AutoCloner

Multiple sequence alignment - TraesCS7D01G018300

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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	TraesCS7D01G018300	chr7D	100.000	6188	0	0	1	6188	8194974	8188787	0.000000e+00	11428.0
1	TraesCS7D01G018300	chr7D	85.236	2242	314	14	2358	4588	18003717	18001482	0.000000e+00	2290.0
2	TraesCS7D01G018300	chr7D	79.462	2824	526	42	2384	5183	18107994	18105201	0.000000e+00	1953.0
3	TraesCS7D01G018300	chr7D	93.648	677	40	1	5515	6188	7831293	7830617	0.000000e+00	1009.0
4	TraesCS7D01G018300	chr7D	94.108	628	27	5	4893	5513	7831950	7831326	0.000000e+00	946.0
5	TraesCS7D01G018300	chr7D	92.470	664	47	3	1245	1908	173110230	173109570	0.000000e+00	946.0
6	TraesCS7D01G018300	chr4A	96.788	5791	138	30	384	6130	731692441	731698227	0.000000e+00	9620.0
7	TraesCS7D01G018300	chr4A	84.390	3280	435	38	1907	5169	714430511	714433730	0.000000e+00	3149.0
8	TraesCS7D01G018300	chr4A	83.943	2049	308	14	2347	4380	714565341	714567383	0.000000e+00	1941.0
9	TraesCS7D01G018300	chr4A	77.672	2835	548	54	2376	5182	715098469	715101246	0.000000e+00	1650.0
10	TraesCS7D01G018300	chr4A	92.262	672	46	6	1238	1908	727004443	727005109	0.000000e+00	948.0
11	TraesCS7D01G018300	chr4A	85.851	629	68	12	628	1244	714429905	714430524	0.000000e+00	649.0
12	TraesCS7D01G018300	chr4A	96.173	392	11	1	1	388	731691975	731692366	6.760000e-179	638.0
13	TraesCS7D01G018300	chr4A	76.171	747	130	33	4466	5183	715240313	715241040	3.550000e-92	350.0
14	TraesCS7D01G018300	chr4A	86.885	122	16	0	1001	1122	714564594	714564715	3.010000e-28	137.0
15	TraesCS7D01G018300	chr4A	86.765	68	8	1	5025	5092	714448626	714448692	2.390000e-09	75.0
16	TraesCS7D01G018300	chr7A	86.103	3231	409	30	1969	5183	18199830	18203036	0.000000e+00	3443.0
17	TraesCS7D01G018300	chr7A	82.114	2980	490	30	2384	5344	18036857	18033902	0.000000e+00	2510.0
18	TraesCS7D01G018300	chr7A	82.149	2997	460	47	2212	5183	18316011	18318957	0.000000e+00	2501.0
19	TraesCS7D01G018300	chr7A	82.851	2799	448	18	2384	5169	17425350	17422571	0.000000e+00	2481.0
20	TraesCS7D01G018300	chr7A	78.723	2834	545	40	2376	5183	18432335	18435136	0.000000e+00	1840.0
21	TraesCS7D01G018300	chr7A	92.354	667	48	3	1244	1908	115315008	115315673	0.000000e+00	946.0
22	TraesCS7D01G018300	chr7A	72.623	3039	700	92	2384	5346	17888015	17885033	0.000000e+00	881.0
23	TraesCS7D01G018300	chr7A	80.071	1129	196	16	4052	5167	17906377	17905265	0.000000e+00	811.0
24	TraesCS7D01G018300	chr7A	85.150	633	75	13	621	1244	18197985	18198607	1.130000e-176	630.0
25	TraesCS7D01G018300	chr7A	83.056	301	34	8	5229	5513	17932167	17931868	2.210000e-64	257.0
26	TraesCS7D01G018300	chr7A	86.301	219	26	3	787	1003	18268537	18268753	1.040000e-57	235.0
27	TraesCS7D01G018300	chr7A	95.506	89	3	1	1058	1146	18268760	18268847	2.330000e-29	141.0
28	TraesCS7D01G018300	chr7A	100.000	33	0	0	6124	6156	330437290	330437258	1.860000e-05	62.1
29	TraesCS7D01G018300	chrUn	84.899	1629	235	10	2343	3963	358634124	358635749	0.000000e+00	1635.0
30	TraesCS7D01G018300	chrUn	84.837	1629	236	10	2343	3963	340741058	340739433	0.000000e+00	1629.0
31	TraesCS7D01G018300	chrUn	83.702	1718	254	20	3473	5183	262125891	262124193	0.000000e+00	1598.0
32	TraesCS7D01G018300	chrUn	78.837	619	123	4	4718	5332	50583885	50583271	1.610000e-110	411.0
33	TraesCS7D01G018300	chrUn	78.837	619	123	4	4718	5332	278342164	278342778	1.610000e-110	411.0
34	TraesCS7D01G018300	chrUn	78.837	619	123	4	4718	5332	278349441	278350055	1.610000e-110	411.0
35	TraesCS7D01G018300	chrUn	78.837	619	123	4	4718	5332	325542748	325542134	1.610000e-110	411.0
36	TraesCS7D01G018300	chr6A	93.514	663	43	0	1246	1908	398260356	398261018	0.000000e+00	987.0
37	TraesCS7D01G018300	chr5D	92.308	663	51	0	1246	1908	36536296	36536958	0.000000e+00	942.0
38	TraesCS7D01G018300	chr1D	91.045	670	58	2	1241	1908	41335734	41336403	0.000000e+00	904.0
39	TraesCS7D01G018300	chr1B	91.168	668	48	8	1246	1908	264767487	264768148	0.000000e+00	896.0
40	TraesCS7D01G018300	chr1A	90.977	665	58	2	1245	1908	543689592	543688929	0.000000e+00	894.0
41	TraesCS7D01G018300	chr5B	97.222	36	1	0	6125	6160	543283822	543283857	1.860000e-05	62.1
42	TraesCS7D01G018300	chr5B	100.000	32	0	0	6125	6156	355237791	355237822	6.700000e-05	60.2
43	TraesCS7D01G018300	chr5B	100.000	32	0	0	6125	6156	512934338	512934307	6.700000e-05	60.2
44	TraesCS7D01G018300	chr7B	100.000	32	0	0	6125	6156	41323427	41323396	6.700000e-05	60.2
45	TraesCS7D01G018300	chr6D	100.000	32	0	0	6125	6156	322529296	322529327	6.700000e-05	60.2
46	TraesCS7D01G018300	chr3D	100.000	32	0	0	6125	6156	170543177	170543208	6.700000e-05	60.2
47	TraesCS7D01G018300	chr2B	100.000	32	0	0	6125	6156	707248527	707248558	6.700000e-05	60.2

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	TraesCS7D01G018300	chr7D	8188787	8194974	6187	True	11428.0	11428	100.0000	1	6188	1	chr7D.!!$R1	6187
1	TraesCS7D01G018300	chr7D	18001482	18003717	2235	True	2290.0	2290	85.2360	2358	4588	1	chr7D.!!$R2	2230
2	TraesCS7D01G018300	chr7D	18105201	18107994	2793	True	1953.0	1953	79.4620	2384	5183	1	chr7D.!!$R3	2799
3	TraesCS7D01G018300	chr7D	7830617	7831950	1333	True	977.5	1009	93.8780	4893	6188	2	chr7D.!!$R5	1295
4	TraesCS7D01G018300	chr7D	173109570	173110230	660	True	946.0	946	92.4700	1245	1908	1	chr7D.!!$R4	663
5	TraesCS7D01G018300	chr4A	731691975	731698227	6252	False	5129.0	9620	96.4805	1	6130	2	chr4A.!!$F7	6129
6	TraesCS7D01G018300	chr4A	714429905	714433730	3825	False	1899.0	3149	85.1205	628	5169	2	chr4A.!!$F5	4541
7	TraesCS7D01G018300	chr4A	715098469	715101246	2777	False	1650.0	1650	77.6720	2376	5182	1	chr4A.!!$F2	2806
8	TraesCS7D01G018300	chr4A	714564594	714567383	2789	False	1039.0	1941	85.4140	1001	4380	2	chr4A.!!$F6	3379
9	TraesCS7D01G018300	chr4A	727004443	727005109	666	False	948.0	948	92.2620	1238	1908	1	chr4A.!!$F4	670
10	TraesCS7D01G018300	chr4A	715240313	715241040	727	False	350.0	350	76.1710	4466	5183	1	chr4A.!!$F3	717
11	TraesCS7D01G018300	chr7A	18033902	18036857	2955	True	2510.0	2510	82.1140	2384	5344	1	chr7A.!!$R5	2960
12	TraesCS7D01G018300	chr7A	18316011	18318957	2946	False	2501.0	2501	82.1490	2212	5183	1	chr7A.!!$F1	2971
13	TraesCS7D01G018300	chr7A	17422571	17425350	2779	True	2481.0	2481	82.8510	2384	5169	1	chr7A.!!$R1	2785
14	TraesCS7D01G018300	chr7A	18197985	18203036	5051	False	2036.5	3443	85.6265	621	5183	2	chr7A.!!$F4	4562
15	TraesCS7D01G018300	chr7A	18432335	18435136	2801	False	1840.0	1840	78.7230	2376	5183	1	chr7A.!!$F2	2807
16	TraesCS7D01G018300	chr7A	115315008	115315673	665	False	946.0	946	92.3540	1244	1908	1	chr7A.!!$F3	664
17	TraesCS7D01G018300	chr7A	17885033	17888015	2982	True	881.0	881	72.6230	2384	5346	1	chr7A.!!$R2	2962
18	TraesCS7D01G018300	chr7A	17905265	17906377	1112	True	811.0	811	80.0710	4052	5167	1	chr7A.!!$R3	1115
19	TraesCS7D01G018300	chrUn	358634124	358635749	1625	False	1635.0	1635	84.8990	2343	3963	1	chrUn.!!$F3	1620
20	TraesCS7D01G018300	chrUn	340739433	340741058	1625	True	1629.0	1629	84.8370	2343	3963	1	chrUn.!!$R4	1620
21	TraesCS7D01G018300	chrUn	262124193	262125891	1698	True	1598.0	1598	83.7020	3473	5183	1	chrUn.!!$R2	1710
22	TraesCS7D01G018300	chrUn	50583271	50583885	614	True	411.0	411	78.8370	4718	5332	1	chrUn.!!$R1	614
23	TraesCS7D01G018300	chrUn	278342164	278342778	614	False	411.0	411	78.8370	4718	5332	1	chrUn.!!$F1	614
24	TraesCS7D01G018300	chrUn	278349441	278350055	614	False	411.0	411	78.8370	4718	5332	1	chrUn.!!$F2	614
25	TraesCS7D01G018300	chrUn	325542134	325542748	614	True	411.0	411	78.8370	4718	5332	1	chrUn.!!$R3	614
26	TraesCS7D01G018300	chr6A	398260356	398261018	662	False	987.0	987	93.5140	1246	1908	1	chr6A.!!$F1	662
27	TraesCS7D01G018300	chr5D	36536296	36536958	662	False	942.0	942	92.3080	1246	1908	1	chr5D.!!$F1	662
28	TraesCS7D01G018300	chr1D	41335734	41336403	669	False	904.0	904	91.0450	1241	1908	1	chr1D.!!$F1	667
29	TraesCS7D01G018300	chr1B	264767487	264768148	661	False	896.0	896	91.1680	1246	1908	1	chr1B.!!$F1	662
30	TraesCS7D01G018300	chr1A	543688929	543689592	663	True	894.0	894	90.9770	1245	1908	1	chr1A.!!$R1	663

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
325	330	0.038310	GTTTGAACAGAGGGGAGGGG	59.962	60.000	0.00	0.00	0.00	4.79	F
392	397	0.318614	GCGTGGTTGTTTGGGATGTG	60.319	55.000	0.00	0.00	0.00	3.21	F
1577	1683	0.810648	GGATCAACGCAATGGCTTGA	59.189	50.000	8.73	8.73	39.62	3.02	F
3345	4833	9.163899	CATCAAGACATGGATAATGATAAGGAG	57.836	37.037	0.00	0.00	38.72	3.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2199	3616	4.381566	GCATTACAACAACGATCCAAACAC	59.618	41.667	0.00	0.00	0.00	3.32	R
3345	4833	5.452078	TTTTGTCAACCATGGTCTTCATC	57.548	39.130	20.07	6.67	32.92	2.92	R
3387	4875	1.320344	TGAGTACAGCCAGCGGTAGG	61.320	60.000	2.77	0.00	0.00	3.18	R
5887	7481	0.801067	GTAGCACCGGCACTAACGAG	60.801	60.000	0.00	0.00	44.61	4.18	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	94	7.129109	TCCTTTGATCTACTTAAAAAGCACG	57.871	36.000	0.00	0.00	0.00	5.34
121	122	5.759506	TTAGACGAAGAGATGAGATGTCC	57.240	43.478	0.00	0.00	0.00	4.02
139	140	7.371936	AGATGTCCTAGTAGTAAATCGATTGC	58.628	38.462	12.25	8.08	0.00	3.56
227	228	2.364448	GGCGGAGGAAGAGGGAGT	60.364	66.667	0.00	0.00	0.00	3.85
290	295	3.278592	GAGTCGTCACCGGGTGGAC	62.279	68.421	26.07	23.63	39.21	4.02
325	330	0.038310	GTTTGAACAGAGGGGAGGGG	59.962	60.000	0.00	0.00	0.00	4.79
388	393	2.519780	GGGCGTGGTTGTTTGGGA	60.520	61.111	0.00	0.00	0.00	4.37
389	394	1.906333	GGGCGTGGTTGTTTGGGAT	60.906	57.895	0.00	0.00	0.00	3.85
390	395	1.288752	GGCGTGGTTGTTTGGGATG	59.711	57.895	0.00	0.00	0.00	3.51
391	396	1.460273	GGCGTGGTTGTTTGGGATGT	61.460	55.000	0.00	0.00	0.00	3.06
392	397	0.318614	GCGTGGTTGTTTGGGATGTG	60.319	55.000	0.00	0.00	0.00	3.21
434	519	7.638134	TGTTATTTTGGCTTGCAATTTTCTTC	58.362	30.769	0.00	0.00	0.00	2.87
446	531	5.105063	GCAATTTTCTTCCACTCCAATAGC	58.895	41.667	0.00	0.00	0.00	2.97
536	621	8.705048	AAAACAAAAAGCAGTCCGTTTTTATA	57.295	26.923	0.00	0.00	37.07	0.98
926	1023	4.526970	CTGTGAGGGCTACAAACCAATAT	58.473	43.478	0.00	0.00	0.00	1.28
1214	1312	8.510243	TTCTTGTATCACATGAATTGCATACT	57.490	30.769	0.00	0.00	37.35	2.12
1364	1464	6.904498	TGTCTCAAACAAAGAACGAAAAAGA	58.096	32.000	0.00	0.00	34.03	2.52
1429	1535	6.293845	GCTGGCATAAAAAGATAGGATCACTG	60.294	42.308	0.00	0.00	0.00	3.66
1577	1683	0.810648	GGATCAACGCAATGGCTTGA	59.189	50.000	8.73	8.73	39.62	3.02
3345	4833	9.163899	CATCAAGACATGGATAATGATAAGGAG	57.836	37.037	0.00	0.00	38.72	3.69
3387	4875	5.959618	AAATAGTAAAGAAGTGTGGTGGC	57.040	39.130	0.00	0.00	0.00	5.01
4889	6435	4.556233	GGGAAGTTAGTGTTCAAAATGGC	58.444	43.478	0.00	0.00	0.00	4.40
5356	6914	5.181009	TCGTTCAGTAGCAACTAGTAGCTA	58.819	41.667	0.00	0.00	42.05	3.32
5389	6947	9.877137	GATGATGTTGATTACGCATTTACAATA	57.123	29.630	0.00	0.00	0.00	1.90
5391	6949	8.669243	TGATGTTGATTACGCATTTACAATACA	58.331	29.630	0.00	0.00	0.00	2.29
5411	6969	7.979786	ATACATCTCCCTTCTCTTCTGTTTA	57.020	36.000	0.00	0.00	0.00	2.01
5420	6979	9.421399	TCCCTTCTCTTCTGTTTATTTTCTTTT	57.579	29.630	0.00	0.00	0.00	2.27
5454	7016	1.718396	TCTGCGCTGAAGATGAGTTG	58.282	50.000	15.15	0.00	0.00	3.16
5462	7024	2.746362	CTGAAGATGAGTTGAGGGTTGC	59.254	50.000	0.00	0.00	0.00	4.17
5488	7051	5.503683	GCTGATGATTGATTTCTTCTCCGTG	60.504	44.000	0.00	0.00	0.00	4.94
5509	7072	2.541346	GCATCATTCGCTTCTTCGATCA	59.459	45.455	0.00	0.00	38.37	2.92
5513	7076	2.743636	TTCGCTTCTTCGATCACCTT	57.256	45.000	0.00	0.00	38.37	3.50
5531	7125	4.395854	CACCTTCATGCTTGCAAGTATGTA	59.604	41.667	39.12	33.01	45.61	2.29
5533	7127	4.494690	CCTTCATGCTTGCAAGTATGTACG	60.495	45.833	39.12	30.19	45.61	3.67
5560	7154	3.065925	CGATCAAATCTCCCTTCCTTTGC	59.934	47.826	0.00	0.00	0.00	3.68
5757	7351	6.349243	TCCATCTGATTTCTTGCAATGTTT	57.651	33.333	0.00	0.00	0.00	2.83
5806	7400	6.488683	TGTTTCTCTGGTTGTATTTTAGTGGG	59.511	38.462	0.00	0.00	0.00	4.61
5808	7402	5.556915	TCTCTGGTTGTATTTTAGTGGGTG	58.443	41.667	0.00	0.00	0.00	4.61
5882	7476	2.958355	CCTTCCACACACTGGTTCAATT	59.042	45.455	0.00	0.00	41.52	2.32
5885	7479	5.243730	CCTTCCACACACTGGTTCAATTTAT	59.756	40.000	0.00	0.00	41.52	1.40
5887	7481	6.325919	TCCACACACTGGTTCAATTTATTC	57.674	37.500	0.00	0.00	41.52	1.75
5936	7530	6.810911	TGCTGGAGATGTAAAGACTATCTTC	58.189	40.000	0.00	0.00	35.27	2.87
5938	7532	7.145323	GCTGGAGATGTAAAGACTATCTTCTC	58.855	42.308	0.00	0.00	35.27	2.87
5960	7554	8.835467	TCTCGTTTCAAGTTTTATTTGAACAG	57.165	30.769	0.31	0.00	42.44	3.16
6120	7718	2.245159	ACATCCATACATCCTGTGCG	57.755	50.000	0.00	0.00	0.00	5.34
6158	7756	5.128171	TCTCGCCCCGCTTTATATATAATGT	59.872	40.000	15.87	0.00	0.00	2.71
6178	7776	1.895798	TCGAGTGAAGTCTGAAGCCAT	59.104	47.619	0.00	0.00	0.00	4.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
28	29	2.046217	GGGGGTGGCTTCTCGAAC	60.046	66.667	0.00	0.00	0.00	3.95
57	58	1.267121	TCAAAGGAAGGAGGTCTCGG	58.733	55.000	0.00	0.00	0.00	4.63
58	59	2.763448	AGATCAAAGGAAGGAGGTCTCG	59.237	50.000	0.00	0.00	0.00	4.04
93	94	4.512198	TCTCATCTCTTCGTCTAATCGGTC	59.488	45.833	0.00	0.00	0.00	4.79
121	122	5.980116	AGTGCAGCAATCGATTTACTACTAG	59.020	40.000	8.21	0.00	0.00	2.57
139	140	1.661509	TGTGTTCGAGCGAGTGCAG	60.662	57.895	0.00	0.00	46.23	4.41
227	228	4.021456	ACGGTGTCAAGTCTGATCATGTTA	60.021	41.667	0.00	0.00	33.05	2.41
290	295	4.636435	ACAAACCCCGACGCCCAG	62.636	66.667	0.00	0.00	0.00	4.45
296	301	2.018515	TCTGTTCAAACAAACCCCGAC	58.981	47.619	0.00	0.00	38.66	4.79
325	330	5.786264	AGGCATTTCATCATCATCCTTTC	57.214	39.130	0.00	0.00	0.00	2.62
388	393	4.080129	ACAAAGGTCTCATAGCATCCACAT	60.080	41.667	0.00	0.00	0.00	3.21
389	394	3.264193	ACAAAGGTCTCATAGCATCCACA	59.736	43.478	0.00	0.00	0.00	4.17
390	395	3.878778	ACAAAGGTCTCATAGCATCCAC	58.121	45.455	0.00	0.00	0.00	4.02
391	396	4.574674	AACAAAGGTCTCATAGCATCCA	57.425	40.909	0.00	0.00	0.00	3.41
392	397	7.573968	AAATAACAAAGGTCTCATAGCATCC	57.426	36.000	0.00	0.00	0.00	3.51
434	519	4.082125	ACCTCTTTTTGCTATTGGAGTGG	58.918	43.478	0.00	0.00	0.00	4.00
446	531	7.593825	CCAGGAAGTATTTGTACCTCTTTTTG	58.406	38.462	0.00	0.00	0.00	2.44
599	684	0.396139	AGCCGGCCAATGATCACAAT	60.396	50.000	26.15	0.00	0.00	2.71
729	818	1.398390	CAACCTTTGAGCGACATAGGC	59.602	52.381	17.64	0.00	46.71	3.93
799	891	7.517614	TCTACTAATGAATGAGCCTGTAGAG	57.482	40.000	0.00	0.00	32.88	2.43
926	1023	9.386010	TCTTTGCTAAGTAGTTAGAACAACAAA	57.614	29.630	19.55	16.38	38.39	2.83
1364	1464	9.220767	CCTATTACTTTTTAGCTCTTTGTGAGT	57.779	33.333	0.00	0.00	44.41	3.41
1429	1535	5.812642	CGGTCATGTAATAGGATAGGCAATC	59.187	44.000	0.00	0.00	0.00	2.67
2199	3616	4.381566	GCATTACAACAACGATCCAAACAC	59.618	41.667	0.00	0.00	0.00	3.32
3345	4833	5.452078	TTTTGTCAACCATGGTCTTCATC	57.548	39.130	20.07	6.67	32.92	2.92
3387	4875	1.320344	TGAGTACAGCCAGCGGTAGG	61.320	60.000	2.77	0.00	0.00	3.18
3658	5148	1.399440	CACATTCTCAATGCTCACCCG	59.601	52.381	0.00	0.00	42.69	5.28
4889	6435	3.752412	TCTTGAGATTTGCGAATGCTG	57.248	42.857	3.20	0.00	43.34	4.41
5185	6734	5.336770	CCACTTGTACTGAAGCAGTAGATCA	60.337	44.000	7.49	0.85	45.88	2.92
5267	6822	3.847602	CCTGCCAGGAGGAGCTCG	61.848	72.222	4.15	0.00	37.67	5.03
5389	6947	6.882768	ATAAACAGAAGAGAAGGGAGATGT	57.117	37.500	0.00	0.00	0.00	3.06
5391	6949	8.610369	AGAAAATAAACAGAAGAGAAGGGAGAT	58.390	33.333	0.00	0.00	0.00	2.75
5420	6979	3.118992	AGCGCAGATCATCTTCACTGTTA	60.119	43.478	11.47	0.00	33.57	2.41
5454	7016	1.404391	CAATCATCAGCTGCAACCCTC	59.596	52.381	9.47	0.00	0.00	4.30
5462	7024	5.277393	CGGAGAAGAAATCAATCATCAGCTG	60.277	44.000	7.63	7.63	0.00	4.24
5488	7051	2.541346	TGATCGAAGAAGCGAATGATGC	59.459	45.455	0.00	0.00	44.22	3.91
5509	7072	3.424703	ACATACTTGCAAGCATGAAGGT	58.575	40.909	35.56	17.58	34.20	3.50
5513	7076	3.595173	ACGTACATACTTGCAAGCATGA	58.405	40.909	35.56	21.13	34.20	3.07
5531	7125	2.761208	AGGGAGATTTGATCGAAGACGT	59.239	45.455	1.10	0.00	42.51	4.34
5533	7127	4.123506	GGAAGGGAGATTTGATCGAAGAC	58.876	47.826	1.10	0.00	42.51	3.01
5560	7154	2.301296	ACCCAGACTGAACTGAGTCATG	59.699	50.000	3.32	0.00	44.25	3.07
5748	7342	4.270566	GCACAAAATCTGACAAACATTGCA	59.729	37.500	0.00	0.00	0.00	4.08
5757	7351	3.419264	GTGTGTGCACAAAATCTGACA	57.581	42.857	23.59	9.89	43.77	3.58
5806	7400	9.382244	GATTGTAATTCAGTAACACAAAGACAC	57.618	33.333	0.00	0.00	33.24	3.67
5808	7402	8.492748	TCGATTGTAATTCAGTAACACAAAGAC	58.507	33.333	0.00	0.00	33.24	3.01
5882	7476	2.883574	CACCGGCACTAACGAGAATAA	58.116	47.619	0.00	0.00	0.00	1.40
5885	7479	1.373748	GCACCGGCACTAACGAGAA	60.374	57.895	0.00	0.00	40.72	2.87
5887	7481	0.801067	GTAGCACCGGCACTAACGAG	60.801	60.000	0.00	0.00	44.61	4.18
5936	7530	7.700656	ACCTGTTCAAATAAAACTTGAAACGAG	59.299	33.333	0.00	0.00	42.73	4.18
5938	7532	7.274686	ACACCTGTTCAAATAAAACTTGAAACG	59.725	33.333	0.00	0.00	42.73	3.60
6032	7627	0.972134	CAGAGTGCTCCAGTTCCTCA	59.028	55.000	0.00	0.00	0.00	3.86
6085	7683	4.081406	TGGATGTTTGTTCCCTTCAGATG	58.919	43.478	0.00	0.00	31.87	2.90
6158	7756	1.328279	TGGCTTCAGACTTCACTCGA	58.672	50.000	0.00	0.00	0.00	4.04

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.