AutoCloner

Multiple sequence alignment - TraesCS7B01G466100

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	TraesCS7B01G466100	chr7B	100.000	2662	0	0	1	2662	723734802	723737463	0.000000e+00	4916.0
1	TraesCS7B01G466100	chr7B	92.428	1730	98	13	164	1891	723419940	723421638	0.000000e+00	2438.0
2	TraesCS7B01G466100	chr7B	92.081	1730	95	13	164	1891	723260568	723262257	0.000000e+00	2398.0
3	TraesCS7B01G466100	chr7B	90.351	1026	69	23	1640	2662	722309290	722310288	0.000000e+00	1319.0
4	TraesCS7B01G466100	chr7B	89.919	744	47	19	1925	2662	723421637	723422358	0.000000e+00	933.0
5	TraesCS7B01G466100	chr7B	89.651	744	51	19	1925	2662	723262256	723262979	0.000000e+00	924.0
6	TraesCS7B01G466100	chr7B	89.541	545	22	16	559	1100	722308768	722309280	0.000000e+00	658.0
7	TraesCS7B01G466100	chr7A	88.434	1539	137	19	580	2110	720641920	720643425	0.000000e+00	1818.0
8	TraesCS7B01G466100	chrUn	88.561	1390	127	14	746	2120	333065805	333064433	0.000000e+00	1657.0
9	TraesCS7B01G466100	chrUn	88.656	1384	125	14	746	2114	372321095	372322461	0.000000e+00	1657.0
10	TraesCS7B01G466100	chr7D	88.656	1384	125	14	746	2114	624835138	624836504	0.000000e+00	1657.0
11	TraesCS7B01G466100	chr7D	90.391	562	52	2	27	586	534471518	534470957	0.000000e+00	737.0
12	TraesCS7B01G466100	chr4D	90.925	562	49	2	27	586	122963982	122964543	0.000000e+00	754.0
13	TraesCS7B01G466100	chr6D	90.747	562	50	2	27	586	160204910	160204349	0.000000e+00	749.0
14	TraesCS7B01G466100	chr5A	90.664	557	50	2	27	581	483276072	483276628	0.000000e+00	739.0
15	TraesCS7B01G466100	chr5B	90.391	562	52	2	27	586	465659853	465659292	0.000000e+00	737.0
16	TraesCS7B01G466100	chr3D	90.391	562	52	2	27	586	275109000	275109561	0.000000e+00	737.0
17	TraesCS7B01G466100	chr3D	78.313	166	22	13	2297	2457	36834186	36834342	7.840000e-16	95.3
18	TraesCS7B01G466100	chr2A	90.391	562	52	2	27	586	757573716	757574277	0.000000e+00	737.0
19	TraesCS7B01G466100	chr1D	90.248	564	51	3	27	586	247479333	247478770	0.000000e+00	734.0
20	TraesCS7B01G466100	chr1D	79.138	441	58	27	2119	2536	279521410	279521839	9.390000e-70	274.0
21	TraesCS7B01G466100	chr5D	90.088	565	50	4	27	586	203213271	203213834	0.000000e+00	728.0
22	TraesCS7B01G466100	chr1A	80.978	184	30	3	2338	2518	351604386	351604205	9.930000e-30	141.0
23	TraesCS7B01G466100	chr6B	81.928	166	23	7	2356	2518	616864133	616864294	1.660000e-27	134.0
24	TraesCS7B01G466100	chr1B	86.022	93	10	3	2351	2442	379627134	379627044	2.180000e-16	97.1

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	TraesCS7B01G466100	chr7B	723734802	723737463	2661	False	4916.0	4916	100.0000	1	2662	1	chr7B.!!$F1	2661
1	TraesCS7B01G466100	chr7B	723419940	723422358	2418	False	1685.5	2438	91.1735	164	2662	2	chr7B.!!$F4	2498
2	TraesCS7B01G466100	chr7B	723260568	723262979	2411	False	1661.0	2398	90.8660	164	2662	2	chr7B.!!$F3	2498
3	TraesCS7B01G466100	chr7B	722308768	722310288	1520	False	988.5	1319	89.9460	559	2662	2	chr7B.!!$F2	2103
4	TraesCS7B01G466100	chr7A	720641920	720643425	1505	False	1818.0	1818	88.4340	580	2110	1	chr7A.!!$F1	1530
5	TraesCS7B01G466100	chrUn	333064433	333065805	1372	True	1657.0	1657	88.5610	746	2120	1	chrUn.!!$R1	1374
6	TraesCS7B01G466100	chrUn	372321095	372322461	1366	False	1657.0	1657	88.6560	746	2114	1	chrUn.!!$F1	1368
7	TraesCS7B01G466100	chr7D	624835138	624836504	1366	False	1657.0	1657	88.6560	746	2114	1	chr7D.!!$F1	1368
8	TraesCS7B01G466100	chr7D	534470957	534471518	561	True	737.0	737	90.3910	27	586	1	chr7D.!!$R1	559
9	TraesCS7B01G466100	chr4D	122963982	122964543	561	False	754.0	754	90.9250	27	586	1	chr4D.!!$F1	559
10	TraesCS7B01G466100	chr6D	160204349	160204910	561	True	749.0	749	90.7470	27	586	1	chr6D.!!$R1	559
11	TraesCS7B01G466100	chr5A	483276072	483276628	556	False	739.0	739	90.6640	27	581	1	chr5A.!!$F1	554
12	TraesCS7B01G466100	chr5B	465659292	465659853	561	True	737.0	737	90.3910	27	586	1	chr5B.!!$R1	559
13	TraesCS7B01G466100	chr3D	275109000	275109561	561	False	737.0	737	90.3910	27	586	1	chr3D.!!$F2	559
14	TraesCS7B01G466100	chr2A	757573716	757574277	561	False	737.0	737	90.3910	27	586	1	chr2A.!!$F1	559
15	TraesCS7B01G466100	chr1D	247478770	247479333	563	True	734.0	734	90.2480	27	586	1	chr1D.!!$R1	559
16	TraesCS7B01G466100	chr5D	203213271	203213834	563	False	728.0	728	90.0880	27	586	1	chr5D.!!$F1	559

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
71	72	1.653094	CCCGCAATGTTGTATGGCGT	61.653	55.000	7.75	0.0	45.7	5.68	F
1431	1466	1.609501	CCTCCTCCACCACCTCGAA	60.610	63.158	0.00	0.0	0.0	3.71	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1463	1498	0.389426	GTTGTATCGGTGTCGGTGCT	60.389	55.0	0.00	0.0	33.27	4.40	R
2280	2332	0.755686	TTTTGCCGGCACCTCAAAAT	59.244	45.0	32.95	0.0	35.53	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
22	23	3.632145	CCTTCATCTTTGGGGAAATACCG	59.368	47.826	0.00	0.00	40.11	4.02
23	24	4.523083	CTTCATCTTTGGGGAAATACCGA	58.477	43.478	0.00	0.00	40.11	4.69
24	25	3.881220	TCATCTTTGGGGAAATACCGAC	58.119	45.455	0.00	0.00	40.11	4.79
25	26	3.521937	TCATCTTTGGGGAAATACCGACT	59.478	43.478	0.00	0.00	40.11	4.18
36	37	5.915123	GGGAAATACCGACTGCAAGTTCTAT	60.915	44.000	0.00	0.00	42.48	1.98
71	72	1.653094	CCCGCAATGTTGTATGGCGT	61.653	55.000	7.75	0.00	45.70	5.68
85	86	4.025401	GCGTTGAGTGTTGGCCGG	62.025	66.667	0.00	0.00	0.00	6.13
106	107	4.613622	CGGCTAAAAGGTGACATGTTCAAG	60.614	45.833	0.00	0.00	35.39	3.02
120	121	2.171659	TGTTCAAGAGTTAGGTGTGGCA	59.828	45.455	0.00	0.00	0.00	4.92
129	130	2.578163	TAGGTGTGGCAGAGATGCGC	62.578	60.000	0.00	0.00	35.24	6.09
259	260	4.646492	GTCTGAGATGGTTTGGGCATATTT	59.354	41.667	0.00	0.00	0.00	1.40
380	382	3.369471	CCGTAAAGAGGCATCTGAAGGAA	60.369	47.826	0.00	0.00	35.37	3.36
485	488	5.045869	CAGGTCTTATGGGTTTCACCTCTAA	60.046	44.000	0.00	0.00	38.64	2.10
493	496	3.179685	GGTTTCACCTCTAACCTACCCT	58.820	50.000	0.00	0.00	40.50	4.34
570	588	4.207599	GTTGTTGTTGTTGTTGTTGTTGC	58.792	39.130	0.00	0.00	0.00	4.17
615	634	5.543507	AAACCCTCAAATAAATGTGTGCA	57.456	34.783	0.00	0.00	0.00	4.57
618	637	4.588528	ACCCTCAAATAAATGTGTGCAGTT	59.411	37.500	0.00	0.00	36.78	3.16
656	675	7.408756	TGGAAAATCCACATATCTTGAAAGG	57.591	36.000	0.00	0.00	42.67	3.11
657	676	7.181361	TGGAAAATCCACATATCTTGAAAGGA	58.819	34.615	0.00	0.00	42.67	3.36
766	786	9.974980	TCCAAATTCAGAAGTACCAAAATAAAC	57.025	29.630	0.00	0.00	0.00	2.01
853	876	7.989741	AGATACAATTCATTGGAGGACTTGTAG	59.010	37.037	9.97	0.00	40.98	2.74
934	958	4.033358	CCGAAGATCTGAAAAATGAGACGG	59.967	45.833	0.00	0.00	0.00	4.79
988	1012	6.176183	CCAAACTCCACTCTTCAGTATTCAT	58.824	40.000	0.00	0.00	0.00	2.57
1077	1101	7.338710	CCTTTTCAGGTATGAGAAGTCCAATA	58.661	38.462	7.49	0.00	43.05	1.90
1219	1245	7.387948	TCAGTAGTTTGTGCTTTTTATCCTCTC	59.612	37.037	0.00	0.00	0.00	3.20
1251	1277	8.996988	TGTATTTGACTTGTTAATTTCGTGTC	57.003	30.769	0.00	0.00	0.00	3.67
1255	1281	5.361427	TGACTTGTTAATTTCGTGTCTGGA	58.639	37.500	0.00	0.00	0.00	3.86
1429	1464	2.037367	TCCTCCTCCACCACCTCG	59.963	66.667	0.00	0.00	0.00	4.63
1431	1466	1.609501	CCTCCTCCACCACCTCGAA	60.610	63.158	0.00	0.00	0.00	3.71
1446	1481	3.260884	ACCTCGAACTCCAAAGAGCAATA	59.739	43.478	0.00	0.00	44.65	1.90
1458	1493	1.834263	AGAGCAATACACCTCCACCTC	59.166	52.381	0.00	0.00	0.00	3.85
1463	1498	0.118346	ATACACCTCCACCTCCACCA	59.882	55.000	0.00	0.00	0.00	4.17
1464	1499	0.544357	TACACCTCCACCTCCACCAG	60.544	60.000	0.00	0.00	0.00	4.00
1465	1500	2.930562	ACCTCCACCTCCACCAGC	60.931	66.667	0.00	0.00	0.00	4.85
1466	1501	2.930019	CCTCCACCTCCACCAGCA	60.930	66.667	0.00	0.00	0.00	4.41
1467	1502	2.348998	CTCCACCTCCACCAGCAC	59.651	66.667	0.00	0.00	0.00	4.40
1468	1503	3.249189	TCCACCTCCACCAGCACC	61.249	66.667	0.00	0.00	0.00	5.01
1469	1504	4.704833	CCACCTCCACCAGCACCG	62.705	72.222	0.00	0.00	0.00	4.94
1470	1505	3.625897	CACCTCCACCAGCACCGA	61.626	66.667	0.00	0.00	0.00	4.69
1471	1506	3.626924	ACCTCCACCAGCACCGAC	61.627	66.667	0.00	0.00	0.00	4.79
1481	1516	0.389296	CAGCACCGACACCGATACAA	60.389	55.000	0.00	0.00	38.22	2.41
1636	1671	1.241165	TGTTTCTCGTGCTCCGTAGA	58.759	50.000	0.00	0.00	37.94	2.59
1706	1742	7.154656	GGCTTGAGTTTTCTATTGGTTCAATT	58.845	34.615	0.00	0.00	35.54	2.32
1797	1833	4.482386	CATTTTCGAGTGTCTAGAACGGA	58.518	43.478	0.00	0.00	0.00	4.69
1805	1841	3.833070	AGTGTCTAGAACGGATTTGACCT	59.167	43.478	0.00	0.00	0.00	3.85
1812	1848	4.087182	AGAACGGATTTGACCTCTCTACA	58.913	43.478	0.00	0.00	0.00	2.74
1831	1867	7.123847	TCTCTACAGTAATGTTTCTAGGGGAAC	59.876	40.741	0.00	0.00	33.13	3.62
1891	1929	5.155278	TGTTCCGGCAGAAACTATCTTTA	57.845	39.130	0.00	0.00	35.73	1.85
1892	1930	5.175859	TGTTCCGGCAGAAACTATCTTTAG	58.824	41.667	0.00	0.00	35.73	1.85
1900	1938	6.768381	GGCAGAAACTATCTTTAGGCTAATGT	59.232	38.462	16.85	9.19	35.73	2.71
1906	1944	2.536365	TCTTTAGGCTAATGTGTCGCG	58.464	47.619	16.85	0.00	0.00	5.87
2002	2053	4.556233	GAATGCCCACAAGGTTTTCTTAC	58.444	43.478	0.00	0.00	38.26	2.34
2177	2228	0.964358	AAGCTCACATGCTCTTGGGC	60.964	55.000	0.00	0.00	43.24	5.36
2178	2229	1.378250	GCTCACATGCTCTTGGGCT	60.378	57.895	0.00	0.00	0.00	5.19
2190	2242	4.019321	TGCTCTTGGGCTAACAGTAAAGAT	60.019	41.667	0.00	0.00	0.00	2.40
2331	2385	5.170748	AGTGCTCCAAAAAGAGTGTTTTTG	58.829	37.500	24.26	24.26	44.56	2.44
2346	2401	9.516314	AGAGTGTTTTTGAAGCATTTTAAGTAC	57.484	29.630	0.00	0.00	0.00	2.73
2438	2495	9.991906	AGAAAAATCATCAATGTTTCTTGACAT	57.008	25.926	0.00	0.00	45.78	3.06
2563	2624	5.893824	TGCATCATACTTCTCCTCTTGACTA	59.106	40.000	0.00	0.00	0.00	2.59
2566	2627	7.437862	GCATCATACTTCTCCTCTTGACTAAAG	59.562	40.741	0.00	0.00	37.22	1.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	3.632145	CGGTATTTCCCCAAAGATGAAGG	59.368	47.826	0.00	0.00	0.00	3.46
1	2	4.335594	GTCGGTATTTCCCCAAAGATGAAG	59.664	45.833	0.00	0.00	0.00	3.02
2	3	4.018779	AGTCGGTATTTCCCCAAAGATGAA	60.019	41.667	0.00	0.00	0.00	2.57
3	4	3.521937	AGTCGGTATTTCCCCAAAGATGA	59.478	43.478	0.00	0.00	0.00	2.92
4	5	3.627577	CAGTCGGTATTTCCCCAAAGATG	59.372	47.826	0.00	0.00	0.00	2.90
5	6	3.886123	CAGTCGGTATTTCCCCAAAGAT	58.114	45.455	0.00	0.00	0.00	2.40
6	7	2.617021	GCAGTCGGTATTTCCCCAAAGA	60.617	50.000	0.00	0.00	0.00	2.52
7	8	1.743394	GCAGTCGGTATTTCCCCAAAG	59.257	52.381	0.00	0.00	0.00	2.77
8	9	1.074084	TGCAGTCGGTATTTCCCCAAA	59.926	47.619	0.00	0.00	0.00	3.28
9	10	0.693622	TGCAGTCGGTATTTCCCCAA	59.306	50.000	0.00	0.00	0.00	4.12
10	11	0.693622	TTGCAGTCGGTATTTCCCCA	59.306	50.000	0.00	0.00	0.00	4.96
11	12	1.339727	ACTTGCAGTCGGTATTTCCCC	60.340	52.381	0.00	0.00	0.00	4.81
12	13	2.109425	ACTTGCAGTCGGTATTTCCC	57.891	50.000	0.00	0.00	0.00	3.97
13	14	3.335579	AGAACTTGCAGTCGGTATTTCC	58.664	45.455	0.00	0.00	0.00	3.13
14	15	6.421202	CCTATAGAACTTGCAGTCGGTATTTC	59.579	42.308	0.00	0.00	0.00	2.17
15	16	6.097839	TCCTATAGAACTTGCAGTCGGTATTT	59.902	38.462	0.00	0.00	0.00	1.40
16	17	5.597182	TCCTATAGAACTTGCAGTCGGTATT	59.403	40.000	0.00	0.00	0.00	1.89
17	18	5.009811	GTCCTATAGAACTTGCAGTCGGTAT	59.990	44.000	0.00	0.00	0.00	2.73
18	19	4.337555	GTCCTATAGAACTTGCAGTCGGTA	59.662	45.833	0.00	0.00	0.00	4.02
19	20	3.130693	GTCCTATAGAACTTGCAGTCGGT	59.869	47.826	0.00	0.00	0.00	4.69
20	21	3.707793	GTCCTATAGAACTTGCAGTCGG	58.292	50.000	0.00	0.00	0.00	4.79
21	22	3.364062	CGTCCTATAGAACTTGCAGTCG	58.636	50.000	0.00	0.00	0.00	4.18
22	23	3.707793	CCGTCCTATAGAACTTGCAGTC	58.292	50.000	0.00	0.00	0.00	3.51
23	24	2.159085	GCCGTCCTATAGAACTTGCAGT	60.159	50.000	0.00	0.00	0.00	4.40
24	25	2.474816	GCCGTCCTATAGAACTTGCAG	58.525	52.381	0.00	0.00	0.00	4.41
25	26	1.202371	CGCCGTCCTATAGAACTTGCA	60.202	52.381	0.00	0.00	0.00	4.08
36	37	3.443045	GGTCGAACCGCCGTCCTA	61.443	66.667	0.00	0.00	35.44	2.94
71	72	0.179015	TTTAGCCGGCCAACACTCAA	60.179	50.000	26.15	0.00	0.00	3.02
85	86	5.239525	ACTCTTGAACATGTCACCTTTTAGC	59.760	40.000	0.00	0.00	35.39	3.09
106	107	2.898705	CATCTCTGCCACACCTAACTC	58.101	52.381	0.00	0.00	0.00	3.01
120	121	2.210961	CATCTCAACATGCGCATCTCT	58.789	47.619	22.51	4.57	0.00	3.10
129	130	2.098607	GCCACACATCCATCTCAACATG	59.901	50.000	0.00	0.00	0.00	3.21
214	215	3.499918	CGATGTTGGACAAGCTTCTCTTT	59.500	43.478	0.00	0.00	31.27	2.52
259	260	2.579201	GTCTGGAGGCTTGCGCTA	59.421	61.111	9.73	0.00	36.09	4.26
380	382	4.577283	GCTAGTTCTCTGTCGATACTCCTT	59.423	45.833	0.00	0.00	0.00	3.36
485	488	3.073503	GTCCCAAACAAGTTAGGGTAGGT	59.926	47.826	0.00	0.00	42.12	3.08
493	496	5.056553	AGCCTTTAGTCCCAAACAAGTTA	57.943	39.130	0.00	0.00	0.00	2.24
610	629	9.625747	TTCCATTATAAATAGATGAACTGCACA	57.374	29.630	0.00	0.00	0.00	4.57
693	712	8.811017	TGGACTTTTTGCTAATAAATGATCCAA	58.189	29.630	0.00	0.00	0.00	3.53
766	786	9.599866	TGTGAAAGGATAATAGTATGACTTGTG	57.400	33.333	0.00	0.00	0.00	3.33
794	814	7.556844	TCTAGAAGGTCTCCATTTAATGTGTC	58.443	38.462	4.15	0.00	0.00	3.67
908	931	4.019321	TCTCATTTTTCAGATCTTCGGGGT	60.019	41.667	0.00	0.00	0.00	4.95
934	958	6.534634	ACCCTACATTTATAGATGCTTGGAC	58.465	40.000	3.23	0.00	0.00	4.02
988	1012	9.219603	CCTTGTTAGAGTCATTTCACAAAGATA	57.780	33.333	0.00	0.00	0.00	1.98
1225	1251	9.440784	GACACGAAATTAACAAGTCAAATACAA	57.559	29.630	0.00	0.00	0.00	2.41
1239	1265	6.869315	TGTTCATTCCAGACACGAAATTAA	57.131	33.333	0.00	0.00	0.00	1.40
1251	1277	0.890683	GGGCCTGTTGTTCATTCCAG	59.109	55.000	0.84	0.00	0.00	3.86
1255	1281	2.607499	TGATTGGGCCTGTTGTTCATT	58.393	42.857	4.53	0.00	0.00	2.57
1429	1464	4.327680	AGGTGTATTGCTCTTTGGAGTTC	58.672	43.478	0.00	0.00	41.38	3.01
1431	1466	3.307762	GGAGGTGTATTGCTCTTTGGAGT	60.308	47.826	0.00	0.00	41.38	3.85
1446	1481	1.843376	CTGGTGGAGGTGGAGGTGT	60.843	63.158	0.00	0.00	0.00	4.16
1463	1498	0.389426	GTTGTATCGGTGTCGGTGCT	60.389	55.000	0.00	0.00	33.27	4.40
1464	1499	1.356527	GGTTGTATCGGTGTCGGTGC	61.357	60.000	0.00	0.00	36.95	5.01
1465	1500	1.074319	CGGTTGTATCGGTGTCGGTG	61.074	60.000	0.00	0.00	36.95	4.94
1466	1501	1.213537	CGGTTGTATCGGTGTCGGT	59.786	57.895	0.00	0.00	36.95	4.69
1467	1502	2.162754	GCGGTTGTATCGGTGTCGG	61.163	63.158	0.00	0.00	36.95	4.79
1468	1503	2.162754	GGCGGTTGTATCGGTGTCG	61.163	63.158	0.00	0.00	37.82	4.35
1469	1504	0.804933	GAGGCGGTTGTATCGGTGTC	60.805	60.000	0.00	0.00	0.00	3.67
1470	1505	1.217244	GAGGCGGTTGTATCGGTGT	59.783	57.895	0.00	0.00	0.00	4.16
1471	1506	1.520787	GGAGGCGGTTGTATCGGTG	60.521	63.158	0.00	0.00	0.00	4.94
1607	1642	2.724839	GCACGAGAAACAATAGCAACCG	60.725	50.000	0.00	0.00	0.00	4.44
1636	1671	2.301870	TGTGATCGTGGGCTAGACTTTT	59.698	45.455	0.00	0.00	0.00	2.27
1673	1708	3.565307	AGAAAACTCAAGCCACATTCCA	58.435	40.909	0.00	0.00	0.00	3.53
1776	1812	4.778534	TCCGTTCTAGACACTCGAAAAT	57.221	40.909	0.00	0.00	0.00	1.82
1797	1833	8.598041	AGAAACATTACTGTAGAGAGGTCAAAT	58.402	33.333	0.00	0.00	33.36	2.32
1805	1841	6.738635	TCCCCTAGAAACATTACTGTAGAGA	58.261	40.000	0.00	0.00	33.36	3.10
1812	1848	7.027874	TGAATGTTCCCCTAGAAACATTACT	57.972	36.000	20.93	8.39	36.85	2.24
1831	1867	1.133025	GTTGGGCGTGGATCTTGAATG	59.867	52.381	0.00	0.00	0.00	2.67
1891	1929	2.621998	AGTATACGCGACACATTAGCCT	59.378	45.455	15.93	0.00	0.00	4.58
1892	1930	2.978489	GAGTATACGCGACACATTAGCC	59.022	50.000	15.93	0.00	0.00	3.93
1900	1938	2.615447	CAGTAAGGGAGTATACGCGACA	59.385	50.000	15.93	0.00	0.00	4.35
1906	1944	6.176014	AGCAAATCCAGTAAGGGAGTATAC	57.824	41.667	0.00	0.00	41.08	1.47
1993	2035	4.083802	AGCAGTGAATCAGCGTAAGAAAAC	60.084	41.667	0.00	0.00	43.02	2.43
2002	2053	4.604843	TTAATGAAGCAGTGAATCAGCG	57.395	40.909	0.00	0.00	33.71	5.18
2099	2150	1.843368	AAGCACACCATTAGCAGCAT	58.157	45.000	0.00	0.00	0.00	3.79
2158	2209	0.964358	GCCCAAGAGCATGTGAGCTT	60.964	55.000	0.00	0.00	46.75	3.74
2270	2322	5.036737	CGGCACCTCAAAATACATGATTTC	58.963	41.667	0.00	0.00	36.71	2.17
2280	2332	0.755686	TTTTGCCGGCACCTCAAAAT	59.244	45.000	32.95	0.00	35.53	1.82
2282	2334	2.202866	TTTTTGCCGGCACCTCAAA	58.797	47.368	32.95	24.09	0.00	2.69
2301	2355	7.555965	ACACTCTTTTTGGAGCACTAATTTTT	58.444	30.769	0.00	0.00	36.87	1.94
2361	2418	2.555325	ACATTTGTGGATGTGTCAGCAG	59.445	45.455	0.00	0.00	38.75	4.24
2393	2450	2.546368	TCTACACGCGTGCAAATTTTCT	59.454	40.909	37.35	17.99	0.00	2.52
2492	2553	1.403382	GCTCGAGTTCACATGCTCTCA	60.403	52.381	15.13	0.00	0.00	3.27

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.