AutoCloner

Multiple sequence alignment - TraesCS7B01G141700

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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	TraesCS7B01G141700	chr7B	100.000	4538	0	0	1	4538	179925294	179920757	0.000000e+00	8381.0
1	TraesCS7B01G141700	chr7B	92.982	57	4	0	506	562	179924724	179924668	2.910000e-12	84.2
2	TraesCS7B01G141700	chr7B	92.982	57	4	0	571	627	179924789	179924733	2.910000e-12	84.2
3	TraesCS7B01G141700	chr7A	96.328	4030	132	10	520	4538	232374206	232378230	0.000000e+00	6608.0
4	TraesCS7B01G141700	chr7A	92.340	470	16	6	35	484	348099171	348098702	0.000000e+00	651.0
5	TraesCS7B01G141700	chr7A	94.737	57	2	1	477	533	232373349	232373404	2.250000e-13	87.9
6	TraesCS7B01G141700	chr7D	96.510	3352	86	14	669	3997	219827843	219831186	0.000000e+00	5513.0
7	TraesCS7B01G141700	chr7D	95.712	513	17	3	4026	4538	219831185	219831692	0.000000e+00	821.0
8	TraesCS7B01G141700	chr7D	82.851	449	47	16	4	429	499036149	499036590	4.290000e-100	375.0
9	TraesCS7B01G141700	chr7D	93.750	144	7	2	477	618	219827704	219827847	9.890000e-52	215.0
10	TraesCS7B01G141700	chr5A	89.788	1841	168	11	1792	3622	36373689	36371859	0.000000e+00	2340.0
11	TraesCS7B01G141700	chr5A	88.660	388	36	3	1457	1837	36374069	36373683	2.470000e-127	466.0
12	TraesCS7B01G141700	chr5A	76.987	239	38	8	3760	3982	692769	693006	2.220000e-23	121.0
13	TraesCS7B01G141700	chr5B	89.793	1597	133	18	1891	3466	45823892	45822305	0.000000e+00	2019.0
14	TraesCS7B01G141700	chr5B	90.935	1048	78	10	2409	3449	45650531	45649494	0.000000e+00	1393.0
15	TraesCS7B01G141700	chr5B	87.929	903	92	9	1456	2356	45651412	45650525	0.000000e+00	1048.0
16	TraesCS7B01G141700	chr5B	88.083	386	32	3	1459	1844	45824268	45823897	3.220000e-121	446.0
17	TraesCS7B01G141700	chr5B	88.732	71	8	0	3760	3830	757116	757186	2.250000e-13	87.9
18	TraesCS7B01G141700	chr5D	88.581	613	57	4	1456	2066	45601344	45600743	0.000000e+00	732.0
19	TraesCS7B01G141700	chr5D	92.229	489	28	6	2394	2874	45598901	45598415	0.000000e+00	684.0
20	TraesCS7B01G141700	chr5D	92.153	497	16	5	2	476	140701262	140701757	0.000000e+00	680.0
21	TraesCS7B01G141700	chr5D	93.118	465	13	2	31	477	280913543	280913080	0.000000e+00	664.0
22	TraesCS7B01G141700	chr5D	92.967	455	14	1	41	477	280901301	280900847	0.000000e+00	647.0
23	TraesCS7B01G141700	chr5D	89.399	283	25	2	2062	2340	45599374	45599093	7.220000e-93	351.0
24	TraesCS7B01G141700	chr5D	88.000	100	3	1	2908	3007	45598411	45598321	4.800000e-20	110.0
25	TraesCS7B01G141700	chr5D	91.358	81	6	1	958	1038	45601422	45601343	4.800000e-20	110.0
26	TraesCS7B01G141700	chr5D	90.141	71	7	0	3760	3830	1863661	1863731	4.830000e-15	93.5
27	TraesCS7B01G141700	chr6D	93.103	493	14	3	1	475	181609099	181608609	0.000000e+00	704.0
28	TraesCS7B01G141700	chr3A	93.682	459	11	1	37	477	31591078	31590620	0.000000e+00	671.0
29	TraesCS7B01G141700	chr3A	86.976	453	25	16	4	429	740126327	740126772	3.180000e-131	479.0
30	TraesCS7B01G141700	chr2D	93.133	466	12	3	37	482	265669657	265669192	0.000000e+00	665.0
31	TraesCS7B01G141700	chr2D	89.159	452	21	7	5	437	9194939	9194497	5.170000e-149	538.0
32	TraesCS7B01G141700	chr2D	81.696	448	59	22	38	475	232826505	232826939	7.220000e-93	351.0
33	TraesCS7B01G141700	chr4D	92.949	468	13	2	35	482	275676442	275676909	0.000000e+00	664.0
34	TraesCS7B01G141700	chr4D	79.513	493	58	28	21	482	487388175	487388655	1.230000e-80	311.0
35	TraesCS7B01G141700	chr3D	93.464	459	11	2	35	475	403887612	403888069	0.000000e+00	664.0
36	TraesCS7B01G141700	chr3D	92.873	463	12	4	39	483	197219841	197220300	0.000000e+00	652.0
37	TraesCS7B01G141700	chr1D	92.704	466	12	4	37	482	49394001	49394464	0.000000e+00	652.0
38	TraesCS7B01G141700	chr6B	86.024	508	42	11	1	482	65413076	65413580	6.730000e-143	518.0
39	TraesCS7B01G141700	chr2A	87.472	447	27	11	4	429	271394680	271394242	5.280000e-134	488.0

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	TraesCS7B01G141700	chr7B	179920757	179925294	4537	True	2849.80	8381	95.321333	1	4538	3	chr7B.!!$R1	4537
1	TraesCS7B01G141700	chr7A	232373349	232378230	4881	False	3347.95	6608	95.532500	477	4538	2	chr7A.!!$F1	4061
2	TraesCS7B01G141700	chr7D	219827704	219831692	3988	False	2183.00	5513	95.324000	477	4538	3	chr7D.!!$F2	4061
3	TraesCS7B01G141700	chr5A	36371859	36374069	2210	True	1403.00	2340	89.224000	1457	3622	2	chr5A.!!$R1	2165
4	TraesCS7B01G141700	chr5B	45822305	45824268	1963	True	1232.50	2019	88.938000	1459	3466	2	chr5B.!!$R2	2007
5	TraesCS7B01G141700	chr5B	45649494	45651412	1918	True	1220.50	1393	89.432000	1456	3449	2	chr5B.!!$R1	1993
6	TraesCS7B01G141700	chr5D	45598321	45601422	3101	True	397.40	732	89.913400	958	3007	5	chr5D.!!$R3	2049
7	TraesCS7B01G141700	chr6B	65413076	65413580	504	False	518.00	518	86.024000	1	482	1	chr6B.!!$F1	481

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	Hairpin	End Stability	Orientation
452	476	0.961019	GATGCAAAACACCAGGCAGA	59.039	50.000	0.00	39.95	4.26	F
457	481	1.067516	CAAAACACCAGGCAGAACCAG	59.932	52.381	0.00	43.14	4.00	F
461	485	1.073897	ACCAGGCAGAACCAGAAGC	59.926	57.895	0.00	43.14	3.86	F
1057	1914	1.264288	GGCGGCATTTATTCTTCTCCG	59.736	52.381	3.07	38.51	4.63	F
1700	2564	2.352032	GGCTCGTCCCTGTAGCTGT	61.352	63.158	0.00	36.48	4.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1700	2564	1.203038	ACATGACACCAAGCAATCCCA	60.203	47.619	0.00	0.0	4.37	R
2361	4771	1.214305	AGGATAAGGGTGCAAGGCCA	61.214	55.000	5.01	0.0	5.36	R
2703	5135	6.042777	CCTACAAAACGCAGATATCAGAGAA	58.957	40.000	5.32	0.0	2.87	R
2743	5175	4.342862	TCTGCTCTAGTTTCAGTGCTTT	57.657	40.909	0.00	36.3	3.51	R
3899	6368	0.877071	CTTGCAGCGAAACATCTGGT	59.123	50.000	0.00	0.0	4.00	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
129	136	5.310451	AGCATTTCCAAAAATCATGCAACT	58.690	33.333	5.32	0.00	32.69	3.16
143	150	1.789078	GCAACTGACTGTGGCCACTG	61.789	60.000	33.87	33.87	39.68	3.66
241	265	8.164070	ACTATATGATTTAATTCAGTGACCCCC	58.836	37.037	6.26	0.00	0.00	5.40
242	266	4.666412	TGATTTAATTCAGTGACCCCCA	57.334	40.909	0.00	0.00	0.00	4.96
243	267	5.004361	TGATTTAATTCAGTGACCCCCAA	57.996	39.130	0.00	0.00	0.00	4.12
244	268	5.588845	TGATTTAATTCAGTGACCCCCAAT	58.411	37.500	0.00	0.00	0.00	3.16
247	271	3.541242	AATTCAGTGACCCCCAATTGA	57.459	42.857	7.12	0.00	0.00	2.57
257	281	4.140900	TGACCCCCAATTGACCTAGAAAAA	60.141	41.667	7.12	0.00	0.00	1.94
264	288	6.222389	CCAATTGACCTAGAAAAATGTGCAA	58.778	36.000	7.12	0.00	0.00	4.08
265	289	6.875195	CCAATTGACCTAGAAAAATGTGCAAT	59.125	34.615	7.12	0.00	0.00	3.56
282	306	4.627035	GTGCAATATTTTTGGCAGAGGTTC	59.373	41.667	0.00	0.00	36.86	3.62
283	307	4.282957	TGCAATATTTTTGGCAGAGGTTCA	59.717	37.500	0.00	0.00	0.00	3.18
287	311	4.590850	ATTTTTGGCAGAGGTTCAAGAC	57.409	40.909	0.00	0.00	0.00	3.01
306	330	6.151648	TCAAGACCAATCCAAAGATGATGAAC	59.848	38.462	0.00	0.00	31.29	3.18
312	336	8.158789	ACCAATCCAAAGATGATGAACATTTTT	58.841	29.630	0.00	0.00	41.74	1.94
328	352	2.947127	TTTTGGGAAGGCATTTTGGG	57.053	45.000	0.00	0.00	0.00	4.12
333	357	1.908619	GGGAAGGCATTTTGGGTTCAT	59.091	47.619	0.00	0.00	0.00	2.57
335	359	3.517500	GGGAAGGCATTTTGGGTTCATTA	59.482	43.478	0.00	0.00	0.00	1.90
386	410	3.955471	TCTTTCTGATGCTAGGGTTTGG	58.045	45.455	0.00	0.00	0.00	3.28
409	433	6.163476	GGTCAATCCCCATTTCAACTTAAAC	58.837	40.000	0.00	0.00	0.00	2.01
452	476	0.961019	GATGCAAAACACCAGGCAGA	59.039	50.000	0.00	0.00	39.95	4.26
457	481	1.067516	CAAAACACCAGGCAGAACCAG	59.932	52.381	0.00	0.00	43.14	4.00
461	485	1.073897	ACCAGGCAGAACCAGAAGC	59.926	57.895	0.00	0.00	43.14	3.86
475	499	2.437281	CCAGAAGCTAGGGATGTGACAT	59.563	50.000	0.00	0.00	0.00	3.06
568	1406	2.821969	GTGTCTCCATGTGCATTTCCTT	59.178	45.455	0.00	0.00	0.00	3.36
575	1413	7.702348	GTCTCCATGTGCATTTCCTTAAAATAC	59.298	37.037	0.00	0.00	35.77	1.89
618	1458	8.768955	GTCAAATCCATATGTGAATAGTGTCTC	58.231	37.037	1.24	0.00	30.92	3.36
627	1467	4.002982	GTGAATAGTGTCTCCATGTGCAA	58.997	43.478	0.00	0.00	0.00	4.08
629	1469	4.637091	TGAATAGTGTCTCCATGTGCAATG	59.363	41.667	0.00	0.00	0.00	2.82
633	1473	2.553602	GTGTCTCCATGTGCAATGTGAA	59.446	45.455	0.00	0.00	0.00	3.18
634	1474	2.815503	TGTCTCCATGTGCAATGTGAAG	59.184	45.455	0.00	0.00	0.00	3.02
643	1483	5.826601	TGTGCAATGTGAAGTTTGACTTA	57.173	34.783	0.00	0.00	38.80	2.24
645	1485	6.264832	TGTGCAATGTGAAGTTTGACTTAAG	58.735	36.000	0.00	0.00	38.80	1.85
706	1546	9.166126	CCTCTGTTTTTAAATGTAAGACGTTTC	57.834	33.333	0.22	0.00	38.23	2.78
761	1601	5.867716	TCGTGCTCTATGTTTCTAGGAAAAC	59.132	40.000	1.09	1.09	39.16	2.43
793	1633	6.092807	GTGCCAACCTACATCAAAAACAAAAA	59.907	34.615	0.00	0.00	0.00	1.94
885	1726	4.513442	CTCCATCTTGAATCCAACGGTAA	58.487	43.478	0.00	0.00	0.00	2.85
922	1763	3.947196	GGCATCATGTTCATAGTCAACCA	59.053	43.478	0.00	0.00	0.00	3.67
924	1765	4.637534	GCATCATGTTCATAGTCAACCAGT	59.362	41.667	0.00	0.00	0.00	4.00
1057	1914	1.264288	GGCGGCATTTATTCTTCTCCG	59.736	52.381	3.07	0.00	38.51	4.63
1211	2068	4.271816	CCGCGACTCCATCCTCGG	62.272	72.222	8.23	0.00	34.77	4.63
1700	2564	2.352032	GGCTCGTCCCTGTAGCTGT	61.352	63.158	0.00	0.00	36.48	4.40
2091	4369	2.818432	CAACATTCTTTCTGCTGGAGCT	59.182	45.455	0.00	0.00	42.66	4.09
2793	5225	2.760374	CAGAGTGGTCTTGTTCCTGAC	58.240	52.381	0.00	0.00	0.00	3.51
2829	5262	6.203338	GCAACATTCTGATTGATGGTTTTTGT	59.797	34.615	6.56	0.00	0.00	2.83
2962	5412	1.202806	AGGATATGAACGGTGCCATGG	60.203	52.381	7.63	7.63	0.00	3.66
3045	5495	3.887716	GGATTCATAGCCTCTGCAACAAT	59.112	43.478	0.00	0.00	41.13	2.71
3438	5900	4.939509	AATGCTCATAACGTACAACACC	57.060	40.909	0.00	0.00	0.00	4.16
3592	6054	5.182950	TGAAAACATTAGCCACACGATCAAT	59.817	36.000	0.00	0.00	0.00	2.57
3664	6132	0.680280	AGGAGGCAAGCAAGCAGATG	60.680	55.000	2.78	0.00	35.83	2.90
3675	6143	2.424601	GCAAGCAGATGTCAATTAGCCA	59.575	45.455	0.00	0.00	0.00	4.75
3733	6202	1.340795	ACGAGACTAATCGGTCAGGGT	60.341	52.381	0.91	0.00	46.91	4.34
3798	6267	3.898627	AAGCACTGCGACTCCGACG	62.899	63.158	0.00	0.00	38.22	5.12
3840	6309	1.305046	TCCAAGGTCTCGGTCTCCC	60.305	63.158	0.00	0.00	0.00	4.30
3851	6320	0.828343	CGGTCTCCCCCTATGTCTCC	60.828	65.000	0.00	0.00	0.00	3.71
3871	6340	3.667614	TCCCATCTCCATCTACATCCCTA	59.332	47.826	0.00	0.00	0.00	3.53
3872	6341	4.298750	TCCCATCTCCATCTACATCCCTAT	59.701	45.833	0.00	0.00	0.00	2.57
3899	6368	9.087871	TCCATTTTTATTCATCTTGTTTCCTCA	57.912	29.630	0.00	0.00	0.00	3.86
3909	6378	4.792068	TCTTGTTTCCTCACCAGATGTTT	58.208	39.130	0.00	0.00	0.00	2.83
3997	6466	7.337938	TGCCTCAATCTTCATCTTGTTATGTA	58.662	34.615	0.00	0.00	0.00	2.29
4009	6478	7.716560	TCATCTTGTTATGTATCTCCATGTTGG	59.283	37.037	0.00	0.00	39.43	3.77
4024	6493	5.359576	TCCATGTTGGCATCATAGTTTTACC	59.640	40.000	10.54	0.00	37.47	2.85
4032	6501	2.702261	TCATAGTTTTACCGTGTGCCC	58.298	47.619	0.00	0.00	0.00	5.36
4040	6509	1.823169	TACCGTGTGCCCTGTTCTCC	61.823	60.000	0.00	0.00	0.00	3.71
4041	6510	2.425592	CGTGTGCCCTGTTCTCCA	59.574	61.111	0.00	0.00	0.00	3.86
4094	6563	2.430546	AGTTGTGCTCTGTTCTCTCG	57.569	50.000	0.00	0.00	0.00	4.04
4153	6622	3.211045	TCTAGTGTTTTGGGCTGTTGTC	58.789	45.455	0.00	0.00	0.00	3.18
4422	6891	5.384336	TCAAGGTCATTTCAGGTTCATCAA	58.616	37.500	0.00	0.00	0.00	2.57
4429	6898	4.308526	AGGTTCATCAAGCTGCCG	57.691	55.556	0.00	0.00	38.97	5.69
4487	6956	3.843027	ACAGAGGTCCTTCACATGATCTT	59.157	43.478	0.00	0.00	0.00	2.40
4516	6985	4.583871	CTGCCTCCAGTTCAAGAATAACT	58.416	43.478	0.00	0.00	37.67	2.24

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
12	13	3.551846	GGAGAGAGAGAGAGTTACCTGG	58.448	54.545	0.00	0.00	0.00	4.45
13	14	3.202151	AGGGAGAGAGAGAGAGTTACCTG	59.798	52.174	0.00	0.00	0.00	4.00
33	34	7.443575	CAGAAATAAGAGAGAGAGAGAGAGAGG	59.556	44.444	0.00	0.00	0.00	3.69
129	136	0.751277	CCAAACAGTGGCCACAGTCA	60.751	55.000	36.39	0.00	41.72	3.41
156	163	9.814899	ATCACAAACTGAAATGTTTATTGTTGA	57.185	25.926	0.00	0.00	37.98	3.18
218	242	6.921412	TGGGGGTCACTGAATTAAATCATAT	58.079	36.000	0.00	0.00	0.00	1.78
232	256	1.916181	CTAGGTCAATTGGGGGTCACT	59.084	52.381	5.42	0.00	0.00	3.41
233	257	1.913419	TCTAGGTCAATTGGGGGTCAC	59.087	52.381	5.42	0.00	0.00	3.67
237	261	4.777366	ACATTTTTCTAGGTCAATTGGGGG	59.223	41.667	5.42	0.00	0.00	5.40
240	264	5.782047	TGCACATTTTTCTAGGTCAATTGG	58.218	37.500	5.42	0.00	0.00	3.16
241	265	7.894376	ATTGCACATTTTTCTAGGTCAATTG	57.106	32.000	0.00	0.00	0.00	2.32
244	268	9.995003	AAAATATTGCACATTTTTCTAGGTCAA	57.005	25.926	10.89	0.00	32.94	3.18
247	271	9.218440	CCAAAAATATTGCACATTTTTCTAGGT	57.782	29.630	20.36	4.61	41.38	3.08
257	281	4.223477	ACCTCTGCCAAAAATATTGCACAT	59.777	37.500	0.00	0.00	0.00	3.21
264	288	5.185828	GGTCTTGAACCTCTGCCAAAAATAT	59.814	40.000	0.00	0.00	45.45	1.28
265	289	4.522789	GGTCTTGAACCTCTGCCAAAAATA	59.477	41.667	0.00	0.00	45.45	1.40
282	306	6.071784	TGTTCATCATCTTTGGATTGGTCTTG	60.072	38.462	0.00	0.00	0.00	3.02
283	307	6.012113	TGTTCATCATCTTTGGATTGGTCTT	58.988	36.000	0.00	0.00	0.00	3.01
287	311	8.447833	CAAAAATGTTCATCATCTTTGGATTGG	58.552	33.333	0.00	0.00	39.46	3.16
306	330	3.506844	CCCAAAATGCCTTCCCAAAAATG	59.493	43.478	0.00	0.00	0.00	2.32
312	336	1.347062	GAACCCAAAATGCCTTCCCA	58.653	50.000	0.00	0.00	0.00	4.37
314	338	3.701205	AATGAACCCAAAATGCCTTCC	57.299	42.857	0.00	0.00	0.00	3.46
315	339	7.503521	TTTTTAATGAACCCAAAATGCCTTC	57.496	32.000	0.00	0.00	0.00	3.46
316	340	9.752228	ATATTTTTAATGAACCCAAAATGCCTT	57.248	25.926	0.00	0.00	32.42	4.35
317	341	9.752228	AATATTTTTAATGAACCCAAAATGCCT	57.248	25.926	0.00	0.00	32.42	4.75
366	390	3.690460	ACCAAACCCTAGCATCAGAAAG	58.310	45.455	0.00	0.00	0.00	2.62
370	394	2.787473	TGACCAAACCCTAGCATCAG	57.213	50.000	0.00	0.00	0.00	2.90
386	410	6.754193	TGTTTAAGTTGAAATGGGGATTGAC	58.246	36.000	0.00	0.00	0.00	3.18
409	433	8.523523	TCTTGTTGCATCATGTTTAAATTCTG	57.476	30.769	9.68	0.00	0.00	3.02
438	462	1.064017	TCTGGTTCTGCCTGGTGTTTT	60.064	47.619	0.00	0.00	38.35	2.43
452	476	2.237392	GTCACATCCCTAGCTTCTGGTT	59.763	50.000	0.00	0.00	0.00	3.67
457	481	3.462021	GTGATGTCACATCCCTAGCTTC	58.538	50.000	15.44	0.00	45.75	3.86
533	1371	5.551305	TGGAGACACTATTCACATATGGG	57.449	43.478	7.80	2.34	33.40	4.00
587	1425	9.911788	ACTATTCACATATGGATTTGACTCTTT	57.088	29.630	7.80	0.00	0.00	2.52
590	1428	8.668510	ACACTATTCACATATGGATTTGACTC	57.331	34.615	7.80	0.00	0.00	3.36
618	1458	3.737266	GTCAAACTTCACATTGCACATGG	59.263	43.478	11.76	0.00	0.00	3.66
679	1519	8.441312	AACGTCTTACATTTAAAAACAGAGGA	57.559	30.769	12.78	0.00	0.00	3.71
706	1546	9.084873	GTTTCAAAATTAAGTGTTACTACGTCG	57.915	33.333	0.00	0.00	0.00	5.12
719	1559	8.230486	AGAGCACGACATAGTTTCAAAATTAAG	58.770	33.333	0.00	0.00	0.00	1.85
723	1563	7.334421	ACATAGAGCACGACATAGTTTCAAAAT	59.666	33.333	0.00	0.00	0.00	1.82
761	1601	4.206375	TGATGTAGGTTGGCACATTATGG	58.794	43.478	0.00	0.00	39.30	2.74
793	1633	4.437239	TGTCGTTTCCAAACAAAATGCAT	58.563	34.783	0.00	0.00	38.81	3.96
885	1726	2.158769	TGATGCCAACTCACTCACTGTT	60.159	45.455	0.00	0.00	0.00	3.16
922	1763	1.378882	TTCCGCGCACGAGGTATACT	61.379	55.000	8.75	0.00	43.93	2.12
924	1765	1.357690	CTTCCGCGCACGAGGTATA	59.642	57.895	8.75	0.00	43.93	1.47
1047	1904	2.797285	AGGGGGATACGGAGAAGAAT	57.203	50.000	0.00	0.00	37.60	2.40
1057	1914	1.767088	GAGTTGGTGGTAGGGGGATAC	59.233	57.143	0.00	0.00	0.00	2.24
1700	2564	1.203038	ACATGACACCAAGCAATCCCA	60.203	47.619	0.00	0.00	0.00	4.37
1977	2882	3.824133	CCCAGTCTTTGCATATCCATCA	58.176	45.455	0.00	0.00	0.00	3.07
1983	2888	3.220110	CATCTGCCCAGTCTTTGCATAT	58.780	45.455	0.00	0.00	33.97	1.78
2091	4369	3.065648	GCACGGTCTTTCCAAACTTGTAA	59.934	43.478	0.00	0.00	35.57	2.41
2196	4474	2.819608	CAATCGTCCATCCCAACAAAGT	59.180	45.455	0.00	0.00	0.00	2.66
2361	4771	1.214305	AGGATAAGGGTGCAAGGCCA	61.214	55.000	5.01	0.00	0.00	5.36
2703	5135	6.042777	CCTACAAAACGCAGATATCAGAGAA	58.957	40.000	5.32	0.00	0.00	2.87
2743	5175	4.342862	TCTGCTCTAGTTTCAGTGCTTT	57.657	40.909	0.00	0.00	36.30	3.51
2793	5225	4.350346	TCAGAATGTTGCTTGTGAAAACG	58.650	39.130	0.00	0.00	37.40	3.60
2829	5262	5.366768	CACCATATCCAACCTTCCTTCTCTA	59.633	44.000	0.00	0.00	0.00	2.43
2962	5412	4.746115	TGCAAGCATCTTGTTCATGAAAAC	59.254	37.500	10.35	0.00	0.00	2.43
3438	5900	6.718454	ACTTTGGGGATCTATTATTGCTCATG	59.282	38.462	0.00	0.00	0.00	3.07
3592	6054	2.158740	TCCCTCATCGACACCAAAAACA	60.159	45.455	0.00	0.00	0.00	2.83
3664	6132	2.113860	TGTCTGGCTGGCTAATTGAC	57.886	50.000	2.00	4.28	0.00	3.18
3675	6143	3.096092	CTCCTACTCTCTTTGTCTGGCT	58.904	50.000	0.00	0.00	0.00	4.75
3733	6202	2.967397	GACCCCGTCGATCACACA	59.033	61.111	0.00	0.00	0.00	3.72
3798	6267	3.892581	GCGCTGGGCATAGGCAAC	61.893	66.667	12.19	0.00	43.71	4.17
3840	6309	2.405618	TGGAGATGGGAGACATAGGG	57.594	55.000	0.00	0.00	40.72	3.53
3851	6320	5.130145	GGAATAGGGATGTAGATGGAGATGG	59.870	48.000	0.00	0.00	0.00	3.51
3872	6341	9.927668	GAGGAAACAAGATGAATAAAAATGGAA	57.072	29.630	0.00	0.00	0.00	3.53
3899	6368	0.877071	CTTGCAGCGAAACATCTGGT	59.123	50.000	0.00	0.00	0.00	4.00
3909	6378	2.984718	TTGCCATGCTTGCAGCGA	60.985	55.556	0.87	0.00	46.26	4.93
3939	6408	9.431887	TGTGATCTAATTACTTACACCTTGTTC	57.568	33.333	0.00	0.00	0.00	3.18
3997	6466	4.719026	ACTATGATGCCAACATGGAGAT	57.281	40.909	5.34	0.00	40.96	2.75
4009	6478	3.486875	GGCACACGGTAAAACTATGATGC	60.487	47.826	0.00	0.00	0.00	3.91
4024	6493	1.003355	ATGGAGAACAGGGCACACG	60.003	57.895	0.00	0.00	0.00	4.49
4032	6501	2.676839	GCATCTGTGTCATGGAGAACAG	59.323	50.000	10.07	10.07	37.04	3.16
4094	6563	2.711711	CCATGGGCACATAGAGCAC	58.288	57.895	0.00	0.00	34.99	4.40
4113	6582	6.035650	CACTAGAAATTGCAATTGCTTGATGG	59.964	38.462	34.37	23.18	42.66	3.51
4153	6622	6.622833	TGTATATTTGCATCACAGACCATG	57.377	37.500	0.00	0.00	0.00	3.66
4422	6891	1.685765	TAGATGGACACCGGCAGCT	60.686	57.895	0.00	1.30	0.00	4.24
4467	6936	4.360889	AGAAGATCATGTGAAGGACCTCT	58.639	43.478	0.00	0.00	0.00	3.69
4471	6940	4.332268	GCTGAAGAAGATCATGTGAAGGAC	59.668	45.833	0.00	0.00	0.00	3.85
4473	6942	4.333095	CAGCTGAAGAAGATCATGTGAAGG	59.667	45.833	8.42	0.00	0.00	3.46
4476	6945	3.268330	GCAGCTGAAGAAGATCATGTGA	58.732	45.455	20.43	0.00	0.00	3.58
4487	6956	0.322975	GAACTGGAGGCAGCTGAAGA	59.677	55.000	20.43	0.00	0.00	2.87

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.