AutoCloner

Multiple sequence alignment - TraesCS1B01G041600

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	TraesCS1B01G041600	chr1B	100.000	2306	0	0	1	2306	21439415	21441720	0.000000e+00	4259.0
1	TraesCS1B01G041600	chr1B	89.769	303	30	1	226	527	21463077	21463379	9.990000e-104	387.0
2	TraesCS1B01G041600	chr1B	85.714	168	24	0	58	225	7951088	7950921	6.550000e-41	178.0
3	TraesCS1B01G041600	chr2A	91.078	1614	118	12	528	2130	188601992	188603590	0.000000e+00	2159.0
4	TraesCS1B01G041600	chr2A	92.781	471	33	1	58	527	52422744	52423214	0.000000e+00	680.0
5	TraesCS1B01G041600	chr2A	100.000	44	0	0	3	46	52422718	52422761	5.280000e-12	82.4
6	TraesCS1B01G041600	chr6B	92.815	1183	48	12	1124	2306	247733598	247732453	0.000000e+00	1679.0
7	TraesCS1B01G041600	chr6B	91.848	368	18	7	524	880	247750532	247750166	9.510000e-139	503.0
8	TraesCS1B01G041600	chr6B	85.749	407	35	11	531	926	705300527	705300921	2.130000e-110	409.0
9	TraesCS1B01G041600	chr6B	92.617	149	11	0	2158	2306	621821084	621821232	4.990000e-52	215.0
10	TraesCS1B01G041600	chr5A	95.161	558	27	0	1515	2072	526222309	526221752	0.000000e+00	881.0
11	TraesCS1B01G041600	chr5A	87.175	577	60	8	947	1523	526236193	526235631	0.000000e+00	643.0
12	TraesCS1B01G041600	chr5A	90.092	434	28	8	528	951	526246187	526245759	1.200000e-152	549.0
13	TraesCS1B01G041600	chr5A	86.620	284	26	8	520	794	116452993	116453273	1.040000e-78	303.0
14	TraesCS1B01G041600	chr5A	86.331	278	27	7	525	794	8132329	8132055	2.240000e-75	292.0
15	TraesCS1B01G041600	chr5A	94.483	145	8	0	2162	2306	526212597	526212453	8.290000e-55	224.0
16	TraesCS1B01G041600	chr3B	86.788	772	70	17	523	1280	783612402	783613155	0.000000e+00	832.0
17	TraesCS1B01G041600	chr3B	86.475	732	69	17	528	1234	620612540	620611814	0.000000e+00	776.0
18	TraesCS1B01G041600	chr3B	83.404	711	77	23	528	1210	57506748	57507445	2.520000e-174	621.0
19	TraesCS1B01G041600	chr3B	87.226	274	25	8	528	793	31820491	31820762	1.040000e-78	303.0
20	TraesCS1B01G041600	chr7D	87.042	710	49	26	531	1217	630234138	630233449	0.000000e+00	761.0
21	TraesCS1B01G041600	chr7B	92.090	531	37	5	1	527	591542015	591541486	0.000000e+00	743.0
22	TraesCS1B01G041600	chr7B	90.968	155	14	0	2152	2306	59233763	59233917	2.320000e-50	209.0
23	TraesCS1B01G041600	chr2D	94.268	471	26	1	58	527	623773778	623773308	0.000000e+00	719.0
24	TraesCS1B01G041600	chr2D	87.589	282	26	5	521	794	530352210	530352490	3.700000e-83	318.0
25	TraesCS1B01G041600	chr2D	100.000	46	0	0	1	46	623773806	623773761	4.080000e-13	86.1
26	TraesCS1B01G041600	chr5B	93.843	471	26	2	58	527	43962971	43963439	0.000000e+00	706.0
27	TraesCS1B01G041600	chr5B	93.008	472	29	3	58	527	8179879	8179410	0.000000e+00	686.0
28	TraesCS1B01G041600	chr5B	87.013	154	11	3	2153	2306	133633483	133633627	5.100000e-37	165.0
29	TraesCS1B01G041600	chr5B	100.000	46	0	0	1	46	43962943	43962988	4.080000e-13	86.1
30	TraesCS1B01G041600	chr5B	97.826	46	1	0	1	46	8179907	8179862	1.900000e-11	80.5
31	TraesCS1B01G041600	chr3A	85.452	708	62	27	527	1210	563376364	563375674	0.000000e+00	699.0
32	TraesCS1B01G041600	chr3A	84.652	417	46	11	525	931	275849122	275849530	1.280000e-107	399.0
33	TraesCS1B01G041600	chr4A	85.106	705	62	28	528	1215	736710460	736709782	0.000000e+00	680.0
34	TraesCS1B01G041600	chr4A	92.797	472	29	4	58	527	719281621	719282089	0.000000e+00	678.0
35	TraesCS1B01G041600	chr4A	92.797	472	29	4	58	527	719506464	719506932	0.000000e+00	678.0
36	TraesCS1B01G041600	chr4A	90.354	311	27	3	973	1280	614243139	614242829	2.760000e-109	405.0
37	TraesCS1B01G041600	chr4A	86.909	275	27	5	527	794	339481214	339481486	1.340000e-77	300.0
38	TraesCS1B01G041600	chr4A	100.000	46	0	0	1	46	719281593	719281638	4.080000e-13	86.1
39	TraesCS1B01G041600	chr4A	100.000	46	0	0	1	46	719506436	719506481	4.080000e-13	86.1
40	TraesCS1B01G041600	chr1A	92.569	471	32	2	58	527	556809683	556810151	0.000000e+00	673.0
41	TraesCS1B01G041600	chr1A	100.000	46	0	0	1	46	556809655	556809700	4.080000e-13	86.1
42	TraesCS1B01G041600	chr3D	84.211	513	47	17	1542	2025	586950503	586949996	3.470000e-128	468.0
43	TraesCS1B01G041600	chr3D	86.256	422	44	8	524	934	170350003	170349585	1.630000e-121	446.0
44	TraesCS1B01G041600	chr3D	87.546	273	26	6	528	794	374813221	374812951	2.230000e-80	309.0
45	TraesCS1B01G041600	chr3D	94.805	154	8	0	2153	2306	579610253	579610406	8.230000e-60	241.0
46	TraesCS1B01G041600	chr2B	84.098	327	34	13	524	837	69470169	69469848	1.340000e-77	300.0
47	TraesCS1B01G041600	chrUn	96.753	154	5	0	2153	2306	308828095	308827942	8.170000e-65	257.0
48	TraesCS1B01G041600	chr1D	96.104	154	6	0	2153	2306	417544427	417544580	3.800000e-63	252.0
49	TraesCS1B01G041600	chr6D	93.506	154	10	0	2153	2306	37428503	37428656	1.780000e-56	230.0
50	TraesCS1B01G041600	chr7A	100.000	46	0	0	1	46	22277417	22277372	4.080000e-13	86.1

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	TraesCS1B01G041600	chr1B	21439415	21441720	2305	False	4259	4259	100.000	1	2306	1	chr1B.!!$F1	2305
1	TraesCS1B01G041600	chr2A	188601992	188603590	1598	False	2159	2159	91.078	528	2130	1	chr2A.!!$F1	1602
2	TraesCS1B01G041600	chr6B	247732453	247733598	1145	True	1679	1679	92.815	1124	2306	1	chr6B.!!$R1	1182
3	TraesCS1B01G041600	chr5A	526221752	526222309	557	True	881	881	95.161	1515	2072	1	chr5A.!!$R3	557
4	TraesCS1B01G041600	chr5A	526235631	526236193	562	True	643	643	87.175	947	1523	1	chr5A.!!$R4	576
5	TraesCS1B01G041600	chr3B	783612402	783613155	753	False	832	832	86.788	523	1280	1	chr3B.!!$F3	757
6	TraesCS1B01G041600	chr3B	620611814	620612540	726	True	776	776	86.475	528	1234	1	chr3B.!!$R1	706
7	TraesCS1B01G041600	chr3B	57506748	57507445	697	False	621	621	83.404	528	1210	1	chr3B.!!$F2	682
8	TraesCS1B01G041600	chr7D	630233449	630234138	689	True	761	761	87.042	531	1217	1	chr7D.!!$R1	686
9	TraesCS1B01G041600	chr7B	591541486	591542015	529	True	743	743	92.090	1	527	1	chr7B.!!$R1	526
10	TraesCS1B01G041600	chr3A	563375674	563376364	690	True	699	699	85.452	527	1210	1	chr3A.!!$R1	683
11	TraesCS1B01G041600	chr4A	736709782	736710460	678	True	680	680	85.106	528	1215	1	chr4A.!!$R2	687
12	TraesCS1B01G041600	chr3D	586949996	586950503	507	True	468	468	84.211	1542	2025	1	chr3D.!!$R3	483

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
846	874	0.116143	AACCCCAGCACTCTCTCTCT	59.884	55.0	0.0	0.0	0.0	3.1	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1718	1773	1.09465	TGACTGCAACACACGTGCAT	61.095	50.0	17.22	0.0	37.95	3.96	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
87	89	8.095169	TCTCCTCTTATTCCAAGTAAACACTTC	58.905	37.037	0.00	0.00	0.00	3.01
89	91	8.383175	TCCTCTTATTCCAAGTAAACACTTCAT	58.617	33.333	0.00	0.00	0.00	2.57
139	141	0.813210	CTCGCTCCTTCCCATGCTTC	60.813	60.000	0.00	0.00	0.00	3.86
143	145	1.615124	TCCTTCCCATGCTTCCCGA	60.615	57.895	0.00	0.00	0.00	5.14
148	150	4.776322	CCATGCTTCCCGACCGCA	62.776	66.667	0.00	0.00	38.14	5.69
150	152	4.778143	ATGCTTCCCGACCGCACC	62.778	66.667	0.00	0.00	36.37	5.01
185	187	2.583143	AGGGTGTGGTAAAGTTTCAGC	58.417	47.619	0.00	0.00	0.00	4.26
188	190	1.332375	GTGTGGTAAAGTTTCAGCGCA	59.668	47.619	11.47	0.00	0.00	6.09
193	195	2.908626	GGTAAAGTTTCAGCGCATTTCG	59.091	45.455	11.47	0.00	42.12	3.46
196	198	1.234821	AGTTTCAGCGCATTTCGGAA	58.765	45.000	11.47	0.07	38.94	4.30
205	207	1.729149	CGCATTTCGGAAAAGCCTGAC	60.729	52.381	20.91	5.91	33.78	3.51
223	225	2.396157	CCGGAGGCCGCTTGTAAAC	61.396	63.158	6.40	0.00	46.86	2.01
245	247	1.063174	GCGAGCACCTGAAATGATGTC	59.937	52.381	0.00	0.00	0.00	3.06
316	318	3.039134	GTGCAACCAAAGGACGGG	58.961	61.111	0.00	0.00	0.00	5.28
319	321	2.919494	GCAACCAAAGGACGGGCAG	61.919	63.158	0.00	0.00	0.00	4.85
349	351	2.732658	GGGGGCGTATGTACCTCG	59.267	66.667	0.00	0.00	0.00	4.63
356	358	1.366366	GTATGTACCTCGGCGGCAT	59.634	57.895	10.53	7.01	35.61	4.40
357	359	0.944311	GTATGTACCTCGGCGGCATG	60.944	60.000	10.53	0.00	35.61	4.06
358	360	2.709125	TATGTACCTCGGCGGCATGC	62.709	60.000	9.90	9.90	45.38	4.06
381	384	3.486875	CGAATCTGGCCGTTAAAATCCAC	60.487	47.826	0.00	0.00	0.00	4.02
401	404	2.226437	ACGGAAAATCATATGATGCCGC	59.774	45.455	32.83	19.34	42.79	6.53
410	413	2.636647	TATGATGCCGCAAATCCTCA	57.363	45.000	0.00	0.00	0.00	3.86
416	419	1.604378	CCGCAAATCCTCAGGACCT	59.396	57.895	0.00	0.00	32.98	3.85
418	421	0.745845	CGCAAATCCTCAGGACCTGG	60.746	60.000	21.56	11.77	32.98	4.45
422	425	1.903877	AATCCTCAGGACCTGGCACG	61.904	60.000	21.56	7.68	32.98	5.34
430	433	1.741770	GACCTGGCACGGTGTCATC	60.742	63.158	16.71	8.23	35.59	2.92
436	439	0.588252	GGCACGGTGTCATCATATGC	59.412	55.000	8.05	0.00	0.00	3.14
439	442	1.131638	ACGGTGTCATCATATGCCCT	58.868	50.000	0.00	0.00	0.00	5.19
441	444	1.875514	CGGTGTCATCATATGCCCTTG	59.124	52.381	0.00	0.00	0.00	3.61
442	445	2.746142	CGGTGTCATCATATGCCCTTGT	60.746	50.000	0.00	0.00	0.00	3.16
443	446	3.494223	CGGTGTCATCATATGCCCTTGTA	60.494	47.826	0.00	0.00	0.00	2.41
444	447	4.067896	GGTGTCATCATATGCCCTTGTAG	58.932	47.826	0.00	0.00	0.00	2.74
445	448	4.202357	GGTGTCATCATATGCCCTTGTAGA	60.202	45.833	0.00	0.00	0.00	2.59
465	469	5.108385	AGAGTGTGGTAAAATTTTGAGCG	57.892	39.130	13.76	0.00	0.00	5.03
486	490	1.017387	GTTTCATAGAAGCCTGGCCG	58.983	55.000	16.57	0.00	0.00	6.13
515	519	3.546670	GCTTGTAAACTACACGATCTCCG	59.453	47.826	0.00	0.00	45.44	4.63
702	708	1.005450	GGTCTTCACCATGCCCCTAAA	59.995	52.381	0.00	0.00	43.17	1.85
707	713	3.182887	TCACCATGCCCCTAAAACATT	57.817	42.857	0.00	0.00	0.00	2.71
710	716	1.471327	CCATGCCCCTAAAACATTGCG	60.471	52.381	0.00	0.00	0.00	4.85
748	754	4.685924	GGTATAAAACCTGCGCTACTACA	58.314	43.478	9.73	0.00	45.75	2.74
750	756	5.006068	GGTATAAAACCTGCGCTACTACAAC	59.994	44.000	9.73	0.00	45.75	3.32
751	757	2.833631	AAACCTGCGCTACTACAACT	57.166	45.000	9.73	0.00	0.00	3.16
752	758	3.947910	AAACCTGCGCTACTACAACTA	57.052	42.857	9.73	0.00	0.00	2.24
784	804	5.410355	AAGACACCCACGCTATTACTAAA	57.590	39.130	0.00	0.00	0.00	1.85
794	814	4.168014	CGCTATTACTAAACGTGTCCACA	58.832	43.478	0.00	0.00	0.00	4.17
808	828	0.405198	TCCACAACTGCACCATCCAT	59.595	50.000	0.00	0.00	0.00	3.41
834	854	1.221840	CGATCCACTCCAACCCCAG	59.778	63.158	0.00	0.00	0.00	4.45
846	874	0.116143	AACCCCAGCACTCTCTCTCT	59.884	55.000	0.00	0.00	0.00	3.10
848	876	1.274712	CCCCAGCACTCTCTCTCTTT	58.725	55.000	0.00	0.00	0.00	2.52
849	877	1.206849	CCCCAGCACTCTCTCTCTTTC	59.793	57.143	0.00	0.00	0.00	2.62
850	878	2.178580	CCCAGCACTCTCTCTCTTTCT	58.821	52.381	0.00	0.00	0.00	2.52
851	879	2.166254	CCCAGCACTCTCTCTCTTTCTC	59.834	54.545	0.00	0.00	0.00	2.87
852	880	3.091545	CCAGCACTCTCTCTCTTTCTCT	58.908	50.000	0.00	0.00	0.00	3.10
853	881	3.129287	CCAGCACTCTCTCTCTTTCTCTC	59.871	52.174	0.00	0.00	0.00	3.20
854	882	3.009723	AGCACTCTCTCTCTTTCTCTCG	58.990	50.000	0.00	0.00	0.00	4.04
855	883	2.747446	GCACTCTCTCTCTTTCTCTCGT	59.253	50.000	0.00	0.00	0.00	4.18
858	886	3.008594	ACTCTCTCTCTTTCTCTCGTCCA	59.991	47.826	0.00	0.00	0.00	4.02
993	1037	3.003173	CCACCTTCCTCCGCTCCA	61.003	66.667	0.00	0.00	0.00	3.86
1210	1255	2.473760	CGCCCACTCGTCGAGATCT	61.474	63.158	28.33	3.45	33.32	2.75
1211	1256	1.357334	GCCCACTCGTCGAGATCTC	59.643	63.158	28.33	13.05	33.32	2.75
1230	1275	3.036084	CGCGACCTCAACAAGCGT	61.036	61.111	0.00	0.00	44.96	5.07
1246	1291	1.888436	GCGTGTCCCAGAGACCATCA	61.888	60.000	0.00	0.00	45.68	3.07
1254	1299	0.108207	CAGAGACCATCATGCTCCCC	59.892	60.000	0.00	0.00	0.00	4.81
1315	1367	7.439573	CAACAATTGCTGGTGATTAGCATAGC	61.440	42.308	5.05	3.40	46.67	2.97
1362	1414	3.397439	GAGGCTCCAGCTCCTGCA	61.397	66.667	2.15	0.00	42.74	4.41
1374	1426	1.073216	CTCCTGCAAGTGTACGCTCG	61.073	60.000	9.86	0.00	0.00	5.03
1376	1428	1.080772	CTGCAAGTGTACGCTCGGA	60.081	57.895	9.86	0.00	0.00	4.55
1448	1500	2.656646	TGCCGATGCAGAACGAGT	59.343	55.556	11.28	0.00	44.23	4.18
1592	1647	3.552273	GCGTCAGACTGGTAAGAAGTCAA	60.552	47.826	1.81	0.00	45.38	3.18
1718	1773	1.630223	TGGAAATGCCACAATGCTGA	58.370	45.000	0.00	0.00	43.33	4.26
1886	1958	8.809066	TGTTGCCTAAGTTTCTAGTAATGACTA	58.191	33.333	0.00	0.00	37.10	2.59
2115	2196	4.457496	GGCGGCTCAGCTAGTGCA	62.457	66.667	0.00	0.00	42.74	4.57
2160	2241	6.464222	CAGGTTCAAGTAACATACCTCTTCA	58.536	40.000	0.00	0.00	40.08	3.02
2192	2273	2.169832	TGCTGAGGTACTTCAAGCAC	57.830	50.000	20.26	8.31	41.55	4.40
2211	2292	3.065925	GCACAACAACTTCTTGAGCTTCT	59.934	43.478	0.00	0.00	33.80	2.85
2248	2329	5.301298	ACACCTATATGTAAGTTCGACCTCC	59.699	44.000	0.00	0.00	0.00	4.30
2256	2337	1.446966	GTTCGACCTCCTGCTGCTC	60.447	63.158	0.00	0.00	0.00	4.26

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
13	14	7.559170	AGAGGAGAAAATACAATTGCAATAGCT	59.441	33.333	13.39	0.49	42.74	3.32
73	75	9.410556	CTCCAAAATTATGAAGTGTTTACTTGG	57.589	33.333	0.00	0.00	46.79	3.61
87	89	4.261741	CCGATGCCCTTCTCCAAAATTATG	60.262	45.833	0.00	0.00	0.00	1.90
89	91	3.287222	CCGATGCCCTTCTCCAAAATTA	58.713	45.455	0.00	0.00	0.00	1.40
161	163	2.845363	AACTTTACCACACCCTACCG	57.155	50.000	0.00	0.00	0.00	4.02
169	171	1.669604	TGCGCTGAAACTTTACCACA	58.330	45.000	9.73	0.00	0.00	4.17
170	172	2.989422	ATGCGCTGAAACTTTACCAC	57.011	45.000	9.73	0.00	0.00	4.16
185	187	0.521291	TCAGGCTTTTCCGAAATGCG	59.479	50.000	19.77	11.01	41.08	4.73
188	190	1.165270	CGGTCAGGCTTTTCCGAAAT	58.835	50.000	14.04	0.00	44.86	2.17
193	195	1.377333	CCTCCGGTCAGGCTTTTCC	60.377	63.158	0.00	0.00	40.77	3.13
223	225	1.063616	CATCATTTCAGGTGCTCGCAG	59.936	52.381	0.00	0.00	0.00	5.18
245	247	3.292460	TGGTTTTACAAACCACTCCTGG	58.708	45.455	15.66	0.00	44.74	4.45
280	282	1.588082	CAGGCCTACACGTACCGTT	59.412	57.895	3.98	0.00	38.32	4.44
358	360	2.032924	GGATTTTAACGGCCAGATTCGG	59.967	50.000	2.24	0.00	0.00	4.30
360	362	3.486875	CGTGGATTTTAACGGCCAGATTC	60.487	47.826	2.24	0.00	36.17	2.52
362	364	2.014128	CGTGGATTTTAACGGCCAGAT	58.986	47.619	2.24	0.00	36.17	2.90
363	365	1.444836	CGTGGATTTTAACGGCCAGA	58.555	50.000	2.24	0.00	36.17	3.86
364	366	3.988459	CGTGGATTTTAACGGCCAG	57.012	52.632	2.24	0.00	36.17	4.85
381	384	2.226200	TGCGGCATCATATGATTTTCCG	59.774	45.455	28.82	28.82	39.86	4.30
401	404	0.329261	TGCCAGGTCCTGAGGATTTG	59.671	55.000	21.23	6.34	32.73	2.32
410	413	3.626924	GACACCGTGCCAGGTCCT	61.627	66.667	0.00	0.00	43.89	3.85
416	419	1.952193	CATATGATGACACCGTGCCA	58.048	50.000	0.00	0.00	0.00	4.92
418	421	0.588252	GGCATATGATGACACCGTGC	59.412	55.000	6.97	0.00	38.49	5.34
422	425	2.936202	ACAAGGGCATATGATGACACC	58.064	47.619	6.97	0.00	41.20	4.16
430	433	3.118261	ACCACACTCTACAAGGGCATATG	60.118	47.826	0.00	0.00	0.00	1.78
436	439	6.894339	AAATTTTACCACACTCTACAAGGG	57.106	37.500	0.00	0.00	0.00	3.95
439	442	7.422399	GCTCAAAATTTTACCACACTCTACAA	58.578	34.615	2.44	0.00	0.00	2.41
441	444	6.077838	CGCTCAAAATTTTACCACACTCTAC	58.922	40.000	2.44	0.00	0.00	2.59
442	445	5.761234	ACGCTCAAAATTTTACCACACTCTA	59.239	36.000	2.44	0.00	0.00	2.43
443	446	4.578928	ACGCTCAAAATTTTACCACACTCT	59.421	37.500	2.44	0.00	0.00	3.24
444	447	4.675114	CACGCTCAAAATTTTACCACACTC	59.325	41.667	2.44	0.00	0.00	3.51
445	448	4.097286	ACACGCTCAAAATTTTACCACACT	59.903	37.500	2.44	0.00	0.00	3.55
465	469	1.745653	GGCCAGGCTTCTATGAAACAC	59.254	52.381	12.43	0.00	0.00	3.32
486	490	1.338389	TGTAGTTTACAAGCGGCCTCC	60.338	52.381	0.00	0.00	35.38	4.30
491	495	3.508762	AGATCGTGTAGTTTACAAGCGG	58.491	45.455	0.00	0.00	40.93	5.52
702	708	4.537965	CTCGCTACTACTATCGCAATGTT	58.462	43.478	0.00	0.00	0.00	2.71
707	713	1.520494	CCCTCGCTACTACTATCGCA	58.480	55.000	0.00	0.00	0.00	5.10
710	716	7.362487	GGTTTTATACCCCTCGCTACTACTATC	60.362	44.444	0.00	0.00	41.43	2.08
748	754	2.612221	GGTGTCTTACCTGCGCTTAGTT	60.612	50.000	9.73	0.00	46.51	2.24
750	756	1.641577	GGTGTCTTACCTGCGCTTAG	58.358	55.000	9.73	0.00	46.51	2.18
751	757	3.826637	GGTGTCTTACCTGCGCTTA	57.173	52.632	9.73	0.00	46.51	3.09
752	758	4.695560	GGTGTCTTACCTGCGCTT	57.304	55.556	9.73	0.00	46.51	4.68
784	804	1.817941	GGTGCAGTTGTGGACACGT	60.818	57.895	0.00	0.00	46.50	4.49
794	814	1.077501	CGGGATGGATGGTGCAGTT	60.078	57.895	0.00	0.00	0.00	3.16
827	847	0.116143	AGAGAGAGAGTGCTGGGGTT	59.884	55.000	0.00	0.00	0.00	4.11
834	854	2.747446	ACGAGAGAAAGAGAGAGAGTGC	59.253	50.000	0.00	0.00	0.00	4.40
993	1037	1.311059	GGTGGCTTCCATGGGGATT	59.689	57.895	13.02	0.00	44.48	3.01
1210	1255	2.733218	CTTGTTGAGGTCGCGCGA	60.733	61.111	31.40	31.40	0.00	5.87
1211	1256	4.430423	GCTTGTTGAGGTCGCGCG	62.430	66.667	26.76	26.76	0.00	6.86
1230	1275	0.543277	GCATGATGGTCTCTGGGACA	59.457	55.000	10.30	0.00	46.16	4.02
1362	1414	2.564975	CCGTCCGAGCGTACACTT	59.435	61.111	0.00	0.00	0.00	3.16
1393	1445	2.434359	CCGGACTCGTTCAAGGCC	60.434	66.667	0.00	0.00	41.52	5.19
1448	1500	4.386951	CATGTCGTGGACGGCCCA	62.387	66.667	3.83	0.00	44.42	5.36
1592	1647	3.893813	GAGGCAAATTTCTAGGATGGCAT	59.106	43.478	0.00	0.00	38.86	4.40
1718	1773	1.094650	TGACTGCAACACACGTGCAT	61.095	50.000	17.22	0.00	37.95	3.96
2176	2257	3.552132	TGTTGTGCTTGAAGTACCTCA	57.448	42.857	10.85	7.15	29.18	3.86
2192	2273	4.553547	CGGAAGAAGCTCAAGAAGTTGTTG	60.554	45.833	6.41	6.41	34.98	3.33
2211	2292	1.476845	TAGGTGTTGAGCTGGCGGAA	61.477	55.000	0.00	0.00	0.00	4.30
2248	2329	2.991076	GCCCAAAGCAGAGCAGCAG	61.991	63.158	0.00	0.00	42.97	4.24
2256	2337	1.473788	GGCATAAATGGCCCAAAGCAG	60.474	52.381	0.00	0.00	45.87	4.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.