AutoCloner

Multiple sequence alignment - TraesCS1D01G163700

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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	TraesCS1D01G163700	chr1D	100.000	3923	0	0	1	3923	233926715	233922793	0.000000e+00	7245.0
1	TraesCS1D01G163700	chr1D	93.750	48	2	1	214	260	468397068	468397115	1.960000e-08	71.3
2	TraesCS1D01G163700	chr1D	89.362	47	5	0	554	600	58756014	58756060	4.230000e-05	60.2
3	TraesCS1D01G163700	chr1A	95.433	3372	96	14	570	3923	313590017	313593348	0.000000e+00	5321.0
4	TraesCS1D01G163700	chr1A	88.701	354	24	7	1	338	313493815	313494168	6.060000e-113	418.0
5	TraesCS1D01G163700	chr1A	94.304	158	9	0	342	499	313589859	313590016	3.920000e-60	243.0
6	TraesCS1D01G163700	chr1B	93.299	2955	116	27	1	2931	368681874	368678978	0.000000e+00	4285.0
7	TraesCS1D01G163700	chr1B	91.889	1011	48	18	2922	3921	368677393	368676406	0.000000e+00	1382.0
8	TraesCS1D01G163700	chr1B	89.796	98	9	1	363	459	469178311	469178214	1.480000e-24	124.0
9	TraesCS1D01G163700	chr1B	85.882	85	12	0	554	638	681956231	681956315	1.500000e-14	91.6
10	TraesCS1D01G163700	chr2D	89.552	268	14	7	3	256	615052030	615052297	1.050000e-85	327.0
11	TraesCS1D01G163700	chr2B	87.732	269	19	6	3	257	323087405	323087673	6.370000e-78	302.0
12	TraesCS1D01G163700	chr2B	83.505	97	12	3	542	638	741474221	741474129	1.940000e-13	87.9
13	TraesCS1D01G163700	chr2B	91.667	60	3	1	542	601	741575869	741575812	9.030000e-12	82.4
14	TraesCS1D01G163700	chr5D	87.160	257	19	6	14	256	484029019	484028763	2.980000e-71	279.0
15	TraesCS1D01G163700	chr4A	85.401	274	25	7	1	259	59272817	59272544	1.800000e-68	270.0
16	TraesCS1D01G163700	chr4A	86.099	223	26	4	638	857	166730020	166730240	6.550000e-58	235.0
17	TraesCS1D01G163700	chr7B	85.821	268	19	3	3	256	221832884	221832622	2.320000e-67	267.0
18	TraesCS1D01G163700	chr7B	85.586	222	29	3	638	857	559264812	559265032	3.050000e-56	230.0
19	TraesCS1D01G163700	chr3A	87.054	224	21	7	638	857	102530948	102531167	3.030000e-61	246.0
20	TraesCS1D01G163700	chr3A	87.324	213	24	3	647	857	114570964	114570753	1.410000e-59	241.0
21	TraesCS1D01G163700	chr3A	85.650	223	28	4	638	858	560466822	560467042	8.480000e-57	231.0
22	TraesCS1D01G163700	chr3A	85.586	222	29	3	638	857	14291167	14291387	3.050000e-56	230.0
23	TraesCS1D01G163700	chr2A	86.036	222	28	3	638	857	242428353	242428573	6.550000e-58	235.0
24	TraesCS1D01G163700	chr2A	88.000	100	11	1	361	459	693154596	693154695	2.480000e-22	117.0
25	TraesCS1D01G163700	chr4B	85.586	222	29	3	638	857	471307901	471308121	3.050000e-56	230.0
26	TraesCS1D01G163700	chr4B	86.735	98	8	4	542	638	471307862	471307955	1.930000e-18	104.0
27	TraesCS1D01G163700	chrUn	83.628	226	22	3	3	214	98089207	98088983	8.600000e-47	198.0
28	TraesCS1D01G163700	chr3B	83.486	218	22	2	3	206	612800997	612800780	1.440000e-44	191.0
29	TraesCS1D01G163700	chr3B	85.263	95	13	1	365	459	784969004	784969097	3.230000e-16	97.1
30	TraesCS1D01G163700	chr3B	90.000	70	5	2	555	623	800214152	800214084	5.400000e-14	89.8
31	TraesCS1D01G163700	chr4D	96.471	85	3	0	172	256	15779155	15779239	1.470000e-29	141.0
32	TraesCS1D01G163700	chr6D	88.372	86	8	2	554	638	321773697	321773613	6.930000e-18	102.0
33	TraesCS1D01G163700	chr3D	86.585	82	8	2	357	435	29268772	29268853	1.940000e-13	87.9
34	TraesCS1D01G163700	chr6A	95.455	44	0	2	220	261	139055344	139055301	7.030000e-08	69.4

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	TraesCS1D01G163700	chr1D	233922793	233926715	3922	True	7245.0	7245	100.0000	1	3923	1	chr1D.!!$R1	3922
1	TraesCS1D01G163700	chr1A	313589859	313593348	3489	False	2782.0	5321	94.8685	342	3923	2	chr1A.!!$F2	3581
2	TraesCS1D01G163700	chr1B	368676406	368681874	5468	True	2833.5	4285	92.5940	1	3921	2	chr1B.!!$R2	3920

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
39	40	0.251354	GCCAGAGCAGAGTGAATCCA	59.749	55.0	0.00	0.00	39.53	3.41	F
168	183	0.325296	ATAGGAGAGGGTTGTGCGGA	60.325	55.0	0.00	0.00	0.00	5.54	F
201	216	0.460284	CGAGACAATTGTCCCTCCCG	60.460	60.0	30.34	21.68	45.85	5.14	F
339	356	0.698238	ACACCCTCTGCATTAAGGCA	59.302	50.0	14.87	14.87	42.53	4.75	F
974	998	0.736325	AATCTGGCACGAGCGTGTAC	60.736	55.0	22.06	16.11	46.90	2.90	F
2233	2263	0.317770	GTGATGTTGGTTGTGTGCCG	60.318	55.0	0.00	0.00	0.00	5.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1435	1465	1.135689	CCAGAGGACAAATTTTCGGCG	60.136	52.381	0.00	0.00	0.00	6.46	R
2116	2146	0.391263	GAAGGTCAGGTGTAAGCCCG	60.391	60.000	0.00	0.00	32.25	6.13	R
2203	2233	7.119699	ACACAACCAACATCACTCATATAGTTG	59.880	37.037	0.00	0.00	35.76	3.16	R
2233	2263	3.316308	AGTTTGTGAAATGGAGCACACTC	59.684	43.478	0.00	0.00	43.97	3.51	R
2545	2575	3.467803	ACTGTACACTGAGAAGTTTGGC	58.532	45.455	0.00	0.00	0.00	4.52	R
3508	5144	3.199727	TCATTGAAGGCATGCACCTACTA	59.800	43.478	21.36	3.38	39.93	1.82	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
39	40	0.251354	GCCAGAGCAGAGTGAATCCA	59.749	55.000	0.00	0.00	39.53	3.41
66	67	2.819608	ACTTGGTTGATGGATTTGGACG	59.180	45.455	0.00	0.00	0.00	4.79
71	72	0.461870	TGATGGATTTGGACGAGGCG	60.462	55.000	0.00	0.00	0.00	5.52
73	74	3.202706	GGATTTGGACGAGGCGCC	61.203	66.667	21.89	21.89	0.00	6.53
132	147	4.935205	TGTGATGACAAAGGGATTAAGTCG	59.065	41.667	0.00	0.00	32.08	4.18
134	149	5.411669	GTGATGACAAAGGGATTAAGTCGTT	59.588	40.000	0.00	0.00	32.08	3.85
141	156	1.659098	GGGATTAAGTCGTTGACTGCG	59.341	52.381	0.00	0.00	42.59	5.18
156	171	1.381191	TGCGGGTGCTGATAGGAGA	60.381	57.895	0.00	0.00	43.34	3.71
168	183	0.325296	ATAGGAGAGGGTTGTGCGGA	60.325	55.000	0.00	0.00	0.00	5.54
172	187	0.741221	GAGAGGGTTGTGCGGATGTC	60.741	60.000	0.00	0.00	0.00	3.06
173	188	1.745489	GAGGGTTGTGCGGATGTCC	60.745	63.158	0.00	0.00	0.00	4.02
201	216	0.460284	CGAGACAATTGTCCCTCCCG	60.460	60.000	30.34	21.68	45.85	5.14
202	217	0.744771	GAGACAATTGTCCCTCCCGC	60.745	60.000	30.34	8.11	45.85	6.13
221	236	4.262207	CCCGCTGTGAGACTATGAATATGT	60.262	45.833	0.00	0.00	0.00	2.29
261	276	2.716217	GGGCATTGTGCTAGTCTTTCT	58.284	47.619	1.64	0.00	44.28	2.52
264	279	3.944015	GGCATTGTGCTAGTCTTTCTGAT	59.056	43.478	1.64	0.00	44.28	2.90
274	289	7.437862	GTGCTAGTCTTTCTGATATTGGAGAAG	59.562	40.741	0.00	0.00	30.03	2.85
281	296	3.523157	TCTGATATTGGAGAAGTTGGGCA	59.477	43.478	0.00	0.00	0.00	5.36
313	330	3.885297	ACAGTCCCAACATCTTGAAACAG	59.115	43.478	0.00	0.00	0.00	3.16
322	339	2.136298	TCTTGAAACAGCCCAACACA	57.864	45.000	0.00	0.00	0.00	3.72
323	340	1.748493	TCTTGAAACAGCCCAACACAC	59.252	47.619	0.00	0.00	0.00	3.82
330	347	2.985847	GCCCAACACACCCTCTGC	60.986	66.667	0.00	0.00	0.00	4.26
338	355	1.098050	CACACCCTCTGCATTAAGGC	58.902	55.000	4.88	4.88	0.00	4.35
339	356	0.698238	ACACCCTCTGCATTAAGGCA	59.302	50.000	14.87	14.87	42.53	4.75
340	357	1.075374	ACACCCTCTGCATTAAGGCAA	59.925	47.619	16.45	6.54	44.40	4.52
378	395	2.184579	GCGCCCCTATATCTCGCC	59.815	66.667	0.00	0.00	39.91	5.54
383	400	1.623811	GCCCCTATATCTCGCCTTCAA	59.376	52.381	0.00	0.00	0.00	2.69
402	419	2.676839	CAACGAGTCTAGCTTCCGACTA	59.323	50.000	11.50	0.00	40.37	2.59
537	554	4.450080	GGGATACTAAAAACGCGGGAATAG	59.550	45.833	12.47	10.22	0.00	1.73
538	555	5.291971	GGATACTAAAAACGCGGGAATAGA	58.708	41.667	12.47	0.00	0.00	1.98
539	556	5.754890	GGATACTAAAAACGCGGGAATAGAA	59.245	40.000	12.47	0.00	0.00	2.10
540	557	6.258507	GGATACTAAAAACGCGGGAATAGAAA	59.741	38.462	12.47	2.86	0.00	2.52
541	558	5.945466	ACTAAAAACGCGGGAATAGAAAA	57.055	34.783	12.47	0.00	0.00	2.29
542	559	6.316440	ACTAAAAACGCGGGAATAGAAAAA	57.684	33.333	12.47	0.00	0.00	1.94
624	641	5.008217	ACAAGATTTTGGTTCGTTCGATTGA	59.992	36.000	0.57	0.00	38.66	2.57
807	829	4.452825	TCCTACGAATCAAACAACCAACA	58.547	39.130	0.00	0.00	0.00	3.33
870	894	6.264067	CCTATGAAAATCAAAGGAGCCCTTAG	59.736	42.308	6.88	0.00	43.92	2.18
871	895	4.344104	TGAAAATCAAAGGAGCCCTTAGG	58.656	43.478	6.88	0.00	43.92	2.69
872	896	4.044065	TGAAAATCAAAGGAGCCCTTAGGA	59.956	41.667	0.00	8.26	43.92	2.94
873	897	4.888626	AAATCAAAGGAGCCCTTAGGAT	57.111	40.909	0.00	9.82	43.92	3.24
874	898	3.872459	ATCAAAGGAGCCCTTAGGATG	57.128	47.619	0.00	7.93	43.92	3.51
875	899	2.845659	TCAAAGGAGCCCTTAGGATGA	58.154	47.619	0.00	4.91	43.92	2.92
876	900	3.397527	TCAAAGGAGCCCTTAGGATGAT	58.602	45.455	0.00	0.00	43.92	2.45
877	901	3.788142	TCAAAGGAGCCCTTAGGATGATT	59.212	43.478	0.00	0.00	43.92	2.57
878	902	4.230502	TCAAAGGAGCCCTTAGGATGATTT	59.769	41.667	0.00	0.00	43.92	2.17
879	903	4.888626	AAGGAGCCCTTAGGATGATTTT	57.111	40.909	0.00	0.00	42.74	1.82
880	904	4.888626	AGGAGCCCTTAGGATGATTTTT	57.111	40.909	0.00	0.00	33.47	1.94
934	958	1.972588	AAGTGGGCTTGGACTAGGAT	58.027	50.000	0.00	0.00	32.92	3.24
974	998	0.736325	AATCTGGCACGAGCGTGTAC	60.736	55.000	22.06	16.11	46.90	2.90
1076	1105	1.470098	CAAACCATCTCGAGCCAAAGG	59.530	52.381	7.81	7.19	0.00	3.11
1228	1258	2.318172	ACCTCCCCTCCGAGTAGCT	61.318	63.158	0.00	0.00	0.00	3.32
1323	1353	1.687563	CAGGATGATGGCTGCATTCA	58.312	50.000	0.50	4.00	39.69	2.57
1324	1354	2.239400	CAGGATGATGGCTGCATTCAT	58.761	47.619	14.08	14.08	39.69	2.57
1332	1362	0.945813	GGCTGCATTCATGAGAGAGC	59.054	55.000	0.50	2.72	0.00	4.09
1384	1414	3.068691	CCCGAAGTGCTCCTCCGA	61.069	66.667	0.00	0.00	0.00	4.55
2116	2146	4.012374	TGCTTGATGAGATGGGAAAGAAC	58.988	43.478	0.00	0.00	0.00	3.01
2203	2233	3.484886	CGCTTGCAGCTCTCAATTTACTC	60.485	47.826	0.00	0.00	39.60	2.59
2233	2263	0.317770	GTGATGTTGGTTGTGTGCCG	60.318	55.000	0.00	0.00	0.00	5.69
2711	2741	3.061369	TGAGGTGAGAGGGCCTATAGTA	58.939	50.000	5.73	0.00	34.81	1.82
2748	2778	4.211164	GCTTGTAATTTGGTTGTTTCCTGC	59.789	41.667	0.00	0.00	0.00	4.85
2931	2962	2.108168	GGTGGGCACTAGTCATGACTA	58.892	52.381	29.19	29.19	42.54	2.59
2980	4605	7.553334	TCAATAGTCCTAATTCCTACACACAC	58.447	38.462	0.00	0.00	0.00	3.82
3082	4709	8.883731	ACTAGTCATCAATATTGTTTGTAGTGC	58.116	33.333	14.97	5.41	0.00	4.40
3111	4738	5.497464	TTCATCCACAGTACAAGATGGAA	57.503	39.130	10.34	4.49	44.25	3.53
3245	4876	2.250031	TCGTTTCTGCCAACCCTAGTA	58.750	47.619	0.00	0.00	0.00	1.82
3363	4996	8.057536	TGTTTTGCTTAGTGGTTCTCTTTTAA	57.942	30.769	0.00	0.00	0.00	1.52
3424	5057	9.150348	GTGCAGCATGGTAGTTTAATTTTTAAT	57.850	29.630	0.00	0.00	35.86	1.40
3463	5099	2.691526	TGTCAACCTTCTGTACGTCTGT	59.308	45.455	0.00	0.00	0.00	3.41
3481	5117	6.867293	ACGTCTGTTCCTCTGTTTCTTATAAC	59.133	38.462	0.00	0.00	0.00	1.89
3610	5246	1.407979	AGCTGAGCATTTTAGGCATGC	59.592	47.619	9.90	9.90	46.39	4.06
3631	5267	7.705325	GCATGCATGAAGAACTGAAGATAATTT	59.295	33.333	30.64	0.00	0.00	1.82

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
27	28	1.273606	AGTCACCGTGGATTCACTCTG	59.726	52.381	1.86	0.00	41.53	3.35
31	32	1.156736	CCAAGTCACCGTGGATTCAC	58.843	55.000	0.00	0.00	42.22	3.18
39	40	0.762418	TCCATCAACCAAGTCACCGT	59.238	50.000	0.00	0.00	0.00	4.83
43	44	3.826157	GTCCAAATCCATCAACCAAGTCA	59.174	43.478	0.00	0.00	0.00	3.41
47	48	3.081061	CTCGTCCAAATCCATCAACCAA	58.919	45.455	0.00	0.00	0.00	3.67
50	51	1.401905	GCCTCGTCCAAATCCATCAAC	59.598	52.381	0.00	0.00	0.00	3.18
66	67	1.730612	GTAGTTAAGTTGTGGCGCCTC	59.269	52.381	29.70	25.38	0.00	4.70
71	72	6.796705	ACAACATAGTAGTTAAGTTGTGGC	57.203	37.500	8.27	0.00	46.62	5.01
132	147	0.391130	TATCAGCACCCGCAGTCAAC	60.391	55.000	0.00	0.00	42.27	3.18
134	149	1.517361	CTATCAGCACCCGCAGTCA	59.483	57.895	0.00	0.00	42.27	3.41
141	156	0.399233	ACCCTCTCCTATCAGCACCC	60.399	60.000	0.00	0.00	0.00	4.61
156	171	2.351276	GGACATCCGCACAACCCT	59.649	61.111	0.00	0.00	0.00	4.34
168	183	1.271379	TGTCTCGCTGTAAACGGACAT	59.729	47.619	0.00	0.00	36.50	3.06
172	187	2.478894	ACAATTGTCTCGCTGTAAACGG	59.521	45.455	4.92	0.00	0.00	4.44
173	188	3.423123	GGACAATTGTCTCGCTGTAAACG	60.423	47.826	31.81	0.00	44.20	3.60
201	216	7.170658	GGAGAAACATATTCATAGTCTCACAGC	59.829	40.741	0.00	0.00	33.29	4.40
202	217	7.655328	GGGAGAAACATATTCATAGTCTCACAG	59.345	40.741	0.00	0.00	34.80	3.66
242	257	3.338249	TCAGAAAGACTAGCACAATGCC	58.662	45.455	0.00	0.00	46.52	4.40
261	276	4.314522	TTGCCCAACTTCTCCAATATCA	57.685	40.909	0.00	0.00	0.00	2.15
264	279	3.838565	TGTTTGCCCAACTTCTCCAATA	58.161	40.909	0.00	0.00	36.21	1.90
291	307	3.885297	CTGTTTCAAGATGTTGGGACTGT	59.115	43.478	2.33	0.00	34.09	3.55
292	308	3.304928	GCTGTTTCAAGATGTTGGGACTG	60.305	47.826	2.33	7.13	34.09	3.51
294	310	2.029918	GGCTGTTTCAAGATGTTGGGAC	60.030	50.000	2.33	2.98	34.09	4.46
295	311	2.238521	GGCTGTTTCAAGATGTTGGGA	58.761	47.619	2.33	0.00	34.09	4.37
313	330	2.985847	GCAGAGGGTGTGTTGGGC	60.986	66.667	0.00	0.00	0.00	5.36
322	339	2.450476	CTTTGCCTTAATGCAGAGGGT	58.550	47.619	13.39	0.00	43.21	4.34
323	340	1.135721	GCTTTGCCTTAATGCAGAGGG	59.864	52.381	19.93	5.61	42.15	4.30
330	347	4.872124	GGAAAATCCAGCTTTGCCTTAATG	59.128	41.667	0.00	0.00	36.28	1.90
338	355	1.066645	GGGCAGGAAAATCCAGCTTTG	60.067	52.381	12.63	0.00	46.79	2.77
339	356	1.269958	GGGCAGGAAAATCCAGCTTT	58.730	50.000	12.63	0.00	46.79	3.51
340	357	0.114954	TGGGCAGGAAAATCCAGCTT	59.885	50.000	12.63	0.00	46.79	3.74
378	395	2.161808	TCGGAAGCTAGACTCGTTGAAG	59.838	50.000	0.00	0.00	0.00	3.02
383	400	2.168106	TCTAGTCGGAAGCTAGACTCGT	59.832	50.000	18.71	3.52	45.46	4.18
402	419	0.105246	ATCTCGCTCCCCCTTCATCT	60.105	55.000	0.00	0.00	0.00	2.90
568	585	9.904198	TGAGATTAACATGACATTTCAATCCTA	57.096	29.630	0.00	0.00	34.61	2.94
655	677	7.374272	TGCAATCGAACAATCCAAAAATCTTA	58.626	30.769	0.00	0.00	0.00	2.10
790	812	7.922505	TTTTCTATGTTGGTTGTTTGATTCG	57.077	32.000	0.00	0.00	0.00	3.34
889	913	3.456277	AGCAACTCTAACCCATCCTAAGG	59.544	47.826	0.00	0.00	0.00	2.69
890	914	4.407296	AGAGCAACTCTAACCCATCCTAAG	59.593	45.833	0.00	0.00	39.28	2.18
891	915	4.362677	AGAGCAACTCTAACCCATCCTAA	58.637	43.478	0.00	0.00	39.28	2.69
892	916	3.995636	AGAGCAACTCTAACCCATCCTA	58.004	45.455	0.00	0.00	39.28	2.94
893	917	2.839228	AGAGCAACTCTAACCCATCCT	58.161	47.619	0.00	0.00	39.28	3.24
934	958	2.282110	CCACACGGCCCATGTTGA	60.282	61.111	4.52	0.00	0.00	3.18
1323	1353	3.222855	CCTCGCCCGCTCTCTCAT	61.223	66.667	0.00	0.00	0.00	2.90
1430	1460	2.161609	AGGACAAATTTTCGGCGTCATC	59.838	45.455	6.85	0.00	0.00	2.92
1435	1465	1.135689	CCAGAGGACAAATTTTCGGCG	60.136	52.381	0.00	0.00	0.00	6.46
1951	1981	7.304497	AGAGTACTGTTTTATTGTCAGGAGT	57.696	36.000	0.00	0.00	34.02	3.85
2014	2044	4.206477	TGTCAATACATCAGGAGTGTGG	57.794	45.455	0.00	0.00	0.00	4.17
2116	2146	0.391263	GAAGGTCAGGTGTAAGCCCG	60.391	60.000	0.00	0.00	32.25	6.13
2203	2233	7.119699	ACACAACCAACATCACTCATATAGTTG	59.880	37.037	0.00	0.00	35.76	3.16
2233	2263	3.316308	AGTTTGTGAAATGGAGCACACTC	59.684	43.478	0.00	0.00	43.97	3.51
2545	2575	3.467803	ACTGTACACTGAGAAGTTTGGC	58.532	45.455	0.00	0.00	0.00	4.52
2748	2778	4.959210	TCCCTTATGACCTCTCTTTCTGAG	59.041	45.833	0.00	0.00	43.96	3.35
2779	2809	5.997746	ACGATTATAGTGCAATTGGCTACAT	59.002	36.000	7.72	0.00	45.15	2.29
2931	2962	6.102897	AGCAGTGTTAGTTCATTACTCACT	57.897	37.500	0.00	0.00	40.61	3.41
3082	4709	6.820335	TCTTGTACTGTGGATGAATATCTGG	58.180	40.000	0.00	0.00	33.68	3.86
3111	4738	6.315393	GGTCGTCATTGAGTAAAACCATATGT	59.685	38.462	1.24	0.00	0.00	2.29
3227	4858	5.123936	CCTATTACTAGGGTTGGCAGAAAC	58.876	45.833	0.00	0.00	40.91	2.78
3245	4876	7.092623	TGTGACATGTAATCCACTAACCCTATT	60.093	37.037	14.38	0.00	30.77	1.73
3424	5057	8.692710	AGGTTGACATTGACTAGAACGATAATA	58.307	33.333	0.00	0.00	0.00	0.98
3425	5058	7.556844	AGGTTGACATTGACTAGAACGATAAT	58.443	34.615	0.00	0.00	0.00	1.28
3426	5059	6.931838	AGGTTGACATTGACTAGAACGATAA	58.068	36.000	0.00	0.00	0.00	1.75
3497	5133	5.409826	GCATGCACCTACTACCAGATTAATC	59.590	44.000	14.21	7.41	0.00	1.75
3508	5144	3.199727	TCATTGAAGGCATGCACCTACTA	59.800	43.478	21.36	3.38	39.93	1.82
3631	5267	4.094830	TCTATACACGCCTACCTCATCA	57.905	45.455	0.00	0.00	0.00	3.07
3711	5347	9.787435	TGACTTTGTACCATTACATCTAAAGTT	57.213	29.630	0.00	0.00	36.40	2.66

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.