.00	0.00	0.00	2.90
4301	4729	4.348020	AGGTCCTTCTCACCCTACATAA	57.652	45.455	0.00	0.00	33.96	1.90
4474	4907	3.639672	TGACCTTCTGATGTGCATGAT	57.360	42.857	0.00	0.00	0.00	2.45
4601	5034	2.297033	AGCACTTCATTGAATTGCCGTT	59.703	40.909	28.02	14.21	45.20	4.44
4722	5156	1.003355	TTCTTCCCTGCAGCTTCGG	60.003	57.895	8.66	4.04	0.00	4.30
4752	5186	3.275617	TTGTTGCTAGACCACACTGTT	57.724	42.857	0.00	0.00	0.00	3.16
4765	5199	1.858458	ACACTGTTCACATCGTTCACG	59.142	47.619	0.00	0.00	41.45	4.35
4944	5378	8.912988	ACTGTTCATTTTCTAATTGAAAGGTCA	58.087	29.630	0.00	0.00	44.40	4.02
5002	5436	3.751698	GTGGTCCTCAACTTTGACATACC	59.248	47.826	0.00	5.99	32.90	2.73
5239	5673	4.700700	CCGTCCCTTATTGGTACTTTAGG	58.299	47.826	0.00	0.00	0.00	2.69
5858	6304	2.242926	AGAAAGAAGGAAAGCTTGCCC	58.757	47.619	20.79	14.47	0.00	5.36
6052	6498	5.353394	TTCTACAGGGATTAGCGAAATGT	57.647	39.130	0.00	0.00	0.00	2.71
6208	6654	1.983605	CTGCTTCATTGCTTGCTTTCG	59.016	47.619	0.00	0.00	0.00	3.46
6271	6717	1.879380	GTGCAGGACAATGCTGTTACA	59.121	47.619	0.00	0.00	46.63	2.41
6307	6753	6.594788	AATCATGGTGCAAAGTATGTTCTT	57.405	33.333	0.00	0.00	0.00	2.52
6336	6782	8.685838	AAACATAGTTAGCACCTCTGTTTTTA	57.314	30.769	7.50	0.00	33.01	1.52
6650	7096	4.513442	TCAATACCATAGCACAACCTGAC	58.487	43.478	0.00	0.00	0.00	3.51
6661	7107	1.152312	AACCTGACACTCCCTCCGT	60.152	57.895	0.00	0.00	0.00	4.69
6677	7123	4.077822	CCTCCGTCCCGTAATATAAGAGT	58.922	47.826	0.00	0.00	0.00	3.24
6821	7267	3.031013	GGCCCTGCAGTTATATTTTGGT	58.969	45.455	13.81	0.00	0.00	3.67
7292	7764	5.706833	TGTGATTTGTGTGCTGTGATAGAAT	59.293	36.000	0.00	0.00	0.00	2.40
7315	7787	3.013327	TCCATGCAGGAGCCAGCT	61.013	61.111	0.00	0.00	43.07	4.24
7316	7788	2.516460	CCATGCAGGAGCCAGCTC	60.516	66.667	11.28	11.28	41.22	4.09
7317	7789	2.895865	CATGCAGGAGCCAGCTCG	60.896	66.667	13.23	2.15	43.59	5.03
7318	7790	4.853050	ATGCAGGAGCCAGCTCGC	62.853	66.667	13.23	12.15	43.59	5.03
7477	8131	1.205655	TGAGATCTGCCTGGTTTCTCG	59.794	52.381	0.00	0.00	36.46	4.04
7583	8237	4.949856	GCTTTTGAAAGATGGGATGAGGTA	59.050	41.667	7.63	0.00	38.28	3.08
7594	8248	4.476297	TGGGATGAGGTAGCGTAGAATTA	58.524	43.478	0.00	0.00	0.00	1.40
7596	8250	5.542635	TGGGATGAGGTAGCGTAGAATTATT	59.457	40.000	0.00	0.00	0.00	1.40
7602	8256	6.042781	TGAGGTAGCGTAGAATTATTTGGGAT	59.957	38.462	0.00	0.00	0.00	3.85
7738	8393	5.240844	CGACTTTCTGTAAACCCCATTTTCT	59.759	40.000	0.00	0.00	0.00	2.52
7805	8460	5.738118	TGTTTGTCTTTTAAGTACACCCG	57.262	39.130	0.00	0.00	0.00	5.28
7851	8506	1.035932	TTGGTTTTGTTTCCGGCCGA	61.036	50.000	30.73	10.38	0.00	5.54

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
95	98	4.717313	GGAGGGTTGGCACGGGAC	62.717	72.222	0.00	0.00	0.00	4.46
473	732	1.539165	CGGGGGAGAGATGAGAGGA	59.461	63.158	0.00	0.00	0.00	3.71
510	770	0.800631	GAAAAACCCGCCGAACTAGG	59.199	55.000	0.00	0.00	0.00	3.02
608	868	1.682451	AATTCCCGAGCGGATCCGAA	61.682	55.000	37.64	21.26	41.63	4.30
714	974	5.587844	CCTAAAGGAAGGTGAACATCTCATG	59.412	44.000	0.00	0.00	34.92	3.07
715	975	5.339530	CCCTAAAGGAAGGTGAACATCTCAT	60.340	44.000	0.00	0.00	38.24	2.90
750	1010	2.739704	CGCCTGAAATTCGAGCGCA	61.740	57.895	11.47	0.00	40.35	6.09
792	1052	3.063997	CAGCTTTACATAGGGCTCAAACG	59.936	47.826	0.00	0.00	32.30	3.60
797	1057	2.262423	CCCAGCTTTACATAGGGCTC	57.738	55.000	0.00	0.00	32.30	4.70
850	1110	1.087202	ACAACAACACGCAAGCGAGA	61.087	50.000	22.30	0.00	42.83	4.04
977	1239	1.068921	TTGACTGTAGCAGCGCACA	59.931	52.632	11.47	3.74	34.37	4.57
978	1240	1.493311	GTTGACTGTAGCAGCGCAC	59.507	57.895	11.47	0.00	34.37	5.34
981	1243	2.449548	CAGGTTGACTGTAGCAGCG	58.550	57.895	0.00	0.00	42.42	5.18
1053	1315	6.151144	GGTTATACTCCTTGCACAAAGATTGT	59.849	38.462	0.00	0.00	46.75	2.71
1437	1699	0.878416	TGTCCGCCAGTAAACATTGC	59.122	50.000	0.00	0.00	0.00	3.56
1504	1768	2.012673	GGTTATCTTGCTCACCTGCAG	58.987	52.381	6.78	6.78	44.27	4.41
2015	2280	6.672266	AGTTTCAGGTATCAAGTGAAGAGA	57.328	37.500	0.00	0.00	32.00	3.10
2088	2353	9.737427	AGAGTATTGTACTATCAAGACGAAATG	57.263	33.333	0.00	0.00	42.15	2.32
2368	2633	5.744666	ACACGTGTAAATTTTACAGCTGT	57.255	34.783	25.12	25.12	0.00	4.40
2412	2677	2.034939	TCCAAGCACAATTCAGCAACAG	59.965	45.455	1.89	0.00	0.00	3.16
2622	2887	5.763204	TCACAGAGAAACACCATCTTAAACC	59.237	40.000	0.00	0.00	0.00	3.27
2984	3249	6.068010	CCCTTATCTATGCCATTTGTACCAA	58.932	40.000	0.00	0.00	0.00	3.67
3161	3426	8.314021	ACATATCAGTTTCAGAGTTATGTGTGA	58.686	33.333	0.00	0.00	30.90	3.58
3368	3633	7.568349	TGCAGATGACCTCAAGTTAATAGAAT	58.432	34.615	0.00	0.00	0.00	2.40
3370	3635	6.544928	TGCAGATGACCTCAAGTTAATAGA	57.455	37.500	0.00	0.00	0.00	1.98
3373	3638	5.128919	GGATGCAGATGACCTCAAGTTAAT	58.871	41.667	0.00	0.00	0.00	1.40
3375	3640	3.519107	TGGATGCAGATGACCTCAAGTTA	59.481	43.478	0.00	0.00	0.00	2.24
3404	3669	5.215160	CAGAAATTTCAACAGCAGTACCAC	58.785	41.667	19.99	0.00	0.00	4.16
3808	4073	1.619332	TGTATCACTGTTGCGGGTACA	59.381	47.619	0.00	0.00	0.00	2.90
3849	4114	1.568612	CCACTGCTGCTGTTGGTACG	61.569	60.000	9.60	0.00	0.00	3.67
4474	4907	4.020218	CCAAGAGAAGACAGGGACAATGTA	60.020	45.833	0.00	0.00	0.00	2.29
4694	5128	4.626529	GCTGCAGGGAAGAAGGTTAATAGT	60.627	45.833	17.12	0.00	0.00	2.12
4695	5129	3.879892	GCTGCAGGGAAGAAGGTTAATAG	59.120	47.826	17.12	0.00	0.00	1.73
4696	5130	3.523564	AGCTGCAGGGAAGAAGGTTAATA	59.476	43.478	17.12	0.00	0.00	0.98
4707	5141	0.321298	GTTACCGAAGCTGCAGGGAA	60.321	55.000	17.12	0.00	0.00	3.97
4722	5156	6.425721	TGTGGTCTAGCAACAATTACAGTTAC	59.574	38.462	0.00	0.00	0.00	2.50
4765	5199	0.741915	TCAAAAGGGCCAACGTTGAC	59.258	50.000	29.35	18.46	0.00	3.18
4944	5378	4.822685	TGGCATGGCAAAAAGTTGATAT	57.177	36.364	21.13	0.00	36.83	1.63
5002	5436	8.458843	AGGTTCTTGTCATAAAATTAATCCACG	58.541	33.333	0.00	0.00	0.00	4.94
5858	6304	3.804325	CACAGTTAGGCCAGAATGATACG	59.196	47.826	5.01	0.00	39.69	3.06
6052	6498	9.820229	CGCATTACACTATTTCTTTTAAGTGAA	57.180	29.630	8.21	0.02	41.47	3.18
6071	6517	7.934594	ACGAAAATGATTTTACAACGCATTAC	58.065	30.769	2.71	0.00	31.94	1.89
6271	6717	2.308722	ATGATTCGTGGCCAGGGGT	61.309	57.895	24.54	13.68	0.00	4.95
6307	6753	6.765403	ACAGAGGTGCTAACTATGTTTACAA	58.235	36.000	0.00	0.00	37.10	2.41
6555	7001	5.129634	TGAGTACCAAATTCAACAGCAGAA	58.870	37.500	0.00	0.00	0.00	3.02
6556	7002	4.713553	TGAGTACCAAATTCAACAGCAGA	58.286	39.130	0.00	0.00	0.00	4.26
6707	7153	5.024118	CCCTCCGTCCCATAATATAAGAGT	58.976	45.833	0.00	0.00	0.00	3.24
7292	7764	0.179009	GGCTCCTGCATGGATAGCAA	60.179	55.000	18.97	0.00	45.16	3.91
7313	7785	4.932200	ACAGGAAATATATAAGCAGCGAGC	59.068	41.667	0.00	0.00	46.19	5.03
7314	7786	7.293745	CAAACAGGAAATATATAAGCAGCGAG	58.706	38.462	0.00	0.00	0.00	5.03
7315	7787	6.204688	CCAAACAGGAAATATATAAGCAGCGA	59.795	38.462	0.00	0.00	41.22	4.93
7316	7788	6.373779	CCAAACAGGAAATATATAAGCAGCG	58.626	40.000	0.00	0.00	41.22	5.18
7317	7789	6.152379	GCCAAACAGGAAATATATAAGCAGC	58.848	40.000	0.00	0.00	41.22	5.25
7318	7790	6.265196	TGGCCAAACAGGAAATATATAAGCAG	59.735	38.462	0.61	0.00	41.22	4.24
7319	7791	6.132658	TGGCCAAACAGGAAATATATAAGCA	58.867	36.000	0.61	0.00	41.22	3.91
7320	7792	6.265422	ACTGGCCAAACAGGAAATATATAAGC	59.735	38.462	7.01	0.00	42.75	3.09
7321	7793	7.502226	TGACTGGCCAAACAGGAAATATATAAG	59.498	37.037	7.01	0.00	42.75	1.73
7322	7794	7.350382	TGACTGGCCAAACAGGAAATATATAA	58.650	34.615	7.01	0.00	42.75	0.98
7323	7795	6.905736	TGACTGGCCAAACAGGAAATATATA	58.094	36.000	7.01	0.00	42.75	0.86
7324	7796	5.765510	TGACTGGCCAAACAGGAAATATAT	58.234	37.500	7.01	0.00	42.75	0.86
7325	7797	5.186256	TGACTGGCCAAACAGGAAATATA	57.814	39.130	7.01	0.00	42.75	0.86
7477	8131	2.894387	GCATCACCTCTCAGGCGC	60.894	66.667	0.00	0.00	39.63	6.53
7506	8160	5.224888	CAAACAAAACATGATCAGACCCAG	58.775	41.667	0.00	0.00	0.00	4.45
7583	8237	7.773690	AGTTTGTATCCCAAATAATTCTACGCT	59.226	33.333	0.00	0.00	44.50	5.07
7594	8248	5.416952	CAGCAGAGAAGTTTGTATCCCAAAT	59.583	40.000	0.00	0.00	44.50	2.32
7596	8250	4.326826	CAGCAGAGAAGTTTGTATCCCAA	58.673	43.478	0.00	0.00	0.00	4.12
7602	8256	6.169557	TCTTTACCAGCAGAGAAGTTTGTA	57.830	37.500	0.00	0.00	0.00	2.41
7816	8471	2.540383	ACCAACAGGCAGAGATCTGTA	58.460	47.619	0.00	0.00	45.45	2.74

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.