AutoCloner

Multiple sequence alignment - TraesCS5D01G384900

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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	TraesCS5D01G384900	chr5D	100.000	3973	0	0	1	3973	454113422	454109450	0.000000e+00	7337.0
1	TraesCS5D01G384900	chr5D	89.404	151	12	2	3527	3674	42065270	42065419	1.890000e-43	187.0
2	TraesCS5D01G384900	chr5D	94.872	39	2	0	460	498	454112908	454112870	1.190000e-05	62.1
3	TraesCS5D01G384900	chr5D	94.872	39	2	0	515	553	454112963	454112925	1.190000e-05	62.1
4	TraesCS5D01G384900	chr5B	94.690	3503	108	34	1	3432	554824695	554821200	0.000000e+00	5367.0
5	TraesCS5D01G384900	chr5B	89.037	301	12	3	3518	3801	554821202	554820906	1.760000e-93	353.0
6	TraesCS5D01G384900	chr5B	88.435	147	13	3	3527	3673	271942004	271941862	1.470000e-39	174.0
7	TraesCS5D01G384900	chr5B	100.000	39	0	0	460	498	554824180	554824142	5.510000e-09	73.1
8	TraesCS5D01G384900	chr5B	92.308	39	3	0	515	553	554824235	554824197	5.550000e-04	56.5
9	TraesCS5D01G384900	chr5A	94.774	1684	66	10	1821	3497	573101584	573099916	0.000000e+00	2603.0
10	TraesCS5D01G384900	chr5A	85.736	1311	108	31	522	1780	573102869	573101586	0.000000e+00	1312.0
11	TraesCS5D01G384900	chr5A	88.166	507	44	7	1	498	573103336	573102837	1.230000e-164	590.0
12	TraesCS5D01G384900	chr5A	91.235	251	15	4	3699	3949	573099881	573099638	6.360000e-88	335.0
13	TraesCS5D01G384900	chr5A	84.106	151	20	4	3527	3673	475527187	475527337	4.140000e-30	143.0
14	TraesCS5D01G384900	chr5A	97.059	34	0	1	1472	1505	573101787	573101819	5.550000e-04	56.5
15	TraesCS5D01G384900	chr4B	88.000	150	15	3	742	889	22850677	22850825	1.470000e-39	174.0
16	TraesCS5D01G384900	chr4B	85.000	140	10	6	753	882	134121279	134121141	8.960000e-27	132.0
17	TraesCS5D01G384900	chr4B	78.523	149	18	6	754	901	519790894	519790759	7.070000e-13	86.1
18	TraesCS5D01G384900	chr4A	87.333	150	16	3	742	889	590222598	590222450	6.830000e-38	169.0
19	TraesCS5D01G384900	chr1A	86.897	145	15	2	3532	3673	491646606	491646463	4.110000e-35	159.0
20	TraesCS5D01G384900	chr1A	85.185	162	14	7	3527	3679	584472134	584471974	1.480000e-34	158.0
21	TraesCS5D01G384900	chr1A	100.000	28	0	0	140	167	554287312	554287339	7.000000e-03	52.8
22	TraesCS5D01G384900	chr3D	86.395	147	11	7	3527	3673	355882501	355882364	6.880000e-33	152.0
23	TraesCS5D01G384900	chr2B	84.667	150	15	3	3527	3673	356544665	356544809	4.140000e-30	143.0
24	TraesCS5D01G384900	chr2B	86.408	103	11	3	751	852	515118554	515118454	4.200000e-20	110.0
25	TraesCS5D01G384900	chr6D	85.106	141	17	4	751	889	79078087	79078225	1.490000e-29	141.0
26	TraesCS5D01G384900	chr1B	83.784	148	22	2	3527	3673	445181810	445181956	5.350000e-29	139.0
27	TraesCS5D01G384900	chr1B	86.408	103	11	3	751	852	218863444	218863544	4.200000e-20	110.0
28	TraesCS5D01G384900	chr6B	82.353	153	24	3	752	903	314581273	314581123	3.220000e-26	130.0
29	TraesCS5D01G384900	chr7B	86.408	103	11	3	751	852	273383752	273383652	4.200000e-20	110.0
30	TraesCS5D01G384900	chr4D	78.462	130	15	5	754	883	423377891	423377775	5.510000e-09	73.1
31	TraesCS5D01G384900	chr1D	100.000	28	0	0	140	167	462462271	462462298	7.000000e-03	52.8

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	TraesCS5D01G384900	chr5D	454109450	454113422	3972	True	2487.066667	7337	96.581333	1	3973	3	chr5D.!!$R1	3972
1	TraesCS5D01G384900	chr5B	554820906	554824695	3789	True	1462.400000	5367	94.008750	1	3801	4	chr5B.!!$R2	3800
2	TraesCS5D01G384900	chr5A	573099638	573103336	3698	True	1210.000000	2603	89.977750	1	3949	4	chr5A.!!$R1	3948

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
287	296	0.731514	GTCGCTCCACAATCGTTCGA	60.732	55.0	0.00	0.0	0.00	3.71	F
1934	2047	0.318107	CCTTTGCGCTCAACTGGTTG	60.318	55.0	9.73	7.1	41.71	3.77	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2244	2357	1.181786	AGCAGTCTTCTTCTCCCTCG	58.818	55.0	0.0	0.0	0.0	4.63	R
3835	3981	0.408309	AACCCCTTAAAGCTGTCCCC	59.592	55.0	0.0	0.0	0.0	4.81	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
50	51	2.478890	CGCCGTATCCACTCCGTCT	61.479	63.158	0.00	0.00	0.00	4.18
80	81	2.074576	GGGTTTTGAGGTACGAGCTTC	58.925	52.381	0.00	0.00	0.00	3.86
213	214	2.485124	CCTGCCCTCTAGCTTGAAGATG	60.485	54.545	0.00	0.00	0.00	2.90
220	221	4.362279	CTCTAGCTTGAAGATGCTCTGTC	58.638	47.826	0.00	0.00	40.35	3.51
229	230	1.407258	AGATGCTCTGTCTACTTCCGC	59.593	52.381	0.00	0.00	0.00	5.54
246	247	3.741476	CGTCTGCCTGCCAAAGCC	61.741	66.667	0.00	0.00	38.69	4.35
252	253	1.376295	GCCTGCCAAAGCCCATTTG	60.376	57.895	0.00	0.00	46.62	2.32
266	275	6.469782	AGCCCATTTGATAATTAACTGTGG	57.530	37.500	0.00	0.00	0.00	4.17
287	296	0.731514	GTCGCTCCACAATCGTTCGA	60.732	55.000	0.00	0.00	0.00	3.71
322	331	6.825721	TGTTGGTGCTAACAAAATCCATTTTT	59.174	30.769	0.00	0.00	37.86	1.94
326	335	6.347644	GGTGCTAACAAAATCCATTTTTCTGC	60.348	38.462	0.00	0.07	37.86	4.26
348	357	2.821969	CCATATGCCTGGATTAGCAACC	59.178	50.000	0.00	0.00	43.36	3.77
385	394	3.128938	GGTAGCTAGCGGTATAGATGGTG	59.871	52.174	9.55	0.00	0.00	4.17
493	502	3.982058	GGGTGAATTATCTAGCGACTTCG	59.018	47.826	0.00	0.00	43.27	3.79
544	553	4.404394	TCAGTGGGTGAATTATCTAGCGAA	59.596	41.667	0.00	0.00	29.64	4.70
547	556	6.260936	CAGTGGGTGAATTATCTAGCGAATTT	59.739	38.462	0.00	0.00	0.00	1.82
591	601	4.346418	TGGTTTAACAGATTTTGGCACCAT	59.654	37.500	0.00	0.00	0.00	3.55
630	640	6.971184	TCGTTTTCTCGAATATTCACCTCTAC	59.029	38.462	15.57	5.68	36.89	2.59
639	649	7.230712	TCGAATATTCACCTCTACAGCATCTAA	59.769	37.037	15.57	0.00	0.00	2.10
696	723	7.959689	AATATTCTAACACTAGCAGATGCAG	57.040	36.000	7.68	5.31	45.16	4.41
715	742	7.809806	AGATGCAGTTTCTATTTTTAGTGTTGC	59.190	33.333	0.00	0.00	0.00	4.17
716	743	6.212955	TGCAGTTTCTATTTTTAGTGTTGCC	58.787	36.000	0.00	0.00	0.00	4.52
956	994	9.920133	TTATTTTGCTTGATTGCTTACATGTAA	57.080	25.926	17.16	17.16	0.00	2.41
1319	1361	5.640783	TCTGTACATCTCTTCTGCAAATGTG	59.359	40.000	0.00	0.00	33.01	3.21
1321	1363	3.759581	ACATCTCTTCTGCAAATGTGGT	58.240	40.909	0.00	0.00	0.00	4.16
1346	1388	4.096833	GTGATGGCACTCTTGATAAATGCA	59.903	41.667	0.00	0.00	41.84	3.96
1516	1558	6.993902	ACCTTTTCAAGCATGATCATGTTTTT	59.006	30.769	28.78	20.35	39.67	1.94
1615	1691	3.744426	TGTAACTCAGTTAAAGCCGCTTC	59.256	43.478	5.98	0.00	29.42	3.86
1626	1702	1.446099	GCCGCTTCGTCATCTGACA	60.446	57.895	10.69	0.00	44.99	3.58
1632	1708	4.795795	CCGCTTCGTCATCTGACATATATC	59.204	45.833	10.69	0.00	44.99	1.63
1642	1718	9.356433	GTCATCTGACATATATCTTGATCTGTG	57.644	37.037	5.46	0.00	44.18	3.66
1748	1833	9.464714	AGTTATAACAGTATCAACGATGATGAC	57.535	33.333	17.54	11.38	45.82	3.06
1786	1871	7.293018	GCTTTTTGAATTCTTATGCAAGTTGG	58.707	34.615	7.05	0.00	30.89	3.77
1796	1881	9.632638	ATTCTTATGCAAGTTGGTGTTATCTAT	57.367	29.630	4.75	0.00	33.20	1.98
1874	1986	6.993786	TGGTGTTATCTGCGAAATATTGAA	57.006	33.333	0.00	0.00	0.00	2.69
1934	2047	0.318107	CCTTTGCGCTCAACTGGTTG	60.318	55.000	9.73	7.10	41.71	3.77
1961	2074	2.919602	AGAGGCTTCCATCCTTTACCAA	59.080	45.455	0.00	0.00	33.24	3.67
2244	2357	3.922171	ACTCATTCAGAATCCAGACCC	57.078	47.619	5.84	0.00	0.00	4.46
2572	2685	5.983720	TCGGAGTAAAGACAAAGACAAAGAG	59.016	40.000	0.00	0.00	0.00	2.85
2829	2956	5.807909	ACATGAAGGAATGGAAAATTTGGG	58.192	37.500	0.00	0.00	31.46	4.12
3037	3166	6.237045	CGTTTCCGTGTTAGTTCTCGTAATAC	60.237	42.308	0.00	0.00	0.00	1.89
3295	3424	3.300009	GTTCCTTTTGCATTGTGTCTCG	58.700	45.455	0.00	0.00	0.00	4.04
3380	3509	9.638239	TTTGAGTTTGGTTTAATATGATTCTGC	57.362	29.630	0.00	0.00	0.00	4.26
3406	3535	8.808529	CGTTGTTCTGAATCTAAAGTGGTATAG	58.191	37.037	0.00	0.00	0.00	1.31
3433	3562	8.380742	TCTCATTACTGGAAATAGGAAGTTCT	57.619	34.615	2.25	0.00	30.48	3.01
3472	3601	4.661993	TTTATTGTACTTGCTGTCAGCG	57.338	40.909	19.68	9.10	46.26	5.18
3492	3621	3.117507	GCGCATAGTCGAGTTATTACACG	59.882	47.826	0.30	0.00	39.31	4.49
3497	3626	2.229543	AGTCGAGTTATTACACGTGCCA	59.770	45.455	17.22	1.90	39.07	4.92
3498	3627	2.988493	GTCGAGTTATTACACGTGCCAA	59.012	45.455	17.22	10.69	39.07	4.52
3499	3628	3.615496	GTCGAGTTATTACACGTGCCAAT	59.385	43.478	17.22	17.19	39.07	3.16
3500	3629	4.092383	GTCGAGTTATTACACGTGCCAATT	59.908	41.667	17.22	0.00	39.07	2.32
3501	3630	4.691685	TCGAGTTATTACACGTGCCAATTT	59.308	37.500	17.22	5.23	39.07	1.82
3502	3631	5.868258	TCGAGTTATTACACGTGCCAATTTA	59.132	36.000	17.22	4.93	39.07	1.40
3503	3632	6.535865	TCGAGTTATTACACGTGCCAATTTAT	59.464	34.615	17.22	4.86	39.07	1.40
3504	3633	7.064847	TCGAGTTATTACACGTGCCAATTTATT	59.935	33.333	17.22	4.61	39.07	1.40
3505	3634	7.163520	CGAGTTATTACACGTGCCAATTTATTG	59.836	37.037	17.22	5.25	34.30	1.90
3506	3635	7.822658	AGTTATTACACGTGCCAATTTATTGT	58.177	30.769	17.22	0.00	36.06	2.71
3507	3636	8.948145	AGTTATTACACGTGCCAATTTATTGTA	58.052	29.630	17.22	0.00	36.06	2.41
3508	3637	9.557338	GTTATTACACGTGCCAATTTATTGTAA	57.443	29.630	17.22	2.33	36.06	2.41
3529	3658	9.733556	TTGTAATTGTAGTGGTTGATGATTACT	57.266	29.630	0.00	0.00	32.67	2.24
3534	3663	4.762289	AGTGGTTGATGATTACTCCCTC	57.238	45.455	0.00	0.00	0.00	4.30
3535	3664	3.456277	AGTGGTTGATGATTACTCCCTCC	59.544	47.826	0.00	0.00	0.00	4.30
3540	3669	2.698797	TGATGATTACTCCCTCCGTTCC	59.301	50.000	0.00	0.00	0.00	3.62
3542	3671	3.675348	TGATTACTCCCTCCGTTCCTA	57.325	47.619	0.00	0.00	0.00	2.94
3552	3681	7.300658	ACTCCCTCCGTTCCTAAATATAAGTA	58.699	38.462	0.00	0.00	0.00	2.24
3589	3734	6.846505	TCCAATAAGGGACTGAGTGAATCTAT	59.153	38.462	0.00	0.00	36.97	1.98
3675	3821	2.905415	TAGGAACGGAGGGAGTACAA	57.095	50.000	0.00	0.00	0.00	2.41
3697	3843	2.689983	CCTTGAGTTGGGTCAATATGCC	59.310	50.000	0.00	0.00	35.88	4.40
3701	3847	2.870411	GAGTTGGGTCAATATGCCGTAC	59.130	50.000	0.00	0.00	0.00	3.67
3727	3873	1.384502	TGGGTGCTGGGAGGGATAG	60.385	63.158	0.00	0.00	0.00	2.08
3808	3954	6.821388	AGCATCTACCAGTTCTAGTTTATGG	58.179	40.000	0.00	0.00	37.07	2.74
3824	3970	3.062466	GGCCAGTTTCCGCCTTCC	61.062	66.667	0.00	0.00	42.21	3.46
3851	3997	0.107654	CTCGGGGACAGCTTTAAGGG	60.108	60.000	0.00	0.00	0.00	3.95
3888	4034	8.180267	GCATGTCAGCATCTGGTATAATAATTC	58.820	37.037	0.00	0.00	31.99	2.17
3938	4084	7.872483	GGTGTAAAAACTGATCACAATTTGGAT	59.128	33.333	0.78	1.19	0.00	3.41
3952	4098	9.898152	TCACAATTTGGATATGTGTACTATTGA	57.102	29.630	0.78	0.00	43.72	2.57
3958	4104	9.898152	TTTGGATATGTGTACTATTGATTGTCA	57.102	29.630	0.00	0.00	0.00	3.58

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
50	51	0.878523	CTCAAAACCCGTCGACTGCA	60.879	55.000	14.70	0.00	0.00	4.41
173	174	3.046374	AGGAAACTTGTGTGGTCTAGGT	58.954	45.455	0.00	0.00	37.44	3.08
213	214	0.523757	GACGCGGAAGTAGACAGAGC	60.524	60.000	12.47	0.00	0.00	4.09
220	221	1.517257	CAGGCAGACGCGGAAGTAG	60.517	63.158	12.47	0.00	39.92	2.57
246	247	5.890334	ACGCCACAGTTAATTATCAAATGG	58.110	37.500	0.00	2.54	0.00	3.16
252	253	2.864343	AGCGACGCCACAGTTAATTATC	59.136	45.455	17.79	0.00	0.00	1.75
266	275	2.279937	GAACGATTGTGGAGCGACGC	62.280	60.000	13.03	13.03	40.18	5.19
277	286	5.283060	ACAATTTCTTCCTCGAACGATTG	57.717	39.130	0.00	0.11	0.00	2.67
280	289	3.496884	CCAACAATTTCTTCCTCGAACGA	59.503	43.478	0.00	0.00	0.00	3.85
287	296	4.892934	TGTTAGCACCAACAATTTCTTCCT	59.107	37.500	0.00	0.00	35.53	3.36
322	331	1.151760	AATCCAGGCATATGGGCAGA	58.848	50.000	4.56	0.41	46.44	4.26
326	335	2.821969	GTTGCTAATCCAGGCATATGGG	59.178	50.000	4.56	0.00	41.01	4.00
348	357	1.077787	TACCAGCAAGGGCCGATTG	60.078	57.895	13.57	13.57	43.89	2.67
385	394	7.031975	ACACTAGTACAAAGGCGTAATAGAAC	58.968	38.462	11.29	0.00	40.69	3.01
448	457	5.156355	CACTGATGTGTTAAATGCCAAGAC	58.844	41.667	0.00	0.00	39.24	3.01
493	502	9.931210	GTGTTACTTATATAATTCACCAACTGC	57.069	33.333	0.00	0.00	0.00	4.40
544	553	1.203994	GCTTCATCCTGCACTGCAAAT	59.796	47.619	4.99	0.00	38.41	2.32
547	556	0.323087	ATGCTTCATCCTGCACTGCA	60.323	50.000	3.11	3.11	42.26	4.41
591	601	7.485810	TCGAGAAAACGATAGGTGAATATTCA	58.514	34.615	14.23	14.23	43.77	2.57
696	723	8.071967	ACTAACGGCAACACTAAAAATAGAAAC	58.928	33.333	0.00	0.00	0.00	2.78
715	742	9.001542	AGCATACTAGATAGACTTAACTAACGG	57.998	37.037	0.00	0.00	0.00	4.44
932	970	9.439500	AATTACATGTAAGCAATCAAGCAAAAT	57.561	25.926	22.03	0.00	36.85	1.82
974	1012	4.321899	GCAAAATGCATGTCCACCTAAGAA	60.322	41.667	0.00	0.00	44.26	2.52
1086	1124	5.890424	ATGGTGTTACCCATTTTCGTAAG	57.110	39.130	0.54	0.00	42.70	2.34
1195	1237	5.987777	CAGAATAGGACAATCTGCTTCTG	57.012	43.478	0.00	0.00	34.72	3.02
1256	1298	9.378551	GTAAGTAAACTCATGGTCATGTATGAA	57.621	33.333	10.32	0.00	38.75	2.57
1259	1301	9.383519	CAAGTAAGTAAACTCATGGTCATGTAT	57.616	33.333	10.32	0.00	39.72	2.29
1346	1388	4.615912	GCAACATAACATGACTTCGCCTTT	60.616	41.667	0.00	0.00	0.00	3.11
1454	1496	8.341173	CACATGAGCTCACCTAGATTAATTTTC	58.659	37.037	20.97	0.00	0.00	2.29
1578	1620	4.080582	TGAGTTACAGGGGTACATGATTGG	60.081	45.833	0.00	0.00	0.00	3.16
1632	1708	5.974158	CGACCTTCATACTACACAGATCAAG	59.026	44.000	0.00	0.00	0.00	3.02
1642	1718	6.047231	ACTAAAATGCCGACCTTCATACTAC	58.953	40.000	0.00	0.00	0.00	2.73
1748	1833	3.264104	TCAAAAAGCGGGGAATAGTACG	58.736	45.455	0.00	0.00	0.00	3.67
1796	1881	8.729756	CCCTGTTATAATGATGAATATTTCGCA	58.270	33.333	0.00	0.00	0.00	5.10
1830	1915	7.230510	ACACCAACTTGCTTAGTTAATGATGAA	59.769	33.333	15.44	0.00	45.29	2.57
1874	1986	7.874016	TGTACAAGTCATAACGTTGGTCTAAAT	59.126	33.333	11.99	0.00	0.00	1.40
1934	2047	1.743996	GGATGGAAGCCTCTGAACAC	58.256	55.000	0.00	0.00	41.12	3.32
1995	2108	8.131731	AGAGTCAAGACTTCTTTTATTTGCAAC	58.868	33.333	0.00	0.00	42.66	4.17
2244	2357	1.181786	AGCAGTCTTCTTCTCCCTCG	58.818	55.000	0.00	0.00	0.00	4.63
2446	2559	5.183331	GTCCCTGGACTTAACCTTTGAATTC	59.817	44.000	9.11	0.00	41.57	2.17
2608	2727	7.112779	TGTCTTTGTCTTTCTCCTTCTCTTTT	58.887	34.615	0.00	0.00	0.00	2.27
2786	2913	9.567776	TTCATGTTTCCTCTTCTATACAACAAA	57.432	29.630	0.00	0.00	0.00	2.83
2789	2916	8.041323	TCCTTCATGTTTCCTCTTCTATACAAC	58.959	37.037	0.00	0.00	0.00	3.32
2829	2956	0.535553	TTTGTGGTTACGTCCAGCCC	60.536	55.000	0.00	0.00	38.23	5.19
3037	3166	4.685169	AACAGCATAAAACATGGAGTCG	57.315	40.909	0.00	0.00	0.00	4.18
3123	3252	9.559958	GAAATCAAACAACGACAGATGATAAAT	57.440	29.630	0.00	0.00	0.00	1.40
3295	3424	2.650778	CCTTGGTTCCAAAGCCGC	59.349	61.111	5.76	0.00	0.00	6.53
3380	3509	5.924475	ACCACTTTAGATTCAGAACAACG	57.076	39.130	0.00	0.00	0.00	4.10
3406	3535	8.794335	AACTTCCTATTTCCAGTAATGAGAAC	57.206	34.615	0.00	0.00	0.00	3.01
3433	3562	6.207810	ACAATAAATTGGCCGAAGTTCTAACA	59.792	34.615	0.00	0.00	41.96	2.41
3444	3573	4.104776	CAGCAAGTACAATAAATTGGCCG	58.895	43.478	0.00	0.00	41.96	6.13
3472	3601	4.085721	GCACGTGTAATAACTCGACTATGC	60.086	45.833	18.38	3.14	43.47	3.14
3492	3621	8.032451	ACCACTACAATTACAATAAATTGGCAC	58.968	33.333	12.46	0.00	46.51	5.01
3503	3632	9.733556	AGTAATCATCAACCACTACAATTACAA	57.266	29.630	0.00	0.00	33.10	2.41
3504	3633	9.378551	GAGTAATCATCAACCACTACAATTACA	57.621	33.333	0.00	0.00	33.10	2.41
3505	3634	8.827677	GGAGTAATCATCAACCACTACAATTAC	58.172	37.037	0.00	0.00	0.00	1.89
3506	3635	7.990886	GGGAGTAATCATCAACCACTACAATTA	59.009	37.037	0.00	0.00	0.00	1.40
3507	3636	6.828785	GGGAGTAATCATCAACCACTACAATT	59.171	38.462	0.00	0.00	0.00	2.32
3508	3637	6.158695	AGGGAGTAATCATCAACCACTACAAT	59.841	38.462	0.00	0.00	0.00	2.71
3529	3658	8.731591	AATACTTATATTTAGGAACGGAGGGA	57.268	34.615	0.00	0.00	0.00	4.20
3552	3681	9.413734	CAGTCCCTTATTGGAATCTCTAAAAAT	57.586	33.333	0.00	0.00	35.80	1.82
3644	3789	6.492772	TCCCTCCGTTCCTAAATATAAGTCTC	59.507	42.308	0.00	0.00	0.00	3.36
3675	3821	3.356290	GCATATTGACCCAACTCAAGGT	58.644	45.455	0.00	0.00	39.75	3.50
3697	3843	2.237751	GCACCCAGCATAGCGTACG	61.238	63.158	11.84	11.84	44.79	3.67
3727	3873	5.491982	ACAACTGATGAGAGATTACCAACC	58.508	41.667	0.00	0.00	0.00	3.77
3808	3954	2.282180	TGGAAGGCGGAAACTGGC	60.282	61.111	0.00	0.00	0.00	4.85
3824	3970	0.951040	GCTGTCCCCGAGTTTCACTG	60.951	60.000	0.00	0.00	0.00	3.66
3835	3981	0.408309	AACCCCTTAAAGCTGTCCCC	59.592	55.000	0.00	0.00	0.00	4.81
3842	3988	2.288213	GCACAACAGAACCCCTTAAAGC	60.288	50.000	0.00	0.00	0.00	3.51
3851	3997	1.335324	GCTGACATGCACAACAGAACC	60.335	52.381	16.46	0.24	32.90	3.62
3898	4044	9.019764	CAGTTTTTACACCTTTTGTGATAACTG	57.980	33.333	13.80	13.80	46.83	3.16
3926	4072	9.898152	TCAATAGTACACATATCCAAATTGTGA	57.102	29.630	9.08	0.00	42.59	3.58

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.