AutoCloner

Multiple sequence alignment - TraesCS7A01G162700

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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	TraesCS7A01G162700	chr7A	100.000	2707	0	0	1	2707	118577503	118580209	0.000000e+00	5000
1	TraesCS7A01G162700	chr7D	91.342	1744	107	22	490	2215	113720702	113722419	0.000000e+00	2344
2	TraesCS7A01G162700	chr7D	84.917	1200	121	37	721	1894	113718435	113719600	0.000000e+00	1158
3	TraesCS7A01G162700	chr7D	82.547	1335	144	36	549	1844	113714265	113715549	0.000000e+00	1092
4	TraesCS7A01G162700	chr7D	90.701	699	46	8	1521	2215	114130411	114131094	0.000000e+00	913
5	TraesCS7A01G162700	chr7D	93.360	497	28	2	2212	2707	63995386	63995878	0.000000e+00	730
6	TraesCS7A01G162700	chr7D	89.737	380	26	6	322	693	113718061	113718435	8.770000e-130	473
7	TraesCS7A01G162700	chr7B	89.343	1689	107	36	194	1843	73334032	73335686	0.000000e+00	2054
8	TraesCS7A01G162700	chr7B	82.759	1479	149	40	549	1998	73233183	73234584	0.000000e+00	1221
9	TraesCS7A01G162700	chr7B	84.318	1269	133	31	859	2108	73311190	73312411	0.000000e+00	1181
10	TraesCS7A01G162700	chr7B	88.211	984	91	10	1008	1980	73289370	73290339	0.000000e+00	1151
11	TraesCS7A01G162700	chr7B	86.957	828	54	12	3	783	73288392	73289212	0.000000e+00	881
12	TraesCS7A01G162700	chr7B	81.400	957	121	31	544	1478	73328763	73329684	0.000000e+00	728
13	TraesCS7A01G162700	chr7B	88.693	283	15	5	1905	2186	73337960	73338226	2.010000e-86	329
14	TraesCS7A01G162700	chr7B	88.800	250	27	1	1	250	73333780	73334028	3.390000e-79	305
15	TraesCS7A01G162700	chr7B	80.723	249	30	15	549	786	73216211	73216452	7.700000e-41	178
16	TraesCS7A01G162700	chr7B	85.057	174	18	6	802	970	73289201	73289371	1.290000e-38	171
17	TraesCS7A01G162700	chr7B	79.518	249	34	14	549	786	73310917	73311159	7.760000e-36	161
18	TraesCS7A01G162700	chr7B	85.714	161	12	3	2017	2175	73290341	73290492	2.790000e-35	159
19	TraesCS7A01G162700	chr6D	84.307	1147	113	31	1059	2200	440913834	440914918	0.000000e+00	1059
20	TraesCS7A01G162700	chr6D	93.186	499	27	6	2216	2707	28981283	28980785	0.000000e+00	726
21	TraesCS7A01G162700	chr4A	82.597	1109	129	30	826	1883	141124413	141125508	0.000000e+00	920
22	TraesCS7A01G162700	chrUn	86.883	831	55	12	3	786	347437721	347436898	0.000000e+00	881
23	TraesCS7A01G162700	chrUn	87.298	496	50	8	1488	1980	84785547	84786032	3.050000e-154	555
24	TraesCS7A01G162700	chrUn	85.057	174	18	6	802	970	347436912	347436742	1.290000e-38	171
25	TraesCS7A01G162700	chrUn	85.714	161	12	3	2017	2175	84786034	84786185	2.790000e-35	159
26	TraesCS7A01G162700	chr1B	82.724	984	116	24	891	1833	135960403	135961373	0.000000e+00	826
27	TraesCS7A01G162700	chr2A	94.534	494	23	3	2216	2707	677958469	677957978	0.000000e+00	760
28	TraesCS7A01G162700	chr4D	94.024	502	25	5	2210	2706	50776928	50777429	0.000000e+00	756
29	TraesCS7A01G162700	chr5D	93.775	498	30	1	2211	2707	539819774	539819277	0.000000e+00	747
30	TraesCS7A01G162700	chr5D	93.347	496	33	0	2212	2707	44511939	44512434	0.000000e+00	734
31	TraesCS7A01G162700	chr5D	93.561	497	25	7	2216	2707	84221155	84220661	0.000000e+00	734
32	TraesCS7A01G162700	chr3D	93.763	497	24	5	2216	2707	527509677	527510171	0.000000e+00	739
33	TraesCS7A01G162700	chr2D	93.159	497	27	6	2215	2706	645082454	645081960	0.000000e+00	723

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	TraesCS7A01G162700	chr7A	118577503	118580209	2706	False	5000.00	5000	100.000000	1	2707	1	chr7A.!!$F1	2706
1	TraesCS7A01G162700	chr7D	113714265	113722419	8154	False	1266.75	2344	87.135750	322	2215	4	chr7D.!!$F3	1893
2	TraesCS7A01G162700	chr7D	114130411	114131094	683	False	913.00	913	90.701000	1521	2215	1	chr7D.!!$F2	694
3	TraesCS7A01G162700	chr7B	73233183	73234584	1401	False	1221.00	1221	82.759000	549	1998	1	chr7B.!!$F2	1449
4	TraesCS7A01G162700	chr7B	73333780	73338226	4446	False	896.00	2054	88.945333	1	2186	3	chr7B.!!$F6	2185
5	TraesCS7A01G162700	chr7B	73328763	73329684	921	False	728.00	728	81.400000	544	1478	1	chr7B.!!$F3	934
6	TraesCS7A01G162700	chr7B	73310917	73312411	1494	False	671.00	1181	81.918000	549	2108	2	chr7B.!!$F5	1559
7	TraesCS7A01G162700	chr7B	73288392	73290492	2100	False	590.50	1151	86.484750	3	2175	4	chr7B.!!$F4	2172
8	TraesCS7A01G162700	chr6D	440913834	440914918	1084	False	1059.00	1059	84.307000	1059	2200	1	chr6D.!!$F1	1141
9	TraesCS7A01G162700	chr4A	141124413	141125508	1095	False	920.00	920	82.597000	826	1883	1	chr4A.!!$F1	1057
10	TraesCS7A01G162700	chrUn	347436742	347437721	979	True	526.00	881	85.970000	3	970	2	chrUn.!!$R1	967
11	TraesCS7A01G162700	chrUn	84785547	84786185	638	False	357.00	555	86.506000	1488	2175	2	chrUn.!!$F1	687
12	TraesCS7A01G162700	chr1B	135960403	135961373	970	False	826.00	826	82.724000	891	1833	1	chr1B.!!$F1	942
13	TraesCS7A01G162700	chr4D	50776928	50777429	501	False	756.00	756	94.024000	2210	2706	1	chr4D.!!$F1	496

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
991	7642	0.252193	AGGGCTCACTTCTGCTCTCT	60.252	55.0	0.0	0.0	34.5	3.1	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2558	11521	0.392193	CCACAGCTAGCTTCCCACTG	60.392	60.0	16.46	5.33	0.0	3.66	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
22	23	3.162858	AACGGTTGGGGTGGACGA	61.163	61.111	0.00	0.00	0.00	4.20
45	46	0.982852	AAGGGCGAGTGATGGATCCA	60.983	55.000	18.88	18.88	0.00	3.41
88	89	2.757099	GCTGGGTGGAATGGCAGG	60.757	66.667	0.00	0.00	0.00	4.85
92	93	2.313427	GGGTGGAATGGCAGGGGTA	61.313	63.158	0.00	0.00	0.00	3.69
149	154	1.076350	TGGTTCCGATGGATTTGGGTT	59.924	47.619	0.00	0.00	0.00	4.11
219	224	5.221322	GGTCTTGAGAATTATGGCCCAAATC	60.221	44.000	0.00	0.00	0.00	2.17
236	301	0.264955	ATCAGGGGTCCACGTCCTAT	59.735	55.000	0.00	0.00	0.00	2.57
250	315	4.214545	CACGTCCTATAAGTGCCAAAACAA	59.785	41.667	0.00	0.00	30.73	2.83
262	331	3.896888	TGCCAAAACAATCAAGTCCAGAT	59.103	39.130	0.00	0.00	0.00	2.90
282	351	1.937191	ATTTGGGGCCGAAATGAAGT	58.063	45.000	23.50	2.05	0.00	3.01
435	515	7.850982	CGTGCCTAAGTGCTATACAAATAAAAG	59.149	37.037	0.00	0.00	0.00	2.27
512	614	8.862325	TTGTACATGGTCAAAGATGATAAAGT	57.138	30.769	0.00	0.00	38.01	2.66
527	629	9.730705	AGATGATAAAGTGTGATATACAATGGG	57.269	33.333	0.00	0.00	41.89	4.00
593	7191	4.457810	CGGCGAGCAAAATATGATTACAG	58.542	43.478	0.00	0.00	0.00	2.74
655	7276	6.268797	CGTGTAATGATACATGTACACACC	57.731	41.667	21.21	11.64	44.19	4.16
694	7315	3.458118	TGGGTAACACAGCTGGCTAATAT	59.542	43.478	19.93	0.00	39.74	1.28
788	7418	7.004555	TCTCCTAACTAAAGATTGACAAGCA	57.995	36.000	6.17	0.00	0.00	3.91
824	7454	3.559238	AAAGATTGACAAAAGCGCGAT	57.441	38.095	12.10	0.00	0.00	4.58
827	7457	2.349886	AGATTGACAAAAGCGCGATCTC	59.650	45.455	12.10	0.00	28.93	2.75
857	7488	4.202151	CCAGCAATGATAAAAGGTTAGCCC	60.202	45.833	0.00	0.00	34.57	5.19
881	7517	1.257055	ACGGTGCCATCCAATTTGGG	61.257	55.000	15.37	0.90	38.32	4.12
885	7521	2.615240	GGTGCCATCCAATTTGGGAAAC	60.615	50.000	15.37	7.20	41.12	2.78
900	7548	0.673985	GAAACCTCTTTGGCGCCTTT	59.326	50.000	29.70	17.64	40.22	3.11
914	7565	1.002087	CGCCTTTACCAGTCTCCACTT	59.998	52.381	0.00	0.00	0.00	3.16
928	7579	0.546598	CCACTTACCAGACCCATCCC	59.453	60.000	0.00	0.00	0.00	3.85
930	7581	0.421904	ACTTACCAGACCCATCCCCT	59.578	55.000	0.00	0.00	0.00	4.79
933	7584	2.194951	TACCAGACCCATCCCCTGCT	62.195	60.000	0.00	0.00	0.00	4.24
934	7585	2.311854	CCAGACCCATCCCCTGCTT	61.312	63.158	0.00	0.00	0.00	3.91
951	7602	1.547901	GCTTAAGCTTCACCAACCCCT	60.548	52.381	20.38	0.00	38.21	4.79
958	7609	0.260230	TTCACCAACCCCTGCTTTCA	59.740	50.000	0.00	0.00	0.00	2.69
991	7642	0.252193	AGGGCTCACTTCTGCTCTCT	60.252	55.000	0.00	0.00	34.50	3.10
1056	7731	3.578716	ACATCACTTGCACTGGTACTAGT	59.421	43.478	5.98	5.98	0.00	2.57
1221	7896	0.767060	ACCCCGTTGAAGGAGAAGGT	60.767	55.000	0.00	0.00	0.00	3.50
1407	8089	3.731136	GCGAGTGCAAGTCAACCA	58.269	55.556	0.00	0.00	42.15	3.67
1451	8133	0.953471	CGGAAATTGAGACGGCCACA	60.953	55.000	2.24	0.00	0.00	4.17
1473	8155	1.296392	CACATCAAGGTGGAGCCGA	59.704	57.895	0.00	0.00	43.70	5.54
1636	8319	4.196193	CCGGATGCCTACAACTAAATCAA	58.804	43.478	0.00	0.00	0.00	2.57
1699	8396	1.021202	TTGTGTGCTTTCTTCCCGTG	58.979	50.000	0.00	0.00	0.00	4.94
1740	8437	0.976641	CCAGCCTCCAAGTACTGACA	59.023	55.000	0.00	0.00	31.67	3.58
1932	10880	3.963129	TCGAATTGGAAGTTTATGGGCT	58.037	40.909	0.00	0.00	0.00	5.19
1935	10883	4.339247	CGAATTGGAAGTTTATGGGCTGAT	59.661	41.667	0.00	0.00	0.00	2.90
1947	10896	7.716998	AGTTTATGGGCTGATAAGTCTTATGTG	59.283	37.037	9.90	3.93	0.00	3.21
1998	10948	6.991531	GCTCTTTTCAGATATGGAAGAGACAT	59.008	38.462	25.31	0.00	43.66	3.06
1999	10949	7.041916	GCTCTTTTCAGATATGGAAGAGACATG	60.042	40.741	25.31	10.18	43.66	3.21
2000	10950	7.278135	TCTTTTCAGATATGGAAGAGACATGG	58.722	38.462	0.00	0.00	32.49	3.66
2001	10951	6.813293	TTTCAGATATGGAAGAGACATGGA	57.187	37.500	0.00	0.00	0.00	3.41
2002	10952	6.813293	TTCAGATATGGAAGAGACATGGAA	57.187	37.500	0.00	0.00	0.00	3.53
2003	10953	6.416631	TCAGATATGGAAGAGACATGGAAG	57.583	41.667	0.00	0.00	0.00	3.46
2004	10954	6.138967	TCAGATATGGAAGAGACATGGAAGA	58.861	40.000	0.00	0.00	0.00	2.87
2005	10955	6.786461	TCAGATATGGAAGAGACATGGAAGAT	59.214	38.462	0.00	0.00	0.00	2.40
2006	10956	7.952368	TCAGATATGGAAGAGACATGGAAGATA	59.048	37.037	0.00	0.00	0.00	1.98
2007	10957	8.760735	CAGATATGGAAGAGACATGGAAGATAT	58.239	37.037	0.00	0.00	0.00	1.63
2021	10971	4.102524	TGGAAGATATAGCCCGTTGAATGT	59.897	41.667	0.00	0.00	0.00	2.71
2022	10972	5.305902	TGGAAGATATAGCCCGTTGAATGTA	59.694	40.000	0.00	0.00	0.00	2.29
2130	11093	6.214191	TGTTAATGTTTCAACTTCCAAGCA	57.786	33.333	0.00	0.00	0.00	3.91
2160	11123	3.042481	GCCAAGGCTCAGGTTTCTT	57.958	52.632	3.29	0.00	38.26	2.52
2203	11166	7.624549	AGAGATTGGCAAAACATAACTCTCTA	58.375	34.615	18.96	0.00	36.19	2.43
2235	11198	8.616799	TTTATGGGTTAATTATCCTTTTGCCT	57.383	30.769	11.51	0.00	0.00	4.75
2262	11225	4.578928	GTGGTGTCCATGTACTCAGTTTTT	59.421	41.667	0.00	0.00	35.28	1.94
2331	11294	1.001597	GACTCGTTCCGTGAACTCTGT	60.002	52.381	12.80	9.18	40.05	3.41
2349	11312	0.386985	GTCGTCTCCGTCAGGTCAAC	60.387	60.000	0.00	0.00	39.05	3.18
2364	11327	0.472471	TCAACCTTTTGACTCGGCCT	59.528	50.000	0.00	0.00	36.79	5.19
2379	11342	1.765074	GCCTTTACAGGTGGGACCA	59.235	57.895	0.00	0.00	41.95	4.02
2392	11355	3.695606	GACCAGGCGGCAGAGACA	61.696	66.667	13.08	0.00	34.57	3.41
2393	11356	3.240134	GACCAGGCGGCAGAGACAA	62.240	63.158	13.08	0.00	34.57	3.18
2400	11363	0.598065	GCGGCAGAGACAACCAATTT	59.402	50.000	0.00	0.00	0.00	1.82
2455	11418	3.097461	GCAGAGAGCCATTGAGCAT	57.903	52.632	0.00	0.00	37.23	3.79
2483	11446	3.830744	TTGCGGGTGTGCTATATAAGT	57.169	42.857	0.00	0.00	35.36	2.24
2488	11451	2.105821	GGGTGTGCTATATAAGTGGGCA	59.894	50.000	0.00	0.00	0.00	5.36
2492	11455	4.638421	GTGTGCTATATAAGTGGGCAACAA	59.362	41.667	0.00	0.00	34.65	2.83
2553	11516	1.221414	GCGAGAGAGAGAGAGAGAGC	58.779	60.000	0.00	0.00	0.00	4.09
2554	11517	1.473257	GCGAGAGAGAGAGAGAGAGCA	60.473	57.143	0.00	0.00	0.00	4.26
2555	11518	2.205074	CGAGAGAGAGAGAGAGAGCAC	58.795	57.143	0.00	0.00	0.00	4.40
2556	11519	2.418609	CGAGAGAGAGAGAGAGAGCACA	60.419	54.545	0.00	0.00	0.00	4.57
2557	11520	3.201290	GAGAGAGAGAGAGAGAGCACAG	58.799	54.545	0.00	0.00	0.00	3.66
2558	11521	1.672881	GAGAGAGAGAGAGAGCACAGC	59.327	57.143	0.00	0.00	0.00	4.40
2559	11522	1.004628	AGAGAGAGAGAGAGCACAGCA	59.995	52.381	0.00	0.00	0.00	4.41
2583	11550	1.903877	GAAGCTAGCTGTGGAGGGCA	61.904	60.000	20.16	0.00	0.00	5.36
2639	11607	1.913262	TCTTCCTCAAGCTCCCGCA	60.913	57.895	0.00	0.00	39.10	5.69
2646	11614	3.570212	AAGCTCCCGCACCACCTT	61.570	61.111	0.00	0.00	39.10	3.50

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
22	23	1.496060	TCCATCACTCGCCCTTGTAT	58.504	50.000	0.00	0.00	0.00	2.29
55	56	1.687146	AGCCGCCTCTCCATCAAGA	60.687	57.895	0.00	0.00	0.00	3.02
81	82	0.552848	CCTTGATGTACCCCTGCCAT	59.447	55.000	0.00	0.00	0.00	4.40
88	89	1.340017	TGCTCAAGCCTTGATGTACCC	60.340	52.381	7.75	0.00	39.30	3.69
92	93	1.339438	ACGATGCTCAAGCCTTGATGT	60.339	47.619	7.75	0.00	39.30	3.06
141	146	0.542702	CAGCCTGGACCAACCCAAAT	60.543	55.000	0.00	0.00	35.47	2.32
175	180	0.249363	GATAAGTTCGGGCGTCCTCC	60.249	60.000	3.66	0.00	0.00	4.30
204	209	2.693210	CCCCTGATTTGGGCCATAATT	58.307	47.619	7.26	0.00	45.78	1.40
219	224	1.687123	CTTATAGGACGTGGACCCCTG	59.313	57.143	0.00	0.00	0.00	4.45
236	301	4.646945	TGGACTTGATTGTTTTGGCACTTA	59.353	37.500	0.00	0.00	0.00	2.24
250	315	3.437052	GGCCCCAAATATCTGGACTTGAT	60.437	47.826	0.00	0.00	38.96	2.57
262	331	3.094484	ACTTCATTTCGGCCCCAAATA	57.906	42.857	6.94	0.00	0.00	1.40
282	351	1.453745	GGGCATCTCCAATGCGGAA	60.454	57.895	4.11	0.00	45.75	4.30
407	485	3.880047	TGTATAGCACTTAGGCACGTT	57.120	42.857	0.00	0.00	35.83	3.99
451	531	4.067896	GAGAGATGCCTGTGAAAGTGAAA	58.932	43.478	0.00	0.00	0.00	2.69
456	537	5.668471	TGATTAGAGAGATGCCTGTGAAAG	58.332	41.667	0.00	0.00	0.00	2.62
512	614	6.788598	AATGCAAACCCATTGTATATCACA	57.211	33.333	0.00	0.00	42.63	3.58
541	643	4.200874	TGGGAAACACACGTTATTGTTCT	58.799	39.130	7.27	0.34	34.82	3.01
542	644	4.533222	CTGGGAAACACACGTTATTGTTC	58.467	43.478	7.27	0.00	34.82	3.18
547	649	1.877443	GTGCTGGGAAACACACGTTAT	59.123	47.619	0.00	0.00	36.77	1.89
593	7191	3.667087	TGCTGGGTTGCATTCGTC	58.333	55.556	0.00	0.00	38.12	4.20
653	7274	3.055240	CCCATTAACAAATGCATGTGGGT	60.055	43.478	20.95	10.72	31.41	4.51
655	7276	4.205065	ACCCATTAACAAATGCATGTGG	57.795	40.909	20.95	6.97	32.81	4.17
680	7301	6.019748	AGTAGGTGATATATTAGCCAGCTGT	58.980	40.000	13.81	0.00	37.82	4.40
694	7315	8.534954	AATTGTTCTAGTGCTAGTAGGTGATA	57.465	34.615	6.18	0.00	34.84	2.15
824	7454	1.942776	TCATTGCTGGGTCTGAGAGA	58.057	50.000	0.00	0.00	0.00	3.10
827	7457	4.337555	CCTTTTATCATTGCTGGGTCTGAG	59.662	45.833	0.00	0.00	0.00	3.35
881	7517	0.673985	AAAGGCGCCAAAGAGGTTTC	59.326	50.000	31.54	0.00	40.61	2.78
885	7521	0.608035	TGGTAAAGGCGCCAAAGAGG	60.608	55.000	31.54	0.00	41.84	3.69
900	7548	3.428532	GTCTGGTAAGTGGAGACTGGTA	58.571	50.000	0.00	0.00	34.47	3.25
914	7565	1.692749	GCAGGGGATGGGTCTGGTA	60.693	63.158	0.00	0.00	0.00	3.25
928	7579	1.541588	GGTTGGTGAAGCTTAAGCAGG	59.458	52.381	28.39	0.00	45.16	4.85
930	7581	1.616159	GGGTTGGTGAAGCTTAAGCA	58.384	50.000	28.39	11.83	45.16	3.91
933	7584	1.821666	GCAGGGGTTGGTGAAGCTTAA	60.822	52.381	0.00	0.00	0.00	1.85
934	7585	0.251165	GCAGGGGTTGGTGAAGCTTA	60.251	55.000	0.00	0.00	0.00	3.09
951	7602	5.385198	CCTATAAATAGGGGCTTGAAAGCA	58.615	41.667	16.39	0.00	45.84	3.91
991	7642	3.855689	GCAAAGCTGCTTGATTTCCTA	57.144	42.857	16.73	0.00	45.74	2.94
1056	7731	4.476297	AGGCCATTGCTATGATGATCAAA	58.524	39.130	5.01	0.00	37.74	2.69
1221	7896	2.046988	CTGACACTGCCGATGCCA	60.047	61.111	0.00	0.00	36.33	4.92
1301	7979	5.748592	ACTCTGTTTTACGCTTTGACAATC	58.251	37.500	0.00	0.00	0.00	2.67
1304	7986	4.632251	TCAACTCTGTTTTACGCTTTGACA	59.368	37.500	0.00	0.00	0.00	3.58
1313	7995	5.149977	GCTGCAAGATCAACTCTGTTTTAC	58.850	41.667	0.00	0.00	34.07	2.01
1407	8089	1.348008	ATGCCACCACCCTCGATGAT	61.348	55.000	0.00	0.00	0.00	2.45
1451	8133	0.745845	GCTCCACCTTGATGTGCGAT	60.746	55.000	0.00	0.00	34.85	4.58
1473	8155	2.190578	GCTCCCGCCATTAGCTGT	59.809	61.111	0.00	0.00	40.39	4.40
1478	8160	3.395702	ACCACGCTCCCGCCATTA	61.396	61.111	0.00	0.00	38.22	1.90
1699	8396	4.033702	GGACCGTTGTAGCAGCTTTATTAC	59.966	45.833	0.00	0.00	0.00	1.89
1740	8437	1.323412	ACTCTGTTCACTGCTCTCGT	58.677	50.000	0.00	0.00	0.00	4.18
1789	8494	8.413229	ACAACAGCAAACTTTGATAGTTACAAT	58.587	29.630	5.65	0.00	46.34	2.71
1932	10880	5.125578	AGTCGAGCACACATAAGACTTATCA	59.874	40.000	4.66	0.00	35.70	2.15
1935	10883	4.457949	TCAGTCGAGCACACATAAGACTTA	59.542	41.667	0.00	0.00	36.90	2.24
1947	10896	5.530519	TGAAATTATGTTCAGTCGAGCAC	57.469	39.130	0.00	0.00	34.96	4.40
1998	10948	4.102524	ACATTCAACGGGCTATATCTTCCA	59.897	41.667	0.00	0.00	0.00	3.53
1999	10949	4.642429	ACATTCAACGGGCTATATCTTCC	58.358	43.478	0.00	0.00	0.00	3.46
2003	10953	8.926710	GCATATATACATTCAACGGGCTATATC	58.073	37.037	0.00	0.00	0.00	1.63
2004	10954	7.878127	GGCATATATACATTCAACGGGCTATAT	59.122	37.037	0.00	0.00	0.00	0.86
2005	10955	7.147637	TGGCATATATACATTCAACGGGCTATA	60.148	37.037	0.00	0.00	0.00	1.31
2006	10956	6.055588	GGCATATATACATTCAACGGGCTAT	58.944	40.000	0.00	0.00	0.00	2.97
2007	10957	5.046231	TGGCATATATACATTCAACGGGCTA	60.046	40.000	0.00	0.00	0.00	3.93
2008	10958	4.261801	GGCATATATACATTCAACGGGCT	58.738	43.478	0.00	0.00	0.00	5.19
2130	11093	1.981495	AGCCTTGGCTGAACTCTTACT	59.019	47.619	13.99	0.00	0.00	2.24
2160	11123	5.194473	TCTCTAAGCCCTAGTTTCTCAGA	57.806	43.478	0.00	0.00	0.00	3.27
2235	11198	2.969262	TGAGTACATGGACACCACTGAA	59.031	45.455	11.55	0.00	35.80	3.02
2262	11225	4.060900	GAGCATAATTCGCATCTGAGGAA	58.939	43.478	0.00	0.00	0.00	3.36
2263	11226	3.070015	TGAGCATAATTCGCATCTGAGGA	59.930	43.478	0.00	0.00	0.00	3.71
2279	11242	1.355720	ACTAGGGGCAAAACTGAGCAT	59.644	47.619	0.00	0.00	0.00	3.79
2349	11312	2.484264	CTGTAAAGGCCGAGTCAAAAGG	59.516	50.000	0.00	0.00	0.00	3.11
2364	11327	1.765074	GCCTGGTCCCACCTGTAAA	59.235	57.895	0.00	0.00	39.58	2.01
2379	11342	2.129555	ATTGGTTGTCTCTGCCGCCT	62.130	55.000	0.00	0.00	0.00	5.52
2392	11355	5.221342	TGCAACGGTCTGAATAAAATTGGTT	60.221	36.000	0.00	0.00	0.00	3.67
2393	11356	4.279671	TGCAACGGTCTGAATAAAATTGGT	59.720	37.500	0.00	0.00	0.00	3.67
2447	11410	1.878088	CGCAATGGCTCTATGCTCAAT	59.122	47.619	0.00	0.00	42.39	2.57
2455	11418	1.078497	CACACCCGCAATGGCTCTA	60.078	57.895	0.00	0.00	38.10	2.43
2462	11425	4.065088	CACTTATATAGCACACCCGCAAT	58.935	43.478	0.00	0.00	0.00	3.56
2488	11451	2.898343	GTGGTCACCGCCGTTGTT	60.898	61.111	0.00	0.00	0.00	2.83
2553	11516	1.023513	GCTAGCTTCCCACTGCTGTG	61.024	60.000	16.20	16.20	43.45	3.66
2554	11517	1.197430	AGCTAGCTTCCCACTGCTGT	61.197	55.000	12.68	0.00	40.08	4.40
2555	11518	0.743701	CAGCTAGCTTCCCACTGCTG	60.744	60.000	16.46	0.00	40.08	4.41
2556	11519	1.197430	ACAGCTAGCTTCCCACTGCT	61.197	55.000	16.46	0.00	42.67	4.24
2557	11520	1.023513	CACAGCTAGCTTCCCACTGC	61.024	60.000	16.46	0.00	31.46	4.40
2558	11521	0.392193	CCACAGCTAGCTTCCCACTG	60.392	60.000	16.46	5.33	0.00	3.66
2559	11522	0.545309	TCCACAGCTAGCTTCCCACT	60.545	55.000	16.46	0.00	0.00	4.00
2587	11554	1.218047	CGAAGGGATCTCAACGCCA	59.782	57.895	0.00	0.00	0.00	5.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.