AutoCloner

Multiple sequence alignment - TraesCS4A01G024100

Loading Multiple Alignment...

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	TraesCS4A01G024100	chr4A	100.000	2222	0	0	1	2222	17017311	17019532	0.000000e+00	4104.0
1	TraesCS4A01G024100	chr4A	79.661	649	84	29	642	1255	17028151	17028786	7.330000e-115	424.0
2	TraesCS4A01G024100	chr4A	86.395	294	29	6	973	1259	17256588	17256877	5.960000e-81	311.0
3	TraesCS4A01G024100	chr4D	88.430	1115	78	26	304	1377	449888244	449887140	0.000000e+00	1297.0
4	TraesCS4A01G024100	chr4D	80.336	595	58	33	708	1255	449860247	449859665	1.600000e-106	396.0
5	TraesCS4A01G024100	chr4D	87.189	281	33	2	982	1259	449739416	449739136	1.280000e-82	316.0
6	TraesCS4A01G024100	chr4D	91.628	215	18	0	59	273	449888546	449888332	4.640000e-77	298.0
7	TraesCS4A01G024100	chr6A	96.871	767	23	1	1457	2222	137294198	137293432	0.000000e+00	1282.0
8	TraesCS4A01G024100	chr6A	84.117	787	93	21	1456	2218	189775891	189775113	0.000000e+00	732.0
9	TraesCS4A01G024100	chr2B	91.868	787	40	10	1455	2222	94191461	94190680	0.000000e+00	1077.0
10	TraesCS4A01G024100	chr2B	81.439	792	88	32	1457	2222	205638388	205639146	5.280000e-166	593.0
11	TraesCS4A01G024100	chr2B	81.390	806	71	38	1457	2222	548926961	548926195	3.180000e-163	584.0
12	TraesCS4A01G024100	chr4B	89.958	707	36	18	681	1377	562439808	562439127	0.000000e+00	880.0
13	TraesCS4A01G024100	chr4B	85.377	424	43	12	968	1383	562436345	562435933	2.640000e-114	422.0
14	TraesCS4A01G024100	chr4B	86.064	409	26	13	299	685	562440610	562440211	5.710000e-111	411.0
15	TraesCS4A01G024100	chr4B	77.917	720	92	46	708	1383	562425704	562425008	9.620000e-104	387.0
16	TraesCS4A01G024100	chr4B	84.356	326	31	12	983	1297	562419354	562419038	3.590000e-78	302.0
17	TraesCS4A01G024100	chr4B	89.326	178	18	1	97	273	562440974	562440797	2.870000e-54	222.0
18	TraesCS4A01G024100	chr6B	87.891	735	54	14	1507	2222	351857911	351857193	0.000000e+00	832.0
19	TraesCS4A01G024100	chr2A	83.040	796	99	24	1453	2222	149225839	149225054	0.000000e+00	689.0
20	TraesCS4A01G024100	chr3D	85.316	681	58	24	1564	2218	520839451	520838787	0.000000e+00	665.0
21	TraesCS4A01G024100	chr1B	82.299	435	43	18	1457	1867	543511690	543512114	1.630000e-91	346.0
22	TraesCS4A01G024100	chr1B	85.802	324	35	5	1909	2222	543512448	543512770	1.270000e-87	333.0
23	TraesCS4A01G024100	chr3A	86.047	301	28	10	1457	1748	33129719	33129424	5.960000e-81	311.0
24	TraesCS4A01G024100	chr3A	96.154	52	1	1	1928	1978	33129339	33129288	1.410000e-12	84.2
25	TraesCS4A01G024100	chr5A	89.404	151	14	1	1457	1605	409945411	409945261	2.910000e-44	189.0

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	TraesCS4A01G024100	chr4A	17017311	17019532	2221	False	4104.00	4104	100.00000	1	2222	1	chr4A.!!$F1	2221
1	TraesCS4A01G024100	chr4A	17028151	17028786	635	False	424.00	424	79.66100	642	1255	1	chr4A.!!$F2	613
2	TraesCS4A01G024100	chr4D	449887140	449888546	1406	True	797.50	1297	90.02900	59	1377	2	chr4D.!!$R3	1318
3	TraesCS4A01G024100	chr4D	449859665	449860247	582	True	396.00	396	80.33600	708	1255	1	chr4D.!!$R2	547
4	TraesCS4A01G024100	chr6A	137293432	137294198	766	True	1282.00	1282	96.87100	1457	2222	1	chr6A.!!$R1	765
5	TraesCS4A01G024100	chr6A	189775113	189775891	778	True	732.00	732	84.11700	1456	2218	1	chr6A.!!$R2	762
6	TraesCS4A01G024100	chr2B	94190680	94191461	781	True	1077.00	1077	91.86800	1455	2222	1	chr2B.!!$R1	767
7	TraesCS4A01G024100	chr2B	205638388	205639146	758	False	593.00	593	81.43900	1457	2222	1	chr2B.!!$F1	765
8	TraesCS4A01G024100	chr2B	548926195	548926961	766	True	584.00	584	81.39000	1457	2222	1	chr2B.!!$R2	765
9	TraesCS4A01G024100	chr4B	562435933	562440974	5041	True	483.75	880	87.68125	97	1383	4	chr4B.!!$R3	1286
10	TraesCS4A01G024100	chr4B	562425008	562425704	696	True	387.00	387	77.91700	708	1383	1	chr4B.!!$R2	675
11	TraesCS4A01G024100	chr6B	351857193	351857911	718	True	832.00	832	87.89100	1507	2222	1	chr6B.!!$R1	715
12	TraesCS4A01G024100	chr2A	149225054	149225839	785	True	689.00	689	83.04000	1453	2222	1	chr2A.!!$R1	769
13	TraesCS4A01G024100	chr3D	520838787	520839451	664	True	665.00	665	85.31600	1564	2218	1	chr3D.!!$R1	654
14	TraesCS4A01G024100	chr1B	543511690	543512770	1080	False	339.50	346	84.05050	1457	2222	2	chr1B.!!$F1	765

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
43	44	0.174162	ATTTTCGCATGGAAGCTGGC	59.826	50.0	0.0	0.0	35.7	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1349	2028	0.035458	ACAACTCGAGGGCTCCAAAG	59.965	55.0	18.41	0.0	0.0	2.77	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
31	32	4.635961	CTTTCAAAGCTCCAATTTTCGC	57.364	40.909	0.00	0.00	0.00	4.70
32	33	3.724508	TTCAAAGCTCCAATTTTCGCA	57.275	38.095	0.00	0.00	0.00	5.10
33	34	3.940209	TCAAAGCTCCAATTTTCGCAT	57.060	38.095	0.00	0.00	0.00	4.73
34	35	3.577667	TCAAAGCTCCAATTTTCGCATG	58.422	40.909	0.00	0.00	0.00	4.06
35	36	2.660189	AAGCTCCAATTTTCGCATGG	57.340	45.000	0.00	0.00	35.49	3.66
36	37	1.838112	AGCTCCAATTTTCGCATGGA	58.162	45.000	0.00	0.00	40.84	3.41
37	38	2.170166	AGCTCCAATTTTCGCATGGAA	58.830	42.857	0.00	0.00	42.41	3.53
38	39	2.165030	AGCTCCAATTTTCGCATGGAAG	59.835	45.455	0.00	0.00	42.41	3.46
39	40	2.533266	CTCCAATTTTCGCATGGAAGC	58.467	47.619	0.00	0.00	42.41	3.86
40	41	2.165030	CTCCAATTTTCGCATGGAAGCT	59.835	45.455	0.00	0.00	42.41	3.74
41	42	2.094597	TCCAATTTTCGCATGGAAGCTG	60.095	45.455	0.00	0.00	40.19	4.24
42	43	2.264813	CAATTTTCGCATGGAAGCTGG	58.735	47.619	0.00	0.00	35.70	4.85
43	44	0.174162	ATTTTCGCATGGAAGCTGGC	59.826	50.000	0.00	0.00	35.70	4.85
44	45	0.895100	TTTTCGCATGGAAGCTGGCT	60.895	50.000	0.00	0.00	35.70	4.75
45	46	1.588824	TTTCGCATGGAAGCTGGCTG	61.589	55.000	0.00	0.00	35.70	4.85
46	47	3.515286	CGCATGGAAGCTGGCTGG	61.515	66.667	0.00	0.00	0.00	4.85
47	48	2.044650	GCATGGAAGCTGGCTGGA	60.045	61.111	0.00	0.00	0.00	3.86
48	49	2.413142	GCATGGAAGCTGGCTGGAC	61.413	63.158	0.00	0.00	0.00	4.02
49	50	2.110967	CATGGAAGCTGGCTGGACG	61.111	63.158	0.00	0.00	0.00	4.79
50	51	3.984193	ATGGAAGCTGGCTGGACGC	62.984	63.158	0.00	0.00	38.13	5.19
52	53	4.742201	GAAGCTGGCTGGACGCGA	62.742	66.667	15.93	0.00	40.44	5.87
53	54	4.314440	AAGCTGGCTGGACGCGAA	62.314	61.111	15.93	0.00	40.44	4.70
54	55	4.749310	AGCTGGCTGGACGCGAAG	62.749	66.667	15.93	8.60	40.44	3.79
56	57	4.069232	CTGGCTGGACGCGAAGGA	62.069	66.667	15.93	0.00	40.44	3.36
57	58	4.373116	TGGCTGGACGCGAAGGAC	62.373	66.667	15.93	2.15	40.44	3.85
74	75	1.804748	GGACTTTCGACACATTGGTCC	59.195	52.381	0.00	0.00	34.24	4.46
113	114	7.549615	AGCAAGGTAAAAAGGTCGAATATAC	57.450	36.000	0.00	0.00	0.00	1.47
126	127	2.650765	CGAATATACGCGTGCACTAGTC	59.349	50.000	24.59	14.66	0.00	2.59
149	150	8.715842	AGTCTAGGAGTAAGAGTATACACATGA	58.284	37.037	5.50	0.00	0.00	3.07
186	187	1.843832	TGGTCCAACCACGGGATCA	60.844	57.895	0.00	0.00	44.79	2.92
209	211	2.698803	TGTATTGTGCTCGCTTCATGT	58.301	42.857	0.00	0.00	0.00	3.21
212	214	1.150827	TTGTGCTCGCTTCATGTCTG	58.849	50.000	0.00	0.00	0.00	3.51
229	231	6.542370	TCATGTCTGTAATCGTCACTAGATGA	59.458	38.462	0.00	0.00	43.55	2.92
291	321	6.202954	GGTCATTGTACTAGCATGATTACACC	59.797	42.308	0.00	0.00	0.00	4.16
292	322	6.202954	GTCATTGTACTAGCATGATTACACCC	59.797	42.308	0.00	0.00	0.00	4.61
293	323	5.950544	TTGTACTAGCATGATTACACCCT	57.049	39.130	0.00	0.00	0.00	4.34
297	327	6.553476	TGTACTAGCATGATTACACCCTACAT	59.447	38.462	0.00	0.00	0.00	2.29
298	328	6.102897	ACTAGCATGATTACACCCTACATC	57.897	41.667	0.00	0.00	0.00	3.06
299	329	4.357918	AGCATGATTACACCCTACATCC	57.642	45.455	0.00	0.00	0.00	3.51
300	330	3.073062	AGCATGATTACACCCTACATCCC	59.927	47.826	0.00	0.00	0.00	3.85
301	331	3.073062	GCATGATTACACCCTACATCCCT	59.927	47.826	0.00	0.00	0.00	4.20
330	494	2.837591	AGGACCGCATGCATATATACCA	59.162	45.455	19.57	0.00	0.00	3.25
387	559	0.179084	CGTGAATAGACCCGGCACAT	60.179	55.000	0.00	0.00	0.00	3.21
397	569	1.717791	CCCGGCACATCTACGTACGA	61.718	60.000	24.41	4.69	0.00	3.43
429	601	7.786030	TGGACCAAAAGTGAAAATGATAAACA	58.214	30.769	0.00	0.00	0.00	2.83
460	632	7.878547	AAAAATGTTGAATGGACAAATGGTT	57.121	28.000	0.00	0.00	0.00	3.67
481	653	5.451381	GGTTTGACCAAGAAAACCGAGAATT	60.451	40.000	1.86	0.00	44.22	2.17
482	654	5.845391	TTGACCAAGAAAACCGAGAATTT	57.155	34.783	0.00	0.00	0.00	1.82
483	655	5.181690	TGACCAAGAAAACCGAGAATTTG	57.818	39.130	0.00	0.00	0.00	2.32
491	663	2.851263	ACCGAGAATTTGGTAGCACA	57.149	45.000	0.00	0.00	39.45	4.57
516	688	1.444836	TGGTACAATGCCGTACAAGC	58.555	50.000	9.54	0.00	42.95	4.01
538	715	1.338674	CGGTACCTGCTTGTCCATCAA	60.339	52.381	10.90	0.00	34.61	2.57
546	723	4.701651	CCTGCTTGTCCATCAATTGACTAA	59.298	41.667	11.07	1.41	35.35	2.24
549	726	5.711506	TGCTTGTCCATCAATTGACTAATGT	59.288	36.000	11.07	0.00	35.35	2.71
550	727	6.209192	TGCTTGTCCATCAATTGACTAATGTT	59.791	34.615	11.07	0.00	35.35	2.71
551	728	6.749118	GCTTGTCCATCAATTGACTAATGTTC	59.251	38.462	11.07	1.67	35.35	3.18
552	729	7.575532	GCTTGTCCATCAATTGACTAATGTTCA	60.576	37.037	11.07	4.09	35.35	3.18
553	730	7.144722	TGTCCATCAATTGACTAATGTTCAC	57.855	36.000	11.07	2.75	32.67	3.18
556	733	6.652900	TCCATCAATTGACTAATGTTCACGAA	59.347	34.615	11.07	0.00	0.00	3.85
628	820	0.877071	TCGGTGTCGAACAGGAGTAC	59.123	55.000	0.00	0.00	43.03	2.73
634	826	3.058639	GTGTCGAACAGGAGTACGTAGTT	60.059	47.826	4.03	0.39	37.78	2.24
678	875	2.263540	GGGCTGAGAACCGCGTAA	59.736	61.111	4.92	0.00	0.00	3.18
752	1357	4.928661	AGCGCAAAAGATACAACTACTG	57.071	40.909	11.47	0.00	0.00	2.74
794	1407	0.244178	GGTCTCCGTCTGTCTGTTCC	59.756	60.000	0.00	0.00	0.00	3.62
927	1571	1.228583	TCGGCCTGTCTCTGTCTGT	60.229	57.895	0.00	0.00	0.00	3.41
928	1572	1.214062	CGGCCTGTCTCTGTCTGTC	59.786	63.158	0.00	0.00	0.00	3.51
929	1573	1.247419	CGGCCTGTCTCTGTCTGTCT	61.247	60.000	0.00	0.00	0.00	3.41
930	1574	0.246086	GGCCTGTCTCTGTCTGTCTG	59.754	60.000	0.00	0.00	0.00	3.51
966	1632	1.414061	CCAATCCCTCCATCCGCTCT	61.414	60.000	0.00	0.00	0.00	4.09
977	1643	3.884091	TCCATCCGCTCTACTAAGAAGAC	59.116	47.826	0.00	0.00	0.00	3.01
1262	1934	4.038042	TCGACTAGTCAATTAGCATGGAGG	59.962	45.833	22.37	1.39	0.00	4.30
1304	1983	6.155136	CACATGCGTAGATAGAGTCATTGAT	58.845	40.000	0.00	0.00	0.00	2.57
1377	2056	2.814336	GCCCTCGAGTTGTTCAGATTTT	59.186	45.455	12.31	0.00	0.00	1.82
1378	2057	4.000988	GCCCTCGAGTTGTTCAGATTTTA	58.999	43.478	12.31	0.00	0.00	1.52
1379	2058	4.093556	GCCCTCGAGTTGTTCAGATTTTAG	59.906	45.833	12.31	0.00	0.00	1.85
1381	2060	5.701290	CCCTCGAGTTGTTCAGATTTTAGTT	59.299	40.000	12.31	0.00	0.00	2.24
1382	2061	6.872020	CCCTCGAGTTGTTCAGATTTTAGTTA	59.128	38.462	12.31	0.00	0.00	2.24
1383	2062	7.148623	CCCTCGAGTTGTTCAGATTTTAGTTAC	60.149	40.741	12.31	0.00	0.00	2.50
1384	2063	7.148623	CCTCGAGTTGTTCAGATTTTAGTTACC	60.149	40.741	12.31	0.00	0.00	2.85
1388	2067	9.220767	GAGTTGTTCAGATTTTAGTTACCTCAT	57.779	33.333	0.00	0.00	0.00	2.90
1389	2068	9.003658	AGTTGTTCAGATTTTAGTTACCTCATG	57.996	33.333	0.00	0.00	0.00	3.07
1390	2069	7.377766	TGTTCAGATTTTAGTTACCTCATGC	57.622	36.000	0.00	0.00	0.00	4.06
1391	2070	6.939730	TGTTCAGATTTTAGTTACCTCATGCA	59.060	34.615	0.00	0.00	0.00	3.96
1392	2071	7.119699	TGTTCAGATTTTAGTTACCTCATGCAG	59.880	37.037	0.00	0.00	0.00	4.41
1408	2127	6.262944	CCTCATGCAGCCAAGTTGTATATAAA	59.737	38.462	1.45	0.00	0.00	1.40
1440	2159	9.822727	TGATATATTCTACTCATCAGTTGGGTA	57.177	33.333	0.00	0.00	40.45	3.69
1443	2162	5.614324	TTCTACTCATCAGTTGGGTATGG	57.386	43.478	0.00	0.00	40.54	2.74
1672	4481	0.250727	CACCGTGGGAGACAAACCAT	60.251	55.000	0.00	0.00	39.30	3.55
1726	4709	1.157751	CCGCCCCTATCCCTTCCTA	59.842	63.158	0.00	0.00	0.00	2.94
2007	5354	1.255667	ACTACCTCCGGCACAACGAT	61.256	55.000	0.00	0.00	35.47	3.73

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	4.052159	TGCGAAAATTGGAGCTTTGAAA	57.948	36.364	0.00	0.00	0.00	2.69
12	13	3.724508	TGCGAAAATTGGAGCTTTGAA	57.275	38.095	0.00	0.00	0.00	2.69
13	14	3.577667	CATGCGAAAATTGGAGCTTTGA	58.422	40.909	0.00	0.00	0.00	2.69
14	15	2.669434	CCATGCGAAAATTGGAGCTTTG	59.331	45.455	0.00	0.71	31.94	2.77
17	18	1.838112	TCCATGCGAAAATTGGAGCT	58.162	45.000	0.00	0.00	34.65	4.09
19	20	2.165030	AGCTTCCATGCGAAAATTGGAG	59.835	45.455	0.00	0.00	40.48	3.86
20	21	2.094597	CAGCTTCCATGCGAAAATTGGA	60.095	45.455	0.00	0.00	37.76	3.53
21	22	2.264813	CAGCTTCCATGCGAAAATTGG	58.735	47.619	0.00	0.00	38.13	3.16
22	23	2.264813	CCAGCTTCCATGCGAAAATTG	58.735	47.619	0.00	0.00	38.13	2.32
23	24	1.404583	GCCAGCTTCCATGCGAAAATT	60.405	47.619	0.00	0.00	38.13	1.82
24	25	0.174162	GCCAGCTTCCATGCGAAAAT	59.826	50.000	0.00	0.00	38.13	1.82
25	26	0.895100	AGCCAGCTTCCATGCGAAAA	60.895	50.000	0.00	0.00	38.13	2.29
26	27	1.303561	AGCCAGCTTCCATGCGAAA	60.304	52.632	0.00	0.00	38.13	3.46
27	28	2.042259	CAGCCAGCTTCCATGCGAA	61.042	57.895	0.00	0.00	38.13	4.70
28	29	2.437180	CAGCCAGCTTCCATGCGA	60.437	61.111	0.00	0.00	38.13	5.10
29	30	3.515286	CCAGCCAGCTTCCATGCG	61.515	66.667	0.00	0.00	38.13	4.73
30	31	2.044650	TCCAGCCAGCTTCCATGC	60.045	61.111	0.00	0.00	0.00	4.06
31	32	2.110967	CGTCCAGCCAGCTTCCATG	61.111	63.158	0.00	0.00	0.00	3.66
32	33	2.270205	CGTCCAGCCAGCTTCCAT	59.730	61.111	0.00	0.00	0.00	3.41
33	34	4.704833	GCGTCCAGCCAGCTTCCA	62.705	66.667	0.00	0.00	40.81	3.53
35	36	4.742201	TCGCGTCCAGCCAGCTTC	62.742	66.667	5.77	0.00	44.76	3.86
36	37	4.314440	TTCGCGTCCAGCCAGCTT	62.314	61.111	5.77	0.00	44.76	3.74
37	38	4.749310	CTTCGCGTCCAGCCAGCT	62.749	66.667	5.77	0.00	44.76	4.24
39	40	4.069232	TCCTTCGCGTCCAGCCAG	62.069	66.667	5.77	0.00	44.76	4.85
40	41	4.373116	GTCCTTCGCGTCCAGCCA	62.373	66.667	5.77	0.00	44.76	4.75
41	42	3.591254	AAGTCCTTCGCGTCCAGCC	62.591	63.158	5.77	0.00	44.76	4.85
42	43	1.627550	GAAAGTCCTTCGCGTCCAGC	61.628	60.000	5.77	0.00	43.95	4.85
43	44	2.446341	GAAAGTCCTTCGCGTCCAG	58.554	57.895	5.77	0.38	0.00	3.86
44	45	4.667420	GAAAGTCCTTCGCGTCCA	57.333	55.556	5.77	0.00	0.00	4.02
51	52	3.139077	ACCAATGTGTCGAAAGTCCTTC	58.861	45.455	0.00	0.00	0.00	3.46
52	53	3.139077	GACCAATGTGTCGAAAGTCCTT	58.861	45.455	0.00	0.00	0.00	3.36
53	54	2.550208	GGACCAATGTGTCGAAAGTCCT	60.550	50.000	4.15	0.00	39.36	3.85
54	55	1.804748	GGACCAATGTGTCGAAAGTCC	59.195	52.381	0.00	0.00	36.07	3.85
55	56	1.804748	GGGACCAATGTGTCGAAAGTC	59.195	52.381	0.00	0.00	36.07	3.01
56	57	1.876416	CGGGACCAATGTGTCGAAAGT	60.876	52.381	0.00	0.00	36.07	2.66
57	58	0.796312	CGGGACCAATGTGTCGAAAG	59.204	55.000	0.00	0.00	36.07	2.62
82	83	3.057526	ACCTTTTTACCTTGCTTGATCGC	60.058	43.478	0.00	0.00	0.00	4.58
113	114	0.028242	CTCCTAGACTAGTGCACGCG	59.972	60.000	12.01	3.53	0.00	6.01
149	150	1.401552	CAATCGGTCGAACCATGCATT	59.598	47.619	0.00	0.00	38.47	3.56
186	187	2.698803	TGAAGCGAGCACAATACATGT	58.301	42.857	2.69	2.69	45.34	3.21
261	263	5.604565	TCATGCTAGTACAATGACCATCAG	58.395	41.667	0.00	0.00	0.00	2.90
264	294	7.442364	GTGTAATCATGCTAGTACAATGACCAT	59.558	37.037	0.00	0.00	32.32	3.55
267	297	6.202954	GGGTGTAATCATGCTAGTACAATGAC	59.797	42.308	0.00	0.00	32.32	3.06
308	472	3.263170	TGGTATATATGCATGCGGTCCTT	59.737	43.478	14.09	0.00	0.00	3.36
309	473	2.837591	TGGTATATATGCATGCGGTCCT	59.162	45.455	14.09	0.00	0.00	3.85
330	494	5.104941	TGGGATATGTGACGAACTCTCAATT	60.105	40.000	0.00	0.00	0.00	2.32
387	559	2.545526	GTCCATCCGAATCGTACGTAGA	59.454	50.000	16.05	6.54	0.00	2.59
397	569	3.433306	TCACTTTTGGTCCATCCGAAT	57.567	42.857	0.00	0.00	39.16	3.34
460	632	5.451242	CCAAATTCTCGGTTTTCTTGGTCAA	60.451	40.000	0.00	0.00	0.00	3.18
481	653	4.207955	TGTACCATTTGTTGTGCTACCAA	58.792	39.130	0.00	0.00	0.00	3.67
482	654	3.821748	TGTACCATTTGTTGTGCTACCA	58.178	40.909	0.00	0.00	0.00	3.25
483	655	4.839668	TTGTACCATTTGTTGTGCTACC	57.160	40.909	0.00	0.00	0.00	3.18
491	663	3.821600	TGTACGGCATTGTACCATTTGTT	59.178	39.130	9.70	0.00	43.22	2.83
516	688	0.537188	ATGGACAAGCAGGTACCGAG	59.463	55.000	6.18	4.54	0.00	4.63
521	693	4.009675	GTCAATTGATGGACAAGCAGGTA	58.990	43.478	12.12	0.00	42.02	3.08
538	715	4.754618	TGCAGTTCGTGAACATTAGTCAAT	59.245	37.500	14.61	0.00	43.47	2.57
546	723	0.588252	GTGCTGCAGTTCGTGAACAT	59.412	50.000	16.64	0.00	43.47	2.71
549	726	1.202475	TGTAGTGCTGCAGTTCGTGAA	60.202	47.619	16.11	0.00	0.00	3.18
550	727	0.387565	TGTAGTGCTGCAGTTCGTGA	59.612	50.000	16.11	0.00	0.00	4.35
551	728	1.432514	ATGTAGTGCTGCAGTTCGTG	58.567	50.000	16.11	0.00	0.00	4.35
552	729	2.417379	CCTATGTAGTGCTGCAGTTCGT	60.417	50.000	16.11	14.00	0.00	3.85
553	730	2.196749	CCTATGTAGTGCTGCAGTTCG	58.803	52.381	16.11	0.00	0.00	3.95
556	733	2.461695	AGACCTATGTAGTGCTGCAGT	58.538	47.619	16.64	15.20	0.00	4.40
616	799	4.539870	TGAAAACTACGTACTCCTGTTCG	58.460	43.478	0.00	0.00	41.61	3.95
634	826	5.890985	TCCATCTCCTTGAGTTTGTTTGAAA	59.109	36.000	0.00	0.00	0.00	2.69
794	1407	3.372060	GCCGTTTGAAAGAGAAAAGGTG	58.628	45.455	0.00	0.00	35.21	4.00
927	1571	0.250252	TGGTGAGCGAATGTTGCAGA	60.250	50.000	0.00	0.00	33.85	4.26
928	1572	0.110056	GTGGTGAGCGAATGTTGCAG	60.110	55.000	0.00	0.00	33.85	4.41
929	1573	1.514678	GGTGGTGAGCGAATGTTGCA	61.515	55.000	0.00	0.00	33.85	4.08
930	1574	1.210155	GGTGGTGAGCGAATGTTGC	59.790	57.895	0.00	0.00	0.00	4.17
977	1643	1.443872	GCCGAGGACGCCATATACG	60.444	63.158	0.00	0.00	38.29	3.06
1230	1902	1.257743	TGACTAGTCGAGCTTTGCCT	58.742	50.000	17.85	0.00	0.00	4.75
1320	1999	5.353394	CAGAAGCCCTGTAACTACCATTA	57.647	43.478	0.00	0.00	38.10	1.90
1321	2000	4.222124	CAGAAGCCCTGTAACTACCATT	57.778	45.455	0.00	0.00	38.10	3.16
1322	2001	3.914426	CAGAAGCCCTGTAACTACCAT	57.086	47.619	0.00	0.00	38.10	3.55
1345	2024	1.482593	ACTCGAGGGCTCCAAAGTATG	59.517	52.381	18.41	0.00	0.00	2.39
1349	2028	0.035458	ACAACTCGAGGGCTCCAAAG	59.965	55.000	18.41	0.00	0.00	2.77
1379	2058	1.826385	ACTTGGCTGCATGAGGTAAC	58.174	50.000	0.50	0.00	0.00	2.50
1381	2060	1.073763	ACAACTTGGCTGCATGAGGTA	59.926	47.619	0.50	0.00	0.00	3.08
1382	2061	0.178981	ACAACTTGGCTGCATGAGGT	60.179	50.000	0.50	0.00	0.00	3.85
1383	2062	1.825090	TACAACTTGGCTGCATGAGG	58.175	50.000	0.50	0.00	0.00	3.86
1384	2063	6.866010	TTATATACAACTTGGCTGCATGAG	57.134	37.500	0.50	0.00	0.00	2.90
1388	2067	7.880160	AATCTTTATATACAACTTGGCTGCA	57.120	32.000	0.50	0.00	0.00	4.41
1389	2068	9.023967	CAAAATCTTTATATACAACTTGGCTGC	57.976	33.333	0.00	0.00	0.00	5.25
1418	2137	7.527868	GCCATACCCAACTGATGAGTAGAATAT	60.528	40.741	0.00	0.00	0.00	1.28
1425	2144	1.915489	TGCCATACCCAACTGATGAGT	59.085	47.619	0.00	0.00	0.00	3.41
1426	2145	2.292267	GTGCCATACCCAACTGATGAG	58.708	52.381	0.00	0.00	0.00	2.90
1431	2150	0.521291	CGTTGTGCCATACCCAACTG	59.479	55.000	0.00	0.00	37.04	3.16
1433	2152	1.735571	CTACGTTGTGCCATACCCAAC	59.264	52.381	0.00	0.00	36.09	3.77
1672	4481	2.175931	GAGAGTAGGAGAGATGGGTGGA	59.824	54.545	0.00	0.00	0.00	4.02
1758	4741	2.883888	GCAGCCATGGGAGTTTAGGAAA	60.884	50.000	15.13	0.00	0.00	3.13

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.