AutoCloner

Multiple sequence alignment - TraesCS6B01G001700

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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	TraesCS6B01G001700	chr6B	100.000	3841	0	0	1	3841	1134229	1130389	0.000000e+00	7094.0
1	TraesCS6B01G001700	chr6B	94.521	1880	70	9	1	1875	2771112	2772963	0.000000e+00	2870.0
2	TraesCS6B01G001700	chr6B	95.539	1569	62	5	2221	3782	2772979	2774546	0.000000e+00	2503.0
3	TraesCS6B01G001700	chr6B	89.347	291	30	1	1922	2212	682361463	682361752	7.840000e-97	364.0
4	TraesCS6B01G001700	chrUn	96.552	1827	53	2	2015	3841	329194509	329192693	0.000000e+00	3016.0
5	TraesCS6B01G001700	chrUn	97.442	821	15	4	1146	1964	329195309	329194493	0.000000e+00	1395.0
6	TraesCS6B01G001700	chrUn	92.743	813	32	5	1	812	276415147	276415933	0.000000e+00	1149.0
7	TraesCS6B01G001700	chrUn	92.743	813	32	5	1	812	315809581	315808795	0.000000e+00	1149.0
8	TraesCS6B01G001700	chrUn	94.493	345	19	0	800	1144	276416207	276416551	2.030000e-147	532.0
9	TraesCS6B01G001700	chrUn	94.985	339	17	0	806	1144	315808515	315808177	2.030000e-147	532.0
10	TraesCS6B01G001700	chr1D	86.108	799	99	11	996	1785	254794153	254793358	0.000000e+00	850.0
11	TraesCS6B01G001700	chr1D	87.391	571	70	2	2245	2814	254791563	254790994	0.000000e+00	654.0
12	TraesCS6B01G001700	chr1B	85.294	816	106	12	982	1787	357638327	357639138	0.000000e+00	830.0
13	TraesCS6B01G001700	chr1B	88.545	550	61	1	2240	2787	357641020	357641569	0.000000e+00	665.0
14	TraesCS6B01G001700	chr1A	85.607	799	103	11	996	1785	327017958	327017163	0.000000e+00	828.0
15	TraesCS6B01G001700	chr1A	85.569	589	83	2	2245	2832	327015734	327015147	1.960000e-172	616.0
16	TraesCS6B01G001700	chr2B	89.632	299	29	2	1917	2215	71993123	71992827	2.800000e-101	379.0
17	TraesCS6B01G001700	chr3B	90.000	290	28	1	1925	2214	4310875	4310587	1.300000e-99	374.0
18	TraesCS6B01G001700	chr3B	89.726	292	29	1	1922	2213	22785880	22786170	4.690000e-99	372.0
19	TraesCS6B01G001700	chr3B	85.263	95	13	1	570	663	120266274	120266368	3.160000e-16	97.1
20	TraesCS6B01G001700	chr6A	89.965	289	27	2	1925	2213	4957847	4957561	4.690000e-99	372.0
21	TraesCS6B01G001700	chr6A	88.889	297	31	2	1918	2214	575466017	575465723	7.840000e-97	364.0
22	TraesCS6B01G001700	chr6A	94.872	78	4	0	569	646	240386649	240386572	5.210000e-24	122.0
23	TraesCS6B01G001700	chr7D	89.655	290	28	2	1925	2213	249490373	249490085	6.060000e-98	368.0
24	TraesCS6B01G001700	chr6D	89.655	290	29	1	1925	2214	36066708	36066996	6.060000e-98	368.0
25	TraesCS6B01G001700	chr6D	83.389	301	26	13	1918	2217	32241980	32241703	1.370000e-64	257.0
26	TraesCS6B01G001700	chr5B	89.226	297	28	4	1924	2218	684749607	684749901	6.060000e-98	368.0
27	TraesCS6B01G001700	chr5B	87.031	293	37	1	1921	2213	488017033	488016742	2.860000e-86	329.0
28	TraesCS6B01G001700	chr2D	84.049	163	14	8	494	646	174122140	174122300	3.090000e-31	147.0
29	TraesCS6B01G001700	chr7A	83.444	151	14	7	569	715	221127963	221127820	3.110000e-26	130.0
30	TraesCS6B01G001700	chr2A	81.579	152	21	6	3243	3389	19359500	19359351	6.740000e-23	119.0

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	TraesCS6B01G001700	chr6B	1130389	1134229	3840	True	7094.0	7094	100.0000	1	3841	1	chr6B.!!$R1	3840
1	TraesCS6B01G001700	chr6B	2771112	2774546	3434	False	2686.5	2870	95.0300	1	3782	2	chr6B.!!$F2	3781
2	TraesCS6B01G001700	chrUn	329192693	329195309	2616	True	2205.5	3016	96.9970	1146	3841	2	chrUn.!!$R2	2695
3	TraesCS6B01G001700	chrUn	276415147	276416551	1404	False	840.5	1149	93.6180	1	1144	2	chrUn.!!$F1	1143
4	TraesCS6B01G001700	chrUn	315808177	315809581	1404	True	840.5	1149	93.8640	1	1144	2	chrUn.!!$R1	1143
5	TraesCS6B01G001700	chr1D	254790994	254794153	3159	True	752.0	850	86.7495	996	2814	2	chr1D.!!$R1	1818
6	TraesCS6B01G001700	chr1B	357638327	357641569	3242	False	747.5	830	86.9195	982	2787	2	chr1B.!!$F1	1805
7	TraesCS6B01G001700	chr1A	327015147	327017958	2811	True	722.0	828	85.5880	996	2832	2	chr1A.!!$R1	1836

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
290	292	1.939934	TGTGCACTACTGCTGTTGTTC	59.060	47.619	19.41	4.76	44.57	3.18	F
293	295	2.103094	TGCACTACTGCTGTTGTTCTCT	59.897	45.455	8.01	0.00	44.57	3.10	F
1455	1755	1.009903	CATCGCGGTGTTTGTACGGA	61.010	55.000	12.24	0.00	0.00	4.69	F
2176	3443	0.037697	TTCGGTGATCTCGGTTGGTG	60.038	55.000	8.66	0.00	0.00	4.17	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1266	1566	0.601558	AGATGTACAGTTGGTCGCGT	59.398	50.000	5.77	0.00	6.01	R
2161	3428	1.156736	CCAACACCAACCGAGATCAC	58.843	55.000	0.00	0.00	3.06	R
2570	4647	1.007842	TGGAGGTGGTACATGAGGCTA	59.992	52.381	0.00	44.52	3.93	R
3532	5616	2.437085	AGCTAATAAACCCAGGCCAC	57.563	50.000	5.01	0.00	5.01	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
96	97	2.027605	CGATGGCGCGGTAGATGT	59.972	61.111	8.83	0.00	0.00	3.06
290	292	1.939934	TGTGCACTACTGCTGTTGTTC	59.060	47.619	19.41	4.76	44.57	3.18
291	293	2.213499	GTGCACTACTGCTGTTGTTCT	58.787	47.619	10.32	0.00	44.57	3.01
292	294	2.221981	GTGCACTACTGCTGTTGTTCTC	59.778	50.000	10.32	1.92	44.57	2.87
293	295	2.103094	TGCACTACTGCTGTTGTTCTCT	59.897	45.455	8.01	0.00	44.57	3.10
294	296	2.734079	GCACTACTGCTGTTGTTCTCTC	59.266	50.000	8.01	0.00	40.63	3.20
295	297	3.553922	GCACTACTGCTGTTGTTCTCTCT	60.554	47.826	8.01	0.00	40.63	3.10
296	298	4.233789	CACTACTGCTGTTGTTCTCTCTC	58.766	47.826	8.01	0.00	30.22	3.20
297	299	4.022416	CACTACTGCTGTTGTTCTCTCTCT	60.022	45.833	8.01	0.00	30.22	3.10
298	300	3.658757	ACTGCTGTTGTTCTCTCTCTC	57.341	47.619	0.00	0.00	0.00	3.20
299	301	3.230134	ACTGCTGTTGTTCTCTCTCTCT	58.770	45.455	0.00	0.00	0.00	3.10
300	302	3.255642	ACTGCTGTTGTTCTCTCTCTCTC	59.744	47.826	0.00	0.00	0.00	3.20
301	303	3.495331	TGCTGTTGTTCTCTCTCTCTCT	58.505	45.455	0.00	0.00	0.00	3.10
302	304	3.505680	TGCTGTTGTTCTCTCTCTCTCTC	59.494	47.826	0.00	0.00	0.00	3.20
303	305	3.758554	GCTGTTGTTCTCTCTCTCTCTCT	59.241	47.826	0.00	0.00	0.00	3.10
304	306	4.142600	GCTGTTGTTCTCTCTCTCTCTCTC	60.143	50.000	0.00	0.00	0.00	3.20
305	307	5.241403	TGTTGTTCTCTCTCTCTCTCTCT	57.759	43.478	0.00	0.00	0.00	3.10
306	308	5.245531	TGTTGTTCTCTCTCTCTCTCTCTC	58.754	45.833	0.00	0.00	0.00	3.20
307	309	5.013079	TGTTGTTCTCTCTCTCTCTCTCTCT	59.987	44.000	0.00	0.00	0.00	3.10
308	310	5.344743	TGTTCTCTCTCTCTCTCTCTCTC	57.655	47.826	0.00	0.00	0.00	3.20
309	311	5.026121	TGTTCTCTCTCTCTCTCTCTCTCT	58.974	45.833	0.00	0.00	0.00	3.10
447	449	9.646427	GATCCGAAGATTTATACTTAGCTCAAT	57.354	33.333	0.00	0.00	30.90	2.57
472	474	6.953520	TGAAAGAAGTTTCACCCAATATGGAT	59.046	34.615	0.00	0.00	45.82	3.41
488	490	8.252417	CCAATATGGATGAGTTGAATTCAAACA	58.748	33.333	22.07	22.36	40.96	2.83
551	553	9.369904	GTGTTTCGTGTCCTACCTTATAAATTA	57.630	33.333	0.00	0.00	0.00	1.40
664	666	6.294564	GGGTTAGAATGGGTGTTTCTTTCTTC	60.295	42.308	0.00	0.00	35.19	2.87
669	671	7.851228	AGAATGGGTGTTTCTTTCTTCTTTTT	58.149	30.769	0.00	0.00	29.12	1.94
670	672	7.765819	AGAATGGGTGTTTCTTTCTTCTTTTTG	59.234	33.333	0.00	0.00	29.12	2.44
671	673	6.353404	TGGGTGTTTCTTTCTTCTTTTTGT	57.647	33.333	0.00	0.00	0.00	2.83
672	674	6.764379	TGGGTGTTTCTTTCTTCTTTTTGTT	58.236	32.000	0.00	0.00	0.00	2.83
677	679	7.533900	GTGTTTCTTTCTTCTTTTTGTTTTGCC	59.466	33.333	0.00	0.00	0.00	4.52
678	680	6.735678	TTCTTTCTTCTTTTTGTTTTGCCC	57.264	33.333	0.00	0.00	0.00	5.36
679	681	4.867608	TCTTTCTTCTTTTTGTTTTGCCCG	59.132	37.500	0.00	0.00	0.00	6.13
680	682	3.878160	TCTTCTTTTTGTTTTGCCCGT	57.122	38.095	0.00	0.00	0.00	5.28
681	683	4.195225	TCTTCTTTTTGTTTTGCCCGTT	57.805	36.364	0.00	0.00	0.00	4.44
682	684	3.929610	TCTTCTTTTTGTTTTGCCCGTTG	59.070	39.130	0.00	0.00	0.00	4.10
740	742	9.649024	CGAAAATCTGCAAACAAAAATTTACAT	57.351	25.926	0.00	0.00	0.00	2.29
804	806	7.763356	TCATAGTAAGACTTAGCAAGACTGTC	58.237	38.462	0.00	0.00	33.88	3.51
1054	1342	3.329889	TCCTCAAGCGGCCACCAT	61.330	61.111	2.24	0.00	0.00	3.55
1094	1394	2.513065	GATGGCAACGACAAGGCACG	62.513	60.000	0.00	0.00	43.36	5.34
1168	1468	2.254651	GTCACGAGTTCGGCGAGT	59.745	61.111	10.46	0.88	44.95	4.18
1455	1755	1.009903	CATCGCGGTGTTTGTACGGA	61.010	55.000	12.24	0.00	0.00	4.69
1946	3101	6.633500	TCATGGTTTTTACTTTCAGTGAGG	57.367	37.500	0.00	0.00	0.00	3.86
1947	3102	6.126409	TCATGGTTTTTACTTTCAGTGAGGT	58.874	36.000	0.00	0.00	0.00	3.85
1948	3103	6.605594	TCATGGTTTTTACTTTCAGTGAGGTT	59.394	34.615	6.22	0.00	0.00	3.50
1949	3104	6.844097	TGGTTTTTACTTTCAGTGAGGTTT	57.156	33.333	6.22	0.00	0.00	3.27
1950	3105	6.859017	TGGTTTTTACTTTCAGTGAGGTTTC	58.141	36.000	6.22	0.00	0.00	2.78
1951	3106	5.969435	GGTTTTTACTTTCAGTGAGGTTTCG	59.031	40.000	6.22	0.00	0.00	3.46
1962	3226	3.251004	AGTGAGGTTTCGCTGAAATTCAC	59.749	43.478	23.89	23.89	42.42	3.18
1964	3228	3.250762	TGAGGTTTCGCTGAAATTCACTG	59.749	43.478	6.93	0.00	33.97	3.66
1966	3230	3.882888	AGGTTTCGCTGAAATTCACTGAA	59.117	39.130	6.93	0.00	33.97	3.02
1967	3231	4.520492	AGGTTTCGCTGAAATTCACTGAAT	59.480	37.500	0.00	0.00	33.97	2.57
2008	3272	7.971455	AGACACTAAAATATTACGTTTCAGCC	58.029	34.615	0.00	0.00	0.00	4.85
2009	3273	7.604927	AGACACTAAAATATTACGTTTCAGCCA	59.395	33.333	0.00	0.00	0.00	4.75
2010	3274	8.101654	ACACTAAAATATTACGTTTCAGCCAA	57.898	30.769	0.00	0.00	0.00	4.52
2170	3437	2.893637	ACTGAATTTCGGTGATCTCGG	58.106	47.619	10.08	3.11	34.08	4.63
2171	3438	2.233922	ACTGAATTTCGGTGATCTCGGT	59.766	45.455	10.08	0.00	34.08	4.69
2172	3439	3.262420	CTGAATTTCGGTGATCTCGGTT	58.738	45.455	8.66	3.39	0.00	4.44
2173	3440	3.000041	TGAATTTCGGTGATCTCGGTTG	59.000	45.455	8.66	0.00	0.00	3.77
2174	3441	2.024176	ATTTCGGTGATCTCGGTTGG	57.976	50.000	8.66	0.00	0.00	3.77
2176	3443	0.037697	TTCGGTGATCTCGGTTGGTG	60.038	55.000	8.66	0.00	0.00	4.17
2177	3444	1.183030	TCGGTGATCTCGGTTGGTGT	61.183	55.000	8.66	0.00	0.00	4.16
2178	3445	0.320421	CGGTGATCTCGGTTGGTGTT	60.320	55.000	0.00	0.00	0.00	3.32
2195	3462	4.464244	TGGTGTTGGAATTGTTCTGAAACA	59.536	37.500	0.00	0.00	43.58	2.83
2495	4572	3.687102	CCACACCACGACCGGCTA	61.687	66.667	0.00	0.00	0.00	3.93
2603	4680	1.073199	CCTCCAGAACACCACCCAC	59.927	63.158	0.00	0.00	0.00	4.61
2854	4931	0.322546	ATCTGACAGTTTTCCCGGCC	60.323	55.000	0.00	0.00	0.00	6.13
2986	5063	7.334421	TCAGTAGTGCTGTCAAATTCCTTATTC	59.666	37.037	8.17	0.00	45.23	1.75
3122	5200	6.681729	ATGTATATCTCAACCCGGTAACAT	57.318	37.500	0.00	0.00	0.00	2.71
3203	5282	9.726438	AGAATATACATAGCAATTACACTTCCC	57.274	33.333	0.00	0.00	0.00	3.97
3241	5320	5.105269	TGCGACACTTATCCTTATGGTTGTA	60.105	40.000	0.00	0.00	34.23	2.41
3348	5431	8.043113	TCAGAGATTGCACAAGTAGTTCATAAT	58.957	33.333	0.00	0.00	0.00	1.28
3391	5475	4.280436	ACACATCACTTTCCAATCCGTA	57.720	40.909	0.00	0.00	0.00	4.02
3436	5520	1.586422	CGTGACATGATCATGGGGTC	58.414	55.000	33.31	23.68	42.91	4.46
3453	5537	3.372241	GGGGTCCCGAATAAGGAAATGAA	60.372	47.826	0.48	0.00	34.43	2.57
3457	5541	5.650703	GGTCCCGAATAAGGAAATGAAAGAA	59.349	40.000	0.00	0.00	34.43	2.52
3602	5686	1.605753	AAAAGTCTCGCCTGGGTTTC	58.394	50.000	0.00	0.00	0.00	2.78
3638	5722	2.936498	GTGGGAATCAGTATTGGTGTCG	59.064	50.000	0.00	0.00	0.00	4.35
3824	5908	7.071014	TGTTTTTCTTCATTTTCAAGTTGGC	57.929	32.000	2.34	0.00	0.00	4.52

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
35	36	3.197790	CTCCTTGCCCACGCATCG	61.198	66.667	0.00	0.00	46.67	3.84
38	39	4.020617	CCTCTCCTTGCCCACGCA	62.021	66.667	0.00	0.00	45.49	5.24
71	72	4.880537	CGCGCCATCGGAGCTTCT	62.881	66.667	0.00	0.00	46.11	2.85
96	97	2.063979	CGTCCTCCCATGGTGCCTA	61.064	63.158	11.73	0.00	0.00	3.93
290	292	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
291	293	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
292	294	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
293	295	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
294	296	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
295	297	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
296	298	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
297	299	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
298	300	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
299	301	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
300	302	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
301	303	5.136068	AGAGAGAGAGAGAGAGAGAGAGA	57.864	47.826	0.00	0.00	0.00	3.10
302	304	6.968263	TTAGAGAGAGAGAGAGAGAGAGAG	57.032	45.833	0.00	0.00	0.00	3.20
303	305	7.921041	ATTTAGAGAGAGAGAGAGAGAGAGA	57.079	40.000	0.00	0.00	0.00	3.10
304	306	7.659390	GGAATTTAGAGAGAGAGAGAGAGAGAG	59.341	44.444	0.00	0.00	0.00	3.20
305	307	7.348274	AGGAATTTAGAGAGAGAGAGAGAGAGA	59.652	40.741	0.00	0.00	0.00	3.10
306	308	7.512992	AGGAATTTAGAGAGAGAGAGAGAGAG	58.487	42.308	0.00	0.00	0.00	3.20
307	309	7.451731	AGGAATTTAGAGAGAGAGAGAGAGA	57.548	40.000	0.00	0.00	0.00	3.10
308	310	8.525290	AAAGGAATTTAGAGAGAGAGAGAGAG	57.475	38.462	0.00	0.00	0.00	3.20
309	311	8.748412	CAAAAGGAATTTAGAGAGAGAGAGAGA	58.252	37.037	0.00	0.00	0.00	3.10
447	449	6.310941	TCCATATTGGGTGAAACTTCTTTCA	58.689	36.000	0.00	0.00	39.79	2.69
472	474	6.266168	ACTTGTGTGTTTGAATTCAACTCA	57.734	33.333	20.35	18.01	35.28	3.41
488	490	1.476833	CCTGTGTGCCCTAACTTGTGT	60.477	52.381	0.00	0.00	0.00	3.72
664	666	2.450365	GCAACGGGCAAAACAAAAAG	57.550	45.000	0.00	0.00	43.97	2.27
677	679	1.782044	CAAAAGAACCCATGCAACGG	58.218	50.000	0.00	0.00	0.00	4.44
678	680	1.139163	GCAAAAGAACCCATGCAACG	58.861	50.000	0.00	0.00	38.63	4.10
679	681	2.531522	AGCAAAAGAACCCATGCAAC	57.468	45.000	0.00	0.00	41.18	4.17
680	682	3.230134	ACTAGCAAAAGAACCCATGCAA	58.770	40.909	0.00	0.00	41.18	4.08
681	683	2.875296	ACTAGCAAAAGAACCCATGCA	58.125	42.857	0.00	0.00	41.18	3.96
682	684	4.700213	TCTTACTAGCAAAAGAACCCATGC	59.300	41.667	0.00	0.00	39.06	4.06
684	686	9.528489	TTATTTCTTACTAGCAAAAGAACCCAT	57.472	29.630	12.58	8.38	40.47	4.00
685	687	8.927675	TTATTTCTTACTAGCAAAAGAACCCA	57.072	30.769	12.58	3.07	40.47	4.51
740	742	5.546499	TCATGAGATCATCCATTGAGATCCA	59.454	40.000	0.00	0.00	39.10	3.41
1054	1342	1.600636	CGAAGCTGGCCTTTGGTGA	60.601	57.895	3.32	0.00	32.78	4.02
1168	1468	1.078778	ACATGTTCACGCCGCCATA	60.079	52.632	0.00	0.00	0.00	2.74
1266	1566	0.601558	AGATGTACAGTTGGTCGCGT	59.398	50.000	5.77	0.00	0.00	6.01
1455	1755	2.943265	AGCAGGGCATGGGTTCCT	60.943	61.111	0.00	0.00	0.00	3.36
1946	3101	6.753897	AAATTCAGTGAATTTCAGCGAAAC	57.246	33.333	29.81	0.00	45.45	2.78
1981	3245	9.897349	GCTGAAACGTAATATTTTAGTGTCTAC	57.103	33.333	0.00	0.00	0.00	2.59
1984	3248	7.745015	TGGCTGAAACGTAATATTTTAGTGTC	58.255	34.615	0.00	0.00	0.00	3.67
1985	3249	7.675962	TGGCTGAAACGTAATATTTTAGTGT	57.324	32.000	0.00	0.00	0.00	3.55
1986	3250	8.958175	TTTGGCTGAAACGTAATATTTTAGTG	57.042	30.769	0.00	0.00	0.00	2.74
1994	3258	9.781834	CTGAAATATTTTGGCTGAAACGTAATA	57.218	29.630	1.43	0.00	0.00	0.98
1995	3259	7.275560	GCTGAAATATTTTGGCTGAAACGTAAT	59.724	33.333	14.80	0.00	0.00	1.89
1996	3260	6.584563	GCTGAAATATTTTGGCTGAAACGTAA	59.415	34.615	14.80	0.00	0.00	3.18
1997	3261	6.090129	GCTGAAATATTTTGGCTGAAACGTA	58.910	36.000	14.80	0.00	0.00	3.57
1999	3263	4.922692	TGCTGAAATATTTTGGCTGAAACG	59.077	37.500	19.60	0.00	0.00	3.60
2002	3266	7.660617	TGAAATTGCTGAAATATTTTGGCTGAA	59.339	29.630	19.60	11.59	0.00	3.02
2003	3267	7.118101	GTGAAATTGCTGAAATATTTTGGCTGA	59.882	33.333	19.60	12.58	0.00	4.26
2004	3268	7.118680	AGTGAAATTGCTGAAATATTTTGGCTG	59.881	33.333	19.60	7.49	0.00	4.85
2006	3270	7.368480	AGTGAAATTGCTGAAATATTTTGGC	57.632	32.000	15.06	15.06	0.00	4.52
2010	3274	9.979578	TGTTGTAGTGAAATTGCTGAAATATTT	57.020	25.926	0.00	0.00	0.00	1.40
2161	3428	1.156736	CCAACACCAACCGAGATCAC	58.843	55.000	0.00	0.00	0.00	3.06
2165	3432	2.226330	CAATTCCAACACCAACCGAGA	58.774	47.619	0.00	0.00	0.00	4.04
2167	3434	2.060050	ACAATTCCAACACCAACCGA	57.940	45.000	0.00	0.00	0.00	4.69
2168	3435	2.360801	AGAACAATTCCAACACCAACCG	59.639	45.455	0.00	0.00	0.00	4.44
2170	3437	4.647424	TCAGAACAATTCCAACACCAAC	57.353	40.909	0.00	0.00	0.00	3.77
2171	3438	5.047021	TGTTTCAGAACAATTCCAACACCAA	60.047	36.000	0.00	0.00	42.54	3.67
2172	3439	4.464244	TGTTTCAGAACAATTCCAACACCA	59.536	37.500	0.00	0.00	42.54	4.17
2173	3440	5.004922	TGTTTCAGAACAATTCCAACACC	57.995	39.130	0.00	0.00	42.54	4.16
2174	3441	5.890334	TCTGTTTCAGAACAATTCCAACAC	58.110	37.500	0.00	0.00	44.65	3.32
2195	3462	5.011023	GTCCTCACCATGGTTTTCAATTTCT	59.989	40.000	16.84	0.00	0.00	2.52
2480	4557	2.718073	GGATAGCCGGTCGTGGTGT	61.718	63.158	1.90	0.00	0.00	4.16
2570	4647	1.007842	TGGAGGTGGTACATGAGGCTA	59.992	52.381	0.00	0.00	44.52	3.93
2854	4931	1.939934	ACAAATGACGTGTGGAGTGTG	59.060	47.619	0.00	0.00	0.00	3.82
2938	5015	8.500773	ACTGACGACAACGAAACAAATTATAAT	58.499	29.630	0.00	0.00	42.66	1.28
2986	5063	3.154827	ACACAAAGGTTACCCCATCAG	57.845	47.619	0.00	0.00	34.66	2.90
3122	5200	4.093743	TGTGACTGAGGGCAAGTTATAGA	58.906	43.478	0.00	0.00	0.00	1.98
3203	5282	6.834959	AAGTGTCGCATTAGATGAAGTATG	57.165	37.500	0.00	0.00	0.00	2.39
3241	5320	7.969690	TTTGGGTGTTGGATTATTGATATGT	57.030	32.000	0.00	0.00	0.00	2.29
3409	5493	4.631377	CCATGATCATGTCACGTTGTTACT	59.369	41.667	29.23	0.00	40.28	2.24
3532	5616	2.437085	AGCTAATAAACCCAGGCCAC	57.563	50.000	5.01	0.00	0.00	5.01
3602	5686	7.041635	TGATTCCCACATGCACAATATTAAG	57.958	36.000	0.00	0.00	0.00	1.85
3638	5722	6.128445	CGGTCAATAATCAATAGCTGGATCAC	60.128	42.308	0.00	0.00	0.00	3.06

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.