AutoCloner

Multiple sequence alignment - TraesCS1B01G320500

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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	TraesCS1B01G320500	chr1B	100.000	5393	0	0	1	5393	544805962	544811354	0.000000e+00	9960.0
1	TraesCS1B01G320500	chr1B	94.004	4853	206	45	571	5378	544949839	544954651	0.000000e+00	7271.0
2	TraesCS1B01G320500	chr1B	84.921	2162	288	27	2499	4650	544787402	544789535	0.000000e+00	2152.0
3	TraesCS1B01G320500	chr1B	84.136	353	31	14	223	572	544949454	544949784	8.720000e-83	318.0
4	TraesCS1B01G320500	chr1B	95.333	150	6	1	2352	2501	544786428	544786576	2.510000e-58	237.0
5	TraesCS1B01G320500	chr1D	92.983	4831	280	34	571	5378	405065694	405070488	0.000000e+00	6988.0
6	TraesCS1B01G320500	chr1D	86.408	2060	245	18	2592	4638	404987782	404989819	0.000000e+00	2220.0
7	TraesCS1B01G320500	chr1D	91.074	773	69	0	1823	2595	404980578	404981350	0.000000e+00	1046.0
8	TraesCS1B01G320500	chr1D	89.583	720	68	2	951	1670	404979871	404980583	0.000000e+00	907.0
9	TraesCS1B01G320500	chr1D	89.206	491	33	10	7	496	405065113	405065584	3.600000e-166	595.0
10	TraesCS1B01G320500	chr1D	90.683	161	14	1	1604	1764	43180938	43180779	4.230000e-51	213.0
11	TraesCS1B01G320500	chr1D	85.987	157	21	1	4203	4359	405063013	405063168	3.340000e-37	167.0
12	TraesCS1B01G320500	chr1D	91.026	78	5	2	133	209	405065307	405065231	2.660000e-18	104.0
13	TraesCS1B01G320500	chr1A	95.649	4183	170	5	829	5002	500363808	500367987	0.000000e+00	6706.0
14	TraesCS1B01G320500	chr1A	91.919	3242	221	26	2161	5376	500376263	500379489	0.000000e+00	4497.0
15	TraesCS1B01G320500	chr1A	86.489	3723	428	36	959	4638	500351953	500355643	0.000000e+00	4019.0
16	TraesCS1B01G320500	chr1A	88.710	1364	106	22	571	1903	500374914	500376260	0.000000e+00	1622.0
17	TraesCS1B01G320500	chr1A	86.548	617	37	11	290	899	500362209	500362786	5.890000e-179	638.0
18	TraesCS1B01G320500	chr1A	93.316	389	26	0	5005	5393	500368072	500368460	4.680000e-160	575.0
19	TraesCS1B01G320500	chr1A	85.185	351	27	15	223	570	500374529	500374857	2.410000e-88	337.0
20	TraesCS1B01G320500	chr1A	88.957	163	9	2	6	167	500361979	500362133	5.510000e-45	193.0
21	TraesCS1B01G320500	chr1A	89.916	119	12	0	4241	4359	500359896	500360014	2.600000e-33	154.0
22	TraesCS1B01G320500	chrUn	100.000	414	0	0	3573	3986	477401061	477401474	0.000000e+00	765.0
23	TraesCS1B01G320500	chr6A	85.897	78	10	1	141	217	33306965	33306888	1.240000e-11	82.4
24	TraesCS1B01G320500	chr7A	84.337	83	11	2	133	214	664789393	664789474	4.480000e-11	80.5
25	TraesCS1B01G320500	chr7D	87.273	55	7	0	156	210	634292594	634292648	4.510000e-06	63.9
26	TraesCS1B01G320500	chr3B	87.273	55	5	2	136	189	571798409	571798356	1.620000e-05	62.1
27	TraesCS1B01G320500	chr4B	97.059	34	0	1	187	219	410071078	410071045	7.550000e-04	56.5
28	TraesCS1B01G320500	chr7B	87.500	48	4	2	133	179	743365203	743365157	3.000000e-03	54.7

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	TraesCS1B01G320500	chr1B	544805962	544811354	5392	False	9960.000000	9960	100.000000	1	5393	1	chr1B.!!$F1	5392
1	TraesCS1B01G320500	chr1B	544949454	544954651	5197	False	3794.500000	7271	89.070000	223	5378	2	chr1B.!!$F3	5155
2	TraesCS1B01G320500	chr1B	544786428	544789535	3107	False	1194.500000	2152	90.127000	2352	4650	2	chr1B.!!$F2	2298
3	TraesCS1B01G320500	chr1D	405063013	405070488	7475	False	2583.333333	6988	89.392000	7	5378	3	chr1D.!!$F3	5371
4	TraesCS1B01G320500	chr1D	404987782	404989819	2037	False	2220.000000	2220	86.408000	2592	4638	1	chr1D.!!$F1	2046
5	TraesCS1B01G320500	chr1D	404979871	404981350	1479	False	976.500000	1046	90.328500	951	2595	2	chr1D.!!$F2	1644
6	TraesCS1B01G320500	chr1A	500351953	500355643	3690	False	4019.000000	4019	86.489000	959	4638	1	chr1A.!!$F1	3679
7	TraesCS1B01G320500	chr1A	500374529	500379489	4960	False	2152.000000	4497	88.604667	223	5376	3	chr1A.!!$F3	5153
8	TraesCS1B01G320500	chr1A	500359896	500368460	8564	False	1653.200000	6706	90.877200	6	5393	5	chr1A.!!$F2	5387

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	Hairpin	End Stability	Orientation
138	2480	0.178975	ATAGTCTCTGAGCCCCTCCG	60.179	60.000	0.00	0.00	4.63	F
472	2824	0.465460	AGTGTCACACGGCAACCAAT	60.465	50.000	1.22	39.64	3.16	F
713	3122	1.074405	ACCTAGTAGACACCGTGGTCA	59.926	52.381	3.03	40.29	4.02	F
2000	5575	1.639108	AGGGAAACTAATGGGTGGGAC	59.361	52.381	0.00	0.00	4.46	F
2533	6936	0.453793	CCTAGCACAGTCGGTCTCAG	59.546	60.000	0.00	0.00	3.35	F
2888	7291	0.957362	AGGCTCTTCAGCTTGCAAAC	59.043	50.000	0.00	46.03	2.93	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1275	4811	1.003233	CTGGACGGGCCTTCTAGTTTT	59.997	52.381	14.31	0.00	37.63	2.43	R
1686	5261	1.705186	ACACACAGCCAGACCCTTAAT	59.295	47.619	0.00	0.00	0.00	1.40	R
2533	6936	4.825422	TCCAGTCTGAGACATTCATGAAC	58.175	43.478	15.86	0.00	34.68	3.18	R
3351	7755	1.754226	GACAAGTGGAGGGTTTGCAAA	59.246	47.619	8.05	8.05	0.00	3.68	R
4027	8432	0.459237	GTGAGATGTGTCAGCGAGGG	60.459	60.000	0.00	0.00	0.00	4.30	R
4400	8805	1.401931	CCATTTGTGTAGCACTGCTGC	60.402	52.381	14.15	12.97	44.63	5.25	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
56	2397	1.679977	CACCCCAACAGCCCATCAG	60.680	63.158	0.00	0.00	0.00	2.90
57	2398	2.043652	CCCCAACAGCCCATCAGG	60.044	66.667	0.00	0.00	39.47	3.86
92	2433	7.816640	TGCTGAAATAATAACAGAGGAAACAC	58.183	34.615	0.00	0.00	34.07	3.32
138	2480	0.178975	ATAGTCTCTGAGCCCCTCCG	60.179	60.000	0.00	0.00	0.00	4.63
167	2509	7.010367	CCATAATAAGCGTCGTGGTTTTAGTTA	59.990	37.037	0.00	0.00	39.46	2.24
213	2556	7.147532	ACACTTATTATGGAAAGGAGGGAGTAC	60.148	40.741	0.00	0.00	0.00	2.73
268	2619	4.390603	TGCACGTACCTTCATCAATTACAC	59.609	41.667	0.00	0.00	0.00	2.90
280	2631	8.614469	TTCATCAATTACACACAATACACTGA	57.386	30.769	0.00	0.00	0.00	3.41
317	2668	1.558756	CAGTCTCAGCTTCCCCTTCAT	59.441	52.381	0.00	0.00	0.00	2.57
330	2681	7.786464	AGCTTCCCCTTCATAAAAATCATACAT	59.214	33.333	0.00	0.00	0.00	2.29
463	2815	1.202371	ACACCTACACAGTGTCACACG	60.202	52.381	10.23	0.00	45.13	4.49
472	2824	0.465460	AGTGTCACACGGCAACCAAT	60.465	50.000	1.22	0.00	39.64	3.16
497	2849	3.140144	TGTTCCCTTTTCCCATCTGAAGT	59.860	43.478	0.00	0.00	0.00	3.01
501	2853	3.507622	CCCTTTTCCCATCTGAAGTCAAC	59.492	47.826	0.00	0.00	0.00	3.18
560	2912	1.497722	GCTTCCTTCGCTTGGTTCG	59.502	57.895	0.00	0.00	0.00	3.95
670	3079	9.862371	ACAGAAAGTTATGTGTTGAGTAGATAG	57.138	33.333	0.00	0.00	30.37	2.08
713	3122	1.074405	ACCTAGTAGACACCGTGGTCA	59.926	52.381	3.03	0.00	40.29	4.02
735	3144	2.862738	TGAGCATCACATGTGCAGG	58.137	52.632	21.38	13.05	42.56	4.85
866	3279	3.467776	GCTTCAGCTGGTAGGAAGG	57.532	57.895	15.13	0.00	38.71	3.46
1239	4775	4.813750	TGTCGCATATGAGATGGATGAT	57.186	40.909	12.50	0.00	0.00	2.45
1275	4811	1.687146	AGCTGAGGCCCTTCGATCA	60.687	57.895	0.00	0.00	39.73	2.92
1297	4833	2.284331	TAGAAGGCCCGTCCAGCA	60.284	61.111	0.00	0.00	37.29	4.41
1409	4945	3.663198	AGGTGGAGGAGAAGCTCAATAT	58.337	45.455	0.00	0.00	31.08	1.28
1446	4982	9.396022	GAAAGAGAGATTATTGGTCCAAACATA	57.604	33.333	8.75	0.00	0.00	2.29
1454	4990	9.965824	GATTATTGGTCCAAACATAATTAGTGG	57.034	33.333	8.75	0.00	0.00	4.00
1642	5217	3.469739	GGACTAGGGAAGACGACTCTAG	58.530	54.545	0.00	0.00	35.03	2.43
2000	5575	1.639108	AGGGAAACTAATGGGTGGGAC	59.361	52.381	0.00	0.00	0.00	4.46
2533	6936	0.453793	CCTAGCACAGTCGGTCTCAG	59.546	60.000	0.00	0.00	0.00	3.35
2832	7235	8.674263	AAATGCTTCGATATTTGAATCTCTCT	57.326	30.769	0.00	0.00	0.00	3.10
2848	7251	2.034878	TCTCTGGCACTGGTATAGCAG	58.965	52.381	26.44	26.44	0.00	4.24
2850	7253	2.169352	CTCTGGCACTGGTATAGCAGTT	59.831	50.000	30.11	15.73	0.00	3.16
2888	7291	0.957362	AGGCTCTTCAGCTTGCAAAC	59.043	50.000	0.00	0.00	46.03	2.93
2892	7295	2.857489	GCTCTTCAGCTTGCAAACACTG	60.857	50.000	14.56	14.56	43.09	3.66
2913	7316	4.935702	TGAAGTTGAAAAACTGCCATGAG	58.064	39.130	0.00	0.00	32.47	2.90
2928	7331	4.021104	TGCCATGAGTTAGATTATCTCCCG	60.021	45.833	0.00	0.00	0.00	5.14
3351	7755	7.178451	CCAAATTGGTTTAGTAGTCTTTCCCAT	59.822	37.037	3.34	0.00	31.35	4.00
4000	8405	4.878397	GCTCATGCTACAACCTTATCAACT	59.122	41.667	0.00	0.00	36.03	3.16
4071	8476	2.086869	GCTGATTGTGCTAGCCTTCAA	58.913	47.619	13.29	14.77	0.00	2.69
4110	8515	2.143122	CCTGCGACTCTGCAAAAACTA	58.857	47.619	0.00	0.00	45.74	2.24
4188	8593	3.742954	CGTGCCTAACAGCCATAACCATA	60.743	47.826	0.00	0.00	0.00	2.74
4237	8642	2.436115	GGCGCCTTACAGGGTCAC	60.436	66.667	22.15	0.00	35.37	3.67
4239	8644	1.610554	GGCGCCTTACAGGGTCACTA	61.611	60.000	22.15	0.00	35.37	2.74
4359	8764	6.285990	TGAGATCAGTGATGATACCAACATG	58.714	40.000	11.20	0.00	0.00	3.21
4371	8776	3.576078	ACCAACATGACCAACAAGAGA	57.424	42.857	0.00	0.00	0.00	3.10
4400	8805	6.400834	CGAAGAAGATTATCATGAATGCCTCG	60.401	42.308	0.00	0.00	0.00	4.63
4566	8990	4.451096	AGCACATAAACACACTTAGGTTCG	59.549	41.667	0.00	0.00	0.00	3.95
4604	9029	5.470098	ACCTAACCGCAAGCAATAATCATAG	59.530	40.000	0.00	0.00	0.00	2.23
4774	9200	9.638176	AGCATCAAAAGATTCATTATCTACCTT	57.362	29.630	0.00	0.00	42.90	3.50
4839	9266	0.177836	CATATCCACAGGTCGCCACA	59.822	55.000	0.00	0.00	0.00	4.17
4876	9303	5.939764	TGGTCAAGTCATATAGCTGTTCT	57.060	39.130	0.00	0.00	0.00	3.01
4927	9354	4.457810	CTGTGATACGAGCAAGTTTGTTG	58.542	43.478	0.00	0.00	0.00	3.33
4968	9395	6.353323	TGCATAGTAGCAAGCTTATTTGGTA	58.647	36.000	0.00	0.00	42.46	3.25
5007	9516	6.049955	TGGTTGCATTAGCTTCTAAGTAGT	57.950	37.500	0.00	0.00	42.74	2.73
5009	9518	7.039882	TGGTTGCATTAGCTTCTAAGTAGTAC	58.960	38.462	0.00	0.00	42.74	2.73
5103	9619	6.578163	TGGTTATTAAAAGTTAGTGTGGCC	57.422	37.500	0.00	0.00	0.00	5.36
5111	9627	2.616524	AGTTAGTGTGGCCCTCTGTTA	58.383	47.619	0.00	0.00	0.00	2.41
5184	9700	2.777832	AAGAAGATCCTGTGCTCACC	57.222	50.000	0.00	0.00	0.00	4.02
5205	9722	6.995686	TCACCTGTGCACTTTCTTTTATCTAA	59.004	34.615	19.41	0.00	0.00	2.10
5225	9742	7.643528	TCTAATTGCAGATATCGTGTTGATC	57.356	36.000	0.00	0.00	38.57	2.92
5311	9828	7.212976	TGCCATCAGAAGACTAATCTAATGTC	58.787	38.462	0.00	0.00	33.57	3.06
5327	9847	7.647907	TCTAATGTCCTTAACTTCAAACGAC	57.352	36.000	0.00	0.00	0.00	4.34
5385	9906	3.492102	AGTAGTTTCAGGCTTTCAGCA	57.508	42.857	0.00	0.00	44.75	4.41
5389	9910	2.105477	AGTTTCAGGCTTTCAGCAGAGA	59.895	45.455	0.00	0.00	44.75	3.10

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
10	11	9.859427	CAACTTCTGCCATTCAAAGATTTATTA	57.141	29.630	0.00	0.00	0.00	0.98
26	2367	0.467290	TTGGGGTGTCAACTTCTGCC	60.467	55.000	0.00	0.00	0.00	4.85
56	2397	1.760192	ATTTCAGCAGAGTGATGGCC	58.240	50.000	0.00	0.00	33.99	5.36
57	2398	6.038603	TGTTATTATTTCAGCAGAGTGATGGC	59.961	38.462	0.00	0.00	33.99	4.40
92	2433	5.934625	ACAGGTGTTAGTTAATTCAGCTCAG	59.065	40.000	0.00	0.00	36.68	3.35
138	2480	3.192466	ACCACGACGCTTATTATGGAAC	58.808	45.455	5.51	0.00	0.00	3.62
183	2526	6.353951	CCCTCCTTTCCATAATAAGTGTCCTT	60.354	42.308	0.00	0.00	34.56	3.36
185	2528	5.132144	TCCCTCCTTTCCATAATAAGTGTCC	59.868	44.000	0.00	0.00	0.00	4.02
189	2532	6.906901	TGTACTCCCTCCTTTCCATAATAAGT	59.093	38.462	0.00	0.00	0.00	2.24
202	2545	8.842764	TCCTTTTTATAAAATGTACTCCCTCCT	58.157	33.333	11.33	0.00	0.00	3.69
236	2584	3.262420	GAAGGTACGTGCATGATTGAGT	58.738	45.455	14.17	0.00	0.00	3.41
268	2619	2.027745	AGGTGCCTCTCAGTGTATTGTG	60.028	50.000	0.00	0.00	0.00	3.33
334	2685	4.695455	ACCGCTTCAACTTACTAGTACGTA	59.305	41.667	12.02	0.00	33.17	3.57
335	2686	3.503748	ACCGCTTCAACTTACTAGTACGT	59.496	43.478	6.23	6.23	33.17	3.57
336	2687	4.088823	ACCGCTTCAACTTACTAGTACG	57.911	45.455	0.91	3.18	33.17	3.67
337	2688	5.051891	TGACCGCTTCAACTTACTAGTAC	57.948	43.478	0.91	0.00	33.17	2.73
343	2694	2.973945	AGGATGACCGCTTCAACTTAC	58.026	47.619	0.00	0.00	37.92	2.34
378	2729	4.241681	GCCGTTCTTGCATGGAAAATTTA	58.758	39.130	0.00	0.00	0.00	1.40
463	2815	1.584495	GGGAACACGATTGGTTGCC	59.416	57.895	8.42	8.42	46.97	4.52
472	2824	1.702957	AGATGGGAAAAGGGAACACGA	59.297	47.619	0.00	0.00	0.00	4.35
497	2849	1.347707	ACCGCTGAAGGAAGATGTTGA	59.652	47.619	0.00	0.00	34.73	3.18
501	2853	2.393271	AAGACCGCTGAAGGAAGATG	57.607	50.000	0.00	0.00	34.73	2.90
560	2912	0.737219	CCTATGCAGCTTCCTTGTGC	59.263	55.000	0.00	0.00	37.73	4.57
691	3100	2.941720	GACCACGGTGTCTACTAGGTAG	59.058	54.545	7.45	0.00	37.47	3.18
696	3105	4.281435	TCAATTTGACCACGGTGTCTACTA	59.719	41.667	7.45	0.00	36.21	1.82
697	3106	3.070446	TCAATTTGACCACGGTGTCTACT	59.930	43.478	7.45	0.00	36.21	2.57
698	3107	3.395639	TCAATTTGACCACGGTGTCTAC	58.604	45.455	7.45	0.00	36.21	2.59
713	3122	3.368013	CCTGCACATGTGATGCTCAATTT	60.368	43.478	29.80	0.00	43.77	1.82
889	4397	4.040461	GGGAGGCACACTATTATTGCTCTA	59.960	45.833	0.00	0.00	36.46	2.43
1112	4648	3.369147	CGACAGACTGCTGGATAGTTTTG	59.631	47.826	1.25	0.00	46.60	2.44
1113	4649	3.258372	TCGACAGACTGCTGGATAGTTTT	59.742	43.478	1.25	0.00	46.60	2.43
1239	4775	3.002965	CAGCTGCATAATCATCGAGCAAA	59.997	43.478	0.00	0.00	34.45	3.68
1275	4811	1.003233	CTGGACGGGCCTTCTAGTTTT	59.997	52.381	14.31	0.00	37.63	2.43
1297	4833	4.892934	TCTAACCTTGCTCAAATGGTTGTT	59.107	37.500	13.38	0.00	42.09	2.83
1361	4897	2.507484	TGTCTTGCAGAATCTTGTGGG	58.493	47.619	0.00	0.00	0.00	4.61
1409	4945	4.630644	ATCTCTCTTTCCTTGACAAGCA	57.369	40.909	9.85	0.00	0.00	3.91
1446	4982	6.043243	TCTCTTTCCTGTCTGTTCCACTAATT	59.957	38.462	0.00	0.00	0.00	1.40
1454	4990	8.091449	TCTCTTTTATCTCTTTCCTGTCTGTTC	58.909	37.037	0.00	0.00	0.00	3.18
1642	5217	4.631377	TGTATCATTGTAGACAAGCTGTGC	59.369	41.667	1.09	0.00	39.47	4.57
1686	5261	1.705186	ACACACAGCCAGACCCTTAAT	59.295	47.619	0.00	0.00	0.00	1.40
2533	6936	4.825422	TCCAGTCTGAGACATTCATGAAC	58.175	43.478	15.86	0.00	34.68	3.18
2832	7235	3.081061	CAAAACTGCTATACCAGTGCCA	58.919	45.455	1.40	0.00	44.86	4.92
2848	7251	5.170748	CCTACCAATTGATGAAGGCAAAAC	58.829	41.667	7.12	0.00	0.00	2.43
2888	7291	4.108699	TGGCAGTTTTTCAACTTCAGTG	57.891	40.909	0.00	0.00	40.66	3.66
2892	7295	4.936891	ACTCATGGCAGTTTTTCAACTTC	58.063	39.130	0.00	0.00	40.66	3.01
2913	7316	4.127171	TGCTTTGCGGGAGATAATCTAAC	58.873	43.478	0.00	0.00	0.00	2.34
2928	7331	7.761249	AGATTTACAAGATTGGTTATGCTTTGC	59.239	33.333	0.00	0.00	0.00	3.68
3351	7755	1.754226	GACAAGTGGAGGGTTTGCAAA	59.246	47.619	8.05	8.05	0.00	3.68
3986	8391	7.067496	TGAAGAAGAGAGTTGATAAGGTTGT	57.933	36.000	0.00	0.00	0.00	3.32
4027	8432	0.459237	GTGAGATGTGTCAGCGAGGG	60.459	60.000	0.00	0.00	0.00	4.30
4071	8476	4.593956	CAGGGAGCTTTACTGGAAAAGAT	58.406	43.478	8.42	2.86	38.50	2.40
4095	8500	5.729510	AGGATCTCTAGTTTTTGCAGAGTC	58.270	41.667	0.00	0.00	37.62	3.36
4110	8515	4.832266	AGATTACTGCAATCGAGGATCTCT	59.168	41.667	0.00	0.00	46.57	3.10
4188	8593	5.533903	GCATGGTATGAGAGGACATTTCAAT	59.466	40.000	0.00	0.00	0.00	2.57
4237	8642	8.386606	GCATTCTCTGATGTACAGTTCTTTTAG	58.613	37.037	0.33	0.00	45.86	1.85
4239	8644	6.150140	GGCATTCTCTGATGTACAGTTCTTTT	59.850	38.462	0.33	0.00	45.86	2.27
4256	8661	3.541632	TCCAATAGAAACGGGCATTCTC	58.458	45.455	3.18	0.00	38.13	2.87
4359	8764	3.454375	TCTTCGTGTTCTCTTGTTGGTC	58.546	45.455	0.00	0.00	0.00	4.02
4371	8776	7.412853	GCATTCATGATAATCTTCTTCGTGTT	58.587	34.615	0.00	0.00	0.00	3.32
4400	8805	1.401931	CCATTTGTGTAGCACTGCTGC	60.402	52.381	14.15	12.97	44.63	5.25
4439	8852	7.849804	AGACTAAACATGTTTATACAGGCAG	57.150	36.000	26.87	18.23	39.60	4.85
4441	8854	8.943909	AGTAGACTAAACATGTTTATACAGGC	57.056	34.615	26.87	20.50	39.60	4.85
4566	8990	4.142966	GCGGTTAGGTGTTACAAGACATTC	60.143	45.833	0.00	0.00	0.00	2.67
4604	9029	7.275999	GCTGATGTTTACAGTAGTTTCCTAGTC	59.724	40.741	0.00	0.00	37.64	2.59
4876	9303	7.234661	AGGTTTAGGTTTTGTTTTCTGAACA	57.765	32.000	0.00	0.00	30.50	3.18
5076	9592	8.354426	GCCACACTAACTTTTAATAACCAAGAA	58.646	33.333	0.00	0.00	0.00	2.52
5103	9619	4.023450	CAGGCAATGCATATGTAACAGAGG	60.023	45.833	7.79	0.00	0.00	3.69
5111	9627	4.132336	CACTAGACAGGCAATGCATATGT	58.868	43.478	7.79	8.63	0.00	2.29
5184	9700	7.809331	TGCAATTAGATAAAAGAAAGTGCACAG	59.191	33.333	21.04	0.00	44.83	3.66
5205	9722	4.753610	CAGGATCAACACGATATCTGCAAT	59.246	41.667	0.34	0.00	33.17	3.56
5219	9736	6.591448	GTCCAAAAATCATTTCCAGGATCAAC	59.409	38.462	0.00	0.00	31.11	3.18
5221	9738	5.105797	CGTCCAAAAATCATTTCCAGGATCA	60.106	40.000	0.00	0.00	31.11	2.92
5225	9742	4.782019	TCGTCCAAAAATCATTTCCAGG	57.218	40.909	0.00	0.00	0.00	4.45
5311	9828	5.744666	TTTCTGGTCGTTTGAAGTTAAGG	57.255	39.130	0.00	0.00	0.00	2.69
5317	9837	4.875544	TGAGTTTTCTGGTCGTTTGAAG	57.124	40.909	0.00	0.00	0.00	3.02
5327	9847	9.748708	TTCAAAATTACTGATTGAGTTTTCTGG	57.251	29.630	0.00	0.00	35.96	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.