AutoCloner

Multiple sequence alignment - TraesCS6D01G298700

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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	TraesCS6D01G298700	chr6D	100.000	3336	0	0	1	3336	409515230	409518565	0.000000e+00	6161.0
1	TraesCS6D01G298700	chr6D	91.006	1034	53	21	707	1721	409583813	409584825	0.000000e+00	1358.0
2	TraesCS6D01G298700	chr6D	84.926	471	58	4	26	490	409582522	409582985	6.520000e-127	464.0
3	TraesCS6D01G298700	chr6D	80.783	562	73	20	1092	1628	409655215	409655766	1.110000e-109	407.0
4	TraesCS6D01G298700	chr6D	86.508	126	16	1	653	777	409583433	409583558	1.610000e-28	137.0
5	TraesCS6D01G298700	chr6B	88.902	1649	108	36	1718	3336	615231010	615232613	0.000000e+00	1962.0
6	TraesCS6D01G298700	chr6B	88.270	1705	113	37	1	1681	615166022	615167663	0.000000e+00	1960.0
7	TraesCS6D01G298700	chr6B	86.672	1223	90	21	1718	2907	615167758	615168940	0.000000e+00	1288.0
8	TraesCS6D01G298700	chr6B	89.858	986	58	13	704	1681	615229964	615230915	0.000000e+00	1229.0
9	TraesCS6D01G298700	chr6B	91.620	716	52	3	969	1681	615275341	615276051	0.000000e+00	983.0
10	TraesCS6D01G298700	chr6B	94.030	335	15	3	3007	3336	615169048	615169382	1.380000e-138	503.0
11	TraesCS6D01G298700	chr6B	82.443	524	61	17	1092	1595	615605438	615605950	2.380000e-116	429.0
12	TraesCS6D01G298700	chr6B	82.316	475	63	7	26	489	615228670	615229134	3.120000e-105	392.0
13	TraesCS6D01G298700	chr6B	91.949	236	12	3	709	939	615275109	615275342	1.150000e-84	324.0
14	TraesCS6D01G298700	chr6B	92.237	219	12	5	3121	3336	615294222	615294438	4.180000e-79	305.0
15	TraesCS6D01G298700	chr6B	86.512	215	24	3	1952	2163	615276678	615276890	7.200000e-57	231.0
16	TraesCS6D01G298700	chr6B	82.500	280	16	15	2877	3125	615292202	615292479	7.250000e-52	215.0
17	TraesCS6D01G298700	chr6B	74.760	416	62	19	2317	2693	615289370	615289781	2.680000e-31	147.0
18	TraesCS6D01G298700	chr6B	91.892	74	6	0	2892	2965	615168959	615169032	1.640000e-18	104.0
19	TraesCS6D01G298700	chr6B	94.118	68	3	1	653	720	615229584	615229650	5.890000e-18	102.0
20	TraesCS6D01G298700	chr6B	91.176	68	6	0	653	720	615274730	615274797	3.540000e-15	93.5
21	TraesCS6D01G298700	chr6A	88.945	986	58	24	758	1719	554855273	554856231	0.000000e+00	1170.0
22	TraesCS6D01G298700	chr6A	90.517	580	45	8	181	755	554854654	554855228	0.000000e+00	758.0
23	TraesCS6D01G298700	chr6A	79.863	586	91	15	1092	1653	555088983	555089565	1.440000e-108	403.0
24	TraesCS6D01G298700	chr6A	88.043	276	24	6	2734	3001	554867220	554867494	5.370000e-83	318.0
25	TraesCS6D01G298700	chr6A	87.671	219	13	7	3121	3336	554867778	554867985	3.330000e-60	243.0
26	TraesCS6D01G298700	chr5D	88.485	165	19	0	1429	1593	353795673	353795837	2.030000e-47	200.0
27	TraesCS6D01G298700	chr5D	81.865	193	27	4	2317	2504	476159694	476159505	4.460000e-34	156.0
28	TraesCS6D01G298700	chr1B	87.586	145	13	4	2344	2484	45351568	45351425	2.660000e-36	163.0
29	TraesCS6D01G298700	chr5A	80.556	180	31	3	2317	2493	595543352	595543174	5.810000e-28	135.0
30	TraesCS6D01G298700	chr7A	82.051	156	25	2	2317	2469	458977938	458978093	2.700000e-26	130.0
31	TraesCS6D01G298700	chr1D	85.714	119	15	1	2317	2433	483383496	483383614	1.260000e-24	124.0

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	TraesCS6D01G298700	chr6D	409515230	409518565	3335	False	6161.000000	6161	100.000000	1	3336	1	chr6D.!!$F1	3335
1	TraesCS6D01G298700	chr6D	409582522	409584825	2303	False	653.000000	1358	87.480000	26	1721	3	chr6D.!!$F3	1695
2	TraesCS6D01G298700	chr6D	409655215	409655766	551	False	407.000000	407	80.783000	1092	1628	1	chr6D.!!$F2	536
3	TraesCS6D01G298700	chr6B	615166022	615169382	3360	False	963.750000	1960	90.216000	1	3336	4	chr6B.!!$F2	3335
4	TraesCS6D01G298700	chr6B	615228670	615232613	3943	False	921.250000	1962	88.798500	26	3336	4	chr6B.!!$F3	3310
5	TraesCS6D01G298700	chr6B	615605438	615605950	512	False	429.000000	429	82.443000	1092	1595	1	chr6B.!!$F1	503
6	TraesCS6D01G298700	chr6B	615274730	615276890	2160	False	407.875000	983	90.314250	653	2163	4	chr6B.!!$F4	1510
7	TraesCS6D01G298700	chr6B	615289370	615294438	5068	False	222.333333	305	83.165667	2317	3336	3	chr6B.!!$F5	1019
8	TraesCS6D01G298700	chr6A	554854654	554856231	1577	False	964.000000	1170	89.731000	181	1719	2	chr6A.!!$F2	1538
9	TraesCS6D01G298700	chr6A	555088983	555089565	582	False	403.000000	403	79.863000	1092	1653	1	chr6A.!!$F1	561
10	TraesCS6D01G298700	chr6A	554867220	554867985	765	False	280.500000	318	87.857000	2734	3336	2	chr6A.!!$F3	602

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
393	405	0.963962	GACACACCTTCTACGGGACA	59.036	55.0	0.00	0.0	0.0	4.02	F
1695	2544	0.250124	TCGCGGGTCAAAATGTGTCT	60.250	50.0	6.13	0.0	0.0	3.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2272	3484	0.680618	TGGGCCTGTTGCAATTTCTG	59.319	50.0	0.59	0.0	43.89	3.02	R
3001	6583	1.416813	GCGCTGTCTGTCGAATGGAG	61.417	60.0	0.00	0.0	0.00	3.86	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
53	54	6.480763	TCCAACCACTTCTCAGCAAATTATA	58.519	36.000	0.00	0.00	0.00	0.98
61	62	8.127327	CACTTCTCAGCAAATTATATCTGGTTG	58.873	37.037	0.00	0.00	0.00	3.77
64	65	8.806429	TCTCAGCAAATTATATCTGGTTGAAA	57.194	30.769	0.00	0.00	0.00	2.69
80	81	4.679654	GGTTGAAATGATTTTCGTGACCAC	59.320	41.667	0.00	0.00	43.49	4.16
122	123	9.709495	TTTGATTTTCCATAAGATTTTCTGTGG	57.291	29.630	3.87	3.87	35.56	4.17
150	151	6.533730	TCCACTGTCAGAAATCATAGTTGTT	58.466	36.000	6.91	0.00	0.00	2.83
173	174	9.419297	TGTTTGTATAGTGACTTGATAGTGAAC	57.581	33.333	0.00	0.00	33.84	3.18
176	177	9.586435	TTGTATAGTGACTTGATAGTGAACATG	57.414	33.333	0.00	0.00	33.84	3.21
177	178	8.749354	TGTATAGTGACTTGATAGTGAACATGT	58.251	33.333	0.00	0.00	33.84	3.21
206	212	2.104622	TGTGTCCACATGTGACATGACT	59.895	45.455	30.26	7.72	36.21	3.41
216	222	6.533012	CACATGTGACATGACTAAGAGTAAGG	59.467	42.308	30.26	0.51	0.00	2.69
243	252	6.016527	ACGTTTAAGAAAGAAAGCTTAAGGGG	60.017	38.462	0.00	0.00	37.73	4.79
250	259	5.984695	AAGAAAGCTTAAGGGGACATTTC	57.015	39.130	0.00	0.00	31.07	2.17
268	280	6.005198	ACATTTCTATTAACCGGACCAAACA	58.995	36.000	9.46	0.00	0.00	2.83
311	323	2.379972	CACAGAGATACGAAGGAGGGT	58.620	52.381	0.00	0.00	0.00	4.34
333	345	1.502190	GTAAAGCACGGAGGCAAGC	59.498	57.895	0.00	0.00	35.83	4.01
351	363	1.445716	GCTGGAGCATTAGCAGCAGG	61.446	60.000	0.00	0.00	45.49	4.85
393	405	0.963962	GACACACCTTCTACGGGACA	59.036	55.000	0.00	0.00	0.00	4.02
407	419	4.996062	ACGGGACAAAAACATACTAACG	57.004	40.909	0.00	0.00	0.00	3.18
451	466	6.877611	AGTACTACAAATCCACCAACAAAG	57.122	37.500	0.00	0.00	0.00	2.77
466	481	1.209128	CAAAGCGACAGACAACGACT	58.791	50.000	0.00	0.00	0.00	4.18
476	491	3.555956	ACAGACAACGACTGACATTGTTC	59.444	43.478	0.00	0.00	36.70	3.18
490	505	2.719531	TTGTTCAAGGGCACACTACA	57.280	45.000	0.00	0.00	0.00	2.74
587	660	4.192317	GCACCTCGAAAGATAAATCCACT	58.808	43.478	0.00	0.00	40.84	4.00
684	1022	8.922676	CAATTGGATTTCAGAAGATTCACAAAG	58.077	33.333	0.00	0.00	0.00	2.77
755	1428	3.623510	GCCAAAAGTCTGATAGTACCAGC	59.376	47.826	0.00	0.00	0.00	4.85
756	1429	4.624125	GCCAAAAGTCTGATAGTACCAGCT	60.624	45.833	0.00	0.00	0.00	4.24
947	1693	4.134187	CGCGTGGACATGCACGTC	62.134	66.667	23.83	3.86	45.44	4.34
948	1694	4.134187	GCGTGGACATGCACGTCG	62.134	66.667	23.83	11.80	45.44	5.12
949	1695	2.733218	CGTGGACATGCACGTCGT	60.733	61.111	16.65	0.00	39.64	4.34
950	1696	2.716828	CGTGGACATGCACGTCGTC	61.717	63.158	16.65	3.00	39.64	4.20
951	1697	2.430075	TGGACATGCACGTCGTCG	60.430	61.111	6.86	0.00	43.34	5.12
952	1698	2.126618	GGACATGCACGTCGTCGA	60.127	61.111	9.47	0.00	40.62	4.20
953	1699	2.152699	GGACATGCACGTCGTCGAG	61.153	63.158	9.47	1.54	40.62	4.04
958	1704	2.945066	GCACGTCGTCGAGCTAGC	60.945	66.667	15.90	6.62	46.64	3.42
959	1705	2.785921	CACGTCGTCGAGCTAGCT	59.214	61.111	19.45	19.45	40.62	3.32
960	1706	1.581402	CACGTCGTCGAGCTAGCTG	60.581	63.158	24.99	14.56	40.62	4.24
1181	1946	3.391665	CTTCCTCCGCGCCCTCATT	62.392	63.158	0.00	0.00	0.00	2.57
1220	1988	4.760047	GTCGTCCCCACGCTGCAT	62.760	66.667	0.00	0.00	46.28	3.96
1295	2102	4.309950	GGCGTGGACGGGTGTCTT	62.310	66.667	0.71	0.00	44.83	3.01
1357	2173	4.394712	CGAGGGCGAAGGGTGCTT	62.395	66.667	0.00	0.00	40.82	3.91
1373	2189	4.105733	TTCGCCGCGAGCTTCGTA	62.106	61.111	16.14	0.00	42.81	3.43
1375	2191	2.877360	TTCGCCGCGAGCTTCGTAAT	62.877	55.000	16.14	0.00	42.81	1.89
1412	2228	3.781770	GATCACGCGCAGGAGGAGG	62.782	68.421	5.73	0.00	0.00	4.30
1527	2343	3.636313	TTCGACACCGCCGTGGATC	62.636	63.158	4.58	1.08	44.86	3.36
1642	2473	3.071023	TCTGTTTCTGATTCGTCTTGGGT	59.929	43.478	0.00	0.00	0.00	4.51
1695	2544	0.250124	TCGCGGGTCAAAATGTGTCT	60.250	50.000	6.13	0.00	0.00	3.41
1819	2717	1.287425	GTAAGCATGGCGACCTGTAC	58.713	55.000	0.00	0.00	0.00	2.90
1866	2764	1.321016	CACGTGCTTCAGAATTTGCG	58.679	50.000	0.82	0.00	0.00	4.85
1869	2767	2.096417	ACGTGCTTCAGAATTTGCGTAC	60.096	45.455	0.00	0.00	0.00	3.67
1904	2810	3.368948	CCACTCCCTCTTCTTCAGCTTAC	60.369	52.174	0.00	0.00	0.00	2.34
1923	2829	5.591472	GCTTACTAATTTTCCCGGGTAATGT	59.409	40.000	22.86	16.98	0.00	2.71
1924	2830	6.095860	GCTTACTAATTTTCCCGGGTAATGTT	59.904	38.462	22.86	16.72	0.00	2.71
1967	3175	6.890268	TCCTGAGTATAACATATATGAGCGGT	59.110	38.462	19.63	0.00	0.00	5.68
1988	3196	0.865111	TCGCTTGGTCATTCAACACG	59.135	50.000	0.00	0.00	0.00	4.49
2027	3237	7.465916	CGGAACATTGGTGATACACAATTCTAG	60.466	40.741	0.00	0.00	35.86	2.43
2028	3238	7.201732	GGAACATTGGTGATACACAATTCTAGG	60.202	40.741	0.00	0.00	35.86	3.02
2166	3376	4.415881	TCAAAGCACACAAGAACCTCTA	57.584	40.909	0.00	0.00	0.00	2.43
2167	3377	4.127171	TCAAAGCACACAAGAACCTCTAC	58.873	43.478	0.00	0.00	0.00	2.59
2168	3378	2.841442	AGCACACAAGAACCTCTACC	57.159	50.000	0.00	0.00	0.00	3.18
2170	3380	1.000506	GCACACAAGAACCTCTACCGA	59.999	52.381	0.00	0.00	0.00	4.69
2182	3392	4.138290	ACCTCTACCGACAGATGATGTAG	58.862	47.826	0.00	0.00	44.17	2.74
2198	3408	7.606839	AGATGATGTAGAATAATGACCATGCTG	59.393	37.037	0.00	0.00	0.00	4.41
2207	3418	2.079170	TGACCATGCTGAAAAACCCA	57.921	45.000	0.00	0.00	0.00	4.51
2208	3419	2.607499	TGACCATGCTGAAAAACCCAT	58.393	42.857	0.00	0.00	0.00	4.00
2210	3421	3.244146	TGACCATGCTGAAAAACCCATTG	60.244	43.478	0.00	0.00	0.00	2.82
2211	3422	2.705127	ACCATGCTGAAAAACCCATTGT	59.295	40.909	0.00	0.00	0.00	2.71
2212	3423	3.136260	ACCATGCTGAAAAACCCATTGTT	59.864	39.130	0.00	0.00	39.43	2.83
2227	3439	1.500474	TTGTTTGGGGCATTTGGACA	58.500	45.000	0.00	0.00	0.00	4.02
2228	3440	1.047002	TGTTTGGGGCATTTGGACAG	58.953	50.000	0.00	0.00	0.00	3.51
2287	3499	5.183713	TCATTCCTACAGAAATTGCAACAGG	59.816	40.000	0.00	0.22	38.21	4.00
2290	3502	0.681175	ACAGAAATTGCAACAGGCCC	59.319	50.000	0.00	0.00	43.89	5.80
2294	3506	2.372837	AGAAATTGCAACAGGCCCAAAT	59.627	40.909	0.00	0.00	43.89	2.32
2306	3518	7.201741	GCAACAGGCCCAAATTTTTAGTTTTAA	60.202	33.333	0.00	0.00	36.11	1.52
2308	3520	6.480651	ACAGGCCCAAATTTTTAGTTTTAACG	59.519	34.615	0.00	0.00	0.00	3.18
2391	3605	9.582223	GTTTCAACTCTTCAAACTTAATACGAG	57.418	33.333	0.00	0.00	0.00	4.18
2488	3703	0.320374	ACCCGAGTGAGAAAATCGCA	59.680	50.000	0.00	0.00	41.14	5.10
2490	3705	2.009774	CCCGAGTGAGAAAATCGCAAT	58.990	47.619	0.00	0.00	41.14	3.56
2540	3784	1.470098	CTTTCAAGCGGGATCCAACTG	59.530	52.381	15.23	5.09	0.00	3.16
2550	3794	1.269448	GGATCCAACTGCTTCGCAAAA	59.731	47.619	6.95	0.00	38.41	2.44
2608	3856	2.034687	GTGCTCCCACACCTGCAT	59.965	61.111	0.00	0.00	41.67	3.96
2624	3872	0.391528	GCATTGCCCCTGCGAATTTT	60.392	50.000	0.00	0.00	41.78	1.82
2727	3985	4.224274	TTTCGTGGACACCGGCGT	62.224	61.111	6.01	0.00	0.00	5.68
2823	4082	5.712152	TTTCTTTCAGGCCTTGATCTTTC	57.288	39.130	0.00	0.00	35.27	2.62
2883	6430	6.116680	GCATTTGGCAGATCATACTATAGC	57.883	41.667	0.00	0.00	43.97	2.97
2902	6483	1.269936	GCCATGTGTGAAAGCTTTGCT	60.270	47.619	18.30	0.00	42.56	3.91
2914	6495	2.602878	AGCTTTGCTTTTCGATGCATG	58.397	42.857	2.46	0.00	39.07	4.06
2918	6500	4.726416	CTTTGCTTTTCGATGCATGTACT	58.274	39.130	2.46	0.00	39.07	2.73
2919	6501	3.745332	TGCTTTTCGATGCATGTACTG	57.255	42.857	2.46	0.00	33.94	2.74
2995	6577	5.640147	TCCATTCATCCTAAACAAGTTGGT	58.360	37.500	7.96	0.00	0.00	3.67
3001	6583	3.547746	TCCTAAACAAGTTGGTGGTCAC	58.452	45.455	7.96	0.00	0.00	3.67
3002	6584	3.201266	TCCTAAACAAGTTGGTGGTCACT	59.799	43.478	7.96	0.00	0.00	3.41
3003	6585	3.564225	CCTAAACAAGTTGGTGGTCACTC	59.436	47.826	7.96	0.00	0.00	3.51
3004	6586	2.052782	AACAAGTTGGTGGTCACTCC	57.947	50.000	7.96	0.00	0.00	3.85
3005	6587	0.916086	ACAAGTTGGTGGTCACTCCA	59.084	50.000	7.96	0.00	45.01	3.86
3105	6718	7.688578	GTCACGTATTAGCTTGTTTCTGAAATC	59.311	37.037	6.06	1.53	0.00	2.17
3247	8616	6.627395	AGACCATTGTTTCACGTAATTTGA	57.373	33.333	0.00	0.00	0.00	2.69
3251	8620	5.118510	CCATTGTTTCACGTAATTTGAAGGC	59.881	40.000	0.00	0.00	34.50	4.35
3255	8624	0.450184	CACGTAATTTGAAGGCCCGG	59.550	55.000	0.00	0.00	0.00	5.73
3260	8629	3.119280	CGTAATTTGAAGGCCCGGAATTT	60.119	43.478	0.73	0.00	0.00	1.82

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
53	54	6.381801	GTCACGAAAATCATTTCAACCAGAT	58.618	36.000	0.00	0.00	44.24	2.90
61	62	6.084277	GGTTAGTGGTCACGAAAATCATTTC	58.916	40.000	0.00	0.00	41.27	2.17
64	65	4.647611	TGGTTAGTGGTCACGAAAATCAT	58.352	39.130	0.00	0.00	36.20	2.45
72	73	8.433421	AAATATTTCTATGGTTAGTGGTCACG	57.567	34.615	0.00	0.00	36.20	4.35
122	123	7.856145	ACTATGATTTCTGACAGTGGATTTC	57.144	36.000	1.59	0.00	0.00	2.17
150	151	9.586435	CATGTTCACTATCAAGTCACTATACAA	57.414	33.333	0.00	0.00	31.97	2.41
206	212	8.181904	TCTTTCTTAAACGTCCCTTACTCTTA	57.818	34.615	0.00	0.00	0.00	2.10
216	222	7.076362	CCTTAAGCTTTCTTTCTTAAACGTCC	58.924	38.462	3.20	0.00	35.22	4.79
243	252	6.149807	TGTTTGGTCCGGTTAATAGAAATGTC	59.850	38.462	0.00	0.00	0.00	3.06
250	259	3.437741	GTGGTGTTTGGTCCGGTTAATAG	59.562	47.826	0.00	0.00	0.00	1.73
268	280	7.833682	TGTGGATGATGTATTTTCATTAGTGGT	59.166	33.333	0.00	0.00	34.03	4.16
311	323	0.905809	TGCCTCCGTGCTTTACCCTA	60.906	55.000	0.00	0.00	0.00	3.53
333	345	1.445716	GCCTGCTGCTAATGCTCCAG	61.446	60.000	0.00	0.00	40.48	3.86
393	405	8.859517	TTTTTAAGCAGCGTTAGTATGTTTTT	57.140	26.923	0.00	0.00	0.00	1.94
407	419	6.510746	ACTTTCGTTGAATTTTTAAGCAGC	57.489	33.333	0.00	0.00	0.00	5.25
431	445	3.004315	CGCTTTGTTGGTGGATTTGTAGT	59.996	43.478	0.00	0.00	0.00	2.73
451	466	0.594028	TGTCAGTCGTTGTCTGTCGC	60.594	55.000	0.00	0.00	34.86	5.19
466	481	1.680735	GTGTGCCCTTGAACAATGTCA	59.319	47.619	0.00	0.00	0.00	3.58
476	491	3.987404	GGCTGTAGTGTGCCCTTG	58.013	61.111	0.00	0.00	43.11	3.61
490	505	3.010584	ACTGGGTGAGAATACAATTGGCT	59.989	43.478	10.83	1.31	0.00	4.75
494	538	8.877864	TCAAATTACTGGGTGAGAATACAATT	57.122	30.769	0.00	0.00	0.00	2.32
524	597	4.643334	TCCTAAGATCCTCGATTTCGTCAA	59.357	41.667	0.00	0.00	40.80	3.18
587	660	6.767524	ACATTTTTAGTCGCCATTTATCCA	57.232	33.333	0.00	0.00	0.00	3.41
639	719	9.688091	TCCAATTGTATACTGCTATTTTACCAA	57.312	29.630	4.43	0.00	0.00	3.67
807	1526	4.152223	CGATATTTGAGCTGTTCACACACA	59.848	41.667	0.00	0.00	34.94	3.72
808	1527	4.152402	ACGATATTTGAGCTGTTCACACAC	59.848	41.667	0.00	0.00	34.94	3.82
947	1693	1.281353	CTAGGCAGCTAGCTCGACG	59.719	63.158	16.15	4.66	44.79	5.12
948	1694	1.007849	GCTAGGCAGCTAGCTCGAC	60.008	63.158	16.15	12.99	46.32	4.20
949	1695	3.437867	GCTAGGCAGCTAGCTCGA	58.562	61.111	16.15	0.00	46.32	4.04
1220	1988	3.429141	GTGGACGACGGCTCGAGA	61.429	66.667	18.75	0.00	43.06	4.04
1292	2099	1.522806	AACGAACACGCAGCCAAGA	60.523	52.632	0.00	0.00	0.00	3.02
1295	2102	3.947841	GCAACGAACACGCAGCCA	61.948	61.111	0.00	0.00	0.00	4.75
1357	2173	3.405592	ATTACGAAGCTCGCGGCGA	62.406	57.895	24.84	24.84	45.12	5.54
1393	2209	3.781770	CTCCTCCTGCGCGTGATCC	62.782	68.421	8.43	0.00	0.00	3.36
1403	2219	3.382803	CTTGCTCCGCCTCCTCCTG	62.383	68.421	0.00	0.00	0.00	3.86
1412	2228	2.747855	CCCCTGAACTTGCTCCGC	60.748	66.667	0.00	0.00	0.00	5.54
1502	2318	4.980805	GCGGTGTCGAAGGTGCCA	62.981	66.667	0.00	0.00	39.00	4.92
1579	2395	2.975536	CGGCCGGGAAGTTGAGTA	59.024	61.111	20.10	0.00	0.00	2.59
1866	2764	4.139234	GGCGTCACGGGGAGGTAC	62.139	72.222	0.00	0.00	33.92	3.34
1967	3175	2.143122	GTGTTGAATGACCAAGCGAGA	58.857	47.619	0.00	0.00	0.00	4.04
1972	3180	2.217750	TGACCGTGTTGAATGACCAAG	58.782	47.619	0.00	0.00	0.00	3.61
1988	3196	4.692625	CCAATGTTCCGATATCATCTGACC	59.307	45.833	3.12	0.00	0.00	4.02
2027	3237	2.900716	AAAGATTCTAGAGCCGAGCC	57.099	50.000	0.00	0.00	0.00	4.70
2028	3238	3.558006	GGAAAAAGATTCTAGAGCCGAGC	59.442	47.826	0.00	0.00	0.00	5.03
2150	3360	1.000506	TCGGTAGAGGTTCTTGTGTGC	59.999	52.381	0.00	0.00	0.00	4.57
2166	3376	7.148641	GTCATTATTCTACATCATCTGTCGGT	58.851	38.462	0.00	0.00	39.39	4.69
2167	3377	6.587990	GGTCATTATTCTACATCATCTGTCGG	59.412	42.308	0.00	0.00	39.39	4.79
2168	3378	7.147976	TGGTCATTATTCTACATCATCTGTCG	58.852	38.462	0.00	0.00	39.39	4.35
2170	3380	7.389884	GCATGGTCATTATTCTACATCATCTGT	59.610	37.037	0.00	0.00	42.13	3.41
2182	3392	5.812127	GGGTTTTTCAGCATGGTCATTATTC	59.188	40.000	0.00	0.00	36.16	1.75
2207	3418	2.038820	CTGTCCAAATGCCCCAAACAAT	59.961	45.455	0.00	0.00	0.00	2.71
2208	3419	1.415659	CTGTCCAAATGCCCCAAACAA	59.584	47.619	0.00	0.00	0.00	2.83
2210	3421	1.337118	TCTGTCCAAATGCCCCAAAC	58.663	50.000	0.00	0.00	0.00	2.93
2211	3422	2.094100	TTCTGTCCAAATGCCCCAAA	57.906	45.000	0.00	0.00	0.00	3.28
2212	3423	2.094100	TTTCTGTCCAAATGCCCCAA	57.906	45.000	0.00	0.00	0.00	4.12
2272	3484	0.680618	TGGGCCTGTTGCAATTTCTG	59.319	50.000	0.59	0.00	43.89	3.02
2287	3499	9.938670	AAATTCGTTAAAACTAAAAATTTGGGC	57.061	25.926	0.00	0.00	0.00	5.36
2385	3599	2.288579	TGATTTTATCGGCCGCTCGTAT	60.289	45.455	23.51	11.29	0.00	3.06
2391	3605	3.559238	AATCATGATTTTATCGGCCGC	57.441	42.857	23.51	4.74	0.00	6.53
2470	3685	1.438651	TTGCGATTTTCTCACTCGGG	58.561	50.000	0.00	0.00	33.17	5.14
2495	3710	8.154856	AGCACAGTAGGTTTAAAGTTTCATCTA	58.845	33.333	0.00	0.00	0.00	1.98
2497	3712	7.203255	AGCACAGTAGGTTTAAAGTTTCATC	57.797	36.000	0.00	0.00	0.00	2.92
2498	3713	7.582667	AAGCACAGTAGGTTTAAAGTTTCAT	57.417	32.000	0.00	0.00	0.00	2.57
2567	3811	4.481195	GCCAAGTCTTGTCTGGCA	57.519	55.556	11.61	0.00	44.42	4.92
2608	3856	1.583986	CGAAAATTCGCAGGGGCAA	59.416	52.632	2.27	0.00	44.26	4.52
2624	3872	3.531538	AGAAGACAAGTTCAAGTTGCGA	58.468	40.909	4.76	0.00	31.85	5.10
2632	3880	2.956333	TCGACCTGAGAAGACAAGTTCA	59.044	45.455	0.00	0.00	0.00	3.18
2883	6430	2.806608	AGCAAAGCTTTCACACATGG	57.193	45.000	9.23	0.00	33.89	3.66
2902	6483	5.411053	TGTTCATCAGTACATGCATCGAAAA	59.589	36.000	0.00	0.00	0.00	2.29
2914	6495	4.702392	CGAAACTGCTTGTTCATCAGTAC	58.298	43.478	8.02	0.00	39.86	2.73
2918	6500	2.221169	AGCGAAACTGCTTGTTCATCA	58.779	42.857	0.00	0.00	44.46	3.07
2919	6501	2.977405	AGCGAAACTGCTTGTTCATC	57.023	45.000	0.00	0.00	44.46	2.92
3001	6583	1.416813	GCGCTGTCTGTCGAATGGAG	61.417	60.000	0.00	0.00	0.00	3.86
3002	6584	1.446099	GCGCTGTCTGTCGAATGGA	60.446	57.895	0.00	0.00	0.00	3.41
3003	6585	2.792290	CGCGCTGTCTGTCGAATGG	61.792	63.158	5.56	0.00	0.00	3.16
3004	6586	1.737196	CTCGCGCTGTCTGTCGAATG	61.737	60.000	5.56	0.00	0.00	2.67
3005	6587	1.515088	CTCGCGCTGTCTGTCGAAT	60.515	57.895	5.56	0.00	0.00	3.34
3105	6718	3.694734	ACAGAAACACGTCTTGCATTTG	58.305	40.909	0.00	0.00	0.00	2.32
3260	8629	9.745880	CCACTATAGTATCTTAGCGAAGAAAAA	57.254	33.333	13.49	0.00	44.85	1.94

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.