AutoCloner

Multiple sequence alignment - TraesCS6D01G040000

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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	TraesCS6D01G040000	chr6D	100.000	3152	0	0	1	3152	16367977	16371128	0.000000e+00	5821.0
1	TraesCS6D01G040000	chr6D	79.864	1177	211	16	964	2124	14941189	14940023	0.000000e+00	837.0
2	TraesCS6D01G040000	chr6D	79.419	1205	216	20	972	2154	14727352	14726158	0.000000e+00	822.0
3	TraesCS6D01G040000	chr6D	84.713	157	18	3	32	183	16378007	16378162	5.450000e-33	152.0
4	TraesCS6D01G040000	chr6A	95.725	2199	74	6	963	3152	16628963	16631150	0.000000e+00	3522.0
5	TraesCS6D01G040000	chr6A	80.508	1180	186	24	957	2103	15647236	15648404	0.000000e+00	865.0
6	TraesCS6D01G040000	chr6A	83.579	475	45	17	593	1060	16597312	16597760	6.290000e-112	414.0
7	TraesCS6D01G040000	chr6A	85.165	364	31	11	255	598	16596875	16597235	5.000000e-93	351.0
8	TraesCS6D01G040000	chr6A	85.340	191	20	4	1	183	16653374	16653564	1.150000e-44	191.0
9	TraesCS6D01G040000	chr6A	92.000	50	4	0	119	168	15890313	15890264	1.570000e-08	71.3
10	TraesCS6D01G040000	chr6A	92.000	50	4	0	119	168	15909797	15909748	1.570000e-08	71.3
11	TraesCS6D01G040000	chr6B	93.790	2206	102	13	962	3152	28471430	28473615	0.000000e+00	3282.0
12	TraesCS6D01G040000	chr6B	91.079	2242	130	29	602	2828	59305678	59303492	0.000000e+00	2968.0
13	TraesCS6D01G040000	chr6B	94.910	1061	45	5	2095	3152	28746747	28745693	0.000000e+00	1652.0
14	TraesCS6D01G040000	chr6B	84.768	1510	172	24	596	2093	28748356	28746893	0.000000e+00	1461.0
15	TraesCS6D01G040000	chr6B	84.768	1510	172	24	596	2093	28753722	28752259	0.000000e+00	1461.0
16	TraesCS6D01G040000	chr6B	83.152	368	42	14	19	372	28748885	28748524	5.070000e-83	318.0
17	TraesCS6D01G040000	chr6B	83.152	368	42	14	19	372	28754251	28753890	5.070000e-83	318.0
18	TraesCS6D01G040000	chr6B	83.588	262	30	12	79	333	28467438	28467693	1.890000e-57	233.0
19	TraesCS6D01G040000	chr6B	86.885	183	21	1	21	200	349491563	349491745	5.330000e-48	202.0
20	TraesCS6D01G040000	chrUn	94.019	1070	46	6	2095	3152	76385706	76384643	0.000000e+00	1607.0
21	TraesCS6D01G040000	chrUn	84.768	1510	172	24	596	2093	76387750	76386287	0.000000e+00	1461.0
22	TraesCS6D01G040000	chrUn	97.661	513	10	2	2640	3152	76408887	76408377	0.000000e+00	880.0
23	TraesCS6D01G040000	chrUn	83.152	368	42	14	19	372	76388279	76387918	5.070000e-83	318.0
24	TraesCS6D01G040000	chr1B	86.006	1079	120	16	1791	2851	48092874	48091809	0.000000e+00	1127.0
25	TraesCS6D01G040000	chr1B	79.319	1204	219	23	969	2154	48062374	48061183	0.000000e+00	817.0
26	TraesCS6D01G040000	chr1B	80.800	875	144	21	929	1794	48102467	48101608	0.000000e+00	664.0
27	TraesCS6D01G040000	chr1B	84.527	349	41	9	962	1305	48142679	48142339	1.810000e-87	333.0
28	TraesCS6D01G040000	chr5D	79.833	1076	191	19	1047	2106	27979256	27978191	0.000000e+00	761.0
29	TraesCS6D01G040000	chr7B	83.288	736	106	11	2120	2851	397596580	397595858	0.000000e+00	662.0
30	TraesCS6D01G040000	chr3B	84.025	482	64	8	2375	2851	262657034	262656561	4.790000e-123	451.0
31	TraesCS6D01G040000	chr3B	83.716	479	66	8	2375	2850	441233888	441234357	2.890000e-120	442.0
32	TraesCS6D01G040000	chr3B	81.609	261	34	8	2852	3102	305803064	305803320	1.480000e-48	204.0
33	TraesCS6D01G040000	chr3B	80.534	262	37	8	2851	3102	262656515	262656258	4.150000e-44	189.0
34	TraesCS6D01G040000	chr3B	80.153	262	36	10	2851	3101	441234404	441234660	6.940000e-42	182.0
35	TraesCS6D01G040000	chr1A	80.251	557	95	8	964	1510	61152614	61153165	3.790000e-109	405.0
36	TraesCS6D01G040000	chr5A	79.915	234	32	13	272	503	573605010	573604790	1.170000e-34	158.0

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	TraesCS6D01G040000	chr6D	16367977	16371128	3151	False	5821.000000	5821	100.0000	1	3152	1	chr6D.!!$F1	3151
1	TraesCS6D01G040000	chr6D	14940023	14941189	1166	True	837.000000	837	79.8640	964	2124	1	chr6D.!!$R2	1160
2	TraesCS6D01G040000	chr6D	14726158	14727352	1194	True	822.000000	822	79.4190	972	2154	1	chr6D.!!$R1	1182
3	TraesCS6D01G040000	chr6A	16628963	16631150	2187	False	3522.000000	3522	95.7250	963	3152	1	chr6A.!!$F2	2189
4	TraesCS6D01G040000	chr6A	15647236	15648404	1168	False	865.000000	865	80.5080	957	2103	1	chr6A.!!$F1	1146
5	TraesCS6D01G040000	chr6A	16596875	16597760	885	False	382.500000	414	84.3720	255	1060	2	chr6A.!!$F4	805
6	TraesCS6D01G040000	chr6B	59303492	59305678	2186	True	2968.000000	2968	91.0790	602	2828	1	chr6B.!!$R1	2226
7	TraesCS6D01G040000	chr6B	28467438	28473615	6177	False	1757.500000	3282	88.6890	79	3152	2	chr6B.!!$F2	3073
8	TraesCS6D01G040000	chr6B	28745693	28754251	8558	True	1042.000000	1652	86.1500	19	3152	5	chr6B.!!$R2	3133
9	TraesCS6D01G040000	chrUn	76384643	76388279	3636	True	1128.666667	1607	87.3130	19	3152	3	chrUn.!!$R2	3133
10	TraesCS6D01G040000	chrUn	76408377	76408887	510	True	880.000000	880	97.6610	2640	3152	1	chrUn.!!$R1	512
11	TraesCS6D01G040000	chr1B	48091809	48092874	1065	True	1127.000000	1127	86.0060	1791	2851	1	chr1B.!!$R2	1060
12	TraesCS6D01G040000	chr1B	48061183	48062374	1191	True	817.000000	817	79.3190	969	2154	1	chr1B.!!$R1	1185
13	TraesCS6D01G040000	chr1B	48101608	48102467	859	True	664.000000	664	80.8000	929	1794	1	chr1B.!!$R3	865
14	TraesCS6D01G040000	chr5D	27978191	27979256	1065	True	761.000000	761	79.8330	1047	2106	1	chr5D.!!$R1	1059
15	TraesCS6D01G040000	chr7B	397595858	397596580	722	True	662.000000	662	83.2880	2120	2851	1	chr7B.!!$R1	731
16	TraesCS6D01G040000	chr3B	262656258	262657034	776	True	320.000000	451	82.2795	2375	3102	2	chr3B.!!$R1	727
17	TraesCS6D01G040000	chr3B	441233888	441234660	772	False	312.000000	442	81.9345	2375	3101	2	chr3B.!!$F2	726
18	TraesCS6D01G040000	chr1A	61152614	61153165	551	False	405.000000	405	80.2510	964	1510	1	chr1A.!!$F1	546

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
906	4363	0.039618	AACCCATTCACTCCGGCAAT	59.960	50.0	0.0	0.0	0.0	3.56	F
909	4366	0.394216	CCATTCACTCCGGCAATCCA	60.394	55.0	0.0	0.0	0.0	3.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2112	11555	0.970937	TGGGTACTTCTCCTCGGCAG	60.971	60.0	0.0	0.0	0.00	4.85	R
2232	11676	1.464734	TTGGCGAACAACACAGGAAA	58.535	45.0	0.0	0.0	33.18	3.13	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
31	32	7.716123	TCCTTCCAAACGAGTTTTACTTGATTA	59.284	33.333	0.00	0.00	33.76	1.75
102	107	8.208903	TGTTTTACTTAGAAAGTCTAGTTGCCT	58.791	33.333	0.00	0.00	41.77	4.75
113	118	6.859112	AGTCTAGTTGCCTATCTCTCAAAA	57.141	37.500	0.00	0.00	0.00	2.44
208	213	4.764172	CCTGTTACTGAGGAAAGAGATGG	58.236	47.826	0.00	0.00	31.48	3.51
225	230	6.430007	AGAGATGGCATTTTTAAGAGATGGT	58.570	36.000	0.00	0.00	0.00	3.55
496	579	2.291402	TATGGGCCAATGGGGGTTCG	62.291	60.000	11.89	0.00	37.04	3.95
564	648	2.770048	CCTCCCTCCCTGGCGATT	60.770	66.667	0.00	0.00	0.00	3.34
567	651	1.615124	TCCCTCCCTGGCGATTGAA	60.615	57.895	0.00	0.00	0.00	2.69
568	652	0.988145	TCCCTCCCTGGCGATTGAAT	60.988	55.000	0.00	0.00	0.00	2.57
569	653	0.106519	CCCTCCCTGGCGATTGAATT	60.107	55.000	0.00	0.00	0.00	2.17
572	656	0.463654	TCCCTGGCGATTGAATTCCG	60.464	55.000	2.27	0.40	0.00	4.30
581	665	4.876107	GGCGATTGAATTCCGGATATATGT	59.124	41.667	4.15	0.00	0.00	2.29
583	667	5.580691	GCGATTGAATTCCGGATATATGTGA	59.419	40.000	4.15	0.00	0.00	3.58
635	803	9.675464	AAAAAGATCCATTTATGTAACCGAGTA	57.325	29.630	0.00	0.00	0.00	2.59
636	804	8.658499	AAAGATCCATTTATGTAACCGAGTAC	57.342	34.615	0.00	0.00	0.00	2.73
637	805	7.598759	AGATCCATTTATGTAACCGAGTACT	57.401	36.000	0.00	0.00	0.00	2.73
638	806	8.701908	AGATCCATTTATGTAACCGAGTACTA	57.298	34.615	0.00	0.00	0.00	1.82
704	4154	7.951706	AAAAATGAAATTGTTTGCAGAAACG	57.048	28.000	0.00	0.00	43.92	3.60
712	4164	5.508124	TTGTTTGCAGAAACGAAACAAAG	57.492	34.783	7.88	0.00	43.23	2.77
872	4329	3.019564	CCATCAAACTCTGGTCCAATCC	58.980	50.000	0.00	0.00	0.00	3.01
902	4359	1.019278	CGACAACCCATTCACTCCGG	61.019	60.000	0.00	0.00	0.00	5.14
904	4361	1.303236	CAACCCATTCACTCCGGCA	60.303	57.895	0.00	0.00	0.00	5.69
906	4363	0.039618	AACCCATTCACTCCGGCAAT	59.960	50.000	0.00	0.00	0.00	3.56
907	4364	0.394352	ACCCATTCACTCCGGCAATC	60.394	55.000	0.00	0.00	0.00	2.67
908	4365	1.103398	CCCATTCACTCCGGCAATCC	61.103	60.000	0.00	0.00	0.00	3.01
909	4366	0.394216	CCATTCACTCCGGCAATCCA	60.394	55.000	0.00	0.00	0.00	3.41
910	4367	1.683943	CATTCACTCCGGCAATCCAT	58.316	50.000	0.00	0.00	0.00	3.41
913	4370	1.153369	CACTCCGGCAATCCATCGT	60.153	57.895	0.00	0.00	0.00	3.73
914	4371	0.744414	CACTCCGGCAATCCATCGTT	60.744	55.000	0.00	0.00	0.00	3.85
917	4374	0.742990	TCCGGCAATCCATCGTTGTC	60.743	55.000	0.00	0.00	0.00	3.18
918	4375	0.744414	CCGGCAATCCATCGTTGTCT	60.744	55.000	0.00	0.00	0.00	3.41
919	4376	0.652592	CGGCAATCCATCGTTGTCTC	59.347	55.000	0.00	0.00	0.00	3.36
920	4377	1.737838	GGCAATCCATCGTTGTCTCA	58.262	50.000	0.00	0.00	0.00	3.27
921	4378	2.083774	GGCAATCCATCGTTGTCTCAA	58.916	47.619	0.00	0.00	0.00	3.02
922	4379	2.487762	GGCAATCCATCGTTGTCTCAAA	59.512	45.455	0.00	0.00	0.00	2.69
923	4380	3.057596	GGCAATCCATCGTTGTCTCAAAA	60.058	43.478	0.00	0.00	0.00	2.44
924	4381	4.545610	GCAATCCATCGTTGTCTCAAAAA	58.454	39.130	0.00	0.00	0.00	1.94
947	4410	6.470557	AAAACAATTGCAATCCATCGAAAG	57.529	33.333	13.38	0.00	0.00	2.62
953	4416	2.356695	TGCAATCCATCGAAAGCATCTG	59.643	45.455	0.00	0.00	29.87	2.90
954	4417	2.857489	GCAATCCATCGAAAGCATCTGC	60.857	50.000	0.00	0.00	42.49	4.26
1072	4558	2.608988	CTGCCACCTCCCCACTCT	60.609	66.667	0.00	0.00	0.00	3.24
1330	10194	1.152546	GTGGACAAAACCCTGGCCT	60.153	57.895	3.32	0.00	45.80	5.19
1347	10211	2.682494	TCTAAGGTCGCCGGGCTT	60.682	61.111	18.34	6.97	0.00	4.35
1517	10381	0.537600	TCCTATCTTCTCTCGCGGGG	60.538	60.000	5.94	0.00	0.00	5.73
1550	10414	0.604243	ATCAAGCCCAACGTTGCGTA	60.604	50.000	22.93	4.78	39.99	4.42
1745	10609	1.153549	GCGAGGAGAAGATTGCCGT	60.154	57.895	0.00	0.00	0.00	5.68
1920	10784	1.324383	TTGCTCATCGCCCGATAGTA	58.676	50.000	2.53	0.00	38.05	1.82
2103	11546	1.071605	CGCACCTTGCTGAAGACTAC	58.928	55.000	0.00	0.00	42.25	2.73
2112	11555	2.886124	GAAGACTACGCGGCTGCC	60.886	66.667	13.01	9.11	38.08	4.85
2232	11676	2.976882	TGCAGTAAACTGGTTAGTCCCT	59.023	45.455	11.86	0.00	43.94	4.20
2253	11697	1.464734	TCCTGTGTTGTTCGCCAAAA	58.535	45.000	0.00	0.00	34.07	2.44
2254	11698	1.133407	TCCTGTGTTGTTCGCCAAAAC	59.867	47.619	2.11	2.11	41.04	2.43
2255	11699	1.135257	CCTGTGTTGTTCGCCAAAACA	60.135	47.619	9.42	9.42	46.72	2.83
2256	11700	2.270275	TGTGTTGTTCGCCAAAACAG	57.730	45.000	6.57	0.00	44.59	3.16
2273	11721	3.944055	ACAGACAGACGCTTGTTATCT	57.056	42.857	0.00	0.00	0.00	1.98
2292	11740	7.064609	TGTTATCTTCTCTAAAATGGCAGTTCG	59.935	37.037	0.00	0.00	0.00	3.95
2300	11748	1.813513	AATGGCAGTTCGGTCTTCAG	58.186	50.000	0.00	0.00	0.00	3.02
2302	11750	0.249868	TGGCAGTTCGGTCTTCAGTG	60.250	55.000	0.00	0.00	0.00	3.66
2358	11806	5.696270	GCCTTTTGGTTTCTTTCACCTTATG	59.304	40.000	0.00	0.00	42.99	1.90
2359	11807	6.685368	GCCTTTTGGTTTCTTTCACCTTATGT	60.685	38.462	0.00	0.00	42.99	2.29
2360	11808	7.470841	GCCTTTTGGTTTCTTTCACCTTATGTA	60.471	37.037	0.00	0.00	42.99	2.29
2506	11962	9.520515	AGTCTAAACCATTAACATCTGTCATTT	57.479	29.630	0.00	0.00	0.00	2.32
2513	11972	9.241919	ACCATTAACATCTGTCATTTATTGTGA	57.758	29.630	0.00	0.00	0.00	3.58
2522	11981	8.621532	TCTGTCATTTATTGTGAAACTAAGCT	57.378	30.769	0.00	0.00	38.04	3.74
2579	12039	4.825546	ACTATTCAGTGCTTGCATATGC	57.174	40.909	21.09	21.09	36.00	3.14
2583	12043	2.291365	TCAGTGCTTGCATATGCGATT	58.709	42.857	22.21	4.66	45.83	3.34
2628	12088	8.523523	TGCATCTATCTTTTCACAACAAAATG	57.476	30.769	0.00	0.00	0.00	2.32
3008	12537	9.996554	TGATTACTGAAGTTCAAGAGAAACATA	57.003	29.630	7.06	0.00	35.08	2.29

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	6.715264	AGTAAAACTCGTTTGGAAGGATGAAT	59.285	34.615	0.00	0.00	32.36	2.57
2	3	5.617252	AGTAAAACTCGTTTGGAAGGATGA	58.383	37.500	0.00	0.00	32.36	2.92
3	4	5.941948	AGTAAAACTCGTTTGGAAGGATG	57.058	39.130	0.00	0.00	32.36	3.51
5	6	5.430007	TCAAGTAAAACTCGTTTGGAAGGA	58.570	37.500	0.00	0.00	32.36	3.36
6	7	5.744666	TCAAGTAAAACTCGTTTGGAAGG	57.255	39.130	0.00	0.00	32.36	3.46
7	8	9.724839	TTTAATCAAGTAAAACTCGTTTGGAAG	57.275	29.630	0.00	0.00	32.36	3.46
14	15	9.893305	CTCCAATTTTAATCAAGTAAAACTCGT	57.107	29.630	0.00	0.00	36.15	4.18
15	16	9.341899	CCTCCAATTTTAATCAAGTAAAACTCG	57.658	33.333	0.00	0.00	36.15	4.18
138	143	8.292448	ACAAGTGTAGCAGAAAATTTACATCAG	58.708	33.333	0.00	0.00	0.00	2.90
145	150	5.043248	GTGCACAAGTGTAGCAGAAAATTT	58.957	37.500	13.17	0.00	39.21	1.82
158	163	1.382522	ACCAGTTCTGTGCACAAGTG	58.617	50.000	21.98	18.68	0.00	3.16
208	213	6.928492	TCCAAAACACCATCTCTTAAAAATGC	59.072	34.615	0.00	0.00	0.00	3.56
373	428	7.907841	TGCTATGTACCTAAAGGAAGACATA	57.092	36.000	2.23	11.50	37.54	2.29
418	473	9.226606	TGGACGAAACAATATGTATCTTTTTCT	57.773	29.630	0.00	0.00	0.00	2.52
419	474	9.274065	GTGGACGAAACAATATGTATCTTTTTC	57.726	33.333	0.00	0.00	0.00	2.29
420	475	7.960738	CGTGGACGAAACAATATGTATCTTTTT	59.039	33.333	0.00	0.00	43.02	1.94
421	476	7.332430	TCGTGGACGAAACAATATGTATCTTTT	59.668	33.333	0.00	0.00	46.30	2.27
422	477	6.814644	TCGTGGACGAAACAATATGTATCTTT	59.185	34.615	0.00	0.00	46.30	2.52
423	478	6.334989	TCGTGGACGAAACAATATGTATCTT	58.665	36.000	0.00	0.00	46.30	2.40
424	479	5.898174	TCGTGGACGAAACAATATGTATCT	58.102	37.500	0.00	0.00	46.30	1.98
460	543	3.046374	CCATAGGGCCCAGTTTACTAGT	58.954	50.000	27.56	0.00	0.00	2.57
461	544	2.372172	CCCATAGGGCCCAGTTTACTAG	59.628	54.545	27.56	1.84	35.35	2.57
462	545	2.414612	CCCATAGGGCCCAGTTTACTA	58.585	52.381	27.56	5.71	35.35	1.82
496	579	0.734889	CATCGATTGTTCACCAGGGC	59.265	55.000	0.00	0.00	0.00	5.19
503	586	2.013563	GCTGCTCCCATCGATTGTTCA	61.014	52.381	0.00	0.00	0.00	3.18
529	613	0.179215	GGCACTGAATTTGTCGCTCG	60.179	55.000	0.00	0.00	0.00	5.03
532	616	0.169009	GGAGGCACTGAATTTGTCGC	59.831	55.000	0.00	0.00	41.55	5.19
564	648	5.816955	TGGTCACATATATCCGGAATTCA	57.183	39.130	9.01	0.00	0.00	2.57
567	651	8.324191	AGATAATGGTCACATATATCCGGAAT	57.676	34.615	9.01	6.29	35.94	3.01
568	652	7.733773	AGATAATGGTCACATATATCCGGAA	57.266	36.000	9.01	0.00	35.94	4.30
569	653	9.434275	AATAGATAATGGTCACATATATCCGGA	57.566	33.333	6.61	6.61	35.94	5.14
614	780	8.574737	ACTAGTACTCGGTTACATAAATGGATC	58.425	37.037	0.00	0.00	0.00	3.36
692	4142	5.755330	TTCTTTGTTTCGTTTCTGCAAAC	57.245	34.783	0.00	0.00	38.91	2.93
758	4215	5.443230	TTTCATTTTCCCCAGTTTTTGGT	57.557	34.783	0.00	0.00	46.25	3.67
872	4329	1.746220	TGGGTTGTCGTTCTTTTGGTG	59.254	47.619	0.00	0.00	0.00	4.17
902	4359	3.829886	TTTGAGACAACGATGGATTGC	57.170	42.857	0.00	0.00	0.00	3.56
923	4380	6.566376	GCTTTCGATGGATTGCAATTGTTTTT	60.566	34.615	14.33	0.00	0.00	1.94
924	4381	5.106987	GCTTTCGATGGATTGCAATTGTTTT	60.107	36.000	14.33	0.00	0.00	2.43
925	4382	4.389687	GCTTTCGATGGATTGCAATTGTTT	59.610	37.500	14.33	0.00	0.00	2.83
926	4383	3.928375	GCTTTCGATGGATTGCAATTGTT	59.072	39.130	14.33	0.88	0.00	2.83
927	4384	3.056678	TGCTTTCGATGGATTGCAATTGT	60.057	39.130	14.33	2.57	31.09	2.71
1285	10140	2.207924	AGAGGTCTTTGGCGACGGT	61.208	57.895	0.00	0.00	34.75	4.83
1330	10194	1.380246	TAAGCCCGGCGACCTTAGA	60.380	57.895	9.30	0.00	0.00	2.10
1542	10406	2.716828	CTCGTGCAGGTACGCAACG	61.717	63.158	6.26	4.71	45.14	4.10
1650	10514	0.599991	CTATACCTTCGGCGCATGCA	60.600	55.000	19.57	0.00	45.35	3.96
1745	10609	4.407621	TGGTCTTCAAGTAGTCCACTTTGA	59.592	41.667	0.00	0.00	45.54	2.69
1920	10784	1.270907	CCTCCAGGCTGTAAGTGAGT	58.729	55.000	14.43	0.00	35.30	3.41
2112	11555	0.970937	TGGGTACTTCTCCTCGGCAG	60.971	60.000	0.00	0.00	0.00	4.85
2159	11602	5.009610	ACAGTTACACATTTTAACAGCAGGG	59.990	40.000	0.00	0.00	32.70	4.45
2232	11676	1.464734	TTGGCGAACAACACAGGAAA	58.535	45.000	0.00	0.00	33.18	3.13
2253	11697	3.944055	AGATAACAAGCGTCTGTCTGT	57.056	42.857	0.00	0.00	0.00	3.41
2254	11698	4.489810	AGAAGATAACAAGCGTCTGTCTG	58.510	43.478	0.00	0.00	0.00	3.51
2255	11699	4.461081	AGAGAAGATAACAAGCGTCTGTCT	59.539	41.667	0.00	0.00	0.00	3.41
2256	11700	4.739195	AGAGAAGATAACAAGCGTCTGTC	58.261	43.478	0.00	0.00	0.00	3.51
2273	11721	4.000988	GACCGAACTGCCATTTTAGAGAA	58.999	43.478	0.00	0.00	0.00	2.87
2506	11962	9.371136	CATCTTCACTAGCTTAGTTTCACAATA	57.629	33.333	0.00	0.00	36.76	1.90
2513	11972	5.165961	TGCCATCTTCACTAGCTTAGTTT	57.834	39.130	0.00	0.00	36.76	2.66
2522	11981	3.134623	ACCGATTCATGCCATCTTCACTA	59.865	43.478	0.00	0.00	0.00	2.74
2579	12039	5.971202	AGTTTTGTGAACAGCTGTAAAATCG	59.029	36.000	22.01	0.00	0.00	3.34
2583	12043	4.082517	TGCAGTTTTGTGAACAGCTGTAAA	60.083	37.500	22.01	14.03	34.35	2.01
2628	12088	5.250235	TCTGAATCTACAGTTCATCGACC	57.750	43.478	0.00	0.00	38.79	4.79
3008	12537	5.714806	ACATCATCCGGAAACAATAAAAGGT	59.285	36.000	9.01	0.00	0.00	3.50
3058	12594	4.618927	GCACCACATATGTTGCATGTTTCT	60.619	41.667	22.07	0.00	34.39	2.52

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.