AutoCloner

Multiple sequence alignment - TraesCS3B01G527900

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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	TraesCS3B01G527900	chr3B	100.000	3554	0	0	1	3554	769634142	769630589	0.000000e+00	6564.0
1	TraesCS3B01G527900	chr3B	93.536	1315	62	16	1775	3073	769813585	769812278	0.000000e+00	1936.0
2	TraesCS3B01G527900	chr3B	94.207	794	43	1	940	1733	769814371	769813581	0.000000e+00	1208.0
3	TraesCS3B01G527900	chr3B	92.182	793	47	7	1655	2436	770117112	770116324	0.000000e+00	1107.0
4	TraesCS3B01G527900	chr3B	92.535	710	51	1	938	1647	770119689	770118982	0.000000e+00	1016.0
5	TraesCS3B01G527900	chr3B	90.991	555	33	4	1	538	770120477	770119923	0.000000e+00	732.0
6	TraesCS3B01G527900	chr3B	75.062	1608	315	57	1014	2569	770109059	770107486	0.000000e+00	669.0
7	TraesCS3B01G527900	chr3B	89.114	542	30	10	1	538	769815123	769814607	0.000000e+00	647.0
8	TraesCS3B01G527900	chr3B	75.424	1416	289	33	996	2359	769298414	769299822	1.800000e-177	632.0
9	TraesCS3B01G527900	chr3B	74.310	1631	333	49	996	2576	769267902	769266308	2.350000e-171	612.0
10	TraesCS3B01G527900	chr3B	75.106	1414	291	35	996	2359	770346723	770348125	3.920000e-169	604.0
11	TraesCS3B01G527900	chr3B	75.108	1390	284	35	1019	2353	769404758	769403376	8.500000e-166	593.0
12	TraesCS3B01G527900	chr3B	74.108	1626	333	53	996	2570	770404209	770402621	1.100000e-164	590.0
13	TraesCS3B01G527900	chr3B	74.060	1596	322	55	1000	2545	769192387	769190834	1.430000e-158	569.0
14	TraesCS3B01G527900	chr3B	73.935	1596	324	55	1000	2545	769156642	769158195	3.100000e-155	558.0
15	TraesCS3B01G527900	chr3B	73.707	1605	328	52	1024	2570	769378342	769376774	1.120000e-149	540.0
16	TraesCS3B01G527900	chr3B	73.890	1532	313	51	1080	2579	769232613	769231137	1.880000e-147	532.0
17	TraesCS3B01G527900	chr3B	73.180	1607	338	49	1024	2576	770313045	770311478	8.860000e-136	494.0
18	TraesCS3B01G527900	chr3B	75.851	940	181	31	996	1921	769484341	769483434	1.510000e-118	436.0
19	TraesCS3B01G527900	chr3B	76.536	537	100	16	1410	1942	769456620	769456106	1.630000e-68	270.0
20	TraesCS3B01G527900	chr3B	90.909	88	7	1	646	733	620203759	620203673	2.240000e-22	117.0
21	TraesCS3B01G527900	chr3B	95.588	68	3	0	3063	3130	655304980	655304913	3.750000e-20	110.0
22	TraesCS3B01G527900	chr3B	93.750	64	3	1	569	631	769814608	769814545	1.050000e-15	95.3
23	TraesCS3B01G527900	chr3B	93.750	64	3	1	569	631	770119924	770119861	1.050000e-15	95.3
24	TraesCS3B01G527900	chr3D	93.999	2816	129	15	1	2804	577342214	577339427	0.000000e+00	4228.0
25	TraesCS3B01G527900	chr3D	95.238	63	3	0	3064	3126	598102588	598102526	2.260000e-17	100.0
26	TraesCS3B01G527900	chr3A	93.433	1736	90	11	267	1984	712630283	712628554	0.000000e+00	2553.0
27	TraesCS3B01G527900	chr3A	92.393	815	38	8	1984	2789	712620344	712619545	0.000000e+00	1140.0
28	TraesCS3B01G527900	chr3A	75.663	1471	270	44	1110	2534	712654998	712653570	0.000000e+00	652.0
29	TraesCS3B01G527900	chr3A	91.335	427	24	7	3130	3554	712589811	712589396	3.980000e-159	571.0
30	TraesCS3B01G527900	chr3A	94.964	278	10	3	1	277	712630588	712630314	1.960000e-117	433.0
31	TraesCS3B01G527900	chr3A	85.119	336	19	9	2790	3117	712602572	712602260	7.410000e-82	315.0
32	TraesCS3B01G527900	chr3A	84.348	345	21	11	2802	3138	712590172	712589853	1.240000e-79	307.0
33	TraesCS3B01G527900	chrUn	74.477	1481	290	53	1110	2545	344085707	344087144	8.620000e-156	560.0
34	TraesCS3B01G527900	chrUn	85.821	134	9	4	598	731	248004	248127	2.230000e-27	134.0
35	TraesCS3B01G527900	chrUn	90.141	71	7	0	3056	3126	96473974	96474044	3.780000e-15	93.5
36	TraesCS3B01G527900	chrUn	72.121	330	71	12	2225	2545	333458542	333458225	2.940000e-11	80.5
37	TraesCS3B01G527900	chr1D	90.226	133	12	1	599	731	458830425	458830556	4.720000e-39	172.0
38	TraesCS3B01G527900	chr5B	84.472	161	13	4	590	740	369480687	369480845	7.950000e-32	148.0
39	TraesCS3B01G527900	chr7A	85.714	140	10	2	601	730	67729531	67729670	4.780000e-29	139.0
40	TraesCS3B01G527900	chr7B	85.000	140	11	2	601	730	587669017	587668878	2.230000e-27	134.0
41	TraesCS3B01G527900	chr7D	91.892	74	4	2	3058	3130	228511633	228511561	6.280000e-18	102.0
42	TraesCS3B01G527900	chr2B	95.238	63	3	0	3064	3126	215832550	215832612	2.260000e-17	100.0
43	TraesCS3B01G527900	chr6B	93.846	65	4	0	3062	3126	83138380	83138444	8.120000e-17	99.0
44	TraesCS3B01G527900	chr5A	89.744	78	7	1	3050	3126	239531303	239531226	8.120000e-17	99.0
45	TraesCS3B01G527900	chr1B	85.870	92	12	1	609	699	456729524	456729433	2.920000e-16	97.1

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	TraesCS3B01G527900	chr3B	769630589	769634142	3553	True	6564.000	6564	100.00000	1	3554	1	chr3B.!!$R10	3553
1	TraesCS3B01G527900	chr3B	769812278	769815123	2845	True	971.575	1936	92.65175	1	3073	4	chr3B.!!$R14	3072
2	TraesCS3B01G527900	chr3B	770116324	770120477	4153	True	737.575	1107	92.36450	1	2436	4	chr3B.!!$R15	2435
3	TraesCS3B01G527900	chr3B	770107486	770109059	1573	True	669.000	669	75.06200	1014	2569	1	chr3B.!!$R11	1555
4	TraesCS3B01G527900	chr3B	769298414	769299822	1408	False	632.000	632	75.42400	996	2359	1	chr3B.!!$F2	1363
5	TraesCS3B01G527900	chr3B	769266308	769267902	1594	True	612.000	612	74.31000	996	2576	1	chr3B.!!$R5	1580
6	TraesCS3B01G527900	chr3B	770346723	770348125	1402	False	604.000	604	75.10600	996	2359	1	chr3B.!!$F3	1363
7	TraesCS3B01G527900	chr3B	769403376	769404758	1382	True	593.000	593	75.10800	1019	2353	1	chr3B.!!$R7	1334
8	TraesCS3B01G527900	chr3B	770402621	770404209	1588	True	590.000	590	74.10800	996	2570	1	chr3B.!!$R13	1574
9	TraesCS3B01G527900	chr3B	769190834	769192387	1553	True	569.000	569	74.06000	1000	2545	1	chr3B.!!$R3	1545
10	TraesCS3B01G527900	chr3B	769156642	769158195	1553	False	558.000	558	73.93500	1000	2545	1	chr3B.!!$F1	1545
11	TraesCS3B01G527900	chr3B	769376774	769378342	1568	True	540.000	540	73.70700	1024	2570	1	chr3B.!!$R6	1546
12	TraesCS3B01G527900	chr3B	769231137	769232613	1476	True	532.000	532	73.89000	1080	2579	1	chr3B.!!$R4	1499
13	TraesCS3B01G527900	chr3B	770311478	770313045	1567	True	494.000	494	73.18000	1024	2576	1	chr3B.!!$R12	1552
14	TraesCS3B01G527900	chr3B	769483434	769484341	907	True	436.000	436	75.85100	996	1921	1	chr3B.!!$R9	925
15	TraesCS3B01G527900	chr3B	769456106	769456620	514	True	270.000	270	76.53600	1410	1942	1	chr3B.!!$R8	532
16	TraesCS3B01G527900	chr3D	577339427	577342214	2787	True	4228.000	4228	93.99900	1	2804	1	chr3D.!!$R1	2803
17	TraesCS3B01G527900	chr3A	712628554	712630588	2034	True	1493.000	2553	94.19850	1	1984	2	chr3A.!!$R5	1983
18	TraesCS3B01G527900	chr3A	712619545	712620344	799	True	1140.000	1140	92.39300	1984	2789	1	chr3A.!!$R2	805
19	TraesCS3B01G527900	chr3A	712653570	712654998	1428	True	652.000	652	75.66300	1110	2534	1	chr3A.!!$R3	1424
20	TraesCS3B01G527900	chr3A	712589396	712590172	776	True	439.000	571	87.84150	2802	3554	2	chr3A.!!$R4	752
21	TraesCS3B01G527900	chrUn	344085707	344087144	1437	False	560.000	560	74.47700	1110	2545	1	chrUn.!!$F3	1435

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
816	877	1.722034	ACTCAAGAACCAGAGCCTCA	58.278	50.0	0.0	0.0	35.28	3.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2628	4664	0.096976	CCTCCTTGCGTTTACATGCG	59.903	55.0	0.0	0.0	37.81	4.73	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
77	78	7.120726	ACCACTATTATGTGCAAGTTTTACTCC	59.879	37.037	0.00	0.00	36.68	3.85
154	155	5.896678	AGTGAGTACAGATTTATGGAGCTCT	59.103	40.000	14.64	0.00	0.00	4.09
271	314	7.601856	TGCATAAACCTCCTTGTTTTAAGATG	58.398	34.615	0.00	0.00	39.15	2.90
319	362	8.373992	GTTTTGCTCGTGTATGTTTAAAACAAA	58.626	29.630	0.00	0.00	45.86	2.83
320	363	7.439204	TTGCTCGTGTATGTTTAAAACAAAC	57.561	32.000	0.00	0.00	45.86	2.93
321	364	5.677612	TGCTCGTGTATGTTTAAAACAAACG	59.322	36.000	1.67	1.67	45.86	3.60
363	409	5.110598	TGTTTTGCGTACTAGAACACTGAA	58.889	37.500	0.00	0.00	0.00	3.02
366	412	6.854496	TTTGCGTACTAGAACACTGAAAAT	57.146	33.333	0.00	0.00	0.00	1.82
380	426	7.275888	ACACTGAAAATGAGTTCATGCTAAA	57.724	32.000	0.00	0.00	36.92	1.85
611	672	7.676683	AGTATAATCTCTTAGGGCTTGTTCA	57.323	36.000	0.00	0.00	0.00	3.18
633	694	4.096984	CAGTTGCAAGAGTTTTGAAGAGGT	59.903	41.667	0.00	0.00	0.00	3.85
673	734	7.039722	TCCCCTATAAGTCAAAATTCACCTT	57.960	36.000	0.00	0.00	0.00	3.50
688	749	3.265489	TCACCTTAATCCCCTCCAAACT	58.735	45.455	0.00	0.00	0.00	2.66
690	751	4.853276	TCACCTTAATCCCCTCCAAACTTA	59.147	41.667	0.00	0.00	0.00	2.24
699	760	3.052944	CCCCTCCAAACTTATCCAATCCA	60.053	47.826	0.00	0.00	0.00	3.41
700	761	4.387891	CCCCTCCAAACTTATCCAATCCAT	60.388	45.833	0.00	0.00	0.00	3.41
711	772	3.939740	TCCAATCCATTCCAAGAGAGG	57.060	47.619	0.00	0.00	0.00	3.69
717	778	6.096001	CCAATCCATTCCAAGAGAGGTTTAAG	59.904	42.308	0.00	0.00	0.00	1.85
718	779	4.589908	TCCATTCCAAGAGAGGTTTAAGC	58.410	43.478	0.00	0.00	0.00	3.09
729	790	3.197983	AGAGGTTTAAGCGAACATAGCCT	59.802	43.478	0.00	0.00	34.64	4.58
752	813	9.468532	GCCTTTAATAAGATCAATTTCATGACC	57.531	33.333	0.00	0.00	32.92	4.02
762	823	6.017211	TCAATTTCATGACCCACCATATCT	57.983	37.500	0.00	0.00	0.00	1.98
777	838	7.621285	CCCACCATATCTAATCATCCTTCTCTA	59.379	40.741	0.00	0.00	0.00	2.43
816	877	1.722034	ACTCAAGAACCAGAGCCTCA	58.278	50.000	0.00	0.00	35.28	3.86
824	885	1.988956	CCAGAGCCTCAGCCTCAGT	60.989	63.158	0.00	0.00	41.25	3.41
858	919	6.148811	CGACACCAAAGCCTTTTCTTTATAGA	59.851	38.462	0.00	0.00	34.76	1.98
898	959	6.384305	AGCTCCCTTTAGAAATTAGCTACTCA	59.616	38.462	0.00	0.00	37.08	3.41
902	963	7.127339	TCCCTTTAGAAATTAGCTACTCACCAT	59.873	37.037	0.00	0.00	0.00	3.55
903	964	7.775561	CCCTTTAGAAATTAGCTACTCACCATT	59.224	37.037	0.00	0.00	0.00	3.16
935	996	7.825761	TGTCTAGTTGCCATAATGGATCATATG	59.174	37.037	0.00	0.00	40.96	1.78
945	1006	9.709304	CCATAATGGATCATATGGTGGGGTACC	62.709	48.148	17.18	2.17	45.94	3.34
979	1040	2.679934	CCATTTCGTGAGCAGCGCA	61.680	57.895	11.47	0.00	0.00	6.09
993	1054	2.587194	CGCAGGGCCGATCTCTTG	60.587	66.667	0.00	0.00	0.00	3.02
1006	1067	4.129380	CGATCTCTTGTAATCAATGGCCA	58.871	43.478	8.56	8.56	32.82	5.36
1039	1100	0.187117	TGCCATTGTTGGGGAGACAA	59.813	50.000	0.00	0.00	43.84	3.18
1236	1306	1.228245	GAAGTGTGCTGCCCAGGAA	60.228	57.895	0.00	0.00	0.00	3.36
1359	1437	1.425066	ACCAAGGCATTTGTCTCCTCA	59.575	47.619	0.00	0.00	34.87	3.86
1443	1527	0.447801	GGTTTGCTGATGGTGCTACG	59.552	55.000	0.00	0.00	0.00	3.51
1554	1640	1.800586	CTGCGGTATATGGTGATGCAC	59.199	52.381	0.00	0.00	0.00	4.57
2628	4664	9.921637	TTCCCACATGACTTATTTGAAATTTAC	57.078	29.630	0.00	0.00	0.00	2.01
2630	4666	7.009174	CCCACATGACTTATTTGAAATTTACGC	59.991	37.037	0.00	0.00	0.00	4.42
2631	4667	7.540400	CCACATGACTTATTTGAAATTTACGCA	59.460	33.333	0.00	0.00	0.00	5.24
2644	4680	2.884663	TTACGCATGTAAACGCAAGG	57.115	45.000	0.00	0.00	37.62	3.61
2650	4686	2.422597	CATGTAAACGCAAGGAGGACA	58.577	47.619	0.00	0.00	46.39	4.02
2668	4704	3.252458	GGACATTGTGTTGAGTTGTACCC	59.748	47.826	0.00	0.00	0.00	3.69
2699	4735	3.520290	TCGTGGTTGTATTGAGCCTAG	57.480	47.619	0.00	0.00	0.00	3.02
2728	4764	6.883756	TGTAGTCTTATGGTGAATGATTGCAA	59.116	34.615	0.00	0.00	0.00	4.08
2759	4795	7.801716	AACCACATATGCATTTTATACGTCT	57.198	32.000	3.54	0.00	0.00	4.18
2778	4824	5.978919	ACGTCTTATTTGGCAATGCATAATG	59.021	36.000	7.79	0.00	0.00	1.90
2780	4826	6.864685	CGTCTTATTTGGCAATGCATAATGAT	59.135	34.615	7.79	0.00	0.00	2.45
2864	4910	5.012561	GGCTCAATATATGACTCCAGGACTT	59.987	44.000	0.00	0.00	33.47	3.01
2865	4911	5.931146	GCTCAATATATGACTCCAGGACTTG	59.069	44.000	0.00	0.00	33.47	3.16
2968	5015	7.965655	GCCCGGGAATTATTTAAAACATTTTTG	59.034	33.333	29.31	0.00	0.00	2.44
3048	5096	8.547967	TGGAGTACTCACAATTGAAAAGATAC	57.452	34.615	23.91	6.81	0.00	2.24
3098	5153	9.520204	TCCGTTCCTAAATATAAGTCGTTTTAG	57.480	33.333	0.00	0.00	33.47	1.85
3117	5172	9.968743	CGTTTTAGAGATTCCAATACAAACTAC	57.031	33.333	0.00	0.00	0.00	2.73
3128	5183	6.098552	TCCAATACAAACTACATACGGATCCA	59.901	38.462	13.41	0.00	0.00	3.41
3220	5325	3.244078	TGAGTCACGAGTGTTTAAGGCAT	60.244	43.478	2.97	0.00	0.00	4.40
3228	5333	5.761234	ACGAGTGTTTAAGGCATTAAGAACA	59.239	36.000	15.76	10.91	32.58	3.18
3257	5362	8.918202	ATTTAGAATCAGAAAAGGTACACACA	57.082	30.769	0.00	0.00	0.00	3.72
3258	5363	7.724305	TTAGAATCAGAAAAGGTACACACAC	57.276	36.000	0.00	0.00	0.00	3.82
3259	5364	5.063880	AGAATCAGAAAAGGTACACACACC	58.936	41.667	0.00	0.00	39.02	4.16
3307	5412	6.954352	AAGAATTACTCAAGAGGTAGGGTT	57.046	37.500	1.73	0.00	0.00	4.11
3346	5451	7.649533	TCAAATTGCACAATCTATCTGGAAT	57.350	32.000	0.00	0.00	0.00	3.01
3367	5472	2.446435	ACCAGCAATAATTCGCAGGTT	58.554	42.857	5.89	0.00	44.72	3.50
3382	5487	2.031120	CAGGTTGCCCTTCTGTTTTGA	58.969	47.619	0.00	0.00	39.89	2.69
3387	5492	4.301628	GTTGCCCTTCTGTTTTGATTCAG	58.698	43.478	0.00	0.00	0.00	3.02
3419	5524	1.672356	GGCCATGACGTTGCACTCT	60.672	57.895	0.00	0.00	0.00	3.24
3439	5544	2.483491	CTCTTCCAGCAAAAGAGCACTC	59.517	50.000	9.06	0.00	42.25	3.51
3492	5597	2.029666	GATCGACAGGGGCCATCG	59.970	66.667	15.56	15.56	37.20	3.84
3542	5649	1.450312	CCATCTCCAACTCCACCGC	60.450	63.158	0.00	0.00	0.00	5.68

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
77	78	1.660560	CTCCAGGGCGCAAAATCTGG	61.661	60.000	10.83	16.81	45.92	3.86
319	362	4.097286	ACAGAACATGTTTTTGCTAACCGT	59.903	37.500	13.36	0.00	39.96	4.83
320	363	4.606961	ACAGAACATGTTTTTGCTAACCG	58.393	39.130	13.36	0.00	39.96	4.44
380	426	8.311836	TCGACAGATCTCACTTAAGGTATTTTT	58.688	33.333	7.53	0.00	0.00	1.94
394	442	5.781210	AAGCTGATTATCGACAGATCTCA	57.219	39.130	5.04	0.00	38.26	3.27
453	514	5.599732	CTCTCCTGATGGACACATTTCTAG	58.400	45.833	0.00	0.00	37.47	2.43
454	515	4.141846	GCTCTCCTGATGGACACATTTCTA	60.142	45.833	0.00	0.00	37.47	2.10
465	526	1.101331	GCCAAAAGCTCTCCTGATGG	58.899	55.000	0.00	0.00	38.99	3.51
611	672	4.273318	ACCTCTTCAAAACTCTTGCAACT	58.727	39.130	0.00	0.00	0.00	3.16
673	734	6.411554	GGATTGGATAAGTTTGGAGGGGATTA	60.412	42.308	0.00	0.00	0.00	1.75
688	749	5.433051	ACCTCTCTTGGAATGGATTGGATAA	59.567	40.000	0.00	0.00	0.00	1.75
690	751	3.790408	ACCTCTCTTGGAATGGATTGGAT	59.210	43.478	0.00	0.00	0.00	3.41
699	760	4.553330	TCGCTTAAACCTCTCTTGGAAT	57.447	40.909	0.00	0.00	0.00	3.01
700	761	4.062991	GTTCGCTTAAACCTCTCTTGGAA	58.937	43.478	0.00	0.00	0.00	3.53
711	772	9.434559	CTTATTAAAGGCTATGTTCGCTTAAAC	57.565	33.333	0.00	0.00	0.00	2.01
717	778	7.421530	TGATCTTATTAAAGGCTATGTTCGC	57.578	36.000	0.00	0.00	33.22	4.70
752	813	7.493499	AGAGAAGGATGATTAGATATGGTGG	57.507	40.000	0.00	0.00	0.00	4.61
777	838	8.467963	TTGAGTATGCATGGATGAATAAACAT	57.532	30.769	10.16	0.00	30.31	2.71
782	843	6.712095	GGTTCTTGAGTATGCATGGATGAATA	59.288	38.462	10.16	0.00	0.00	1.75
816	877	0.033405	TCGCTTAGGGTACTGAGGCT	60.033	55.000	0.00	0.00	31.38	4.58
824	885	1.338389	GCTTTGGTGTCGCTTAGGGTA	60.338	52.381	0.00	0.00	0.00	3.69
858	919	2.232298	GAGCTAGCCTGCCGACACTT	62.232	60.000	12.13	0.00	0.00	3.16
910	971	7.281774	CCATATGATCCATTATGGCAACTAGAC	59.718	40.741	6.33	0.00	37.47	2.59
945	1006	6.252015	CACGAAATGGAGCAACATTAGATTTG	59.748	38.462	6.35	0.00	40.01	2.32
979	1040	2.398588	TGATTACAAGAGATCGGCCCT	58.601	47.619	0.00	0.00	0.00	5.19
983	1044	3.499918	GGCCATTGATTACAAGAGATCGG	59.500	47.826	0.00	0.00	39.46	4.18
993	1054	5.533903	ACTGATGATCTTGGCCATTGATTAC	59.466	40.000	18.89	14.22	0.00	1.89
1006	1067	4.597004	ACAATGGCAGAACTGATGATCTT	58.403	39.130	5.97	0.00	0.00	2.40
1072	1136	6.145371	GCTTCATCTGATTTATCCTCGTCTTC	59.855	42.308	0.00	0.00	0.00	2.87
1236	1306	2.158959	GCGAGCTACGTCGTTGCAT	61.159	57.895	28.60	16.28	42.17	3.96
1359	1437	5.263599	TGATCACCTTCACAGCCAATAAAT	58.736	37.500	0.00	0.00	0.00	1.40
1443	1527	3.829948	CTGCACACATTGAATGAACTCC	58.170	45.455	12.80	0.00	0.00	3.85
1554	1640	1.418908	ATTGATACTGGCCTCCCGGG	61.419	60.000	16.85	16.85	42.17	5.73
2628	4664	0.096976	CCTCCTTGCGTTTACATGCG	59.903	55.000	0.00	0.00	37.81	4.73
2630	4666	2.422597	TGTCCTCCTTGCGTTTACATG	58.577	47.619	0.00	0.00	0.00	3.21
2631	4667	2.851263	TGTCCTCCTTGCGTTTACAT	57.149	45.000	0.00	0.00	0.00	2.29
2635	4671	1.608590	CACAATGTCCTCCTTGCGTTT	59.391	47.619	0.00	0.00	0.00	3.60
2644	4680	4.213482	GGTACAACTCAACACAATGTCCTC	59.787	45.833	0.00	0.00	0.00	3.71
2650	4686	3.486383	CAGGGGTACAACTCAACACAAT	58.514	45.455	0.00	0.00	0.00	2.71
2668	4704	2.048023	AACCACGATGCATGCCAGG	61.048	57.895	16.68	11.89	0.00	4.45
2699	4735	9.035607	CAATCATTCACCATAAGACTACACTAC	57.964	37.037	0.00	0.00	0.00	2.73
2753	4789	6.685527	TTATGCATTGCCAAATAAGACGTA	57.314	33.333	3.54	0.00	0.00	3.57
2755	4791	6.207928	TCATTATGCATTGCCAAATAAGACG	58.792	36.000	3.54	0.00	0.00	4.18
2756	4792	8.492748	CAATCATTATGCATTGCCAAATAAGAC	58.507	33.333	3.54	0.00	0.00	3.01
2758	4794	7.295201	GCAATCATTATGCATTGCCAAATAAG	58.705	34.615	20.86	0.00	46.20	1.73
2759	4795	7.192148	GCAATCATTATGCATTGCCAAATAA	57.808	32.000	20.86	4.43	46.20	1.40
2851	4897	0.758734	CCACACAAGTCCTGGAGTCA	59.241	55.000	4.13	0.00	0.00	3.41
2864	4910	8.838365	AGTAATTATTAAACGTCAAACCACACA	58.162	29.630	0.00	0.00	0.00	3.72
2928	4974	2.436115	GGGCAGTGCGGAGGTTAC	60.436	66.667	9.45	0.00	0.00	2.50
3001	5049	8.877864	TCCATAAAACCATGTCTACTGATTTT	57.122	30.769	0.00	0.00	0.00	1.82
3098	5153	7.924412	TCCGTATGTAGTTTGTATTGGAATCTC	59.076	37.037	0.00	0.00	0.00	2.75
3110	5165	5.601662	ACTCATGGATCCGTATGTAGTTTG	58.398	41.667	6.04	0.00	0.00	2.93
3117	5172	6.576662	AGTAACTACTCATGGATCCGTATG	57.423	41.667	6.04	5.92	0.00	2.39
3205	5310	6.236017	TGTTCTTAATGCCTTAAACACTCG	57.764	37.500	0.00	0.00	0.00	4.18
3307	5412	3.558931	ATTTGATGCTCACGGATGGTA	57.441	42.857	0.00	0.00	0.00	3.25
3310	5415	2.159352	TGCAATTTGATGCTCACGGATG	60.159	45.455	0.00	0.00	46.54	3.51
3315	5420	4.491676	AGATTGTGCAATTTGATGCTCAC	58.508	39.130	0.00	0.00	46.06	3.51
3367	5472	2.297033	GCTGAATCAAAACAGAAGGGCA	59.703	45.455	0.00	0.00	36.38	5.36
3387	5492	3.834799	GGCCCATGAGCTTGCAGC	61.835	66.667	0.00	0.47	42.84	5.25
3419	5524	2.105477	AGAGTGCTCTTTTGCTGGAAGA	59.895	45.455	0.00	0.00	36.31	2.87
3447	5552	1.955778	TGTGGGTTGATCTGTTTGCAG	59.044	47.619	0.00	0.00	43.87	4.41
3466	5571	1.153289	CCTGTCGATCCCCTTGCTG	60.153	63.158	0.00	0.00	0.00	4.41
3518	5625	3.199946	GGTGGAGTTGGAGATGGATTGTA	59.800	47.826	0.00	0.00	0.00	2.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.