AutoCloner

Multiple sequence alignment - TraesCS3B01G103300

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	TraesCS3B01G103300	chr3B	100.000	2639	0	0	1	2639	70091982	70094620	0.000000e+00	4874.0
1	TraesCS3B01G103300	chr3B	85.142	1023	89	34	943	1927	70120915	70121912	0.000000e+00	989.0
2	TraesCS3B01G103300	chr3B	88.608	711	65	7	1936	2639	21175064	21174363	0.000000e+00	850.0
3	TraesCS3B01G103300	chr3B	83.657	722	61	22	1226	1932	70123440	70124119	6.200000e-176	627.0
4	TraesCS3B01G103300	chr3D	90.714	1960	143	18	1	1932	44965970	44967918	0.000000e+00	2575.0
5	TraesCS3B01G103300	chr3D	80.553	1337	119	65	675	1934	45011472	45012744	0.000000e+00	898.0
6	TraesCS3B01G103300	chr3D	90.278	72	6	1	193	264	357328561	357328631	2.800000e-15	93.5
7	TraesCS3B01G103300	chr3A	88.070	855	63	14	1070	1899	56734841	56735681	0.000000e+00	977.0
8	TraesCS3B01G103300	chr3A	87.186	796	63	14	1123	1899	56756987	56757762	0.000000e+00	869.0
9	TraesCS3B01G103300	chr3A	83.924	423	31	15	533	942	56734358	56734756	1.150000e-98	370.0
10	TraesCS3B01G103300	chr3A	81.818	176	29	3	187	361	476981515	476981688	7.610000e-31	145.0
11	TraesCS3B01G103300	chr2D	89.109	707	70	4	1936	2639	454850354	454849652	0.000000e+00	872.0
12	TraesCS3B01G103300	chr1D	89.763	674	57	6	1969	2639	375355011	375354347	0.000000e+00	852.0
13	TraesCS3B01G103300	chr7D	88.152	709	71	8	1936	2639	462335279	462334579	0.000000e+00	832.0
14	TraesCS3B01G103300	chr5B	87.931	696	75	5	1947	2639	111903549	111902860	0.000000e+00	811.0
15	TraesCS3B01G103300	chr5B	85.836	706	84	10	1941	2639	557501411	557500715	0.000000e+00	736.0
16	TraesCS3B01G103300	chr5B	84.211	114	16	2	367	478	609196777	609196664	2.780000e-20	110.0
17	TraesCS3B01G103300	chr2A	86.582	708	85	7	1936	2639	4762897	4762196	0.000000e+00	773.0
18	TraesCS3B01G103300	chr1B	85.815	712	92	7	1929	2639	348414507	348415210	0.000000e+00	747.0
19	TraesCS3B01G103300	chr1A	85.674	712	89	11	1936	2639	96466743	96467449	0.000000e+00	737.0
20	TraesCS3B01G103300	chrUn	82.474	582	76	16	1133	1694	103768753	103768178	1.100000e-133	486.0
21	TraesCS3B01G103300	chrUn	79.396	563	90	18	1152	1694	103726365	103725809	8.920000e-100	374.0
22	TraesCS3B01G103300	chr6B	83.959	293	33	9	1410	1694	55597020	55596734	4.330000e-68	268.0
23	TraesCS3B01G103300	chr6D	83.815	173	24	4	191	361	461320092	461320262	7.560000e-36	161.0
24	TraesCS3B01G103300	chr6D	84.444	90	13	1	421	510	36811524	36811612	1.300000e-13	87.9
25	TraesCS3B01G103300	chr5A	87.324	142	15	3	301	439	622107997	622108138	2.720000e-35	159.0
26	TraesCS3B01G103300	chr2B	82.955	176	23	6	189	361	640341901	640342072	4.550000e-33	152.0
27	TraesCS3B01G103300	chr4D	78.613	173	34	3	190	361	477516084	477516254	7.720000e-21	111.0
28	TraesCS3B01G103300	chr4D	81.481	135	21	3	193	326	338012914	338013045	9.990000e-20	108.0
29	TraesCS3B01G103300	chr7A	80.153	131	19	6	384	510	26980019	26980146	1.010000e-14	91.6
30	TraesCS3B01G103300	chr4B	77.600	125	17	8	193	313	451282746	451282863	6.100000e-07	65.8
31	TraesCS3B01G103300	chr4B	76.800	125	18	8	193	313	451216720	451216837	2.840000e-05	60.2

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	TraesCS3B01G103300	chr3B	70091982	70094620	2638	False	4874.0	4874	100.0000	1	2639	1	chr3B.!!$F1	2638
1	TraesCS3B01G103300	chr3B	21174363	21175064	701	True	850.0	850	88.6080	1936	2639	1	chr3B.!!$R1	703
2	TraesCS3B01G103300	chr3B	70120915	70124119	3204	False	808.0	989	84.3995	943	1932	2	chr3B.!!$F2	989
3	TraesCS3B01G103300	chr3D	44965970	44967918	1948	False	2575.0	2575	90.7140	1	1932	1	chr3D.!!$F1	1931
4	TraesCS3B01G103300	chr3D	45011472	45012744	1272	False	898.0	898	80.5530	675	1934	1	chr3D.!!$F2	1259
5	TraesCS3B01G103300	chr3A	56756987	56757762	775	False	869.0	869	87.1860	1123	1899	1	chr3A.!!$F1	776
6	TraesCS3B01G103300	chr3A	56734358	56735681	1323	False	673.5	977	85.9970	533	1899	2	chr3A.!!$F3	1366
7	TraesCS3B01G103300	chr2D	454849652	454850354	702	True	872.0	872	89.1090	1936	2639	1	chr2D.!!$R1	703
8	TraesCS3B01G103300	chr1D	375354347	375355011	664	True	852.0	852	89.7630	1969	2639	1	chr1D.!!$R1	670
9	TraesCS3B01G103300	chr7D	462334579	462335279	700	True	832.0	832	88.1520	1936	2639	1	chr7D.!!$R1	703
10	TraesCS3B01G103300	chr5B	111902860	111903549	689	True	811.0	811	87.9310	1947	2639	1	chr5B.!!$R1	692
11	TraesCS3B01G103300	chr5B	557500715	557501411	696	True	736.0	736	85.8360	1941	2639	1	chr5B.!!$R2	698
12	TraesCS3B01G103300	chr2A	4762196	4762897	701	True	773.0	773	86.5820	1936	2639	1	chr2A.!!$R1	703
13	TraesCS3B01G103300	chr1B	348414507	348415210	703	False	747.0	747	85.8150	1929	2639	1	chr1B.!!$F1	710
14	TraesCS3B01G103300	chr1A	96466743	96467449	706	False	737.0	737	85.6740	1936	2639	1	chr1A.!!$F1	703
15	TraesCS3B01G103300	chrUn	103768178	103768753	575	True	486.0	486	82.4740	1133	1694	1	chrUn.!!$R2	561
16	TraesCS3B01G103300	chrUn	103725809	103726365	556	True	374.0	374	79.3960	1152	1694	1	chrUn.!!$R1	542

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
367	370	0.107897	TATTTGATGCGCCCACTCGT	60.108	50.0	4.18	0.0	0.0	4.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1945	4281	1.172812	GGGCTTTTTGCGAGGTCTGT	61.173	55.0	0.0	0.0	44.05	3.41	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
78	79	6.582636	TGTTCATCTTAGGTGTGGTGATATC	58.417	40.000	0.00	0.00	0.00	1.63
90	91	3.621715	GTGGTGATATCAGGTTTTCGTCC	59.378	47.826	5.42	0.94	0.00	4.79
104	105	5.446340	GGTTTTCGTCCCGTAACATATGTTC	60.446	44.000	24.00	14.38	39.31	3.18
105	106	3.441496	TCGTCCCGTAACATATGTTCC	57.559	47.619	24.00	12.60	39.31	3.62
124	125	5.221322	TGTTCCTTGGTCGATCATCTATGAG	60.221	44.000	0.00	0.00	40.64	2.90
129	130	2.900546	GGTCGATCATCTATGAGGGGTT	59.099	50.000	0.00	0.00	40.64	4.11
139	140	3.264845	GAGGGGTTCCAAGGCCCA	61.265	66.667	0.00	0.00	46.59	5.36
188	189	0.824759	AGCGGGCGAAGATAAAGACT	59.175	50.000	0.00	0.00	0.00	3.24
192	193	3.552273	GCGGGCGAAGATAAAGACTATGA	60.552	47.826	0.00	0.00	0.00	2.15
222	223	5.822519	TCTCCAACAGATGCGCTAAATAAAT	59.177	36.000	9.73	0.00	0.00	1.40
225	226	5.501715	CAACAGATGCGCTAAATAAATCGT	58.498	37.500	9.73	1.54	0.00	3.73
230	231	2.675844	TGCGCTAAATAAATCGTGCACT	59.324	40.909	16.19	0.00	37.89	4.40
238	239	9.337091	GCTAAATAAATCGTGCACTTAAGAAAA	57.663	29.630	16.19	0.00	0.00	2.29
243	244	2.041244	CGTGCACTTAAGAAAAACGGC	58.959	47.619	16.19	1.97	0.00	5.68
249	250	7.254185	CGTGCACTTAAGAAAAACGGCTATATA	60.254	37.037	16.19	0.00	0.00	0.86
262	265	0.446616	CTATATAGCGCGCTCGACCA	59.553	55.000	40.23	21.40	38.10	4.02
280	283	0.874390	CAAAAGTAGCGCTCCAGCAA	59.126	50.000	16.34	0.00	42.21	3.91
281	284	1.266718	CAAAAGTAGCGCTCCAGCAAA	59.733	47.619	16.34	0.00	42.21	3.68
284	287	2.027625	GTAGCGCTCCAGCAAACGT	61.028	57.895	16.34	0.00	42.21	3.99
299	302	2.596904	AACGTGCTATAATCCTGCGT	57.403	45.000	0.00	0.00	0.00	5.24
308	311	1.361793	TAATCCTGCGTGCGGTAAAC	58.638	50.000	0.00	0.00	0.00	2.01
320	323	2.097791	TGCGGTAAACAAGGTTCAACAC	59.902	45.455	0.00	0.00	0.00	3.32
326	329	1.101049	ACAAGGTTCAACACGCTGGG	61.101	55.000	0.00	0.00	0.00	4.45
330	333	0.310854	GGTTCAACACGCTGGGAAAG	59.689	55.000	0.00	0.00	0.00	2.62
354	357	1.081556	ATCGCGCGCTGTGTATTTGA	61.082	50.000	30.48	15.72	0.00	2.69
358	361	0.920766	CGCGCTGTGTATTTGATGCG	60.921	55.000	5.56	0.00	45.12	4.73
362	365	1.093972	CTGTGTATTTGATGCGCCCA	58.906	50.000	4.18	0.00	0.00	5.36
367	370	0.107897	TATTTGATGCGCCCACTCGT	60.108	50.000	4.18	0.00	0.00	4.18
385	388	2.176546	GCGCGCTGCAAAATCTGA	59.823	55.556	26.67	0.00	45.45	3.27
404	408	4.673375	CTGCTGCAGTGGGCCCTT	62.673	66.667	25.70	8.68	43.89	3.95
407	411	2.993264	CTGCAGTGGGCCCTTTGG	60.993	66.667	25.70	11.16	43.89	3.28
413	418	1.989508	GTGGGCCCTTTGGATTGGG	60.990	63.158	25.70	0.00	46.00	4.12
417	422	2.759560	CCCTTTGGATTGGGGCCG	60.760	66.667	0.00	0.00	39.76	6.13
419	424	1.304952	CCTTTGGATTGGGGCCGTA	59.695	57.895	0.00	0.00	0.00	4.02
438	443	5.176590	GCCGTATTTTTGTGCATCTGAAAAA	59.823	36.000	0.00	0.41	34.13	1.94
447	452	3.251004	GTGCATCTGAAAAACCTCTTCGT	59.749	43.478	0.00	0.00	0.00	3.85
451	456	1.864711	CTGAAAAACCTCTTCGTCGCA	59.135	47.619	0.00	0.00	0.00	5.10
466	471	3.795342	GCACCCGCGCGTACAAAT	61.795	61.111	29.95	3.85	0.00	2.32
468	473	1.768112	GCACCCGCGCGTACAAATAT	61.768	55.000	29.95	1.11	0.00	1.28
474	479	4.035441	ACCCGCGCGTACAAATATTATTTT	59.965	37.500	29.95	0.00	0.00	1.82
478	483	5.673286	CGCGCGTACAAATATTATTTTGACA	59.327	36.000	24.19	0.00	38.58	3.58
506	511	2.894240	GAATTGTACCGCGCCGAGGA	62.894	60.000	15.49	0.00	0.00	3.71
511	516	2.420568	TACCGCGCCGAGGAGAAAT	61.421	57.895	15.49	0.00	0.00	2.17
517	522	2.174319	GCCGAGGAGAAATGCGTCC	61.174	63.158	0.00	0.00	0.00	4.79
520	525	1.140407	CGAGGAGAAATGCGTCCGTC	61.140	60.000	0.00	0.00	37.97	4.79
684	689	7.277760	CCAGTCTCTAGTCTCATATCATAGTCG	59.722	44.444	0.00	0.00	0.00	4.18
689	694	8.068892	TCTAGTCTCATATCATAGTCGCTCTA	57.931	38.462	0.00	0.00	0.00	2.43
715	720	3.610114	CGTGGAATTCTTGGAAGTGCAAG	60.610	47.826	5.23	6.24	0.00	4.01
778	786	2.158957	TGACCCGCCAGAATCATCTAAC	60.159	50.000	0.00	0.00	33.50	2.34
791	799	6.211384	AGAATCATCTAACCAAAACCCCAAAG	59.789	38.462	0.00	0.00	32.88	2.77
793	802	5.954757	TCATCTAACCAAAACCCCAAAGTA	58.045	37.500	0.00	0.00	0.00	2.24
799	808	2.684943	CAAAACCCCAAAGTACCCCTT	58.315	47.619	0.00	0.00	33.79	3.95
806	815	2.357154	CCCAAAGTACCCCTTGATCCAG	60.357	54.545	0.00	0.00	32.32	3.86
809	818	1.523938	GTACCCCTTGATCCAGCGC	60.524	63.158	0.00	0.00	0.00	5.92
815	824	0.731417	CCTTGATCCAGCGCTTTCTG	59.269	55.000	7.50	0.00	0.00	3.02
877	902	7.223971	ACATATATAAGTAACTGCACCAACACG	59.776	37.037	0.00	0.00	0.00	4.49
885	910	4.605967	CACCAACACGCACGCACC	62.606	66.667	0.00	0.00	0.00	5.01
888	913	4.605967	CAACACGCACGCACCACC	62.606	66.667	0.00	0.00	0.00	4.61
891	916	4.312231	CACGCACGCACCACCAAG	62.312	66.667	0.00	0.00	0.00	3.61
892	917	4.849310	ACGCACGCACCACCAAGT	62.849	61.111	0.00	0.00	0.00	3.16
893	918	4.012895	CGCACGCACCACCAAGTC	62.013	66.667	0.00	0.00	0.00	3.01
1083	1135	0.538746	ACCCACCAATTCCACCGAAC	60.539	55.000	0.00	0.00	0.00	3.95
1120	1178	4.643387	AGCCCAACACCAGTCGGC	62.643	66.667	0.00	0.00	41.23	5.54
1267	1331	3.889044	GAGATCGTCGCCGCCTCA	61.889	66.667	3.84	0.00	35.23	3.86
1658	1752	2.971452	AGACGAGGCGGGTCTTTC	59.029	61.111	7.54	0.00	41.83	2.62
1761	1861	1.413812	GGACCATCATCAATTTGGGGC	59.586	52.381	0.00	0.00	34.72	5.80
1880	4216	6.018262	GTGAATTTGGCGCACAGATAGTATTA	60.018	38.462	10.83	0.00	32.96	0.98
1902	4238	2.028523	CACTAGAAGAAATGACGCGCTG	59.971	50.000	5.73	1.02	0.00	5.18
1945	4281	2.224523	CCCAACCTCACAGCAACTCTAA	60.225	50.000	0.00	0.00	0.00	2.10
1952	4288	2.965831	TCACAGCAACTCTAACAGACCT	59.034	45.455	0.00	0.00	0.00	3.85
2020	4356	1.381165	CGGAAAAATCCCGCCCGAAT	61.381	55.000	0.00	0.00	42.49	3.34
2106	4448	4.507879	CGAATACGCGGGTTTCCT	57.492	55.556	11.50	0.00	0.00	3.36
2107	4449	2.758497	CGAATACGCGGGTTTCCTT	58.242	52.632	11.50	0.00	0.00	3.36
2238	4584	4.796495	GCCGCCCAAGATTCCGGT	62.796	66.667	0.00	0.00	42.54	5.28
2252	4598	2.264794	CGGTGAAAGTAGCCGGCT	59.735	61.111	34.85	34.85	41.60	5.52
2302	4650	2.936032	GTTGCCCTCTGTCCCCCT	60.936	66.667	0.00	0.00	0.00	4.79
2307	4664	2.124996	CCTCTGTCCCCCTTCCCA	59.875	66.667	0.00	0.00	0.00	4.37
2362	4719	4.664062	CCCTTCATCGTGGGCAAT	57.336	55.556	0.00	0.00	36.61	3.56

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
19	20	6.183360	GGAAACCCCTGTGATAAAAAGATAGC	60.183	42.308	0.00	0.00	0.00	2.97
46	47	5.995282	CACACCTAAGATGAACAAAGTACCA	59.005	40.000	0.00	0.00	0.00	3.25
47	48	5.411669	CCACACCTAAGATGAACAAAGTACC	59.588	44.000	0.00	0.00	0.00	3.34
90	91	3.554324	CGACCAAGGAACATATGTTACGG	59.446	47.826	22.31	20.16	43.52	4.02
104	105	3.056250	CCCTCATAGATGATCGACCAAGG	60.056	52.174	0.00	0.00	36.02	3.61
105	106	3.056250	CCCCTCATAGATGATCGACCAAG	60.056	52.174	0.00	0.00	36.02	3.61
171	172	4.023107	TCTCATAGTCTTTATCTTCGCCCG	60.023	45.833	0.00	0.00	0.00	6.13
176	177	8.028938	GGAGATGCTCTCATAGTCTTTATCTTC	58.971	40.741	13.06	0.00	45.12	2.87
181	182	6.381133	TGTTGGAGATGCTCTCATAGTCTTTA	59.619	38.462	13.06	0.00	45.12	1.85
205	206	3.902465	GCACGATTTATTTAGCGCATCTG	59.098	43.478	11.47	3.82	0.00	2.90
222	223	2.286536	GCCGTTTTTCTTAAGTGCACGA	60.287	45.455	12.01	0.00	0.00	4.35
225	226	6.995511	ATATAGCCGTTTTTCTTAAGTGCA	57.004	33.333	1.63	0.00	0.00	4.57
230	231	5.107760	CGCGCTATATAGCCGTTTTTCTTAA	60.108	40.000	25.48	0.00	46.34	1.85
238	239	0.456312	GAGCGCGCTATATAGCCGTT	60.456	55.000	36.69	26.95	46.34	4.44
243	244	0.446616	TGGTCGAGCGCGCTATATAG	59.553	55.000	36.69	21.84	37.46	1.31
249	250	2.758770	TACTTTTGGTCGAGCGCGCT	62.759	55.000	37.28	37.28	37.46	5.92
262	265	1.266989	GTTTGCTGGAGCGCTACTTTT	59.733	47.619	22.67	0.00	45.83	2.27
280	283	2.201732	CACGCAGGATTATAGCACGTT	58.798	47.619	0.00	0.00	0.00	3.99
281	284	1.852942	CACGCAGGATTATAGCACGT	58.147	50.000	0.00	0.00	0.00	4.49
284	287	0.599991	CCGCACGCAGGATTATAGCA	60.600	55.000	0.00	0.00	0.00	3.49
295	298	1.096386	AACCTTGTTTACCGCACGCA	61.096	50.000	0.00	0.00	0.00	5.24
299	302	2.097791	GTGTTGAACCTTGTTTACCGCA	59.902	45.455	0.00	0.00	0.00	5.69
308	311	0.817634	TCCCAGCGTGTTGAACCTTG	60.818	55.000	0.00	0.00	0.00	3.61
346	349	1.378531	GAGTGGGCGCATCAAATACA	58.621	50.000	10.83	0.00	0.00	2.29
378	381	1.166129	CACTGCAGCAGCTCAGATTT	58.834	50.000	23.05	0.00	42.74	2.17
403	407	2.239681	AAATACGGCCCCAATCCAAA	57.760	45.000	0.00	0.00	0.00	3.28
404	408	2.234908	CAAAAATACGGCCCCAATCCAA	59.765	45.455	0.00	0.00	0.00	3.53
407	411	2.887337	CACAAAAATACGGCCCCAATC	58.113	47.619	0.00	0.00	0.00	2.67
413	418	2.163412	TCAGATGCACAAAAATACGGCC	59.837	45.455	0.00	0.00	0.00	6.13
417	422	7.653311	AGAGGTTTTTCAGATGCACAAAAATAC	59.347	33.333	9.42	4.99	32.97	1.89
419	424	6.585416	AGAGGTTTTTCAGATGCACAAAAAT	58.415	32.000	9.42	0.00	32.97	1.82
438	443	4.052229	CGGGTGCGACGAAGAGGT	62.052	66.667	0.00	0.00	0.00	3.85
451	456	2.222007	TAATATTTGTACGCGCGGGT	57.778	45.000	35.22	31.66	0.00	5.28
468	473	8.715191	ACAATTCTTTTGCAGTGTCAAAATAA	57.285	26.923	19.03	18.12	42.77	1.40
474	479	4.260990	CGGTACAATTCTTTTGCAGTGTCA	60.261	41.667	0.00	0.00	0.00	3.58
478	483	2.350388	CGCGGTACAATTCTTTTGCAGT	60.350	45.455	0.00	0.00	0.00	4.40
492	497	2.624437	ATTTCTCCTCGGCGCGGTAC	62.624	60.000	16.40	0.00	0.00	3.34
506	511	1.153823	CTCCGACGGACGCATTTCT	60.154	57.895	13.88	0.00	41.07	2.52
511	516	4.492160	GCATCTCCGACGGACGCA	62.492	66.667	13.88	0.00	41.07	5.24
514	519	2.413765	GGAGCATCTCCGACGGAC	59.586	66.667	13.88	2.93	41.08	4.79
649	654	1.997040	ACTAGAGACTGGACTGGGACT	59.003	52.381	0.00	0.00	0.00	3.85
650	655	2.025699	AGACTAGAGACTGGACTGGGAC	60.026	54.545	0.00	0.00	0.00	4.46
684	689	4.876107	TCCAAGAATTCCACGATTTAGAGC	59.124	41.667	0.65	0.00	0.00	4.09
689	694	4.321230	GCACTTCCAAGAATTCCACGATTT	60.321	41.667	0.65	0.00	0.00	2.17
715	720	1.271102	AGACTCGACTGACTTTGGAGC	59.729	52.381	0.00	0.00	0.00	4.70
778	786	1.132977	AGGGGTACTTTGGGGTTTTGG	60.133	52.381	0.00	0.00	0.00	3.28
791	799	1.523938	GCGCTGGATCAAGGGGTAC	60.524	63.158	15.51	0.00	0.00	3.34
793	802	2.142292	AAAGCGCTGGATCAAGGGGT	62.142	55.000	12.58	12.82	41.97	4.95
799	808	0.391661	GGACAGAAAGCGCTGGATCA	60.392	55.000	12.58	0.00	40.20	2.92
809	818	1.372087	GCTGATGCCGGGACAGAAAG	61.372	60.000	22.93	8.32	34.07	2.62
815	824	4.899239	CCTCGCTGATGCCGGGAC	62.899	72.222	2.18	0.00	35.36	4.46
877	902	2.591715	AGACTTGGTGGTGCGTGC	60.592	61.111	0.00	0.00	0.00	5.34
885	910	3.318017	CACTCGTTTAGGAGACTTGGTG	58.682	50.000	6.46	0.00	43.67	4.17
886	911	2.299297	CCACTCGTTTAGGAGACTTGGT	59.701	50.000	6.46	0.00	43.67	3.67
888	913	3.936372	TCCACTCGTTTAGGAGACTTG	57.064	47.619	6.46	0.00	43.67	3.16
1607	1692	2.110213	GCCCGATTATCACCGGCA	59.890	61.111	0.00	0.00	44.07	5.69
1622	1716	3.195698	GTCAAGATCCGTGCCGCC	61.196	66.667	0.00	0.00	0.00	6.13
1658	1752	3.675619	AAACGGATCGGGCGGAAGG	62.676	63.158	5.18	0.00	0.00	3.46
1674	1768	1.808411	GCATCCACGTCAGAAGGAAA	58.192	50.000	0.00	0.00	34.62	3.13
1761	1861	5.739752	TTCAGTCAGATGGAATAAATGCG	57.260	39.130	0.00	0.00	0.00	4.73
1880	4216	1.993370	GCGCGTCATTTCTTCTAGTGT	59.007	47.619	8.43	0.00	0.00	3.55
1934	4270	2.600731	CGAGGTCTGTTAGAGTTGCTG	58.399	52.381	0.00	0.00	0.00	4.41
1945	4281	1.172812	GGGCTTTTTGCGAGGTCTGT	61.173	55.000	0.00	0.00	44.05	3.41
1952	4288	2.981350	GGTCGGGGCTTTTTGCGA	60.981	61.111	0.00	0.00	44.05	5.10
2066	4402	3.302161	GGGTTGGGGTCAAGTTTTTACT	58.698	45.455	0.00	0.00	32.92	2.24
2068	4404	2.308690	CGGGTTGGGGTCAAGTTTTTA	58.691	47.619	0.00	0.00	32.92	1.52
2219	4565	4.830765	CGGAATCTTGGGCGGCGA	62.831	66.667	12.98	0.00	0.00	5.54
2238	4584	1.596934	CTCCAGCCGGCTACTTTCA	59.403	57.895	32.30	8.31	0.00	2.69
2294	4640	1.619363	CAGGATGGGAAGGGGGACA	60.619	63.158	0.00	0.00	0.00	4.02
2296	4642	2.696125	GCAGGATGGGAAGGGGGA	60.696	66.667	0.00	0.00	35.86	4.81
2464	4821	3.379445	GGCGAGAGGACGAACCCA	61.379	66.667	0.00	0.00	40.05	4.51
2593	4953	2.093869	CCCAAAGTTAGCCGTAGCACTA	60.094	50.000	0.00	0.00	43.56	2.74

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.