AutoCloner

Multiple sequence alignment - TraesCS2D01G187000

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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	TraesCS2D01G187000	chr2D	100.000	2574	0	0	1	2574	131160905	131163478	0.000000e+00	4754.0
1	TraesCS2D01G187000	chr2D	86.908	718	61	15	1878	2574	129838436	129837731	0.000000e+00	774.0
2	TraesCS2D01G187000	chr2D	83.717	565	76	12	2016	2574	129942391	129941837	1.060000e-143	520.0
3	TraesCS2D01G187000	chr2D	84.694	392	47	7	928	1318	129839646	129839267	1.870000e-101	379.0
4	TraesCS2D01G187000	chr2D	77.186	469	59	23	741	1201	129945873	129945445	1.990000e-56	230.0
5	TraesCS2D01G187000	chr2D	81.651	109	17	3	761	867	129839788	129839681	1.270000e-13	87.9
6	TraesCS2D01G187000	chr2B	86.540	2214	160	54	1	2153	184660099	184662235	0.000000e+00	2311.0
7	TraesCS2D01G187000	chr2B	95.640	367	16	0	2208	2574	184662334	184662700	7.930000e-165	590.0
8	TraesCS2D01G187000	chr2B	82.948	563	78	11	2016	2574	183212552	183212004	2.300000e-135	492.0
9	TraesCS2D01G187000	chr2B	87.843	255	25	2	1200	1450	183262943	183262691	6.970000e-76	294.0
10	TraesCS2D01G187000	chr2B	93.750	112	7	0	1076	1187	794021070	794020959	4.400000e-38	169.0
11	TraesCS2D01G187000	chrUn	87.426	1018	98	21	1	1012	17477266	17476273	0.000000e+00	1144.0
12	TraesCS2D01G187000	chrUn	90.417	480	34	7	998	1465	17475990	17475511	2.810000e-174	621.0
13	TraesCS2D01G187000	chrUn	89.753	283	29	0	1	283	17477751	17477469	1.880000e-96	363.0
14	TraesCS2D01G187000	chrUn	74.020	408	90	14	130	528	364832833	364833233	4.440000e-33	152.0
15	TraesCS2D01G187000	chrUn	74.020	408	90	14	130	528	452791401	452791801	4.440000e-33	152.0
16	TraesCS2D01G187000	chrUn	83.436	163	20	6	558	720	130468797	130468952	7.420000e-31	145.0
17	TraesCS2D01G187000	chr2A	86.899	832	55	21	1771	2574	137259080	137259885	0.000000e+00	883.0
18	TraesCS2D01G187000	chr2A	88.980	490	28	5	925	1411	137256253	137256719	1.330000e-162	582.0
19	TraesCS2D01G187000	chr2A	87.224	407	36	8	485	886	137255848	137256243	1.400000e-122	449.0
20	TraesCS2D01G187000	chr2A	82.166	314	37	9	1	313	137242329	137242624	4.250000e-63	252.0
21	TraesCS2D01G187000	chr2A	88.205	195	14	5	1482	1675	137256746	137256932	9.270000e-55	224.0
22	TraesCS2D01G187000	chr2A	89.344	122	9	3	1674	1793	137257292	137257411	1.600000e-32	150.0
23	TraesCS2D01G187000	chr2A	87.619	105	11	2	310	412	137255744	137255848	1.250000e-23	121.0
24	TraesCS2D01G187000	chr4D	80.860	721	104	22	1	696	208563334	208562623	1.050000e-148	536.0
25	TraesCS2D01G187000	chr5D	83.538	571	76	10	164	720	342710060	342709494	3.800000e-143	518.0
26	TraesCS2D01G187000	chr5D	81.185	675	82	24	73	720	298936196	298936852	3.820000e-138	501.0
27	TraesCS2D01G187000	chr5D	84.000	275	42	2	165	437	6065785	6066059	1.960000e-66	263.0
28	TraesCS2D01G187000	chr3B	79.539	738	112	23	1	717	812480796	812480077	8.280000e-135	490.0
29	TraesCS2D01G187000	chr3A	79.664	536	78	22	205	720	735336324	735335800	8.760000e-95	357.0
30	TraesCS2D01G187000	chr4B	93.525	139	9	0	1076	1214	668616350	668616212	9.330000e-50	207.0

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	TraesCS2D01G187000	chr2D	131160905	131163478	2573	False	4754.000000	4754	100.000000	1	2574	1	chr2D.!!$F1	2573
1	TraesCS2D01G187000	chr2D	129837731	129839788	2057	True	413.633333	774	84.417667	761	2574	3	chr2D.!!$R1	1813
2	TraesCS2D01G187000	chr2D	129941837	129945873	4036	True	375.000000	520	80.451500	741	2574	2	chr2D.!!$R2	1833
3	TraesCS2D01G187000	chr2B	184660099	184662700	2601	False	1450.500000	2311	91.090000	1	2574	2	chr2B.!!$F1	2573
4	TraesCS2D01G187000	chr2B	183212004	183212552	548	True	492.000000	492	82.948000	2016	2574	1	chr2B.!!$R1	558
5	TraesCS2D01G187000	chrUn	17475511	17477751	2240	True	709.333333	1144	89.198667	1	1465	3	chrUn.!!$R1	1464
6	TraesCS2D01G187000	chr2A	137255744	137259885	4141	False	401.500000	883	88.045167	310	2574	6	chr2A.!!$F2	2264
7	TraesCS2D01G187000	chr4D	208562623	208563334	711	True	536.000000	536	80.860000	1	696	1	chr4D.!!$R1	695
8	TraesCS2D01G187000	chr5D	342709494	342710060	566	True	518.000000	518	83.538000	164	720	1	chr5D.!!$R1	556
9	TraesCS2D01G187000	chr5D	298936196	298936852	656	False	501.000000	501	81.185000	73	720	1	chr5D.!!$F2	647
10	TraesCS2D01G187000	chr3B	812480077	812480796	719	True	490.000000	490	79.539000	1	717	1	chr3B.!!$R1	716
11	TraesCS2D01G187000	chr3A	735335800	735336324	524	True	357.000000	357	79.664000	205	720	1	chr3A.!!$R1	515

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
905	1502	0.322008	CTGCCCAGACCCTGAGAAAC	60.322	60.0	0.0	0.0	32.44	2.78	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2262	8082	0.106519	GCCCCAAGTGCAGGATGTAT	60.107	55.0	0.0	0.0	39.31	2.29	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
52	60	1.451449	TAAAGTTTCCCCAGGCCTGA	58.549	50.000	34.91	11.99	0.00	3.86
55	63	1.068352	AGTTTCCCCAGGCCTGACTT	61.068	55.000	34.91	10.45	0.00	3.01
117	135	0.527600	GATATGTGTGCTCGCCGTCA	60.528	55.000	0.00	0.00	0.00	4.35
145	167	4.927782	TGTGTGGGCGGTGCTGTC	62.928	66.667	0.00	0.00	0.00	3.51
178	200	1.461127	GACTGCGACACATCCAAGAAC	59.539	52.381	0.00	0.00	0.00	3.01
195	218	4.431131	CAATGCCCGGGCTCCAGT	62.431	66.667	43.34	22.93	42.51	4.00
269	777	2.223525	CCGTCTATCTTTCTGGTCGACC	60.224	54.545	28.17	28.17	0.00	4.79
284	792	0.732880	CGACCGTTTCAGATGCTCGT	60.733	55.000	0.00	0.00	0.00	4.18
324	833	2.047655	TTGTCATCGGTGGGCGAC	60.048	61.111	0.00	0.00	0.00	5.19
395	907	3.263503	CTTGGCCTCGACGACGTGA	62.264	63.158	4.58	2.44	40.69	4.35
455	970	3.642778	ATCCTTGGTCGACACGCCG	62.643	63.158	18.91	0.11	0.00	6.46
503	1018	5.334414	GCAAGTTTCTTCATCGACTCACAAT	60.334	40.000	0.00	0.00	0.00	2.71
644	1182	1.440618	TGTTTGCCCTCTACCCTTCA	58.559	50.000	0.00	0.00	0.00	3.02
680	1222	5.255596	GTGTGTGCGTTGTATTCATCATAC	58.744	41.667	0.00	0.00	38.69	2.39
681	1223	5.063438	GTGTGTGCGTTGTATTCATCATACT	59.937	40.000	0.00	0.00	38.96	2.12
682	1224	6.254804	GTGTGTGCGTTGTATTCATCATACTA	59.745	38.462	0.00	0.00	38.96	1.82
709	1252	7.523293	TGTGATCAATGAAACAAGTGGTTAT	57.477	32.000	0.00	0.00	39.29	1.89
759	1307	4.963815	AAAAACTGATTGGCGCGG	57.036	50.000	8.83	0.00	0.00	6.46
797	1345	1.067635	CCGGCAGATTTCCAACCAAAG	60.068	52.381	0.00	0.00	0.00	2.77
895	1492	4.767255	CCTGACCGCTGCCCAGAC	62.767	72.222	11.36	0.00	0.00	3.51
896	1493	4.767255	CTGACCGCTGCCCAGACC	62.767	72.222	0.00	0.00	0.00	3.85
901	1498	4.463879	CGCTGCCCAGACCCTGAG	62.464	72.222	0.00	0.00	32.44	3.35
902	1499	3.005539	GCTGCCCAGACCCTGAGA	61.006	66.667	0.00	0.00	32.44	3.27
903	1500	2.596851	GCTGCCCAGACCCTGAGAA	61.597	63.158	0.00	0.00	32.44	2.87
904	1501	2.069776	CTGCCCAGACCCTGAGAAA	58.930	57.895	0.00	0.00	32.44	2.52
905	1502	0.322008	CTGCCCAGACCCTGAGAAAC	60.322	60.000	0.00	0.00	32.44	2.78
906	1503	1.059584	TGCCCAGACCCTGAGAAACA	61.060	55.000	0.00	0.00	32.44	2.83
907	1504	0.606673	GCCCAGACCCTGAGAAACAC	60.607	60.000	0.00	0.00	32.44	3.32
908	1505	0.764890	CCCAGACCCTGAGAAACACA	59.235	55.000	0.00	0.00	32.44	3.72
909	1506	1.543429	CCCAGACCCTGAGAAACACAC	60.543	57.143	0.00	0.00	32.44	3.82
910	1507	1.417890	CCAGACCCTGAGAAACACACT	59.582	52.381	0.00	0.00	32.44	3.55
911	1508	2.158755	CCAGACCCTGAGAAACACACTT	60.159	50.000	0.00	0.00	32.44	3.16
912	1509	2.874701	CAGACCCTGAGAAACACACTTG	59.125	50.000	0.00	0.00	32.44	3.16
913	1510	2.505819	AGACCCTGAGAAACACACTTGT	59.494	45.455	0.00	0.00	37.67	3.16
914	1511	5.743302	CAGACCCTGAGAAACACACTTGTG	61.743	50.000	7.84	7.84	41.83	3.33
915	1512	7.872962	CAGACCCTGAGAAACACACTTGTGA	62.873	48.000	16.24	0.00	40.01	3.58
1019	1913	0.835941	ACATCACAGAGATCAGCCCC	59.164	55.000	0.00	0.00	33.72	5.80
1189	2092	0.180406	CCTGAGGACAATTACCCGGG	59.820	60.000	22.25	22.25	0.00	5.73
1226	2129	1.446366	GCCTGAGGACGATTACCCC	59.554	63.158	0.65	0.00	0.00	4.95
1349	2252	1.153147	GATTCCCGGGTTCAGCTCC	60.153	63.158	22.86	0.00	0.00	4.70
1465	2431	3.370061	GTCCATGCTCCTTTTGTACGTAC	59.630	47.826	18.90	18.90	0.00	3.67
1466	2432	3.259876	TCCATGCTCCTTTTGTACGTACT	59.740	43.478	25.12	0.00	0.00	2.73
1467	2433	4.000988	CCATGCTCCTTTTGTACGTACTT	58.999	43.478	25.12	0.00	0.00	2.24
1468	2434	4.454504	CCATGCTCCTTTTGTACGTACTTT	59.545	41.667	25.12	0.00	0.00	2.66
1469	2435	5.048991	CCATGCTCCTTTTGTACGTACTTTT	60.049	40.000	25.12	0.00	0.00	2.27
1470	2436	6.435428	CATGCTCCTTTTGTACGTACTTTTT	58.565	36.000	25.12	0.00	0.00	1.94
1501	2471	3.500982	TCTTGTATACGTACGTTGTGGC	58.499	45.455	27.92	12.78	33.36	5.01
1529	2499	2.661594	TGTGCTCGTATGATCGTATGC	58.338	47.619	9.02	9.17	0.00	3.14
1566	2536	5.416083	GGCAAGTGTGTATGTCTACATGTA	58.584	41.667	5.25	5.25	39.93	2.29
1567	2537	5.520288	GGCAAGTGTGTATGTCTACATGTAG	59.480	44.000	24.37	24.37	39.93	2.74
1594	2564	6.575162	AAAAATCCTGTGATACAGTGTTCC	57.425	37.500	0.00	0.00	44.50	3.62
1809	7509	3.515330	ATTGAGCATGCTGCCTAAAAC	57.485	42.857	28.27	8.49	46.52	2.43
1845	7546	4.142093	ACAAGCACAACTGAAAGCTGAATT	60.142	37.500	0.00	0.00	37.60	2.17
1854	7560	3.415212	TGAAAGCTGAATTGAGTCAGGG	58.585	45.455	10.08	0.00	44.43	4.45
1862	7568	6.556495	AGCTGAATTGAGTCAGGGAGATAATA	59.444	38.462	10.08	0.00	44.43	0.98
1868	7574	6.332735	TGAGTCAGGGAGATAATATTCGTG	57.667	41.667	0.00	0.00	0.00	4.35
1885	7644	1.327460	CGTGGTTCTGTAATCATGCCG	59.673	52.381	0.00	0.00	0.00	5.69
1936	7695	5.928839	ACATGACCAAGATGAAGCGATATAC	59.071	40.000	0.00	0.00	0.00	1.47
1937	7696	5.791336	TGACCAAGATGAAGCGATATACT	57.209	39.130	0.00	0.00	0.00	2.12
1938	7697	6.894339	TGACCAAGATGAAGCGATATACTA	57.106	37.500	0.00	0.00	0.00	1.82
1983	7743	0.375106	GCTCAGTATTCGTGCCTTGC	59.625	55.000	0.00	0.00	0.00	4.01
1991	7751	3.357079	CGTGCCTTGCTGGTGACC	61.357	66.667	0.00	0.00	38.35	4.02
1999	7759	0.394488	TTGCTGGTGACCGGTGAAAA	60.394	50.000	14.63	0.00	31.34	2.29
2001	7761	0.818040	GCTGGTGACCGGTGAAAACT	60.818	55.000	14.63	0.00	31.34	2.66
2003	7763	0.542333	TGGTGACCGGTGAAAACTCA	59.458	50.000	14.63	0.00	0.00	3.41
2008	7774	3.872771	GTGACCGGTGAAAACTCACTTTA	59.127	43.478	14.63	0.00	40.28	1.85
2014	7780	4.666655	CGGTGAAAACTCACTTTAGATGCG	60.667	45.833	5.33	0.00	40.28	4.73
2120	7886	7.962441	AGCTGTTTCCACACCTAAAATAAATT	58.038	30.769	0.00	0.00	0.00	1.82
2122	7888	9.869757	GCTGTTTCCACACCTAAAATAAATTAT	57.130	29.630	0.00	0.00	0.00	1.28
2142	7909	0.103937	CAAACAAGGGAGCCGCAAAA	59.896	50.000	0.00	0.00	0.00	2.44
2143	7910	1.047801	AAACAAGGGAGCCGCAAAAT	58.952	45.000	0.00	0.00	0.00	1.82
2144	7911	0.603065	AACAAGGGAGCCGCAAAATC	59.397	50.000	0.00	0.00	0.00	2.17
2145	7912	0.539438	ACAAGGGAGCCGCAAAATCA	60.539	50.000	0.00	0.00	0.00	2.57
2185	7977	7.120579	TCGTAATTTCCATTTGTCAAGCATAGT	59.879	33.333	0.00	0.00	0.00	2.12
2193	7993	5.818136	TTTGTCAAGCATAGTAATGAGCC	57.182	39.130	0.00	0.00	34.84	4.70
2262	8082	1.486310	CATCCCTCCGATTTCTCCACA	59.514	52.381	0.00	0.00	0.00	4.17
2505	8325	3.694364	CGCTGAGCATTCCCTGTAT	57.306	52.632	4.88	0.00	0.00	2.29

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
52	60	0.322975	AGACGCTGCCAAGATGAAGT	59.677	50.000	0.00	0.00	0.00	3.01
55	63	1.806542	GAAAAGACGCTGCCAAGATGA	59.193	47.619	0.00	0.00	0.00	2.92
117	135	0.460311	GCCCACACACTATACTCGCT	59.540	55.000	0.00	0.00	0.00	4.93
145	167	2.954753	GCAGTCGTCACCGCCAAAG	61.955	63.158	0.00	0.00	0.00	2.77
161	183	1.960417	TTGTTCTTGGATGTGTCGCA	58.040	45.000	0.00	0.00	0.00	5.10
167	189	1.176527	CGGGCATTGTTCTTGGATGT	58.823	50.000	0.00	0.00	0.00	3.06
178	200	4.431131	ACTGGAGCCCGGGCATTG	62.431	66.667	45.13	31.56	44.88	2.82
195	218	2.649034	GACGCCGTCAAGACAGGA	59.351	61.111	13.23	0.00	32.09	3.86
198	221	1.374125	CATGGACGCCGTCAAGACA	60.374	57.895	20.08	7.98	33.68	3.41
238	746	1.528776	GATAGACGGGAGGCCGAGT	60.529	63.158	0.00	0.00	40.49	4.18
244	752	2.362717	GACCAGAAAGATAGACGGGAGG	59.637	54.545	0.00	0.00	0.00	4.30
269	777	1.413767	CCGGACGAGCATCTGAAACG	61.414	60.000	0.00	0.00	0.00	3.60
284	792	3.395702	ATAACGCCAGCCACCGGA	61.396	61.111	9.46	0.00	0.00	5.14
395	907	2.125512	GAGCCATCGTCAGCCGTT	60.126	61.111	0.00	0.00	37.94	4.44
609	1146	4.518970	GGCAAACAAGTGTCCTCAGAAATA	59.481	41.667	0.00	0.00	0.00	1.40
644	1182	2.126071	CACACGCGGAATCGACCT	60.126	61.111	12.47	0.00	39.00	3.85
680	1222	8.084073	ACCACTTGTTTCATTGATCACAAATAG	58.916	33.333	0.00	0.84	39.54	1.73
681	1223	7.950512	ACCACTTGTTTCATTGATCACAAATA	58.049	30.769	0.00	0.00	39.54	1.40
682	1224	6.819284	ACCACTTGTTTCATTGATCACAAAT	58.181	32.000	0.00	1.96	39.54	2.32
759	1307	1.676014	CGGGAGATCAGGTTTGGTGAC	60.676	57.143	0.00	0.00	0.00	3.67
797	1345	3.490759	CGCATGTGTGTCTCGGGC	61.491	66.667	0.00	0.00	0.00	6.13
887	1484	1.059584	TGTTTCTCAGGGTCTGGGCA	61.060	55.000	0.00	0.00	30.92	5.36
890	1487	1.417890	AGTGTGTTTCTCAGGGTCTGG	59.582	52.381	0.00	0.00	31.51	3.86
891	1488	2.874701	CAAGTGTGTTTCTCAGGGTCTG	59.125	50.000	0.00	0.00	0.00	3.51
892	1489	2.505819	ACAAGTGTGTTTCTCAGGGTCT	59.494	45.455	0.00	0.00	32.58	3.85
894	1491	2.238646	TCACAAGTGTGTTTCTCAGGGT	59.761	45.455	11.06	0.00	45.76	4.34
895	1492	2.917933	TCACAAGTGTGTTTCTCAGGG	58.082	47.619	11.06	0.00	45.76	4.45
896	1493	3.689161	TGTTCACAAGTGTGTTTCTCAGG	59.311	43.478	11.06	0.00	45.76	3.86
897	1494	4.631377	TCTGTTCACAAGTGTGTTTCTCAG	59.369	41.667	11.06	12.06	45.76	3.35
898	1495	4.574892	TCTGTTCACAAGTGTGTTTCTCA	58.425	39.130	11.06	4.64	45.76	3.27
899	1496	5.545658	TTCTGTTCACAAGTGTGTTTCTC	57.454	39.130	11.06	0.83	45.76	2.87
900	1497	5.957842	TTTCTGTTCACAAGTGTGTTTCT	57.042	34.783	11.06	0.00	45.76	2.52
901	1498	5.572896	CCTTTTCTGTTCACAAGTGTGTTTC	59.427	40.000	11.06	4.40	45.76	2.78
902	1499	5.469479	CCTTTTCTGTTCACAAGTGTGTTT	58.531	37.500	11.06	0.00	45.76	2.83
903	1500	4.618227	GCCTTTTCTGTTCACAAGTGTGTT	60.618	41.667	11.06	0.00	45.76	3.32
904	1501	3.119495	GCCTTTTCTGTTCACAAGTGTGT	60.119	43.478	11.06	0.00	45.76	3.72
905	1502	3.438360	GCCTTTTCTGTTCACAAGTGTG	58.562	45.455	5.02	5.02	46.91	3.82
906	1503	2.427095	GGCCTTTTCTGTTCACAAGTGT	59.573	45.455	0.00	0.00	0.00	3.55
907	1504	2.426738	TGGCCTTTTCTGTTCACAAGTG	59.573	45.455	3.32	0.00	0.00	3.16
908	1505	2.427095	GTGGCCTTTTCTGTTCACAAGT	59.573	45.455	3.32	0.00	0.00	3.16
909	1506	2.541588	CGTGGCCTTTTCTGTTCACAAG	60.542	50.000	3.32	0.00	0.00	3.16
910	1507	1.403679	CGTGGCCTTTTCTGTTCACAA	59.596	47.619	3.32	0.00	0.00	3.33
911	1508	1.021202	CGTGGCCTTTTCTGTTCACA	58.979	50.000	3.32	0.00	0.00	3.58
912	1509	0.317854	GCGTGGCCTTTTCTGTTCAC	60.318	55.000	3.32	0.00	0.00	3.18
913	1510	0.465460	AGCGTGGCCTTTTCTGTTCA	60.465	50.000	3.32	0.00	0.00	3.18
914	1511	0.238553	GAGCGTGGCCTTTTCTGTTC	59.761	55.000	3.32	0.00	0.00	3.18
915	1512	0.465460	TGAGCGTGGCCTTTTCTGTT	60.465	50.000	3.32	0.00	0.00	3.16
916	1513	1.148273	TGAGCGTGGCCTTTTCTGT	59.852	52.632	3.32	0.00	0.00	3.41
917	1514	1.576421	GTGAGCGTGGCCTTTTCTG	59.424	57.895	3.32	0.00	0.00	3.02
918	1515	1.961277	CGTGAGCGTGGCCTTTTCT	60.961	57.895	3.32	0.00	0.00	2.52
919	1516	1.503818	TTCGTGAGCGTGGCCTTTTC	61.504	55.000	3.32	0.00	39.49	2.29
920	1517	1.525077	TTCGTGAGCGTGGCCTTTT	60.525	52.632	3.32	0.00	39.49	2.27
921	1518	2.110213	TTCGTGAGCGTGGCCTTT	59.890	55.556	3.32	0.00	39.49	3.11
922	1519	2.665185	GTTCGTGAGCGTGGCCTT	60.665	61.111	3.32	0.00	39.49	4.35
923	1520	4.681978	GGTTCGTGAGCGTGGCCT	62.682	66.667	3.32	0.00	39.49	5.19
951	1548	3.780902	TCGTACTTATAGGACGTGACGA	58.219	45.455	13.70	0.00	37.81	4.20
1019	1913	0.029300	CTTTCTTGGCGTGTGTGTGG	59.971	55.000	0.00	0.00	0.00	4.17
1095	1992	1.066908	CAGCACGGCCAAGAAAAGAAA	59.933	47.619	2.24	0.00	0.00	2.52
1166	2069	0.107654	GGTAATTGTCCTCAGGCGCT	60.108	55.000	7.64	0.00	0.00	5.92
1374	2326	1.134280	CCTCGTCCTTGATCATGGCTT	60.134	52.381	20.32	0.00	0.00	4.35
1470	2436	7.315142	ACGTACGTATACAAGATCCTCAAAAA	58.685	34.615	21.41	0.00	0.00	1.94
1471	2437	6.855836	ACGTACGTATACAAGATCCTCAAAA	58.144	36.000	21.41	0.00	0.00	2.44
1472	2438	6.441093	ACGTACGTATACAAGATCCTCAAA	57.559	37.500	21.41	0.00	0.00	2.69
1473	2439	6.127925	ACAACGTACGTATACAAGATCCTCAA	60.128	38.462	23.12	0.00	0.00	3.02
1474	2440	5.355071	ACAACGTACGTATACAAGATCCTCA	59.645	40.000	23.12	0.00	0.00	3.86
1475	2441	5.680229	CACAACGTACGTATACAAGATCCTC	59.320	44.000	23.12	0.00	0.00	3.71
1476	2442	5.449588	CCACAACGTACGTATACAAGATCCT	60.450	44.000	23.12	0.00	0.00	3.24
1477	2443	4.736793	CCACAACGTACGTATACAAGATCC	59.263	45.833	23.12	0.00	0.00	3.36
1478	2444	4.205792	GCCACAACGTACGTATACAAGATC	59.794	45.833	23.12	1.59	0.00	2.75
1479	2445	4.107622	GCCACAACGTACGTATACAAGAT	58.892	43.478	23.12	0.00	0.00	2.40
1529	2499	3.234630	TTGCCGTCCAGTCGAAGGG	62.235	63.158	5.42	1.45	40.27	3.95
1752	5704	6.016192	TGGTTCATGCGGTTACATTTCTTAAA	60.016	34.615	0.00	0.00	0.00	1.52
1809	7509	5.415701	AGTTGTGCTTGTAAATATGTGAGGG	59.584	40.000	0.00	0.00	0.00	4.30
1845	7546	5.243954	CCACGAATATTATCTCCCTGACTCA	59.756	44.000	0.00	0.00	0.00	3.41
1854	7560	9.692749	TGATTACAGAACCACGAATATTATCTC	57.307	33.333	0.00	0.00	0.00	2.75
1862	7568	3.627577	GGCATGATTACAGAACCACGAAT	59.372	43.478	0.00	0.00	0.00	3.34
1868	7574	3.179443	TCTCGGCATGATTACAGAACC	57.821	47.619	0.00	0.00	0.00	3.62
1974	7734	3.357079	GGTCACCAGCAAGGCACG	61.357	66.667	0.00	0.00	43.14	5.34
1983	7743	1.226746	GAGTTTTCACCGGTCACCAG	58.773	55.000	2.59	0.00	0.00	4.00
1999	7759	4.530710	TGGTTACGCATCTAAAGTGAGT	57.469	40.909	0.00	0.00	34.08	3.41
2001	7761	3.682858	GCTTGGTTACGCATCTAAAGTGA	59.317	43.478	0.00	0.00	0.00	3.41
2003	7763	3.670625	TGCTTGGTTACGCATCTAAAGT	58.329	40.909	0.00	0.00	0.00	2.66
2008	7774	2.095853	CGATTTGCTTGGTTACGCATCT	59.904	45.455	0.00	0.00	35.85	2.90
2120	7886	0.326595	TGCGGCTCCCTTGTTTGATA	59.673	50.000	0.00	0.00	0.00	2.15
2122	7888	0.753479	TTTGCGGCTCCCTTGTTTGA	60.753	50.000	0.00	0.00	0.00	2.69
2142	7909	7.496529	AATTACGATCCGATTGTCAAATGAT	57.503	32.000	4.41	0.00	0.00	2.45
2143	7910	6.918892	AATTACGATCCGATTGTCAAATGA	57.081	33.333	4.41	0.00	0.00	2.57
2144	7911	6.632834	GGAAATTACGATCCGATTGTCAAATG	59.367	38.462	4.41	0.00	0.00	2.32
2145	7912	6.317642	TGGAAATTACGATCCGATTGTCAAAT	59.682	34.615	4.41	0.00	38.63	2.32
2185	7977	3.378512	ACTCCTGACAGATGGCTCATTA	58.621	45.455	3.32	0.00	0.00	1.90
2193	7993	6.462552	TCAGATTAGAACTCCTGACAGATG	57.537	41.667	3.32	0.00	31.45	2.90
2262	8082	0.106519	GCCCCAAGTGCAGGATGTAT	60.107	55.000	0.00	0.00	39.31	2.29
2490	8310	2.195727	TGTCCATACAGGGAATGCTCA	58.804	47.619	0.00	0.00	39.05	4.26
2505	8325	1.956297	CCAAAACGGTGTACTGTCCA	58.044	50.000	0.00	0.00	33.61	4.02

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.