AutoCloner

Multiple sequence alignment - TraesCS1D01G393200

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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	TraesCS1D01G393200	chr1D	100.000	3777	0	0	1	3777	462969057	462965281	0.000000e+00	6975.0
1	TraesCS1D01G393200	chr1D	94.865	2142	88	10	852	2976	462888254	462886118	0.000000e+00	3326.0
2	TraesCS1D01G393200	chr1D	94.865	2142	89	13	852	2976	462890822	462888685	0.000000e+00	3326.0
3	TraesCS1D01G393200	chr1D	94.803	2136	86	12	854	2976	462927770	462925647	0.000000e+00	3306.0
4	TraesCS1D01G393200	chr1D	94.649	2149	86	14	852	2976	462932380	462930237	0.000000e+00	3304.0
5	TraesCS1D01G393200	chr1D	94.641	2146	84	14	852	2976	462913895	462911760	0.000000e+00	3297.0
6	TraesCS1D01G393200	chr1D	94.590	2144	93	11	852	2976	462893393	462891254	0.000000e+00	3295.0
7	TraesCS1D01G393200	chr1D	94.595	2146	84	15	852	2976	462921122	462918988	0.000000e+00	3291.0
8	TraesCS1D01G393200	chr1D	94.499	2145	86	15	852	2976	462901071	462898939	0.000000e+00	3278.0
9	TraesCS1D01G393200	chr1D	94.708	1833	78	9	1160	2976	462910972	462909143	0.000000e+00	2830.0
10	TraesCS1D01G393200	chr1D	93.825	1409	61	13	1587	2976	462915727	462914326	0.000000e+00	2097.0
11	TraesCS1D01G393200	chr1D	93.612	1409	64	13	1587	2976	462922954	462921553	0.000000e+00	2080.0
12	TraesCS1D01G393200	chr1D	92.969	1408	64	11	1587	2976	462929593	462928203	0.000000e+00	2019.0
13	TraesCS1D01G393200	chr1D	94.513	1294	51	10	1700	2976	462905350	462904060	0.000000e+00	1978.0
14	TraesCS1D01G393200	chr1D	93.374	1298	62	11	1700	2976	462907893	462906599	0.000000e+00	1899.0
15	TraesCS1D01G393200	chr1D	97.727	44	1	0	580	623	462873280	462873237	4.050000e-10	76.8
16	TraesCS1D01G393200	chr1B	94.822	3167	125	16	608	3757	637915842	637912698	0.000000e+00	4903.0
17	TraesCS1D01G393200	chr1B	92.500	160	11	1	1	159	619214341	619214500	1.060000e-55	228.0
18	TraesCS1D01G393200	chr1B	86.667	135	12	4	448	579	332872496	332872365	1.090000e-30	145.0
19	TraesCS1D01G393200	chr2D	95.341	2919	102	21	863	3757	634645040	634647948	0.000000e+00	4606.0
20	TraesCS1D01G393200	chr2D	92.667	600	18	11	1	579	447254904	447255498	0.000000e+00	841.0
21	TraesCS1D01G393200	chr3B	95.470	1214	40	7	2558	3757	397678494	397677282	0.000000e+00	1923.0
22	TraesCS1D01G393200	chr3B	86.957	138	12	6	448	580	742714794	742714930	2.350000e-32	150.0
23	TraesCS1D01G393200	chr3D	87.528	898	71	17	2566	3445	321872168	321873042	0.000000e+00	1000.0
24	TraesCS1D01G393200	chr3D	97.115	208	6	0	3550	3757	321873079	321873286	6.000000e-93	351.0
25	TraesCS1D01G393200	chr3A	87.208	899	69	20	2566	3445	402135967	402135096	0.000000e+00	981.0
26	TraesCS1D01G393200	chr3A	84.738	439	43	12	159	577	677174044	677174478	5.840000e-113	418.0
27	TraesCS1D01G393200	chr3A	93.301	209	11	1	3552	3757	402135057	402134849	4.740000e-79	305.0
28	TraesCS1D01G393200	chr5D	86.689	601	48	15	1	576	289511381	289511974	4.110000e-179	638.0
29	TraesCS1D01G393200	chr7D	86.356	601	52	13	1	580	33246943	33246352	2.480000e-176	628.0
30	TraesCS1D01G393200	chr2B	86.000	600	52	18	1	576	127950634	127951225	6.930000e-172	614.0
31	TraesCS1D01G393200	chr7A	85.455	605	58	17	1	582	553977909	553977312	1.500000e-168	603.0
32	TraesCS1D01G393200	chr7A	85.309	599	58	16	1	576	627247111	627247702	3.250000e-165	592.0
33	TraesCS1D01G393200	chr7A	85.294	136	16	4	448	580	164821822	164821688	1.830000e-28	137.0
34	TraesCS1D01G393200	chr6B	85.668	614	37	23	1	579	652999870	653000467	1.940000e-167	599.0
35	TraesCS1D01G393200	chr1A	86.882	465	37	13	1	444	583156690	583156229	2.030000e-137	499.0
36	TraesCS1D01G393200	chr1A	90.556	180	13	4	402	579	583156232	583156055	6.310000e-58	235.0
37	TraesCS1D01G393200	chr1A	97.917	48	0	1	580	627	554682602	554682556	8.700000e-12	82.4
38	TraesCS1D01G393200	chrUn	85.491	448	36	17	159	579	2029500	2029945	1.250000e-119	440.0
39	TraesCS1D01G393200	chrUn	85.276	163	7	3	1	163	2029100	2029245	6.530000e-33	152.0
40	TraesCS1D01G393200	chr5A	84.928	418	37	10	1	397	368942988	368942576	2.110000e-107	399.0

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	TraesCS1D01G393200	chr1D	462965281	462969057	3776	True	6975.000000	6975	100.000000	1	3777	1	chr1D.!!$R2	3776
1	TraesCS1D01G393200	chr1D	462886118	462893393	7275	True	3315.666667	3326	94.773333	852	2976	3	chr1D.!!$R3	2124
2	TraesCS1D01G393200	chr1D	462898939	462932380	33441	True	2670.818182	3306	94.198909	852	2976	11	chr1D.!!$R4	2124
3	TraesCS1D01G393200	chr1B	637912698	637915842	3144	True	4903.000000	4903	94.822000	608	3757	1	chr1B.!!$R2	3149
4	TraesCS1D01G393200	chr2D	634645040	634647948	2908	False	4606.000000	4606	95.341000	863	3757	1	chr2D.!!$F2	2894
5	TraesCS1D01G393200	chr2D	447254904	447255498	594	False	841.000000	841	92.667000	1	579	1	chr2D.!!$F1	578
6	TraesCS1D01G393200	chr3B	397677282	397678494	1212	True	1923.000000	1923	95.470000	2558	3757	1	chr3B.!!$R1	1199
7	TraesCS1D01G393200	chr3D	321872168	321873286	1118	False	675.500000	1000	92.321500	2566	3757	2	chr3D.!!$F1	1191
8	TraesCS1D01G393200	chr3A	402134849	402135967	1118	True	643.000000	981	90.254500	2566	3757	2	chr3A.!!$R1	1191
9	TraesCS1D01G393200	chr5D	289511381	289511974	593	False	638.000000	638	86.689000	1	576	1	chr5D.!!$F1	575
10	TraesCS1D01G393200	chr7D	33246352	33246943	591	True	628.000000	628	86.356000	1	580	1	chr7D.!!$R1	579
11	TraesCS1D01G393200	chr2B	127950634	127951225	591	False	614.000000	614	86.000000	1	576	1	chr2B.!!$F1	575
12	TraesCS1D01G393200	chr7A	553977312	553977909	597	True	603.000000	603	85.455000	1	582	1	chr7A.!!$R2	581
13	TraesCS1D01G393200	chr7A	627247111	627247702	591	False	592.000000	592	85.309000	1	576	1	chr7A.!!$F1	575
14	TraesCS1D01G393200	chr6B	652999870	653000467	597	False	599.000000	599	85.668000	1	579	1	chr6B.!!$F1	578
15	TraesCS1D01G393200	chr1A	583156055	583156690	635	True	367.000000	499	88.719000	1	579	2	chr1A.!!$R2	578
16	TraesCS1D01G393200	chrUn	2029100	2029945	845	False	296.000000	440	85.383500	1	579	2	chrUn.!!$F1	578

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	Hairpin	End Stability	Orientation
598	961	0.029567	CCTCATCCGACGTGTAGCTC	59.970	60.0	0.00	4.09	F
599	962	0.029567	CTCATCCGACGTGTAGCTCC	59.970	60.0	0.00	4.70	F
1216	15411	0.037303	AGGACAACTCCGACGAGGTA	59.963	55.0	42.22	3.08	F

Position	MSA Position	Penalty	Sequence	TM	GC	End Stability	Orientation
2281	28872	1.442769	TTCGACATTCAAGCAGCTCC	58.557	50.000	4.70	R
2403	29007	3.328382	TTTAGTCCGGGATGAACAGTG	57.672	47.619	3.66	R
2944	32096	1.133853	AGCCCATCTTCATTGCTCCTC	60.134	52.381	3.71	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
193	477	5.069516	ACAGAAGACTTACGGGAAACTACAA	59.930	40.000	0.00	0.00	0.00	2.41
213	497	0.324943	TCTACAGGGCAAGCTGTTCC	59.675	55.000	0.00	0.00	35.26	3.62
219	503	2.027192	CAGGGCAAGCTGTTCCTACTTA	60.027	50.000	0.00	0.00	0.00	2.24
221	505	2.000447	GGCAAGCTGTTCCTACTTACG	59.000	52.381	0.00	0.00	0.00	3.18
223	507	2.618053	CAAGCTGTTCCTACTTACGGG	58.382	52.381	0.00	0.00	0.00	5.28
225	509	1.188863	GCTGTTCCTACTTACGGGGA	58.811	55.000	0.00	0.00	0.00	4.81
226	510	1.551883	GCTGTTCCTACTTACGGGGAA	59.448	52.381	0.00	0.00	36.86	3.97
231	515	4.541973	TTCCTACTTACGGGGAACTTTC	57.458	45.455	0.00	0.00	34.64	2.62
232	516	2.493278	TCCTACTTACGGGGAACTTTCG	59.507	50.000	0.00	0.00	0.00	3.46
234	518	2.738013	ACTTACGGGGAACTTTCGAG	57.262	50.000	0.00	0.00	0.00	4.04
236	520	2.230750	ACTTACGGGGAACTTTCGAGAG	59.769	50.000	0.58	0.58	0.00	3.20
237	521	2.205022	TACGGGGAACTTTCGAGAGA	57.795	50.000	10.37	0.00	39.20	3.10
531	892	4.881157	ATTTTTAGTGTGATAGGGCCCT	57.119	40.909	31.35	31.35	0.00	5.19
549	910	3.726782	GCCCTATTTTGTAGTTTCGCACG	60.727	47.826	0.00	0.00	0.00	5.34
589	952	4.554036	GGCCCTGCCTCATCCGAC	62.554	72.222	0.00	0.00	46.69	4.79
590	953	4.899239	GCCCTGCCTCATCCGACG	62.899	72.222	0.00	0.00	0.00	5.12
591	954	3.461773	CCCTGCCTCATCCGACGT	61.462	66.667	0.00	0.00	0.00	4.34
592	955	2.202797	CCTGCCTCATCCGACGTG	60.203	66.667	0.00	0.00	0.00	4.49
593	956	2.573869	CTGCCTCATCCGACGTGT	59.426	61.111	0.00	0.00	0.00	4.49
594	957	1.663379	CCTGCCTCATCCGACGTGTA	61.663	60.000	0.00	0.00	0.00	2.90
595	958	0.248661	CTGCCTCATCCGACGTGTAG	60.249	60.000	0.00	0.00	0.00	2.74
596	959	1.589196	GCCTCATCCGACGTGTAGC	60.589	63.158	0.00	0.00	0.00	3.58
597	960	2.005960	GCCTCATCCGACGTGTAGCT	62.006	60.000	0.00	0.00	0.00	3.32
598	961	0.029567	CCTCATCCGACGTGTAGCTC	59.970	60.000	0.00	0.00	0.00	4.09
599	962	0.029567	CTCATCCGACGTGTAGCTCC	59.970	60.000	0.00	0.00	0.00	4.70
600	963	1.298413	CATCCGACGTGTAGCTCCG	60.298	63.158	0.00	0.00	0.00	4.63
601	964	3.122250	ATCCGACGTGTAGCTCCGC	62.122	63.158	0.00	0.00	0.00	5.54
603	966	4.156622	CGACGTGTAGCTCCGCGA	62.157	66.667	19.57	0.00	40.64	5.87
604	967	2.277373	GACGTGTAGCTCCGCGAG	60.277	66.667	19.57	4.18	40.64	5.03
605	968	2.745100	ACGTGTAGCTCCGCGAGA	60.745	61.111	19.57	1.68	40.64	4.04
606	969	2.049475	GACGTGTAGCTCCGCGAGAT	62.049	60.000	19.57	4.41	40.64	2.75
617	980	0.455802	CCGCGAGATGATCTGATCCG	60.456	60.000	8.23	11.49	0.00	4.18
664	1027	4.256920	GGTTGACGTAGAGAGGTACAGTA	58.743	47.826	0.00	0.00	0.00	2.74
665	1028	4.094146	GGTTGACGTAGAGAGGTACAGTAC	59.906	50.000	1.59	1.59	0.00	2.73
678	1041	1.297012	CAGTACGACTCTCGCTCGC	60.297	63.158	0.00	0.00	45.12	5.03
768	1133	8.991243	TTAGTTATTTAAGCACGACTACATGT	57.009	30.769	2.69	2.69	0.00	3.21
769	1134	7.290857	AGTTATTTAAGCACGACTACATGTG	57.709	36.000	9.11	0.93	39.10	3.21
774	1139	1.704010	CACGACTACATGTGCGCAG	59.296	57.895	12.22	0.60	0.00	5.18
838	1203	3.181495	GCGAGGATCTTTCTTTCTCTCGA	60.181	47.826	13.91	0.00	43.33	4.04
846	1211	2.421751	TCTTTCTCTCGACGGGATCT	57.578	50.000	0.00	0.00	0.00	2.75
948	1313	1.418373	CGTGCATCAGACTCGAACAA	58.582	50.000	0.00	0.00	0.00	2.83
1035	8579	1.291588	CTGCACCTGCGAGAAGACT	59.708	57.895	0.00	0.00	45.83	3.24
1216	15411	0.037303	AGGACAACTCCGACGAGGTA	59.963	55.000	0.00	0.00	42.22	3.08
1350	15545	0.895100	GTCAAGGGATGCAACTGCCA	60.895	55.000	0.36	0.00	41.18	4.92
1483	15678	0.585357	ATCTCATGCTCGATTTGCGC	59.415	50.000	0.00	0.00	40.61	6.09
1502	22928	2.012673	GCCTGTCTCGAATCAAAGCAT	58.987	47.619	0.00	0.00	0.00	3.79
1845	23274	2.677836	GCATCGAAGATACTTTGGTGCA	59.322	45.455	23.65	0.00	45.12	4.57
1846	23275	3.313526	GCATCGAAGATACTTTGGTGCAT	59.686	43.478	23.65	0.37	45.12	3.96
1882	23311	9.513727	GCAAAATTTTGTGGTGTTTTGATATTT	57.486	25.926	27.13	0.00	41.61	1.40
1891	23320	5.010922	TGGTGTTTTGATATTTGAGCAGCTT	59.989	36.000	0.00	0.00	0.00	3.74
1892	23321	5.928264	GGTGTTTTGATATTTGAGCAGCTTT	59.072	36.000	0.00	0.00	0.00	3.51
2081	28667	7.920160	AAAAGAAACAAAATTTGGCTCAGAA	57.080	28.000	10.71	0.00	34.12	3.02
2164	28755	5.599359	TGATCACAAAATTTTGCATGCAG	57.401	34.783	26.94	9.89	41.79	4.41
2182	28773	2.106683	GCTTGCGTACCCGAGCATT	61.107	57.895	13.85	0.00	43.42	3.56
2346	28937	3.013276	TGCGCACTAGATTATCTTCGG	57.987	47.619	5.66	0.00	0.00	4.30
2360	28951	8.739972	AGATTATCTTCGGTGCTGTAAAATTTT	58.260	29.630	8.75	8.75	0.00	1.82
2365	28969	8.106247	TCTTCGGTGCTGTAAAATTTTAGATT	57.894	30.769	10.92	0.00	0.00	2.40
2862	29470	4.225942	TCCTTGTCAAATGCCATCTACTCT	59.774	41.667	0.00	0.00	0.00	3.24
2901	29509	4.286910	CGAGCGGAGTGAAATTTCAAAAA	58.713	39.130	22.07	0.00	39.21	1.94
2932	32084	5.554822	TCGAATTGGTAAGTTATGGCAAC	57.445	39.130	0.00	0.00	0.00	4.17
3042	32197	1.068885	TGCCGCGACAAACTTTTATGG	60.069	47.619	8.23	0.00	0.00	2.74
3060	32216	8.411991	TTTTATGGACGTCCCTTTCTTAAAAT	57.588	30.769	31.19	15.88	35.38	1.82
3263	32436	2.832643	TTGATCCCCAAGCACATCAT	57.167	45.000	0.00	0.00	0.00	2.45
3320	32493	3.362706	TGACGCAAACTCCCTACTAGAT	58.637	45.455	0.00	0.00	0.00	1.98
3638	33830	7.011016	GGTGTGTTTTGATGATGATATGACGTA	59.989	37.037	0.00	0.00	0.00	3.57
3757	33987	5.667466	ACAATATAACTGGGGTACAACTCG	58.333	41.667	0.00	0.00	0.00	4.18
3759	33989	1.269012	TAACTGGGGTACAACTCGGG	58.731	55.000	0.00	0.00	0.00	5.14
3761	33991	0.114954	ACTGGGGTACAACTCGGGTA	59.885	55.000	0.00	0.00	0.00	3.69
3762	33992	0.533951	CTGGGGTACAACTCGGGTAC	59.466	60.000	0.00	0.00	40.24	3.34
3763	33993	1.250154	TGGGGTACAACTCGGGTACG	61.250	60.000	0.00	0.00	41.53	3.67
3774	34004	3.593794	GGGTACGAGAGCGGCGAT	61.594	66.667	12.98	2.76	43.17	4.58
3775	34005	2.256591	GGGTACGAGAGCGGCGATA	61.257	63.158	12.98	0.00	43.17	2.92
3776	34006	1.207085	GGTACGAGAGCGGCGATAG	59.793	63.158	12.98	1.42	43.17	2.08

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
193	477	1.065126	GGAACAGCTTGCCCTGTAGAT	60.065	52.381	2.71	0.00	44.86	1.98
213	497	3.441572	TCTCGAAAGTTCCCCGTAAGTAG	59.558	47.826	0.00	0.00	0.00	2.57
219	503	1.335145	TTCTCTCGAAAGTTCCCCGT	58.665	50.000	0.00	0.00	0.00	5.28
221	505	5.938710	ACTTATTTTCTCTCGAAAGTTCCCC	59.061	40.000	0.00	0.00	40.04	4.81
510	868	4.881157	AGGGCCCTATCACACTAAAAAT	57.119	40.909	27.42	0.00	0.00	1.82
531	892	2.743126	CCCCGTGCGAAACTACAAAATA	59.257	45.455	0.00	0.00	0.00	1.40
582	945	1.298413	CGGAGCTACACGTCGGATG	60.298	63.158	0.00	0.00	0.00	3.51
583	946	3.108343	CGGAGCTACACGTCGGAT	58.892	61.111	0.00	0.00	0.00	4.18
596	959	1.135431	GGATCAGATCATCTCGCGGAG	60.135	57.143	12.66	2.33	0.00	4.63
597	960	0.884514	GGATCAGATCATCTCGCGGA	59.115	55.000	12.66	2.40	0.00	5.54
598	961	0.455802	CGGATCAGATCATCTCGCGG	60.456	60.000	12.66	0.00	0.00	6.46
599	962	1.069924	GCGGATCAGATCATCTCGCG	61.070	60.000	12.66	0.00	34.79	5.87
600	963	1.069924	CGCGGATCAGATCATCTCGC	61.070	60.000	17.21	17.21	38.26	5.03
601	964	1.069924	GCGCGGATCAGATCATCTCG	61.070	60.000	8.83	7.48	0.00	4.04
602	965	1.069924	CGCGCGGATCAGATCATCTC	61.070	60.000	24.84	0.00	0.00	2.75
603	966	1.080907	CGCGCGGATCAGATCATCT	60.081	57.895	24.84	0.00	0.00	2.90
604	967	2.091112	CCGCGCGGATCAGATCATC	61.091	63.158	44.86	2.33	37.50	2.92
605	968	2.048784	CCGCGCGGATCAGATCAT	60.049	61.111	44.86	0.00	37.50	2.45
606	969	3.216292	TCCGCGCGGATCAGATCA	61.216	61.111	45.37	23.24	39.76	2.92
628	991	0.251634	TCAACCGTAGATGCATGCCA	59.748	50.000	16.68	3.52	0.00	4.92
664	1027	2.435234	AGAGCGAGCGAGAGTCGT	60.435	61.111	0.00	0.00	42.81	4.34
665	1028	2.089433	GAGAGAGCGAGCGAGAGTCG	62.089	65.000	0.00	0.00	43.89	4.18
732	1095	7.109805	GTGCTTAAATAACTAATAAAGTCGCGC	59.890	37.037	0.00	0.00	37.50	6.86
774	1139	0.249073	ATGCTGAGATCGTGCGTACC	60.249	55.000	0.00	0.00	0.00	3.34
838	1203	2.093658	AGTTGATGCGTAAAGATCCCGT	60.094	45.455	0.00	0.00	0.00	5.28
846	1211	7.518161	CAATTCTAGTCAAGTTGATGCGTAAA	58.482	34.615	9.18	0.47	0.00	2.01
948	1313	1.003051	ACGGGGTAGGAGGCAGATT	59.997	57.895	0.00	0.00	0.00	2.40
1035	8579	1.888436	CTTACCGCTGGAGGCACTGA	61.888	60.000	1.50	0.00	41.55	3.41
1216	15411	2.202716	CACTCTGCGCGCTCATCT	60.203	61.111	33.29	7.88	0.00	2.90
1350	15545	4.765856	AGAGCTTCTTGCATTCAGAATTGT	59.234	37.500	0.00	0.00	45.94	2.71
1483	15678	2.353889	CCATGCTTTGATTCGAGACAGG	59.646	50.000	0.00	0.00	0.00	4.00
1635	23061	4.041691	TGGGAAGAGTTCGAGGAAGAAAAT	59.958	41.667	0.00	0.00	0.00	1.82
1641	23067	2.171840	CTCTGGGAAGAGTTCGAGGAA	58.828	52.381	0.00	0.00	0.00	3.36
1817	23246	7.225538	CACCAAAGTATCTTCGATGCTCTAAAT	59.774	37.037	0.00	0.00	0.00	1.40
1845	23274	5.461737	CCACAAAATTTTGCACGTGTCTTAT	59.538	36.000	26.94	3.96	41.79	1.73
1846	23275	4.800993	CCACAAAATTTTGCACGTGTCTTA	59.199	37.500	26.94	1.12	41.79	2.10
1882	23311	4.333913	TTTATTTGCCAAAAGCTGCTCA	57.666	36.364	1.00	0.00	44.23	4.26
2089	28675	6.505039	AACACAAAATAGCGCACTTTTTAC	57.495	33.333	11.47	0.00	0.00	2.01
2164	28755	1.644786	AAATGCTCGGGTACGCAAGC	61.645	55.000	15.46	15.46	39.89	4.01
2245	28836	5.789710	ACTGTAAATATGTACGTTGGTGC	57.210	39.130	0.00	0.00	0.00	5.01
2281	28872	1.442769	TTCGACATTCAAGCAGCTCC	58.557	50.000	0.00	0.00	0.00	4.70
2333	28924	8.958119	AATTTTACAGCACCGAAGATAATCTA	57.042	30.769	0.00	0.00	0.00	1.98
2403	29007	3.328382	TTTAGTCCGGGATGAACAGTG	57.672	47.619	0.00	0.00	0.00	3.66
2904	29514	7.132863	GCCATAACTTACCAATTCGATTCTTC	58.867	38.462	0.00	0.00	0.00	2.87
2907	32059	6.371809	TGCCATAACTTACCAATTCGATTC	57.628	37.500	0.00	0.00	0.00	2.52
2932	32084	5.618236	TCATTGCTCCTCCTCTTCATATTG	58.382	41.667	0.00	0.00	0.00	1.90
2942	32094	1.493871	CCCATCTTCATTGCTCCTCCT	59.506	52.381	0.00	0.00	0.00	3.69
2943	32095	1.978454	CCCATCTTCATTGCTCCTCC	58.022	55.000	0.00	0.00	0.00	4.30
2944	32096	1.133853	AGCCCATCTTCATTGCTCCTC	60.134	52.381	0.00	0.00	0.00	3.71
3042	32197	7.430992	ACTGTTATTTTAAGAAAGGGACGTC	57.569	36.000	7.13	7.13	0.00	4.34
3060	32216	6.978338	AGAAGACTATCACGACAAACTGTTA	58.022	36.000	0.00	0.00	0.00	2.41
3263	32436	3.225798	GCCTGCTGCACCAACCAA	61.226	61.111	0.00	0.00	40.77	3.67
3320	32493	1.216678	TCAGTTTTTGAAGGGCCCTGA	59.783	47.619	29.50	13.24	31.34	3.86
3638	33830	4.117685	GTCCAGTGTAGACTTTTCACGTT	58.882	43.478	0.00	0.00	37.20	3.99
3757	33987	2.185103	CTATCGCCGCTCTCGTACCC	62.185	65.000	0.00	0.00	0.00	3.69
3759	33989	4.822503	CTATCGCCGCTCTCGTAC	57.177	61.111	0.00	0.00	0.00	3.67

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.