AutoCloner

Multiple sequence alignment - TraesCS3D01G009500

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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	TraesCS3D01G009500	chr3D	100.000	4227	0	0	1	4227	3225452	3221226	0.000000e+00	7806
1	TraesCS3D01G009500	chr3D	87.136	653	69	13	1957	2601	3197933	3197288	0.000000e+00	726
2	TraesCS3D01G009500	chr3D	83.547	468	66	9	2766	3231	3197168	3196710	1.090000e-115	427
3	TraesCS3D01G009500	chr3D	78.662	628	78	29	646	1258	3199463	3198877	2.400000e-97	366
4	TraesCS3D01G009500	chr3D	83.275	287	48	0	2333	2619	3151925	3151639	9.010000e-67	265
5	TraesCS3D01G009500	chr3D	82.906	234	36	4	3945	4178	3195990	3195761	1.540000e-49	207
6	TraesCS3D01G009500	chr3D	86.486	111	15	0	2184	2294	3152032	3151922	5.740000e-24	122
7	TraesCS3D01G009500	chr3D	86.667	105	13	1	1842	1946	29943957	29944060	9.600000e-22	115
8	TraesCS3D01G009500	chr3B	90.730	2287	153	31	1964	4227	2298171	2300421	0.000000e+00	2994
9	TraesCS3D01G009500	chr3B	90.828	1690	124	17	1957	3627	2170775	2169098	0.000000e+00	2233
10	TraesCS3D01G009500	chr3B	84.880	1455	108	45	1	1432	2295772	2297137	0.000000e+00	1365
11	TraesCS3D01G009500	chr3B	78.066	2316	334	105	1957	4178	2309773	2312008	0.000000e+00	1303
12	TraesCS3D01G009500	chr3B	93.011	787	36	8	650	1432	2172557	2171786	0.000000e+00	1131
13	TraesCS3D01G009500	chr3B	81.347	1292	190	33	1957	3216	2161942	2160670	0.000000e+00	1003
14	TraesCS3D01G009500	chr3B	90.744	605	41	8	3628	4227	2169062	2168468	0.000000e+00	793
15	TraesCS3D01G009500	chr3B	87.329	513	49	8	1444	1953	2171682	2171183	1.320000e-159	573
16	TraesCS3D01G009500	chr3B	90.850	306	23	4	1541	1844	2297399	2297701	5.090000e-109	405
17	TraesCS3D01G009500	chr3B	87.356	348	34	6	278	620	2173080	2172738	1.420000e-104	390
18	TraesCS3D01G009500	chr3B	85.646	209	21	5	996	1204	2163429	2163230	1.190000e-50	211
19	TraesCS3D01G009500	chr3B	94.286	105	6	0	1440	1544	2297240	2297344	1.220000e-35	161
20	TraesCS3D01G009500	chr3A	94.611	1169	37	10	2660	3811	398622	397463	0.000000e+00	1786
21	TraesCS3D01G009500	chr3A	89.121	1434	105	22	3	1430	401678	400290	0.000000e+00	1736
22	TraesCS3D01G009500	chr3A	83.169	1420	183	34	1962	3339	372627	371222	0.000000e+00	1247
23	TraesCS3D01G009500	chr3A	97.175	708	17	3	1957	2663	399609	398904	0.000000e+00	1194
24	TraesCS3D01G009500	chr3A	93.600	500	24	4	1463	1955	400138	399640	0.000000e+00	739
25	TraesCS3D01G009500	chr3A	97.613	419	10	0	3809	4227	397219	396801	0.000000e+00	719
26	TraesCS3D01G009500	chr3A	82.135	431	77	0	2184	2614	206413	205983	1.860000e-98	370
27	TraesCS3D01G009500	chr3A	85.075	268	27	9	996	1258	373863	373604	1.170000e-65	261
28	TraesCS3D01G009500	chr3A	79.124	388	71	9	3686	4068	269882	269500	4.190000e-65	259
29	TraesCS3D01G009500	chr3A	79.121	182	32	4	999	1180	163079	162904	2.060000e-23	121
30	TraesCS3D01G009500	chr3A	85.714	105	15	0	1842	1946	40862539	40862643	1.240000e-20	111
31	TraesCS3D01G009500	chr4B	80.444	225	28	12	3118	3339	653428036	653427825	1.570000e-34	158
32	TraesCS3D01G009500	chr4B	87.023	131	12	3	3144	3274	653012796	653012921	4.410000e-30	143
33	TraesCS3D01G009500	chrUn	81.871	171	23	5	3144	3312	126950718	126950554	2.050000e-28	137
34	TraesCS3D01G009500	chr7B	90.625	96	9	0	1851	1946	716493439	716493534	1.230000e-25	128
35	TraesCS3D01G009500	chr7B	87.255	102	13	0	1845	1946	306624635	306624736	2.670000e-22	117
36	TraesCS3D01G009500	chr5D	87.963	108	13	0	1839	1946	282007122	282007015	1.230000e-25	128
37	TraesCS3D01G009500	chr2B	86.538	104	14	0	1843	1946	353566030	353566133	9.600000e-22	115
38	TraesCS3D01G009500	chr1A	84.956	113	17	0	1834	1946	432985495	432985607	9.600000e-22	115
39	TraesCS3D01G009500	chr2D	85.047	107	16	0	1840	1946	388818754	388818860	4.470000e-20	110

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	TraesCS3D01G009500	chr3D	3221226	3225452	4226	True	7806.00	7806	100.00000	1	4227	1	chr3D.!!$R1	4226
1	TraesCS3D01G009500	chr3D	3195761	3199463	3702	True	431.50	726	83.06275	646	4178	4	chr3D.!!$R3	3532
2	TraesCS3D01G009500	chr3B	2309773	2312008	2235	False	1303.00	1303	78.06600	1957	4178	1	chr3B.!!$F1	2221
3	TraesCS3D01G009500	chr3B	2295772	2300421	4649	False	1231.25	2994	90.18650	1	4227	4	chr3B.!!$F2	4226
4	TraesCS3D01G009500	chr3B	2168468	2173080	4612	True	1024.00	2233	89.85360	278	4227	5	chr3B.!!$R2	3949
5	TraesCS3D01G009500	chr3B	2160670	2163429	2759	True	607.00	1003	83.49650	996	3216	2	chr3B.!!$R1	2220
6	TraesCS3D01G009500	chr3A	396801	401678	4877	True	1234.80	1786	94.42400	3	4227	5	chr3A.!!$R5	4224
7	TraesCS3D01G009500	chr3A	371222	373863	2641	True	754.00	1247	84.12200	996	3339	2	chr3A.!!$R4	2343

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	Hairpin	End Stability	Orientation
332	341	0.251341	ACATTTCAAGCTTCCGGCCT	60.251	50.0	43.05	5.19	F
1524	1994	0.104855	TCATGCTATGGACCTCACGC	59.895	55.0	0.00	5.34	F
1863	2464	0.682852	CTCGCCCCGTCCCATATTAA	59.317	55.0	0.00	1.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1774	2375	0.249120	TACGTCCAATGGAGGCACAG	59.751	55.000	20.59	3.09	40.79	3.66	R
2967	4576	1.342819	CGGATGGAGATGGAGGAAGAC	59.657	57.143	0.00	0.00	0.00	3.01	R
3606	5290	0.400213	TCTTTTGCTCCCGGATGTGT	59.600	50.000	0.73	0.00	0.00	3.72	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
40	41	4.176271	AGAGCTGTTTGTTTTTGTTGCTC	58.824	39.130	0.00	0.00	43.94	4.26
70	74	3.690475	AAAAACGTTCCGAGGACCTAT	57.310	42.857	0.00	0.00	0.00	2.57
71	75	4.806640	AAAAACGTTCCGAGGACCTATA	57.193	40.909	0.00	0.00	0.00	1.31
72	76	5.349061	AAAAACGTTCCGAGGACCTATAT	57.651	39.130	0.00	0.00	0.00	0.86
137	141	3.608316	GCTCTGATAAGCCCTATCCTG	57.392	52.381	1.93	0.00	36.33	3.86
255	260	6.645790	TTTAAAAAGTATTGTTGCGGGGTA	57.354	33.333	0.00	0.00	0.00	3.69
257	262	7.934855	TTAAAAAGTATTGTTGCGGGGTATA	57.065	32.000	0.00	0.00	0.00	1.47
259	264	9.624373	TTAAAAAGTATTGTTGCGGGGTATATA	57.376	29.630	0.00	0.00	0.00	0.86
275	280	8.988934	CGGGGTATATATGTGCATAAATACATC	58.011	37.037	12.65	6.93	38.41	3.06
332	341	0.251341	ACATTTCAAGCTTCCGGCCT	60.251	50.000	0.00	0.00	43.05	5.19
360	369	2.267045	GCTTTGGGTTCGAGCCATT	58.733	52.632	20.67	0.00	46.30	3.16
387	396	1.372307	GCCAAGGCCAATTTGCTGT	59.628	52.632	5.01	0.00	34.56	4.40
394	403	0.587768	GCCAATTTGCTGTTGTTGCC	59.412	50.000	0.00	0.00	0.00	4.52
399	408	3.665745	ATTTGCTGTTGTTGCCCTTAG	57.334	42.857	0.00	0.00	0.00	2.18
407	416	2.890945	GTTGTTGCCCTTAGAACCACAT	59.109	45.455	0.00	0.00	0.00	3.21
440	449	0.472925	TGACAAGTGGGACCCAGCTA	60.473	55.000	15.52	0.00	32.34	3.32
442	451	1.299976	CAAGTGGGACCCAGCTACC	59.700	63.158	15.52	0.85	32.34	3.18
499	509	0.802494	CAGATTTGGTGCGGTGGTAC	59.198	55.000	0.00	0.00	0.00	3.34
500	510	0.672401	AGATTTGGTGCGGTGGTACG	60.672	55.000	0.00	0.00	0.00	3.67
501	511	0.952010	GATTTGGTGCGGTGGTACGT	60.952	55.000	0.00	0.00	35.98	3.57
546	556	4.403432	TCAAAGTACCCGTCGATATTTCCT	59.597	41.667	0.00	0.00	0.00	3.36
598	611	2.343758	GTGCTCCCTGTCTCGCAA	59.656	61.111	0.00	0.00	33.74	4.85
620	633	2.493035	CATGTGTACTCACCAGTGCAA	58.507	47.619	0.00	0.00	45.67	4.08
621	634	2.238942	TGTGTACTCACCAGTGCAAG	57.761	50.000	0.00	0.00	45.67	4.01
622	635	1.484653	TGTGTACTCACCAGTGCAAGT	59.515	47.619	0.00	0.00	45.67	3.16
623	636	1.867233	GTGTACTCACCAGTGCAAGTG	59.133	52.381	6.47	6.47	45.67	3.16
624	637	1.484653	TGTACTCACCAGTGCAAGTGT	59.515	47.619	11.32	0.00	41.78	3.55
625	638	1.867233	GTACTCACCAGTGCAAGTGTG	59.133	52.381	11.32	11.29	35.40	3.82
734	913	2.036346	GGCATATTTTCCACATCCTGGC	59.964	50.000	0.00	0.00	40.39	4.85
735	914	2.036346	GCATATTTTCCACATCCTGGCC	59.964	50.000	0.00	0.00	40.39	5.36
736	915	3.569491	CATATTTTCCACATCCTGGCCT	58.431	45.455	3.32	0.00	40.39	5.19
737	916	1.856629	ATTTTCCACATCCTGGCCTG	58.143	50.000	3.32	2.54	40.39	4.85
738	917	0.899717	TTTTCCACATCCTGGCCTGC	60.900	55.000	3.32	0.00	40.39	4.85
742	921	2.943265	ACATCCTGGCCTGCCCTT	60.943	61.111	3.32	0.00	34.56	3.95
783	967	1.377725	CACAGCACCCATCTGTCCC	60.378	63.158	0.00	0.00	42.38	4.46
784	968	2.124983	CAGCACCCATCTGTCCCG	60.125	66.667	0.00	0.00	0.00	5.14
785	969	2.607750	AGCACCCATCTGTCCCGT	60.608	61.111	0.00	0.00	0.00	5.28
786	970	2.125106	GCACCCATCTGTCCCGTC	60.125	66.667	0.00	0.00	0.00	4.79
787	971	2.584608	CACCCATCTGTCCCGTCC	59.415	66.667	0.00	0.00	0.00	4.79
897	1082	7.397892	TCCATGAAAAACAAAACACTCACTA	57.602	32.000	0.00	0.00	0.00	2.74
939	1124	6.183360	GCCTTCTTGTATTCATAAACCCTCAC	60.183	42.308	0.00	0.00	0.00	3.51
940	1125	7.112779	CCTTCTTGTATTCATAAACCCTCACT	58.887	38.462	0.00	0.00	0.00	3.41
941	1126	7.281100	CCTTCTTGTATTCATAAACCCTCACTC	59.719	40.741	0.00	0.00	0.00	3.51
1086	1328	1.848652	CGAGGGTAGTGGAGAGGAAA	58.151	55.000	0.00	0.00	0.00	3.13
1159	1401	2.929043	ACCTCCCTCATCCCAAAAGAAT	59.071	45.455	0.00	0.00	0.00	2.40
1423	1731	9.941325	AGTCCTTCTCATCACATGAAATATATC	57.059	33.333	0.00	0.00	39.11	1.63
1424	1732	8.867935	GTCCTTCTCATCACATGAAATATATCG	58.132	37.037	0.00	0.00	39.11	2.92
1425	1733	8.588472	TCCTTCTCATCACATGAAATATATCGT	58.412	33.333	0.00	0.00	39.11	3.73
1426	1734	9.860898	CCTTCTCATCACATGAAATATATCGTA	57.139	33.333	0.00	0.00	39.11	3.43
1524	1994	0.104855	TCATGCTATGGACCTCACGC	59.895	55.000	0.00	0.00	0.00	5.34
1550	2143	9.538508	CCCAGGTGTACAAAATAGTAGTAATAC	57.461	37.037	0.00	0.00	0.00	1.89
1615	2216	4.020218	GGCATACTCTGAATATACAGCCCA	60.020	45.833	0.00	0.00	37.75	5.36
1863	2464	0.682852	CTCGCCCCGTCCCATATTAA	59.317	55.000	0.00	0.00	0.00	1.40
1879	2480	5.971202	CCATATTAATTGTCGGTGAAACAGC	59.029	40.000	0.00	0.00	39.98	4.40
1901	2502	5.406780	AGCTGTATCTAGCATTGAAATACGC	59.593	40.000	0.00	0.00	46.07	4.42
1955	3074	2.643304	GGGACAGAGGGAAAGTAAACCT	59.357	50.000	0.00	0.00	37.31	3.50
1959	3235	5.938710	GGACAGAGGGAAAGTAAACCTAAAG	59.061	44.000	0.00	0.00	34.02	1.85
2007	3283	9.831737	CTGTTAGTTTTACAAGAGATGATTTGG	57.168	33.333	0.00	0.00	0.00	3.28
2097	3378	9.160496	CAGGAAATATAGCTCTTCCATTATCAC	57.840	37.037	15.37	0.00	41.00	3.06
2181	3472	9.058174	TCTCGTATTTTTCTAACAATGTTGGAA	57.942	29.630	18.76	18.76	0.00	3.53
2642	3933	7.036996	TCACATCTGCACAAGAAAATACAAA	57.963	32.000	0.00	0.00	38.79	2.83
2672	4248	5.804692	TGTAAAATATAAGGCACACACGG	57.195	39.130	0.00	0.00	0.00	4.94
2751	4329	6.150641	GGAGGGGTTTACATTTGTTTCTAGTC	59.849	42.308	0.00	0.00	0.00	2.59
3002	4611	4.556233	TCCATCCGCTAGAATTTATGTCG	58.444	43.478	0.00	0.00	0.00	4.35
3044	4653	5.831997	ACTGGAAAATGTCTTTACTTGCAC	58.168	37.500	0.00	0.00	0.00	4.57
3049	4658	7.041030	TGGAAAATGTCTTTACTTGCACGATTA	60.041	33.333	0.00	0.00	0.00	1.75
3219	4829	2.929531	TCTGAACGACTGAGAGCATC	57.070	50.000	0.00	0.00	0.00	3.91
3332	4948	2.567615	AGTTGCTAGAAGAACGGGATGT	59.432	45.455	0.00	0.00	0.00	3.06
3404	5068	1.421268	AGGGATGTTGACTGTTCTGCA	59.579	47.619	0.00	0.00	0.00	4.41
3425	5107	4.082463	GCAATTTATCACCGACTTTTGGGA	60.082	41.667	0.00	0.00	0.00	4.37
3443	5125	5.178096	TGGGATGTCATGTCTTGTTGTAT	57.822	39.130	0.00	0.00	0.00	2.29
3639	5359	5.102953	AGCAAAAGAGTATACCATGCAGA	57.897	39.130	14.39	0.00	34.89	4.26
3640	5360	4.878397	AGCAAAAGAGTATACCATGCAGAC	59.122	41.667	14.39	0.00	34.89	3.51

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
56	57	5.127356	CCCTTCATATATAGGTCCTCGGAAC	59.873	48.000	0.00	0.00	0.00	3.62
59	60	3.961408	CCCCTTCATATATAGGTCCTCGG	59.039	52.174	0.00	0.00	0.00	4.63
63	67	3.737263	AGGCCCCTTCATATATAGGTCC	58.263	50.000	0.00	2.70	0.00	4.46
69	73	3.771216	CAGCAAAGGCCCCTTCATATAT	58.229	45.455	0.00	0.00	42.56	0.86
70	74	2.752829	GCAGCAAAGGCCCCTTCATATA	60.753	50.000	0.00	0.00	42.56	0.86
71	75	2.031097	GCAGCAAAGGCCCCTTCATAT	61.031	52.381	0.00	0.00	42.56	1.78
72	76	0.684153	GCAGCAAAGGCCCCTTCATA	60.684	55.000	0.00	0.00	42.56	2.15
92	96	2.906354	CCCGACAAATTCCTAGGTCTG	58.094	52.381	9.08	4.78	0.00	3.51
131	135	1.906824	GGCCCGGATCGTCAGGATA	60.907	63.158	0.73	0.00	33.29	2.59
137	141	4.851179	GGTTGGGCCCGGATCGTC	62.851	72.222	19.37	1.68	0.00	4.20
245	250	2.773487	TGCACATATATACCCCGCAAC	58.227	47.619	0.00	0.00	0.00	4.17
249	254	8.902540	ATGTATTTATGCACATATATACCCCG	57.097	34.615	19.64	0.00	37.38	5.73
320	326	0.466124	GATAGACAGGCCGGAAGCTT	59.534	55.000	10.86	0.00	43.05	3.74
332	341	0.988832	AACCCAAAGCCCGATAGACA	59.011	50.000	0.00	0.00	39.76	3.41
376	385	1.202675	AGGGCAACAACAGCAAATTGG	60.203	47.619	0.00	0.00	39.74	3.16
378	387	3.640967	TCTAAGGGCAACAACAGCAAATT	59.359	39.130	0.00	0.00	39.74	1.82
387	396	2.738587	TGTGGTTCTAAGGGCAACAA	57.261	45.000	0.00	0.00	39.74	2.83
413	422	3.199946	GGGTCCCACTTGTCATAGATTCA	59.800	47.826	1.78	0.00	0.00	2.57
428	437	1.063070	TTTGTGGTAGCTGGGTCCCA	61.063	55.000	11.11	11.11	0.00	4.37
440	449	1.119684	GGCAAGGTTTCCTTTGTGGT	58.880	50.000	0.00	0.00	41.69	4.16
442	451	1.118838	TGGGCAAGGTTTCCTTTGTG	58.881	50.000	0.00	0.00	41.69	3.33
499	509	9.239002	TGATTCACAACCAAAACTTAATTTACG	57.761	29.630	0.00	0.00	0.00	3.18
561	573	4.519213	CACCAAGAAATATCCACGGGTAA	58.481	43.478	0.00	0.00	0.00	2.85
564	576	1.676006	GCACCAAGAAATATCCACGGG	59.324	52.381	0.00	0.00	0.00	5.28
620	633	5.709631	TGTGAAATATATGTGGTTGCACACT	59.290	36.000	8.70	0.00	41.84	3.55
621	634	5.948588	TGTGAAATATATGTGGTTGCACAC	58.051	37.500	0.61	0.61	41.68	3.82
622	635	6.581171	TTGTGAAATATATGTGGTTGCACA	57.419	33.333	0.00	0.00	39.62	4.57
623	636	9.184062	CATATTGTGAAATATATGTGGTTGCAC	57.816	33.333	0.00	0.00	32.55	4.57
624	637	8.911965	ACATATTGTGAAATATATGTGGTTGCA	58.088	29.630	0.00	0.00	43.03	4.08
734	913	1.451936	CGGATAAGGGAAGGGCAGG	59.548	63.158	0.00	0.00	0.00	4.85
735	914	1.227973	GCGGATAAGGGAAGGGCAG	60.228	63.158	0.00	0.00	0.00	4.85
736	915	2.915869	GCGGATAAGGGAAGGGCA	59.084	61.111	0.00	0.00	0.00	5.36
737	916	2.280865	CGCGGATAAGGGAAGGGC	60.281	66.667	0.00	0.00	0.00	5.19
738	917	2.426023	CCGCGGATAAGGGAAGGG	59.574	66.667	24.07	0.00	0.00	3.95
783	967	1.436983	GCTTAAATGGGAGGCGGACG	61.437	60.000	0.00	0.00	0.00	4.79
784	968	1.101635	GGCTTAAATGGGAGGCGGAC	61.102	60.000	0.00	0.00	0.00	4.79
785	969	1.226262	GGCTTAAATGGGAGGCGGA	59.774	57.895	0.00	0.00	0.00	5.54
786	970	1.077068	TGGCTTAAATGGGAGGCGG	60.077	57.895	0.00	0.00	40.97	6.13
787	971	0.679640	TGTGGCTTAAATGGGAGGCG	60.680	55.000	0.00	0.00	40.97	5.52
939	1124	0.264359	AGATGGGTGAGGAGGAGGAG	59.736	60.000	0.00	0.00	0.00	3.69
940	1125	0.263172	GAGATGGGTGAGGAGGAGGA	59.737	60.000	0.00	0.00	0.00	3.71
941	1126	0.762461	GGAGATGGGTGAGGAGGAGG	60.762	65.000	0.00	0.00	0.00	4.30
1023	1262	2.124996	CTCCTCTTCCCACCCCCA	59.875	66.667	0.00	0.00	0.00	4.96
1024	1263	3.412408	GCTCCTCTTCCCACCCCC	61.412	72.222	0.00	0.00	0.00	5.40
1029	1268	1.984570	CGTCCTGCTCCTCTTCCCA	60.985	63.158	0.00	0.00	0.00	4.37
1086	1328	0.923729	TCCTCTCCCTCTCTGCCTCT	60.924	60.000	0.00	0.00	0.00	3.69
1159	1401	3.836562	GGTCTTACAGGGTTGGAGAAGTA	59.163	47.826	0.00	0.00	0.00	2.24
1204	1447	6.569179	TCAGCTAAAAGGGTAACAATTGTC	57.431	37.500	12.39	0.00	39.74	3.18
1214	1459	5.201243	GTCCCATTATTCAGCTAAAAGGGT	58.799	41.667	9.22	0.00	34.26	4.34
1250	1504	2.224867	CCTTTTTCTGGGCCAGAGAAGA	60.225	50.000	37.45	27.11	41.75	2.87
1308	1599	2.951642	ACACAACAAACCCTCATGACTG	59.048	45.455	0.00	0.00	0.00	3.51
1357	1656	5.012561	AGGATCTACTGGATACTGAATTGGC	59.987	44.000	0.00	0.00	43.58	4.52
1392	1698	6.319141	TCATGTGATGAGAAGGACTATACG	57.681	41.667	0.00	0.00	33.59	3.06
1524	1994	9.538508	GTATTACTACTATTTTGTACACCTGGG	57.461	37.037	0.00	0.00	0.00	4.45
1615	2216	6.152638	TCTTGGATATTTCCTGGGAACTTT	57.847	37.500	1.04	0.00	43.07	2.66
1666	2267	2.033299	TCTCGCAAGCTTGGAACAAAAG	59.967	45.455	27.10	10.01	40.75	2.27
1774	2375	0.249120	TACGTCCAATGGAGGCACAG	59.751	55.000	20.59	3.09	40.79	3.66
1849	2450	3.071479	CCGACAATTAATATGGGACGGG	58.929	50.000	0.00	0.00	33.21	5.28
1863	2464	1.967319	ACAGCTGTTTCACCGACAAT	58.033	45.000	15.25	0.00	0.00	2.71
1879	2480	5.164051	CGGCGTATTTCAATGCTAGATACAG	60.164	44.000	0.00	0.00	0.00	2.74
1901	2502	2.733552	CGCTGAAATGGATGTATCTCGG	59.266	50.000	0.00	0.00	0.00	4.63
2097	3378	9.897744	TGTTTTGCAAAGATAAGTCTCTTATTG	57.102	29.630	12.41	1.79	34.40	1.90
2369	3660	4.410400	CCTTCTGGTGACCCCGCC	62.410	72.222	0.00	0.00	43.22	6.13
2607	3898	4.191544	GTGCAGATGTGAAAGGCTATACA	58.808	43.478	0.00	0.00	0.00	2.29
2642	3933	6.665680	TGTGCCTTATATTTTACAACATGGGT	59.334	34.615	0.00	0.00	0.00	4.51
2672	4248	4.258543	TGGTCAAAATGAATACTCGGACC	58.741	43.478	0.00	0.00	42.92	4.46
2804	4406	2.618816	GCATCACTTCCATGTTCCCTCA	60.619	50.000	0.00	0.00	0.00	3.86
2805	4407	2.019984	GCATCACTTCCATGTTCCCTC	58.980	52.381	0.00	0.00	0.00	4.30
2967	4576	1.342819	CGGATGGAGATGGAGGAAGAC	59.657	57.143	0.00	0.00	0.00	3.01
3002	4611	8.483307	TTCCAGTCACGGTAGATTAAATTTAC	57.517	34.615	0.00	0.00	0.00	2.01
3219	4829	8.420374	ACACAAATCAGTTTACTATCATACCG	57.580	34.615	0.00	0.00	0.00	4.02
3276	4890	6.719370	ACATATGTACCATATGCGGGATTTTT	59.281	34.615	19.21	0.27	35.88	1.94
3404	5068	5.714806	ACATCCCAAAAGTCGGTGATAAATT	59.285	36.000	0.00	0.00	0.00	1.82
3425	5107	5.474532	AGCAACATACAACAAGACATGACAT	59.525	36.000	0.00	0.00	0.00	3.06
3443	5125	9.515226	ACTTATTCTAAAAATACTCCAGCAACA	57.485	29.630	0.00	0.00	0.00	3.33
3606	5290	0.400213	TCTTTTGCTCCCGGATGTGT	59.600	50.000	0.73	0.00	0.00	3.72
3990	5993	2.150390	TCAGCACGTTTACATGCATGT	58.850	42.857	33.20	33.20	44.59	3.21
4045	6050	6.868864	TCGAGGAAGAAAGTGAAGTATTGAAG	59.131	38.462	0.00	0.00	0.00	3.02

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.