AutoCloner

Multiple sequence alignment - TraesCS7A01G294000

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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	TraesCS7A01G294000	chr7A	100.000	5265	0	0	1	5265	377976722	377981986	0.000000e+00	9723.0
1	TraesCS7A01G294000	chr7A	76.339	1158	260	12	3064	4214	536510901	536509751	4.510000e-170	608.0
2	TraesCS7A01G294000	chr7D	98.093	3985	51	12	762	4737	355565816	355561848	0.000000e+00	6914.0
3	TraesCS7A01G294000	chr7D	92.572	727	49	5	7	731	355567267	355566544	0.000000e+00	1038.0
4	TraesCS7A01G294000	chr7D	76.930	1114	241	14	3064	4169	463890941	463892046	2.080000e-173	619.0
5	TraesCS7A01G294000	chr7D	94.737	38	2	0	1699	1736	100653394	100653431	5.690000e-05	60.2
6	TraesCS7A01G294000	chr7B	98.295	3460	47	7	793	4244	307366807	307363352	0.000000e+00	6052.0
7	TraesCS7A01G294000	chr7B	76.655	1118	249	10	3064	4175	487804582	487803471	4.510000e-170	608.0
8	TraesCS7A01G294000	chr7B	85.144	626	46	22	4641	5265	307362769	307362190	9.760000e-167	597.0
9	TraesCS7A01G294000	chr7B	89.009	464	41	4	273	731	307369191	307368733	2.750000e-157	566.0
10	TraesCS7A01G294000	chr7B	95.370	324	14	1	4200	4523	307363357	307363035	1.010000e-141	514.0
11	TraesCS7A01G294000	chr7B	83.302	527	43	9	3364	3885	740543522	740544008	1.350000e-120	444.0
12	TraesCS7A01G294000	chr7B	95.408	196	5	4	4441	4635	307363047	307362855	5.120000e-80	309.0
13	TraesCS7A01G294000	chr7B	89.781	137	14	0	1	137	307378219	307378083	5.420000e-40	176.0
14	TraesCS7A01G294000	chr7B	92.857	84	4	2	4441	4523	307363082	307363000	2.580000e-23	121.0
15	TraesCS7A01G294000	chr7B	89.583	96	9	1	134	228	307369297	307369202	2.580000e-23	121.0
16	TraesCS7A01G294000	chr7B	94.737	38	2	0	1699	1736	56364607	56364644	5.690000e-05	60.2
17	TraesCS7A01G294000	chr7B	94.737	38	2	0	1699	1736	56990916	56990879	5.690000e-05	60.2
18	TraesCS7A01G294000	chr5B	79.120	1159	236	6	3056	4211	541611662	541612817	0.000000e+00	795.0
19	TraesCS7A01G294000	chr5D	81.395	559	62	19	4720	5265	346304101	346303572	8.150000e-113	418.0
20	TraesCS7A01G294000	chr2D	81.972	355	53	9	2048	2395	644708503	644708853	1.850000e-74	291.0
21	TraesCS7A01G294000	chr2D	94.444	36	2	0	1701	1736	367587449	367587484	7.370000e-04	56.5
22	TraesCS7A01G294000	chr2A	81.690	355	54	9	2048	2395	769973315	769973665	8.630000e-73	285.0
23	TraesCS7A01G294000	chr5A	83.258	221	18	7	5046	5265	479603628	479603830	9.000000e-43	185.0
24	TraesCS7A01G294000	chr5A	82.960	223	19	7	5044	5265	479606527	479606731	3.240000e-42	183.0
25	TraesCS7A01G294000	chr5A	90.000	120	7	1	5146	5265	445013714	445013828	3.280000e-32	150.0
26	TraesCS7A01G294000	chr5A	94.444	36	2	0	1701	1736	475529271	475529306	7.370000e-04	56.5
27	TraesCS7A01G294000	chr4A	92.453	53	3	1	476	527	517892919	517892867	2.030000e-09	75.0
28	TraesCS7A01G294000	chr4A	93.878	49	3	0	476	524	625489118	625489166	2.030000e-09	75.0
29	TraesCS7A01G294000	chr1B	94.737	38	2	0	1699	1736	414159111	414159074	5.690000e-05	60.2
30	TraesCS7A01G294000	chr1A	94.444	36	1	1	1702	1737	528069414	528069448	3.000000e-03	54.7

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	TraesCS7A01G294000	chr7A	377976722	377981986	5264	False	9723.000000	9723	100.0000	1	5265	1	chr7A.!!$F1	5264
1	TraesCS7A01G294000	chr7A	536509751	536510901	1150	True	608.000000	608	76.3390	3064	4214	1	chr7A.!!$R1	1150
2	TraesCS7A01G294000	chr7D	355561848	355567267	5419	True	3976.000000	6914	95.3325	7	4737	2	chr7D.!!$R1	4730
3	TraesCS7A01G294000	chr7D	463890941	463892046	1105	False	619.000000	619	76.9300	3064	4169	1	chr7D.!!$F2	1105
4	TraesCS7A01G294000	chr7B	307362190	307369297	7107	True	1182.857143	6052	92.2380	134	5265	7	chr7B.!!$R4	5131
5	TraesCS7A01G294000	chr7B	487803471	487804582	1111	True	608.000000	608	76.6550	3064	4175	1	chr7B.!!$R3	1111
6	TraesCS7A01G294000	chr5B	541611662	541612817	1155	False	795.000000	795	79.1200	3056	4211	1	chr5B.!!$F1	1155
7	TraesCS7A01G294000	chr5D	346303572	346304101	529	True	418.000000	418	81.3950	4720	5265	1	chr5D.!!$R1	545

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
555	564	0.097674	CTTCATTTGCGCCCTCTTCG	59.902	55.000	4.18	0.00	0.00	3.79	F
718	727	0.245539	CGGTCCGCCTCTCTTGTTTA	59.754	55.000	0.00	0.00	0.00	2.01	F
753	827	0.317436	TTTTGCGTTCGTGTCATGCC	60.317	50.000	0.00	0.00	0.00	4.40	F
1695	4050	0.465460	TGTGTGGCCCTTCTCAACAC	60.465	55.000	12.14	12.14	0.00	3.32	F
3197	5553	2.097954	GGTTGCAATGATCATGCTTCGA	59.902	45.455	22.27	6.98	44.14	3.71	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1644	3999	4.223144	ACTCCAGTTTTAAAGGCCAATGT	58.777	39.130	5.01	0.00	2.71	R
1695	4050	5.428496	TTGAATCAAAGAAGCACTGACAG	57.572	39.130	0.00	0.00	3.51	R
2806	5162	3.594134	CAAGTGGTCAGATGAGTCTTCC	58.406	50.000	2.52	30.42	3.46	R
4223	6579	7.287061	TGTCAACAGAAAATTAGGGAGAAGAA	58.713	34.615	0.00	0.00	2.52	R
4744	7289	0.178533	ACGACAAAACTCCCGGTCAA	59.821	50.000	0.00	0.00	3.18	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
62	63	1.153168	GCTTGATTCCCTAGCGGCA	60.153	57.895	1.45	0.00	34.24	5.69
63	64	1.162800	GCTTGATTCCCTAGCGGCAG	61.163	60.000	1.45	0.00	34.24	4.85
103	105	0.814457	GCTTGGTGTTGTGGTGTTCA	59.186	50.000	0.00	0.00	0.00	3.18
172	174	1.367471	CTGTGGACCTGCGTTCTCA	59.633	57.895	0.00	0.00	0.00	3.27
198	201	0.622136	AACTCAGATCTGCATGGCCA	59.378	50.000	18.36	8.56	0.00	5.36
230	233	3.275617	AGGAGCACAACTACAAACACA	57.724	42.857	0.00	0.00	0.00	3.72
275	278	1.414919	AGTCTTTGCTTACCGGTGTCA	59.585	47.619	19.93	9.34	0.00	3.58
280	283	3.472283	TTGCTTACCGGTGTCACTTTA	57.528	42.857	19.93	0.00	0.00	1.85
312	315	4.452733	CCCACGCCGGTTCTCTCC	62.453	72.222	1.90	0.00	0.00	3.71
322	325	2.282958	TTCTCTCCGCCTCACCGT	60.283	61.111	0.00	0.00	0.00	4.83
384	388	1.078072	TTTGCCGTGTGTCTGTGGT	60.078	52.632	0.00	0.00	0.00	4.16
392	396	1.152963	GTGTCTGTGGTGCCAGGTT	60.153	57.895	0.00	0.00	33.14	3.50
397	401	2.978010	GTGGTGCCAGGTTCCACG	60.978	66.667	15.92	0.00	41.37	4.94
555	564	0.097674	CTTCATTTGCGCCCTCTTCG	59.902	55.000	4.18	0.00	0.00	3.79
643	652	4.077822	CCTTCTTGAAGGAGCAATCTTGT	58.922	43.478	21.34	0.00	42.62	3.16
664	673	2.584391	GCTCTCGGTGTCCCTGGTT	61.584	63.158	0.00	0.00	0.00	3.67
718	727	0.245539	CGGTCCGCCTCTCTTGTTTA	59.754	55.000	0.00	0.00	0.00	2.01
724	733	1.339151	CGCCTCTCTTGTTTAGGGCTT	60.339	52.381	0.00	0.00	37.66	4.35
753	827	0.317436	TTTTGCGTTCGTGTCATGCC	60.317	50.000	0.00	0.00	0.00	4.40
767	841	3.716353	TGTCATGCCATGTACCCTTATCT	59.284	43.478	4.31	0.00	0.00	1.98
824	3168	2.066262	CGTGAGCTTTGGTATTGACGT	58.934	47.619	0.00	0.00	0.00	4.34
1487	3841	4.291047	CTGATTGGCAGCTCGTGT	57.709	55.556	0.00	0.00	37.90	4.49
1540	3894	1.225855	TGGTCGTCAATGCTTGTCAC	58.774	50.000	0.00	0.00	0.00	3.67
1562	3916	7.438459	GTCACTAAATCGTGATATAAGTTGCCT	59.562	37.037	0.00	0.00	44.84	4.75
1563	3917	8.635328	TCACTAAATCGTGATATAAGTTGCCTA	58.365	33.333	0.00	0.00	38.89	3.93
1695	4050	0.465460	TGTGTGGCCCTTCTCAACAC	60.465	55.000	12.14	12.14	0.00	3.32
2806	5162	4.509230	CGAATATGGACAGTGGAATGACAG	59.491	45.833	0.00	0.00	0.00	3.51
3197	5553	2.097954	GGTTGCAATGATCATGCTTCGA	59.902	45.455	22.27	6.98	44.14	3.71
4218	6574	6.274157	ACTCGTCTGTGAAGATTGAGTAAT	57.726	37.500	10.19	0.00	35.84	1.89
4223	6579	7.030165	CGTCTGTGAAGATTGAGTAATAGTGT	58.970	38.462	0.00	0.00	0.00	3.55
4264	6659	1.899142	TGACATGGTGAAGGTCGATGA	59.101	47.619	0.00	0.00	34.32	2.92
4303	6698	6.557253	TGCCACCCTCTAAATTTAGCTATCTA	59.443	38.462	18.68	1.73	0.00	1.98
4340	6735	4.207165	AGTTCTGAAAGCTGGCTGTTAAA	58.793	39.130	0.00	0.00	0.00	1.52
4409	6804	5.179555	GCTCCGTGAGTTTTATTCTCTTGTT	59.820	40.000	3.38	0.00	33.59	2.83
4497	6962	7.217200	TGTGGATGCTGATAAAGTACCTATTC	58.783	38.462	0.00	0.00	0.00	1.75
4584	7049	5.949735	ACGTACATTGAGCCTTTTTATTGG	58.050	37.500	0.00	0.00	0.00	3.16
4741	7286	4.351054	CTGTTCCCCTGGCGGCTT	62.351	66.667	11.43	0.00	0.00	4.35
4744	7289	3.897122	TTCCCCTGGCGGCTTTGT	61.897	61.111	11.43	0.00	0.00	2.83
4751	7296	4.038080	GGCGGCTTTGTTGACCGG	62.038	66.667	0.00	0.00	46.97	5.28
4773	7318	3.560068	GGAGTTTTGTCGTTGATCACTGT	59.440	43.478	0.00	0.00	0.00	3.55
4790	7336	1.537202	CTGTTGCAAAGCTGGGTCTAC	59.463	52.381	0.00	0.00	0.00	2.59
4826	7376	2.372690	CGCTGGTCGTGAGTTTCCG	61.373	63.158	0.00	0.00	0.00	4.30
4844	7394	2.538037	TCCGTCGTTAATCATTGATGCG	59.462	45.455	0.00	6.13	0.00	4.73
4931	7488	4.937620	TGATACAGTCAGCAATGAAACTCC	59.062	41.667	0.00	0.00	31.80	3.85
4947	7504	1.227823	TCCTGTGTTGGAACTGCCG	60.228	57.895	0.00	0.00	40.66	5.69
4969	7526	2.642996	GTGTGGCCAAACACCAAGGC	62.643	60.000	21.89	0.00	43.84	4.35
4979	7536	0.764890	ACACCAAGGCAGTTAGAGCA	59.235	50.000	0.00	0.00	0.00	4.26
4989	7546	1.135257	CAGTTAGAGCACTCCTGGACG	60.135	57.143	0.00	0.00	0.00	4.79
5008	7565	2.240918	TCCAGAAGCAATGGGGGCT	61.241	57.895	2.46	0.00	45.15	5.19
5012	7569	0.548510	AGAAGCAATGGGGGCTAGAC	59.451	55.000	0.00	0.00	41.66	2.59
5021	7583	1.431243	TGGGGGCTAGACATGGTTTTT	59.569	47.619	0.00	0.00	0.00	1.94
5035	7597	7.502226	AGACATGGTTTTTCTGTCTGAAACATA	59.498	33.333	4.52	0.00	45.85	2.29
5036	7598	8.181904	ACATGGTTTTTCTGTCTGAAACATAT	57.818	30.769	4.52	0.00	43.55	1.78
5037	7599	8.084073	ACATGGTTTTTCTGTCTGAAACATATG	58.916	33.333	0.00	0.00	43.55	1.78
5038	7600	7.815840	TGGTTTTTCTGTCTGAAACATATGA	57.184	32.000	10.38	0.00	43.55	2.15
5039	7601	7.648142	TGGTTTTTCTGTCTGAAACATATGAC	58.352	34.615	10.38	0.00	43.55	3.06
5040	7602	7.284261	TGGTTTTTCTGTCTGAAACATATGACA	59.716	33.333	10.38	0.99	43.55	3.58
5041	7603	8.299570	GGTTTTTCTGTCTGAAACATATGACAT	58.700	33.333	10.38	0.00	43.55	3.06
5110	7674	1.691976	ACAAGGTGGACGTTCATGAGA	59.308	47.619	0.00	0.00	0.00	3.27
5112	7676	1.633774	AGGTGGACGTTCATGAGAGT	58.366	50.000	0.00	5.04	0.00	3.24
5113	7677	1.273606	AGGTGGACGTTCATGAGAGTG	59.726	52.381	0.00	0.00	0.00	3.51
5115	7679	0.678950	TGGACGTTCATGAGAGTGCA	59.321	50.000	18.04	18.04	32.72	4.57
5116	7680	1.337167	TGGACGTTCATGAGAGTGCAG	60.337	52.381	18.04	1.26	31.57	4.41
5117	7681	1.354040	GACGTTCATGAGAGTGCAGG	58.646	55.000	9.45	0.00	0.00	4.85
5118	7682	0.969149	ACGTTCATGAGAGTGCAGGA	59.031	50.000	0.00	0.00	0.00	3.86
5119	7683	1.067283	ACGTTCATGAGAGTGCAGGAG	60.067	52.381	0.00	0.00	29.62	3.69
5120	7684	1.367659	GTTCATGAGAGTGCAGGAGC	58.632	55.000	0.00	0.00	42.57	4.70
5157	7721	0.396974	TGGCTTGCTCCTGTTTTGGT	60.397	50.000	0.00	0.00	0.00	3.67
5181	7745	6.985059	GTGTAACCTGATTACTATCCAGGTTC	59.015	42.308	23.98	17.14	43.46	3.62
5240	7804	4.710167	TCGCGGGAGGAGACGTGA	62.710	66.667	6.13	0.00	45.89	4.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	2.979676	CGAGCAGCCACCAAAGCA	60.980	61.111	0.00	0.00	0.00	3.91
1	2	2.980233	ACGAGCAGCCACCAAAGC	60.980	61.111	0.00	0.00	0.00	3.51
2	3	2.949106	CACGAGCAGCCACCAAAG	59.051	61.111	0.00	0.00	0.00	2.77
45	46	1.162800	GCTGCCGCTAGGGAATCAAG	61.163	60.000	8.65	0.00	37.43	3.02
86	88	1.135915	GCATGAACACCACAACACCAA	59.864	47.619	0.00	0.00	0.00	3.67
156	158	0.249911	ACTTGAGAACGCAGGTCCAC	60.250	55.000	0.00	0.00	0.00	4.02
172	174	3.758755	TGCAGATCTGAGTTGTCACTT	57.241	42.857	27.04	0.00	31.22	3.16
198	201	1.074405	TGTGCTCCTTCCAGCTCATTT	59.926	47.619	0.00	0.00	37.84	2.32
230	233	1.719600	GAGCGCAGATCTGAGTTGTT	58.280	50.000	27.04	9.99	41.28	2.83
266	269	0.606604	AGCGATAAAGTGACACCGGT	59.393	50.000	0.00	0.00	0.00	5.28
268	271	0.370273	GCAGCGATAAAGTGACACCG	59.630	55.000	0.84	0.00	0.00	4.94
271	274	1.078709	GCAGCAGCGATAAAGTGACA	58.921	50.000	0.00	0.00	0.00	3.58
312	315	1.384989	ATCAGAGGTACGGTGAGGCG	61.385	60.000	0.00	0.00	0.00	5.52
322	325	4.215908	GTGGAGGTACATCATCAGAGGTA	58.784	47.826	10.08	0.00	39.80	3.08
384	388	2.112297	GGAACGTGGAACCTGGCA	59.888	61.111	0.00	0.00	0.00	4.92
436	444	0.476771	ATGGGGAAGTCGTTGTTGGT	59.523	50.000	0.00	0.00	0.00	3.67
474	482	2.598565	TCTGAGCAATCCTATAGCCGT	58.401	47.619	0.00	0.00	0.00	5.68
534	542	1.598701	AAGAGGGCGCAAATGAAGGC	61.599	55.000	10.83	0.00	0.00	4.35
567	576	2.424246	CTGGAGAACCGGACTTAGAGTC	59.576	54.545	9.46	0.00	44.87	3.36
570	579	2.893215	TCTGGAGAACCGGACTTAGA	57.107	50.000	9.46	11.86	45.56	2.10
643	652	2.282958	AGGGACACCGAGAGCGAA	60.283	61.111	0.00	0.00	43.47	4.70
664	673	7.338703	AGACGACTAACATCACCAAATACTAGA	59.661	37.037	0.00	0.00	0.00	2.43
724	733	2.022240	GAACGCAAAAAGGCCCACCA	62.022	55.000	0.00	0.00	39.06	4.17
734	808	0.317436	GGCATGACACGAACGCAAAA	60.317	50.000	0.00	0.00	0.00	2.44
753	827	8.012957	AGAAAGAGTACAGATAAGGGTACATG	57.987	38.462	0.00	0.00	41.74	3.21
849	3201	1.068679	GCGTCGTATTCCTACCTAGCC	60.069	57.143	0.00	0.00	0.00	3.93
874	3228	6.347644	GGTGTTTTAATGGAGCAAGAAAATGC	60.348	38.462	0.00	0.00	46.78	3.56
875	3229	6.705381	TGGTGTTTTAATGGAGCAAGAAAATG	59.295	34.615	0.00	0.00	0.00	2.32
992	3346	1.939838	GCGATATCGTCATGGGGAACC	60.940	57.143	24.99	1.39	46.97	3.62
1185	3539	1.078759	GACCAGAACACGATCCTGCG	61.079	60.000	0.00	0.00	37.29	5.18
1562	3916	5.840243	TCGGTCCTCGAAAATCACTTATA	57.160	39.130	0.00	0.00	45.86	0.98
1563	3917	4.730949	TCGGTCCTCGAAAATCACTTAT	57.269	40.909	0.00	0.00	45.86	1.73
1644	3999	4.223144	ACTCCAGTTTTAAAGGCCAATGT	58.777	39.130	5.01	0.00	0.00	2.71
1695	4050	5.428496	TTGAATCAAAGAAGCACTGACAG	57.572	39.130	0.00	0.00	0.00	3.51
2806	5162	3.594134	CAAGTGGTCAGATGAGTCTTCC	58.406	50.000	2.52	0.00	30.42	3.46
4218	6574	7.974504	ACAGAAAATTAGGGAGAAGAACACTA	58.025	34.615	0.00	0.00	0.00	2.74
4223	6579	7.287061	TGTCAACAGAAAATTAGGGAGAAGAA	58.713	34.615	0.00	0.00	0.00	2.52
4282	6677	7.237679	TGCCATAGATAGCTAAATTTAGAGGGT	59.762	37.037	26.00	10.42	32.47	4.34
4303	6698	4.851843	TCAGAACTCAGAATTGATGCCAT	58.148	39.130	0.00	0.00	31.68	4.40
4312	6707	3.080319	GCCAGCTTTCAGAACTCAGAAT	58.920	45.455	0.00	0.00	0.00	2.40
4340	6735	5.045651	TGGATAACACATCACCACTTCATCT	60.046	40.000	0.00	0.00	0.00	2.90
4714	7259	2.106511	CCAGGGGAACAGAAAACAGAGA	59.893	50.000	0.00	0.00	0.00	3.10
4741	7286	2.018515	GACAAAACTCCCGGTCAACAA	58.981	47.619	0.00	0.00	0.00	2.83
4744	7289	0.178533	ACGACAAAACTCCCGGTCAA	59.821	50.000	0.00	0.00	0.00	3.18
4751	7296	3.560068	ACAGTGATCAACGACAAAACTCC	59.440	43.478	0.00	0.00	0.00	3.85
4773	7318	1.419762	TCAGTAGACCCAGCTTTGCAA	59.580	47.619	0.00	0.00	0.00	4.08
4817	7367	5.231702	TCAATGATTAACGACGGAAACTCA	58.768	37.500	0.00	0.00	0.00	3.41
4826	7376	3.962481	GCTTCGCATCAATGATTAACGAC	59.038	43.478	10.92	0.66	0.00	4.34
4844	7394	0.463474	GGACTGCAGATCCCAGCTTC	60.463	60.000	23.35	3.44	33.65	3.86
4898	7448	5.677567	TGCTGACTGTATCATGTGATTGAT	58.322	37.500	0.19	0.00	39.60	2.57
4901	7451	6.117488	TCATTGCTGACTGTATCATGTGATT	58.883	36.000	0.19	0.00	36.48	2.57
4931	7488	1.648720	CACGGCAGTTCCAACACAG	59.351	57.895	0.00	0.00	34.01	3.66
4960	7517	0.764890	TGCTCTAACTGCCTTGGTGT	59.235	50.000	0.00	0.00	0.00	4.16
4964	7521	1.277557	AGGAGTGCTCTAACTGCCTTG	59.722	52.381	0.00	0.00	39.17	3.61
4969	7526	1.135257	CGTCCAGGAGTGCTCTAACTG	60.135	57.143	11.15	11.15	0.00	3.16
4989	7546	2.054453	GCCCCCATTGCTTCTGGAC	61.054	63.158	1.89	0.00	35.70	4.02
5021	7583	8.917088	TCAGATATGTCATATGTTTCAGACAGA	58.083	33.333	10.15	0.00	43.39	3.41
5035	7597	6.540189	GCCTTAACTGTGTTCAGATATGTCAT	59.460	38.462	2.17	0.00	43.76	3.06
5036	7598	5.874810	GCCTTAACTGTGTTCAGATATGTCA	59.125	40.000	2.17	0.00	43.76	3.58
5037	7599	5.874810	TGCCTTAACTGTGTTCAGATATGTC	59.125	40.000	2.17	0.00	43.76	3.06
5038	7600	5.804639	TGCCTTAACTGTGTTCAGATATGT	58.195	37.500	2.17	0.00	43.76	2.29
5039	7601	6.108687	TCTGCCTTAACTGTGTTCAGATATG	58.891	40.000	2.17	0.00	43.76	1.78
5040	7602	6.299805	TCTGCCTTAACTGTGTTCAGATAT	57.700	37.500	2.17	0.00	43.76	1.63
5041	7603	5.738619	TCTGCCTTAACTGTGTTCAGATA	57.261	39.130	2.17	0.00	43.76	1.98
5082	7644	1.420138	ACGTCCACCTTGTCCATCTTT	59.580	47.619	0.00	0.00	0.00	2.52
5113	7677	3.060615	CAGGTGGCTTGCTCCTGC	61.061	66.667	17.89	0.00	41.46	4.85
5115	7679	3.137385	TTGCAGGTGGCTTGCTCCT	62.137	57.895	4.95	4.69	45.15	3.69
5116	7680	2.598394	TTGCAGGTGGCTTGCTCC	60.598	61.111	4.95	0.00	45.15	4.70
5117	7681	2.960170	CTTGCAGGTGGCTTGCTC	59.040	61.111	4.95	0.00	45.15	4.26
5118	7682	3.300765	GCTTGCAGGTGGCTTGCT	61.301	61.111	0.00	0.00	45.15	3.91
5119	7683	4.712425	CGCTTGCAGGTGGCTTGC	62.712	66.667	0.59	0.00	45.15	4.01
5120	7684	4.047059	CCGCTTGCAGGTGGCTTG	62.047	66.667	16.13	0.00	45.15	4.01
5121	7685	4.586235	ACCGCTTGCAGGTGGCTT	62.586	61.111	26.79	7.02	45.15	4.35
5157	7721	6.183360	CGAACCTGGATAGTAATCAGGTTACA	60.183	42.308	26.81	0.00	44.63	2.41
5181	7745	3.976169	TGAAATTTTTGCTCTTGTCCCG	58.024	40.909	0.00	0.00	0.00	5.14
5240	7804	3.181443	CCCCATAGAAGCCCGTAAATCTT	60.181	47.826	0.00	0.00	0.00	2.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.