AutoCloner

Multiple sequence alignment - TraesCS4B01G141100

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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	TraesCS4B01G141100	chr4B	100.000	3890	0	0	1	3890	185870567	185866678	0.000000e+00	7184.0
1	TraesCS4B01G141100	chr4B	88.825	349	28	4	3282	3628	628068277	628068616	6.010000e-113	418.0
2	TraesCS4B01G141100	chr4B	97.129	209	6	0	2572	2780	131369587	131369795	1.720000e-93	353.0
3	TraesCS4B01G141100	chr4B	84.932	219	23	5	3674	3890	628068620	628068830	3.040000e-51	213.0
4	TraesCS4B01G141100	chr4B	93.284	134	6	2	2915	3046	628068131	628068263	1.100000e-45	195.0
5	TraesCS4B01G141100	chr4A	94.595	3423	107	25	62	3450	448102453	448105831	0.000000e+00	5225.0
6	TraesCS4B01G141100	chr4A	95.749	447	13	2	3448	3888	448105934	448106380	0.000000e+00	715.0
7	TraesCS4B01G141100	chr4A	86.207	87	12	0	1090	1176	447777162	447777248	1.150000e-15	95.3
8	TraesCS4B01G141100	chr4A	87.500	56	7	0	1385	1440	579372438	579372383	9.020000e-07	65.8
9	TraesCS4B01G141100	chr4D	96.361	2913	69	7	559	3450	122259948	122257052	0.000000e+00	4758.0
10	TraesCS4B01G141100	chr4D	93.638	503	17	5	61	548	122265019	122264517	0.000000e+00	737.0
11	TraesCS4B01G141100	chr4D	96.614	443	15	0	3448	3890	122256891	122256449	0.000000e+00	736.0
12	TraesCS4B01G141100	chr4D	86.795	621	50	15	3282	3890	489728245	489728845	0.000000e+00	664.0
13	TraesCS4B01G141100	chr4D	86.504	615	60	11	3282	3890	489733521	489734118	0.000000e+00	654.0
14	TraesCS4B01G141100	chr4D	92.254	142	8	2	2897	3036	489733351	489733491	8.530000e-47	198.0
15	TraesCS4B01G141100	chr4D	90.909	143	9	3	2897	3036	489728074	489728215	5.130000e-44	189.0
16	TraesCS4B01G141100	chr5A	87.928	613	50	10	3282	3890	671182916	671183508	0.000000e+00	701.0
17	TraesCS4B01G141100	chr5A	86.495	622	51	16	3282	3890	671176906	671177507	0.000000e+00	652.0
18	TraesCS4B01G141100	chr5A	89.677	155	10	3	2897	3046	671176739	671176892	3.970000e-45	193.0
19	TraesCS4B01G141100	chr5A	89.655	145	9	3	2897	3036	671182741	671182884	3.090000e-41	180.0
20	TraesCS4B01G141100	chr3B	91.935	62	3	2	6	66	675650713	675650653	6.920000e-13	86.1
21	TraesCS4B01G141100	chr7D	87.500	56	7	0	1385	1440	88363052	88362997	9.020000e-07	65.8
22	TraesCS4B01G141100	chr7D	87.500	56	7	0	1385	1440	126506747	126506692	9.020000e-07	65.8
23	TraesCS4B01G141100	chr7B	87.500	56	7	0	1385	1440	87173728	87173673	9.020000e-07	65.8
24	TraesCS4B01G141100	chr7B	87.500	56	7	0	1385	1440	88245925	88245980	9.020000e-07	65.8
25	TraesCS4B01G141100	chr7B	100.000	29	0	0	38	66	392666489	392666517	2.000000e-03	54.7
26	TraesCS4B01G141100	chr7A	87.500	56	7	0	1385	1440	127607954	127608009	9.020000e-07	65.8
27	TraesCS4B01G141100	chr7A	90.000	50	3	2	20	68	692909083	692909131	3.240000e-06	63.9
28	TraesCS4B01G141100	chr5D	87.500	56	7	0	1385	1440	457998906	457998851	9.020000e-07	65.8
29	TraesCS4B01G141100	chr5D	100.000	30	0	0	38	67	255561944	255561915	5.430000e-04	56.5
30	TraesCS4B01G141100	chr1D	89.362	47	1	2	24	66	47886093	47886139	5.430000e-04	56.5
31	TraesCS4B01G141100	chr6B	100.000	29	0	0	38	66	716493990	716494018	2.000000e-03	54.7
32	TraesCS4B01G141100	chr5B	89.130	46	1	2	24	65	584248295	584248340	2.000000e-03	54.7
33	TraesCS4B01G141100	chr3A	89.130	46	1	2	24	65	467775310	467775265	2.000000e-03	54.7
34	TraesCS4B01G141100	chr6A	100.000	28	0	0	38	65	62134710	62134737	7.000000e-03	52.8

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	TraesCS4B01G141100	chr4B	185866678	185870567	3889	True	7184.000000	7184	100.000000	1	3890	1	chr4B.!!$R1	3889
1	TraesCS4B01G141100	chr4B	628068131	628068830	699	False	275.333333	418	89.013667	2915	3890	3	chr4B.!!$F2	975
2	TraesCS4B01G141100	chr4A	448102453	448106380	3927	False	2970.000000	5225	95.172000	62	3888	2	chr4A.!!$F2	3826
3	TraesCS4B01G141100	chr4D	122256449	122259948	3499	True	2747.000000	4758	96.487500	559	3890	2	chr4D.!!$R2	3331
4	TraesCS4B01G141100	chr4D	122264517	122265019	502	True	737.000000	737	93.638000	61	548	1	chr4D.!!$R1	487
5	TraesCS4B01G141100	chr4D	489728074	489728845	771	False	426.500000	664	88.852000	2897	3890	2	chr4D.!!$F1	993
6	TraesCS4B01G141100	chr4D	489733351	489734118	767	False	426.000000	654	89.379000	2897	3890	2	chr4D.!!$F2	993
7	TraesCS4B01G141100	chr5A	671182741	671183508	767	False	440.500000	701	88.791500	2897	3890	2	chr5A.!!$F2	993
8	TraesCS4B01G141100	chr5A	671176739	671177507	768	False	422.500000	652	88.086000	2897	3890	2	chr5A.!!$F1	993

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
58	59	0.108186	TAGCACGGCTGTTGGAGATG	60.108	55.0	40.10	2.90	F
550	568	0.846693	ACTTCTCCCTTGTGGTTGCT	59.153	50.0	34.77	3.91	F
1227	1257	0.320697	ACTTACTGTCCGGTGAAGGC	59.679	55.0	0.00	4.35	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1227	1257	1.493950	GCATCTTCTCCATGTCGCCG	61.494	60.0	0.00	0.00	0.00	6.46	R
2157	2205	0.833287	CAATCCCGGTGATCCTCACT	59.167	55.0	0.00	0.00	46.19	3.41	R
2937	2996	0.320247	GGGATGCCTCAGCTGTATCG	60.320	60.0	14.67	0.72	40.80	2.92	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	3.011583	GCGCGCGCTAATAGGTTT	58.988	55.556	44.38	0.00	38.26	3.27
23	24	1.350665	GCGCGCGCTAATAGGTTTT	59.649	52.632	44.38	0.00	38.26	2.43
24	25	0.247934	GCGCGCGCTAATAGGTTTTT	60.248	50.000	44.38	0.00	38.26	1.94
46	47	4.505217	CGCAGCGCTTTAGCACGG	62.505	66.667	7.50	0.00	42.21	4.94
47	48	4.818835	GCAGCGCTTTAGCACGGC	62.819	66.667	7.50	0.55	42.21	5.68
48	49	3.121030	CAGCGCTTTAGCACGGCT	61.121	61.111	7.50	3.87	43.41	5.52
49	50	3.121030	AGCGCTTTAGCACGGCTG	61.121	61.111	2.64	0.00	40.10	4.85
50	51	3.423154	GCGCTTTAGCACGGCTGT	61.423	61.111	0.00	0.00	40.10	4.40
51	52	2.966309	GCGCTTTAGCACGGCTGTT	61.966	57.895	0.00	0.00	40.10	3.16
52	53	1.154413	CGCTTTAGCACGGCTGTTG	60.154	57.895	0.00	0.00	40.10	3.33
53	54	1.210155	GCTTTAGCACGGCTGTTGG	59.790	57.895	0.00	0.00	40.10	3.77
54	55	1.234615	GCTTTAGCACGGCTGTTGGA	61.235	55.000	0.00	0.00	40.10	3.53
55	56	0.798776	CTTTAGCACGGCTGTTGGAG	59.201	55.000	0.00	0.00	40.10	3.86
56	57	0.394938	TTTAGCACGGCTGTTGGAGA	59.605	50.000	0.00	0.00	40.10	3.71
57	58	0.613260	TTAGCACGGCTGTTGGAGAT	59.387	50.000	0.00	0.00	40.10	2.75
58	59	0.108186	TAGCACGGCTGTTGGAGATG	60.108	55.000	0.00	0.00	40.10	2.90
59	60	3.044059	GCACGGCTGTTGGAGATGC	62.044	63.158	0.00	0.00	0.00	3.91
258	266	6.018262	GTGTTATATTCGTATTGCTTGCCTGA	60.018	38.462	0.00	0.00	0.00	3.86
298	315	9.851686	TCTATGCTTTAATATTTCAGGTCACAT	57.148	29.630	0.00	0.00	0.00	3.21
331	348	5.319140	TGAGCGTTATGTTTACTAGCAGA	57.681	39.130	0.00	0.00	0.00	4.26
335	352	7.977293	TGAGCGTTATGTTTACTAGCAGATTTA	59.023	33.333	0.00	0.00	0.00	1.40
374	391	3.758554	GTGTGCAGTGAATGGGATAAACT	59.241	43.478	0.00	0.00	0.00	2.66
380	397	2.099756	GTGAATGGGATAAACTGCAGGC	59.900	50.000	19.93	1.49	0.00	4.85
400	417	2.354805	GCCTGAAGGTACCGAATGACTT	60.355	50.000	6.18	0.00	37.57	3.01
456	473	8.680903	AGATTAAACAAAATACTGGCTCATGAG	58.319	33.333	18.84	18.84	0.00	2.90
548	566	5.178797	CAGTATACTTCTCCCTTGTGGTTG	58.821	45.833	1.56	0.00	34.77	3.77
549	567	2.561478	TACTTCTCCCTTGTGGTTGC	57.439	50.000	0.00	0.00	34.77	4.17
550	568	0.846693	ACTTCTCCCTTGTGGTTGCT	59.153	50.000	0.00	0.00	34.77	3.91
551	569	2.054799	ACTTCTCCCTTGTGGTTGCTA	58.945	47.619	0.00	0.00	34.77	3.49
552	570	2.441750	ACTTCTCCCTTGTGGTTGCTAA	59.558	45.455	0.00	0.00	34.77	3.09
553	571	3.117663	ACTTCTCCCTTGTGGTTGCTAAA	60.118	43.478	0.00	0.00	34.77	1.85
554	572	3.806949	TCTCCCTTGTGGTTGCTAAAT	57.193	42.857	0.00	0.00	34.77	1.40
555	573	4.112634	TCTCCCTTGTGGTTGCTAAATT	57.887	40.909	0.00	0.00	34.77	1.82
615	633	7.562454	CAGTAAGGACTGTTGTTTTTCCTTA	57.438	36.000	5.07	5.07	44.96	2.69
687	715	7.483307	GCTTTCATAATGAAAAGGACATGCTA	58.517	34.615	0.00	0.00	44.69	3.49
719	747	9.226606	TGTGTTCGAGAAAAATAATCAACCTAT	57.773	29.630	0.00	0.00	0.00	2.57
868	897	2.996621	GTCGTTGATTCCAAGTCTCCAG	59.003	50.000	0.00	0.00	32.06	3.86
886	915	1.749258	GGCATGGGAAGAACCGACC	60.749	63.158	0.00	0.00	40.11	4.79
957	986	3.213506	CATCACCAGTTCAGTTCACCAA	58.786	45.455	0.00	0.00	0.00	3.67
961	990	4.133820	CACCAGTTCAGTTCACCAACATA	58.866	43.478	0.00	0.00	34.60	2.29
962	991	4.761739	CACCAGTTCAGTTCACCAACATAT	59.238	41.667	0.00	0.00	34.60	1.78
968	997	5.434182	TCAGTTCACCAACATATCCATCA	57.566	39.130	0.00	0.00	34.60	3.07
1035	1065	2.288518	GCAATCTCCATCCGTCTACCTC	60.289	54.545	0.00	0.00	0.00	3.85
1221	1251	1.270678	GCCAAGAACTTACTGTCCGGT	60.271	52.381	0.00	0.00	0.00	5.28
1227	1257	0.320697	ACTTACTGTCCGGTGAAGGC	59.679	55.000	0.00	0.00	0.00	4.35
1256	1286	2.435437	TGGAGAAGATGCATTCCGATGA	59.565	45.455	0.00	0.00	35.16	2.92
1373	1403	2.485814	GTGATCAGAGCAAACTCAACCC	59.514	50.000	0.00	0.00	46.09	4.11
1381	1411	2.378547	AGCAAACTCAACCCCTCCAATA	59.621	45.455	0.00	0.00	0.00	1.90
1382	1412	2.755103	GCAAACTCAACCCCTCCAATAG	59.245	50.000	0.00	0.00	0.00	1.73
1385	1415	3.491766	ACTCAACCCCTCCAATAGAGA	57.508	47.619	0.00	0.00	46.50	3.10
1485	1515	1.881973	GTCTTCAGCATCAACCAAGCA	59.118	47.619	0.00	0.00	0.00	3.91
1501	1531	4.067192	CCAAGCAAAAGAGATTTTTGGGG	58.933	43.478	12.62	0.00	36.13	4.96
1504	1534	3.324846	AGCAAAAGAGATTTTTGGGGGAC	59.675	43.478	12.62	0.00	39.19	4.46
1506	1536	2.215942	AAGAGATTTTTGGGGGACGG	57.784	50.000	0.00	0.00	0.00	4.79
1508	1538	1.708551	AGAGATTTTTGGGGGACGGAA	59.291	47.619	0.00	0.00	0.00	4.30
1509	1539	2.092323	GAGATTTTTGGGGGACGGAAG	58.908	52.381	0.00	0.00	0.00	3.46
1510	1540	1.182667	GATTTTTGGGGGACGGAAGG	58.817	55.000	0.00	0.00	0.00	3.46
1511	1541	0.902984	ATTTTTGGGGGACGGAAGGC	60.903	55.000	0.00	0.00	39.70	4.35
1523	1571	3.567797	GAAGGCTCGGCGTGATGC	61.568	66.667	13.77	10.34	45.38	3.91
1532	1580	4.166011	GCGTGATGCGGACAAGCC	62.166	66.667	6.27	0.00	41.69	4.35
1830	1878	1.738350	CTGCTGAAACAGATCAGGCAG	59.262	52.381	6.46	9.41	45.60	4.85
1977	2025	4.292306	ACCATGGAGTTCCTCAAAGGTTAT	59.708	41.667	21.47	0.00	36.53	1.89
2190	2238	3.011517	ATTGACCTCCCGCAGCCT	61.012	61.111	0.00	0.00	0.00	4.58
2279	2327	1.440938	TTGCCGTTCAAGTTCCGTGG	61.441	55.000	0.00	0.00	0.00	4.94
2356	2404	1.143684	AGGTGCTTGTGGTGAATGACT	59.856	47.619	0.00	0.00	0.00	3.41
2453	2501	3.790437	CCGGGAGATGCAGCCAGT	61.790	66.667	0.00	0.00	0.00	4.00
2556	2604	1.078709	CGGTGTTCGACATGCTTGAT	58.921	50.000	6.60	0.00	42.43	2.57
2927	2979	7.502226	TGCATAGGAAAGGTTAATGTTATGGAG	59.498	37.037	0.00	0.00	0.00	3.86
3274	3345	6.558771	TCAGTGTCATGTGTAAAAGGATTG	57.441	37.500	0.00	0.00	0.00	2.67
3408	3480	4.762251	GGAGCAGGAAAGAAACATAACTGT	59.238	41.667	0.00	0.00	37.12	3.55
3556	3807	8.367156	ACAACAGCCTGACATTTTAAAACATAT	58.633	29.630	1.97	0.00	0.00	1.78
3754	4007	2.037902	TGGTTCCAATAGACAGCAACGA	59.962	45.455	0.00	0.00	0.00	3.85
3771	4031	1.129998	ACGAACTGTACGATGTCCGAG	59.870	52.381	0.00	0.00	41.76	4.63
3847	4115	7.560991	TCCAAATCCAATATAGTTTCACTGCAT	59.439	33.333	0.00	0.00	0.00	3.96

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
5	6	0.247934	AAAAACCTATTAGCGCGCGC	60.248	50.000	45.10	45.10	42.33	6.86
6	7	3.889780	AAAAACCTATTAGCGCGCG	57.110	47.368	28.44	28.44	0.00	6.86
34	35	1.154413	CAACAGCCGTGCTAAAGCG	60.154	57.895	0.00	0.00	45.83	4.68
35	36	1.210155	CCAACAGCCGTGCTAAAGC	59.790	57.895	0.00	0.00	36.40	3.51
36	37	0.798776	CTCCAACAGCCGTGCTAAAG	59.201	55.000	0.00	0.00	36.40	1.85
37	38	0.394938	TCTCCAACAGCCGTGCTAAA	59.605	50.000	0.00	0.00	36.40	1.85
38	39	0.613260	ATCTCCAACAGCCGTGCTAA	59.387	50.000	0.00	0.00	36.40	3.09
39	40	0.108186	CATCTCCAACAGCCGTGCTA	60.108	55.000	0.00	0.00	36.40	3.49
40	41	1.376424	CATCTCCAACAGCCGTGCT	60.376	57.895	0.00	0.00	40.77	4.40
41	42	3.044059	GCATCTCCAACAGCCGTGC	62.044	63.158	0.00	0.00	0.00	5.34
42	43	1.364626	GAGCATCTCCAACAGCCGTG	61.365	60.000	0.00	0.00	0.00	4.94
43	44	1.078848	GAGCATCTCCAACAGCCGT	60.079	57.895	0.00	0.00	0.00	5.68
44	45	3.805267	GAGCATCTCCAACAGCCG	58.195	61.111	0.00	0.00	0.00	5.52
90	91	5.482006	GCCAGAAGCAAAAGGAATTACAAT	58.518	37.500	0.00	0.00	42.97	2.71
285	294	6.845758	ATCAATGAACATGTGACCTGAAAT	57.154	33.333	0.00	0.00	0.00	2.17
298	315	5.878332	ACATAACGCTCAATCAATGAACA	57.122	34.783	0.00	0.00	37.67	3.18
331	348	3.716872	ACAGGCCCAGTAGCACTATAAAT	59.283	43.478	0.00	0.00	0.00	1.40
335	352	0.833287	CACAGGCCCAGTAGCACTAT	59.167	55.000	0.00	0.00	0.00	2.12
374	391	2.954684	CGGTACCTTCAGGCCTGCA	61.955	63.158	28.91	17.49	39.32	4.41
380	397	3.195825	AGAAGTCATTCGGTACCTTCAGG	59.804	47.826	10.90	0.00	40.58	3.86
456	473	5.287992	GCAGTTTTTAGCATGCTTTCATCTC	59.712	40.000	28.02	10.70	35.78	2.75
629	647	6.410540	AGCAGGAACAACCAAAATTTACAAA	58.589	32.000	0.00	0.00	42.04	2.83
630	648	5.983540	AGCAGGAACAACCAAAATTTACAA	58.016	33.333	0.00	0.00	42.04	2.41
631	649	5.606348	AGCAGGAACAACCAAAATTTACA	57.394	34.783	0.00	0.00	42.04	2.41
632	650	7.602753	AGATAGCAGGAACAACCAAAATTTAC	58.397	34.615	0.00	0.00	42.04	2.01
633	651	7.775053	AGATAGCAGGAACAACCAAAATTTA	57.225	32.000	0.00	0.00	42.04	1.40
634	652	6.670695	AGATAGCAGGAACAACCAAAATTT	57.329	33.333	0.00	0.00	42.04	1.82
635	653	6.458210	CAAGATAGCAGGAACAACCAAAATT	58.542	36.000	0.00	0.00	42.04	1.82
636	654	5.047092	CCAAGATAGCAGGAACAACCAAAAT	60.047	40.000	0.00	0.00	42.04	1.82
637	655	4.280677	CCAAGATAGCAGGAACAACCAAAA	59.719	41.667	0.00	0.00	42.04	2.44
638	656	3.826157	CCAAGATAGCAGGAACAACCAAA	59.174	43.478	0.00	0.00	42.04	3.28
687	715	2.702592	TTTTCTCGAACACACCTGGT	57.297	45.000	0.00	0.00	0.00	4.00
728	756	9.770097	CACACAATAGTATGATTGTCCTAGAAT	57.230	33.333	0.00	0.00	44.89	2.40
729	757	8.977412	TCACACAATAGTATGATTGTCCTAGAA	58.023	33.333	0.00	0.00	44.89	2.10
730	758	8.533569	TCACACAATAGTATGATTGTCCTAGA	57.466	34.615	0.00	0.00	44.89	2.43
731	759	9.201127	CATCACACAATAGTATGATTGTCCTAG	57.799	37.037	0.00	0.00	44.89	3.02
732	760	7.657354	GCATCACACAATAGTATGATTGTCCTA	59.343	37.037	0.00	0.00	44.89	2.94
733	761	6.484643	GCATCACACAATAGTATGATTGTCCT	59.515	38.462	0.00	0.00	44.89	3.85
739	767	4.991056	GTCCGCATCACACAATAGTATGAT	59.009	41.667	0.00	0.00	42.40	2.45
758	786	2.009042	GCTGATCCTCCTGTTTGTCCG	61.009	57.143	0.00	0.00	0.00	4.79
825	853	1.358787	TCCTCCAAATGGACATGGCTT	59.641	47.619	0.00	0.00	39.78	4.35
868	897	1.749258	GGTCGGTTCTTCCCATGCC	60.749	63.158	0.00	0.00	0.00	4.40
942	971	5.003160	TGGATATGTTGGTGAACTGAACTG	58.997	41.667	0.00	0.00	32.79	3.16
957	986	1.132849	TCCTCGGGGTGATGGATATGT	60.133	52.381	0.00	0.00	0.00	2.29
961	990	0.326618	AACTCCTCGGGGTGATGGAT	60.327	55.000	11.10	0.00	0.00	3.41
962	991	1.080354	AACTCCTCGGGGTGATGGA	59.920	57.895	11.10	0.00	0.00	3.41
968	997	3.322466	CCAGCAACTCCTCGGGGT	61.322	66.667	0.00	0.00	0.00	4.95
1016	1046	2.158652	TCGAGGTAGACGGATGGAGATT	60.159	50.000	0.00	0.00	0.00	2.40
1064	1094	4.394712	GCACCAGGTCCCCGACAG	62.395	72.222	0.00	0.00	33.68	3.51
1221	1251	3.664025	CTCCATGTCGCCGCCTTCA	62.664	63.158	0.00	0.00	0.00	3.02
1227	1257	1.493950	GCATCTTCTCCATGTCGCCG	61.494	60.000	0.00	0.00	0.00	6.46
1256	1286	2.615493	CCACGAATACCCTGCAAAGACT	60.615	50.000	0.00	0.00	0.00	3.24
1373	1403	5.923204	AGTTAAGCATGTCTCTATTGGAGG	58.077	41.667	0.00	0.00	42.10	4.30
1474	1504	6.484308	CCAAAAATCTCTTTTGCTTGGTTGAT	59.516	34.615	4.75	0.00	37.89	2.57
1477	1507	5.125356	CCCAAAAATCTCTTTTGCTTGGTT	58.875	37.500	4.75	0.00	35.04	3.67
1485	1515	2.897326	CCGTCCCCCAAAAATCTCTTTT	59.103	45.455	0.00	0.00	36.11	2.27
1504	1534	4.514577	ATCACGCCGAGCCTTCCG	62.515	66.667	0.00	0.00	0.00	4.30
1506	1536	3.567797	GCATCACGCCGAGCCTTC	61.568	66.667	0.00	0.00	32.94	3.46
1511	1541	4.794439	TGTCCGCATCACGCCGAG	62.794	66.667	0.00	0.00	41.76	4.63
1514	1562	4.166011	GCTTGTCCGCATCACGCC	62.166	66.667	0.00	0.00	41.76	5.68
1532	1580	3.612247	CTGCCCACCACTTCCTCCG	62.612	68.421	0.00	0.00	0.00	4.63
1638	1686	2.041922	TCCTCCATGGTCTCCCCG	60.042	66.667	12.58	0.00	37.07	5.73
1800	1848	1.603171	TTTCAGCAGATTGCCCGCA	60.603	52.632	0.00	0.00	46.52	5.69
2153	2201	1.264749	CCCGGTGATCCTCACTTCCA	61.265	60.000	0.00	0.00	46.19	3.53
2157	2205	0.833287	CAATCCCGGTGATCCTCACT	59.167	55.000	0.00	0.00	46.19	3.41
2276	2324	2.511600	ACTTAGCCGCGATGCCAC	60.512	61.111	8.23	0.00	0.00	5.01
2279	2327	3.272334	CCCACTTAGCCGCGATGC	61.272	66.667	8.23	2.58	0.00	3.91
2289	2337	2.029623	GCACGGATAGTCTCCCACTTA	58.970	52.381	0.00	0.00	41.49	2.24
2356	2404	6.047870	CCATCAAGGTGTTGAAATTGAACAA	58.952	36.000	0.00	0.00	45.88	2.83
2453	2501	3.130164	CACAACACCTTGGATGAACACAA	59.870	43.478	0.00	0.00	0.00	3.33
2556	2604	1.130678	TATCTGGTGGTGTGGTGGCA	61.131	55.000	0.00	0.00	0.00	4.92
2927	2979	5.346281	GCCTCAGCTGTATCGTATACAAATC	59.654	44.000	14.67	0.00	35.50	2.17
2931	2983	3.219281	TGCCTCAGCTGTATCGTATACA	58.781	45.455	14.67	7.27	40.80	2.29
2937	2996	0.320247	GGGATGCCTCAGCTGTATCG	60.320	60.000	14.67	0.72	40.80	2.92
3274	3345	6.538381	TCCTTTTTCTTTGAACAATTTCCAGC	59.462	34.615	0.00	0.00	0.00	4.85
3408	3480	7.116075	AGATGCATGTAACCTTTAACCATGTA	58.884	34.615	2.46	0.00	36.23	2.29
3556	3807	9.208022	CAGTCAACTTTCTTGTAGACATCAATA	57.792	33.333	0.00	0.00	0.00	1.90
3619	3870	2.768253	ATCCATCTTGTTGTCGCAGA	57.232	45.000	0.00	0.00	0.00	4.26
3754	4007	1.201647	CACCTCGGACATCGTACAGTT	59.798	52.381	0.00	0.00	40.32	3.16
3771	4031	0.675633	ATGTGAAGCCAACAAGCACC	59.324	50.000	0.00	0.00	34.23	5.01
3847	4115	2.434702	AGTGCATGCTGATCTCTGATGA	59.565	45.455	20.33	0.00	0.00	2.92

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.