AutoCloner

Multiple sequence alignment - TraesCS5B01G177100

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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	TraesCS5B01G177100	chr5B	100.000	2108	0	0	1	2108	322917684	322915577	0.000000e+00	3893.0
1	TraesCS5B01G177100	chr5B	78.348	351	33	25	1768	2104	208086171	208085850	9.930000e-44	187.0
2	TraesCS5B01G177100	chr5B	98.113	53	0	1	427	478	87291756	87291704	8.010000e-15	91.6
3	TraesCS5B01G177100	chr5B	100.000	40	0	0	1391	1430	322916193	322916154	8.070000e-10	75.0
4	TraesCS5B01G177100	chr5B	100.000	40	0	0	1492	1531	322916294	322916255	8.070000e-10	75.0
5	TraesCS5B01G177100	chr5A	96.695	1634	40	3	476	2108	377186492	377184872	0.000000e+00	2706.0
6	TraesCS5B01G177100	chr5A	90.284	422	13	3	1	420	377186885	377186490	5.150000e-146	527.0
7	TraesCS5B01G177100	chr5A	100.000	40	0	0	1391	1430	377185478	377185439	8.070000e-10	75.0
8	TraesCS5B01G177100	chr5A	97.500	40	1	0	1492	1531	377185579	377185540	3.750000e-08	69.4
9	TraesCS5B01G177100	chr5D	93.867	962	28	5	476	1430	285468660	285467723	0.000000e+00	1421.0
10	TraesCS5B01G177100	chr5D	93.920	625	23	5	1492	2108	285467762	285467145	0.000000e+00	929.0
11	TraesCS5B01G177100	chr5D	88.064	377	17	3	1	375	285469189	285468839	2.500000e-114	422.0
12	TraesCS5B01G177100	chr5D	91.880	234	12	3	187	420	285468884	285468658	9.380000e-84	320.0
13	TraesCS5B01G177100	chr2B	78.063	351	34	22	1768	2104	197537498	197537819	4.620000e-42	182.0
14	TraesCS5B01G177100	chr2B	98.113	53	0	1	427	478	47429034	47429086	8.010000e-15	91.6
15	TraesCS5B01G177100	chr2D	77.778	351	35	22	1768	2104	220733088	220732767	2.150000e-40	176.0
16	TraesCS5B01G177100	chr2D	96.552	58	2	0	1433	1490	521157359	521157302	1.720000e-16	97.1
17	TraesCS5B01G177100	chr1B	79.016	305	27	24	1768	2064	107325858	107326133	7.730000e-40	174.0
18	TraesCS5B01G177100	chr1B	96.610	59	2	0	1433	1491	575746530	575746588	4.790000e-17	99.0
19	TraesCS5B01G177100	chr1B	100.000	31	0	0	1330	1360	32595880	32595850	8.120000e-05	58.4
20	TraesCS5B01G177100	chr7B	90.361	83	6	2	1634	1714	277981886	277981804	7.950000e-20	108.0
21	TraesCS5B01G177100	chr7B	98.077	52	0	1	427	478	11872564	11872514	2.880000e-14	89.8
22	TraesCS5B01G177100	chr7B	94.737	57	1	2	427	482	321349409	321349464	1.040000e-13	87.9
23	TraesCS5B01G177100	chr6A	96.610	59	2	0	1433	1491	133645995	133645937	4.790000e-17	99.0
24	TraesCS5B01G177100	chr6A	94.915	59	1	2	427	483	479630170	479630112	8.010000e-15	91.6
25	TraesCS5B01G177100	chr6A	98.077	52	0	1	427	477	606770637	606770688	2.880000e-14	89.8
26	TraesCS5B01G177100	chr3D	96.552	58	2	0	1433	1490	191321133	191321076	1.720000e-16	97.1
27	TraesCS5B01G177100	chr3D	96.552	58	2	0	1433	1490	493187457	493187400	1.720000e-16	97.1
28	TraesCS5B01G177100	chr7D	93.651	63	3	1	1435	1497	175667709	175667648	2.230000e-15	93.5
29	TraesCS5B01G177100	chr3B	98.148	54	0	1	427	479	559096435	559096382	2.230000e-15	93.5
30	TraesCS5B01G177100	chr3B	100.000	31	0	0	634	664	379394969	379394999	8.120000e-05	58.4
31	TraesCS5B01G177100	chr3B	96.774	31	1	0	634	664	129698624	129698594	4.000000e-03	52.8
32	TraesCS5B01G177100	chr7A	98.077	52	1	0	427	478	18059523	18059574	8.010000e-15	91.6
33	TraesCS5B01G177100	chr6B	98.077	52	1	0	427	478	672879409	672879358	8.010000e-15	91.6
34	TraesCS5B01G177100	chr4B	93.220	59	4	0	1433	1491	621965565	621965623	1.040000e-13	87.9
35	TraesCS5B01G177100	chr4A	93.333	60	3	1	1433	1491	5069706	5069765	1.040000e-13	87.9
36	TraesCS5B01G177100	chr6D	100.000	29	0	0	636	664	82728012	82728040	1.000000e-03	54.7
37	TraesCS5B01G177100	chr1D	100.000	29	0	0	636	664	488753113	488753141	1.000000e-03	54.7

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	TraesCS5B01G177100	chr5B	322915577	322917684	2107	True	1347.666667	3893	100.00000	1	2108	3	chr5B.!!$R3	2107
1	TraesCS5B01G177100	chr5A	377184872	377186885	2013	True	844.350000	2706	96.11975	1	2108	4	chr5A.!!$R1	2107
2	TraesCS5B01G177100	chr5D	285467145	285469189	2044	True	773.000000	1421	91.93275	1	2108	4	chr5D.!!$R1	2107

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
806	945	0.391793	GAAGTGTGCCTCCTAGTGCC	60.392	60.0	0.0	0.0	0.0	5.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1928	2075	0.768221	TCCTGACCCTTGCTGGAGTT	60.768	55.0	0.0	0.0	38.35	3.01	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
32	35	6.147821	ACTTGACTCCACTCATACAATTTTCG	59.852	38.462	0.00	0.00	0.00	3.46
52	55	4.380531	TCGGAGTCCAAGAATTATGATGC	58.619	43.478	10.49	0.00	0.00	3.91
125	128	6.018425	CAGGATGTGTATCAAACATAGCTGTC	60.018	42.308	0.00	0.00	41.10	3.51
126	129	5.817296	GGATGTGTATCAAACATAGCTGTCA	59.183	40.000	0.00	0.00	41.10	3.58
127	130	6.238211	GGATGTGTATCAAACATAGCTGTCAC	60.238	42.308	0.00	0.00	41.10	3.67
128	131	4.935205	TGTGTATCAAACATAGCTGTCACC	59.065	41.667	0.00	0.00	41.10	4.02
129	132	4.935205	GTGTATCAAACATAGCTGTCACCA	59.065	41.667	0.00	0.00	41.10	4.17
130	133	5.063944	GTGTATCAAACATAGCTGTCACCAG	59.936	44.000	0.00	0.00	41.10	4.00
131	134	3.057969	TCAAACATAGCTGTCACCAGG	57.942	47.619	0.00	0.00	39.22	4.45
132	135	8.209703	TGTATCAAACATAGCTGTCACCAGGT	62.210	42.308	0.00	0.00	41.92	4.00
138	141	3.935993	GCTGTCACCAGGTGTGTAT	57.064	52.632	19.65	0.00	45.61	2.29
139	142	1.726853	GCTGTCACCAGGTGTGTATC	58.273	55.000	19.65	6.94	45.61	2.24
140	143	1.001974	GCTGTCACCAGGTGTGTATCA	59.998	52.381	19.65	10.65	45.61	2.15
141	144	2.549992	GCTGTCACCAGGTGTGTATCAA	60.550	50.000	19.65	0.00	45.61	2.57
142	145	3.738982	CTGTCACCAGGTGTGTATCAAA	58.261	45.455	19.65	0.00	45.61	2.69
143	146	3.472652	TGTCACCAGGTGTGTATCAAAC	58.527	45.455	19.65	8.06	45.61	2.93
144	147	3.118223	TGTCACCAGGTGTGTATCAAACA	60.118	43.478	19.65	10.61	45.61	2.83
145	148	4.072131	GTCACCAGGTGTGTATCAAACAT	58.928	43.478	19.65	0.00	45.61	2.71
146	149	5.221742	TGTCACCAGGTGTGTATCAAACATA	60.222	40.000	19.65	0.00	45.61	2.29
147	150	5.880332	GTCACCAGGTGTGTATCAAACATAT	59.120	40.000	19.65	0.00	45.61	1.78
148	151	6.037172	GTCACCAGGTGTGTATCAAACATATC	59.963	42.308	19.65	0.00	45.61	1.63
149	152	5.296780	CACCAGGTGTGTATCAAACATATCC	59.703	44.000	11.99	0.00	41.10	2.59
150	153	4.511454	CCAGGTGTGTATCAAACATATCCG	59.489	45.833	0.00	0.00	41.10	4.18
151	154	5.116180	CAGGTGTGTATCAAACATATCCGT	58.884	41.667	0.00	0.00	41.10	4.69
185	188	4.844349	AGTACCACATTGGACATAGCTT	57.156	40.909	0.00	0.00	40.96	3.74
241	244	7.800300	AGTCTCCTAGAAGTCCAAACTTTAT	57.200	36.000	0.00	0.00	45.80	1.40
282	285	2.420058	AAATGCACTACTACCAGGCC	57.580	50.000	0.00	0.00	0.00	5.19
333	336	1.186200	CGGGACTGAGAACTCCATGA	58.814	55.000	0.00	0.00	0.00	3.07
418	557	4.927425	GTCGTTTGTGTAGAGCATTTCCTA	59.073	41.667	0.00	0.00	0.00	2.94
419	558	5.407387	GTCGTTTGTGTAGAGCATTTCCTAA	59.593	40.000	0.00	0.00	0.00	2.69
420	559	5.407387	TCGTTTGTGTAGAGCATTTCCTAAC	59.593	40.000	0.00	0.00	0.00	2.34
421	560	5.618561	GTTTGTGTAGAGCATTTCCTAACG	58.381	41.667	0.00	0.00	0.00	3.18
422	561	4.530710	TGTGTAGAGCATTTCCTAACGT	57.469	40.909	0.00	0.00	0.00	3.99
423	562	4.491676	TGTGTAGAGCATTTCCTAACGTC	58.508	43.478	0.00	0.00	0.00	4.34
424	563	3.546670	GTGTAGAGCATTTCCTAACGTCG	59.453	47.826	0.00	0.00	0.00	5.12
425	564	3.192001	TGTAGAGCATTTCCTAACGTCGT	59.808	43.478	0.00	0.00	0.00	4.34
426	565	3.314541	AGAGCATTTCCTAACGTCGTT	57.685	42.857	15.97	15.97	0.00	3.85
427	566	3.251571	AGAGCATTTCCTAACGTCGTTC	58.748	45.455	15.06	0.00	0.00	3.95
428	567	1.990563	AGCATTTCCTAACGTCGTTCG	59.009	47.619	15.06	8.37	46.00	3.95
437	576	3.522568	CGTCGTTCGTGTGTCTGG	58.477	61.111	0.00	0.00	34.52	3.86
438	577	1.298863	CGTCGTTCGTGTGTCTGGT	60.299	57.895	0.00	0.00	34.52	4.00
439	578	1.537289	CGTCGTTCGTGTGTCTGGTG	61.537	60.000	0.00	0.00	34.52	4.17
440	579	1.590525	TCGTTCGTGTGTCTGGTGC	60.591	57.895	0.00	0.00	0.00	5.01
441	580	1.591594	CGTTCGTGTGTCTGGTGCT	60.592	57.895	0.00	0.00	0.00	4.40
442	581	1.151777	CGTTCGTGTGTCTGGTGCTT	61.152	55.000	0.00	0.00	0.00	3.91
443	582	1.014352	GTTCGTGTGTCTGGTGCTTT	58.986	50.000	0.00	0.00	0.00	3.51
444	583	2.206750	GTTCGTGTGTCTGGTGCTTTA	58.793	47.619	0.00	0.00	0.00	1.85
445	584	2.806244	GTTCGTGTGTCTGGTGCTTTAT	59.194	45.455	0.00	0.00	0.00	1.40
446	585	3.945981	TCGTGTGTCTGGTGCTTTATA	57.054	42.857	0.00	0.00	0.00	0.98
447	586	4.260139	TCGTGTGTCTGGTGCTTTATAA	57.740	40.909	0.00	0.00	0.00	0.98
448	587	4.827692	TCGTGTGTCTGGTGCTTTATAAT	58.172	39.130	0.00	0.00	0.00	1.28
449	588	5.968254	TCGTGTGTCTGGTGCTTTATAATA	58.032	37.500	0.00	0.00	0.00	0.98
450	589	6.578944	TCGTGTGTCTGGTGCTTTATAATAT	58.421	36.000	0.00	0.00	0.00	1.28
451	590	7.718525	TCGTGTGTCTGGTGCTTTATAATATA	58.281	34.615	0.00	0.00	0.00	0.86
452	591	8.198778	TCGTGTGTCTGGTGCTTTATAATATAA	58.801	33.333	0.00	0.00	0.00	0.98
453	592	8.822855	CGTGTGTCTGGTGCTTTATAATATAAA	58.177	33.333	5.46	5.46	0.00	1.40
463	602	7.457024	GCTTTATAATATAAAGCGGGGGAAA	57.543	36.000	30.20	1.00	46.31	3.13
464	603	7.310664	GCTTTATAATATAAAGCGGGGGAAAC	58.689	38.462	30.20	11.52	46.31	2.78
699	838	6.235664	GTTTTACCACTGTAATTCTCTGGGA	58.764	40.000	0.00	0.00	36.84	4.37
806	945	0.391793	GAAGTGTGCCTCCTAGTGCC	60.392	60.000	0.00	0.00	0.00	5.01
1262	1404	1.067295	TTCTCTCCATGGTTGCCTGT	58.933	50.000	12.58	0.00	0.00	4.00
1432	1579	7.555306	AGTTGATGACAATCTGAGATTGATG	57.445	36.000	34.51	15.33	38.32	3.07
1433	1580	7.110810	AGTTGATGACAATCTGAGATTGATGT	58.889	34.615	34.51	18.31	38.32	3.06
1434	1581	7.610692	AGTTGATGACAATCTGAGATTGATGTT	59.389	33.333	34.51	17.06	38.32	2.71
1636	1783	4.580580	GGAAAGTTGGAATCAGTCTGTGTT	59.419	41.667	0.00	0.00	0.00	3.32
1674	1821	1.661178	GCGTATCTCCATGCAATTGCG	60.661	52.381	24.58	11.79	45.83	4.85
1749	1896	2.098117	GCTGGTGTCTATGCCATTGTTC	59.902	50.000	0.00	0.00	33.84	3.18
1758	1905	5.065731	GTCTATGCCATTGTTCTTCTCTTGG	59.934	44.000	0.00	0.00	0.00	3.61
1784	1931	1.271762	TGCTGCTGCTCTTTCAGGAAT	60.272	47.619	17.00	0.00	40.48	3.01
1807	1954	3.876914	TCAACTGTTTCATGTGAGACCAC	59.123	43.478	1.79	0.00	43.46	4.16
1850	1997	2.030946	GCTTGGTGCATATCTCACGAAC	59.969	50.000	0.00	0.00	42.31	3.95
1928	2075	4.404640	AGACAACTAGTAGCTGGTACACA	58.595	43.478	18.17	5.64	33.55	3.72
1956	2103	2.173569	GCAAGGGTCAGGAATCCACTAT	59.826	50.000	0.61	0.00	0.00	2.12
1972	2119	4.100653	TCCACTATGGAAGCTCAATCAGAG	59.899	45.833	0.00	0.00	45.00	3.35
2086	2251	5.546526	TGACACTGCAACATCTGTGTTATA	58.453	37.500	8.37	0.00	46.49	0.98

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
22	25	8.673711	CATAATTCTTGGACTCCGAAAATTGTA	58.326	33.333	6.82	0.00	0.00	2.41
32	35	4.130118	ACGCATCATAATTCTTGGACTCC	58.870	43.478	0.00	0.00	0.00	3.85
52	55	3.319405	AGGACAGCAGTAGGATATGAACG	59.681	47.826	0.00	0.00	0.00	3.95
95	98	5.178096	TGTTTGATACACATCCTGGTGAT	57.822	39.130	0.00	0.00	41.32	3.06
126	129	5.437060	GGATATGTTTGATACACACCTGGT	58.563	41.667	0.00	0.00	40.19	4.00
127	130	4.511454	CGGATATGTTTGATACACACCTGG	59.489	45.833	0.00	0.00	40.19	4.45
128	131	5.116180	ACGGATATGTTTGATACACACCTG	58.884	41.667	0.00	0.00	40.19	4.00
129	132	5.353394	ACGGATATGTTTGATACACACCT	57.647	39.130	0.00	0.00	40.19	4.00
130	133	6.926826	TCATACGGATATGTTTGATACACACC	59.073	38.462	0.00	0.00	40.19	4.16
131	134	7.652105	AGTCATACGGATATGTTTGATACACAC	59.348	37.037	0.00	0.00	40.19	3.82
132	135	7.722363	AGTCATACGGATATGTTTGATACACA	58.278	34.615	0.00	0.00	40.19	3.72
133	136	9.687210	TTAGTCATACGGATATGTTTGATACAC	57.313	33.333	0.00	0.00	40.19	2.90
136	139	9.869757	CCATTAGTCATACGGATATGTTTGATA	57.130	33.333	0.00	0.00	39.48	2.15
137	140	8.593679	TCCATTAGTCATACGGATATGTTTGAT	58.406	33.333	0.00	0.00	39.48	2.57
138	141	7.958088	TCCATTAGTCATACGGATATGTTTGA	58.042	34.615	0.00	0.00	39.48	2.69
139	142	8.601845	TTCCATTAGTCATACGGATATGTTTG	57.398	34.615	0.00	0.00	39.48	2.93
140	143	8.429641	ACTTCCATTAGTCATACGGATATGTTT	58.570	33.333	0.00	0.00	39.48	2.83
141	144	7.963532	ACTTCCATTAGTCATACGGATATGTT	58.036	34.615	0.00	0.00	39.48	2.71
142	145	7.540474	ACTTCCATTAGTCATACGGATATGT	57.460	36.000	0.00	0.00	39.48	2.29
143	146	7.974501	GGTACTTCCATTAGTCATACGGATATG	59.025	40.741	0.00	0.00	36.86	1.78
144	147	7.672660	TGGTACTTCCATTAGTCATACGGATAT	59.327	37.037	0.00	0.00	41.93	1.63
145	148	7.005902	TGGTACTTCCATTAGTCATACGGATA	58.994	38.462	0.00	0.00	41.93	2.59
146	149	5.836898	TGGTACTTCCATTAGTCATACGGAT	59.163	40.000	0.00	0.00	41.93	4.18
147	150	5.202765	TGGTACTTCCATTAGTCATACGGA	58.797	41.667	0.00	0.00	41.93	4.69
148	151	5.524971	TGGTACTTCCATTAGTCATACGG	57.475	43.478	0.00	0.00	41.93	4.02
241	244	8.570488	CATTTATGAAATGCTCTACAATAGGCA	58.430	33.333	0.00	0.00	41.48	4.75
333	336	0.107410	TTCCACTTTCCGTGCACTGT	60.107	50.000	16.19	3.08	42.42	3.55
421	560	1.818221	GCACCAGACACACGAACGAC	61.818	60.000	0.14	0.00	0.00	4.34
422	561	1.590525	GCACCAGACACACGAACGA	60.591	57.895	0.14	0.00	0.00	3.85
423	562	1.151777	AAGCACCAGACACACGAACG	61.152	55.000	0.00	0.00	0.00	3.95
424	563	1.014352	AAAGCACCAGACACACGAAC	58.986	50.000	0.00	0.00	0.00	3.95
425	564	2.605837	TAAAGCACCAGACACACGAA	57.394	45.000	0.00	0.00	0.00	3.85
426	565	2.831685	ATAAAGCACCAGACACACGA	57.168	45.000	0.00	0.00	0.00	4.35
427	566	6.844696	ATATTATAAAGCACCAGACACACG	57.155	37.500	0.00	0.00	0.00	4.49
440	579	7.094075	GGGTTTCCCCCGCTTTATATTATAAAG	60.094	40.741	23.28	23.28	45.80	1.85
441	580	6.720748	GGGTTTCCCCCGCTTTATATTATAAA	59.279	38.462	8.26	8.26	45.80	1.40
442	581	6.247676	GGGTTTCCCCCGCTTTATATTATAA	58.752	40.000	0.00	0.00	45.80	0.98
443	582	5.818887	GGGTTTCCCCCGCTTTATATTATA	58.181	41.667	0.00	0.00	45.80	0.98
444	583	4.669700	GGGTTTCCCCCGCTTTATATTAT	58.330	43.478	0.00	0.00	45.80	1.28
445	584	4.103013	GGGTTTCCCCCGCTTTATATTA	57.897	45.455	0.00	0.00	45.80	0.98
446	585	2.953453	GGGTTTCCCCCGCTTTATATT	58.047	47.619	0.00	0.00	45.80	1.28
447	586	2.670019	GGGTTTCCCCCGCTTTATAT	57.330	50.000	0.00	0.00	45.80	0.86
458	597	4.562082	CAATTACCGAAAAAGGGTTTCCC	58.438	43.478	0.00	0.00	45.90	3.97
459	598	3.991773	GCAATTACCGAAAAAGGGTTTCC	59.008	43.478	0.00	0.00	38.99	3.13
460	599	3.991773	GGCAATTACCGAAAAAGGGTTTC	59.008	43.478	0.00	0.00	38.99	2.78
461	600	3.997762	GGCAATTACCGAAAAAGGGTTT	58.002	40.909	0.00	0.00	38.99	3.27
462	601	3.671008	GGCAATTACCGAAAAAGGGTT	57.329	42.857	0.00	0.00	38.99	4.11
473	612	1.676006	CCTGGTGATTCGGCAATTACC	59.324	52.381	13.12	13.12	45.18	2.85
474	613	2.365582	ACCTGGTGATTCGGCAATTAC	58.634	47.619	0.00	0.00	0.00	1.89
475	614	2.799126	ACCTGGTGATTCGGCAATTA	57.201	45.000	0.00	0.00	0.00	1.40
806	945	3.311106	CACATGCAGGCAGTTTGTTTAG	58.689	45.455	0.00	0.00	0.00	1.85
1262	1404	1.152567	CCCCCTTTGCCTGTGACAA	60.153	57.895	0.00	0.00	0.00	3.18
1420	1567	5.351465	GCGGTAAAGAAACATCAATCTCAGA	59.649	40.000	0.00	0.00	0.00	3.27
1432	1579	6.370718	TCATTAAGAGGAAGCGGTAAAGAAAC	59.629	38.462	0.00	0.00	0.00	2.78
1433	1580	6.469410	TCATTAAGAGGAAGCGGTAAAGAAA	58.531	36.000	0.00	0.00	0.00	2.52
1434	1581	6.045072	TCATTAAGAGGAAGCGGTAAAGAA	57.955	37.500	0.00	0.00	0.00	2.52
1649	1796	2.357517	CATGGAGATACGCCCGCC	60.358	66.667	0.00	0.00	0.00	6.13
1674	1821	2.297315	CTCAAAGGACCAGGAAAAAGGC	59.703	50.000	0.00	0.00	0.00	4.35
1749	1896	3.560481	CAGCAGCATCATACCAAGAGAAG	59.440	47.826	0.00	0.00	0.00	2.85
1758	1905	2.941064	TGAAAGAGCAGCAGCATCATAC	59.059	45.455	3.17	0.00	45.49	2.39
1784	1931	4.335315	GTGGTCTCACATGAAACAGTTGAA	59.665	41.667	0.00	0.00	43.13	2.69
1807	1954	0.825010	AGGGCCTGTTTGAGTTGCAG	60.825	55.000	4.50	0.00	0.00	4.41
1928	2075	0.768221	TCCTGACCCTTGCTGGAGTT	60.768	55.000	0.00	0.00	38.35	3.01
1972	2119	1.616159	TTTCAGGTACCAAGGCAAGC	58.384	50.000	15.94	0.00	0.00	4.01
1973	2120	3.690460	AGATTTCAGGTACCAAGGCAAG	58.310	45.455	15.94	0.00	0.00	4.01
1974	2121	3.806949	AGATTTCAGGTACCAAGGCAA	57.193	42.857	15.94	0.06	0.00	4.52
1975	2122	3.073798	TCAAGATTTCAGGTACCAAGGCA	59.926	43.478	15.94	0.00	0.00	4.75
1976	2123	3.440522	GTCAAGATTTCAGGTACCAAGGC	59.559	47.826	15.94	0.00	0.00	4.35
1977	2124	4.697352	CAGTCAAGATTTCAGGTACCAAGG	59.303	45.833	15.94	3.09	0.00	3.61
1978	2125	5.308825	ACAGTCAAGATTTCAGGTACCAAG	58.691	41.667	15.94	6.34	0.00	3.61
1979	2126	5.304686	ACAGTCAAGATTTCAGGTACCAA	57.695	39.130	15.94	0.00	0.00	3.67
1980	2127	4.974645	ACAGTCAAGATTTCAGGTACCA	57.025	40.909	15.94	0.00	0.00	3.25
1981	2128	5.063880	ACAACAGTCAAGATTTCAGGTACC	58.936	41.667	2.73	2.73	0.00	3.34

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.