AutoCloner

Multiple sequence alignment - TraesCS2D01G490800

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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	TraesCS2D01G490800	chr2D	100.000	3137	0	0	1	3137	589504629	589501493	0.000000e+00	5794.0
1	TraesCS2D01G490800	chr2D	77.106	843	143	35	1219	2034	13724049	13723230	2.870000e-120	442.0
2	TraesCS2D01G490800	chr4A	89.504	2601	205	16	516	3099	684976604	684979153	0.000000e+00	3229.0
3	TraesCS2D01G490800	chr4A	90.559	2415	199	15	598	2995	684976673	684979075	0.000000e+00	3169.0
4	TraesCS2D01G490800	chr4A	83.315	911	134	10	858	1764	602259897	602260793	0.000000e+00	824.0
5	TraesCS2D01G490800	chr4A	81.537	1002	171	10	1140	2128	602863252	602864252	0.000000e+00	813.0
6	TraesCS2D01G490800	chr4A	91.906	383	20	6	50	422	684976195	684976576	2.770000e-145	525.0
7	TraesCS2D01G490800	chr2A	90.240	1957	164	13	683	2619	723828868	723826919	0.000000e+00	2531.0
8	TraesCS2D01G490800	chr2A	92.747	648	31	11	1	642	723829503	723828866	0.000000e+00	922.0
9	TraesCS2D01G490800	chr2A	94.898	98	5	0	2898	2995	723826921	723826824	1.510000e-33	154.0
10	TraesCS2D01G490800	chr2A	92.135	89	6	1	3014	3102	723826831	723826744	1.180000e-24	124.0
11	TraesCS2D01G490800	chr2B	89.403	1925	164	19	658	2550	713695499	713693583	0.000000e+00	2388.0
12	TraesCS2D01G490800	chr2B	89.956	458	28	12	15	467	713696402	713695958	2.710000e-160	575.0
13	TraesCS2D01G490800	chr2B	94.444	108	6	0	466	573	713695798	713695691	1.940000e-37	167.0
14	TraesCS2D01G490800	chr2B	94.898	98	5	0	2898	2995	713693552	713693455	1.510000e-33	154.0
15	TraesCS2D01G490800	chr2B	92.941	85	6	0	3018	3102	713693458	713693374	1.180000e-24	124.0
16	TraesCS2D01G490800	chr2B	95.349	43	2	0	573	615	713695531	713695489	5.610000e-08	69.4
17	TraesCS2D01G490800	chr4B	82.444	1350	200	26	800	2130	3784666	3785997	0.000000e+00	1146.0
18	TraesCS2D01G490800	chr4B	82.345	776	115	12	779	1553	3856368	3855614	0.000000e+00	654.0
19	TraesCS2D01G490800	chr4D	81.077	1300	194	31	867	2128	3260934	3259649	0.000000e+00	990.0
20	TraesCS2D01G490800	chr4D	81.654	1161	182	17	979	2129	2070963	2072102	0.000000e+00	935.0
21	TraesCS2D01G490800	chrUn	81.807	786	131	8	800	1580	47781076	47780298	0.000000e+00	649.0
22	TraesCS2D01G490800	chr3D	78.505	1070	163	37	1031	2080	529496477	529495455	9.490000e-180	640.0
23	TraesCS2D01G490800	chr3A	77.980	1099	174	41	1001	2080	663441806	663440757	7.390000e-176	627.0
24	TraesCS2D01G490800	chr5B	77.902	982	165	27	992	1956	710608500	710609446	5.870000e-157	564.0
25	TraesCS2D01G490800	chr5B	77.222	900	163	15	1233	2108	711858801	711857920	3.640000e-134	488.0
26	TraesCS2D01G490800	chr5B	84.375	256	26	7	635	887	533386910	533386666	4.040000e-59	239.0
27	TraesCS2D01G490800	chr7D	78.026	851	152	20	1240	2080	624769338	624770163	1.300000e-138	503.0
28	TraesCS2D01G490800	chr5D	85.227	352	43	8	1901	2246	438519245	438518897	1.380000e-93	353.0
29	TraesCS2D01G490800	chr5D	81.818	286	28	11	635	917	438555046	438554782	5.270000e-53	219.0
30	TraesCS2D01G490800	chr7B	84.122	296	45	2	1835	2129	385435290	385434996	5.120000e-73	285.0
31	TraesCS2D01G490800	chr5A	96.000	75	3	0	2551	2625	554058192	554058118	4.250000e-24	122.0

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	TraesCS2D01G490800	chr2D	589501493	589504629	3136	True	5794.000000	5794	100.000000	1	3137	1	chr2D.!!$R2	3136
1	TraesCS2D01G490800	chr2D	13723230	13724049	819	True	442.000000	442	77.106000	1219	2034	1	chr2D.!!$R1	815
2	TraesCS2D01G490800	chr4A	684976195	684979153	2958	False	2307.666667	3229	90.656333	50	3099	3	chr4A.!!$F3	3049
3	TraesCS2D01G490800	chr4A	602259897	602260793	896	False	824.000000	824	83.315000	858	1764	1	chr4A.!!$F1	906
4	TraesCS2D01G490800	chr4A	602863252	602864252	1000	False	813.000000	813	81.537000	1140	2128	1	chr4A.!!$F2	988
5	TraesCS2D01G490800	chr2A	723826744	723829503	2759	True	932.750000	2531	92.505000	1	3102	4	chr2A.!!$R1	3101
6	TraesCS2D01G490800	chr2B	713693374	713696402	3028	True	579.566667	2388	92.831833	15	3102	6	chr2B.!!$R1	3087
7	TraesCS2D01G490800	chr4B	3784666	3785997	1331	False	1146.000000	1146	82.444000	800	2130	1	chr4B.!!$F1	1330
8	TraesCS2D01G490800	chr4B	3855614	3856368	754	True	654.000000	654	82.345000	779	1553	1	chr4B.!!$R1	774
9	TraesCS2D01G490800	chr4D	3259649	3260934	1285	True	990.000000	990	81.077000	867	2128	1	chr4D.!!$R1	1261
10	TraesCS2D01G490800	chr4D	2070963	2072102	1139	False	935.000000	935	81.654000	979	2129	1	chr4D.!!$F1	1150
11	TraesCS2D01G490800	chrUn	47780298	47781076	778	True	649.000000	649	81.807000	800	1580	1	chrUn.!!$R1	780
12	TraesCS2D01G490800	chr3D	529495455	529496477	1022	True	640.000000	640	78.505000	1031	2080	1	chr3D.!!$R1	1049
13	TraesCS2D01G490800	chr3A	663440757	663441806	1049	True	627.000000	627	77.980000	1001	2080	1	chr3A.!!$R1	1079
14	TraesCS2D01G490800	chr5B	710608500	710609446	946	False	564.000000	564	77.902000	992	1956	1	chr5B.!!$F1	964
15	TraesCS2D01G490800	chr5B	711857920	711858801	881	True	488.000000	488	77.222000	1233	2108	1	chr5B.!!$R2	875
16	TraesCS2D01G490800	chr7D	624769338	624770163	825	False	503.000000	503	78.026000	1240	2080	1	chr7D.!!$F1	840

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
745	1091	0.923358	AATTACCATTCGGGGCCTGA	59.077	50.0	12.08	12.08	42.91	3.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2385	2890	0.248289	GGCCTGTAACGAACCTGCTA	59.752	55.0	0.0	0.0	0.0	3.49	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
53	54	4.025979	CACCGAGTTCTCAAGTACAACAAC	60.026	45.833	0.00	0.00	0.00	3.32
56	57	5.490213	CGAGTTCTCAAGTACAACAACAAC	58.510	41.667	0.00	0.00	0.00	3.32
59	60	7.209471	AGTTCTCAAGTACAACAACAACAAA	57.791	32.000	0.00	0.00	0.00	2.83
166	175	6.811253	AATAACAAGCCGTGTGAGATTTTA	57.189	33.333	0.00	0.00	40.60	1.52
460	476	7.917505	GCACACTTTTATGATTTCCATCCTTAG	59.082	37.037	0.00	0.00	36.71	2.18
462	478	8.336235	ACACTTTTATGATTTCCATCCTTAGGA	58.664	33.333	2.37	2.37	36.71	2.94
503	680	7.446769	TGAATTAGGCTACTCACAAGTGTTTA	58.553	34.615	0.00	0.00	36.92	2.01
535	712	3.452264	AGCATTGTCCTAGTCATGTGCTA	59.548	43.478	16.27	0.17	36.30	3.49
738	1077	5.808540	TCGAACTAGTGAAATTACCATTCGG	59.191	40.000	0.00	0.00	37.57	4.30
739	1078	5.006358	CGAACTAGTGAAATTACCATTCGGG	59.994	44.000	0.00	0.00	44.81	5.14
745	1091	0.923358	AATTACCATTCGGGGCCTGA	59.077	50.000	12.08	12.08	42.91	3.86
759	1105	2.224646	GGGCCTGATCTTTGATAGGGAC	60.225	54.545	0.84	0.00	0.00	4.46
765	1111	6.125029	CCTGATCTTTGATAGGGACACAATT	58.875	40.000	0.00	0.00	0.00	2.32
766	1112	7.282585	CCTGATCTTTGATAGGGACACAATTA	58.717	38.462	0.00	0.00	0.00	1.40
875	1225	3.084039	CTCTTGCATAGCAGTTGGGAAA	58.916	45.455	0.00	0.00	40.61	3.13
884	1234	3.690460	AGCAGTTGGGAAAAGATAGGTG	58.310	45.455	0.00	0.00	0.00	4.00
1025	1390	0.679960	TCCGACTCTGATCGCCTTCA	60.680	55.000	0.00	0.00	40.87	3.02
1219	1602	4.467769	TGCTACTACTACTACACCATCCC	58.532	47.826	0.00	0.00	0.00	3.85
1329	1712	3.143515	TCAGAGATGCTCGCGGCT	61.144	61.111	18.14	6.27	42.39	5.52
1386	1769	0.896940	CGCCCTACTATAGCCGGGAA	60.897	60.000	24.24	0.00	39.08	3.97
1455	1838	2.511600	GCGGCCAACTAGCACGAT	60.512	61.111	2.24	0.00	0.00	3.73
1591	1990	3.575351	GAGCTGTTGTCGGAGGCGT	62.575	63.158	0.00	0.00	28.88	5.68
1644	2070	2.037847	GCATGCCTGGAGGGGTTT	59.962	61.111	6.36	0.00	35.18	3.27
1667	2093	1.576757	TGGCCACTACTACCCATCCTA	59.423	52.381	0.00	0.00	0.00	2.94
1758	2184	4.329545	GCTGTGGGCGGTCTCCAA	62.330	66.667	0.00	0.00	35.86	3.53
1773	2199	2.805353	CAAGTGCTCGTCGACGGG	60.805	66.667	35.05	33.98	44.00	5.28
1851	2325	2.616330	CGCGCTGGTGGTGAACATT	61.616	57.895	5.56	0.00	0.00	2.71
1862	2336	0.165944	GTGAACATTGGCGACTTCCG	59.834	55.000	0.00	0.00	42.21	4.30
1923	2397	2.113986	GTGGTGGCCAAGAGTGCT	59.886	61.111	7.24	0.00	34.18	4.40
2100	2592	2.770164	GCTCTTTGCTCCAGAACCTA	57.230	50.000	0.00	0.00	38.95	3.08
2108	2600	1.557371	GCTCCAGAACCTAAGGCTCTT	59.443	52.381	0.00	0.00	0.00	2.85
2180	2672	5.823312	TCATATCCATCCTAGCAATGCAAT	58.177	37.500	8.35	0.00	0.00	3.56
2207	2699	2.616376	TGGATTGTGTTTGTGGTTCGAG	59.384	45.455	0.00	0.00	0.00	4.04
2208	2700	2.616842	GGATTGTGTTTGTGGTTCGAGT	59.383	45.455	0.00	0.00	0.00	4.18
2215	2707	4.499040	GTGTTTGTGGTTCGAGTTTCAATG	59.501	41.667	0.00	0.00	0.00	2.82
2217	2709	3.961477	TGTGGTTCGAGTTTCAATGTG	57.039	42.857	0.00	0.00	0.00	3.21
2349	2849	3.573967	TCAGTTCAGCTTCCCCAAATTTC	59.426	43.478	0.00	0.00	0.00	2.17
2355	2855	3.056322	CAGCTTCCCCAAATTTCCAAGAG	60.056	47.826	0.00	0.00	0.00	2.85
2385	2890	1.000359	CCCTCCCCGCTTCCATTTT	60.000	57.895	0.00	0.00	0.00	1.82
2395	2900	2.476185	CGCTTCCATTTTAGCAGGTTCG	60.476	50.000	0.00	0.00	37.23	3.95
2419	2924	7.329962	TCGTTACAGGCCAAATTATATATGTCG	59.670	37.037	5.01	0.00	0.00	4.35
2473	2984	0.112218	ACATGGCTGGCTTGTTGGTA	59.888	50.000	15.55	0.00	0.00	3.25
2504	3017	3.665173	GCAGAGAGCGTCAAATTAAGG	57.335	47.619	0.00	0.00	0.00	2.69
2632	3147	6.775142	TGGTAAGGTCTGATGAACAATGAAAA	59.225	34.615	0.00	0.00	30.86	2.29
2634	3149	6.966534	AAGGTCTGATGAACAATGAAAAGT	57.033	33.333	0.00	0.00	30.86	2.66
2635	3150	6.966534	AGGTCTGATGAACAATGAAAAGTT	57.033	33.333	0.00	0.00	30.86	2.66
2636	3151	6.742109	AGGTCTGATGAACAATGAAAAGTTG	58.258	36.000	0.00	0.00	30.86	3.16
2637	3152	5.403466	GGTCTGATGAACAATGAAAAGTTGC	59.597	40.000	0.00	0.00	0.00	4.17
2670	3185	2.692709	TCCTTTTTGGCCCTTGATCA	57.307	45.000	0.00	0.00	35.26	2.92
2694	3209	9.709495	TCAACTAAAATTCAAATTTCATGAGGG	57.291	29.630	0.00	0.00	37.62	4.30
2714	3229	6.127647	TGAGGGCAAGATAAACAAACATCATC	60.128	38.462	0.00	0.00	0.00	2.92
2715	3230	5.036737	GGGCAAGATAAACAAACATCATCG	58.963	41.667	0.00	0.00	0.00	3.84
2727	3242	5.106317	ACAAACATCATCGACATGGTAAACC	60.106	40.000	10.23	0.00	0.00	3.27
2796	3311	1.573108	CTTAGCTGAAGGGGGACTCA	58.427	55.000	0.00	0.00	0.00	3.41
2797	3312	2.122768	CTTAGCTGAAGGGGGACTCAT	58.877	52.381	0.00	0.00	0.00	2.90
2810	3325	4.700692	GGGGGACTCATTACTTTCTTTCAC	59.299	45.833	0.00	0.00	0.00	3.18
2873	3388	4.202245	TGTTGTCTGTCTATAACTGCCC	57.798	45.455	0.00	0.00	0.00	5.36
2883	3398	4.700213	GTCTATAACTGCCCAACACAACAT	59.300	41.667	0.00	0.00	0.00	2.71
2924	3439	5.387113	TGACAGCCTGTATGGGAAAATAT	57.613	39.130	0.00	0.00	36.00	1.28
2995	3510	7.688343	ACCCACAAATCAACATCCAATAATTT	58.312	30.769	0.00	0.00	0.00	1.82
2996	3511	8.820831	ACCCACAAATCAACATCCAATAATTTA	58.179	29.630	0.00	0.00	0.00	1.40
2997	3512	9.097257	CCCACAAATCAACATCCAATAATTTAC	57.903	33.333	0.00	0.00	0.00	2.01
2998	3513	9.650539	CCACAAATCAACATCCAATAATTTACA	57.349	29.630	0.00	0.00	0.00	2.41
3049	3564	5.645067	TCAAGCATAAACATGAAGTCTCAGG	59.355	40.000	0.00	0.00	39.31	3.86
3055	3570	7.764443	GCATAAACATGAAGTCTCAGGTACTAA	59.236	37.037	0.00	0.00	45.54	2.24
3099	3614	1.686355	ACTTCCAAATGAACCACGCA	58.314	45.000	0.00	0.00	0.00	5.24
3102	3617	1.974265	TCCAAATGAACCACGCAAGA	58.026	45.000	0.00	0.00	43.62	3.02
3103	3618	2.513753	TCCAAATGAACCACGCAAGAT	58.486	42.857	0.00	0.00	43.62	2.40
3104	3619	3.680490	TCCAAATGAACCACGCAAGATA	58.320	40.909	0.00	0.00	43.62	1.98
3105	3620	4.269183	TCCAAATGAACCACGCAAGATAT	58.731	39.130	0.00	0.00	43.62	1.63
3106	3621	5.432645	TCCAAATGAACCACGCAAGATATA	58.567	37.500	0.00	0.00	43.62	0.86
3107	3622	5.295787	TCCAAATGAACCACGCAAGATATAC	59.704	40.000	0.00	0.00	43.62	1.47
3108	3623	5.065859	CCAAATGAACCACGCAAGATATACA	59.934	40.000	0.00	0.00	43.62	2.29
3109	3624	6.238731	CCAAATGAACCACGCAAGATATACAT	60.239	38.462	0.00	0.00	43.62	2.29
3110	3625	7.041440	CCAAATGAACCACGCAAGATATACATA	60.041	37.037	0.00	0.00	43.62	2.29
3111	3626	8.341903	CAAATGAACCACGCAAGATATACATAA	58.658	33.333	0.00	0.00	43.62	1.90
3112	3627	7.658179	ATGAACCACGCAAGATATACATAAG	57.342	36.000	0.00	0.00	43.62	1.73
3113	3628	6.811954	TGAACCACGCAAGATATACATAAGA	58.188	36.000	0.00	0.00	43.62	2.10
3114	3629	7.269316	TGAACCACGCAAGATATACATAAGAA	58.731	34.615	0.00	0.00	43.62	2.52
3115	3630	7.438160	TGAACCACGCAAGATATACATAAGAAG	59.562	37.037	0.00	0.00	43.62	2.85
3116	3631	7.050970	ACCACGCAAGATATACATAAGAAGA	57.949	36.000	0.00	0.00	43.62	2.87
3117	3632	7.497595	ACCACGCAAGATATACATAAGAAGAA	58.502	34.615	0.00	0.00	43.62	2.52
3118	3633	7.985184	ACCACGCAAGATATACATAAGAAGAAA	59.015	33.333	0.00	0.00	43.62	2.52
3119	3634	8.993121	CCACGCAAGATATACATAAGAAGAAAT	58.007	33.333	0.00	0.00	43.62	2.17
3121	3636	9.764363	ACGCAAGATATACATAAGAAGAAATCA	57.236	29.630	0.00	0.00	43.62	2.57
3125	3640	8.764524	AGATATACATAAGAAGAAATCACGCC	57.235	34.615	0.00	0.00	0.00	5.68
3126	3641	7.819900	AGATATACATAAGAAGAAATCACGCCC	59.180	37.037	0.00	0.00	0.00	6.13
3127	3642	3.950397	ACATAAGAAGAAATCACGCCCA	58.050	40.909	0.00	0.00	0.00	5.36
3128	3643	4.331968	ACATAAGAAGAAATCACGCCCAA	58.668	39.130	0.00	0.00	0.00	4.12
3129	3644	4.949856	ACATAAGAAGAAATCACGCCCAAT	59.050	37.500	0.00	0.00	0.00	3.16
3130	3645	5.418840	ACATAAGAAGAAATCACGCCCAATT	59.581	36.000	0.00	0.00	0.00	2.32
3131	3646	3.855689	AGAAGAAATCACGCCCAATTG	57.144	42.857	0.00	0.00	0.00	2.32
3132	3647	2.493278	AGAAGAAATCACGCCCAATTGG	59.507	45.455	18.21	18.21	37.09	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
53	54	8.184192	AGAGTATGTGACTTCTTGTTTTTGTTG	58.816	33.333	0.00	0.00	39.06	3.33
56	57	7.134815	CCAGAGTATGTGACTTCTTGTTTTTG	58.865	38.462	0.00	0.00	39.06	2.44
59	60	5.930135	ACCAGAGTATGTGACTTCTTGTTT	58.070	37.500	0.00	0.00	39.06	2.83
154	163	5.562890	GCAGGTTTGTCCTAAAATCTCACAC	60.563	44.000	0.00	0.00	46.24	3.82
480	657	8.685838	TTTAAACACTTGTGAGTAGCCTAATT	57.314	30.769	7.83	0.00	33.90	1.40
485	662	4.320275	GCCTTTAAACACTTGTGAGTAGCC	60.320	45.833	7.83	0.00	33.90	3.93
624	961	3.181474	GGTGTGGCTAGATTGACTCTACC	60.181	52.174	0.00	0.00	35.28	3.18
738	1077	2.057922	TCCCTATCAAAGATCAGGCCC	58.942	52.381	0.00	0.00	0.00	5.80
739	1078	2.439507	TGTCCCTATCAAAGATCAGGCC	59.560	50.000	0.00	0.00	0.00	5.19
820	1166	9.502091	AACTTGCAGTTCTTTATGTAATCAGTA	57.498	29.630	0.00	0.00	31.77	2.74
902	1252	7.010552	GCGAGATTGAAAAGCTTGATCTACTAA	59.989	37.037	0.00	0.00	41.66	2.24
907	1257	4.005650	TGCGAGATTGAAAAGCTTGATCT	58.994	39.130	0.00	7.14	41.66	2.75
912	1262	2.143122	TCGTGCGAGATTGAAAAGCTT	58.857	42.857	0.00	0.00	41.66	3.74
1198	1572	4.467769	TGGGATGGTGTAGTAGTAGTAGC	58.532	47.826	0.00	0.00	0.00	3.58
1306	1689	0.179089	GCGAGCATCTCTGACATGGT	60.179	55.000	0.00	0.00	34.65	3.55
1329	1712	2.203224	TCGTGAAAGGCCCGCAAA	60.203	55.556	0.00	0.00	0.00	3.68
1337	1720	3.121030	CTGGCGCCTCGTGAAAGG	61.121	66.667	29.70	2.51	39.62	3.11
1455	1838	1.948611	GCCGTCTGCATGAAAAGGGTA	60.949	52.381	0.00	0.00	40.77	3.69
1567	1966	1.478510	CTCCGACAACAGCTCCAGTAT	59.521	52.381	0.00	0.00	0.00	2.12
1644	2070	0.620410	ATGGGTAGTAGTGGCCAGCA	60.620	55.000	5.11	0.00	0.00	4.41
1752	2178	1.579932	GTCGACGAGCACTTGGAGA	59.420	57.895	0.00	0.00	0.00	3.71
1773	2199	3.246619	CTTCTTGTCGTCTTCCTGTAGC	58.753	50.000	0.00	0.00	0.00	3.58
1799	2264	2.109387	CGTCCACCCACACGGAAA	59.891	61.111	0.00	0.00	31.67	3.13
1801	2266	3.918977	CACGTCCACCCACACGGA	61.919	66.667	0.00	0.00	40.43	4.69
2018	2510	0.615331	CATGGTGGTGCTCCTGTACT	59.385	55.000	6.34	0.00	34.23	2.73
2086	2578	1.279271	GAGCCTTAGGTTCTGGAGCAA	59.721	52.381	7.90	0.00	30.11	3.91
2095	2587	4.202367	CGGATGGATTAAGAGCCTTAGGTT	60.202	45.833	0.00	0.00	30.79	3.50
2100	2592	3.648067	TGATCGGATGGATTAAGAGCCTT	59.352	43.478	0.00	0.00	34.82	4.35
2108	2600	6.260050	GCTTGTAGTTTTGATCGGATGGATTA	59.740	38.462	0.00	0.00	34.82	1.75
2180	2672	5.860941	ACCACAAACACAATCCAAACATA	57.139	34.783	0.00	0.00	0.00	2.29
2217	2709	7.276794	GCATCTTGCATTGCTTGGATACATAC	61.277	42.308	10.49	0.00	45.99	2.39
2289	2783	3.742369	CCTGTTTCATTTGTGTTGGATGC	59.258	43.478	0.00	0.00	0.00	3.91
2349	2849	1.003696	GGGTTCCCTGACTTCTCTTGG	59.996	57.143	0.00	0.00	0.00	3.61
2375	2875	2.488153	ACGAACCTGCTAAAATGGAAGC	59.512	45.455	0.00	0.00	39.25	3.86
2377	2877	5.064558	TGTAACGAACCTGCTAAAATGGAA	58.935	37.500	0.00	0.00	0.00	3.53
2378	2878	4.643463	TGTAACGAACCTGCTAAAATGGA	58.357	39.130	0.00	0.00	0.00	3.41
2385	2890	0.248289	GGCCTGTAACGAACCTGCTA	59.752	55.000	0.00	0.00	0.00	3.49
2395	2900	7.241376	GCGACATATATAATTTGGCCTGTAAC	58.759	38.462	3.32	0.00	0.00	2.50
2442	2953	1.542915	CAGCCATGTTTCAGGTTCTGG	59.457	52.381	0.00	0.00	31.51	3.86
2473	2984	2.219458	CGCTCTCTGCAATTCATGGAT	58.781	47.619	0.00	0.00	43.06	3.41
2504	3017	4.074970	ACTATAATGTTGCCATGGCTAGC	58.925	43.478	35.53	24.40	42.51	3.42
2632	3147	4.517285	AGGATACAAATGTCATCGCAACT	58.483	39.130	0.00	0.00	41.41	3.16
2634	3149	5.895636	AAAGGATACAAATGTCATCGCAA	57.104	34.783	0.00	0.00	41.41	4.85
2635	3150	5.895636	AAAAGGATACAAATGTCATCGCA	57.104	34.783	0.00	0.00	41.41	5.10
2636	3151	5.516339	CCAAAAAGGATACAAATGTCATCGC	59.484	40.000	0.00	0.00	41.22	4.58
2637	3152	5.516339	GCCAAAAAGGATACAAATGTCATCG	59.484	40.000	0.00	0.00	41.22	3.84
2670	3185	8.156165	TGCCCTCATGAAATTTGAATTTTAGTT	58.844	29.630	0.00	0.00	38.64	2.24
2694	3209	6.314018	TGTCGATGATGTTTGTTTATCTTGC	58.686	36.000	0.00	0.00	0.00	4.01
2849	3364	6.099701	TGGGCAGTTATAGACAGACAACATAT	59.900	38.462	0.00	0.00	0.00	1.78
2854	3369	4.041075	TGTTGGGCAGTTATAGACAGACAA	59.959	41.667	0.00	0.00	0.00	3.18
2865	3380	4.261825	GCTTAATGTTGTGTTGGGCAGTTA	60.262	41.667	0.00	0.00	0.00	2.24
2873	3388	5.681105	GCCGTATATGCTTAATGTTGTGTTG	59.319	40.000	0.00	0.00	0.00	3.33
2883	3398	5.179533	TGTCAAACAGCCGTATATGCTTAA	58.820	37.500	0.00	0.00	36.81	1.85
2911	3426	9.899226	GTTCTTTATGCTGATATTTTCCCATAC	57.101	33.333	0.00	0.00	0.00	2.39
2924	3439	5.651576	TGGCATTGTATGTTCTTTATGCTGA	59.348	36.000	0.00	0.00	38.64	4.26
3017	3532	9.715121	ACTTCATGTTTATGCTTGATTTGAATT	57.285	25.926	0.00	0.00	34.21	2.17
3018	3533	9.362539	GACTTCATGTTTATGCTTGATTTGAAT	57.637	29.630	0.00	0.00	34.21	2.57
3019	3534	8.579006	AGACTTCATGTTTATGCTTGATTTGAA	58.421	29.630	0.00	0.00	34.21	2.69
3020	3535	8.114331	AGACTTCATGTTTATGCTTGATTTGA	57.886	30.769	0.00	0.00	34.21	2.69
3055	3570	9.923143	GTTCCTTATTTAGGTTAATTTGCAACT	57.077	29.630	0.00	0.00	45.03	3.16
3085	3600	6.117911	TGTATATCTTGCGTGGTTCATTTG	57.882	37.500	0.00	0.00	0.00	2.32
3091	3606	7.497595	TCTTCTTATGTATATCTTGCGTGGTT	58.502	34.615	0.00	0.00	0.00	3.67
3099	3614	9.209175	GGCGTGATTTCTTCTTATGTATATCTT	57.791	33.333	0.00	0.00	0.00	2.40
3102	3617	7.450074	TGGGCGTGATTTCTTCTTATGTATAT	58.550	34.615	0.00	0.00	0.00	0.86
3103	3618	6.822442	TGGGCGTGATTTCTTCTTATGTATA	58.178	36.000	0.00	0.00	0.00	1.47
3104	3619	5.680619	TGGGCGTGATTTCTTCTTATGTAT	58.319	37.500	0.00	0.00	0.00	2.29
3105	3620	5.092554	TGGGCGTGATTTCTTCTTATGTA	57.907	39.130	0.00	0.00	0.00	2.29
3106	3621	3.950397	TGGGCGTGATTTCTTCTTATGT	58.050	40.909	0.00	0.00	0.00	2.29
3107	3622	4.963276	TTGGGCGTGATTTCTTCTTATG	57.037	40.909	0.00	0.00	0.00	1.90
3108	3623	5.163519	CCAATTGGGCGTGATTTCTTCTTAT	60.164	40.000	17.36	0.00	0.00	1.73
3109	3624	4.157656	CCAATTGGGCGTGATTTCTTCTTA	59.842	41.667	17.36	0.00	0.00	2.10
3110	3625	3.056607	CCAATTGGGCGTGATTTCTTCTT	60.057	43.478	17.36	0.00	0.00	2.52
3111	3626	2.493278	CCAATTGGGCGTGATTTCTTCT	59.507	45.455	17.36	0.00	0.00	2.85
3112	3627	2.879826	CCAATTGGGCGTGATTTCTTC	58.120	47.619	17.36	0.00	0.00	2.87

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.