AutoCloner

Multiple sequence alignment - TraesCS5B01G385100

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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	TraesCS5B01G385100	chr5B	100.000	2252	0	0	1	2252	564477554	564479805	0.000000e+00	4159
1	TraesCS5B01G385100	chr5B	90.951	1315	108	9	836	2147	564438318	564439624	0.000000e+00	1759
2	TraesCS5B01G385100	chr5B	90.722	1315	111	9	836	2147	564376165	564377471	0.000000e+00	1742
3	TraesCS5B01G385100	chr5B	90.140	1288	114	11	862	2147	564025617	564026893	0.000000e+00	1663
4	TraesCS5B01G385100	chr5B	90.730	1165	98	8	836	1998	564445076	564446232	0.000000e+00	1544
5	TraesCS5B01G385100	chr5B	89.552	871	74	10	840	1702	564211358	564212219	0.000000e+00	1088
6	TraesCS5B01G385100	chr5B	84.237	977	130	11	1	956	564509234	564510207	0.000000e+00	929
7	TraesCS5B01G385100	chr5B	88.245	638	72	3	1	636	564548765	564549401	0.000000e+00	760
8	TraesCS5B01G385100	chr5B	91.386	534	40	4	986	1519	564179414	564179941	0.000000e+00	726
9	TraesCS5B01G385100	chr5B	90.090	555	53	2	1	554	564185081	564185634	0.000000e+00	719
10	TraesCS5B01G385100	chr5B	87.607	468	56	2	2	468	564068330	564068796	1.970000e-150	542
11	TraesCS5B01G385100	chr5B	90.773	401	35	2	1	399	564456786	564457186	3.290000e-148	534
12	TraesCS5B01G385100	chr5B	90.370	405	37	2	1	403	564218208	564218612	4.260000e-147	531
13	TraesCS5B01G385100	chr5B	84.050	558	69	7	419	956	564457178	564457735	9.220000e-144	520
14	TraesCS5B01G385100	chr5B	80.964	415	56	10	562	956	564185863	564186274	7.810000e-80	307
15	TraesCS5B01G385100	chr5B	97.321	112	3	0	2141	2252	592738588	592738477	8.210000e-45	191
16	TraesCS5B01G385100	chr5D	90.851	2175	151	19	1	2147	459758308	459760462	0.000000e+00	2870
17	TraesCS5B01G385100	chr5D	92.031	2033	133	9	138	2145	459750318	459752346	0.000000e+00	2830
18	TraesCS5B01G385100	chr5D	90.591	2030	143	19	146	2147	459762914	459764923	0.000000e+00	2647
19	TraesCS5B01G385100	chr5D	85.981	856	87	8	637	1472	459742120	459742962	0.000000e+00	885
20	TraesCS5B01G385100	chr5A	89.831	1957	149	22	232	2147	579844294	579842347	0.000000e+00	2466
21	TraesCS5B01G385100	chr5A	91.547	698	50	7	1455	2147	579849488	579848795	0.000000e+00	953
22	TraesCS5B01G385100	chr5A	88.155	439	31	7	734	1152	579849935	579849498	9.280000e-139	503
23	TraesCS5B01G385100	chr5A	89.846	325	30	3	1824	2147	579917848	579918170	4.470000e-112	414
24	TraesCS5B01G385100	chr5A	89.231	325	33	2	1824	2147	579868559	579868882	2.690000e-109	405
25	TraesCS5B01G385100	chr5A	95.102	245	12	0	1	245	579845444	579845200	9.760000e-104	387
26	TraesCS5B01G385100	chr5A	82.622	328	54	3	467	793	579194908	579194583	1.020000e-73	287
27	TraesCS5B01G385100	chr5A	96.460	113	4	0	2140	2252	359981481	359981593	1.060000e-43	187
28	TraesCS5B01G385100	chrUn	93.056	144	10	0	1	144	318098035	318097892	6.300000e-51	211
29	TraesCS5B01G385100	chr3B	97.297	111	3	0	2142	2252	281122698	281122588	2.950000e-44	189
30	TraesCS5B01G385100	chr3A	95.726	117	4	1	2136	2252	44742705	44742820	1.060000e-43	187
31	TraesCS5B01G385100	chr1B	96.460	113	4	0	2140	2252	654648643	654648531	1.060000e-43	187
32	TraesCS5B01G385100	chr1B	94.872	117	6	0	2136	2252	107512923	107513039	1.370000e-42	183
33	TraesCS5B01G385100	chr1A	96.460	113	4	0	2140	2252	514666622	514666734	1.060000e-43	187
34	TraesCS5B01G385100	chr6A	94.215	121	6	1	2133	2252	169890743	169890863	1.370000e-42	183
35	TraesCS5B01G385100	chr6A	92.913	127	6	3	2129	2252	472007836	472007962	4.940000e-42	182

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	TraesCS5B01G385100	chr5B	564477554	564479805	2251	False	4159.00	4159	100.00000	1	2252	1	chr5B.!!$F9	2251
1	TraesCS5B01G385100	chr5B	564438318	564439624	1306	False	1759.00	1759	90.95100	836	2147	1	chr5B.!!$F7	1311
2	TraesCS5B01G385100	chr5B	564376165	564377471	1306	False	1742.00	1742	90.72200	836	2147	1	chr5B.!!$F6	1311
3	TraesCS5B01G385100	chr5B	564025617	564026893	1276	False	1663.00	1663	90.14000	862	2147	1	chr5B.!!$F1	1285
4	TraesCS5B01G385100	chr5B	564445076	564446232	1156	False	1544.00	1544	90.73000	836	1998	1	chr5B.!!$F8	1162
5	TraesCS5B01G385100	chr5B	564211358	564212219	861	False	1088.00	1088	89.55200	840	1702	1	chr5B.!!$F4	862
6	TraesCS5B01G385100	chr5B	564509234	564510207	973	False	929.00	929	84.23700	1	956	1	chr5B.!!$F10	955
7	TraesCS5B01G385100	chr5B	564548765	564549401	636	False	760.00	760	88.24500	1	636	1	chr5B.!!$F11	635
8	TraesCS5B01G385100	chr5B	564179414	564179941	527	False	726.00	726	91.38600	986	1519	1	chr5B.!!$F3	533
9	TraesCS5B01G385100	chr5B	564456786	564457735	949	False	527.00	534	87.41150	1	956	2	chr5B.!!$F13	955
10	TraesCS5B01G385100	chr5B	564185081	564186274	1193	False	513.00	719	85.52700	1	956	2	chr5B.!!$F12	955
11	TraesCS5B01G385100	chr5D	459750318	459752346	2028	False	2830.00	2830	92.03100	138	2145	1	chr5D.!!$F2	2007
12	TraesCS5B01G385100	chr5D	459758308	459764923	6615	False	2758.50	2870	90.72100	1	2147	2	chr5D.!!$F3	2146
13	TraesCS5B01G385100	chr5D	459742120	459742962	842	False	885.00	885	85.98100	637	1472	1	chr5D.!!$F1	835
14	TraesCS5B01G385100	chr5A	579842347	579849935	7588	True	1077.25	2466	91.15875	1	2147	4	chr5A.!!$R2	2146

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
93	4585	0.757188	CTGGCCTATGGACCTCGTCT	60.757	60.0	3.32	0.0	32.47	4.18	F
1146	6812	0.461961	AGCTGAACGAGTATCCCTGC	59.538	55.0	0.00	0.0	0.00	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1181	11314	0.529337	CAGGCAACGCTCGATCTCAT	60.529	55.0	0.0	0.0	46.39	2.90	R
2208	12357	0.178990	GTCAGGGGTGCTTGGAACTT	60.179	55.0	0.0	0.0	0.00	2.66	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
93	4585	0.757188	CTGGCCTATGGACCTCGTCT	60.757	60.000	3.32	0.00	32.47	4.18
100	4592	2.125633	GGACCTCGTCTTTCGGCC	60.126	66.667	0.00	0.00	40.32	6.13
163	4656	1.665916	CCGGCTCGTCATGGCATAG	60.666	63.158	0.00	0.00	0.00	2.23
170	4663	2.560105	CTCGTCATGGCATAGGATCTCA	59.440	50.000	0.00	0.00	0.00	3.27
294	5713	1.358152	CCTTGTAGAACCTGTCCCCA	58.642	55.000	0.00	0.00	0.00	4.96
396	5816	4.722700	CTGACAAGGCCACGGGGG	62.723	72.222	5.47	0.00	40.85	5.40
417	5837	1.065551	GTTGTTTCTGTTGCTCCGCTT	59.934	47.619	0.00	0.00	0.00	4.68
524	5944	2.755469	GGCGTGTGCATCCCCATT	60.755	61.111	0.00	0.00	45.35	3.16
547	5967	2.261361	CGACGACATCAGGTGCCA	59.739	61.111	0.00	0.00	0.00	4.92
571	6212	1.940883	ATGATTTGTGCAGCCGCCAG	61.941	55.000	0.00	0.00	37.32	4.85
597	6238	2.276740	CCCCATCTTCTGGTGCCC	59.723	66.667	0.00	0.00	44.30	5.36
616	6257	4.124910	CGTGGTCGCTGCCATAAT	57.875	55.556	0.00	0.00	41.08	1.28
670	6311	4.701663	CATGGAGTGCTGGACGTT	57.298	55.556	0.00	0.00	0.00	3.99
722	6364	2.105821	CACCCAAGACCTGACTTACCAA	59.894	50.000	0.00	0.00	0.00	3.67
723	6365	2.986728	ACCCAAGACCTGACTTACCAAT	59.013	45.455	0.00	0.00	0.00	3.16
915	6581	1.202463	AGATTCATCTCGCCGTTGAGG	60.202	52.381	1.82	0.00	36.13	3.86
1014	6680	3.479203	CAGATGGCCGGGCAGGTA	61.479	66.667	35.19	13.05	43.70	3.08
1020	6686	2.669240	GCCGGGCAGGTACTCTTT	59.331	61.111	15.62	0.00	43.70	2.52
1052	6718	1.078143	GCTCCAAGGCCTTCGACAT	60.078	57.895	17.29	0.00	0.00	3.06
1103	6769	1.021390	TTCCTCGACGACGTCTACCC	61.021	60.000	24.36	0.00	40.69	3.69
1130	6796	2.746359	GCACAGTGTCCTCCAGCT	59.254	61.111	1.61	0.00	0.00	4.24
1146	6812	0.461961	AGCTGAACGAGTATCCCTGC	59.538	55.000	0.00	0.00	0.00	4.85
1152	6818	2.920645	CGAGTATCCCTGCGCCGAT	61.921	63.158	4.18	5.92	0.00	4.18
1177	11310	1.806623	GCGGATGGCGTTACTCAATCT	60.807	52.381	0.00	0.00	0.00	2.40
1181	11314	3.531538	GATGGCGTTACTCAATCTCCAA	58.468	45.455	0.00	0.00	0.00	3.53
1218	11352	3.061905	GCCATGGTCTCCCCCTTCC	62.062	68.421	14.67	0.00	0.00	3.46
1357	11499	4.766375	TCCTCGTCAGTGTTTCTTTTCTT	58.234	39.130	0.00	0.00	0.00	2.52
1380	11522	9.179909	TCTTTTGTACTCTTTGATTTGGTTGTA	57.820	29.630	0.00	0.00	0.00	2.41
1406	11548	9.131791	AGTTGTAATATGTGAACCTGAAAGTTT	57.868	29.630	0.00	0.00	0.00	2.66
1444	11586	7.174080	TGCTGTATGTGTGCTAAATTTGAAGTA	59.826	33.333	0.00	0.00	0.00	2.24
1448	11590	9.490663	GTATGTGTGCTAAATTTGAAGTATGTC	57.509	33.333	0.00	0.00	0.00	3.06
1522	11664	7.790782	AACAAATTATTCCAGGTAACATGGT	57.209	32.000	0.00	0.00	39.01	3.55
1535	11677	7.327975	CAGGTAACATGGTTACTTGTATCAGA	58.672	38.462	17.93	0.00	34.27	3.27
1537	11679	7.038587	AGGTAACATGGTTACTTGTATCAGACA	60.039	37.037	16.22	0.00	34.27	3.41
1550	11692	6.801539	TGTATCAGACATTCAAACAAGGAC	57.198	37.500	0.00	0.00	31.20	3.85
1561	11705	3.317711	TCAAACAAGGACACGCAATCATT	59.682	39.130	0.00	0.00	0.00	2.57
1586	11730	2.881074	CTAGCGGCGCATATAGTTGAT	58.119	47.619	35.02	11.60	0.00	2.57
1616	11760	0.318529	CCTGACTCGAGATCGCATGG	60.319	60.000	21.68	7.15	39.60	3.66
1937	12086	4.291540	TGTTAACTGCACTTTTCTGCTG	57.708	40.909	7.22	0.00	40.82	4.41
1940	12089	3.971032	AACTGCACTTTTCTGCTGTAC	57.029	42.857	4.41	0.00	45.51	2.90
1948	12097	3.118038	ACTTTTCTGCTGTACAAGGGTCA	60.118	43.478	0.00	0.00	0.00	4.02
2045	12194	8.633075	TTGTTTCTGCAGCTATTAATAAATGC	57.367	30.769	9.47	18.28	0.00	3.56
2149	12298	7.996098	TCATTTTAAGGTTGAACTAAGAGGG	57.004	36.000	0.00	0.00	0.00	4.30
2150	12299	7.523415	TCATTTTAAGGTTGAACTAAGAGGGT	58.477	34.615	0.00	0.00	0.00	4.34
2151	12300	7.447238	TCATTTTAAGGTTGAACTAAGAGGGTG	59.553	37.037	0.00	0.00	0.00	4.61
2152	12301	2.861147	AGGTTGAACTAAGAGGGTGC	57.139	50.000	0.00	0.00	0.00	5.01
2153	12302	2.339769	AGGTTGAACTAAGAGGGTGCT	58.660	47.619	0.00	0.00	0.00	4.40
2154	12303	2.711547	AGGTTGAACTAAGAGGGTGCTT	59.288	45.455	0.00	0.00	0.00	3.91
2155	12304	2.814336	GGTTGAACTAAGAGGGTGCTTG	59.186	50.000	0.00	0.00	0.00	4.01
2156	12305	2.814336	GTTGAACTAAGAGGGTGCTTGG	59.186	50.000	0.00	0.00	33.18	3.61
2157	12306	2.334977	TGAACTAAGAGGGTGCTTGGA	58.665	47.619	0.00	0.00	31.62	3.53
2158	12307	2.912956	TGAACTAAGAGGGTGCTTGGAT	59.087	45.455	0.00	0.00	31.62	3.41
2159	12308	3.055094	TGAACTAAGAGGGTGCTTGGATC	60.055	47.826	0.00	0.00	31.74	3.36
2160	12309	1.840635	ACTAAGAGGGTGCTTGGATCC	59.159	52.381	4.20	4.20	31.62	3.36
2161	12310	1.839994	CTAAGAGGGTGCTTGGATCCA	59.160	52.381	11.44	11.44	0.00	3.41
2162	12311	1.075601	AAGAGGGTGCTTGGATCCAA	58.924	50.000	25.53	25.53	0.00	3.53
2205	12354	8.251721	TGACTAAAAATAGTCTCTGTTAGAGGC	58.748	37.037	14.94	2.32	46.94	4.70
2214	12363	5.412640	GTCTCTGTTAGAGGCTAAAGTTCC	58.587	45.833	3.32	0.00	43.38	3.62
2215	12364	5.047235	GTCTCTGTTAGAGGCTAAAGTTCCA	60.047	44.000	3.32	0.00	43.38	3.53
2216	12365	5.542635	TCTCTGTTAGAGGCTAAAGTTCCAA	59.457	40.000	6.05	0.00	42.54	3.53
2217	12366	5.794894	TCTGTTAGAGGCTAAAGTTCCAAG	58.205	41.667	0.00	0.00	0.00	3.61
2218	12367	4.324267	TGTTAGAGGCTAAAGTTCCAAGC	58.676	43.478	0.00	0.00	35.47	4.01
2219	12368	4.202419	TGTTAGAGGCTAAAGTTCCAAGCA	60.202	41.667	0.00	0.00	38.01	3.91
2220	12369	2.784347	AGAGGCTAAAGTTCCAAGCAC	58.216	47.619	0.00	2.09	38.01	4.40
2221	12370	1.813178	GAGGCTAAAGTTCCAAGCACC	59.187	52.381	0.00	0.00	38.01	5.01
2222	12371	0.888619	GGCTAAAGTTCCAAGCACCC	59.111	55.000	7.02	0.00	38.01	4.61
2223	12372	0.888619	GCTAAAGTTCCAAGCACCCC	59.111	55.000	0.00	0.00	36.26	4.95
2224	12373	1.547901	GCTAAAGTTCCAAGCACCCCT	60.548	52.381	0.00	0.00	36.26	4.79
2225	12374	2.162681	CTAAAGTTCCAAGCACCCCTG	58.837	52.381	0.00	0.00	0.00	4.45
2226	12375	0.555769	AAAGTTCCAAGCACCCCTGA	59.444	50.000	0.00	0.00	0.00	3.86
2227	12376	0.178990	AAGTTCCAAGCACCCCTGAC	60.179	55.000	0.00	0.00	0.00	3.51
2228	12377	1.062488	AGTTCCAAGCACCCCTGACT	61.062	55.000	0.00	0.00	0.00	3.41
2229	12378	0.690762	GTTCCAAGCACCCCTGACTA	59.309	55.000	0.00	0.00	0.00	2.59
2230	12379	1.073284	GTTCCAAGCACCCCTGACTAA	59.927	52.381	0.00	0.00	0.00	2.24
2231	12380	1.440618	TCCAAGCACCCCTGACTAAA	58.559	50.000	0.00	0.00	0.00	1.85
2232	12381	1.351017	TCCAAGCACCCCTGACTAAAG	59.649	52.381	0.00	0.00	0.00	1.85
2233	12382	1.351017	CCAAGCACCCCTGACTAAAGA	59.649	52.381	0.00	0.00	0.00	2.52
2234	12383	2.616510	CCAAGCACCCCTGACTAAAGAG	60.617	54.545	0.00	0.00	0.00	2.85
2235	12384	2.303022	CAAGCACCCCTGACTAAAGAGA	59.697	50.000	0.00	0.00	0.00	3.10
2236	12385	2.183679	AGCACCCCTGACTAAAGAGAG	58.816	52.381	0.00	0.00	0.00	3.20
2237	12386	1.208293	GCACCCCTGACTAAAGAGAGG	59.792	57.143	0.00	0.00	0.00	3.69
2238	12387	1.208293	CACCCCTGACTAAAGAGAGGC	59.792	57.143	0.00	0.00	0.00	4.70
2239	12388	1.079658	ACCCCTGACTAAAGAGAGGCT	59.920	52.381	0.00	0.00	0.00	4.58
2240	12389	2.315155	ACCCCTGACTAAAGAGAGGCTA	59.685	50.000	0.00	0.00	0.00	3.93
2241	12390	2.962421	CCCCTGACTAAAGAGAGGCTAG	59.038	54.545	0.00	0.00	0.00	3.42
2242	12391	2.962421	CCCTGACTAAAGAGAGGCTAGG	59.038	54.545	0.00	0.00	0.00	3.02
2243	12392	3.373220	CCCTGACTAAAGAGAGGCTAGGA	60.373	52.174	0.00	0.00	29.08	2.94
2244	12393	3.634910	CCTGACTAAAGAGAGGCTAGGAC	59.365	52.174	0.00	0.00	29.08	3.85
2245	12394	4.532834	CTGACTAAAGAGAGGCTAGGACT	58.467	47.826	0.00	0.00	0.00	3.85
2246	12395	5.398126	CCTGACTAAAGAGAGGCTAGGACTA	60.398	48.000	0.00	0.00	29.08	2.59
2247	12396	5.686753	TGACTAAAGAGAGGCTAGGACTAG	58.313	45.833	1.98	1.98	36.29	2.57
2248	12397	5.192121	TGACTAAAGAGAGGCTAGGACTAGT	59.808	44.000	0.00	0.00	35.65	2.57
2249	12398	5.687780	ACTAAAGAGAGGCTAGGACTAGTC	58.312	45.833	14.87	14.87	38.03	2.59

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
51	4543	0.798776	GTGCTCCGGTGAATGAGTTG	59.201	55.000	7.92	0.00	0.00	3.16
93	4585	2.359107	CTGAGCTGCAGGCCGAAA	60.359	61.111	17.12	0.00	43.05	3.46
170	4663	0.692419	ATCTCGGTGGAGGCTGGATT	60.692	55.000	0.00	0.00	40.85	3.01
280	5699	1.198759	GGCAGTGGGGACAGGTTCTA	61.199	60.000	0.00	0.00	44.46	2.10
294	5713	1.302285	CTTGAGGAGCCATGGCAGT	59.698	57.895	37.18	21.50	44.88	4.40
396	5816	3.845625	CGGAGCAACAGAAACAACC	57.154	52.632	0.00	0.00	0.00	3.77
524	5944	1.471287	CACCTGATGTCGTCGGAGTTA	59.529	52.381	2.15	0.00	35.02	2.24
547	5967	1.133598	CGGCTGCACAAATCATCATGT	59.866	47.619	0.50	0.00	0.00	3.21
571	6212	1.749258	GAAGATGGGGCAACGGACC	60.749	63.158	0.00	0.00	43.93	4.46
616	6257	2.419297	GCCATGTTTGTTTGGTTGGACA	60.419	45.455	0.00	0.00	35.34	4.02
722	6364	1.837090	GGCCCAGAACCATCCGTAT	59.163	57.895	0.00	0.00	0.00	3.06
723	6365	2.727392	CGGCCCAGAACCATCCGTA	61.727	63.158	0.00	0.00	35.75	4.02
823	6489	0.458543	ACGATCGATCTGTGTGCCAC	60.459	55.000	24.34	0.00	34.56	5.01
984	6650	1.878522	CATCTGGTAGACGCGCCAC	60.879	63.158	5.73	0.51	0.00	5.01
1014	6680	4.699522	GCCCGGCCGTCAAAGAGT	62.700	66.667	26.12	0.00	0.00	3.24
1076	6742	1.595003	CGTCGTCGAGGAAGTAGATGC	60.595	57.143	9.78	0.00	39.71	3.91
1103	6769	2.666190	CACTGTGCGGACCACCAG	60.666	66.667	4.04	0.00	44.01	4.00
1130	6796	1.141019	GCGCAGGGATACTCGTTCA	59.859	57.895	0.30	0.00	0.00	3.18
1161	11294	3.627395	TTGGAGATTGAGTAACGCCAT	57.373	42.857	0.00	0.00	33.99	4.40
1177	11310	1.926561	CAACGCTCGATCTCATTGGA	58.073	50.000	0.00	0.00	0.00	3.53
1181	11314	0.529337	CAGGCAACGCTCGATCTCAT	60.529	55.000	0.00	0.00	46.39	2.90
1333	11475	3.821421	AAAGAAACACTGACGAGGAGT	57.179	42.857	0.00	0.00	0.00	3.85
1357	11499	8.514330	ACTACAACCAAATCAAAGAGTACAAA	57.486	30.769	0.00	0.00	0.00	2.83
1380	11522	8.691661	AACTTTCAGGTTCACATATTACAACT	57.308	30.769	0.00	0.00	0.00	3.16
1406	11548	5.585844	CACACATACAGCAAACTGGATATGA	59.414	40.000	3.64	0.00	46.38	2.15
1448	11590	9.650539	ATCCATATAGATGAAATGAGTTCGAAG	57.349	33.333	0.00	0.00	39.30	3.79
1522	11664	8.783093	CCTTGTTTGAATGTCTGATACAAGTAA	58.217	33.333	0.00	0.00	42.70	2.24
1535	11677	2.020720	TGCGTGTCCTTGTTTGAATGT	58.979	42.857	0.00	0.00	0.00	2.71
1537	11679	3.317711	TGATTGCGTGTCCTTGTTTGAAT	59.682	39.130	0.00	0.00	0.00	2.57
1550	11692	3.283256	CGCTAGCTAAAATGATTGCGTG	58.717	45.455	13.93	0.00	41.07	5.34
1561	11705	2.230508	ACTATATGCGCCGCTAGCTAAA	59.769	45.455	11.67	0.00	40.39	1.85
1683	11831	3.065019	ACACACACGCTTGCTAAAAAG	57.935	42.857	0.00	0.00	0.00	2.27
1937	12086	6.874288	AGAGTATACGTATGACCCTTGTAC	57.126	41.667	18.37	4.89	0.00	2.90
1940	12089	8.794553	AGAATAAGAGTATACGTATGACCCTTG	58.205	37.037	18.37	0.00	0.00	3.61
1984	12133	6.153680	TGGACCATTGTTTAACTGAAAAGTGT	59.846	34.615	0.00	0.00	0.00	3.55
2000	12149	8.776376	AAACAATTAGCTTATTTGGACCATTG	57.224	30.769	0.00	0.00	0.00	2.82
2128	12277	5.533528	GCACCCTCTTAGTTCAACCTTAAAA	59.466	40.000	0.00	0.00	0.00	1.52
2137	12286	2.334977	TCCAAGCACCCTCTTAGTTCA	58.665	47.619	0.00	0.00	0.00	3.18
2179	12328	8.251721	GCCTCTAACAGAGACTATTTTTAGTCA	58.748	37.037	13.86	0.00	45.07	3.41
2180	12329	8.471609	AGCCTCTAACAGAGACTATTTTTAGTC	58.528	37.037	4.74	5.24	45.07	2.59
2181	12330	8.368962	AGCCTCTAACAGAGACTATTTTTAGT	57.631	34.615	4.74	0.00	45.07	2.24
2184	12333	9.660180	CTTTAGCCTCTAACAGAGACTATTTTT	57.340	33.333	4.74	0.00	45.07	1.94
2185	12334	8.817876	ACTTTAGCCTCTAACAGAGACTATTTT	58.182	33.333	4.74	0.00	45.07	1.82
2186	12335	8.368962	ACTTTAGCCTCTAACAGAGACTATTT	57.631	34.615	4.74	0.00	45.07	1.40
2187	12336	7.964666	ACTTTAGCCTCTAACAGAGACTATT	57.035	36.000	4.74	0.00	45.07	1.73
2188	12337	7.068962	GGAACTTTAGCCTCTAACAGAGACTAT	59.931	40.741	4.74	0.00	45.07	2.12
2189	12338	6.377712	GGAACTTTAGCCTCTAACAGAGACTA	59.622	42.308	4.74	0.17	45.07	2.59
2190	12339	5.186215	GGAACTTTAGCCTCTAACAGAGACT	59.814	44.000	4.74	1.15	45.07	3.24
2191	12340	5.047235	TGGAACTTTAGCCTCTAACAGAGAC	60.047	44.000	4.74	0.00	45.07	3.36
2192	12341	5.084519	TGGAACTTTAGCCTCTAACAGAGA	58.915	41.667	4.74	0.00	45.07	3.10
2193	12342	5.407407	TGGAACTTTAGCCTCTAACAGAG	57.593	43.478	0.00	0.00	41.96	3.35
2194	12343	5.794894	CTTGGAACTTTAGCCTCTAACAGA	58.205	41.667	0.00	0.00	0.00	3.41
2195	12344	4.393371	GCTTGGAACTTTAGCCTCTAACAG	59.607	45.833	0.00	0.00	0.00	3.16
2196	12345	4.202419	TGCTTGGAACTTTAGCCTCTAACA	60.202	41.667	0.00	0.00	34.03	2.41
2197	12346	4.154375	GTGCTTGGAACTTTAGCCTCTAAC	59.846	45.833	0.00	0.00	34.03	2.34
2198	12347	4.324267	GTGCTTGGAACTTTAGCCTCTAA	58.676	43.478	0.00	0.00	34.03	2.10
2199	12348	3.307480	GGTGCTTGGAACTTTAGCCTCTA	60.307	47.826	0.00	0.00	34.03	2.43
2200	12349	2.553247	GGTGCTTGGAACTTTAGCCTCT	60.553	50.000	0.00	0.00	34.03	3.69
2201	12350	1.813178	GGTGCTTGGAACTTTAGCCTC	59.187	52.381	0.00	0.00	34.03	4.70
2202	12351	1.547901	GGGTGCTTGGAACTTTAGCCT	60.548	52.381	0.00	0.00	34.03	4.58
2203	12352	0.888619	GGGTGCTTGGAACTTTAGCC	59.111	55.000	0.00	0.00	34.03	3.93
2204	12353	0.888619	GGGGTGCTTGGAACTTTAGC	59.111	55.000	0.00	0.00	35.50	3.09
2205	12354	2.162681	CAGGGGTGCTTGGAACTTTAG	58.837	52.381	0.00	0.00	0.00	1.85
2206	12355	1.777878	TCAGGGGTGCTTGGAACTTTA	59.222	47.619	0.00	0.00	0.00	1.85
2207	12356	0.555769	TCAGGGGTGCTTGGAACTTT	59.444	50.000	0.00	0.00	0.00	2.66
2208	12357	0.178990	GTCAGGGGTGCTTGGAACTT	60.179	55.000	0.00	0.00	0.00	2.66
2209	12358	1.062488	AGTCAGGGGTGCTTGGAACT	61.062	55.000	0.00	0.00	0.00	3.01
2210	12359	0.690762	TAGTCAGGGGTGCTTGGAAC	59.309	55.000	0.00	0.00	0.00	3.62
2211	12360	1.440618	TTAGTCAGGGGTGCTTGGAA	58.559	50.000	0.00	0.00	0.00	3.53
2212	12361	1.351017	CTTTAGTCAGGGGTGCTTGGA	59.649	52.381	0.00	0.00	0.00	3.53
2213	12362	1.351017	TCTTTAGTCAGGGGTGCTTGG	59.649	52.381	0.00	0.00	0.00	3.61
2214	12363	2.303022	TCTCTTTAGTCAGGGGTGCTTG	59.697	50.000	0.00	0.00	0.00	4.01
2215	12364	2.569404	CTCTCTTTAGTCAGGGGTGCTT	59.431	50.000	0.00	0.00	0.00	3.91
2216	12365	2.183679	CTCTCTTTAGTCAGGGGTGCT	58.816	52.381	0.00	0.00	0.00	4.40
2217	12366	1.208293	CCTCTCTTTAGTCAGGGGTGC	59.792	57.143	0.00	0.00	0.00	5.01
2218	12367	1.208293	GCCTCTCTTTAGTCAGGGGTG	59.792	57.143	0.00	0.00	0.00	4.61
2219	12368	1.079658	AGCCTCTCTTTAGTCAGGGGT	59.920	52.381	0.00	0.00	0.00	4.95
2220	12369	1.872773	AGCCTCTCTTTAGTCAGGGG	58.127	55.000	0.00	0.00	0.00	4.79
2221	12370	2.962421	CCTAGCCTCTCTTTAGTCAGGG	59.038	54.545	0.00	0.00	0.00	4.45
2222	12371	3.634910	GTCCTAGCCTCTCTTTAGTCAGG	59.365	52.174	0.00	0.00	0.00	3.86
2223	12372	4.532834	AGTCCTAGCCTCTCTTTAGTCAG	58.467	47.826	0.00	0.00	0.00	3.51
2224	12373	4.594675	AGTCCTAGCCTCTCTTTAGTCA	57.405	45.455	0.00	0.00	0.00	3.41
2225	12374	5.687780	ACTAGTCCTAGCCTCTCTTTAGTC	58.312	45.833	1.22	0.00	36.66	2.59
2226	12375	5.430745	AGACTAGTCCTAGCCTCTCTTTAGT	59.569	44.000	19.38	0.00	36.66	2.24
2227	12376	5.937111	AGACTAGTCCTAGCCTCTCTTTAG	58.063	45.833	19.38	0.00	36.66	1.85
2228	12377	5.979656	AGACTAGTCCTAGCCTCTCTTTA	57.020	43.478	19.38	0.00	36.66	1.85
2229	12378	4.873724	AGACTAGTCCTAGCCTCTCTTT	57.126	45.455	19.38	0.00	36.66	2.52
2230	12379	4.873724	AAGACTAGTCCTAGCCTCTCTT	57.126	45.455	19.38	0.17	36.66	2.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.