AutoCloner

Multiple sequence alignment - TraesCS6D01G351500

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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	TraesCS6D01G351500	chr6D	100.000	3386	0	0	1	3386	448594081	448597466	0.000000e+00	6253.0
1	TraesCS6D01G351500	chr6D	94.064	2089	94	6	1300	3386	448563894	448565954	0.000000e+00	3144.0
2	TraesCS6D01G351500	chr6D	89.925	1330	111	13	1555	2878	448579766	448581078	0.000000e+00	1692.0
3	TraesCS6D01G351500	chr6D	86.140	873	75	22	427	1291	448577430	448578264	0.000000e+00	900.0
4	TraesCS6D01G351500	chr6D	89.938	487	46	2	773	1256	448563211	448563697	2.870000e-175	625.0
5	TraesCS6D01G351500	chr6D	88.222	433	39	7	1	430	448575980	448576403	1.080000e-139	507.0
6	TraesCS6D01G351500	chr6D	87.791	344	33	8	87	424	448561812	448562152	8.810000e-106	394.0
7	TraesCS6D01G351500	chr6D	89.347	291	30	1	1222	1511	448579412	448579702	6.900000e-97	364.0
8	TraesCS6D01G351500	chr6D	87.547	265	29	3	3126	3386	448581065	448581329	1.530000e-78	303.0
9	TraesCS6D01G351500	chr6A	86.494	2362	209	53	427	2765	594651780	594654054	0.000000e+00	2494.0
10	TraesCS6D01G351500	chr6A	84.719	2297	233	50	518	2765	594608070	594610297	0.000000e+00	2189.0
11	TraesCS6D01G351500	chr6A	87.586	435	43	9	1	430	594634042	594634470	8.440000e-136	494.0
12	TraesCS6D01G351500	chr6A	86.404	228	27	2	1136	1360	594608640	594608866	2.610000e-61	246.0
13	TraesCS6D01G351500	chr6A	93.333	45	3	0	428	472	594608016	594608060	2.180000e-07	67.6
14	TraesCS6D01G351500	chr6B	87.028	2012	187	43	776	2765	679567553	679565594	0.000000e+00	2202.0
15	TraesCS6D01G351500	chr6B	85.336	1473	178	19	1312	2765	679552167	679550714	0.000000e+00	1489.0
16	TraesCS6D01G351500	chr6B	82.193	1505	163	53	428	1914	679397107	679398524	0.000000e+00	1197.0
17	TraesCS6D01G351500	chr6B	85.592	1055	118	20	2343	3386	679547767	679546736	0.000000e+00	1075.0
18	TraesCS6D01G351500	chr6B	92.384	302	18	5	428	725	679567867	679567567	3.120000e-115	425.0
19	TraesCS6D01G351500	chr6B	91.837	294	15	3	428	713	679568507	679568215	5.260000e-108	401.0
20	TraesCS6D01G351500	chr6B	89.837	246	17	5	428	669	679534275	679534516	3.280000e-80	309.0
21	TraesCS6D01G351500	chr6B	89.143	175	15	4	1	175	679532315	679532485	7.360000e-52	215.0
22	TraesCS6D01G351500	chr6B	85.795	176	21	4	1	175	679395106	679395278	2.080000e-42	183.0
23	TraesCS6D01G351500	chr6B	94.595	37	1	1	531	567	679592805	679592770	4.720000e-04	56.5
24	TraesCS6D01G351500	chrUn	87.332	1784	194	18	1562	3337	79404502	79406261	0.000000e+00	2013.0
25	TraesCS6D01G351500	chrUn	87.336	1603	176	14	1738	3337	79378408	79379986	0.000000e+00	1810.0
26	TraesCS6D01G351500	chrUn	89.327	609	60	2	1233	1841	472326635	472326032	0.000000e+00	760.0
27	TraesCS6D01G351500	chrUn	81.828	941	134	22	1719	2657	294343963	294344868	0.000000e+00	756.0
28	TraesCS6D01G351500	chrUn	85.417	672	70	18	428	1088	79375389	79376043	0.000000e+00	673.0
29	TraesCS6D01G351500	chrUn	85.417	672	70	18	428	1088	79402011	79402665	0.000000e+00	673.0
30	TraesCS6D01G351500	chrUn	85.213	541	68	9	2157	2696	79239915	79239386	2.300000e-151	545.0
31	TraesCS6D01G351500	chrUn	86.822	258	34	0	1254	1511	79402864	79403121	4.270000e-74	289.0
32	TraesCS6D01G351500	chrUn	89.143	175	16	3	1	175	79373407	79373578	7.360000e-52	215.0
33	TraesCS6D01G351500	chrUn	89.143	175	16	3	1	175	79400031	79400202	7.360000e-52	215.0
34	TraesCS6D01G351500	chrUn	91.346	104	7	2	328	430	289372049	289372151	1.270000e-29	141.0
35	TraesCS6D01G351500	chrUn	91.346	104	7	2	328	430	334497015	334497117	1.270000e-29	141.0
36	TraesCS6D01G351500	chr2D	81.551	851	133	17	1611	2449	97282021	97282859	0.000000e+00	680.0
37	TraesCS6D01G351500	chr7A	92.045	176	14	0	986	1161	602927666	602927491	7.260000e-62	248.0
38	TraesCS6D01G351500	chr7A	91.346	104	8	1	328	430	163070325	163070428	1.270000e-29	141.0
39	TraesCS6D01G351500	chr5D	93.069	101	6	1	330	429	447395604	447395504	2.720000e-31	147.0
40	TraesCS6D01G351500	chr4A	91.429	105	9	0	326	430	286747848	286747744	9.790000e-31	145.0
41	TraesCS6D01G351500	chr3B	91.176	102	9	0	329	430	631495288	631495187	4.560000e-29	139.0

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	TraesCS6D01G351500	chr6D	448594081	448597466	3385	False	6253.000000	6253	100.000000	1	3386	1	chr6D.!!$F1	3385
1	TraesCS6D01G351500	chr6D	448561812	448565954	4142	False	1387.666667	3144	90.597667	87	3386	3	chr6D.!!$F2	3299
2	TraesCS6D01G351500	chr6D	448575980	448581329	5349	False	753.200000	1692	88.236200	1	3386	5	chr6D.!!$F3	3385
3	TraesCS6D01G351500	chr6A	594651780	594654054	2274	False	2494.000000	2494	86.494000	427	2765	1	chr6A.!!$F2	2338
4	TraesCS6D01G351500	chr6A	594608016	594610297	2281	False	834.200000	2189	88.152000	428	2765	3	chr6A.!!$F3	2337
5	TraesCS6D01G351500	chr6B	679546736	679552167	5431	True	1282.000000	1489	85.464000	1312	3386	2	chr6B.!!$R2	2074
6	TraesCS6D01G351500	chr6B	679565594	679568507	2913	True	1009.333333	2202	90.416333	428	2765	3	chr6B.!!$R3	2337
7	TraesCS6D01G351500	chr6B	679395106	679398524	3418	False	690.000000	1197	83.994000	1	1914	2	chr6B.!!$F1	1913
8	TraesCS6D01G351500	chr6B	679532315	679534516	2201	False	262.000000	309	89.490000	1	669	2	chr6B.!!$F2	668
9	TraesCS6D01G351500	chrUn	79373407	79379986	6579	False	899.333333	1810	87.298667	1	3337	3	chrUn.!!$F4	3336
10	TraesCS6D01G351500	chrUn	79400031	79406261	6230	False	797.500000	2013	87.178500	1	3337	4	chrUn.!!$F5	3336
11	TraesCS6D01G351500	chrUn	472326032	472326635	603	True	760.000000	760	89.327000	1233	1841	1	chrUn.!!$R2	608
12	TraesCS6D01G351500	chrUn	294343963	294344868	905	False	756.000000	756	81.828000	1719	2657	1	chrUn.!!$F2	938
13	TraesCS6D01G351500	chrUn	79239386	79239915	529	True	545.000000	545	85.213000	2157	2696	1	chrUn.!!$R1	539
14	TraesCS6D01G351500	chr2D	97282021	97282859	838	False	680.000000	680	81.551000	1611	2449	1	chr2D.!!$F1	838

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
627	3158	0.105090	TACCACCACCACCACCACTA	60.105	55.0	0.0	0.0	0.0	2.74	F
736	3275	0.107654	AGTCTAATTGTCGCCCAGCC	60.108	55.0	0.0	0.0	0.0	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2085	7585	1.629345	CTGACTTGCATTGCTCGCGA	61.629	55.0	9.26	9.26	0.0	5.87	R
2678	11590	0.391130	TTCTCCTTCGATGCAACCGG	60.391	55.0	0.00	0.00	0.0	5.28	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
62	68	7.933728	TCATGAATTTGACAATTGTTCACTG	57.066	32.000	13.36	11.32	32.35	3.66
96	102	6.601741	TTCAGATGTTTGGAAAATGTTTGC	57.398	33.333	0.00	0.00	0.00	3.68
104	110	6.744537	TGTTTGGAAAATGTTTGCGAATTTTG	59.255	30.769	3.27	0.00	36.40	2.44
107	113	6.713520	TGGAAAATGTTTGCGAATTTTGAAG	58.286	32.000	3.27	0.00	36.40	3.02
114	120	5.003967	TGTTTGCGAATTTTGAAGAAACGTC	59.996	36.000	0.00	0.00	0.00	4.34
156	163	9.862149	TGAGGAAAATAAAGTTTAGAAGGAAGT	57.138	29.630	1.21	0.00	0.00	3.01
197	211	9.112725	ACAGGAAAAAGAAAAATGATGGAAAAG	57.887	29.630	0.00	0.00	0.00	2.27
198	212	8.562052	CAGGAAAAAGAAAAATGATGGAAAAGG	58.438	33.333	0.00	0.00	0.00	3.11
225	239	7.201929	GGGGTAAAACCAACAGAGAAATTACAA	60.202	37.037	0.00	0.00	41.02	2.41
366	380	5.981315	TCCTTTTTACTCCGCGTATAAGATG	59.019	40.000	4.92	0.00	0.00	2.90
372	386	3.628942	ACTCCGCGTATAAGATGTGTGTA	59.371	43.478	4.92	0.00	0.00	2.90
381	395	7.898309	GCGTATAAGATGTGTGTAAAGTCAAAG	59.102	37.037	0.00	0.00	0.00	2.77
600	3131	1.903404	CGCTTTGCCTTCCTTGGGT	60.903	57.895	0.00	0.00	0.00	4.51
627	3158	0.105090	TACCACCACCACCACCACTA	60.105	55.000	0.00	0.00	0.00	2.74
725	3264	1.679032	GCCTTGTCGCCCAGTCTAATT	60.679	52.381	0.00	0.00	0.00	1.40
726	3265	2.009774	CCTTGTCGCCCAGTCTAATTG	58.990	52.381	0.00	0.00	0.00	2.32
727	3266	2.615493	CCTTGTCGCCCAGTCTAATTGT	60.615	50.000	0.00	0.00	0.00	2.71
728	3267	2.380084	TGTCGCCCAGTCTAATTGTC	57.620	50.000	0.00	0.00	0.00	3.18
729	3268	1.278238	GTCGCCCAGTCTAATTGTCG	58.722	55.000	0.00	0.00	0.00	4.35
730	3269	0.459585	TCGCCCAGTCTAATTGTCGC	60.460	55.000	0.00	0.00	0.00	5.19
731	3270	1.429148	CGCCCAGTCTAATTGTCGCC	61.429	60.000	0.00	0.00	0.00	5.54
732	3271	1.095807	GCCCAGTCTAATTGTCGCCC	61.096	60.000	0.00	0.00	0.00	6.13
733	3272	0.251916	CCCAGTCTAATTGTCGCCCA	59.748	55.000	0.00	0.00	0.00	5.36
734	3273	1.656652	CCAGTCTAATTGTCGCCCAG	58.343	55.000	0.00	0.00	0.00	4.45
735	3274	1.009829	CAGTCTAATTGTCGCCCAGC	58.990	55.000	0.00	0.00	0.00	4.85
736	3275	0.107654	AGTCTAATTGTCGCCCAGCC	60.108	55.000	0.00	0.00	0.00	4.85
737	3276	0.107654	GTCTAATTGTCGCCCAGCCT	60.108	55.000	0.00	0.00	0.00	4.58
738	3277	1.138266	GTCTAATTGTCGCCCAGCCTA	59.862	52.381	0.00	0.00	0.00	3.93
739	3278	1.834896	TCTAATTGTCGCCCAGCCTAA	59.165	47.619	0.00	0.00	0.00	2.69
740	3279	2.438021	TCTAATTGTCGCCCAGCCTAAT	59.562	45.455	0.00	0.00	0.00	1.73
847	3397	2.592993	CCCACTTGCCTCTTCCGGA	61.593	63.158	0.00	0.00	0.00	5.14
879	3430	1.202348	ACGATTGTCATCCAGAGCTCG	60.202	52.381	8.37	3.24	0.00	5.03
928	3479	0.255318	AAATAGCAGGCAGAGCAGCT	59.745	50.000	0.00	0.00	42.30	4.24
1039	3594	3.068064	TGACCCTCATCGCGCTGA	61.068	61.111	12.62	12.62	0.00	4.26
1145	3700	1.295101	CATACACCCCGAGCACACA	59.705	57.895	0.00	0.00	0.00	3.72
1155	3710	0.817654	CGAGCACACATAGTCCTCCA	59.182	55.000	0.00	0.00	0.00	3.86
1158	3713	0.905357	GCACACATAGTCCTCCACCT	59.095	55.000	0.00	0.00	0.00	4.00
1167	3722	4.675303	CCTCCACCTCCCACCCCA	62.675	72.222	0.00	0.00	0.00	4.96
1173	3728	3.090532	CCTCCCACCCCAGCTACC	61.091	72.222	0.00	0.00	0.00	3.18
1179	3734	3.339093	ACCCCAGCTACCCCAAGC	61.339	66.667	0.00	0.00	43.11	4.01
1215	3929	4.143333	CCGACCACACCTAGCCCG	62.143	72.222	0.00	0.00	0.00	6.13
1276	5144	4.514577	CCCCGAGCACACCTAGCG	62.515	72.222	0.00	0.00	37.01	4.26
1314	5190	2.009208	CTACCCCTAGTCCTCCGCCT	62.009	65.000	0.00	0.00	0.00	5.52
1587	7082	2.297880	TGTACGTAGGCTGATGTGTGTT	59.702	45.455	0.00	0.00	0.00	3.32
1733	7233	1.595382	CCGCCAAGGCTAGAATCGG	60.595	63.158	9.73	0.00	39.32	4.18
2019	7519	0.250234	CCCATTGCTCGTCCTTCTCA	59.750	55.000	0.00	0.00	0.00	3.27
2085	7585	2.503356	CCCCACACTAATGAGCTCTCTT	59.497	50.000	16.19	10.95	0.00	2.85
2410	11311	2.816204	TTGACCCGTTTCACGTCATA	57.184	45.000	0.00	0.00	40.58	2.15
2602	11514	5.962433	TCCTCTTATGGAAGTTGTTCGTAG	58.038	41.667	0.00	0.00	34.03	3.51
2678	11590	4.371786	TCTCGATGTGCTCAAATATGTCC	58.628	43.478	0.00	0.00	0.00	4.02
2767	11679	9.512435	CTTAGCTTATCAAATTCAGAATTGGTG	57.488	33.333	9.24	5.32	0.00	4.17
2780	11692	0.667993	ATTGGTGAAACGCAGGTGTG	59.332	50.000	0.00	0.00	38.12	3.82
2851	11764	8.499288	TTATTGTTTTAGGATTTTGAAGGGGT	57.501	30.769	0.00	0.00	0.00	4.95
2885	11798	5.614449	GCAACTAAAAATTTGCCGTGAATGG	60.614	40.000	0.00	0.00	41.95	3.16
2933	11848	2.492088	TGGGTAACGATCACTCTCACAG	59.508	50.000	0.00	0.00	37.60	3.66
2976	11891	4.243007	AGTGCAAATTGTTAGTGAAGCC	57.757	40.909	0.00	0.00	0.00	4.35
2981	11896	0.328258	ATTGTTAGTGAAGCCCGCCT	59.672	50.000	0.00	0.00	0.00	5.52
3029	11944	1.032114	CCCCTGCCGTGAGAATTTCC	61.032	60.000	0.00	0.00	0.00	3.13
3072	11987	3.305471	GCATCGAAGTAGATGGTACCTCC	60.305	52.174	14.36	4.70	45.94	4.30
3123	12038	1.985473	AGCATCACTTTGTGAGCCAA	58.015	45.000	6.55	0.00	46.04	4.52
3138	12053	0.746659	GCCAACACAGAAAACTGCCT	59.253	50.000	0.00	0.00	0.00	4.75
3148	12063	6.014156	ACACAGAAAACTGCCTAGAGAAGTAT	60.014	38.462	0.00	0.00	0.00	2.12
3164	12079	6.205853	AGAGAAGTATAGAGTACAAGATGCGG	59.794	42.308	0.00	0.00	0.00	5.69
3186	12101	2.107726	GTTGGGAAACACTTAGGGAGGT	59.892	50.000	0.00	0.00	0.00	3.85
3255	12173	4.885413	TGGCTGAACATTCTTGAATTTGG	58.115	39.130	0.00	0.00	0.00	3.28
3278	12196	3.087031	GCCACCTACACTCTACACACTA	58.913	50.000	0.00	0.00	0.00	2.74
3316	12234	3.883830	ATGAGACCATGAGTGACAGAC	57.116	47.619	0.00	0.00	0.00	3.51
3328	12252	0.253044	TGACAGACCTGCTATTGCCC	59.747	55.000	0.00	0.00	38.71	5.36
3332	12256	0.254178	AGACCTGCTATTGCCCACAG	59.746	55.000	0.00	0.00	38.71	3.66
3368	12292	3.062042	GGTCAATTCTTTTGGCAGCTTG	58.938	45.455	0.00	0.00	0.00	4.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
38	44	6.421501	GCAGTGAACAATTGTCAAATTCATGA	59.578	34.615	12.39	0.00	33.59	3.07
39	45	6.422701	AGCAGTGAACAATTGTCAAATTCATG	59.577	34.615	12.39	11.68	33.59	3.07
40	46	6.518493	AGCAGTGAACAATTGTCAAATTCAT	58.482	32.000	12.39	0.00	33.59	2.57
41	47	5.904941	AGCAGTGAACAATTGTCAAATTCA	58.095	33.333	12.39	8.66	33.59	2.57
42	48	7.928908	TTAGCAGTGAACAATTGTCAAATTC	57.071	32.000	12.39	5.91	33.59	2.17
43	49	8.603181	GTTTTAGCAGTGAACAATTGTCAAATT	58.397	29.630	12.39	0.00	36.39	1.82
96	102	5.448438	TCATGGACGTTTCTTCAAAATTCG	58.552	37.500	0.00	0.00	0.00	3.34
104	110	8.290325	ACTTCTAAAATTCATGGACGTTTCTTC	58.710	33.333	0.00	0.00	0.00	2.87
107	113	7.581476	TCACTTCTAAAATTCATGGACGTTTC	58.419	34.615	0.00	0.00	0.00	2.78
156	163	9.627123	TCTTTTTCCTGTTCATTTTCTCTCTTA	57.373	29.630	0.00	0.00	0.00	2.10
198	212	2.963599	TCTCTGTTGGTTTTACCCCC	57.036	50.000	0.00	0.00	37.50	5.40
236	250	6.386050	AGGTTCTTCCGATTTAGGGAATCTTA	59.614	38.462	0.00	0.00	42.39	2.10
266	280	4.258935	GTTGTCGATCAACGCATACATT	57.741	40.909	12.77	0.00	45.23	2.71
267	281	3.925688	GTTGTCGATCAACGCATACAT	57.074	42.857	12.77	0.00	45.23	2.29
291	305	4.341235	TGCTATTCCTAGTTCGTGCATAGT	59.659	41.667	0.00	0.00	0.00	2.12
366	380	8.959734	ACTTTACAAACTTTGACTTTACACAC	57.040	30.769	8.55	0.00	0.00	3.82
372	386	7.870445	TGCTCAAACTTTACAAACTTTGACTTT	59.130	29.630	8.55	0.00	31.80	2.66
429	443	9.726438	ATGTCAAAGCTCAACTACTAATAAACT	57.274	29.630	0.00	0.00	0.00	2.66
433	2319	7.491372	CGGAATGTCAAAGCTCAACTACTAATA	59.509	37.037	0.00	0.00	0.00	0.98
600	3131	4.263418	GGTGGTGGTGGTGGTAGTATTTAA	60.263	45.833	0.00	0.00	0.00	1.52
681	3220	3.834938	TGAGTAACGGGGGAATGTTTTT	58.165	40.909	0.00	0.00	0.00	1.94
694	3233	0.999406	CGACAAGGCCATGAGTAACG	59.001	55.000	16.33	8.18	0.00	3.18
695	3234	0.727398	GCGACAAGGCCATGAGTAAC	59.273	55.000	16.33	0.00	0.00	2.50
725	3264	1.078497	CACATTAGGCTGGGCGACA	60.078	57.895	0.00	0.00	0.00	4.35
726	3265	2.472909	GCACATTAGGCTGGGCGAC	61.473	63.158	0.00	0.00	35.51	5.19
727	3266	2.124736	GCACATTAGGCTGGGCGA	60.125	61.111	0.00	0.00	35.51	5.54
733	3272	4.972875	GCTCCAGCACATTAGGCT	57.027	55.556	0.00	0.00	43.77	4.58
847	3397	2.805671	TGACAATCGTGCGAGAATGTTT	59.194	40.909	10.27	0.00	0.00	2.83
928	3479	3.843619	TGGGTGGACTGATGAGAATACAA	59.156	43.478	0.00	0.00	0.00	2.41
1145	3700	0.031010	GGTGGGAGGTGGAGGACTAT	60.031	60.000	0.00	0.00	0.00	2.12
1155	3710	2.285442	GTAGCTGGGGTGGGAGGT	60.285	66.667	0.00	0.00	0.00	3.85
1158	3713	4.752594	GGGGTAGCTGGGGTGGGA	62.753	72.222	0.00	0.00	0.00	4.37
1167	3722	2.692741	GGAGGGCTTGGGGTAGCT	60.693	66.667	0.00	0.00	40.99	3.32
1179	3734	4.910585	GTGTATGGCGGCGGAGGG	62.911	72.222	9.78	0.00	0.00	4.30
1202	3916	4.778143	GTGGCGGGCTAGGTGTGG	62.778	72.222	2.38	0.00	0.00	4.17
1227	3941	2.258748	GAGGACTTGGGGTAGCTGGC	62.259	65.000	0.00	0.00	0.00	4.85
1251	5119	2.189521	GTGCTCGGGGTGTATGGG	59.810	66.667	0.00	0.00	0.00	4.00
1314	5190	1.610967	TGTGCTCGGGGTGTATGGA	60.611	57.895	0.00	0.00	0.00	3.41
1587	7082	9.191479	CCCTACAAATAAACCATTATACACCAA	57.809	33.333	0.00	0.00	31.44	3.67
1733	7233	2.266055	CGCTCCCACACTCCTTCC	59.734	66.667	0.00	0.00	0.00	3.46
2019	7519	1.742768	GCGGTCGGAGAAGGATGAT	59.257	57.895	0.00	0.00	39.69	2.45
2085	7585	1.629345	CTGACTTGCATTGCTCGCGA	61.629	55.000	9.26	9.26	0.00	5.87
2410	11311	5.570234	TCTCAAGCGGTTAAAAACTTGTT	57.430	34.783	0.00	0.00	40.29	2.83
2551	11463	4.521146	TGAAAACCAAAATGCCACAATGT	58.479	34.783	0.00	0.00	0.00	2.71
2577	11489	5.805728	ACGAACAACTTCCATAAGAGGAAT	58.194	37.500	0.00	0.00	46.05	3.01
2659	11571	2.221749	CGGGACATATTTGAGCACATCG	59.778	50.000	0.00	0.00	0.00	3.84
2678	11590	0.391130	TTCTCCTTCGATGCAACCGG	60.391	55.000	0.00	0.00	0.00	5.28
2767	11679	1.069906	GTGATCACACACCTGCGTTTC	60.070	52.381	21.07	0.00	45.32	2.78
2851	11764	6.306837	GCAAATTTTTAGTTGCGCAGTATGTA	59.693	34.615	11.31	0.00	40.62	2.29
2885	11798	7.255660	CCTCTTCATAGTATTCCTAGGTGTGAC	60.256	44.444	9.08	3.37	0.00	3.67
2933	11848	1.071605	CTCCGTTGTGTTCTAGCTGC	58.928	55.000	0.00	0.00	0.00	5.25
2976	11891	1.067776	CCTAGCTACGGAAATAGGCGG	60.068	57.143	3.82	0.00	0.00	6.13
3019	11934	1.138266	GATCGTCCGGGGAAATTCTCA	59.862	52.381	0.00	0.00	0.00	3.27
3072	11987	2.749280	TAGGATGCATGCATACCTCG	57.251	50.000	35.06	0.00	38.00	4.63
3138	12053	7.388224	CCGCATCTTGTACTCTATACTTCTCTA	59.612	40.741	0.00	0.00	0.00	2.43
3148	12063	2.167693	CCAACCCGCATCTTGTACTCTA	59.832	50.000	0.00	0.00	0.00	2.43
3164	12079	2.554564	CCTCCCTAAGTGTTTCCCAACC	60.555	54.545	0.00	0.00	31.02	3.77
3255	12173	2.094649	GTGTGTAGAGTGTAGGTGGCTC	60.095	54.545	0.00	0.00	0.00	4.70
3278	12196	1.355720	CATTTCCTTCTCCCACCCTGT	59.644	52.381	0.00	0.00	0.00	4.00
3316	12234	3.518003	GCTGTGGGCAATAGCAGG	58.482	61.111	5.65	0.00	44.61	4.85
3328	12252	2.435805	ACCCCTAGTGTATCATGCTGTG	59.564	50.000	0.00	0.00	0.00	3.66
3332	12256	3.838244	TTGACCCCTAGTGTATCATGC	57.162	47.619	0.00	0.00	0.00	4.06

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.