AutoCloner

Multiple sequence alignment - TraesCS2A01G175400

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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	TraesCS2A01G175400	chr2A	100.000	4286	0	0	1	4286	133707758	133703473	0.000000e+00	7915.0
1	TraesCS2A01G175400	chr2A	82.119	1029	129	23	3284	4286	133702774	133703773	0.000000e+00	830.0
2	TraesCS2A01G175400	chr2D	93.794	2433	102	25	1761	4176	127003372	127000972	0.000000e+00	3611.0
3	TraesCS2A01G175400	chr2D	96.636	1754	42	9	1	1753	127005159	127003422	0.000000e+00	2896.0
4	TraesCS2A01G175400	chr2D	87.400	1381	154	12	2799	4176	126999119	127000482	0.000000e+00	1568.0
5	TraesCS2A01G175400	chr2D	85.714	469	54	10	850	1311	80982755	80983217	2.320000e-132	483.0
6	TraesCS2A01G175400	chr2D	82.773	476	62	14	840	1311	42696401	42696860	1.430000e-109	407.0
7	TraesCS2A01G175400	chr2D	85.484	124	4	3	4176	4286	127001039	127001161	2.710000e-22	117.0
8	TraesCS2A01G175400	chr2D	83.065	124	8	5	4176	4286	127000415	127000292	2.730000e-17	100.0
9	TraesCS2A01G175400	chr2B	96.805	1753	51	5	6	1753	180620267	180618515	0.000000e+00	2922.0
10	TraesCS2A01G175400	chr2B	90.878	1480	109	9	2716	4176	180617256	180615784	0.000000e+00	1962.0
11	TraesCS2A01G175400	chr2B	91.667	564	23	11	2138	2688	61125059	61125611	0.000000e+00	760.0
12	TraesCS2A01G175400	chr2B	93.939	495	15	8	2118	2604	180617961	180617474	0.000000e+00	734.0
13	TraesCS2A01G175400	chr2B	85.737	617	83	3	3008	3624	180613993	180614604	0.000000e+00	647.0
14	TraesCS2A01G175400	chr2B	95.957	371	13	1	1749	2119	180618490	180618122	6.130000e-168	601.0
15	TraesCS2A01G175400	chr2B	88.147	464	43	5	3646	4109	180614715	180615166	3.770000e-150	542.0
16	TraesCS2A01G175400	chr2B	93.671	158	10	0	2258	2415	61922338	61922495	1.990000e-58	237.0
17	TraesCS2A01G175400	chr2B	95.833	120	5	0	1841	1960	61124938	61125057	1.220000e-45	195.0
18	TraesCS2A01G175400	chr2B	88.710	124	1	1	4176	4286	180615166	180615043	5.780000e-29	139.0
19	TraesCS2A01G175400	chr2B	87.619	105	5	4	2608	2711	180617413	180617316	9.740000e-22	115.0
20	TraesCS2A01G175400	chr5A	85.577	624	69	20	844	1456	110674692	110674079	6.050000e-178	634.0
21	TraesCS2A01G175400	chr5D	83.771	647	87	16	840	1476	107789959	107789321	7.930000e-167	597.0
22	TraesCS2A01G175400	chr5D	89.231	65	4	3	3900	3962	15328600	15328663	1.280000e-10	78.7
23	TraesCS2A01G175400	chr5B	83.148	629	85	19	840	1456	117909091	117908472	4.840000e-154	555.0
24	TraesCS2A01G175400	chr5B	83.700	227	32	5	3952	4176	13459737	13459960	4.340000e-50	209.0
25	TraesCS2A01G175400	chr6D	85.356	478	61	7	840	1313	438551092	438550620	1.790000e-133	486.0
26	TraesCS2A01G175400	chr6D	89.313	131	14	0	1346	1476	438550617	438550487	9.530000e-37	165.0
27	TraesCS2A01G175400	chr1A	84.435	469	59	11	850	1311	44978626	44979087	2.350000e-122	449.0
28	TraesCS2A01G175400	chr1B	92.216	167	13	0	2258	2424	96875202	96875368	1.990000e-58	237.0
29	TraesCS2A01G175400	chr1B	90.000	60	4	2	4226	4284	309171208	309171150	4.600000e-10	76.8
30	TraesCS2A01G175400	chr7B	91.018	167	15	0	2258	2424	76935691	76935857	4.310000e-55	226.0
31	TraesCS2A01G175400	chr7B	79.032	124	12	4	4174	4284	183549598	183549720	5.940000e-09	73.1
32	TraesCS2A01G175400	chr4B	85.437	103	10	5	3862	3962	120444490	120444391	7.580000e-18	102.0
33	TraesCS2A01G175400	chr7A	91.525	59	5	0	4226	4284	230086378	230086320	9.880000e-12	82.4

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	TraesCS2A01G175400	chr2A	133703473	133707758	4285	True	7915.000000	7915	100.0000	1	4286	1	chr2A.!!$R1	4285
1	TraesCS2A01G175400	chr2A	133702774	133703773	999	False	830.000000	830	82.1190	3284	4286	1	chr2A.!!$F1	1002
2	TraesCS2A01G175400	chr2D	127000292	127005159	4867	True	2202.333333	3611	91.1650	1	4286	3	chr2D.!!$R1	4285
3	TraesCS2A01G175400	chr2D	126999119	127001161	2042	False	842.500000	1568	86.4420	2799	4286	2	chr2D.!!$F3	1487
4	TraesCS2A01G175400	chr2B	180615043	180620267	5224	True	1078.833333	2922	92.3180	6	4286	6	chr2B.!!$R1	4280
5	TraesCS2A01G175400	chr2B	180613993	180615166	1173	False	594.500000	647	86.9420	3008	4109	2	chr2B.!!$F3	1101
6	TraesCS2A01G175400	chr2B	61124938	61125611	673	False	477.500000	760	93.7500	1841	2688	2	chr2B.!!$F2	847
7	TraesCS2A01G175400	chr5A	110674079	110674692	613	True	634.000000	634	85.5770	844	1456	1	chr5A.!!$R1	612
8	TraesCS2A01G175400	chr5D	107789321	107789959	638	True	597.000000	597	83.7710	840	1476	1	chr5D.!!$R1	636
9	TraesCS2A01G175400	chr5B	117908472	117909091	619	True	555.000000	555	83.1480	840	1456	1	chr5B.!!$R1	616
10	TraesCS2A01G175400	chr6D	438550487	438551092	605	True	325.500000	486	87.3345	840	1476	2	chr6D.!!$R1	636

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
678	680	0.879765	CACCTTTCTGGCTGAAGCTG	59.120	55.000	6.91	3.2	41.70	4.24	F
2302	2522	2.171003	GTCAGGTAGGCCATTTTGCTT	58.829	47.619	5.01	0.0	37.19	3.91	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2343	2563	1.265236	TCCCATGGTTGCCAAATGAC	58.735	50.0	11.73	0.00	36.95	3.06	R
3625	3974	0.101399	AGACAAGGATCAGCTACGCG	59.899	55.0	3.53	3.53	0.00	6.01	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
120	121	2.224784	ACGTGAAAGGCGTTTATGTTCC	59.775	45.455	4.03	0.00	39.79	3.62
637	639	9.807649	TGATGATATTGTATAGGATTGATCACG	57.192	33.333	0.00	0.00	0.00	4.35
678	680	0.879765	CACCTTTCTGGCTGAAGCTG	59.120	55.000	6.91	3.20	41.70	4.24
688	690	3.603532	TGGCTGAAGCTGTTAGAGATTG	58.396	45.455	1.74	0.00	41.70	2.67
694	696	7.606224	GCTGAAGCTGTTAGAGATTGTCTCTG	61.606	46.154	17.41	4.23	44.74	3.35
975	981	9.538508	GGATTATTTGGTGTAGTAATAACTCGT	57.461	33.333	0.00	0.00	37.15	4.18
1014	1020	4.162651	AGCAAACAATGGAGAGGGAAATT	58.837	39.130	0.00	0.00	0.00	1.82
1078	1086	9.558396	GGATTTTTGAGAGTTCAGATGAGATAT	57.442	33.333	0.00	0.00	34.15	1.63
1493	1509	9.814899	CCTAGAGCATATATTAGTTTCTGGATG	57.185	37.037	0.00	0.00	0.00	3.51
1617	1633	3.577389	GCCAATAGCAGTTCCCAGT	57.423	52.632	0.00	0.00	42.97	4.00
1643	1659	4.343814	GGTCATTCAGGGTTTTCCTTTTCA	59.656	41.667	0.00	0.00	45.47	2.69
1649	1665	6.552445	TCAGGGTTTTCCTTTTCATTTTCA	57.448	33.333	0.00	0.00	45.47	2.69
1772	1830	8.908786	ATATCATTATTGGTGTCCACTGTTAG	57.091	34.615	0.00	0.00	30.78	2.34
1776	1834	4.553330	ATTGGTGTCCACTGTTAGTAGG	57.447	45.455	0.00	0.00	30.78	3.18
1858	1916	3.079960	TCGCCGAATGTTCTGAGTATC	57.920	47.619	0.00	0.00	0.00	2.24
1906	1964	8.925161	TTGTTGGACTTTTGAGAGTTAATTTG	57.075	30.769	0.00	0.00	0.00	2.32
2135	2355	7.287061	TGGCATATAGTACATTTTACTTGCCT	58.713	34.615	18.29	0.00	43.81	4.75
2158	2378	3.788434	ATACTGTTCGTTGTGCTTTCG	57.212	42.857	0.00	0.00	0.00	3.46
2302	2522	2.171003	GTCAGGTAGGCCATTTTGCTT	58.829	47.619	5.01	0.00	37.19	3.91
2315	2535	5.550290	CCATTTTGCTTTACCATTTCCTGT	58.450	37.500	0.00	0.00	0.00	4.00
2343	2563	3.684305	TGCTATGTTCAGATTGTTCGGTG	59.316	43.478	0.00	0.00	0.00	4.94
2417	2637	4.353383	AGTTCCAACTTCCAACTACTCC	57.647	45.455	0.00	0.00	35.21	3.85
2479	2712	5.962433	TCCAGTCTTTATTGTCGGACTAAG	58.038	41.667	9.88	7.83	36.99	2.18
2509	2742	9.605275	CTTATCCAAATGAGTACTCTTGATTGA	57.395	33.333	23.01	12.67	0.00	2.57
2557	2790	3.561143	TGTCTTAAGTTGCACCAACCAT	58.439	40.909	1.63	0.00	44.49	3.55
2584	2817	8.918202	TGATTTATGTAGTTGAAGGAGTTTGT	57.082	30.769	0.00	0.00	0.00	2.83
2585	2818	9.349713	TGATTTATGTAGTTGAAGGAGTTTGTT	57.650	29.630	0.00	0.00	0.00	2.83
2605	2838	6.569179	TGTTTTAAGGCAAAGTCTGGATAC	57.431	37.500	0.00	0.00	0.00	2.24
2621	2911	2.629617	GGATACCATTTTCCCCTGCATG	59.370	50.000	0.00	0.00	0.00	4.06
2625	2915	0.108041	CATTTTCCCCTGCATGCCAC	60.108	55.000	16.68	0.00	0.00	5.01
2649	2939	3.118665	GCCCTTGCCATTTCATGTTACAT	60.119	43.478	0.00	0.00	0.00	2.29
2650	2940	4.435425	CCCTTGCCATTTCATGTTACATG	58.565	43.478	18.35	18.35	0.00	3.21
2651	2941	4.160065	CCCTTGCCATTTCATGTTACATGA	59.840	41.667	22.39	22.39	0.00	3.07
2652	2942	5.345702	CCTTGCCATTTCATGTTACATGAG	58.654	41.667	24.35	15.67	0.00	2.90
2701	2991	7.341445	TGGTTTATTATTATCCTGCACCAAC	57.659	36.000	0.00	0.00	0.00	3.77
2702	2992	6.038825	TGGTTTATTATTATCCTGCACCAACG	59.961	38.462	0.00	0.00	0.00	4.10
2703	2993	6.261381	GGTTTATTATTATCCTGCACCAACGA	59.739	38.462	0.00	0.00	0.00	3.85
2704	2994	7.352739	GTTTATTATTATCCTGCACCAACGAG	58.647	38.462	0.00	0.00	0.00	4.18
2744	3089	4.578516	TCACCAAGTTAACCATCTGTTGTG	59.421	41.667	0.88	0.00	37.83	3.33
2856	3201	0.607217	TTGTCATCAGGCAGCTGGTG	60.607	55.000	17.12	1.76	36.83	4.17
2874	3219	2.028930	GGTGAAGATCCGCACTATAGGG	60.029	54.545	13.34	0.00	35.43	3.53
2904	3249	1.966451	CACCGACTGCCCCAAGTTC	60.966	63.158	0.00	0.00	0.00	3.01
2960	3305	1.369625	GTGGCGTCATTGTTCCCTAG	58.630	55.000	0.00	0.00	0.00	3.02
3045	3390	1.827969	CCCGAGAGAATCACCTTCACT	59.172	52.381	0.00	0.00	37.48	3.41
3210	3555	1.966451	CGGGAAGCTGGTGTGGTTC	60.966	63.158	0.00	0.00	41.92	3.62
3281	3627	3.771491	GCAGCAGCGTCGTGAGTG	61.771	66.667	0.00	0.00	0.00	3.51
3358	3705	2.385803	AGTACTTAGGTGGGTGGATCG	58.614	52.381	0.00	0.00	0.00	3.69
3386	3733	3.196469	TGGAACAATGTTTGCTTGGTTCA	59.804	39.130	0.00	0.00	31.92	3.18
3410	3757	2.737252	GCCTTTAGTCCTCTTCGTGTTG	59.263	50.000	0.00	0.00	0.00	3.33
3420	3767	3.502990	TTCGTGTTGGTCCGACGGG	62.503	63.158	15.25	0.00	33.88	5.28
3438	3785	1.509644	GGTGGTTCGTTCCGGGAAAC	61.510	60.000	11.82	6.29	0.00	2.78
3479	3827	1.939838	GCAGACGACGGAGATGGTTTT	60.940	52.381	0.00	0.00	0.00	2.43
3480	3828	1.726791	CAGACGACGGAGATGGTTTTG	59.273	52.381	0.00	0.00	0.00	2.44
3481	3829	1.343465	AGACGACGGAGATGGTTTTGT	59.657	47.619	0.00	0.00	0.00	2.83
3577	3926	4.822036	TTTTATGGTGTTGTGAACTCCG	57.178	40.909	0.00	0.00	45.63	4.63
3595	3944	4.577283	ACTCCGTTCTGTCTAGCTAAGATC	59.423	45.833	0.00	0.00	36.36	2.75
3625	3974	1.284297	GCCGGCATGTGTTTTCTTGC	61.284	55.000	24.80	0.00	37.63	4.01
3688	4127	3.158676	ACCCAGAGCTATAGATTCGTCC	58.841	50.000	3.21	0.00	0.00	4.79
3691	4130	2.814919	CAGAGCTATAGATTCGTCCGGT	59.185	50.000	3.21	0.00	0.00	5.28
3699	4138	2.703416	AGATTCGTCCGGTTTTTACCC	58.297	47.619	0.00	0.00	0.00	3.69
3722	4161	4.202010	CGATGTGGGTTCAGTGTTTTTCTT	60.202	41.667	0.00	0.00	0.00	2.52
3725	4164	3.028130	TGGGTTCAGTGTTTTTCTTCCC	58.972	45.455	0.00	0.00	0.00	3.97
3996	4448	6.034256	CACTTTGATGCAGCTATTTTTGTAGC	59.966	38.462	2.53	0.00	45.83	3.58
4000	4453	1.743394	GCAGCTATTTTTGTAGCCCGT	59.257	47.619	2.54	0.00	46.48	5.28
4055	4521	1.378778	CCTCGGAACTCTCCCTCGT	60.379	63.158	0.00	0.00	38.71	4.18
4063	4542	2.233305	ACTCTCCCTCGTAACACCAT	57.767	50.000	0.00	0.00	0.00	3.55
4112	4591	2.867975	AGCAAACAATTCAAGCAGCAAC	59.132	40.909	0.00	0.00	0.00	4.17
4224	5602	6.409234	CCATATTAGGACAAGTGGTATGTGGT	60.409	42.308	0.00	0.00	0.00	4.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
637	639	2.288395	CCAAAATGGTGAACAGAGGCAC	60.288	50.000	0.00	0.00	31.35	5.01
688	690	9.736023	AATAGTTTCATGTTGAAAAACAGAGAC	57.264	29.630	4.37	2.09	46.53	3.36
975	981	5.221641	TGTTTGCTTCAGCCTAGAACTCTAA	60.222	40.000	0.00	0.00	41.18	2.10
1078	1086	9.456147	GGAGATATACTCAGCTAGATCTGTTAA	57.544	37.037	5.18	0.00	46.54	2.01
1250	1259	5.022282	TCAGATGCAATAATCCGAACTGA	57.978	39.130	0.00	0.00	0.00	3.41
1493	1509	6.533367	TGTAAAATGAAACTCAGGCAACAAAC	59.467	34.615	0.00	0.00	41.41	2.93
1617	1633	2.178984	AGGAAAACCCTGAATGACCCAA	59.821	45.455	0.00	0.00	45.61	4.12
1643	1659	8.752187	ACCATATGCAGTACAGAAAATGAAAAT	58.248	29.630	0.00	0.00	0.00	1.82
1649	1665	7.283127	CCTAACACCATATGCAGTACAGAAAAT	59.717	37.037	0.00	0.00	0.00	1.82
1749	1765	6.721318	ACTAACAGTGGACACCAATAATGAT	58.279	36.000	0.00	0.00	34.18	2.45
1753	1769	5.544948	ACCTACTAACAGTGGACACCAATAA	59.455	40.000	0.00	0.00	34.18	1.40
1754	1770	5.088730	ACCTACTAACAGTGGACACCAATA	58.911	41.667	0.00	0.00	34.18	1.90
1755	1771	3.908103	ACCTACTAACAGTGGACACCAAT	59.092	43.478	0.00	0.00	34.18	3.16
1756	1772	3.311091	ACCTACTAACAGTGGACACCAA	58.689	45.455	0.00	0.00	34.18	3.67
1757	1773	2.966915	ACCTACTAACAGTGGACACCA	58.033	47.619	0.00	0.00	0.00	4.17
1758	1774	5.394993	GGATAACCTACTAACAGTGGACACC	60.395	48.000	0.00	0.00	0.00	4.16
1772	1830	3.906720	TTGACAGGCAGGATAACCTAC	57.093	47.619	0.00	0.00	45.94	3.18
1776	1834	3.281727	TGGATTGACAGGCAGGATAAC	57.718	47.619	0.00	0.00	0.00	1.89
1858	1916	4.460382	AGTTGGACATTTATCAAGCACCAG	59.540	41.667	0.00	0.00	0.00	4.00
1906	1964	7.277098	TGTGAACACTTACACTTTTGACTACTC	59.723	37.037	6.51	0.00	37.81	2.59
2026	2084	6.017026	CCAACTCTAAACCTGGTCTTTCTTTC	60.017	42.308	0.00	0.00	0.00	2.62
2135	2355	4.318475	CGAAAGCACAACGAACAGTATTCA	60.318	41.667	0.00	0.00	0.00	2.57
2158	2378	9.005777	TCTTTCACCATGTTAAAATACCAGTAC	57.994	33.333	0.00	0.00	0.00	2.73
2302	2522	5.499004	AGCAGACTAACAGGAAATGGTAA	57.501	39.130	0.00	0.00	28.19	2.85
2315	2535	6.531594	CGAACAATCTGAACATAGCAGACTAA	59.468	38.462	0.00	0.00	44.39	2.24
2343	2563	1.265236	TCCCATGGTTGCCAAATGAC	58.735	50.000	11.73	0.00	36.95	3.06
2417	2637	3.747521	TTGGTGGTGGGGGTTGCAG	62.748	63.158	0.00	0.00	0.00	4.41
2479	2712	6.168270	AGAGTACTCATTTGGATAAGCTCC	57.832	41.667	24.44	0.00	45.19	4.70
2583	2816	5.475564	TGGTATCCAGACTTTGCCTTAAAAC	59.524	40.000	0.00	0.00	0.00	2.43
2584	2817	5.636123	TGGTATCCAGACTTTGCCTTAAAA	58.364	37.500	0.00	0.00	0.00	1.52
2585	2818	5.249780	TGGTATCCAGACTTTGCCTTAAA	57.750	39.130	0.00	0.00	0.00	1.52
2586	2819	4.919774	TGGTATCCAGACTTTGCCTTAA	57.080	40.909	0.00	0.00	0.00	1.85
2587	2820	5.450818	AATGGTATCCAGACTTTGCCTTA	57.549	39.130	0.00	0.00	36.75	2.69
2605	2838	1.266160	TGGCATGCAGGGGAAAATGG	61.266	55.000	21.36	0.00	0.00	3.16
2621	2911	2.511545	GAAATGGCAAGGGCAGTGGC	62.512	60.000	8.47	8.47	42.43	5.01
2625	2915	3.752796	CATGAAATGGCAAGGGCAG	57.247	52.632	0.00	0.00	41.79	4.85
2688	2978	3.410631	TTTTCTCGTTGGTGCAGGATA	57.589	42.857	0.00	0.00	0.00	2.59
2689	2979	2.270352	TTTTCTCGTTGGTGCAGGAT	57.730	45.000	0.00	0.00	0.00	3.24
2775	3120	3.131396	GTTTATGGAGTAGACATGGCCG	58.869	50.000	0.00	0.00	0.00	6.13
2856	3201	2.231721	GACCCCTATAGTGCGGATCTTC	59.768	54.545	0.00	0.00	0.00	2.87
2904	3249	1.326328	TGCTGAGGAGGATGAGATCG	58.674	55.000	0.00	0.00	0.00	3.69
2937	3282	1.206578	GAACAATGACGCCACGTGG	59.793	57.895	30.66	30.66	41.37	4.94
2940	3285	0.390603	TAGGGAACAATGACGCCACG	60.391	55.000	0.00	0.00	0.00	4.94
2977	3322	0.319641	GTCACCCAGTCGTCCTTCAC	60.320	60.000	0.00	0.00	0.00	3.18
3024	3369	0.537188	TGAAGGTGATTCTCTCGGGC	59.463	55.000	0.00	0.00	38.83	6.13
3045	3390	1.480954	GCCGAGTTTATCACAGGGAGA	59.519	52.381	0.00	0.00	0.00	3.71
3210	3555	4.785453	GCGGCCTCCTTGTCCAGG	62.785	72.222	0.00	0.00	45.64	4.45
3272	3617	2.161808	TCACTAAGCTAGCACTCACGAC	59.838	50.000	18.83	0.00	0.00	4.34
3281	3627	2.607180	GCTTTGCTCTCACTAAGCTAGC	59.393	50.000	6.62	6.62	42.63	3.42
3358	3705	5.577945	CCAAGCAAACATTGTTCCATCATAC	59.422	40.000	1.83	0.00	0.00	2.39
3386	3733	1.617357	ACGAAGAGGACTAAAGGCGTT	59.383	47.619	0.00	0.00	0.00	4.84
3410	3757	4.729856	CGAACCACCCGTCGGACC	62.730	72.222	14.39	0.00	0.00	4.46
3455	3803	0.803768	CATCTCCGTCGTCTGCCAAG	60.804	60.000	0.00	0.00	0.00	3.61
3479	3827	1.719725	AACATCAACGCCGCACAACA	61.720	50.000	0.00	0.00	0.00	3.33
3480	3828	0.593773	AAACATCAACGCCGCACAAC	60.594	50.000	0.00	0.00	0.00	3.32
3481	3829	0.945099	TAAACATCAACGCCGCACAA	59.055	45.000	0.00	0.00	0.00	3.33
3595	3944	3.117794	CACATGCCGGCAAAATAATCTG	58.882	45.455	36.33	25.94	0.00	2.90
3625	3974	0.101399	AGACAAGGATCAGCTACGCG	59.899	55.000	3.53	3.53	0.00	6.01
3640	4079	1.063912	CAGCGCTTCAAACAACAGACA	59.936	47.619	7.50	0.00	0.00	3.41
3699	4138	3.315191	AGAAAAACACTGAACCCACATCG	59.685	43.478	0.00	0.00	0.00	3.84
3722	4161	7.890127	ACAAGAAATCACAAGAAATATCAGGGA	59.110	33.333	0.00	0.00	0.00	4.20
3725	4164	9.903682	AACACAAGAAATCACAAGAAATATCAG	57.096	29.630	0.00	0.00	0.00	2.90
3851	4295	1.711060	AAACGGTGCGGATAATGGCG	61.711	55.000	0.00	0.00	0.00	5.69
3875	4327	0.249031	GGACAAGTGTGCAAAGTGGC	60.249	55.000	0.00	0.00	36.33	5.01
3996	4448	2.100631	GCGATGGACAAGTGACGGG	61.101	63.158	0.00	0.00	0.00	5.28
4000	4453	3.521560	GAAGTATGCGATGGACAAGTGA	58.478	45.455	0.00	0.00	0.00	3.41
4055	4521	7.736881	TTAGGACAAGTGGTATATGGTGTTA	57.263	36.000	0.00	0.00	0.00	2.41
4063	4542	6.785466	TCTGCCATATTAGGACAAGTGGTATA	59.215	38.462	0.00	0.00	0.00	1.47
4112	4591	2.768253	TGTCTAGTGTGCTCCATTGG	57.232	50.000	0.00	0.00	0.00	3.16
4224	5602	3.564053	AAACTGTAAACCCTCGGAACA	57.436	42.857	0.00	0.00	0.00	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.