AutoCloner

Multiple sequence alignment - TraesCS4D01G144100

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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	TraesCS4D01G144100	chr4D	100.000	3584	0	0	1	3584	132201642	132205225	0.000000e+00	6619.0
1	TraesCS4D01G144100	chr4D	80.089	447	65	12	66	492	15532499	15532057	9.660000e-81	311.0
2	TraesCS4D01G144100	chr4D	76.738	374	40	32	612	945	417929387	417929021	7.960000e-37	165.0
3	TraesCS4D01G144100	chr4A	97.864	1779	36	2	945	2723	430181718	430179942	0.000000e+00	3073.0
4	TraesCS4D01G144100	chr4A	94.433	485	21	3	2722	3204	430179897	430179417	0.000000e+00	741.0
5	TraesCS4D01G144100	chr4A	79.476	229	33	9	720	937	202219135	202218910	2.230000e-32	150.0
6	TraesCS4D01G144100	chr4B	97.535	1785	38	4	939	2723	165298871	165297093	0.000000e+00	3048.0
7	TraesCS4D01G144100	chr4B	96.429	560	15	3	3029	3584	165291074	165290516	0.000000e+00	918.0
8	TraesCS4D01G144100	chr4B	93.050	259	8	1	2754	3012	165291385	165291137	1.570000e-98	370.0
9	TraesCS4D01G144100	chr5B	77.268	959	116	54	68	937	519616863	519615918	1.510000e-128	470.0
10	TraesCS4D01G144100	chr5B	80.196	409	62	16	83	484	371388932	371388536	4.530000e-74	289.0
11	TraesCS4D01G144100	chr5B	78.279	244	24	14	717	939	558259253	558259018	2.900000e-26	130.0
12	TraesCS4D01G144100	chr3A	76.727	941	141	41	54	937	73502376	73503295	1.520000e-123	453.0
13	TraesCS4D01G144100	chr3D	76.705	953	131	49	54	937	545226182	545227112	2.540000e-121	446.0
14	TraesCS4D01G144100	chr3D	76.305	249	32	20	701	937	238495767	238495534	1.360000e-19	108.0
15	TraesCS4D01G144100	chr7B	77.079	938	109	51	66	937	25582775	25583672	9.130000e-121	444.0
16	TraesCS4D01G144100	chr7B	81.132	371	49	13	144	497	568428163	568428529	9.800000e-71	278.0
17	TraesCS4D01G144100	chr7B	78.992	238	20	15	724	937	714070161	714070392	6.240000e-28	135.0
18	TraesCS4D01G144100	chr7B	76.786	280	35	20	687	945	469475713	469475983	2.900000e-26	130.0
19	TraesCS4D01G144100	chr7D	76.899	645	86	37	131	739	575576146	575576763	1.250000e-79	307.0
20	TraesCS4D01G144100	chr7D	83.000	100	9	4	854	945	340295959	340295860	2.290000e-12	84.2
21	TraesCS4D01G144100	chrUn	79.470	453	71	14	67	510	111117931	111117492	5.820000e-78	302.0
22	TraesCS4D01G144100	chr2B	80.500	400	47	22	116	492	249220910	249220519	9.800000e-71	278.0
23	TraesCS4D01G144100	chr1B	88.649	185	19	2	2875	3059	421671613	421671431	1.290000e-54	224.0
24	TraesCS4D01G144100	chr1A	78.656	253	25	18	698	937	506849826	506849590	1.340000e-29	141.0

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	TraesCS4D01G144100	chr4D	132201642	132205225	3583	False	6619	6619	100.0000	1	3584	1	chr4D.!!$F1	3583
1	TraesCS4D01G144100	chr4A	430179417	430181718	2301	True	1907	3073	96.1485	945	3204	2	chr4A.!!$R2	2259
2	TraesCS4D01G144100	chr4B	165297093	165298871	1778	True	3048	3048	97.5350	939	2723	1	chr4B.!!$R1	1784
3	TraesCS4D01G144100	chr4B	165290516	165291385	869	True	644	918	94.7395	2754	3584	2	chr4B.!!$R2	830
4	TraesCS4D01G144100	chr5B	519615918	519616863	945	True	470	470	77.2680	68	937	1	chr5B.!!$R2	869
5	TraesCS4D01G144100	chr3A	73502376	73503295	919	False	453	453	76.7270	54	937	1	chr3A.!!$F1	883
6	TraesCS4D01G144100	chr3D	545226182	545227112	930	False	446	446	76.7050	54	937	1	chr3D.!!$F1	883
7	TraesCS4D01G144100	chr7B	25582775	25583672	897	False	444	444	77.0790	66	937	1	chr7B.!!$F1	871
8	TraesCS4D01G144100	chr7D	575576146	575576763	617	False	307	307	76.8990	131	739	1	chr7D.!!$F1	608

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
896	1031	0.043053	CGATTTATCGGCTGTGCGTG	60.043	55.0	4.25	0.0	45.93	5.34	F
1758	1894	0.973632	TGATCGCAGGGTGTACTTGT	59.026	50.0	0.00	0.0	0.00	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2089	2225	0.674895	ATCTGCCGGAACAGCTCAAC	60.675	55.0	5.05	0.0	37.59	3.18	R
2984	3166	0.623723	ACCCACCATTATCACCGCTT	59.376	50.0	0.00	0.0	0.00	4.68	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
27	28	4.856801	CGCCCGGGACCTCCAATG	62.857	72.222	29.31	0.00	37.91	2.82
28	29	3.728373	GCCCGGGACCTCCAATGT	61.728	66.667	29.31	0.00	37.91	2.71
29	30	2.272146	CCCGGGACCTCCAATGTG	59.728	66.667	18.48	0.00	37.91	3.21
30	31	2.297895	CCCGGGACCTCCAATGTGA	61.298	63.158	18.48	0.00	37.91	3.58
31	32	1.078426	CCGGGACCTCCAATGTGAC	60.078	63.158	0.00	0.00	37.91	3.67
32	33	1.447838	CGGGACCTCCAATGTGACG	60.448	63.158	0.00	0.00	37.91	4.35
33	34	1.745489	GGGACCTCCAATGTGACGC	60.745	63.158	0.00	0.00	37.91	5.19
34	35	2.100631	GGACCTCCAATGTGACGCG	61.101	63.158	3.53	3.53	35.64	6.01
35	36	2.740714	GACCTCCAATGTGACGCGC	61.741	63.158	5.73	0.00	0.00	6.86
36	37	2.434884	CCTCCAATGTGACGCGCT	60.435	61.111	5.73	0.00	0.00	5.92
37	38	2.456119	CCTCCAATGTGACGCGCTC	61.456	63.158	5.73	3.58	0.00	5.03
38	39	1.446792	CTCCAATGTGACGCGCTCT	60.447	57.895	5.73	0.00	0.00	4.09
39	40	1.690283	CTCCAATGTGACGCGCTCTG	61.690	60.000	5.73	0.00	0.00	3.35
40	41	2.097160	CAATGTGACGCGCTCTGC	59.903	61.111	5.73	1.88	41.47	4.26
51	52	4.900154	GCTCTGCGTCTAGTTGCT	57.100	55.556	9.68	0.00	0.00	3.91
52	53	2.367844	GCTCTGCGTCTAGTTGCTG	58.632	57.895	9.68	9.17	0.00	4.41
63	64	3.982058	GTCTAGTTGCTGTATATGCGGTC	59.018	47.826	1.37	0.00	0.00	4.79
64	65	2.979814	AGTTGCTGTATATGCGGTCA	57.020	45.000	1.37	0.00	0.00	4.02
86	87	1.867233	GGGGATTCGAACACATGATCG	59.133	52.381	0.00	6.84	40.92	3.69
92	93	0.647410	CGAACACATGATCGACTGCC	59.353	55.000	5.70	0.00	41.91	4.85
96	97	2.826428	ACACATGATCGACTGCCATAC	58.174	47.619	0.00	0.00	0.00	2.39
112	113	2.163010	CCATACACGACGTGTTCCTACT	59.837	50.000	35.71	13.99	45.08	2.57
264	270	6.687958	GTGAAATGCAAACACTTTCCAAATTG	59.312	34.615	11.98	0.00	0.00	2.32
265	271	6.596888	TGAAATGCAAACACTTTCCAAATTGA	59.403	30.769	7.15	0.00	0.00	2.57
309	317	9.612620	AGCTATAACATTTTCGAAAAACAAGAG	57.387	29.630	25.77	18.26	0.00	2.85
404	414	8.973378	GGAAACGTGAACATATTTTGAAATTCA	58.027	29.630	0.00	0.00	0.00	2.57
486	512	8.195617	TCCTGAAAAATTGAAAACATGAACAC	57.804	30.769	0.00	0.00	0.00	3.32
487	513	7.821359	TCCTGAAAAATTGAAAACATGAACACA	59.179	29.630	0.00	0.00	0.00	3.72
488	514	8.614346	CCTGAAAAATTGAAAACATGAACACAT	58.386	29.630	0.00	0.00	0.00	3.21
685	749	7.899178	ATTTTGAACTTTCCGAACAACTTTT	57.101	28.000	0.00	0.00	0.00	2.27
690	754	6.924060	TGAACTTTCCGAACAACTTTTGAAAA	59.076	30.769	0.00	0.00	0.00	2.29
692	756	7.899178	ACTTTCCGAACAACTTTTGAAAAAT	57.101	28.000	0.00	0.00	0.00	1.82
693	757	7.738345	ACTTTCCGAACAACTTTTGAAAAATG	58.262	30.769	0.00	0.00	0.00	2.32
694	758	7.600752	ACTTTCCGAACAACTTTTGAAAAATGA	59.399	29.630	9.29	0.00	0.00	2.57
729	806	9.435688	CAGAAAAAGGGAAAAGAAAGAAGAAAA	57.564	29.630	0.00	0.00	0.00	2.29
744	835	7.812309	AAGAAGAAAAAGAACAGAAAAACGG	57.188	32.000	0.00	0.00	0.00	4.44
749	840	8.239681	AGAAAAAGAACAGAAAAACGGAAAAG	57.760	30.769	0.00	0.00	0.00	2.27
750	841	6.961359	AAAAGAACAGAAAAACGGAAAAGG	57.039	33.333	0.00	0.00	0.00	3.11
847	976	2.284699	AAGGACCGGCTGGCTAGT	60.285	61.111	12.89	0.00	39.70	2.57
852	981	1.605058	GACCGGCTGGCTAGTTCTGA	61.605	60.000	12.89	0.00	39.70	3.27
881	1010	1.893808	CGGCCCATTGCTAGCGATT	60.894	57.895	15.18	0.00	40.92	3.34
887	1022	5.257586	GCCCATTGCTAGCGATTTATCGG	62.258	52.174	15.18	12.27	42.99	4.18
896	1031	0.043053	CGATTTATCGGCTGTGCGTG	60.043	55.000	4.25	0.00	45.93	5.34
905	1041	3.756677	CTGTGCGTGCGTCGACAG	61.757	66.667	17.16	9.59	42.86	3.51
937	1073	2.112815	GCGGCGCATAGGGTTTTCT	61.113	57.895	29.21	0.00	0.00	2.52
979	1115	4.706476	TCAAATCCAATCGAAGCCATTCTT	59.294	37.500	0.00	0.00	37.83	2.52
1078	1214	4.698625	AGCCCTCCCCGTCGTTCT	62.699	66.667	0.00	0.00	0.00	3.01
1152	1288	1.276859	TGCTCCATCTCCTGCACCAT	61.277	55.000	0.00	0.00	0.00	3.55
1314	1450	2.445654	CTGAGCCTCCTCCCTCCC	60.446	72.222	0.00	0.00	37.29	4.30
1362	1498	4.035102	GCCGCCCTCAAGTCCCTT	62.035	66.667	0.00	0.00	0.00	3.95
1452	1588	1.003233	GTCCTTTCTCCCGCTGCTT	60.003	57.895	0.00	0.00	0.00	3.91
1549	1685	3.723097	ATCTCCCTCGCGCTCCTCA	62.723	63.158	5.56	0.00	0.00	3.86
1638	1774	2.076863	GCCTACAACACACTCATCACC	58.923	52.381	0.00	0.00	0.00	4.02
1758	1894	0.973632	TGATCGCAGGGTGTACTTGT	59.026	50.000	0.00	0.00	0.00	3.16
1797	1933	1.398390	GCAGTGCGGTATTTCCAAGAG	59.602	52.381	0.00	0.00	35.57	2.85
2089	2225	1.233080	GGGCAAGGGATTAAGGGGG	59.767	63.158	0.00	0.00	0.00	5.40
2370	2506	1.134670	GGATCACTTCTAAGCGCCTGT	60.135	52.381	2.29	0.00	0.00	4.00
2372	2508	0.966179	TCACTTCTAAGCGCCTGTCA	59.034	50.000	2.29	0.00	0.00	3.58
2785	2967	7.994425	TTTTATGGTCAGTTCAAGAGCAATA	57.006	32.000	0.00	0.00	45.33	1.90
2853	3035	4.910195	TGTCCTGCTGTGAATAAATGTCT	58.090	39.130	0.00	0.00	0.00	3.41
2998	3180	6.252967	TGCAATTATAAGCGGTGATAATGG	57.747	37.500	16.24	14.56	30.42	3.16
3014	3204	7.040132	GGTGATAATGGTGGGTAGTAGTAGTAC	60.040	44.444	6.61	6.61	0.00	2.73
3017	3207	9.086758	GATAATGGTGGGTAGTAGTAGTACATT	57.913	37.037	15.47	9.27	0.00	2.71
3019	3209	7.744678	ATGGTGGGTAGTAGTAGTACATTTT	57.255	36.000	15.47	0.00	0.00	1.82
3060	3288	8.006298	TGAACATTTTGTAAGGTGAAATCACT	57.994	30.769	12.87	0.00	45.73	3.41
3153	3383	9.445878	TGAATAAACACGGTGTATATTGGTTTA	57.554	29.630	15.11	7.17	34.81	2.01
3158	3388	9.984190	AAACACGGTGTATATTGGTTTATTTTT	57.016	25.926	15.11	0.00	0.00	1.94
3183	3413	7.904094	TGTTTATTTAAGTGTTGCTGCTTTTG	58.096	30.769	0.00	0.00	0.00	2.44
3246	3476	5.163426	ACAGGATTTCAGAATTTGTTGCACA	60.163	36.000	0.00	0.00	0.00	4.57
3314	3544	5.801350	TCATAAAAGAGTGGATTTCTGCG	57.199	39.130	0.00	0.00	0.00	5.18
3353	3583	5.625311	CAGAATTCAGTTTACTTCGGCAAAC	59.375	40.000	8.44	0.00	35.36	2.93
3399	3629	6.534059	ACGTTGAACTTCATAATGTCATTCG	58.466	36.000	0.07	0.00	0.00	3.34
3403	3633	7.072177	TGAACTTCATAATGTCATTCGTTCC	57.928	36.000	0.07	0.00	0.00	3.62
3406	3636	5.354234	ACTTCATAATGTCATTCGTTCCCAC	59.646	40.000	0.07	0.00	0.00	4.61

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
10	11	4.856801	CATTGGAGGTCCCGGGCG	62.857	72.222	18.49	0.00	37.93	6.13
11	12	3.728373	ACATTGGAGGTCCCGGGC	61.728	66.667	18.49	11.44	37.93	6.13
12	13	2.272146	CACATTGGAGGTCCCGGG	59.728	66.667	16.85	16.85	37.93	5.73
13	14	1.078426	GTCACATTGGAGGTCCCGG	60.078	63.158	0.00	0.00	37.93	5.73
14	15	1.447838	CGTCACATTGGAGGTCCCG	60.448	63.158	0.00	0.00	37.93	5.14
15	16	1.745489	GCGTCACATTGGAGGTCCC	60.745	63.158	0.00	0.00	34.29	4.46
16	17	2.100631	CGCGTCACATTGGAGGTCC	61.101	63.158	0.00	0.00	0.00	4.46
17	18	2.740714	GCGCGTCACATTGGAGGTC	61.741	63.158	8.43	0.00	0.00	3.85
18	19	2.742372	GCGCGTCACATTGGAGGT	60.742	61.111	8.43	0.00	0.00	3.85
19	20	2.434884	AGCGCGTCACATTGGAGG	60.435	61.111	8.43	0.00	0.00	4.30
20	21	1.446792	AGAGCGCGTCACATTGGAG	60.447	57.895	8.43	0.00	0.00	3.86
21	22	1.737735	CAGAGCGCGTCACATTGGA	60.738	57.895	8.43	0.00	0.00	3.53
22	23	2.780643	CAGAGCGCGTCACATTGG	59.219	61.111	8.43	0.00	0.00	3.16
23	24	2.097160	GCAGAGCGCGTCACATTG	59.903	61.111	8.43	0.00	0.00	2.82
34	35	0.389166	ACAGCAACTAGACGCAGAGC	60.389	55.000	0.00	0.00	0.00	4.09
35	36	2.921634	TACAGCAACTAGACGCAGAG	57.078	50.000	0.00	0.00	0.00	3.35
36	37	4.793028	GCATATACAGCAACTAGACGCAGA	60.793	45.833	0.00	0.00	0.00	4.26
37	38	3.426859	GCATATACAGCAACTAGACGCAG	59.573	47.826	0.00	0.00	0.00	5.18
38	39	3.381045	GCATATACAGCAACTAGACGCA	58.619	45.455	0.00	0.00	0.00	5.24
39	40	2.405357	CGCATATACAGCAACTAGACGC	59.595	50.000	0.00	0.00	0.00	5.19
40	41	2.980476	CCGCATATACAGCAACTAGACG	59.020	50.000	0.00	0.00	0.00	4.18
41	42	3.978687	ACCGCATATACAGCAACTAGAC	58.021	45.455	0.00	0.00	0.00	2.59
42	43	3.634910	TGACCGCATATACAGCAACTAGA	59.365	43.478	0.00	0.00	0.00	2.43
43	44	3.736252	GTGACCGCATATACAGCAACTAG	59.264	47.826	0.00	0.00	0.00	2.57
44	45	3.713288	GTGACCGCATATACAGCAACTA	58.287	45.455	0.00	0.00	0.00	2.24
45	46	2.550978	GTGACCGCATATACAGCAACT	58.449	47.619	0.00	0.00	0.00	3.16
46	47	1.257936	CGTGACCGCATATACAGCAAC	59.742	52.381	0.00	0.00	0.00	4.17
47	48	1.566404	CGTGACCGCATATACAGCAA	58.434	50.000	0.00	0.00	0.00	3.91
48	49	0.249280	CCGTGACCGCATATACAGCA	60.249	55.000	0.00	0.00	0.00	4.41
49	50	0.944311	CCCGTGACCGCATATACAGC	60.944	60.000	0.00	0.00	0.00	4.40
50	51	0.319555	CCCCGTGACCGCATATACAG	60.320	60.000	0.00	0.00	0.00	2.74
51	52	0.756070	TCCCCGTGACCGCATATACA	60.756	55.000	0.00	0.00	0.00	2.29
52	53	0.606604	ATCCCCGTGACCGCATATAC	59.393	55.000	0.00	0.00	0.00	1.47
63	64	0.726827	CATGTGTTCGAATCCCCGTG	59.273	55.000	0.00	0.00	0.00	4.94
64	65	0.611200	TCATGTGTTCGAATCCCCGT	59.389	50.000	0.00	0.00	0.00	5.28
86	87	0.388134	ACACGTCGTGTATGGCAGTC	60.388	55.000	28.69	0.00	45.56	3.51
92	93	3.482722	AGTAGGAACACGTCGTGTATG	57.517	47.619	29.79	5.19	46.79	2.39
96	97	1.467734	AGCTAGTAGGAACACGTCGTG	59.532	52.381	23.40	23.40	39.75	4.35
112	113	4.402829	AGCTATAACTGCTAGCTCAGCTA	58.597	43.478	17.23	6.15	46.98	3.32
163	165	0.678366	TCTGTGCACCGTGTTTGGTT	60.678	50.000	15.69	0.00	41.38	3.67
165	167	0.238289	GATCTGTGCACCGTGTTTGG	59.762	55.000	15.69	0.00	0.00	3.28
172	174	1.860950	CTAATTCGGATCTGTGCACCG	59.139	52.381	15.69	10.62	46.71	4.94
174	177	4.946784	AAACTAATTCGGATCTGTGCAC	57.053	40.909	10.75	10.75	0.00	4.57
245	250	5.668471	TCATCAATTTGGAAAGTGTTTGCA	58.332	33.333	0.00	0.00	39.30	4.08
344	354	5.636903	TGGAATTTGGAAAAATGTTCCCA	57.363	34.783	0.00	0.00	37.79	4.37
550	599	5.936956	TGTTCAGGCATTTCAAAAACTGTTT	59.063	32.000	0.00	0.00	0.00	2.83
555	604	8.686397	AAAAATTGTTCAGGCATTTCAAAAAC	57.314	26.923	0.00	0.00	0.00	2.43
649	713	9.209297	CGGAAAGTTCAAAATTTGTTCATTTTC	57.791	29.630	5.56	9.20	34.70	2.29
654	718	6.868864	TGTTCGGAAAGTTCAAAATTTGTTCA	59.131	30.769	5.56	0.00	0.00	3.18
690	754	7.181569	TCCCTTTTTCTGTTTTCTGTTCATT	57.818	32.000	0.00	0.00	0.00	2.57
692	756	6.597832	TTCCCTTTTTCTGTTTTCTGTTCA	57.402	33.333	0.00	0.00	0.00	3.18
693	757	7.817478	TCTTTTCCCTTTTTCTGTTTTCTGTTC	59.183	33.333	0.00	0.00	0.00	3.18
694	758	7.676004	TCTTTTCCCTTTTTCTGTTTTCTGTT	58.324	30.769	0.00	0.00	0.00	3.16
711	788	8.251026	TCTGTTCTTTTTCTTCTTTCTTTTCCC	58.749	33.333	0.00	0.00	0.00	3.97
729	806	4.707934	TCCCTTTTCCGTTTTTCTGTTCTT	59.292	37.500	0.00	0.00	0.00	2.52
847	976	1.004277	GGCCGGCCCATTATATCAGAA	59.996	52.381	36.64	0.00	0.00	3.02
881	1010	3.185365	CGCACGCACAGCCGATAA	61.185	61.111	0.00	0.00	0.00	1.75
1007	1143	1.716172	GCGAGACAATTCGGCTTCC	59.284	57.895	0.00	0.00	40.79	3.46
1285	1421	1.490490	GAGGCTCAGGAGAGAGAGAGA	59.510	57.143	10.25	0.00	44.98	3.10
1452	1588	2.203182	AACGAGGAGGTGGACCCA	59.797	61.111	0.00	0.00	36.42	4.51
1549	1685	2.122189	GGGCAGAGGATAGGGCCT	60.122	66.667	12.58	12.58	45.68	5.19
1607	1743	0.953471	GTTGTAGGCGATGGTGCACA	60.953	55.000	20.43	5.24	36.28	4.57
1758	1894	1.676968	CATGTCGTCCCTCCCACAA	59.323	57.895	0.00	0.00	0.00	3.33
1797	1933	1.225704	CTTGCCCTCCCTCACCATC	59.774	63.158	0.00	0.00	0.00	3.51
2089	2225	0.674895	ATCTGCCGGAACAGCTCAAC	60.675	55.000	5.05	0.00	37.59	3.18
2785	2967	4.716784	TGAAATCAGGTGTCTAGTGCCTAT	59.283	41.667	3.05	0.00	0.00	2.57
2853	3035	5.636123	TGTAGGGTCTCCAATTTTTAGCAA	58.364	37.500	0.00	0.00	34.83	3.91
2984	3166	0.623723	ACCCACCATTATCACCGCTT	59.376	50.000	0.00	0.00	0.00	4.68
3060	3288	5.128033	TCAGAATATGCCCCATGAAAAGA	57.872	39.130	0.00	0.00	0.00	2.52
3153	3383	9.108284	AGCAGCAACACTTAAATAAACAAAAAT	57.892	25.926	0.00	0.00	0.00	1.82
3158	3388	7.761704	TCAAAAGCAGCAACACTTAAATAAACA	59.238	29.630	0.00	0.00	0.00	2.83
3174	3404	5.175090	AGTTAGACACTTTCAAAAGCAGC	57.825	39.130	2.43	0.00	39.63	5.25
3183	3413	5.346181	AGATGGGCTAGTTAGACACTTTC	57.654	43.478	0.00	0.00	36.88	2.62
3314	3544	2.543777	TTCTGGGTGCTTCACTACAC	57.456	50.000	0.00	0.00	34.40	2.90
3399	3629	4.951094	AGAGAGTACTGATACAGTGGGAAC	59.049	45.833	13.62	4.90	45.01	3.62
3403	3633	5.650266	ACAAGAGAGAGTACTGATACAGTGG	59.350	44.000	13.62	0.00	45.01	4.00
3406	3636	6.183360	GGGAACAAGAGAGAGTACTGATACAG	60.183	46.154	0.00	0.00	37.52	2.74

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.