AutoCloner

Multiple sequence alignment - TraesCS4A01G106200

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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	TraesCS4A01G106200	chr4A	100.000	2732	0	0	1	2732	120376820	120379551	0.000000e+00	5046.0
1	TraesCS4A01G106200	chr4A	84.722	432	46	11	2312	2732	120201491	120201913	5.440000e-112	414.0
2	TraesCS4A01G106200	chr4A	86.486	74	8	2	1992	2063	633067039	633066966	2.260000e-11	80.5
3	TraesCS4A01G106200	chr1B	95.224	1026	46	2	1	1026	654303026	654302004	0.000000e+00	1620.0
4	TraesCS4A01G106200	chr1B	95.600	750	16	3	1020	1762	654296167	654295428	0.000000e+00	1186.0
5	TraesCS4A01G106200	chr7B	94.335	865	38	4	615	1470	704029880	704029018	0.000000e+00	1315.0
6	TraesCS4A01G106200	chr7B	96.644	149	5	0	1485	1633	704027105	704026957	5.840000e-62	248.0
7	TraesCS4A01G106200	chr7B	97.842	139	3	0	1625	1763	704011744	704011606	9.780000e-60	241.0
8	TraesCS4A01G106200	chr1D	80.235	1786	320	26	1	1769	492532074	492530305	0.000000e+00	1312.0
9	TraesCS4A01G106200	chr7D	80.135	1782	322	25	1	1766	117765338	117763573	0.000000e+00	1301.0
10	TraesCS4A01G106200	chr5D	80.124	1781	322	24	1	1765	259520921	259522685	0.000000e+00	1299.0
11	TraesCS4A01G106200	chr5D	82.143	84	10	3	1985	2063	26786115	26786032	1.760000e-07	67.6
12	TraesCS4A01G106200	chr3A	80.157	1779	315	29	1	1762	690082628	690084385	0.000000e+00	1295.0
13	TraesCS4A01G106200	chr3A	94.888	313	16	0	1240	1552	101662486	101662174	8.790000e-135	490.0
14	TraesCS4A01G106200	chr3A	95.111	225	10	1	1539	1762	101660198	101659974	1.200000e-93	353.0
15	TraesCS4A01G106200	chr6D	80.067	1781	323	25	1	1765	424731971	424733735	0.000000e+00	1293.0
16	TraesCS4A01G106200	chr2A	79.584	1778	333	24	1	1763	52481876	52480114	0.000000e+00	1245.0
17	TraesCS4A01G106200	chr2A	81.609	87	16	0	1986	2072	3529151	3529065	3.770000e-09	73.1
18	TraesCS4A01G106200	chr4D	79.370	1779	324	30	1	1763	278259557	278261308	0.000000e+00	1212.0
19	TraesCS4A01G106200	chr4D	92.389	565	27	8	2171	2732	345330379	345329828	0.000000e+00	791.0
20	TraesCS4A01G106200	chr4D	91.422	408	26	5	2334	2732	345343151	345342744	3.980000e-153	551.0
21	TraesCS4A01G106200	chr4D	93.069	101	7	0	1769	1869	345338418	345338318	6.100000e-32	148.0
22	TraesCS4A01G106200	chr4D	97.333	75	2	0	2067	2141	345330452	345330378	7.940000e-26	128.0
23	TraesCS4A01G106200	chr4B	94.374	551	24	2	2171	2721	427029337	427028794	0.000000e+00	839.0
24	TraesCS4A01G106200	chr4B	84.527	433	39	10	2312	2732	427035570	427035154	1.180000e-108	403.0
25	TraesCS4A01G106200	chr4B	92.000	225	15	2	1769	1991	427029629	427029406	2.040000e-81	313.0
26	TraesCS4A01G106200	chr4B	97.059	68	2	0	2074	2141	427029403	427029336	6.180000e-22	115.0
27	TraesCS4A01G106200	chr2D	84.536	97	14	1	1976	2072	588036167	588036262	8.050000e-16	95.3
28	TraesCS4A01G106200	chr1A	87.500	80	8	2	1983	2061	577833327	577833249	1.040000e-14	91.6
29	TraesCS4A01G106200	chr1A	87.302	63	8	0	1997	2059	399233047	399233109	3.770000e-09	73.1
30	TraesCS4A01G106200	chr3D	86.250	80	11	0	1985	2064	602747289	602747368	1.350000e-13	87.9
31	TraesCS4A01G106200	chr3D	82.955	88	15	0	1985	2072	389208190	389208277	2.260000e-11	80.5
32	TraesCS4A01G106200	chr7A	83.544	79	13	0	1985	2063	209406213	209406135	1.050000e-09	75.0
33	TraesCS4A01G106200	chr5B	90.000	50	5	0	1280	1329	460248245	460248294	6.310000e-07	65.8
34	TraesCS4A01G106200	chr5B	97.297	37	1	0	1293	1329	460246709	460246745	2.270000e-06	63.9

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	TraesCS4A01G106200	chr4A	120376820	120379551	2731	False	5046.000000	5046	100.000000	1	2732	1	chr4A.!!$F2	2731
1	TraesCS4A01G106200	chr1B	654302004	654303026	1022	True	1620.000000	1620	95.224000	1	1026	1	chr1B.!!$R2	1025
2	TraesCS4A01G106200	chr1B	654295428	654296167	739	True	1186.000000	1186	95.600000	1020	1762	1	chr1B.!!$R1	742
3	TraesCS4A01G106200	chr7B	704026957	704029880	2923	True	781.500000	1315	95.489500	615	1633	2	chr7B.!!$R2	1018
4	TraesCS4A01G106200	chr1D	492530305	492532074	1769	True	1312.000000	1312	80.235000	1	1769	1	chr1D.!!$R1	1768
5	TraesCS4A01G106200	chr7D	117763573	117765338	1765	True	1301.000000	1301	80.135000	1	1766	1	chr7D.!!$R1	1765
6	TraesCS4A01G106200	chr5D	259520921	259522685	1764	False	1299.000000	1299	80.124000	1	1765	1	chr5D.!!$F1	1764
7	TraesCS4A01G106200	chr3A	690082628	690084385	1757	False	1295.000000	1295	80.157000	1	1762	1	chr3A.!!$F1	1761
8	TraesCS4A01G106200	chr3A	101659974	101662486	2512	True	421.500000	490	94.999500	1240	1762	2	chr3A.!!$R1	522
9	TraesCS4A01G106200	chr6D	424731971	424733735	1764	False	1293.000000	1293	80.067000	1	1765	1	chr6D.!!$F1	1764
10	TraesCS4A01G106200	chr2A	52480114	52481876	1762	True	1245.000000	1245	79.584000	1	1763	1	chr2A.!!$R2	1762
11	TraesCS4A01G106200	chr4D	278259557	278261308	1751	False	1212.000000	1212	79.370000	1	1763	1	chr4D.!!$F1	1762
12	TraesCS4A01G106200	chr4D	345329828	345330452	624	True	459.500000	791	94.861000	2067	2732	2	chr4D.!!$R3	665
13	TraesCS4A01G106200	chr4B	427028794	427029629	835	True	422.333333	839	94.477667	1769	2721	3	chr4B.!!$R2	952

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
34	35	0.600255	GACCTCACACGGTTGGTCAG	60.600	60.0	14.98	0.0	45.87	3.51	F
1083	1094	1.021390	CGCCAATTGAAGCCTCGACT	61.021	55.0	7.12	0.0	0.00	4.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1163	1181	0.034059	CCGTCCTCCATAGGTGATGC	59.966	60.0	0.0	0.0	44.09	3.91	R
2165	6074	0.311477	TCCACGACGATGACGAACAA	59.689	50.0	0.0	0.0	42.66	2.83	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
34	35	0.600255	GACCTCACACGGTTGGTCAG	60.600	60.000	14.98	0.00	45.87	3.51
68	70	2.555227	GGGATCAAAGCAGGGTCAAAGA	60.555	50.000	0.00	0.00	0.00	2.52
154	156	5.470845	AGAGATTTTCGCATCTTTAACCG	57.529	39.130	0.00	0.00	33.36	4.44
167	169	2.524951	TTAACCGGGCCCTGTTAGCG	62.525	60.000	30.36	12.79	29.87	4.26
191	193	1.032114	AAGCTTGGCGCCTCATTACC	61.032	55.000	29.70	8.74	40.39	2.85
245	247	5.509716	AAGCAAAATATTACCCTAACGGC	57.490	39.130	0.00	0.00	33.26	5.68
981	992	1.119574	ACCTGCTGGACCGTTGTACT	61.120	55.000	17.64	0.00	37.04	2.73
1083	1094	1.021390	CGCCAATTGAAGCCTCGACT	61.021	55.000	7.12	0.00	0.00	4.18
1163	1181	3.817709	TGTTGCAAAAGGGAAGAAAGG	57.182	42.857	0.00	0.00	0.00	3.11
1339	1357	1.534175	GCATGGTCCTTCGAGACTACG	60.534	57.143	4.97	0.00	36.95	3.51
1527	3443	0.179045	CTGAAGCCAATAGGTCCCCG	60.179	60.000	0.00	0.00	37.19	5.73
1581	5487	0.596577	TAGCTAGCCGTCCGCATAAG	59.403	55.000	12.13	0.00	41.38	1.73
1824	5731	3.188100	CGATGACGCACATGCCGT	61.188	61.111	11.24	11.24	39.56	5.68
1870	5777	3.728845	CTTCAGTTTTCCTCTCCGTGAA	58.271	45.455	0.00	0.00	0.00	3.18
1916	5825	3.450817	AGCTTAACATAAAATGCCCCCAC	59.549	43.478	0.00	0.00	0.00	4.61
1919	5828	5.069781	GCTTAACATAAAATGCCCCCACATA	59.930	40.000	0.00	0.00	0.00	2.29
1926	5835	0.760189	ATGCCCCCACATAATGCACC	60.760	55.000	0.00	0.00	34.33	5.01
1928	5837	1.827789	CCCCCACATAATGCACCCG	60.828	63.158	0.00	0.00	0.00	5.28
1933	5842	1.875514	CCACATAATGCACCCGATCAG	59.124	52.381	0.00	0.00	0.00	2.90
1944	5853	0.036010	CCCGATCAGTTTGCCTCTGT	60.036	55.000	0.00	0.00	34.86	3.41
1952	5861	4.724399	TCAGTTTGCCTCTGTTTTATCCA	58.276	39.130	0.00	0.00	34.86	3.41
1961	5870	5.126061	GCCTCTGTTTTATCCAATCACACAT	59.874	40.000	0.00	0.00	0.00	3.21
1970	5879	2.164827	TCCAATCACACATGCATTGCTC	59.835	45.455	10.49	0.00	0.00	4.26
1988	5897	5.740290	TGCTCCAAAGTTAAGCTAGTACT	57.260	39.130	0.00	0.00	36.96	2.73
1991	5900	6.037726	GCTCCAAAGTTAAGCTAGTACTCTC	58.962	44.000	0.00	0.00	33.23	3.20
1992	5901	6.127563	GCTCCAAAGTTAAGCTAGTACTCTCT	60.128	42.308	0.00	0.00	33.23	3.10
1993	5902	7.393841	TCCAAAGTTAAGCTAGTACTCTCTC	57.606	40.000	0.00	0.00	0.00	3.20
1994	5903	6.377712	TCCAAAGTTAAGCTAGTACTCTCTCC	59.622	42.308	0.00	0.00	0.00	3.71
1995	5904	6.259638	CAAAGTTAAGCTAGTACTCTCTCCG	58.740	44.000	0.00	0.00	0.00	4.63
1996	5905	5.101648	AGTTAAGCTAGTACTCTCTCCGT	57.898	43.478	0.00	0.00	0.00	4.69
1997	5906	6.232581	AGTTAAGCTAGTACTCTCTCCGTA	57.767	41.667	0.00	0.00	0.00	4.02
1998	5907	6.648192	AGTTAAGCTAGTACTCTCTCCGTAA	58.352	40.000	0.00	0.00	0.00	3.18
1999	5908	7.108847	AGTTAAGCTAGTACTCTCTCCGTAAA	58.891	38.462	0.00	0.00	0.00	2.01
2000	5909	7.774625	AGTTAAGCTAGTACTCTCTCCGTAAAT	59.225	37.037	0.00	0.00	0.00	1.40
2001	5910	9.050601	GTTAAGCTAGTACTCTCTCCGTAAATA	57.949	37.037	0.00	0.00	0.00	1.40
2002	5911	9.618890	TTAAGCTAGTACTCTCTCCGTAAATAA	57.381	33.333	0.00	0.00	0.00	1.40
2003	5912	8.517062	AAGCTAGTACTCTCTCCGTAAATAAA	57.483	34.615	0.00	0.00	0.00	1.40
2004	5913	8.694581	AGCTAGTACTCTCTCCGTAAATAAAT	57.305	34.615	0.00	0.00	0.00	1.40
2005	5914	9.134055	AGCTAGTACTCTCTCCGTAAATAAATT	57.866	33.333	0.00	0.00	0.00	1.82
2006	5915	9.747293	GCTAGTACTCTCTCCGTAAATAAATTT	57.253	33.333	0.00	0.00	0.00	1.82
2141	6050	3.411517	ACTCCCATCCCAAGGCGG	61.412	66.667	0.00	0.00	0.00	6.13
2142	6051	4.883354	CTCCCATCCCAAGGCGGC	62.883	72.222	0.00	0.00	0.00	6.53
2145	6054	4.113815	CCATCCCAAGGCGGCTGA	62.114	66.667	14.21	6.03	0.00	4.26
2146	6055	2.515523	CATCCCAAGGCGGCTGAG	60.516	66.667	14.21	8.65	0.00	3.35
2147	6056	4.496336	ATCCCAAGGCGGCTGAGC	62.496	66.667	14.21	0.00	0.00	4.26
2157	6066	4.106925	GGCTGAGCCCTGGTCTGG	62.107	72.222	13.77	0.00	44.06	3.86
2158	6067	3.325753	GCTGAGCCCTGGTCTGGT	61.326	66.667	0.00	0.00	31.43	4.00
2159	6068	2.985456	CTGAGCCCTGGTCTGGTC	59.015	66.667	0.00	0.00	0.00	4.02
2160	6069	1.915266	CTGAGCCCTGGTCTGGTCA	60.915	63.158	3.83	3.83	37.43	4.02
2161	6070	1.229625	TGAGCCCTGGTCTGGTCAT	60.230	57.895	0.09	0.00	34.34	3.06
2162	6071	1.267574	TGAGCCCTGGTCTGGTCATC	61.268	60.000	0.09	0.00	34.34	2.92
2163	6072	0.980231	GAGCCCTGGTCTGGTCATCT	60.980	60.000	0.00	0.00	0.00	2.90
2164	6073	1.222936	GCCCTGGTCTGGTCATCTG	59.777	63.158	0.00	0.00	0.00	2.90
2165	6074	1.557269	GCCCTGGTCTGGTCATCTGT	61.557	60.000	0.00	0.00	0.00	3.41
2166	6075	0.987294	CCCTGGTCTGGTCATCTGTT	59.013	55.000	0.00	0.00	0.00	3.16
2167	6076	1.339438	CCCTGGTCTGGTCATCTGTTG	60.339	57.143	0.00	0.00	0.00	3.33
2168	6077	1.349026	CCTGGTCTGGTCATCTGTTGT	59.651	52.381	0.00	0.00	0.00	3.32
2169	6078	2.224621	CCTGGTCTGGTCATCTGTTGTT	60.225	50.000	0.00	0.00	0.00	2.83
2170	6079	3.070018	CTGGTCTGGTCATCTGTTGTTC	58.930	50.000	0.00	0.00	0.00	3.18
2171	6080	2.069273	GGTCTGGTCATCTGTTGTTCG	58.931	52.381	0.00	0.00	0.00	3.95
2250	6159	5.278266	CGCCAAAACAGAAGATTGTCCTAAA	60.278	40.000	0.00	0.00	0.00	1.85
2292	6201	0.249489	AGCGCTATAAAGCCGACCAG	60.249	55.000	8.99	0.00	46.68	4.00
2295	6204	2.800629	GCGCTATAAAGCCGACCAGTTA	60.801	50.000	0.00	0.00	46.68	2.24
2326	6235	2.875296	CATAGCTCCCACTCTAGCTCT	58.125	52.381	0.00	0.00	45.92	4.09
2327	6236	2.649531	TAGCTCCCACTCTAGCTCTC	57.350	55.000	0.00	0.00	45.92	3.20
2328	6237	0.628522	AGCTCCCACTCTAGCTCTCA	59.371	55.000	0.00	0.00	45.92	3.27
2329	6238	0.744281	GCTCCCACTCTAGCTCTCAC	59.256	60.000	0.00	0.00	35.80	3.51
2336	6245	2.179267	CTAGCTCTCACGCACGCA	59.821	61.111	0.00	0.00	0.00	5.24
2545	6454	2.098831	GGACGCCAACTACTTCCGC	61.099	63.158	0.00	0.00	0.00	5.54
2546	6455	1.080025	GACGCCAACTACTTCCGCT	60.080	57.895	0.00	0.00	0.00	5.52
2662	6577	5.451937	CGAGATGGTTAGTTTGAGCCTATGA	60.452	44.000	0.00	0.00	0.00	2.15
2706	6621	1.334992	CTCTCGTTGTACGTGTGCCG	61.335	60.000	0.00	0.00	43.14	5.69
2721	6636	1.677052	GTGCCGGTGGTAAAAAGAACA	59.323	47.619	1.90	0.00	0.00	3.18
2722	6637	2.295070	GTGCCGGTGGTAAAAAGAACAT	59.705	45.455	1.90	0.00	0.00	2.71
2723	6638	2.294791	TGCCGGTGGTAAAAAGAACATG	59.705	45.455	1.90	0.00	0.00	3.21
2725	6640	2.294791	CCGGTGGTAAAAAGAACATGCA	59.705	45.455	0.00	0.00	0.00	3.96
2726	6641	3.056891	CCGGTGGTAAAAAGAACATGCAT	60.057	43.478	0.00	0.00	0.00	3.96
2727	6642	3.919804	CGGTGGTAAAAAGAACATGCATG	59.080	43.478	25.09	25.09	0.00	4.06
2728	6643	4.558496	CGGTGGTAAAAAGAACATGCATGT	60.558	41.667	26.61	26.61	44.20	3.21
2729	6644	4.685628	GGTGGTAAAAAGAACATGCATGTG	59.314	41.667	31.98	9.68	41.61	3.21
2731	6646	5.752955	GTGGTAAAAAGAACATGCATGTGTT	59.247	36.000	31.98	24.00	44.53	3.32

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
34	35	2.302587	TGATCCCCACCAAAAGTTCC	57.697	50.000	0.00	0.00	0.00	3.62
68	70	1.326951	AAGCCCGCCAGTGTGTTTTT	61.327	50.000	0.00	0.00	0.00	1.94
191	193	1.541310	TACACAAGGAGTCCGGCCTG	61.541	60.000	2.76	0.00	35.50	4.85
245	247	1.059913	AAACTGTGTCCTCCAGGGAG	58.940	55.000	8.41	8.41	46.10	4.30
277	279	2.885113	CATGCCACGTCGGAGAGA	59.115	61.111	8.04	0.00	36.95	3.10
353	355	1.904852	GCCATATGCGGATGTGCTCG	61.905	60.000	8.17	0.00	35.36	5.03
392	394	2.363292	TAGGCCGGTAGGAGGTAGGC	62.363	65.000	1.90	0.00	46.51	3.93
555	557	1.096386	CAGGAGAGGACGTCCGGTAG	61.096	65.000	28.26	13.73	42.08	3.18
830	839	3.681897	GCTATGTATCCTCGCATTCCAAG	59.318	47.826	0.00	0.00	0.00	3.61
981	992	3.116977	TCATAGGAAGCCTCTCCTCATCA	60.117	47.826	2.97	0.00	42.53	3.07
1083	1094	7.225931	GTGTTGATGTAGCCGGATAAAAATCTA	59.774	37.037	5.05	1.96	0.00	1.98
1163	1181	0.034059	CCGTCCTCCATAGGTGATGC	59.966	60.000	0.00	0.00	44.09	3.91
1407	1425	2.108566	CCCTCCATGAGAGCTGCG	59.891	66.667	0.00	0.00	41.74	5.18
1527	3443	2.658422	CCAACCATGGCTGCAACC	59.342	61.111	13.04	0.00	40.58	3.77
1581	5487	8.131455	TCTGTTCTCGCTTAATTAACATGATC	57.869	34.615	0.00	0.00	30.33	2.92
1772	5679	0.670239	TGCTACGTCACAGCCACATG	60.670	55.000	6.36	0.00	38.29	3.21
1824	5731	1.257743	CACTCCCTCGTTCTCCTTGA	58.742	55.000	0.00	0.00	0.00	3.02
1909	5818	2.133641	GGGTGCATTATGTGGGGGC	61.134	63.158	0.00	0.00	0.00	5.80
1916	5825	3.793129	GCAAACTGATCGGGTGCATTATG	60.793	47.826	21.41	5.21	35.28	1.90
1919	5828	0.527565	GCAAACTGATCGGGTGCATT	59.472	50.000	21.41	0.00	35.28	3.56
1926	5835	1.813513	AACAGAGGCAAACTGATCGG	58.186	50.000	11.91	0.00	38.55	4.18
1928	5837	5.415701	TGGATAAAACAGAGGCAAACTGATC	59.584	40.000	11.91	0.00	38.55	2.92
1933	5842	5.863935	GTGATTGGATAAAACAGAGGCAAAC	59.136	40.000	0.00	0.00	0.00	2.93
1944	5853	5.581479	GCAATGCATGTGTGATTGGATAAAA	59.419	36.000	0.00	0.00	0.00	1.52
1952	5861	2.172679	TGGAGCAATGCATGTGTGATT	58.827	42.857	8.35	0.00	0.00	2.57
1961	5870	2.892852	AGCTTAACTTTGGAGCAATGCA	59.107	40.909	8.35	0.00	38.85	3.96
1970	5879	6.566141	GGAGAGAGTACTAGCTTAACTTTGG	58.434	44.000	0.00	0.00	0.00	3.28
2053	5962	9.059260	GGTTGTAGTGTACTTTTTCCATAAAGA	57.941	33.333	0.00	0.00	38.27	2.52
2054	5963	9.063615	AGGTTGTAGTGTACTTTTTCCATAAAG	57.936	33.333	0.00	0.00	40.23	1.85
2055	5964	8.983702	AGGTTGTAGTGTACTTTTTCCATAAA	57.016	30.769	0.00	0.00	0.00	1.40
2056	5965	7.662669	GGAGGTTGTAGTGTACTTTTTCCATAA	59.337	37.037	0.00	0.00	0.00	1.90
2057	5966	7.163441	GGAGGTTGTAGTGTACTTTTTCCATA	58.837	38.462	0.00	0.00	0.00	2.74
2058	5967	6.002082	GGAGGTTGTAGTGTACTTTTTCCAT	58.998	40.000	0.00	0.00	0.00	3.41
2059	5968	5.370679	GGAGGTTGTAGTGTACTTTTTCCA	58.629	41.667	0.00	0.00	0.00	3.53
2060	5969	4.758674	GGGAGGTTGTAGTGTACTTTTTCC	59.241	45.833	0.00	0.00	0.00	3.13
2061	5970	4.450080	CGGGAGGTTGTAGTGTACTTTTTC	59.550	45.833	0.00	0.00	0.00	2.29
2062	5971	4.101430	TCGGGAGGTTGTAGTGTACTTTTT	59.899	41.667	0.00	0.00	0.00	1.94
2063	5972	3.642848	TCGGGAGGTTGTAGTGTACTTTT	59.357	43.478	0.00	0.00	0.00	2.27
2064	5973	3.233507	TCGGGAGGTTGTAGTGTACTTT	58.766	45.455	0.00	0.00	0.00	2.66
2065	5974	2.880443	TCGGGAGGTTGTAGTGTACTT	58.120	47.619	0.00	0.00	0.00	2.24
2076	5985	1.049289	GCAGGGTCTATCGGGAGGTT	61.049	60.000	0.00	0.00	0.00	3.50
2141	6050	3.322318	GACCAGACCAGGGCTCAGC	62.322	68.421	0.00	0.00	32.29	4.26
2142	6051	1.270414	ATGACCAGACCAGGGCTCAG	61.270	60.000	0.00	0.00	37.66	3.35
2143	6052	1.229625	ATGACCAGACCAGGGCTCA	60.230	57.895	0.00	0.00	37.66	4.26
2144	6053	0.980231	AGATGACCAGACCAGGGCTC	60.980	60.000	0.00	0.00	37.66	4.70
2145	6054	1.081833	AGATGACCAGACCAGGGCT	59.918	57.895	0.00	0.00	37.66	5.19
2146	6055	1.222936	CAGATGACCAGACCAGGGC	59.777	63.158	0.00	0.00	37.13	5.19
2147	6056	0.987294	AACAGATGACCAGACCAGGG	59.013	55.000	0.00	0.00	0.00	4.45
2148	6057	1.349026	ACAACAGATGACCAGACCAGG	59.651	52.381	0.00	0.00	0.00	4.45
2149	6058	2.847327	ACAACAGATGACCAGACCAG	57.153	50.000	0.00	0.00	0.00	4.00
2150	6059	2.547855	CGAACAACAGATGACCAGACCA	60.548	50.000	0.00	0.00	0.00	4.02
2151	6060	2.069273	CGAACAACAGATGACCAGACC	58.931	52.381	0.00	0.00	0.00	3.85
2152	6061	2.731976	GACGAACAACAGATGACCAGAC	59.268	50.000	0.00	0.00	0.00	3.51
2153	6062	2.364002	TGACGAACAACAGATGACCAGA	59.636	45.455	0.00	0.00	0.00	3.86
2154	6063	2.754472	TGACGAACAACAGATGACCAG	58.246	47.619	0.00	0.00	0.00	4.00
2155	6064	2.900716	TGACGAACAACAGATGACCA	57.099	45.000	0.00	0.00	0.00	4.02
2156	6065	2.345641	CGATGACGAACAACAGATGACC	59.654	50.000	0.00	0.00	42.66	4.02
2157	6066	2.987149	ACGATGACGAACAACAGATGAC	59.013	45.455	0.00	0.00	42.66	3.06
2158	6067	3.242518	GACGATGACGAACAACAGATGA	58.757	45.455	0.00	0.00	42.66	2.92
2159	6068	2.026860	CGACGATGACGAACAACAGATG	59.973	50.000	0.00	0.00	42.66	2.90
2160	6069	2.251040	CGACGATGACGAACAACAGAT	58.749	47.619	0.00	0.00	42.66	2.90
2161	6070	1.002142	ACGACGATGACGAACAACAGA	60.002	47.619	0.00	0.00	42.66	3.41
2162	6071	1.122501	CACGACGATGACGAACAACAG	59.877	52.381	0.00	0.00	42.66	3.16
2163	6072	1.125270	CACGACGATGACGAACAACA	58.875	50.000	0.00	0.00	42.66	3.33
2164	6073	0.433492	CCACGACGATGACGAACAAC	59.567	55.000	0.00	0.00	42.66	3.32
2165	6074	0.311477	TCCACGACGATGACGAACAA	59.689	50.000	0.00	0.00	42.66	2.83
2166	6075	0.524414	ATCCACGACGATGACGAACA	59.476	50.000	0.00	0.00	42.66	3.18
2167	6076	1.625616	AATCCACGACGATGACGAAC	58.374	50.000	0.00	0.00	42.66	3.95
2168	6077	2.421073	ACTAATCCACGACGATGACGAA	59.579	45.455	0.00	0.00	42.66	3.85
2169	6078	2.011947	ACTAATCCACGACGATGACGA	58.988	47.619	0.00	0.00	42.66	4.20
2170	6079	2.373269	GACTAATCCACGACGATGACG	58.627	52.381	0.00	0.00	45.75	4.35
2171	6080	2.373269	CGACTAATCCACGACGATGAC	58.627	52.381	0.00	0.00	0.00	3.06
2250	6159	9.716507	CGCTAAATACAGTAGCATTGTTAATTT	57.283	29.630	4.49	0.00	43.48	1.82
2292	6201	3.246619	GAGCTATGCGCCTATGAGTAAC	58.753	50.000	4.18	0.00	40.39	2.50
2295	6204	0.605589	GGAGCTATGCGCCTATGAGT	59.394	55.000	4.18	0.00	44.91	3.41
2336	6245	3.991051	CGAGTGTGGAGGGTGCGT	61.991	66.667	0.00	0.00	0.00	5.24
2344	6253	2.916052	GCGAGTGGACGAGTGTGGA	61.916	63.158	0.00	0.00	35.09	4.02
2407	6316	4.856801	GCCCATCCATGGCGTCGT	62.857	66.667	6.96	0.00	46.70	4.34
2557	6466	4.798682	TTCCTCCTCCTCCCCCGC	62.799	72.222	0.00	0.00	0.00	6.13
2558	6467	2.040606	TTTCCTCCTCCTCCCCCG	59.959	66.667	0.00	0.00	0.00	5.73
2603	6518	2.356793	GCCATGCTCGCTCGCTAT	60.357	61.111	0.00	0.00	0.00	2.97
2662	6577	6.867293	GGCGTTATTTAGCAGTAGTATAGCTT	59.133	38.462	0.00	0.00	39.68	3.74
2684	6599	1.081641	ACACGTACAACGAGAGGCG	60.082	57.895	6.44	0.00	46.05	5.52
2706	6621	4.685628	CACATGCATGTTCTTTTTACCACC	59.314	41.667	29.48	0.00	39.39	4.61

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.