AutoCloner

Multiple sequence alignment - TraesCS5A01G116200

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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	TraesCS5A01G116200	chr5A	100.000	2304	0	0	1	2304	237952442	237954745	0.000000e+00	4255.0
1	TraesCS5A01G116200	chr5A	81.065	845	93	39	496	1287	149223523	149222693	1.510000e-171	612.0
2	TraesCS5A01G116200	chr7B	90.178	1517	107	21	821	2304	745082367	745080860	0.000000e+00	1938.0
3	TraesCS5A01G116200	chr7B	84.910	444	51	10	989	1421	381911201	381911639	3.520000e-118	435.0
4	TraesCS5A01G116200	chr7B	84.685	444	52	10	989	1421	381934768	381935206	1.640000e-116	429.0
5	TraesCS5A01G116200	chr7B	89.024	82	4	3	421	497	680754164	680754083	1.880000e-16	97.1
6	TraesCS5A01G116200	chr2D	90.185	1080	67	17	499	1560	485106360	485105302	0.000000e+00	1371.0
7	TraesCS5A01G116200	chr2D	96.219	529	19	1	1776	2304	485105301	485104774	0.000000e+00	865.0
8	TraesCS5A01G116200	chr2D	78.085	543	67	29	1	497	564596792	564596256	1.730000e-76	296.0
9	TraesCS5A01G116200	chr2B	92.451	914	54	8	821	1721	717764750	717763839	0.000000e+00	1291.0
10	TraesCS5A01G116200	chr2B	94.839	155	7	1	2150	2304	717763778	717763625	8.230000e-60	241.0
11	TraesCS5A01G116200	chr2B	75.175	286	51	14	550	822	114911934	114912212	1.450000e-22	117.0
12	TraesCS5A01G116200	chr7A	92.114	913	57	10	821	1721	220558089	220557180	0.000000e+00	1273.0
13	TraesCS5A01G116200	chr7A	91.504	871	57	9	821	1680	114028029	114027165	0.000000e+00	1182.0
14	TraesCS5A01G116200	chr7A	79.648	511	56	21	16	483	342811374	342810869	7.940000e-85	324.0
15	TraesCS5A01G116200	chr7A	78.771	537	70	25	1	497	315305040	315305572	1.030000e-83	320.0
16	TraesCS5A01G116200	chr7A	93.038	158	10	1	2147	2304	220557122	220556966	1.780000e-56	230.0
17	TraesCS5A01G116200	chr7A	97.674	43	1	0	1679	1721	114027082	114027040	8.830000e-10	75.0
18	TraesCS5A01G116200	chr4B	91.369	672	40	15	1522	2184	377157064	377156402	0.000000e+00	904.0
19	TraesCS5A01G116200	chr4B	89.807	363	27	5	499	851	377160541	377160179	7.500000e-125	457.0
20	TraesCS5A01G116200	chr4B	74.426	305	54	16	550	838	410564296	410564000	2.420000e-20	110.0
21	TraesCS5A01G116200	chrUn	82.730	967	94	42	496	1407	407347066	407348014	0.000000e+00	793.0
22	TraesCS5A01G116200	chrUn	89.024	82	4	3	421	497	360322096	360322015	1.880000e-16	97.1
23	TraesCS5A01G116200	chr5B	82.420	967	97	44	496	1407	601428901	601429849	0.000000e+00	776.0
24	TraesCS5A01G116200	chr1A	82.213	967	99	43	496	1407	474241462	474242410	0.000000e+00	765.0
25	TraesCS5A01G116200	chr2A	92.555	497	28	6	1	497	642967357	642966870	0.000000e+00	704.0
26	TraesCS5A01G116200	chr6A	92.153	497	31	5	1	497	585304831	585305319	0.000000e+00	695.0
27	TraesCS5A01G116200	chr1B	80.825	824	87	42	496	1265	626042658	626041852	4.270000e-162	580.0
28	TraesCS5A01G116200	chr1B	85.520	442	49	8	989	1421	72001201	72000766	4.520000e-122	448.0
29	TraesCS5A01G116200	chr5D	82.228	709	84	27	732	1421	236485844	236485159	7.140000e-160	573.0

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	TraesCS5A01G116200	chr5A	237952442	237954745	2303	False	4255.0	4255	100.000	1	2304	1	chr5A.!!$F1	2303
1	TraesCS5A01G116200	chr5A	149222693	149223523	830	True	612.0	612	81.065	496	1287	1	chr5A.!!$R1	791
2	TraesCS5A01G116200	chr7B	745080860	745082367	1507	True	1938.0	1938	90.178	821	2304	1	chr7B.!!$R2	1483
3	TraesCS5A01G116200	chr2D	485104774	485106360	1586	True	1118.0	1371	93.202	499	2304	2	chr2D.!!$R2	1805
4	TraesCS5A01G116200	chr2D	564596256	564596792	536	True	296.0	296	78.085	1	497	1	chr2D.!!$R1	496
5	TraesCS5A01G116200	chr2B	717763625	717764750	1125	True	766.0	1291	93.645	821	2304	2	chr2B.!!$R1	1483
6	TraesCS5A01G116200	chr7A	220556966	220558089	1123	True	751.5	1273	92.576	821	2304	2	chr7A.!!$R3	1483
7	TraesCS5A01G116200	chr7A	114027040	114028029	989	True	628.5	1182	94.589	821	1721	2	chr7A.!!$R2	900
8	TraesCS5A01G116200	chr7A	342810869	342811374	505	True	324.0	324	79.648	16	483	1	chr7A.!!$R1	467
9	TraesCS5A01G116200	chr7A	315305040	315305572	532	False	320.0	320	78.771	1	497	1	chr7A.!!$F1	496
10	TraesCS5A01G116200	chr4B	377156402	377160541	4139	True	680.5	904	90.588	499	2184	2	chr4B.!!$R2	1685
11	TraesCS5A01G116200	chrUn	407347066	407348014	948	False	793.0	793	82.730	496	1407	1	chrUn.!!$F1	911
12	TraesCS5A01G116200	chr5B	601428901	601429849	948	False	776.0	776	82.420	496	1407	1	chr5B.!!$F1	911
13	TraesCS5A01G116200	chr1A	474241462	474242410	948	False	765.0	765	82.213	496	1407	1	chr1A.!!$F1	911
14	TraesCS5A01G116200	chr1B	626041852	626042658	806	True	580.0	580	80.825	496	1265	1	chr1B.!!$R2	769
15	TraesCS5A01G116200	chr5D	236485159	236485844	685	True	573.0	573	82.228	732	1421	1	chr5D.!!$R1	689

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
392	418	0.030807	TGGGATGAGAGATGGAGCCA	60.031	55.0	0.0	0.0	0.0	4.75	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1324	4092	2.300152	TCGTCAGGCTCTTTCACAAGAT	59.7	45.455	0.0	0.0	38.42	2.4	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
19	20	1.177401	GACTGGGAACTGGGCAAATC	58.823	55.000	0.00	0.00	0.00	2.17
22	23	0.482446	TGGGAACTGGGCAAATCTGT	59.518	50.000	0.00	0.00	0.00	3.41
27	28	2.380064	ACTGGGCAAATCTGTTTCCA	57.620	45.000	0.00	0.00	0.00	3.53
35	36	5.337491	GGGCAAATCTGTTTCCATGTACAAT	60.337	40.000	0.00	0.00	0.00	2.71
43	44	7.548097	TCTGTTTCCATGTACAATAGAGAGAC	58.452	38.462	0.00	0.00	0.00	3.36
45	46	7.323420	TGTTTCCATGTACAATAGAGAGACAG	58.677	38.462	0.00	0.00	0.00	3.51
48	49	8.996651	TTCCATGTACAATAGAGAGACAGATA	57.003	34.615	0.00	0.00	0.00	1.98
55	56	6.629156	ACAATAGAGAGACAGATAAGGGGAT	58.371	40.000	0.00	0.00	0.00	3.85
67	70	2.493099	AAGGGGATGAGAGAGAGCAT	57.507	50.000	0.00	0.00	0.00	3.79
68	71	3.627041	AAGGGGATGAGAGAGAGCATA	57.373	47.619	0.00	0.00	0.00	3.14
76	79	5.304101	GGATGAGAGAGAGCATAGAAAGGAA	59.696	44.000	0.00	0.00	0.00	3.36
81	84	2.431057	GAGAGCATAGAAAGGAACGGGA	59.569	50.000	0.00	0.00	0.00	5.14
88	91	5.484715	CATAGAAAGGAACGGGAAAGTACA	58.515	41.667	0.00	0.00	0.00	2.90
103	106	3.042733	TACATGCGCTTGGAGGGGG	62.043	63.158	24.99	0.92	0.00	5.40
109	112	2.366972	GCTTGGAGGGGGAGGCTA	60.367	66.667	0.00	0.00	0.00	3.93
180	183	2.750948	CTTCCTCGACCAAAAGAACGA	58.249	47.619	0.00	0.00	0.00	3.85
183	186	1.601162	CCTCGACCAAAAGAACGACGA	60.601	52.381	0.00	0.00	0.00	4.20
205	208	2.413765	GACGGATCTGACGGCCTC	59.586	66.667	9.00	0.00	31.94	4.70
222	225	1.651240	CTCGGGCTGCCATTGTCAAG	61.651	60.000	22.05	2.66	0.00	3.02
228	231	1.740025	GCTGCCATTGTCAAGACCTAC	59.260	52.381	0.00	0.00	0.00	3.18
237	247	0.406750	TCAAGACCTACCCCTCGTCA	59.593	55.000	0.00	0.00	0.00	4.35
241	251	2.363795	CCTACCCCTCGTCAGGCA	60.364	66.667	0.00	0.00	38.72	4.75
248	258	1.984570	CCTCGTCAGGCAGGGAAGA	60.985	63.158	0.00	0.00	30.98	2.87
252	262	0.250234	CGTCAGGCAGGGAAGAATCA	59.750	55.000	0.00	0.00	0.00	2.57
261	271	2.472909	GGAAGAATCAAGCCGCGGG	61.473	63.158	29.38	10.87	0.00	6.13
298	308	2.833227	CCCGGGGCGATTGGATTA	59.167	61.111	14.71	0.00	0.00	1.75
299	309	1.378762	CCCGGGGCGATTGGATTAT	59.621	57.895	14.71	0.00	0.00	1.28
315	341	0.628968	TTATGCCATCCCCTTCCCCA	60.629	55.000	0.00	0.00	0.00	4.96
322	348	0.623324	ATCCCCTTCCCCATCGTTCA	60.623	55.000	0.00	0.00	0.00	3.18
326	352	1.475751	CCCTTCCCCATCGTTCATCTG	60.476	57.143	0.00	0.00	0.00	2.90
355	381	1.412217	CCTCCTCTCTGCTACCCATGA	60.412	57.143	0.00	0.00	0.00	3.07
356	382	1.686052	CTCCTCTCTGCTACCCATGAC	59.314	57.143	0.00	0.00	0.00	3.06
365	391	1.001120	TACCCATGACTCCGCCTGA	59.999	57.895	0.00	0.00	0.00	3.86
378	404	4.063335	CCTGAGTCAGGCTGGGAT	57.937	61.111	26.03	0.19	45.13	3.85
385	411	1.062275	AGTCAGGCTGGGATGAGAGAT	60.062	52.381	15.73	0.00	0.00	2.75
386	412	1.070445	GTCAGGCTGGGATGAGAGATG	59.930	57.143	15.73	0.00	0.00	2.90
387	413	0.397187	CAGGCTGGGATGAGAGATGG	59.603	60.000	6.61	0.00	0.00	3.51
388	414	0.267054	AGGCTGGGATGAGAGATGGA	59.733	55.000	0.00	0.00	0.00	3.41
389	415	0.686224	GGCTGGGATGAGAGATGGAG	59.314	60.000	0.00	0.00	0.00	3.86
390	416	0.035176	GCTGGGATGAGAGATGGAGC	59.965	60.000	0.00	0.00	0.00	4.70
391	417	0.686224	CTGGGATGAGAGATGGAGCC	59.314	60.000	0.00	0.00	0.00	4.70
392	418	0.030807	TGGGATGAGAGATGGAGCCA	60.031	55.000	0.00	0.00	0.00	4.75
393	419	1.360185	GGGATGAGAGATGGAGCCAT	58.640	55.000	0.71	0.71	39.69	4.40
397	423	1.126488	TGAGAGATGGAGCCATGGAC	58.874	55.000	18.40	8.46	36.70	4.02
401	427	0.689080	AGATGGAGCCATGGACGAGT	60.689	55.000	18.40	0.00	36.70	4.18
480	533	1.229529	GGAGGAGGAAGGGTGTGGA	60.230	63.158	0.00	0.00	0.00	4.02
516	573	5.352569	GGGATCGAACATATAAATCCTGCTG	59.647	44.000	0.00	0.00	36.84	4.41
522	579	6.513884	CGAACATATAAATCCTGCTGTGCAAT	60.514	38.462	0.00	0.00	38.41	3.56
527	584	2.547640	ATCCTGCTGTGCAATCCGCT	62.548	55.000	0.00	0.00	43.06	5.52
532	589	2.020131	CTGTGCAATCCGCTCATCC	58.980	57.895	0.00	0.00	42.86	3.51
534	591	1.521457	GTGCAATCCGCTCATCCGA	60.521	57.895	0.00	0.00	43.06	4.55
536	593	1.089481	TGCAATCCGCTCATCCGAAC	61.089	55.000	0.00	0.00	43.06	3.95
544	601	1.517832	CTCATCCGAACGCCTTCCT	59.482	57.895	0.00	0.00	0.00	3.36
579	636	1.697432	TGTCCGTTGGATCTCCTTTGT	59.303	47.619	0.00	0.00	36.82	2.83
581	638	1.974957	TCCGTTGGATCTCCTTTGTCA	59.025	47.619	0.00	0.00	36.82	3.58
585	642	4.002982	CGTTGGATCTCCTTTGTCATTGA	58.997	43.478	0.00	0.00	36.82	2.57
595	652	4.286808	TCCTTTGTCATTGACTCCAGATCA	59.713	41.667	17.26	0.00	33.15	2.92
665	724	1.054406	GGCCTATGACTGGTGGGCTA	61.054	60.000	0.00	0.00	42.14	3.93
792	857	1.541672	CTCTCTCCTCCCCCTCCTC	59.458	68.421	0.00	0.00	0.00	3.71
812	878	1.296002	GTCCCTGTCCCAACCCTAAT	58.704	55.000	0.00	0.00	0.00	1.73
914	983	3.356639	GATCCGAGGCGTGCAGACA	62.357	63.158	0.00	0.00	0.00	3.41
936	1005	3.491652	GGCGAGTTTCTCTGGCGC	61.492	66.667	0.00	0.00	46.45	6.53
1029	1130	2.668632	GACGCCACCATGGGAGAA	59.331	61.111	18.09	0.00	38.19	2.87
1083	1190	2.849162	GAGGATGGCGATGGGGGA	60.849	66.667	0.00	0.00	0.00	4.81
1114	1221	4.021925	GCAGGACTTCCAGGCGGT	62.022	66.667	0.00	0.00	38.89	5.68
1159	1266	0.179137	GCTCGTCGTCCATCATCACA	60.179	55.000	0.00	0.00	0.00	3.58
1164	1271	2.738321	CGTCGTCCATCATCACAATCCA	60.738	50.000	0.00	0.00	0.00	3.41
1324	4092	3.705072	GAGATAGGAACGGGGAGAAAGAA	59.295	47.826	0.00	0.00	0.00	2.52
1339	4107	5.106357	GGAGAAAGAATCTTGTGAAAGAGCC	60.106	44.000	0.00	0.00	38.96	4.70
1365	4133	4.037565	ACGAAAAAGAAAGGGGTGAATCAC	59.962	41.667	4.51	4.51	0.00	3.06
1401	4169	8.723311	CCATTCATGTTTGTTTCTGCATTTTAT	58.277	29.630	0.00	0.00	0.00	1.40
1424	4193	1.544724	TAAGATGCAGGTTGGCCAAC	58.455	50.000	36.03	36.03	40.45	3.77
1500	4269	0.034896	TTTCACTTGACCTCGAGGGC	59.965	55.000	34.04	32.90	45.93	5.19
1550	4319	7.780271	GGGAGATTTATTGGTGAAGGTCTAAAT	59.220	37.037	0.00	0.00	0.00	1.40
1728	4601	7.716799	TTGGCATATGGTTCTGAAACTTAAT	57.283	32.000	7.02	0.00	35.61	1.40
1729	4602	8.815565	TTGGCATATGGTTCTGAAACTTAATA	57.184	30.769	7.02	0.00	35.61	0.98
1767	4640	9.875691	GTATGTATTGCAGTCTGGATTATATCA	57.124	33.333	1.14	0.00	0.00	2.15
1813	4686	3.452755	TCAGCATTGTATCCGTACTGG	57.547	47.619	0.00	0.00	40.09	4.00
2071	4944	4.500477	GTCAGCTAACAAGCAACAGTTTTG	59.500	41.667	0.00	0.00	37.25	2.44
2122	4995	6.798315	ATGCATAAACATGAGCAGAGATAC	57.202	37.500	0.00	0.00	40.71	2.24
2129	5002	3.381590	ACATGAGCAGAGATACGCTACAA	59.618	43.478	0.00	0.00	38.99	2.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
22	23	7.718334	TCTGTCTCTCTATTGTACATGGAAA	57.282	36.000	0.00	0.00	0.00	3.13
27	28	7.453126	CCCCTTATCTGTCTCTCTATTGTACAT	59.547	40.741	0.00	0.00	0.00	2.29
35	36	5.613116	TCTCATCCCCTTATCTGTCTCTCTA	59.387	44.000	0.00	0.00	0.00	2.43
43	44	3.511146	GCTCTCTCTCATCCCCTTATCTG	59.489	52.174	0.00	0.00	0.00	2.90
45	46	3.505386	TGCTCTCTCTCATCCCCTTATC	58.495	50.000	0.00	0.00	0.00	1.75
48	49	2.493099	ATGCTCTCTCTCATCCCCTT	57.507	50.000	0.00	0.00	0.00	3.95
55	56	4.097135	CGTTCCTTTCTATGCTCTCTCTCA	59.903	45.833	0.00	0.00	0.00	3.27
67	70	5.484715	CATGTACTTTCCCGTTCCTTTCTA	58.515	41.667	0.00	0.00	0.00	2.10
68	71	4.324267	CATGTACTTTCCCGTTCCTTTCT	58.676	43.478	0.00	0.00	0.00	2.52
76	79	0.321298	AAGCGCATGTACTTTCCCGT	60.321	50.000	11.47	0.00	0.00	5.28
81	84	1.453155	CCTCCAAGCGCATGTACTTT	58.547	50.000	11.47	0.00	0.00	2.66
88	91	3.801997	CTCCCCCTCCAAGCGCAT	61.802	66.667	11.47	0.00	0.00	4.73
109	112	3.699894	CTGGACGCTGGTGAGGCT	61.700	66.667	0.00	0.00	0.00	4.58
115	118	4.320456	CCACTGCTGGACGCTGGT	62.320	66.667	0.00	0.00	40.55	4.00
128	131	0.550914	TGCTCCTTTTCACCACCACT	59.449	50.000	0.00	0.00	0.00	4.00
133	136	0.817634	CCACGTGCTCCTTTTCACCA	60.818	55.000	10.91	0.00	0.00	4.17
139	142	1.300697	GTCGTCCACGTGCTCCTTT	60.301	57.895	10.91	0.00	40.80	3.11
140	143	2.338984	GTCGTCCACGTGCTCCTT	59.661	61.111	10.91	0.00	40.80	3.36
161	164	2.476821	GTCGTTCTTTTGGTCGAGGAA	58.523	47.619	0.00	0.00	33.09	3.36
162	165	1.601162	CGTCGTTCTTTTGGTCGAGGA	60.601	52.381	0.00	0.00	39.44	3.71
180	183	1.673337	TCAGATCCGTCACCGTCGT	60.673	57.895	0.00	0.00	0.00	4.34
183	186	2.697761	CCGTCAGATCCGTCACCGT	61.698	63.158	0.00	0.00	0.00	4.83
191	194	3.917760	CCCGAGGCCGTCAGATCC	61.918	72.222	0.00	0.00	0.00	3.36
205	208	1.675310	TCTTGACAATGGCAGCCCG	60.675	57.895	9.64	0.00	0.00	6.13
222	225	2.424733	GCCTGACGAGGGGTAGGTC	61.425	68.421	0.00	0.00	40.19	3.85
237	247	0.033699	GGCTTGATTCTTCCCTGCCT	60.034	55.000	0.00	0.00	36.32	4.75
241	251	1.450312	CGCGGCTTGATTCTTCCCT	60.450	57.895	0.00	0.00	0.00	4.20
261	271	4.808649	GTGCCTACACGAGTAGCC	57.191	61.111	13.84	4.33	45.15	3.93
291	301	2.158325	GGAAGGGGATGGCATAATCCAA	60.158	50.000	0.00	0.00	46.94	3.53
298	308	1.706195	ATGGGGAAGGGGATGGCAT	60.706	57.895	0.00	0.00	0.00	4.40
299	309	2.287896	ATGGGGAAGGGGATGGCA	60.288	61.111	0.00	0.00	0.00	4.92
315	341	1.139853	GAAGGGAGGCAGATGAACGAT	59.860	52.381	0.00	0.00	0.00	3.73
322	348	0.399806	GAGGAGGAAGGGAGGCAGAT	60.400	60.000	0.00	0.00	0.00	2.90
326	352	1.048160	CAGAGAGGAGGAAGGGAGGC	61.048	65.000	0.00	0.00	0.00	4.70
365	391	0.337773	TCTCTCATCCCAGCCTGACT	59.662	55.000	0.00	0.00	0.00	3.41
378	404	1.126488	GTCCATGGCTCCATCTCTCA	58.874	55.000	6.96	0.00	33.90	3.27
385	411	0.033503	TAGACTCGTCCATGGCTCCA	60.034	55.000	6.96	0.00	0.00	3.86
386	412	0.671251	CTAGACTCGTCCATGGCTCC	59.329	60.000	6.96	0.00	0.00	4.70
387	413	0.031449	GCTAGACTCGTCCATGGCTC	59.969	60.000	6.96	1.49	0.00	4.70
388	414	1.729470	CGCTAGACTCGTCCATGGCT	61.729	60.000	6.96	0.00	0.00	4.75
389	415	1.299468	CGCTAGACTCGTCCATGGC	60.299	63.158	6.96	0.96	0.00	4.40
390	416	1.360551	CCGCTAGACTCGTCCATGG	59.639	63.158	4.97	4.97	0.00	3.66
391	417	1.299468	GCCGCTAGACTCGTCCATG	60.299	63.158	0.00	0.00	0.00	3.66
392	418	2.835705	CGCCGCTAGACTCGTCCAT	61.836	63.158	0.00	0.00	0.00	3.41
393	419	3.506096	CGCCGCTAGACTCGTCCA	61.506	66.667	0.00	0.00	0.00	4.02
397	423	4.592936	CGGACGCCGCTAGACTCG	62.593	72.222	5.38	0.00	41.17	4.18
480	533	2.990479	GATCCCCACAGCCGTCTT	59.010	61.111	0.00	0.00	0.00	3.01
527	584	1.218047	CAGGAAGGCGTTCGGATGA	59.782	57.895	12.65	0.00	32.92	2.92
544	601	3.082379	GACACGAATGATGCGCGCA	62.082	57.895	38.27	38.27	0.00	6.09
579	636	5.536260	GATCGAATGATCTGGAGTCAATGA	58.464	41.667	0.00	0.00	46.22	2.57
595	652	3.614092	ACCAGCAGTCAAATGATCGAAT	58.386	40.909	0.00	0.00	0.00	3.34
665	724	2.123428	GCCAATCCATGCGAGGCTT	61.123	57.895	8.79	0.00	42.01	4.35
792	857	1.196104	TTAGGGTTGGGACAGGGACG	61.196	60.000	0.00	0.00	42.39	4.79
812	878	0.845102	GGGGTGGAGAGGGAAAAGGA	60.845	60.000	0.00	0.00	0.00	3.36
910	978	1.179814	AGAAACTCGCCTCCGTGTCT	61.180	55.000	0.00	0.00	39.93	3.41
914	983	1.587054	CAGAGAAACTCGCCTCCGT	59.413	57.895	0.00	0.00	35.36	4.69
1029	1130	2.113139	CCACGAAGTTGGCCCTGT	59.887	61.111	0.00	0.00	41.61	4.00
1076	1183	1.773391	CTCTGCTCCCATCCCCCAT	60.773	63.158	0.00	0.00	0.00	4.00
1083	1190	0.031716	TCCTGCTACTCTGCTCCCAT	60.032	55.000	0.00	0.00	0.00	4.00
1114	1221	3.647649	CTCCACCATGACGCGAGCA	62.648	63.158	15.93	11.47	0.00	4.26
1159	1266	3.372025	GGGAGCAACCTAGATTGTGGATT	60.372	47.826	0.00	0.00	38.98	3.01
1164	1271	0.919710	GGGGGAGCAACCTAGATTGT	59.080	55.000	0.00	0.00	38.98	2.71
1324	4092	2.300152	TCGTCAGGCTCTTTCACAAGAT	59.700	45.455	0.00	0.00	38.42	2.40
1339	4107	3.211045	TCACCCCTTTCTTTTTCGTCAG	58.789	45.455	0.00	0.00	0.00	3.51
1365	4133	4.281688	ACAAACATGAATGGGAGAAAGTGG	59.718	41.667	0.00	0.00	0.00	4.00
1401	4169	2.968574	TGGCCAACCTGCATCTTAAAAA	59.031	40.909	0.61	0.00	36.63	1.94
1500	4269	3.848272	AACAATAACTGGATGCAACCG	57.152	42.857	8.65	5.96	0.00	4.44
1568	4337	5.348179	GCATTCCTTCATGAGTGATATCTCG	59.652	44.000	3.98	0.00	37.28	4.04
1728	4601	8.150296	ACTGCAATACATACTCTATTGTGCATA	58.850	33.333	0.00	0.00	35.05	3.14
1729	4602	6.994496	ACTGCAATACATACTCTATTGTGCAT	59.006	34.615	0.00	0.00	35.05	3.96
1783	4656	5.391843	CGGATACAATGCTGATGTTTGTTCA	60.392	40.000	0.00	0.00	35.37	3.18
1785	4658	4.458989	ACGGATACAATGCTGATGTTTGTT	59.541	37.500	0.00	0.00	35.37	2.83
2071	4944	8.552034	GGAAGTATACATGAAAGATGTTACTGC	58.448	37.037	5.50	0.00	32.13	4.40
2122	4995	5.879237	TCATTCTTTGCCTAAATTGTAGCG	58.121	37.500	0.00	0.00	0.00	4.26
2175	5048	7.015001	ATTTGCATTCTCTCAAAGAAGGAACTT	59.985	33.333	3.84	0.00	46.37	2.66
2264	5137	6.248433	AGAAATGAAACTGGATCTTGCCTAA	58.752	36.000	0.00	0.00	0.00	2.69
2265	5138	5.819991	AGAAATGAAACTGGATCTTGCCTA	58.180	37.500	0.00	0.00	0.00	3.93

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.