AutoCloner

Multiple sequence alignment - TraesCS2D01G053600

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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	TraesCS2D01G053600	chr2D	100.000	4157	0	0	1	4157	21058639	21054483	0.000000e+00	7677.0
1	TraesCS2D01G053600	chr2D	92.473	651	49	0	964	1614	21555867	21555217	0.000000e+00	931.0
2	TraesCS2D01G053600	chr2A	94.553	2001	76	8	2183	4157	22572397	22570404	0.000000e+00	3061.0
3	TraesCS2D01G053600	chr2A	88.026	927	93	10	1	919	22600654	22599738	0.000000e+00	1081.0
4	TraesCS2D01G053600	chr2A	88.026	927	93	10	1	919	22633336	22632420	0.000000e+00	1081.0
5	TraesCS2D01G053600	chr2A	92.950	695	46	1	964	1658	22573533	22572842	0.000000e+00	1009.0
6	TraesCS2D01G053600	chr2A	91.775	462	10	3	1697	2143	22572842	22572394	5.900000e-173	617.0
7	TraesCS2D01G053600	chr2A	81.059	623	106	9	965	1584	23970797	23971410	1.740000e-133	486.0
8	TraesCS2D01G053600	chr2A	81.623	419	66	6	3032	3444	22837120	22837533	1.850000e-88	337.0
9	TraesCS2D01G053600	chr2A	81.623	419	66	6	3032	3444	23268065	23267652	1.850000e-88	337.0
10	TraesCS2D01G053600	chr2A	81.623	419	66	6	3032	3444	23290128	23289715	1.850000e-88	337.0
11	TraesCS2D01G053600	chr2B	89.179	1377	119	15	2059	3421	34419745	34418385	0.000000e+00	1690.0
12	TraesCS2D01G053600	chr2B	94.829	967	37	5	1	966	34422423	34421469	0.000000e+00	1496.0
13	TraesCS2D01G053600	chr2B	91.053	693	62	0	964	1656	34420678	34419986	0.000000e+00	937.0
14	TraesCS2D01G053600	chr2B	81.740	1046	172	15	2398	3433	34442906	34441870	0.000000e+00	856.0
15	TraesCS2D01G053600	chr2B	80.853	1055	186	11	2398	3444	34456881	34455835	0.000000e+00	815.0
16	TraesCS2D01G053600	chr2B	80.843	1044	184	11	2398	3432	34478379	34477343	0.000000e+00	806.0
17	TraesCS2D01G053600	chr5D	85.578	631	91	0	965	1595	229153932	229153302	0.000000e+00	662.0
18	TraesCS2D01G053600	chr5D	80.385	882	162	11	2276	3152	229152425	229151550	0.000000e+00	660.0
19	TraesCS2D01G053600	chr5A	85.578	631	91	0	965	1595	327573935	327574565	0.000000e+00	662.0
20	TraesCS2D01G053600	chr5A	84.402	468	59	12	3442	3902	704065538	704065078	8.200000e-122	448.0
21	TraesCS2D01G053600	chr5B	85.127	632	92	2	965	1595	276667838	276668468	0.000000e+00	645.0
22	TraesCS2D01G053600	chr4D	88.085	470	49	4	3442	3906	178096012	178095545	6.070000e-153	551.0
23	TraesCS2D01G053600	chr3A	88.172	465	46	7	3442	3902	594507788	594507329	2.830000e-151	545.0
24	TraesCS2D01G053600	chr4B	87.158	475	50	7	3442	3910	482353992	482354461	2.850000e-146	529.0
25	TraesCS2D01G053600	chr1B	83.226	465	63	13	3442	3901	679526794	679526340	2.990000e-111	412.0
26	TraesCS2D01G053600	chrUn	81.623	419	66	6	3032	3444	154144002	154144415	1.850000e-88	337.0
27	TraesCS2D01G053600	chrUn	81.623	419	66	6	3032	3444	233286596	233286183	1.850000e-88	337.0
28	TraesCS2D01G053600	chr7D	82.759	116	12	5	3747	3856	69016498	69016611	3.420000e-16	97.1
29	TraesCS2D01G053600	chr7B	82.609	115	14	3	3747	3856	10604076	10604189	3.420000e-16	97.1

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	TraesCS2D01G053600	chr2D	21054483	21058639	4156	True	7677.000000	7677	100.000000	1	4157	1	chr2D.!!$R1	4156
1	TraesCS2D01G053600	chr2D	21555217	21555867	650	True	931.000000	931	92.473000	964	1614	1	chr2D.!!$R2	650
2	TraesCS2D01G053600	chr2A	22570404	22573533	3129	True	1562.333333	3061	93.092667	964	4157	3	chr2A.!!$R5	3193
3	TraesCS2D01G053600	chr2A	22599738	22600654	916	True	1081.000000	1081	88.026000	1	919	1	chr2A.!!$R1	918
4	TraesCS2D01G053600	chr2A	22632420	22633336	916	True	1081.000000	1081	88.026000	1	919	1	chr2A.!!$R2	918
5	TraesCS2D01G053600	chr2A	23970797	23971410	613	False	486.000000	486	81.059000	965	1584	1	chr2A.!!$F2	619
6	TraesCS2D01G053600	chr2B	34418385	34422423	4038	True	1374.333333	1690	91.687000	1	3421	3	chr2B.!!$R4	3420
7	TraesCS2D01G053600	chr2B	34441870	34442906	1036	True	856.000000	856	81.740000	2398	3433	1	chr2B.!!$R1	1035
8	TraesCS2D01G053600	chr2B	34455835	34456881	1046	True	815.000000	815	80.853000	2398	3444	1	chr2B.!!$R2	1046
9	TraesCS2D01G053600	chr2B	34477343	34478379	1036	True	806.000000	806	80.843000	2398	3432	1	chr2B.!!$R3	1034
10	TraesCS2D01G053600	chr5D	229151550	229153932	2382	True	661.000000	662	82.981500	965	3152	2	chr5D.!!$R1	2187
11	TraesCS2D01G053600	chr5A	327573935	327574565	630	False	662.000000	662	85.578000	965	1595	1	chr5A.!!$F1	630
12	TraesCS2D01G053600	chr5B	276667838	276668468	630	False	645.000000	645	85.127000	965	1595	1	chr5B.!!$F1	630

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	Hairpin	End Stability	Orientation
746	752	0.038618	ACGTCGCTAGTGCAATGACA	60.039	50.0	0.00	39.64	3.58	F
823	830	0.555769	AAGTTGTTGAAGAGGGGCCA	59.444	50.0	4.39	0.00	5.36	F
1518	2319	0.871722	CAAAGACGTCGATTGGGCAA	59.128	50.0	22.00	0.00	4.52	F
1543	2344	0.899253	TGGGATGGACGTTACCGACA	60.899	55.0	0.00	37.88	4.35	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1567	2368	0.999406	CGTACCTTTGGCTCGATGTG	59.001	55.000	0.00	3.21	R
2312	3740	1.602311	CATGTAATCTGCCTCCTGCC	58.398	55.000	40.16	4.85	R
2871	4322	0.107831	TTCCCACAAGAGGAACACCG	59.892	55.000	38.49	4.94	R
3519	5004	1.672881	GCTGATGGGTACTGTTCATGC	59.327	52.381	0.00	4.06	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
34	39	2.090494	AGGTGCTCATAGGGTAGGATGT	60.090	50.000	0.00	0.00	0.00	3.06
65	70	8.738199	CGTTCATACGGTTGAGTATATGTATT	57.262	34.615	0.00	0.00	43.94	1.89
281	286	2.216046	ACTGATATGTCCTTGCGCATG	58.784	47.619	12.75	14.64	0.00	4.06
344	349	1.154225	GCAACAACCTTCGATGCCG	60.154	57.895	0.00	0.00	37.07	5.69
377	382	2.235238	TATTGCAAACGTTAGCGCAC	57.765	45.000	11.47	0.00	42.83	5.34
378	383	0.386731	ATTGCAAACGTTAGCGCACC	60.387	50.000	11.47	0.00	42.83	5.01
379	384	1.440938	TTGCAAACGTTAGCGCACCT	61.441	50.000	11.47	0.00	42.83	4.00
476	481	4.563168	GCTCATCCACCCTTATCTCATCTG	60.563	50.000	0.00	0.00	0.00	2.90
619	625	2.756760	GCCAGAATTGCATCTTTCCTCA	59.243	45.455	0.00	0.00	0.00	3.86
626	632	1.100510	GCATCTTTCCTCATGCAGCA	58.899	50.000	0.00	0.00	44.18	4.41
742	748	0.165944	GCAAACGTCGCTAGTGCAAT	59.834	50.000	0.00	0.00	39.64	3.56
743	749	1.869503	CAAACGTCGCTAGTGCAATG	58.130	50.000	0.00	0.00	39.64	2.82
746	752	0.038618	ACGTCGCTAGTGCAATGACA	60.039	50.000	0.00	0.00	39.64	3.58
761	767	1.155889	TGACAGCGGCAACAATACAG	58.844	50.000	1.45	0.00	0.00	2.74
823	830	0.555769	AAGTTGTTGAAGAGGGGCCA	59.444	50.000	4.39	0.00	0.00	5.36
854	861	3.066760	AGCAAGTAGGACTTTGCAACAAC	59.933	43.478	0.00	0.00	36.03	3.32
855	862	3.181491	GCAAGTAGGACTTTGCAACAACA	60.181	43.478	0.00	0.00	36.03	3.33
896	903	1.750193	TGCAACACTAGCCCTATTGC	58.250	50.000	9.04	9.04	44.66	3.56
1065	1866	2.117156	CCTCGTCGTCACCCGGTAT	61.117	63.158	0.00	0.00	37.11	2.73
1129	1930	2.892640	CCATCTCGGACGGCTTCA	59.107	61.111	0.00	0.00	36.56	3.02
1263	2064	1.671054	AGTGCGCGTGCTGGTTTAT	60.671	52.632	23.16	0.00	43.34	1.40
1338	2139	2.046892	GCCTTCTTCTCGCAGCCA	60.047	61.111	0.00	0.00	0.00	4.75
1518	2319	0.871722	CAAAGACGTCGATTGGGCAA	59.128	50.000	22.00	0.00	0.00	4.52
1524	2325	0.937304	CGTCGATTGGGCAATTCGAT	59.063	50.000	11.60	0.00	35.03	3.59
1528	2329	1.691196	GATTGGGCAATTCGATGGGA	58.309	50.000	0.00	0.00	0.00	4.37
1533	2334	0.954452	GGCAATTCGATGGGATGGAC	59.046	55.000	0.00	0.00	0.00	4.02
1535	2336	1.953559	CAATTCGATGGGATGGACGT	58.046	50.000	0.00	0.00	0.00	4.34
1536	2337	2.288666	CAATTCGATGGGATGGACGTT	58.711	47.619	0.00	0.00	0.00	3.99
1537	2338	3.462982	CAATTCGATGGGATGGACGTTA	58.537	45.455	0.00	0.00	0.00	3.18
1543	2344	0.899253	TGGGATGGACGTTACCGACA	60.899	55.000	0.00	0.00	37.88	4.35
1567	2368	1.149148	GCTCGTCAACTCTTTCCACC	58.851	55.000	0.00	0.00	0.00	4.61
1624	2425	3.888930	GGTCAGCTCTGCTCTAGTTATCT	59.111	47.826	0.00	0.00	36.40	1.98
1651	2452	4.662145	AGTTTTGCAACAAGAAAGAGACG	58.338	39.130	0.00	0.00	35.05	4.18
1682	2636	3.653835	TTGTGCTCTAGCCTCTCTCTA	57.346	47.619	0.00	0.00	41.18	2.43
1695	2649	6.381250	AGCCTCTCTCTAAAGGTTGATATCT	58.619	40.000	3.98	0.00	34.96	1.98
1872	3017	8.909708	TGTATTTTTAGTGCATTTATCAGTGC	57.090	30.769	0.00	0.00	41.61	4.40
1873	3018	8.739039	TGTATTTTTAGTGCATTTATCAGTGCT	58.261	29.630	0.00	0.00	41.78	4.40
2079	3499	2.609984	CGCAAGGATGGTGCAAAATGAA	60.610	45.455	0.00	0.00	42.33	2.57
2080	3500	3.401182	GCAAGGATGGTGCAAAATGAAA	58.599	40.909	0.00	0.00	41.80	2.69
2161	3581	6.844279	CACGACAACTAAACATACAAGTGTTC	59.156	38.462	0.00	0.00	41.22	3.18
2176	3596	3.686016	AGTGTTCCACGCTCCATTATTT	58.314	40.909	0.00	0.00	39.64	1.40
2241	3669	1.459592	GAACGAACGGTCCTGTCAATG	59.540	52.381	0.00	0.00	0.00	2.82
2312	3740	7.670009	TGATATTTGAAAATTTGCCAACTGG	57.330	32.000	5.95	0.00	38.53	4.00
2390	3818	3.743521	TGCCATCATACTACCTTGATGC	58.256	45.455	7.26	4.59	45.05	3.91
2424	3852	5.838521	ACCATCCAACAAGTCTTATGGTTTT	59.161	36.000	10.11	0.04	43.43	2.43
2427	3855	8.531146	CCATCCAACAAGTCTTATGGTTTTAAT	58.469	33.333	13.55	1.30	34.50	1.40
2490	3918	3.118408	AGCATAGCATTTCCTCCGTTGTA	60.118	43.478	0.00	0.00	0.00	2.41
2617	4045	4.095483	CCAATGAGGCACACAAGTTATCTC	59.905	45.833	0.00	0.00	29.57	2.75
2715	4144	4.417437	AGGCTATCGGTATGGTAAGACAT	58.583	43.478	0.00	0.00	34.90	3.06
2871	4322	3.731867	CGACATTGGAGGCAATTGTTAGC	60.732	47.826	7.40	0.00	0.00	3.09
2939	4391	5.105187	CCATCTCAAAGTATGTGGAGACTGA	60.105	44.000	0.00	0.00	39.04	3.41
3094	4546	1.648116	AAAGGCCAAGGATGCAATGT	58.352	45.000	5.01	0.00	0.00	2.71
3096	4548	2.530460	AGGCCAAGGATGCAATGTAA	57.470	45.000	5.01	0.00	0.00	2.41
3236	4688	8.335532	TGGTACAATTCTTTTAGAGTGAATGG	57.664	34.615	0.00	0.00	31.92	3.16
3242	4694	9.211485	CAATTCTTTTAGAGTGAATGGCATTTT	57.789	29.630	14.93	3.39	31.70	1.82
3423	4884	6.653320	GTCCATGTGTATTCTTAGTGTTCCAA	59.347	38.462	0.00	0.00	0.00	3.53
3482	4967	4.025061	CCAGAGCATCGATCTTGATTGTTC	60.025	45.833	0.00	0.00	42.67	3.18
3514	4999	2.227865	TCTAACGGTTGAAAGCAATGGC	59.772	45.455	3.07	0.00	36.22	4.40
3533	5018	1.064060	GCATTCGCATGAACAGTACCC	59.936	52.381	0.00	0.00	36.81	3.69
3540	5025	2.940971	GCATGAACAGTACCCATCAGCA	60.941	50.000	0.00	0.00	0.00	4.41
3555	5040	4.261489	CCATCAGCAGCTTCCAATGTATTC	60.261	45.833	0.00	0.00	0.00	1.75
3559	5044	5.129320	TCAGCAGCTTCCAATGTATTCTAGA	59.871	40.000	0.00	0.00	0.00	2.43
3635	5120	1.001764	TGCTGAGTGGCTTGGGATG	60.002	57.895	0.00	0.00	0.00	3.51
3832	5317	8.911247	AGAACGTATTATTTTGCATTTCCTTC	57.089	30.769	0.00	0.00	0.00	3.46
3840	5325	0.241749	TGCATTTCCTTCTTGCAGCG	59.758	50.000	0.00	0.00	41.18	5.18
3880	5366	9.677567	TTTTCTATCAGCAAAAACACTTATGTC	57.322	29.630	0.00	0.00	38.45	3.06
3906	5392	1.346365	CACGTGCGTGCATACTAGTT	58.654	50.000	11.81	0.00	39.39	2.24
3913	5399	6.020121	ACGTGCGTGCATACTAGTTTATTAAG	60.020	38.462	0.00	0.00	0.00	1.85
3944	5430	9.780413	GAAGATGATTCTTTGTTCATCCTAAAC	57.220	33.333	8.80	0.00	46.10	2.01
3952	5438	9.748708	TTCTTTGTTCATCCTAAACTTTCATTG	57.251	29.630	0.00	0.00	0.00	2.82
3955	5441	7.831691	TGTTCATCCTAAACTTTCATTGGAA	57.168	32.000	0.00	0.00	0.00	3.53
3975	5461	8.908786	TTGGAAACATATTTTTATTGGTGCAA	57.091	26.923	0.00	0.00	42.32	4.08
3991	5477	4.892934	TGGTGCAAAATTAGGAGTTCTGTT	59.107	37.500	0.00	0.00	0.00	3.16
3993	5479	6.206634	TGGTGCAAAATTAGGAGTTCTGTTAG	59.793	38.462	0.00	0.00	0.00	2.34

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
201	206	5.560966	AATTACGGCCATTCAACTACAAG	57.439	39.130	2.24	0.00	0.00	3.16
317	322	2.676471	GGTTGTTGCGGGCCATCT	60.676	61.111	4.39	0.00	0.00	2.90
377	382	4.292186	TCTTTTTCATCCTGAGGTGAGG	57.708	45.455	0.00	0.00	0.00	3.86
378	383	4.699257	CCTTCTTTTTCATCCTGAGGTGAG	59.301	45.833	0.00	0.00	0.00	3.51
379	384	4.350816	TCCTTCTTTTTCATCCTGAGGTGA	59.649	41.667	0.00	0.00	0.00	4.02
476	481	2.679837	ACATGTGGATGAGATTCGTTGC	59.320	45.455	0.00	0.00	33.36	4.17
619	625	2.042831	GCGTTTCTCCCTGCTGCAT	61.043	57.895	1.31	0.00	0.00	3.96
626	632	0.179073	CATCATCGGCGTTTCTCCCT	60.179	55.000	6.85	0.00	0.00	4.20
742	748	1.155889	CTGTATTGTTGCCGCTGTCA	58.844	50.000	0.00	0.00	0.00	3.58
743	749	1.438651	TCTGTATTGTTGCCGCTGTC	58.561	50.000	0.00	0.00	0.00	3.51
746	752	2.472695	TCTTCTGTATTGTTGCCGCT	57.527	45.000	0.00	0.00	0.00	5.52
761	767	7.743104	AGTCGATTACAACATCATTGTTCTTC	58.257	34.615	0.00	0.00	44.24	2.87
896	903	2.459202	AAACGGTTAGGTGGGGAGCG	62.459	60.000	0.00	0.00	39.86	5.03
948	956	2.227194	GGGAGACGGTGATTTTGTTGT	58.773	47.619	0.00	0.00	0.00	3.32
1043	1844	4.736896	GGGTGACGACGAGGGTGC	62.737	72.222	0.00	0.00	0.00	5.01
1263	2064	1.296392	CCACGCAAGATGAGGGTCA	59.704	57.895	0.00	0.00	43.62	4.02
1338	2139	1.664649	CACGACGTCCACTGCACAT	60.665	57.895	10.58	0.00	0.00	3.21
1441	2242	2.354729	CATGTCCTCCGGCCCAAA	59.645	61.111	0.00	0.00	0.00	3.28
1498	2299	1.134694	GCCCAATCGACGTCTTTGC	59.865	57.895	14.70	3.82	0.00	3.68
1518	2319	2.224209	GGTAACGTCCATCCCATCGAAT	60.224	50.000	0.00	0.00	0.00	3.34
1535	2336	4.231753	CGAGCACGTTGTCGGTAA	57.768	55.556	8.18	0.00	41.85	2.85
1567	2368	0.999406	CGTACCTTTGGCTCGATGTG	59.001	55.000	0.00	0.00	0.00	3.21
1624	2425	9.730420	GTCTCTTTCTTGTTGCAAAACTTATTA	57.270	29.630	0.00	0.00	0.00	0.98
1667	2618	5.197451	TCAACCTTTAGAGAGAGGCTAGAG	58.803	45.833	0.00	0.00	36.48	2.43
1669	2620	7.669722	AGATATCAACCTTTAGAGAGAGGCTAG	59.330	40.741	5.32	0.00	36.48	3.42
1673	2627	8.934023	AGTAGATATCAACCTTTAGAGAGAGG	57.066	38.462	5.32	0.00	39.02	3.69
1868	3013	9.384764	GGTTCTCTTGTTAAGATATTTAGCACT	57.615	33.333	0.00	0.00	36.82	4.40
1869	3014	8.613482	GGGTTCTCTTGTTAAGATATTTAGCAC	58.387	37.037	0.00	0.00	36.82	4.40
1870	3015	8.548877	AGGGTTCTCTTGTTAAGATATTTAGCA	58.451	33.333	0.00	0.00	36.82	3.49
1871	3016	8.966069	AGGGTTCTCTTGTTAAGATATTTAGC	57.034	34.615	0.00	0.00	36.82	3.09
2080	3500	9.927668	CACCTCCAATAATTTACACTGAATTTT	57.072	29.630	0.00	0.00	0.00	1.82
2161	3581	7.041440	TGTGACATAATAAATAATGGAGCGTGG	60.041	37.037	0.00	0.00	0.00	4.94
2312	3740	1.602311	CATGTAATCTGCCTCCTGCC	58.398	55.000	0.00	0.00	40.16	4.85
2325	3753	5.428253	GCTCTCCATGTTAACTCCATGTAA	58.572	41.667	7.22	0.00	38.39	2.41
2390	3818	3.469008	TGTTGGATGGTAGGCGATTAG	57.531	47.619	0.00	0.00	0.00	1.73
2424	3852	3.826524	TGCACCCTCACTGAACAAATTA	58.173	40.909	0.00	0.00	0.00	1.40
2427	3855	2.229792	GATGCACCCTCACTGAACAAA	58.770	47.619	0.00	0.00	0.00	2.83
2490	3918	6.674573	AGAGACAGTACCATAGGATACAAGT	58.325	40.000	0.00	0.00	41.41	3.16
2617	4045	5.994054	TCTCACATTTCTCCTTGAGTTCTTG	59.006	40.000	0.00	0.00	37.38	3.02
2822	4273	3.320541	CCATCTGCAGTGGGTAACAAAAA	59.679	43.478	21.10	0.00	39.74	1.94
2871	4322	0.107831	TTCCCACAAGAGGAACACCG	59.892	55.000	0.00	0.00	38.49	4.94
3094	4546	5.069781	GCTTATCTGAGCTTCCTCCTTCTTA	59.930	44.000	0.00	0.00	39.57	2.10
3096	4548	3.387699	GCTTATCTGAGCTTCCTCCTTCT	59.612	47.826	0.00	0.00	39.57	2.85
3236	4688	8.936864	AGACACTCTACTTACACATTAAAATGC	58.063	33.333	2.60	0.00	40.04	3.56
3242	4694	8.512956	GTGAGAAGACACTCTACTTACACATTA	58.487	37.037	0.00	0.00	37.73	1.90
3243	4695	7.371936	GTGAGAAGACACTCTACTTACACATT	58.628	38.462	0.00	0.00	37.73	2.71
3244	4696	6.071840	GGTGAGAAGACACTCTACTTACACAT	60.072	42.308	1.84	0.00	40.22	3.21
3423	4884	8.706322	AACTCATAGGGAACTGTTTTATTGTT	57.294	30.769	0.00	0.00	43.88	2.83
3482	4967	7.519008	GCTTTCAACCGTTAGATTGAGGATATG	60.519	40.741	0.00	0.00	36.26	1.78
3498	4983	1.994779	GAATGCCATTGCTTTCAACCG	59.005	47.619	11.25	0.00	45.88	4.44
3514	4999	2.355197	TGGGTACTGTTCATGCGAATG	58.645	47.619	0.00	0.00	32.61	2.67
3519	5004	1.672881	GCTGATGGGTACTGTTCATGC	59.327	52.381	0.00	0.00	0.00	4.06
3533	5018	4.579340	AGAATACATTGGAAGCTGCTGATG	59.421	41.667	1.35	8.30	0.00	3.07
3540	5025	6.313519	TGGTTCTAGAATACATTGGAAGCT	57.686	37.500	8.75	0.00	33.94	3.74
3555	5040	7.112984	GCACTTTTTAAAACACGATGGTTCTAG	59.887	37.037	0.00	0.00	0.00	2.43
3559	5044	5.411781	TGCACTTTTTAAAACACGATGGTT	58.588	33.333	0.00	0.00	0.00	3.67
3615	5100	1.782201	ATCCCAAGCCACTCAGCACA	61.782	55.000	0.00	0.00	34.23	4.57
3635	5120	4.345854	TCTCTTGTCCTCTTTCTAGACCC	58.654	47.826	0.00	0.00	0.00	4.46
3698	5183	8.532819	TGTAAAACACAAAGGAAAATAACCAGT	58.467	29.630	0.00	0.00	32.95	4.00
3832	5317	0.305922	GCATTAGGCTACGCTGCAAG	59.694	55.000	14.65	0.00	40.25	4.01
3864	5349	3.868835	ACGTCGACATAAGTGTTTTTGC	58.131	40.909	17.16	0.00	39.09	3.68
3928	5414	8.359642	TCCAATGAAAGTTTAGGATGAACAAAG	58.640	33.333	0.00	0.00	0.00	2.77
3951	5437	8.908786	TTTGCACCAATAAAAATATGTTTCCA	57.091	26.923	0.00	0.00	0.00	3.53
3975	5461	9.628500	AACTCAAACTAACAGAACTCCTAATTT	57.372	29.630	0.00	0.00	0.00	1.82
3991	5477	4.083855	CGCATTCAGCTTCAACTCAAACTA	60.084	41.667	0.00	0.00	42.61	2.24
3993	5479	2.975851	CGCATTCAGCTTCAACTCAAAC	59.024	45.455	0.00	0.00	42.61	2.93
4135	5621	1.068741	GTCATAGGCAAGACGTAGGGG	59.931	57.143	0.00	0.00	0.00	4.79

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.