AutoCloner

Multiple sequence alignment - TraesCS1D01G343600

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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	TraesCS1D01G343600	chr1D	100.000	5263	0	0	1	5263	432639016	432633754	0.000000e+00	9720.0
1	TraesCS1D01G343600	chr1D	94.880	1211	41	8	4067	5263	259771451	259770248	0.000000e+00	1873.0
2	TraesCS1D01G343600	chr2B	90.792	2335	74	27	10	2291	744376341	744374095	0.000000e+00	2990.0
3	TraesCS1D01G343600	chr2B	92.688	1559	52	17	2536	4041	744373747	744372198	0.000000e+00	2191.0
4	TraesCS1D01G343600	chr2B	88.841	1837	75	39	2288	4041	774769415	774771204	0.000000e+00	2137.0
5	TraesCS1D01G343600	chr2B	91.630	1589	43	15	741	2288	774767826	774769365	0.000000e+00	2115.0
6	TraesCS1D01G343600	chr2B	92.567	713	32	7	1586	2288	88853525	88854226	0.000000e+00	1003.0
7	TraesCS1D01G343600	chr2B	91.122	597	32	13	10	605	774767165	774767741	0.000000e+00	789.0
8	TraesCS1D01G343600	chr2B	96.066	305	3	3	2288	2592	88854276	88854571	6.130000e-134	488.0
9	TraesCS1D01G343600	chr2D	94.330	1693	46	8	2390	4041	631286174	631287857	0.000000e+00	2549.0
10	TraesCS1D01G343600	chr2D	94.733	1234	46	8	4042	5261	624300748	624299520	0.000000e+00	1901.0
11	TraesCS1D01G343600	chr2D	95.054	1213	37	9	4067	5263	69147158	69145953	0.000000e+00	1886.0
12	TraesCS1D01G343600	chr2D	94.786	1189	24	5	817	1983	631284993	631286165	0.000000e+00	1818.0
13	TraesCS1D01G343600	chr2D	93.634	487	27	4	10	494	631284507	631284991	0.000000e+00	725.0
14	TraesCS1D01G343600	chr2D	79.558	1086	121	50	1223	2263	648065578	648064549	0.000000e+00	682.0
15	TraesCS1D01G343600	chr2D	81.373	714	100	16	3007	3691	648058525	648057816	7.700000e-153	551.0
16	TraesCS1D01G343600	chr2D	80.556	288	22	7	1346	1633	648066295	648066042	1.930000e-44	191.0
17	TraesCS1D01G343600	chr2D	81.435	237	24	9	2680	2897	648059822	648059587	5.420000e-40	176.0
18	TraesCS1D01G343600	chr2D	86.364	66	6	2	288	350	600969622	600969687	9.460000e-08	69.4
19	TraesCS1D01G343600	chr6A	96.870	1214	21	7	4067	5263	286337481	286336268	0.000000e+00	2015.0
20	TraesCS1D01G343600	chr6A	76.358	681	122	24	3006	3656	31594142	31594813	3.930000e-86	329.0
21	TraesCS1D01G343600	chr5D	96.449	1211	27	7	4067	5263	41228531	41227323	0.000000e+00	1984.0
22	TraesCS1D01G343600	chr5D	92.515	334	11	6	4068	4389	489751391	489751060	2.870000e-127	466.0
23	TraesCS1D01G343600	chr5D	94.340	106	6	0	4077	4182	423275432	423275327	4.220000e-36	163.0
24	TraesCS1D01G343600	chr5D	92.079	101	6	1	4081	4179	529801848	529801948	1.980000e-29	141.0
25	TraesCS1D01G343600	chr5D	92.784	97	3	2	4087	4179	559069259	559069355	2.560000e-28	137.0
26	TraesCS1D01G343600	chr5D	100.000	34	0	0	4042	4075	454206270	454206237	4.400000e-06	63.9
27	TraesCS1D01G343600	chr7D	95.466	1213	33	12	4067	5263	413241969	413243175	0.000000e+00	1916.0
28	TraesCS1D01G343600	chr3B	94.872	1209	47	6	4069	5263	592332550	592333757	0.000000e+00	1875.0
29	TraesCS1D01G343600	chr3B	93.296	716	29	7	1586	2291	491825600	491824894	0.000000e+00	1038.0
30	TraesCS1D01G343600	chr3B	95.098	306	5	4	2288	2592	491824847	491824551	1.720000e-129	473.0
31	TraesCS1D01G343600	chr4A	93.957	1208	57	10	4067	5263	703229048	703227846	0.000000e+00	1812.0
32	TraesCS1D01G343600	chr4A	93.812	1212	56	7	4069	5263	511076596	511075387	0.000000e+00	1805.0
33	TraesCS1D01G343600	chrUn	92.472	797	35	13	4088	4862	292687076	292686283	0.000000e+00	1116.0
34	TraesCS1D01G343600	chrUn	91.684	481	21	6	1783	2253	472255659	472256130	0.000000e+00	649.0
35	TraesCS1D01G343600	chrUn	96.066	305	3	3	2288	2592	309098617	309098912	6.130000e-134	488.0
36	TraesCS1D01G343600	chrUn	96.066	305	3	3	2288	2592	309114580	309114285	6.130000e-134	488.0
37	TraesCS1D01G343600	chrUn	80.000	175	33	2	3006	3179	76852663	76852836	1.540000e-25	128.0
38	TraesCS1D01G343600	chrUn	87.912	91	7	3	4088	4175	474594072	474593983	2.590000e-18	104.0
39	TraesCS1D01G343600	chr4B	93.166	717	29	10	1586	2291	475801596	475800889	0.000000e+00	1035.0
40	TraesCS1D01G343600	chr4B	95.410	305	5	3	2288	2592	475800842	475800547	1.330000e-130	477.0
41	TraesCS1D01G343600	chr7A	93.069	707	27	7	1586	2288	576087380	576088068	0.000000e+00	1014.0
42	TraesCS1D01G343600	chr7A	92.035	678	35	6	1586	2253	39479886	39480554	0.000000e+00	935.0
43	TraesCS1D01G343600	chr7A	95.738	305	4	4	2288	2592	39480621	39480916	2.850000e-132	483.0
44	TraesCS1D01G343600	chr7A	94.426	305	8	3	2288	2592	576088118	576088413	1.340000e-125	460.0
45	TraesCS1D01G343600	chr5A	93.023	688	27	7	1586	2262	637187690	637187013	0.000000e+00	985.0
46	TraesCS1D01G343600	chr3A	92.297	688	29	9	1586	2262	35093652	35092978	0.000000e+00	955.0
47	TraesCS1D01G343600	chr3A	96.066	305	3	3	2288	2592	35092920	35092625	6.130000e-134	488.0
48	TraesCS1D01G343600	chr3A	96.066	305	3	3	2288	2592	35150325	35150030	6.130000e-134	488.0
49	TraesCS1D01G343600	chr6D	76.946	681	118	24	3006	3656	31641331	31642002	8.390000e-93	351.0
50	TraesCS1D01G343600	chr3D	91.667	96	6	1	4081	4176	336811456	336811363	1.190000e-26	132.0
51	TraesCS1D01G343600	chr3D	86.667	60	7	1	292	350	283308939	283308998	1.220000e-06	65.8
52	TraesCS1D01G343600	chr2A	91.525	59	2	3	294	350	244297513	244297570	1.570000e-10	78.7

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	TraesCS1D01G343600	chr1D	432633754	432639016	5262	True	9720.000000	9720	100.0000	1	5263	1	chr1D.!!$R2	5262
1	TraesCS1D01G343600	chr1D	259770248	259771451	1203	True	1873.000000	1873	94.8800	4067	5263	1	chr1D.!!$R1	1196
2	TraesCS1D01G343600	chr2B	744372198	744376341	4143	True	2590.500000	2990	91.7400	10	4041	2	chr2B.!!$R1	4031
3	TraesCS1D01G343600	chr2B	774767165	774771204	4039	False	1680.333333	2137	90.5310	10	4041	3	chr2B.!!$F2	4031
4	TraesCS1D01G343600	chr2B	88853525	88854571	1046	False	745.500000	1003	94.3165	1586	2592	2	chr2B.!!$F1	1006
5	TraesCS1D01G343600	chr2D	624299520	624300748	1228	True	1901.000000	1901	94.7330	4042	5261	1	chr2D.!!$R2	1219
6	TraesCS1D01G343600	chr2D	69145953	69147158	1205	True	1886.000000	1886	95.0540	4067	5263	1	chr2D.!!$R1	1196
7	TraesCS1D01G343600	chr2D	631284507	631287857	3350	False	1697.333333	2549	94.2500	10	4041	3	chr2D.!!$F2	4031
8	TraesCS1D01G343600	chr2D	648064549	648066295	1746	True	436.500000	682	80.0570	1223	2263	2	chr2D.!!$R4	1040
9	TraesCS1D01G343600	chr2D	648057816	648059822	2006	True	363.500000	551	81.4040	2680	3691	2	chr2D.!!$R3	1011
10	TraesCS1D01G343600	chr6A	286336268	286337481	1213	True	2015.000000	2015	96.8700	4067	5263	1	chr6A.!!$R1	1196
11	TraesCS1D01G343600	chr6A	31594142	31594813	671	False	329.000000	329	76.3580	3006	3656	1	chr6A.!!$F1	650
12	TraesCS1D01G343600	chr5D	41227323	41228531	1208	True	1984.000000	1984	96.4490	4067	5263	1	chr5D.!!$R1	1196
13	TraesCS1D01G343600	chr7D	413241969	413243175	1206	False	1916.000000	1916	95.4660	4067	5263	1	chr7D.!!$F1	1196
14	TraesCS1D01G343600	chr3B	592332550	592333757	1207	False	1875.000000	1875	94.8720	4069	5263	1	chr3B.!!$F1	1194
15	TraesCS1D01G343600	chr3B	491824551	491825600	1049	True	755.500000	1038	94.1970	1586	2592	2	chr3B.!!$R1	1006
16	TraesCS1D01G343600	chr4A	703227846	703229048	1202	True	1812.000000	1812	93.9570	4067	5263	1	chr4A.!!$R2	1196
17	TraesCS1D01G343600	chr4A	511075387	511076596	1209	True	1805.000000	1805	93.8120	4069	5263	1	chr4A.!!$R1	1194
18	TraesCS1D01G343600	chrUn	292686283	292687076	793	True	1116.000000	1116	92.4720	4088	4862	1	chrUn.!!$R1	774
19	TraesCS1D01G343600	chr4B	475800547	475801596	1049	True	756.000000	1035	94.2880	1586	2592	2	chr4B.!!$R1	1006
20	TraesCS1D01G343600	chr7A	576087380	576088413	1033	False	737.000000	1014	93.7475	1586	2592	2	chr7A.!!$F2	1006
21	TraesCS1D01G343600	chr7A	39479886	39480916	1030	False	709.000000	935	93.8865	1586	2592	2	chr7A.!!$F1	1006
22	TraesCS1D01G343600	chr5A	637187013	637187690	677	True	985.000000	985	93.0230	1586	2262	1	chr5A.!!$R1	676
23	TraesCS1D01G343600	chr3A	35092625	35093652	1027	True	721.500000	955	94.1815	1586	2592	2	chr3A.!!$R2	1006
24	TraesCS1D01G343600	chr6D	31641331	31642002	671	False	351.000000	351	76.9460	3006	3656	1	chr6D.!!$F1	650

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
247	249	0.036875	GGGCGCTAGCAAATAGGGAT	59.963	55.000	16.45	0.00	45.10	3.85	F
779	834	0.401356	TCAAGAGATGTTGCCTGCCA	59.599	50.000	0.00	0.00	0.00	4.92	F
811	880	0.517316	GTGACCGACTTGCAATGGAC	59.483	55.000	16.71	11.99	0.00	4.02	F
812	881	0.948623	TGACCGACTTGCAATGGACG	60.949	55.000	16.71	10.57	0.00	4.79	F
813	882	0.949105	GACCGACTTGCAATGGACGT	60.949	55.000	16.71	3.94	0.00	4.34	F
2572	2894	1.065273	CGTGTAGCCGAGCCGTATT	59.935	57.895	0.00	0.00	0.00	1.89	F
3204	4550	1.098050	GCAAGGTGCTGGAGGTAATG	58.902	55.000	0.00	0.00	40.96	1.90	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2107	2282	2.688666	ATGCGGGGAGGCTCTCAA	60.689	61.111	17.73	0.97	31.08	3.02	R
2561	2883	5.694910	ACAATAAGACATAAATACGGCTCGG	59.305	40.000	0.00	0.00	0.00	4.63	R
2879	3269	0.393077	CGGACTCACTCACCCTTGTT	59.607	55.000	0.00	0.00	0.00	2.83	R
2926	3321	5.039333	GGCCGATCTCAAATTCAAATGAAG	58.961	41.667	1.98	0.00	37.48	3.02	R
2945	3340	1.312371	AATCAAATCACACCCGGCCG	61.312	55.000	21.04	21.04	0.00	6.13	R
3938	5327	1.467734	CGACGCTAGTCCTAAGTGTGT	59.532	52.381	0.00	0.00	44.28	3.72	R
5036	6465	2.686405	TGCTTGGCTCAATAGATTGCAG	59.314	45.455	0.00	0.00	37.68	4.41	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
78	79	3.023119	TGTGGATGCGCCTATTTGAAAT	58.977	40.909	4.18	0.00	37.63	2.17
107	108	0.960364	ACGGCAAAATCGCATGGACT	60.960	50.000	0.00	0.00	0.00	3.85
113	114	1.538047	AAATCGCATGGACTGTTGCT	58.462	45.000	0.00	0.00	36.71	3.91
128	129	6.543831	GGACTGTTGCTATACATCTCCAAAAT	59.456	38.462	0.00	0.00	30.47	1.82
129	130	7.067494	GGACTGTTGCTATACATCTCCAAAATT	59.933	37.037	0.00	0.00	30.47	1.82
187	189	2.259818	CAGCTCTCGGTTCGCTGT	59.740	61.111	0.00	0.00	44.50	4.40
247	249	0.036875	GGGCGCTAGCAAATAGGGAT	59.963	55.000	16.45	0.00	45.10	3.85
484	494	1.758514	GATGGAGGCGTGAGAGGGA	60.759	63.158	0.00	0.00	0.00	4.20
764	819	4.662278	TGGGTAATGAGAAAGGGTTCAAG	58.338	43.478	0.00	0.00	36.09	3.02
775	830	1.707427	AGGGTTCAAGAGATGTTGCCT	59.293	47.619	0.00	0.00	0.00	4.75
779	834	0.401356	TCAAGAGATGTTGCCTGCCA	59.599	50.000	0.00	0.00	0.00	4.92
780	835	1.005097	TCAAGAGATGTTGCCTGCCAT	59.995	47.619	0.00	0.00	0.00	4.40
808	877	1.732259	GGTAGTGACCGACTTGCAATG	59.268	52.381	0.00	0.00	35.52	2.82
811	880	0.517316	GTGACCGACTTGCAATGGAC	59.483	55.000	16.71	11.99	0.00	4.02
812	881	0.948623	TGACCGACTTGCAATGGACG	60.949	55.000	16.71	10.57	0.00	4.79
813	882	0.949105	GACCGACTTGCAATGGACGT	60.949	55.000	16.71	3.94	0.00	4.34
871	940	1.203994	CTACCCACTCGTAACCACCAG	59.796	57.143	0.00	0.00	0.00	4.00
916	988	2.537792	TTAGTTCGTCGGCTGCCTCG	62.538	60.000	17.92	19.79	0.00	4.63
923	995	3.137459	CGGCTGCCTCGACTCTCT	61.137	66.667	17.92	0.00	0.00	3.10
1302	1396	4.067016	GTGTACACCGGCGCAACG	62.067	66.667	15.42	3.98	0.00	4.10
2201	2388	6.152379	GGGATTGTTCATCTCTGTTTTGTTC	58.848	40.000	0.00	0.00	31.67	3.18
2353	2618	8.814038	ATAAGTTGAAAGGAAATCATGCTAGT	57.186	30.769	0.00	0.00	0.00	2.57
2354	2619	9.905713	ATAAGTTGAAAGGAAATCATGCTAGTA	57.094	29.630	0.00	0.00	0.00	1.82
2424	2713	2.915463	CGTAGCAGACTAAAACCGAGTG	59.085	50.000	0.00	0.00	0.00	3.51
2561	2883	4.802563	GGTAAGATTTACAGTCCGTGTAGC	59.197	45.833	1.88	0.00	42.75	3.58
2572	2894	1.065273	CGTGTAGCCGAGCCGTATT	59.935	57.895	0.00	0.00	0.00	1.89
2879	3269	2.577059	GACGTCCAATCGGCCAGA	59.423	61.111	3.51	0.78	32.06	3.86
2926	3321	4.912187	GCACTTTTCTCGAAGGAATTTCAC	59.088	41.667	0.00	0.00	35.43	3.18
2991	3397	8.447053	TGAATTTCATTTCATTTCACATGCATG	58.553	29.630	25.09	25.09	30.82	4.06
2992	3398	5.788055	TTCATTTCATTTCACATGCATGC	57.212	34.783	26.53	11.82	0.00	4.06
2993	3399	4.822026	TCATTTCATTTCACATGCATGCA	58.178	34.783	26.53	25.04	0.00	3.96
2994	3400	5.423886	TCATTTCATTTCACATGCATGCAT	58.576	33.333	27.46	27.46	37.08	3.96
3017	4359	2.433145	CATGACAGGCTCGTGCGT	60.433	61.111	3.02	0.42	40.82	5.24
3204	4550	1.098050	GCAAGGTGCTGGAGGTAATG	58.902	55.000	0.00	0.00	40.96	1.90
3674	5056	2.571757	CCAGCGCCGTACTCTCAA	59.428	61.111	2.29	0.00	0.00	3.02
3771	5160	9.299963	CTGTAAAGAATGAATTGAACAACACAA	57.700	29.630	0.00	0.00	0.00	3.33
3938	5327	3.149196	GCAAGACCCTTCACTTGATTGA	58.851	45.455	0.00	0.00	43.98	2.57
3957	5346	2.486982	TGACACACTTAGGACTAGCGTC	59.513	50.000	0.00	0.00	39.49	5.19
3978	5371	7.438459	AGCGTCGCAGTTTAGATTCTAAATTAT	59.562	33.333	21.09	8.34	0.00	1.28
4058	5452	2.437359	AGCATCTCCAACAGCCGC	60.437	61.111	0.00	0.00	0.00	6.53
4059	5453	3.869272	GCATCTCCAACAGCCGCG	61.869	66.667	0.00	0.00	0.00	6.46
4060	5454	3.869272	CATCTCCAACAGCCGCGC	61.869	66.667	0.00	0.00	0.00	6.86
4063	5457	3.793144	CTCCAACAGCCGCGCTTC	61.793	66.667	5.56	0.00	36.40	3.86
4658	6083	2.488937	CAAATTGGCTTGCAAAATCCCC	59.511	45.455	0.00	0.00	0.00	4.81
4703	6128	2.747460	GCCGCCTGAGCATTGTGA	60.747	61.111	0.00	0.00	39.83	3.58
4964	6389	2.115291	GGCCACCGCTTCAAGGATC	61.115	63.158	0.00	0.00	34.44	3.36
5036	6465	3.259123	ACAATTCTTCCAACTCCAATGCC	59.741	43.478	0.00	0.00	0.00	4.40
5086	6515	0.889186	AGCCGCGACCTTTGTTCATT	60.889	50.000	8.23	0.00	0.00	2.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	3.009143	GTCCCCAAACCATAGACAGAGTT	59.991	47.826	0.00	0.00	0.00	3.01
4	5	1.553248	CGTCCCCAAACCATAGACAGA	59.447	52.381	0.00	0.00	0.00	3.41
6	7	0.035820	GCGTCCCCAAACCATAGACA	60.036	55.000	0.00	0.00	0.00	3.41
7	8	0.746923	GGCGTCCCCAAACCATAGAC	60.747	60.000	0.00	0.00	0.00	2.59
8	9	1.605453	GGCGTCCCCAAACCATAGA	59.395	57.895	0.00	0.00	0.00	1.98
10	11	2.269562	CGGCGTCCCCAAACCATA	59.730	61.111	0.00	0.00	0.00	2.74
14	15	3.810896	GATGCGGCGTCCCCAAAC	61.811	66.667	11.14	0.00	0.00	2.93
78	79	2.680841	CGATTTTGCCGTTTAGATCCCA	59.319	45.455	0.00	0.00	0.00	4.37
107	108	7.415541	GCTCAATTTTGGAGATGTATAGCAACA	60.416	37.037	0.00	0.00	34.24	3.33
113	114	5.122519	TGCGCTCAATTTTGGAGATGTATA	58.877	37.500	9.73	0.00	34.24	1.47
128	129	2.970324	GGTGGACGTTGCGCTCAA	60.970	61.111	9.73	0.00	0.00	3.02
187	189	1.619807	GGGGGAAGCAGCGGTTACTA	61.620	60.000	3.41	0.00	0.00	1.82
217	219	1.451387	TAGCGCCCCTTTTGCTAGC	60.451	57.895	8.10	8.10	40.06	3.42
250	252	2.420129	CCTCTCTTCATTTACCCCGTGG	60.420	54.545	0.00	0.00	37.80	4.94
252	254	2.829023	TCCTCTCTTCATTTACCCCGT	58.171	47.619	0.00	0.00	0.00	5.28
253	255	3.432326	CCTTCCTCTCTTCATTTACCCCG	60.432	52.174	0.00	0.00	0.00	5.73
408	418	4.812476	TCCCTGCGCGATTCACCG	62.812	66.667	12.10	0.00	0.00	4.94
420	430	3.311167	TCTCTCCATTCTCTCTCCCTG	57.689	52.381	0.00	0.00	0.00	4.45
484	494	4.097892	AGTTTCAAATTTCGTGCCACTCTT	59.902	37.500	0.00	0.00	0.00	2.85
677	688	1.226802	CCACGGACTGCTCGATCAG	60.227	63.158	14.50	14.50	39.86	2.90
728	739	5.424757	TCATTACCCAAAGTACTTCATCCG	58.575	41.667	8.95	0.00	0.00	4.18
764	819	1.760192	AGAATGGCAGGCAACATCTC	58.240	50.000	0.00	0.00	41.41	2.75
775	830	3.451178	GGTCACTACCTAGAAGAATGGCA	59.549	47.826	0.00	0.00	43.08	4.92
779	834	4.857679	AGTCGGTCACTACCTAGAAGAAT	58.142	43.478	0.00	0.00	44.35	2.40
780	835	4.298103	AGTCGGTCACTACCTAGAAGAA	57.702	45.455	0.00	0.00	44.35	2.52
808	877	1.338769	ACTTGTAAGCATGGGACGTCC	60.339	52.381	27.04	27.04	0.00	4.79
811	880	5.007332	GGTAAATACTTGTAAGCATGGGACG	59.993	44.000	0.00	0.00	0.00	4.79
812	881	5.298527	GGGTAAATACTTGTAAGCATGGGAC	59.701	44.000	0.00	0.00	0.00	4.46
813	882	5.044772	TGGGTAAATACTTGTAAGCATGGGA	60.045	40.000	0.00	0.00	0.00	4.37
821	890	7.255070	GGTCGTTTGTTGGGTAAATACTTGTAA	60.255	37.037	0.00	0.00	0.00	2.41
916	988	2.535331	GCGAGGTGAATGAAGAGAGTC	58.465	52.381	0.00	0.00	0.00	3.36
923	995	2.267642	CCCGGCGAGGTGAATGAA	59.732	61.111	9.30	0.00	38.74	2.57
1302	1396	2.813908	CCAAGGTCGCAGCCGTAC	60.814	66.667	0.00	0.00	35.54	3.67
1625	1755	3.771160	AGGCGCCAAGGTAGACGG	61.771	66.667	31.54	0.00	0.00	4.79
2107	2282	2.688666	ATGCGGGGAGGCTCTCAA	60.689	61.111	17.73	0.97	31.08	3.02
2201	2388	7.687941	AATTTCTTGTAACCTATCCACACAG	57.312	36.000	0.00	0.00	0.00	3.66
2352	2617	6.969993	AGAGGAATCCAGTTATCAGAGTAC	57.030	41.667	0.61	0.00	0.00	2.73
2353	2618	7.979786	AAAGAGGAATCCAGTTATCAGAGTA	57.020	36.000	0.61	0.00	0.00	2.59
2354	2619	6.882768	AAAGAGGAATCCAGTTATCAGAGT	57.117	37.500	0.61	0.00	0.00	3.24
2424	2713	6.560711	ACACCAAATTTGACACTACTTTCAC	58.439	36.000	19.86	0.00	0.00	3.18
2561	2883	5.694910	ACAATAAGACATAAATACGGCTCGG	59.305	40.000	0.00	0.00	0.00	4.63
2879	3269	0.393077	CGGACTCACTCACCCTTGTT	59.607	55.000	0.00	0.00	0.00	2.83
2926	3321	5.039333	GGCCGATCTCAAATTCAAATGAAG	58.961	41.667	1.98	0.00	37.48	3.02
2945	3340	1.312371	AATCAAATCACACCCGGCCG	61.312	55.000	21.04	21.04	0.00	6.13
2993	3399	1.444917	CGAGCCTGTCATGCATGCAT	61.445	55.000	27.46	27.46	40.52	3.96
2994	3400	2.110352	CGAGCCTGTCATGCATGCA	61.110	57.895	25.04	25.04	40.52	3.96
3347	4714	0.319211	TGCTCGTACAACGTCCAAGG	60.319	55.000	0.00	0.00	43.14	3.61
3674	5056	1.480545	GGTGCTTGTTCCAAACCTTGT	59.519	47.619	0.00	0.00	0.00	3.16
3938	5327	1.467734	CGACGCTAGTCCTAAGTGTGT	59.532	52.381	0.00	0.00	44.28	3.72
3978	5371	5.462068	CGAATAGATGATACGGTTGCTTGAA	59.538	40.000	0.00	0.00	0.00	2.69
4123	5517	2.873851	GCGCGCGCTGCATTTTAA	60.874	55.556	44.38	0.00	46.97	1.52
4516	5936	5.012664	TGGCCAAGATTTAGACTACTCACAA	59.987	40.000	0.61	0.00	0.00	3.33
4658	6083	5.002516	AGAAAAGATGTGGAGAGAGCTTTG	58.997	41.667	0.00	0.00	0.00	2.77
5036	6465	2.686405	TGCTTGGCTCAATAGATTGCAG	59.314	45.455	0.00	0.00	37.68	4.41
5075	6504	3.196254	AGGCTATTGGCAATGAACAAAGG	59.804	43.478	22.57	4.05	44.01	3.11

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.