AutoCloner

Multiple sequence alignment - TraesCS6B01G382800

Loading Multiple Alignment...

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	TraesCS6B01G382800	chr6B	100.000	4494	0	0	1	4494	657947540	657943047	0.000000e+00	8299.0
1	TraesCS6B01G382800	chr6B	84.398	673	80	12	1438	2107	657945765	657945115	4.900000e-179	638.0
2	TraesCS6B01G382800	chr6B	84.398	673	80	12	1776	2426	657946103	657945434	4.900000e-179	638.0
3	TraesCS6B01G382800	chr6B	82.505	503	73	10	4001	4494	36816713	36817209	1.160000e-115	427.0
4	TraesCS6B01G382800	chr6B	81.287	513	75	8	4000	4494	577080348	577080857	3.260000e-106	396.0
5	TraesCS6B01G382800	chr6B	80.916	524	68	13	3997	4494	518384753	518385270	7.050000e-103	385.0
6	TraesCS6B01G382800	chr6A	93.091	3937	186	36	5	3904	581895083	581891196	0.000000e+00	5685.0
7	TraesCS6B01G382800	chr6A	84.408	667	83	10	1776	2426	581893640	581892979	1.760000e-178	636.0
8	TraesCS6B01G382800	chr6A	85.205	561	63	11	1438	1997	581893299	581892758	3.930000e-155	558.0
9	TraesCS6B01G382800	chr6A	80.000	515	78	14	4000	4494	582502508	582503017	1.540000e-94	357.0
10	TraesCS6B01G382800	chr6A	86.957	207	27	0	2396	2602	510033728	510033934	2.700000e-57	233.0
11	TraesCS6B01G382800	chr6A	97.872	47	1	0	3919	3965	581891141	581891095	1.040000e-11	82.4
12	TraesCS6B01G382800	chr6D	92.342	4061	185	28	1	4005	434516199	434512209	0.000000e+00	5661.0
13	TraesCS6B01G382800	chr6D	86.350	674	79	5	1438	2108	434514461	434513798	0.000000e+00	723.0
14	TraesCS6B01G382800	chr6D	82.641	674	68	23	1776	2426	434514777	434514130	6.570000e-153	551.0
15	TraesCS6B01G382800	chr6D	87.500	352	34	5	3996	4337	12557912	12558263	9.060000e-107	398.0
16	TraesCS6B01G382800	chr6D	84.940	332	43	4	1438	1769	434514122	434513798	3.350000e-86	329.0
17	TraesCS6B01G382800	chr6D	84.553	123	16	2	4372	4494	12558267	12558386	7.900000e-23	119.0
18	TraesCS6B01G382800	chr1B	82.652	807	105	13	1901	2691	27286877	27287664	0.000000e+00	682.0
19	TraesCS6B01G382800	chr1B	84.000	450	53	8	2257	2691	27293821	27294266	8.990000e-112	414.0
20	TraesCS6B01G382800	chr4D	86.292	445	46	8	2172	2602	489562050	489562493	1.890000e-128	470.0
21	TraesCS6B01G382800	chr3B	81.594	527	62	15	3997	4494	779109948	779110468	1.950000e-108	403.0
22	TraesCS6B01G382800	chr3B	80.385	520	68	21	4000	4494	250348263	250347753	9.190000e-97	364.0
23	TraesCS6B01G382800	chr3B	79.615	520	72	17	4000	4494	817173027	817172517	4.300000e-90	342.0
24	TraesCS6B01G382800	chr3B	84.091	220	28	6	2392	2608	75794543	75794328	5.890000e-49	206.0
25	TraesCS6B01G382800	chr3B	78.283	198	29	12	4266	4451	171076907	171077102	1.020000e-21	115.0
26	TraesCS6B01G382800	chr3B	76.151	239	41	13	4266	4493	171070187	171070420	1.320000e-20	111.0
27	TraesCS6B01G382800	chr7D	81.511	503	67	16	3996	4494	156213452	156212972	1.520000e-104	390.0
28	TraesCS6B01G382800	chr3A	80.594	505	76	13	4000	4494	681350718	681351210	1.970000e-98	370.0
29	TraesCS6B01G382800	chr3A	79.678	497	73	19	4003	4494	737975396	737975869	2.590000e-87	333.0
30	TraesCS6B01G382800	chr5A	86.145	332	40	4	4000	4327	502888383	502888054	1.990000e-93	353.0
31	TraesCS6B01G382800	chr2B	83.291	395	51	4	3994	4386	25222191	25222572	2.570000e-92	350.0
32	TraesCS6B01G382800	chr2A	84.242	330	49	3	3999	4328	767150472	767150146	7.250000e-83	318.0
33	TraesCS6B01G382800	chr2D	83.383	337	47	8	3995	4328	632073849	632074179	2.030000e-78	303.0
34	TraesCS6B01G382800	chr7B	79.191	346	48	9	4168	4494	494747866	494747526	7.570000e-53	219.0
35	TraesCS6B01G382800	chr5B	83.190	232	25	6	1568	1794	5423849	5423627	2.740000e-47	200.0
36	TraesCS6B01G382800	chr1A	90.476	126	11	1	2566	2691	20742467	20742343	1.000000e-36	165.0

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	TraesCS6B01G382800	chr6B	657943047	657947540	4493	True	3191.666667	8299	89.598667	1	4494	3	chr6B.!!$R1	4493
1	TraesCS6B01G382800	chr6B	577080348	577080857	509	False	396.000000	396	81.287000	4000	4494	1	chr6B.!!$F3	494
2	TraesCS6B01G382800	chr6B	518384753	518385270	517	False	385.000000	385	80.916000	3997	4494	1	chr6B.!!$F2	497
3	TraesCS6B01G382800	chr6A	581891095	581895083	3988	True	1740.350000	5685	90.144000	5	3965	4	chr6A.!!$R1	3960
4	TraesCS6B01G382800	chr6A	582502508	582503017	509	False	357.000000	357	80.000000	4000	4494	1	chr6A.!!$F2	494
5	TraesCS6B01G382800	chr6D	434512209	434516199	3990	True	1816.000000	5661	86.568250	1	4005	4	chr6D.!!$R1	4004
6	TraesCS6B01G382800	chr1B	27286877	27287664	787	False	682.000000	682	82.652000	1901	2691	1	chr1B.!!$F1	790
7	TraesCS6B01G382800	chr3B	779109948	779110468	520	False	403.000000	403	81.594000	3997	4494	1	chr3B.!!$F3	497
8	TraesCS6B01G382800	chr3B	250347753	250348263	510	True	364.000000	364	80.385000	4000	4494	1	chr3B.!!$R2	494
9	TraesCS6B01G382800	chr3B	817172517	817173027	510	True	342.000000	342	79.615000	4000	4494	1	chr3B.!!$R3	494

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
185	190	0.034863	ATCGCTCGCCCCCTTTTAAA	60.035	50.0	0.00	0.00	1.52	F
716	735	0.480252	ACTCCTTTTCTGGCCAAGCT	59.520	50.0	7.01	0.00	3.74	F
1469	1501	0.664166	GCAACCTGTGACGCCATTTG	60.664	55.0	0.00	0.00	2.32	F
3042	3100	1.237285	GCACCGACAAGATGGCAACT	61.237	55.0	0.00	37.61	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1161	1190	1.216122	GCACTTCATCATCGAGAGCC	58.784	55.000	0.00	4.70	R
2666	2716	1.004862	CTGGACCCTTCTTCCCTTTCC	59.995	57.143	31.33	3.13	R
3163	3221	1.341976	ACTGGGCACAAGGTTCAAACT	60.342	47.619	0.00	2.66	R
4161	4287	0.319469	CGCCAAAAACAATTCGCCCT	60.319	50.000	0.00	5.19	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
97	102	2.802724	CCTGACACACGGTCCCACA	61.803	63.158	0.00	0.00	46.38	4.17
185	190	0.034863	ATCGCTCGCCCCCTTTTAAA	60.035	50.000	0.00	0.00	0.00	1.52
186	191	0.956902	TCGCTCGCCCCCTTTTAAAC	60.957	55.000	0.00	0.00	0.00	2.01
187	192	1.504900	GCTCGCCCCCTTTTAAACG	59.495	57.895	0.00	0.00	0.00	3.60
188	193	1.929806	GCTCGCCCCCTTTTAAACGG	61.930	60.000	3.74	3.74	0.00	4.44
356	361	9.376075	CTGCATATATCCTTCGATCTGTATTTT	57.624	33.333	0.00	0.00	0.00	1.82
357	362	9.154847	TGCATATATCCTTCGATCTGTATTTTG	57.845	33.333	0.00	0.00	0.00	2.44
361	366	4.513442	TCCTTCGATCTGTATTTTGTGGG	58.487	43.478	0.00	0.00	0.00	4.61
370	375	4.282449	TCTGTATTTTGTGGGTTCTCTCGA	59.718	41.667	0.00	0.00	0.00	4.04
374	379	2.507324	GTGGGTTCTCTCGAGCGC	60.507	66.667	7.81	0.00	34.58	5.92
431	436	1.281899	CGAGGAGTTCTTGATTCGGC	58.718	55.000	0.00	0.00	0.00	5.54
517	525	1.134670	CGGTTGGACAGATCTTCTCCC	60.135	57.143	12.07	3.83	0.00	4.30
520	528	3.103742	GTTGGACAGATCTTCTCCCTCT	58.896	50.000	12.07	0.00	0.00	3.69
625	643	5.880887	GGATTTATGCCCCAATAGTAGTAGC	59.119	44.000	0.00	0.00	0.00	3.58
634	652	5.775701	CCCCAATAGTAGTAGCAGTATGACT	59.224	44.000	0.00	0.00	39.69	3.41
710	729	2.289506	ACTCGGTTACTCCTTTTCTGGC	60.290	50.000	0.00	0.00	0.00	4.85
711	730	1.002773	TCGGTTACTCCTTTTCTGGCC	59.997	52.381	0.00	0.00	0.00	5.36
716	735	0.480252	ACTCCTTTTCTGGCCAAGCT	59.520	50.000	7.01	0.00	0.00	3.74
782	805	6.914259	GCTTTGCCAAGATAGTCTAAAGTTT	58.086	36.000	0.86	0.00	30.57	2.66
814	837	7.690952	AAGATTTGGCGTGTTTACCTATTTA	57.309	32.000	0.00	0.00	0.00	1.40
915	939	4.481463	CAAATAATTGTTGGACGGTGGAC	58.519	43.478	0.00	0.00	0.00	4.02
928	952	1.208052	CGGTGGACTGAGATTGACCAT	59.792	52.381	0.00	0.00	32.60	3.55
952	976	9.294030	CATGCTCTTAAAATTCAGGTTGATTAC	57.706	33.333	0.00	0.00	0.00	1.89
1185	1214	0.807275	TCGATGATGAAGTGCAGGCG	60.807	55.000	0.00	0.00	0.00	5.52
1330	1362	5.801531	AACAGAGTCTGTGTATACACCAA	57.198	39.130	28.67	16.32	44.62	3.67
1359	1391	6.163135	AGTGTTTACTGTACTTCTTGCTCT	57.837	37.500	0.00	0.00	35.34	4.09
1469	1501	0.664166	GCAACCTGTGACGCCATTTG	60.664	55.000	0.00	0.00	0.00	2.32
1489	1521	2.026542	TGCTCTGGATGAAGATGCTGTT	60.027	45.455	0.00	0.00	0.00	3.16
1499	1531	3.181440	TGAAGATGCTGTTCTGGAAGGTT	60.181	43.478	0.00	0.00	0.00	3.50
1552	1584	4.058721	AGAAATGTTTGGCTTCCAACAC	57.941	40.909	0.00	1.85	43.82	3.32
1614	1646	7.895975	TGAGTTGTGTTGATAGATTCTTCTG	57.104	36.000	0.00	0.00	33.17	3.02
1640	1672	4.219507	ACTGTTGAAACCATGAACAACACA	59.780	37.500	16.51	4.55	44.50	3.72
1765	1800	6.640907	CGTTTTCTTCTTCGAATTTCCCATTT	59.359	34.615	0.00	0.00	0.00	2.32
1848	1883	5.193679	GCCATGGAAGGTTAGTTCATTACT	58.806	41.667	18.40	0.00	41.04	2.24
1851	1886	7.502561	GCCATGGAAGGTTAGTTCATTACTTAT	59.497	37.037	18.40	0.00	38.33	1.73
1924	1959	8.707938	ATTTGGCAATAATTCTTTAGCAGTTC	57.292	30.769	0.00	0.00	0.00	3.01
1968	2003	3.999769	TCGTCTAGAACTGTCGAAATCG	58.000	45.455	0.00	0.00	41.45	3.34
2335	2374	5.113446	TGTTGGGTTCTTACCTGTAACAA	57.887	39.130	0.00	0.00	44.38	2.83
2342	2381	5.875359	GGTTCTTACCTGTAACAAGAGGATG	59.125	44.000	0.00	0.00	41.53	3.51
2390	2440	4.122143	AGCTGCTCAGAATTAGACTCAC	57.878	45.455	0.00	0.00	0.00	3.51
2426	2476	6.070897	TCTTCTTCGAATTTCACATTGCAA	57.929	33.333	0.00	0.00	0.00	4.08
2491	2541	8.099364	TCTGGAAAGCTTAAGTAAAAGATGTG	57.901	34.615	0.00	0.00	0.00	3.21
2666	2716	2.548920	GCCTTTGATATGTCTCTCCCCG	60.549	54.545	0.00	0.00	0.00	5.73
2707	2757	4.458989	CAGCCTGCAGGTAAAATCTGTAAA	59.541	41.667	32.81	0.00	37.57	2.01
3011	3069	2.963432	TGGTAGCTGCTAACCGTAAAC	58.037	47.619	21.18	4.40	0.00	2.01
3034	3092	6.276847	ACATTTTAATTTTGCACCGACAAGA	58.723	32.000	0.00	0.00	0.00	3.02
3042	3100	1.237285	GCACCGACAAGATGGCAACT	61.237	55.000	0.00	0.00	37.61	3.16
3118	3176	4.665833	TGGTTATGCAATACGCTAGAGT	57.334	40.909	4.07	4.07	43.06	3.24
3163	3221	2.925653	TCCCCTCCATTTTTCTCCATGA	59.074	45.455	0.00	0.00	0.00	3.07
3427	3487	2.232208	CCAGTTTCAGAAGAAATGCCCC	59.768	50.000	0.00	0.00	44.87	5.80
3611	3672	0.528466	GTCAGCAGCGGATCAATCGA	60.528	55.000	0.00	0.00	0.00	3.59
3622	3683	5.009710	AGCGGATCAATCGACAAAGAGTATA	59.990	40.000	0.00	0.00	0.00	1.47
3823	3889	4.055360	TGTGTTACGTTTCAGTCCTGATG	58.945	43.478	0.00	0.00	39.64	3.07
3838	3904	3.643320	TCCTGATGAATGATAGGCTCGTT	59.357	43.478	0.00	0.00	35.75	3.85
3916	4006	1.005748	TGTGAGAGTGCCGAGCTTG	60.006	57.895	0.00	0.00	0.00	4.01
3917	4007	1.739562	GTGAGAGTGCCGAGCTTGG	60.740	63.158	16.53	16.53	0.00	3.61
4033	4140	3.984732	GCCCCAACAAGGCCTCCT	61.985	66.667	5.23	0.00	45.16	3.69
4049	4156	0.690762	TCCTAGGCGACTTTTTGGCT	59.309	50.000	2.96	0.00	44.34	4.75
4055	4162	2.551912	CGACTTTTTGGCTGCCGGT	61.552	57.895	14.98	7.42	0.00	5.28
4057	4164	1.734388	GACTTTTTGGCTGCCGGTGT	61.734	55.000	14.98	8.16	0.00	4.16
4143	4250	3.943691	TGGACCCAACCCGAACCG	61.944	66.667	0.00	0.00	0.00	4.44
4195	4321	4.020378	GCGTGAAAAAGCCGCGGA	62.020	61.111	33.48	1.68	37.89	5.54
4243	4369	0.531532	CTCGCCGCTTCATCATCCTT	60.532	55.000	0.00	0.00	0.00	3.36
4256	4382	3.536956	TCATCCTTATCGCCTCGTTTT	57.463	42.857	0.00	0.00	0.00	2.43
4257	4383	3.869065	TCATCCTTATCGCCTCGTTTTT	58.131	40.909	0.00	0.00	0.00	1.94
4260	4386	1.997606	CCTTATCGCCTCGTTTTTCGT	59.002	47.619	0.00	0.00	40.80	3.85
4268	4394	3.619233	CCTCGTTTTTCGTGGTGAATT	57.381	42.857	0.00	0.00	44.86	2.17
4278	4404	4.855715	TCGTGGTGAATTAATGCCAAAA	57.144	36.364	7.86	0.00	32.26	2.44
4328	4477	4.704833	ACGGGCAGCGCAGTGAAT	62.705	61.111	11.47	0.00	0.00	2.57
4333	4482	2.100631	GCAGCGCAGTGAATACCGT	61.101	57.895	11.47	0.00	0.00	4.83
4334	4483	0.804544	GCAGCGCAGTGAATACCGTA	60.805	55.000	11.47	0.00	0.00	4.02
4335	4484	0.921347	CAGCGCAGTGAATACCGTAC	59.079	55.000	11.47	0.00	0.00	3.67
4336	4485	0.524816	AGCGCAGTGAATACCGTACG	60.525	55.000	11.47	8.69	0.00	3.67
4337	4486	1.477030	GCGCAGTGAATACCGTACGG	61.477	60.000	32.22	32.22	42.03	4.02
4338	4487	0.099259	CGCAGTGAATACCGTACGGA	59.901	55.000	39.52	23.13	38.96	4.69
4339	4488	1.467883	CGCAGTGAATACCGTACGGAA	60.468	52.381	39.52	16.47	38.96	4.30
4340	4489	2.797087	CGCAGTGAATACCGTACGGAAT	60.797	50.000	39.52	23.84	38.96	3.01
4341	4490	3.548616	CGCAGTGAATACCGTACGGAATA	60.549	47.826	39.52	22.98	38.96	1.75
4342	4491	3.732721	GCAGTGAATACCGTACGGAATAC	59.267	47.826	39.52	26.25	38.96	1.89
4343	4492	4.293415	CAGTGAATACCGTACGGAATACC	58.707	47.826	39.52	22.44	38.96	2.73
4438	4643	3.274393	GTGACACGCACAGTCTCTT	57.726	52.632	0.00	0.00	46.91	2.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
29	34	1.746787	GTCGCCGGGGATTATTTTTGT	59.253	47.619	25.36	0.00	0.00	2.83
97	102	0.974383	AGTCGGATCCCTTTCGTGTT	59.026	50.000	6.06	0.00	0.00	3.32
334	339	9.658799	CCACAAAATACAGATCGAAGGATATAT	57.341	33.333	0.00	0.00	31.51	0.86
356	361	2.962569	CGCTCGAGAGAACCCACA	59.037	61.111	18.75	0.00	41.32	4.17
357	362	2.507324	GCGCTCGAGAGAACCCAC	60.507	66.667	21.07	0.00	41.32	4.61
359	364	2.103340	GAGCGCTCGAGAGAACCC	59.897	66.667	23.61	1.70	41.32	4.11
370	375	2.152699	CGAATCGAACACGAGCGCT	61.153	57.895	11.27	11.27	39.38	5.92
456	461	2.586357	GGGGCAGAATCGAGCGAC	60.586	66.667	0.00	0.00	0.00	5.19
499	507	3.103742	AGAGGGAGAAGATCTGTCCAAC	58.896	50.000	20.85	14.94	31.31	3.77
517	525	2.711547	CCCCCTAAATCCTAACCCAGAG	59.288	54.545	0.00	0.00	0.00	3.35
520	528	1.228190	GCCCCCTAAATCCTAACCCA	58.772	55.000	0.00	0.00	0.00	4.51
625	643	7.651304	GGAAGTGAATCACAGATAGTCATACTG	59.349	40.741	16.38	0.00	36.74	2.74
634	652	5.512942	TTTGGGGAAGTGAATCACAGATA	57.487	39.130	16.38	0.00	36.74	1.98
640	658	1.818060	CGCATTTGGGGAAGTGAATCA	59.182	47.619	0.00	0.00	0.00	2.57
710	729	8.962857	AATAACAAAACAAAACAAAAGCTTGG	57.037	26.923	0.00	0.00	36.82	3.61
782	805	2.811431	ACACGCCAAATCTTTTGATCGA	59.189	40.909	15.82	0.00	38.40	3.59
823	846	7.419865	GCCCAACCATCCTAAAAGTAGTACTAT	60.420	40.741	5.75	0.00	0.00	2.12
824	847	6.126968	GCCCAACCATCCTAAAAGTAGTACTA	60.127	42.308	2.50	0.00	0.00	1.82
830	853	3.308832	CCAGCCCAACCATCCTAAAAGTA	60.309	47.826	0.00	0.00	0.00	2.24
904	927	0.608130	CAATCTCAGTCCACCGTCCA	59.392	55.000	0.00	0.00	0.00	4.02
915	939	6.748333	TTTTAAGAGCATGGTCAATCTCAG	57.252	37.500	25.71	0.00	0.00	3.35
928	952	8.402798	TGTAATCAACCTGAATTTTAAGAGCA	57.597	30.769	0.00	0.00	0.00	4.26
952	976	2.907042	ACCTTACCCTTCTCCAGTTCTG	59.093	50.000	0.00	0.00	0.00	3.02
1161	1190	1.216122	GCACTTCATCATCGAGAGCC	58.784	55.000	0.00	0.00	0.00	4.70
1330	1362	9.420551	GCAAGAAGTACAGTAAACACTAGTAAT	57.579	33.333	0.00	0.00	0.00	1.89
1344	1376	5.936956	AGGAAAATCAGAGCAAGAAGTACAG	59.063	40.000	0.00	0.00	0.00	2.74
1430	1462	2.567615	GCCCTCTAGTTCTCCTGTTCAA	59.432	50.000	0.00	0.00	0.00	2.69
1462	1494	2.372264	TCTTCATCCAGAGCAAATGGC	58.628	47.619	0.00	0.00	45.30	4.40
1469	1501	2.328819	ACAGCATCTTCATCCAGAGC	57.671	50.000	0.00	0.00	0.00	4.09
1489	1521	8.431910	AGTAAGTAATGAACTAACCTTCCAGA	57.568	34.615	0.00	0.00	37.50	3.86
1522	1554	6.071952	GGAAGCCAAACATTTCTATCAAGTGA	60.072	38.462	0.00	0.00	0.00	3.41
1614	1646	4.647424	TGTTCATGGTTTCAACAGTTCC	57.353	40.909	0.00	0.00	0.00	3.62
1765	1800	7.805163	TGCCTTATAATTCTCCAATTCTCTGA	58.195	34.615	0.00	0.00	33.95	3.27
1916	1951	5.061684	CGACACAAATCGTATTGAACTGCTA	59.938	40.000	9.35	0.00	37.33	3.49
1918	1953	4.081761	CGACACAAATCGTATTGAACTGC	58.918	43.478	9.35	0.00	37.33	4.40
2005	2040	8.411683	AGATTTGAAAAATAGATGTCCTCATGC	58.588	33.333	0.00	0.00	34.06	4.06
2335	2374	7.890127	TCCACATTTGAAAAATAGACATCCTCT	59.110	33.333	0.00	0.00	0.00	3.69
2390	2440	5.138800	TCGAAGAAGAAAACGTCAAACAG	57.861	39.130	0.00	0.00	0.00	3.16
2426	2476	7.325821	CACGTGCATTATCTTACAACAAACAAT	59.674	33.333	0.82	0.00	0.00	2.71
2491	2541	7.700505	TCAGATAGCAAATGATGAACATGTTC	58.299	34.615	28.10	28.10	39.39	3.18
2506	2556	4.736126	TTGACTCGGAATCAGATAGCAA	57.264	40.909	0.00	0.00	0.00	3.91
2580	2630	8.727910	CATAGCTGCATTATCTACATGAAACAT	58.272	33.333	0.00	0.00	0.00	2.71
2666	2716	1.004862	CTGGACCCTTCTTCCCTTTCC	59.995	57.143	0.00	0.00	31.33	3.13
2707	2757	5.682212	GCTGTGAAACTGTTCCCTTCAAAAT	60.682	40.000	0.00	0.00	38.15	1.82
2800	2850	8.153550	CAGGAAGGATAAAGACAAGCATATACT	58.846	37.037	0.00	0.00	0.00	2.12
3011	3069	6.761731	TCTTGTCGGTGCAAAATTAAAATG	57.238	33.333	0.00	0.00	0.00	2.32
3034	3092	4.527816	TCCTTGAAATTTAGCAGTTGCCAT	59.472	37.500	0.00	0.00	43.38	4.40
3042	3100	6.377146	GGTAAGATGGTCCTTGAAATTTAGCA	59.623	38.462	0.00	0.00	0.00	3.49
3118	3176	6.134535	ACTTCCACCTTGTTCCAACATATA	57.865	37.500	0.00	0.00	38.95	0.86
3163	3221	1.341976	ACTGGGCACAAGGTTCAAACT	60.342	47.619	0.00	0.00	0.00	2.66
3204	3262	9.177304	GTTATAGTTGAACAAAAACTGTAAGGC	57.823	33.333	0.00	0.00	40.00	4.35
3622	3683	6.713903	CCTCAGCAACCATAATCTATGTGATT	59.286	38.462	0.00	0.00	46.22	2.57
3823	3889	2.246719	AGCCAACGAGCCTATCATTC	57.753	50.000	0.00	0.00	0.00	2.67
3838	3904	0.459899	CTACAGCGATGTGGTAGCCA	59.540	55.000	18.14	0.00	0.00	4.75
3916	4006	1.887344	ATTGACCATGTTTGCCCGCC	61.887	55.000	0.00	0.00	0.00	6.13
3917	4007	0.737019	CATTGACCATGTTTGCCCGC	60.737	55.000	0.00	0.00	0.00	6.13
3966	4072	7.844779	TCCTCCATTTATCTGAAACCTAGTACT	59.155	37.037	0.00	0.00	0.00	2.73
4030	4137	0.690762	AGCCAAAAAGTCGCCTAGGA	59.309	50.000	14.75	0.00	0.00	2.94
4033	4140	1.241315	GGCAGCCAAAAAGTCGCCTA	61.241	55.000	6.55	0.00	36.58	3.93
4068	4175	2.446994	TTGGGGACACGACTGGGT	60.447	61.111	0.00	0.00	42.67	4.51
4161	4287	0.319469	CGCCAAAAACAATTCGCCCT	60.319	50.000	0.00	0.00	0.00	5.19
4195	4321	4.021925	GTCGCTGGCAAGGAGGGT	62.022	66.667	0.00	0.00	0.00	4.34
4243	4369	1.352114	CCACGAAAAACGAGGCGATA	58.648	50.000	0.00	0.00	44.49	2.92
4256	4382	4.855715	TTTGGCATTAATTCACCACGAA	57.144	36.364	0.00	0.00	38.22	3.85
4257	4383	4.279671	AGTTTTGGCATTAATTCACCACGA	59.720	37.500	0.00	0.00	0.00	4.35
4260	4386	4.314121	GCAGTTTTGGCATTAATTCACCA	58.686	39.130	0.00	0.00	0.00	4.17
4317	4466	0.524816	CGTACGGTATTCACTGCGCT	60.525	55.000	9.73	0.00	34.04	5.92
4336	4485	1.736249	CGCACGTCGTTCGGTATTCC	61.736	60.000	9.62	0.00	44.69	3.01
4337	4486	1.622269	CGCACGTCGTTCGGTATTC	59.378	57.895	9.62	0.00	44.69	1.75
4338	4487	3.758035	CGCACGTCGTTCGGTATT	58.242	55.556	9.62	0.00	44.69	1.89
4433	4638	4.415332	GCGTCGGCGGTGAAGAGA	62.415	66.667	13.05	0.00	38.78	3.10
4468	4674	1.106944	GGCGAGAGGAGAGGGAAGAG	61.107	65.000	0.00	0.00	0.00	2.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.