AutoCloner

Multiple sequence alignment - TraesCS3B01G037000

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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	TraesCS3B01G037000	chr3B	100.000	2662	0	0	1	2662	18002101	17999440	0.000000e+00	4916.0
1	TraesCS3B01G037000	chr3B	80.524	801	106	31	895	1670	18568536	18567761	1.070000e-158	569.0
2	TraesCS3B01G037000	chr3B	78.431	867	104	33	825	1667	18155606	18156413	3.080000e-134	488.0
3	TraesCS3B01G037000	chr3A	92.771	1079	65	7	595	1669	24758518	24759587	0.000000e+00	1548.0
4	TraesCS3B01G037000	chr3A	90.762	433	35	5	1	431	24757718	24758147	8.270000e-160	573.0
5	TraesCS3B01G037000	chr3A	79.001	781	106	35	895	1667	24679133	24678403	5.150000e-132	481.0
6	TraesCS3B01G037000	chr3A	78.894	796	99	29	895	1677	24612652	24611913	2.400000e-130	475.0
7	TraesCS3B01G037000	chr3A	79.545	176	30	1	1494	1669	24777087	24776918	1.290000e-23	121.0
8	TraesCS3B01G037000	chr3D	91.537	709	47	8	490	1190	12422888	12422185	0.000000e+00	965.0
9	TraesCS3B01G037000	chr3D	93.321	539	29	2	1252	1783	12422159	12421621	0.000000e+00	789.0
10	TraesCS3B01G037000	chr3D	90.676	429	33	6	4	429	12429465	12429041	4.970000e-157	564.0
11	TraesCS3B01G037000	chr3D	79.872	780	103	29	895	1667	12462643	12463375	3.040000e-144	521.0
12	TraesCS3B01G037000	chr3D	79.258	458	76	14	1229	1674	8851511	8851061	4.310000e-78	302.0
13	TraesCS3B01G037000	chr3D	93.333	195	12	1	236	429	12423340	12423146	1.210000e-73	287.0
14	TraesCS3B01G037000	chr7D	86.906	863	106	4	1800	2661	638409623	638408767	0.000000e+00	961.0
15	TraesCS3B01G037000	chr6D	86.845	859	103	7	1789	2642	134679598	134678745	0.000000e+00	952.0
16	TraesCS3B01G037000	chr1D	86.659	862	105	5	1801	2661	192916854	192916002	0.000000e+00	946.0
17	TraesCS3B01G037000	chr1D	85.495	848	114	7	1802	2646	81063167	81064008	0.000000e+00	876.0
18	TraesCS3B01G037000	chr2D	86.706	850	103	6	1802	2646	180336475	180335631	0.000000e+00	935.0
19	TraesCS3B01G037000	chr2D	82.203	118	12	6	1802	1917	458508000	458507890	2.820000e-15	93.5
20	TraesCS3B01G037000	chr5D	86.427	862	102	8	1802	2661	515237796	515238644	0.000000e+00	929.0
21	TraesCS3B01G037000	chr5D	85.947	861	106	5	1802	2661	358211793	358212639	0.000000e+00	905.0
22	TraesCS3B01G037000	chr4D	88.056	787	84	7	1877	2662	476862105	476861328	0.000000e+00	924.0
23	TraesCS3B01G037000	chr4D	86.268	852	105	6	1800	2644	53525451	53526297	0.000000e+00	915.0
24	TraesCS3B01G037000	chr2B	82.353	102	11	3	1800	1901	576807697	576807603	6.110000e-12	82.4

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	TraesCS3B01G037000	chr3B	17999440	18002101	2661	True	4916.000000	4916	100.000000	1	2662	1	chr3B.!!$R1	2661
1	TraesCS3B01G037000	chr3B	18567761	18568536	775	True	569.000000	569	80.524000	895	1670	1	chr3B.!!$R2	775
2	TraesCS3B01G037000	chr3B	18155606	18156413	807	False	488.000000	488	78.431000	825	1667	1	chr3B.!!$F1	842
3	TraesCS3B01G037000	chr3A	24757718	24759587	1869	False	1060.500000	1548	91.766500	1	1669	2	chr3A.!!$F1	1668
4	TraesCS3B01G037000	chr3A	24678403	24679133	730	True	481.000000	481	79.001000	895	1667	1	chr3A.!!$R2	772
5	TraesCS3B01G037000	chr3A	24611913	24612652	739	True	475.000000	475	78.894000	895	1677	1	chr3A.!!$R1	782
6	TraesCS3B01G037000	chr3D	12421621	12423340	1719	True	680.333333	965	92.730333	236	1783	3	chr3D.!!$R3	1547
7	TraesCS3B01G037000	chr3D	12462643	12463375	732	False	521.000000	521	79.872000	895	1667	1	chr3D.!!$F1	772
8	TraesCS3B01G037000	chr7D	638408767	638409623	856	True	961.000000	961	86.906000	1800	2661	1	chr7D.!!$R1	861
9	TraesCS3B01G037000	chr6D	134678745	134679598	853	True	952.000000	952	86.845000	1789	2642	1	chr6D.!!$R1	853
10	TraesCS3B01G037000	chr1D	192916002	192916854	852	True	946.000000	946	86.659000	1801	2661	1	chr1D.!!$R1	860
11	TraesCS3B01G037000	chr1D	81063167	81064008	841	False	876.000000	876	85.495000	1802	2646	1	chr1D.!!$F1	844
12	TraesCS3B01G037000	chr2D	180335631	180336475	844	True	935.000000	935	86.706000	1802	2646	1	chr2D.!!$R1	844
13	TraesCS3B01G037000	chr5D	515237796	515238644	848	False	929.000000	929	86.427000	1802	2661	1	chr5D.!!$F2	859
14	TraesCS3B01G037000	chr5D	358211793	358212639	846	False	905.000000	905	85.947000	1802	2661	1	chr5D.!!$F1	859
15	TraesCS3B01G037000	chr4D	476861328	476862105	777	True	924.000000	924	88.056000	1877	2662	1	chr4D.!!$R1	785
16	TraesCS3B01G037000	chr4D	53525451	53526297	846	False	915.000000	915	86.268000	1800	2644	1	chr4D.!!$F1	844

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
689	939	0.532862	AGTGAAGAAGCGTGGTGTGG	60.533	55.0	0.0	0.0	0.0	4.17	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1695	2010	0.254178	AAGGAGTAGGGACGTAGCGA	59.746	55.0	0.0	0.0	0.0	4.93	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
52	54	7.512992	ACAGAGATGGATAAATCTGGTTTAGG	58.487	38.462	6.07	0.00	42.76	2.69
53	55	7.127955	ACAGAGATGGATAAATCTGGTTTAGGT	59.872	37.037	6.07	0.00	42.76	3.08
99	101	2.760634	AAAAATCCCGGGAAACATGC	57.239	45.000	30.84	0.00	0.00	4.06
100	102	0.901827	AAAATCCCGGGAAACATGCC	59.098	50.000	30.84	0.00	0.00	4.40
102	104	0.684153	AATCCCGGGAAACATGCCTG	60.684	55.000	30.84	0.00	0.00	4.85
118	120	5.248477	ACATGCCTGAAGAAACCTAGTTCTA	59.752	40.000	0.00	0.00	36.84	2.10
130	132	9.403583	AGAAACCTAGTTCTATTTGTGTTTTGA	57.596	29.630	0.00	0.00	36.06	2.69
147	149	8.397906	TGTGTTTTGAAGTGTATTTTCTCTCAG	58.602	33.333	0.00	0.00	0.00	3.35
188	190	6.454795	TCAACTGGAAAAGGCATATGAAAAC	58.545	36.000	6.97	0.00	0.00	2.43
190	192	4.837860	ACTGGAAAAGGCATATGAAAACCA	59.162	37.500	6.97	6.74	0.00	3.67
204	206	4.013050	TGAAAACCAATGATCGTATGGCA	58.987	39.130	13.09	0.00	37.77	4.92
205	207	4.644234	TGAAAACCAATGATCGTATGGCAT	59.356	37.500	4.88	4.88	37.77	4.40
206	208	5.126869	TGAAAACCAATGATCGTATGGCATT	59.873	36.000	4.78	9.64	37.77	3.56
207	209	5.596836	AAACCAATGATCGTATGGCATTT	57.403	34.783	4.78	7.17	37.77	2.32
208	210	5.596836	AACCAATGATCGTATGGCATTTT	57.403	34.783	4.78	0.00	37.77	1.82
232	234	1.446907	CTCACAAATCTTGAGCCGCT	58.553	50.000	0.00	0.00	34.41	5.52
338	340	7.362401	CCAATGCTTTGTTAACTCAATCTAGCT	60.362	37.037	7.22	0.00	32.94	3.32
366	368	6.925610	AAAGCTTTTCCAAAACCAGATTTC	57.074	33.333	5.69	0.00	0.00	2.17
392	395	2.426842	AACTAGAGGCCCTTGAATGC	57.573	50.000	0.00	0.00	0.00	3.56
401	404	1.341080	CCCTTGAATGCCCAAACACT	58.659	50.000	0.00	0.00	0.00	3.55
431	434	2.167693	TCTAATAGGTCCTTGCACACCG	59.832	50.000	0.00	0.00	37.79	4.94
432	435	0.676782	AATAGGTCCTTGCACACCGC	60.677	55.000	0.00	0.00	37.79	5.68
446	449	5.932021	GCACACCGCAAAATTTCTAATAG	57.068	39.130	0.00	0.00	41.79	1.73
447	450	4.798387	GCACACCGCAAAATTTCTAATAGG	59.202	41.667	0.00	0.00	41.79	2.57
448	451	5.621329	GCACACCGCAAAATTTCTAATAGGT	60.621	40.000	0.00	0.00	41.79	3.08
449	452	6.027749	CACACCGCAAAATTTCTAATAGGTC	58.972	40.000	0.00	0.00	0.00	3.85
453	696	6.033966	CCGCAAAATTTCTAATAGGTCAACC	58.966	40.000	0.00	0.00	0.00	3.77
473	716	8.992073	GTCAACCATTTTGAATTAGCAAATCTT	58.008	29.630	0.00	0.00	37.57	2.40
482	725	6.642430	TGAATTAGCAAATCTTGATTTGGGG	58.358	36.000	27.08	11.04	40.76	4.96
483	726	6.213195	TGAATTAGCAAATCTTGATTTGGGGT	59.787	34.615	27.08	15.96	40.76	4.95
484	727	6.625532	ATTAGCAAATCTTGATTTGGGGTT	57.374	33.333	27.08	10.54	40.76	4.11
499	742	2.237143	TGGGGTTTGTCTAGCTCTCATG	59.763	50.000	0.00	0.00	0.00	3.07
502	745	4.434520	GGGTTTGTCTAGCTCTCATGTAC	58.565	47.826	0.00	0.00	0.00	2.90
503	746	4.081642	GGGTTTGTCTAGCTCTCATGTACA	60.082	45.833	0.00	0.00	0.00	2.90
606	855	9.906660	TTTTATGTGTTTGCTTAATCAAGTAGG	57.093	29.630	0.00	0.00	34.00	3.18
620	869	5.793034	TCAAGTAGGGTAGGAGTTAGACT	57.207	43.478	0.00	0.00	0.00	3.24
660	910	0.583438	CAGCAAATCCGGATGTAGCG	59.417	55.000	19.95	13.81	0.00	4.26
689	939	0.532862	AGTGAAGAAGCGTGGTGTGG	60.533	55.000	0.00	0.00	0.00	4.17
706	956	3.547468	GTGTGGACGCAATGCATTTTATC	59.453	43.478	9.83	7.09	0.00	1.75
818	1072	7.425606	GGTTTTAGTCAACACTTTGTCATCAT	58.574	34.615	0.00	0.00	33.62	2.45
863	1118	2.502947	TGTGATAGAGAGCTGCCATGTT	59.497	45.455	0.00	0.00	0.00	2.71
883	1140	2.010145	TGCGTATTCAAGTCTGCTCC	57.990	50.000	0.00	0.00	0.00	4.70
972	1243	1.135859	CGCTAGCTTGCCAGTTTCAAG	60.136	52.381	14.61	0.00	42.72	3.02
1102	1383	0.324614	TGTAGACGACGAGGTGGGTA	59.675	55.000	0.00	0.00	0.00	3.69
1139	1420	1.074248	AAGGCCAAGGTACGGTTGG	59.926	57.895	17.46	17.46	46.36	3.77
1208	1513	5.049612	CCATGATCCATGAAGAAACTGATCG	60.050	44.000	8.38	0.00	43.81	3.69
1296	1607	3.050275	GGAAGTGCTGTGACCGGC	61.050	66.667	0.00	0.00	43.67	6.13
1549	1860	2.435586	CGCTCCCACCTGCAAGAG	60.436	66.667	0.00	0.00	34.07	2.85
1695	2010	3.143675	GTGTGCACCATGATCGAGT	57.856	52.632	15.69	0.00	0.00	4.18
1714	2029	0.254178	TCGCTACGTCCCTACTCCTT	59.746	55.000	0.00	0.00	0.00	3.36
1717	2032	1.409942	GCTACGTCCCTACTCCTTCCT	60.410	57.143	0.00	0.00	0.00	3.36
1746	2061	1.962144	GCAGCCTGCAGTTTGTGAT	59.038	52.632	12.82	0.00	44.26	3.06
1786	2101	7.516198	AAATGGATAAGCAATCATGTACTCC	57.484	36.000	0.00	0.00	36.20	3.85
1787	2102	4.973168	TGGATAAGCAATCATGTACTCCC	58.027	43.478	0.00	0.00	36.20	4.30
1788	2103	4.660303	TGGATAAGCAATCATGTACTCCCT	59.340	41.667	0.00	0.00	36.20	4.20
1789	2104	5.221722	TGGATAAGCAATCATGTACTCCCTC	60.222	44.000	0.00	0.00	36.20	4.30
1790	2105	2.898729	AGCAATCATGTACTCCCTCG	57.101	50.000	0.00	0.00	0.00	4.63
1791	2106	2.388735	AGCAATCATGTACTCCCTCGA	58.611	47.619	0.00	0.00	0.00	4.04
1792	2107	2.968574	AGCAATCATGTACTCCCTCGAT	59.031	45.455	0.00	0.00	0.00	3.59
1793	2108	3.006323	AGCAATCATGTACTCCCTCGATC	59.994	47.826	0.00	0.00	0.00	3.69
1794	2109	3.862642	GCAATCATGTACTCCCTCGATCC	60.863	52.174	0.00	0.00	0.00	3.36
1795	2110	1.996798	TCATGTACTCCCTCGATCCC	58.003	55.000	0.00	0.00	0.00	3.85
1796	2111	1.216930	TCATGTACTCCCTCGATCCCA	59.783	52.381	0.00	0.00	0.00	4.37
1797	2112	2.039418	CATGTACTCCCTCGATCCCAA	58.961	52.381	0.00	0.00	0.00	4.12
1798	2113	2.241281	TGTACTCCCTCGATCCCAAA	57.759	50.000	0.00	0.00	0.00	3.28
1864	2179	2.799916	GCGGACACGTGACGTCTC	60.800	66.667	25.01	6.19	43.45	3.36
1893	2208	2.033448	GGACAATGACCGGGCACA	59.967	61.111	15.41	6.40	0.00	4.57
1904	2219	1.253100	CCGGGCACACCTTAAATTGT	58.747	50.000	0.00	0.00	36.97	2.71
1984	2304	6.507456	GCAACGTCGATCAAATTACGTAGATT	60.507	38.462	0.00	0.00	46.89	2.40
1991	2311	6.308282	CGATCAAATTACGTAGATTAGCTCCC	59.692	42.308	0.00	0.00	0.00	4.30
2007	2327	2.682856	GCTCCCGACATAGAAATTGCAA	59.317	45.455	0.00	0.00	0.00	4.08
2056	2376	3.095102	TCACATAAACGACGGACAACA	57.905	42.857	0.00	0.00	0.00	3.33
2144	2464	1.227147	GTCGCCGGCATAGCTGTAA	60.227	57.895	28.98	0.00	32.22	2.41
2147	2467	1.153249	GCCGGCATAGCTGTAACCA	60.153	57.895	24.80	0.00	32.22	3.67
2192	2512	2.856039	ATTCGTCGGAGGAGGAGCCA	62.856	60.000	0.31	0.00	38.23	4.75
2236	2562	0.179000	ATGATGACGAGGCCCTTGAC	59.821	55.000	4.57	0.00	0.00	3.18
2306	2632	1.208293	GTCTCCTTCGCCTTCTCCAAT	59.792	52.381	0.00	0.00	0.00	3.16
2331	2658	3.069980	GCTCGGACTGCTCGATGGT	62.070	63.158	0.00	0.00	36.01	3.55
2437	2764	2.680352	GGTCGCTGGTCCTCCTCA	60.680	66.667	0.00	0.00	34.23	3.86
2438	2765	2.283529	GGTCGCTGGTCCTCCTCAA	61.284	63.158	0.00	0.00	34.23	3.02
2454	2781	3.001406	AAGCTCCGCCGGTAACCT	61.001	61.111	1.63	0.00	0.00	3.50
2649	2979	4.742201	GGAAGCAGCAGCCGACGA	62.742	66.667	0.00	0.00	43.56	4.20

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
64	66	8.145767	CCGGGATTTTTAAGAAGGTTTTTAGTT	58.854	33.333	0.00	0.00	0.00	2.24
99	101	7.661847	ACACAAATAGAACTAGGTTTCTTCAGG	59.338	37.037	1.31	0.00	37.09	3.86
100	102	8.608844	ACACAAATAGAACTAGGTTTCTTCAG	57.391	34.615	1.31	0.00	37.09	3.02
130	132	7.234355	ACCCATTTCTGAGAGAAAATACACTT	58.766	34.615	3.01	0.00	46.08	3.16
131	133	6.784031	ACCCATTTCTGAGAGAAAATACACT	58.216	36.000	3.01	0.00	46.08	3.55
132	134	7.454260	AACCCATTTCTGAGAGAAAATACAC	57.546	36.000	3.01	0.00	46.08	2.90
147	149	5.985530	CCAGTTGAAAAGAGAAACCCATTTC	59.014	40.000	0.00	0.00	44.02	2.17
169	171	5.815233	TTGGTTTTCATATGCCTTTTCCA	57.185	34.783	0.00	0.00	0.00	3.53
217	219	1.159285	TGTCAGCGGCTCAAGATTTG	58.841	50.000	0.00	0.00	0.00	2.32
232	234	0.321564	CATCAGGCGTCCCTTTGTCA	60.322	55.000	0.00	0.00	40.33	3.58
338	340	8.800370	ATCTGGTTTTGGAAAAGCTTTAAAAA	57.200	26.923	13.10	15.66	44.37	1.94
386	389	1.117994	TTGCAGTGTTTGGGCATTCA	58.882	45.000	0.00	0.00	37.39	2.57
392	395	7.331687	CCTATTAGAAATTTTGCAGTGTTTGGG	59.668	37.037	0.00	0.00	0.00	4.12
401	404	6.210385	TGCAAGGACCTATTAGAAATTTTGCA	59.790	34.615	5.23	5.23	43.12	4.08
431	434	9.435688	AAATGGTTGACCTATTAGAAATTTTGC	57.564	29.630	1.34	0.00	36.82	3.68
440	443	9.736023	GCTAATTCAAAATGGTTGACCTATTAG	57.264	33.333	1.34	11.32	33.82	1.73
442	445	8.133024	TGCTAATTCAAAATGGTTGACCTATT	57.867	30.769	1.34	0.00	36.82	1.73
445	448	6.418057	TTGCTAATTCAAAATGGTTGACCT	57.582	33.333	1.34	0.00	36.82	3.85
446	449	7.603784	AGATTTGCTAATTCAAAATGGTTGACC	59.396	33.333	0.00	0.00	39.13	4.02
447	450	8.538409	AGATTTGCTAATTCAAAATGGTTGAC	57.462	30.769	0.00	0.00	39.13	3.18
448	451	8.991026	CAAGATTTGCTAATTCAAAATGGTTGA	58.009	29.630	0.00	0.00	39.13	3.18
449	452	8.991026	TCAAGATTTGCTAATTCAAAATGGTTG	58.009	29.630	0.00	2.88	39.13	3.77
473	716	3.330701	AGAGCTAGACAAACCCCAAATCA	59.669	43.478	0.00	0.00	0.00	2.57
482	725	6.813649	TCATTGTACATGAGAGCTAGACAAAC	59.186	38.462	0.00	0.00	0.00	2.93
483	726	6.935167	TCATTGTACATGAGAGCTAGACAAA	58.065	36.000	0.00	0.00	0.00	2.83
484	727	6.378280	TCTCATTGTACATGAGAGCTAGACAA	59.622	38.462	23.03	7.91	46.66	3.18
539	786	0.183014	TCCCAGCGTAAAACCCAACA	59.817	50.000	0.00	0.00	0.00	3.33
584	831	6.010219	ACCCTACTTGATTAAGCAAACACAT	58.990	36.000	7.66	0.00	37.43	3.21
586	833	5.959618	ACCCTACTTGATTAAGCAAACAC	57.040	39.130	7.66	0.00	37.43	3.32
587	834	6.013206	TCCTACCCTACTTGATTAAGCAAACA	60.013	38.462	7.66	0.00	37.43	2.83
591	838	5.278061	ACTCCTACCCTACTTGATTAAGCA	58.722	41.667	0.00	0.00	37.43	3.91
592	839	5.873146	ACTCCTACCCTACTTGATTAAGC	57.127	43.478	0.00	0.00	37.43	3.09
593	840	8.631797	GTCTAACTCCTACCCTACTTGATTAAG	58.368	40.741	0.00	0.00	39.86	1.85
606	855	7.465353	AACAAAGTCTAGTCTAACTCCTACC	57.535	40.000	0.00	0.00	0.00	3.18
620	869	7.394016	TGCTGGATGAGAATTAACAAAGTCTA	58.606	34.615	0.00	0.00	0.00	2.59
660	910	2.067013	GCTTCTTCACTCGTGGGTAAC	58.933	52.381	0.00	0.00	0.00	2.50
689	939	4.609947	TGATGGATAAAATGCATTGCGTC	58.390	39.130	13.82	10.69	41.66	5.19
706	956	1.290203	CGTCCGGAATTGACTGATGG	58.710	55.000	5.23	0.00	0.00	3.51
818	1072	7.396339	ACATATGCGTGGATAAGGACTATAGAA	59.604	37.037	6.78	0.00	0.00	2.10
863	1118	2.028112	AGGAGCAGACTTGAATACGCAA	60.028	45.455	0.00	0.00	0.00	4.85
883	1140	2.423185	TGGAAATCGCTACCAATGCAAG	59.577	45.455	0.00	0.00	0.00	4.01
972	1243	1.568612	TACTGAGCTTGCTTGTGCGC	61.569	55.000	0.00	0.00	43.34	6.09
1033	1308	2.156917	CTCCAGTGAAAGCATCAGCAA	58.843	47.619	0.00	0.00	45.49	3.91
1073	1354	2.754658	CGTCTACAGAGGGGCGGT	60.755	66.667	0.00	0.00	0.00	5.68
1086	1367	1.676967	GGTACCCACCTCGTCGTCT	60.677	63.158	0.00	0.00	42.11	4.18
1102	1383	2.586792	GCTCGGCAGGAGAATGGT	59.413	61.111	8.09	0.00	46.23	3.55
1208	1513	1.069906	CAGTTAACGTGGTGAAGCTGC	60.070	52.381	0.00	0.00	0.00	5.25
1296	1607	4.446413	GGACCTGGTACACCGCGG	62.446	72.222	26.86	26.86	39.43	6.46
1304	1615	2.766651	GGCGGGATGGACCTGGTA	60.767	66.667	0.00	0.00	44.77	3.25
1442	1753	2.524640	TCCCACGGCCGGCATATA	60.525	61.111	31.76	6.59	0.00	0.86
1475	1786	2.280797	TCTGTCTTGGTGCACGCC	60.281	61.111	11.45	0.00	0.00	5.68
1556	1867	4.353437	GGGTTCGACGTGGACGCT	62.353	66.667	0.00	0.00	44.43	5.07
1569	1880	1.835712	AGACGTTGAGGGACGGGTT	60.836	57.895	0.00	0.00	46.77	4.11
1574	1885	0.951040	CCTTGCAGACGTTGAGGGAC	60.951	60.000	0.00	0.00	0.00	4.46
1695	2010	0.254178	AAGGAGTAGGGACGTAGCGA	59.746	55.000	0.00	0.00	0.00	4.93
1769	2084	3.958147	TCGAGGGAGTACATGATTGCTTA	59.042	43.478	0.00	0.00	0.00	3.09
1783	2098	3.556004	GCTCTTATTTGGGATCGAGGGAG	60.556	52.174	0.00	0.00	0.00	4.30
1784	2099	2.368875	GCTCTTATTTGGGATCGAGGGA	59.631	50.000	0.00	0.00	0.00	4.20
1785	2100	2.104792	TGCTCTTATTTGGGATCGAGGG	59.895	50.000	0.00	0.00	0.00	4.30
1786	2101	3.475566	TGCTCTTATTTGGGATCGAGG	57.524	47.619	0.00	0.00	0.00	4.63
1787	2102	4.892433	AGATGCTCTTATTTGGGATCGAG	58.108	43.478	0.00	0.00	33.97	4.04
1788	2103	4.963318	AGATGCTCTTATTTGGGATCGA	57.037	40.909	0.00	0.00	33.97	3.59
1789	2104	5.541845	TGTAGATGCTCTTATTTGGGATCG	58.458	41.667	0.00	0.00	33.97	3.69
1790	2105	5.411053	GCTGTAGATGCTCTTATTTGGGATC	59.589	44.000	0.00	0.00	0.00	3.36
1791	2106	5.312079	GCTGTAGATGCTCTTATTTGGGAT	58.688	41.667	0.00	0.00	0.00	3.85
1792	2107	4.444876	GGCTGTAGATGCTCTTATTTGGGA	60.445	45.833	0.00	0.00	0.00	4.37
1793	2108	3.817647	GGCTGTAGATGCTCTTATTTGGG	59.182	47.826	0.00	0.00	0.00	4.12
1794	2109	3.496130	CGGCTGTAGATGCTCTTATTTGG	59.504	47.826	0.00	0.00	0.00	3.28
1795	2110	3.496130	CCGGCTGTAGATGCTCTTATTTG	59.504	47.826	0.00	0.00	0.00	2.32
1796	2111	3.388024	TCCGGCTGTAGATGCTCTTATTT	59.612	43.478	0.00	0.00	0.00	1.40
1797	2112	2.965831	TCCGGCTGTAGATGCTCTTATT	59.034	45.455	0.00	0.00	0.00	1.40
1798	2113	2.297597	GTCCGGCTGTAGATGCTCTTAT	59.702	50.000	0.00	0.00	0.00	1.73
1881	2196	0.402504	TTTAAGGTGTGCCCGGTCAT	59.597	50.000	0.00	0.00	38.74	3.06
1984	2304	3.133901	TGCAATTTCTATGTCGGGAGCTA	59.866	43.478	0.00	0.00	0.00	3.32
1991	2311	6.585702	TGAACCATTTTGCAATTTCTATGTCG	59.414	34.615	0.00	0.00	0.00	4.35
2007	2327	4.040339	GGTGGATCTTTTGGTGAACCATTT	59.960	41.667	2.34	0.00	46.97	2.32
2092	2412	4.760047	CGGCCCGGAAGTGGTGAG	62.760	72.222	0.73	0.00	0.00	3.51
2147	2467	1.274703	ATCCTCCACCAGCCGACAAT	61.275	55.000	0.00	0.00	0.00	2.71
2236	2562	4.619227	ACCGGGTTGTCCAGTGCG	62.619	66.667	6.32	0.00	34.36	5.34
2285	2611	0.541998	TGGAGAAGGCGAAGGAGACA	60.542	55.000	0.00	0.00	0.00	3.41
2287	2613	1.208052	CATTGGAGAAGGCGAAGGAGA	59.792	52.381	0.00	0.00	0.00	3.71
2331	2658	3.906720	ACGCTAAGGATCTTTGGCTTA	57.093	42.857	20.82	6.34	32.97	3.09
2337	2664	3.522553	CGGAAGAACGCTAAGGATCTTT	58.477	45.455	0.00	0.00	32.60	2.52
2342	2669	1.217244	GCCGGAAGAACGCTAAGGA	59.783	57.895	5.05	0.00	0.00	3.36
2420	2747	2.232298	CTTGAGGAGGACCAGCGACC	62.232	65.000	0.00	0.00	38.94	4.79
2422	2749	2.650116	GCTTGAGGAGGACCAGCGA	61.650	63.158	0.00	0.00	38.94	4.93
2565	2892	4.603535	GGTGGGTGCTTGTGCCCT	62.604	66.667	0.00	0.00	45.06	5.19
2601	2930	1.297689	CTCACCTTGCTGGCTGCTA	59.702	57.895	17.45	9.07	43.37	3.49

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.