AutoCloner

Multiple sequence alignment - TraesCS7A01G168000

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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	TraesCS7A01G168000	chr7A	100.000	2911	0	0	1	2911	124411776	124408866	0.000000e+00	5376.0
1	TraesCS7A01G168000	chr7A	92.597	1837	71	29	604	2406	124457265	124455460	0.000000e+00	2579.0
2	TraesCS7A01G168000	chr7A	92.727	605	39	5	1	602	642530660	642531262	0.000000e+00	869.0
3	TraesCS7A01G168000	chr7A	91.724	580	33	7	3	569	79595105	79594528	0.000000e+00	791.0
4	TraesCS7A01G168000	chr7A	89.825	285	19	4	2423	2704	124149836	124149559	9.920000e-95	357.0
5	TraesCS7A01G168000	chr7A	80.131	458	63	11	1584	2027	124454584	124454141	1.680000e-82	316.0
6	TraesCS7A01G168000	chr7A	94.545	110	6	0	2802	2911	124149510	124149401	1.390000e-38	171.0
7	TraesCS7A01G168000	chr7A	96.154	52	2	0	829	880	124457076	124457025	5.170000e-13	86.1
8	TraesCS7A01G168000	chr7A	94.231	52	3	0	789	840	124410948	124410897	2.400000e-11	80.5
9	TraesCS7A01G168000	chr7A	94.231	52	3	0	829	880	124410988	124410937	2.400000e-11	80.5
10	TraesCS7A01G168000	chr7A	94.231	52	3	0	789	840	124457036	124456985	2.400000e-11	80.5
11	TraesCS7A01G168000	chr7D	94.227	1455	53	15	845	2287	119761559	119760124	0.000000e+00	2193.0
12	TraesCS7A01G168000	chr7D	79.746	1101	145	39	952	2031	119747676	119746633	0.000000e+00	726.0
13	TraesCS7A01G168000	chr7D	88.017	242	10	10	604	840	119767903	119767676	4.780000e-68	268.0
14	TraesCS7A01G168000	chr7D	86.957	92	5	4	2106	2192	119746641	119746552	2.390000e-16	97.1
15	TraesCS7A01G168000	chr7B	92.833	1451	63	22	829	2270	80710231	80708813	0.000000e+00	2065.0
16	TraesCS7A01G168000	chr7B	80.543	884	115	31	961	1826	80688857	80688013	6.850000e-176	627.0
17	TraesCS7A01G168000	chr7B	87.048	525	36	6	2413	2911	80707068	80706550	5.450000e-157	564.0
18	TraesCS7A01G168000	chr7B	89.881	168	7	6	604	770	80710543	80710385	1.060000e-49	207.0
19	TraesCS7A01G168000	chr7B	94.340	53	3	0	788	840	80710232	80710180	6.690000e-12	82.4
20	TraesCS7A01G168000	chr4B	91.866	627	25	5	1	603	529340084	529339460	0.000000e+00	852.0
21	TraesCS7A01G168000	chr2B	92.870	575	37	4	1	573	679814074	679813502	0.000000e+00	832.0
22	TraesCS7A01G168000	chr5B	94.084	524	23	6	1	522	476075156	476074639	0.000000e+00	789.0
23	TraesCS7A01G168000	chr5B	89.421	605	22	20	1	603	610282757	610283321	0.000000e+00	725.0
24	TraesCS7A01G168000	chr5B	92.105	76	5	1	534	609	476074322	476074248	3.970000e-19	106.0
25	TraesCS7A01G168000	chr1A	84.375	288	33	9	3	284	64835344	64835063	3.700000e-69	272.0
26	TraesCS7A01G168000	chr3B	83.513	279	38	7	10	283	697981033	697981308	1.340000e-63	254.0
27	TraesCS7A01G168000	chr2D	82.639	288	39	9	3	283	27317625	27317342	8.060000e-61	244.0
28	TraesCS7A01G168000	chr5A	82.414	290	38	9	3	285	565725300	565725583	1.040000e-59	241.0
29	TraesCS7A01G168000	chr1B	80.272	294	47	9	318	603	152516583	152516873	8.170000e-51	211.0

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	TraesCS7A01G168000	chr7A	124408866	124411776	2910	True	1845.666667	5376	96.15400	1	2911	3	chr7A.!!$R3	2910
1	TraesCS7A01G168000	chr7A	642530660	642531262	602	False	869.000000	869	92.72700	1	602	1	chr7A.!!$F1	601
2	TraesCS7A01G168000	chr7A	79594528	79595105	577	True	791.000000	791	91.72400	3	569	1	chr7A.!!$R1	566
3	TraesCS7A01G168000	chr7A	124454141	124457265	3124	True	765.400000	2579	90.77825	604	2406	4	chr7A.!!$R4	1802
4	TraesCS7A01G168000	chr7D	119760124	119761559	1435	True	2193.000000	2193	94.22700	845	2287	1	chr7D.!!$R1	1442
5	TraesCS7A01G168000	chr7D	119746552	119747676	1124	True	411.550000	726	83.35150	952	2192	2	chr7D.!!$R3	1240
6	TraesCS7A01G168000	chr7B	80706550	80710543	3993	True	729.600000	2065	91.02550	604	2911	4	chr7B.!!$R2	2307
7	TraesCS7A01G168000	chr7B	80688013	80688857	844	True	627.000000	627	80.54300	961	1826	1	chr7B.!!$R1	865
8	TraesCS7A01G168000	chr4B	529339460	529340084	624	True	852.000000	852	91.86600	1	603	1	chr4B.!!$R1	602
9	TraesCS7A01G168000	chr2B	679813502	679814074	572	True	832.000000	832	92.87000	1	573	1	chr2B.!!$R1	572
10	TraesCS7A01G168000	chr5B	610282757	610283321	564	False	725.000000	725	89.42100	1	603	1	chr5B.!!$F1	602
11	TraesCS7A01G168000	chr5B	476074248	476075156	908	True	447.500000	789	93.09450	1	609	2	chr5B.!!$R1	608

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
792	1287	1.675483	AGATGCAAACGCAACACAAGA	59.325	42.857	0.0	0.0	44.09	3.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2513	4778	0.03582	GAGTATCCGGCACACCCAAA	60.036	55.0	0.0	0.0	0.0	3.28	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
128	139	7.905493	GCCGAGATCTTTAAAACAAGACTAATG	59.095	37.037	0.00	0.00	35.57	1.90
455	486	5.398236	TGAAAAAGTATGGGATGGTGGAAA	58.602	37.500	0.00	0.00	0.00	3.13
612	970	1.878953	TGCTTTTCTCCGTCACCTTC	58.121	50.000	0.00	0.00	0.00	3.46
663	1021	7.988599	CAGGAAGTACTCTAGCTACTCTCTAAA	59.011	40.741	0.00	0.00	0.00	1.85
669	1027	9.777575	GTACTCTAGCTACTCTCTAAAGTTTTG	57.222	37.037	0.00	0.00	0.00	2.44
670	1028	7.317390	ACTCTAGCTACTCTCTAAAGTTTTGC	58.683	38.462	0.00	0.00	0.00	3.68
671	1029	7.039644	ACTCTAGCTACTCTCTAAAGTTTTGCA	60.040	37.037	0.00	0.00	0.00	4.08
672	1030	7.316640	TCTAGCTACTCTCTAAAGTTTTGCAG	58.683	38.462	0.00	0.00	0.00	4.41
673	1031	4.693095	AGCTACTCTCTAAAGTTTTGCAGC	59.307	41.667	0.00	0.00	0.00	5.25
674	1032	4.693095	GCTACTCTCTAAAGTTTTGCAGCT	59.307	41.667	0.00	0.00	0.00	4.24
681	1039	5.821204	TCTAAAGTTTTGCAGCTCTCAAAC	58.179	37.500	9.49	6.61	33.66	2.93
792	1287	1.675483	AGATGCAAACGCAACACAAGA	59.325	42.857	0.00	0.00	44.09	3.02
1241	1764	3.147553	TGTCCATTTCCCGTGATTTGA	57.852	42.857	0.00	0.00	0.00	2.69
1281	1804	7.440198	TCATACTACTGCGTACTAGACACTAT	58.560	38.462	0.00	0.00	0.00	2.12
1282	1805	8.579863	TCATACTACTGCGTACTAGACACTATA	58.420	37.037	0.00	0.00	0.00	1.31
1328	1855	3.874807	TATGTGTGGTGTGCGCGCT	62.875	57.895	33.29	10.23	0.00	5.92
1350	1877	2.163815	CAGGTCGTACAAGAAGTCCGAT	59.836	50.000	0.00	0.00	40.75	4.18
1358	1885	0.905357	AAGAAGTCCGATCACCCCAG	59.095	55.000	0.00	0.00	0.00	4.45
1462	1989	3.073062	ACAGATCAGGGTATGGGTTATGC	59.927	47.826	0.00	0.00	0.00	3.14
1593	2124	2.185350	CACGAGCGGCTGGAGAAT	59.815	61.111	19.15	0.00	0.00	2.40
1668	2199	2.433318	GCGCTCAAGAACTCCGCT	60.433	61.111	0.00	0.00	41.28	5.52
1746	2280	1.153549	GGAGAACGCTCGCCTCAAT	60.154	57.895	0.86	0.00	42.25	2.57
1782	2316	2.486982	CTGCACCACATCTTTCCAAGAG	59.513	50.000	0.00	0.00	41.61	2.85
1921	2455	7.718753	AGAGACATGATTTGGTCCTGATTAATC	59.281	37.037	8.60	8.60	34.58	1.75
1939	2473	9.206690	TGATTAATCCTTAGTTGTCAGATCTCT	57.793	33.333	12.90	0.00	0.00	3.10
1940	2474	9.691362	GATTAATCCTTAGTTGTCAGATCTCTC	57.309	37.037	3.92	0.00	0.00	3.20
1965	2508	0.673437	AGTCGTGGGCAATTTGTTGG	59.327	50.000	0.00	0.00	0.00	3.77
2010	2567	2.332654	GCCTACACAAACTGCCGGG	61.333	63.158	2.18	0.00	0.00	5.73
2079	2637	3.636153	AGAAGCTCCAACATTACTCCC	57.364	47.619	0.00	0.00	0.00	4.30
2199	2767	8.757982	TGGTTTCCTTCGATAATACTAGTAGT	57.242	34.615	8.85	8.47	0.00	2.73
2200	2768	9.851686	TGGTTTCCTTCGATAATACTAGTAGTA	57.148	33.333	12.13	12.13	34.82	1.82
2216	2784	2.140839	AGTAGATCCCGTCGTTCCTT	57.859	50.000	0.00	0.00	0.00	3.36
2217	2785	2.454538	AGTAGATCCCGTCGTTCCTTT	58.545	47.619	0.00	0.00	0.00	3.11
2218	2786	2.830321	AGTAGATCCCGTCGTTCCTTTT	59.170	45.455	0.00	0.00	0.00	2.27
2219	2787	2.094762	AGATCCCGTCGTTCCTTTTG	57.905	50.000	0.00	0.00	0.00	2.44
2220	2788	0.446616	GATCCCGTCGTTCCTTTTGC	59.553	55.000	0.00	0.00	0.00	3.68
2221	2789	0.036306	ATCCCGTCGTTCCTTTTGCT	59.964	50.000	0.00	0.00	0.00	3.91
2222	2790	0.882927	TCCCGTCGTTCCTTTTGCTG	60.883	55.000	0.00	0.00	0.00	4.41
2251	2836	1.248785	TGTGACTACTGTCCCGCTCC	61.249	60.000	0.00	0.00	42.28	4.70
2284	2869	2.815647	CGGCGGCTTGGTTCTCTC	60.816	66.667	7.61	0.00	0.00	3.20
2286	2871	2.815647	GCGGCTTGGTTCTCTCCG	60.816	66.667	0.00	0.00	42.68	4.63
2287	2872	2.125512	CGGCTTGGTTCTCTCCGG	60.126	66.667	0.00	0.00	36.73	5.14
2288	2873	2.436824	GGCTTGGTTCTCTCCGGC	60.437	66.667	0.00	0.00	0.00	6.13
2289	2874	2.347490	GCTTGGTTCTCTCCGGCA	59.653	61.111	0.00	0.00	0.00	5.69
2304	2889	2.047274	GCAGCAGCGTCAACCCTA	60.047	61.111	0.00	0.00	0.00	3.53
2326	2911	1.107114	AGATGCGAGACCGTGAGAAT	58.893	50.000	0.00	0.00	38.24	2.40
2336	2921	1.135139	ACCGTGAGAATCTCATCACCG	59.865	52.381	16.68	14.12	42.73	4.94
2337	2922	1.203928	CGTGAGAATCTCATCACCGC	58.796	55.000	16.68	1.32	42.73	5.68
2338	2923	1.203928	GTGAGAATCTCATCACCGCG	58.796	55.000	16.68	0.00	42.73	6.46
2339	2924	1.102978	TGAGAATCTCATCACCGCGA	58.897	50.000	8.23	0.00	35.39	5.87
2340	2925	1.202302	TGAGAATCTCATCACCGCGAC	60.202	52.381	8.23	0.00	35.39	5.19
2341	2926	0.817654	AGAATCTCATCACCGCGACA	59.182	50.000	8.23	0.00	0.00	4.35
2342	2927	0.924090	GAATCTCATCACCGCGACAC	59.076	55.000	8.23	0.00	0.00	3.67
2343	2928	0.460284	AATCTCATCACCGCGACACC	60.460	55.000	8.23	0.00	0.00	4.16
2347	2932	2.048222	ATCACCGCGACACCACAG	60.048	61.111	8.23	0.00	0.00	3.66
2349	2943	4.969196	CACCGCGACACCACAGCT	62.969	66.667	8.23	0.00	0.00	4.24
2384	2981	7.874016	GGAGAGAGATCTAAGTATCTAACACGA	59.126	40.741	0.00	0.00	36.33	4.35
2406	3003	5.878116	CGACAAATCCAAGGAACAGGTTATA	59.122	40.000	0.00	0.00	0.00	0.98
2407	3004	6.183360	CGACAAATCCAAGGAACAGGTTATAC	60.183	42.308	0.00	0.00	0.00	1.47
2411	4673	1.931172	CAAGGAACAGGTTATACGCCG	59.069	52.381	0.00	0.00	0.00	6.46
2434	4696	2.338984	CTACCCCGCTCATACGCC	59.661	66.667	0.00	0.00	0.00	5.68
2439	4701	2.655364	CCGCTCATACGCCGACTG	60.655	66.667	0.00	0.00	0.00	3.51
2484	4746	0.796312	GTCTTGCACACACGGTATGG	59.204	55.000	0.00	0.00	0.00	2.74
2485	4747	0.682292	TCTTGCACACACGGTATGGA	59.318	50.000	0.00	0.00	0.00	3.41
2492	4757	1.626321	ACACACGGTATGGATGGTTGA	59.374	47.619	0.00	0.00	0.00	3.18
2503	4768	3.499338	TGGATGGTTGATTTGCTTGTCT	58.501	40.909	0.00	0.00	0.00	3.41
2504	4769	3.256383	TGGATGGTTGATTTGCTTGTCTG	59.744	43.478	0.00	0.00	0.00	3.51
2505	4770	3.367703	GGATGGTTGATTTGCTTGTCTGG	60.368	47.826	0.00	0.00	0.00	3.86
2506	4771	1.340889	TGGTTGATTTGCTTGTCTGGC	59.659	47.619	0.00	0.00	0.00	4.85
2507	4772	1.666888	GGTTGATTTGCTTGTCTGGCG	60.667	52.381	0.00	0.00	0.00	5.69
2508	4773	1.001378	GTTGATTTGCTTGTCTGGCGT	60.001	47.619	0.00	0.00	0.00	5.68
2509	4774	1.317613	TGATTTGCTTGTCTGGCGTT	58.682	45.000	0.00	0.00	0.00	4.84
2510	4775	1.001487	TGATTTGCTTGTCTGGCGTTG	60.001	47.619	0.00	0.00	0.00	4.10
2512	4777	0.100325	TTTGCTTGTCTGGCGTTGTG	59.900	50.000	0.00	0.00	0.00	3.33
2513	4778	1.029408	TTGCTTGTCTGGCGTTGTGT	61.029	50.000	0.00	0.00	0.00	3.72
2515	4780	0.100503	GCTTGTCTGGCGTTGTGTTT	59.899	50.000	0.00	0.00	0.00	2.83
2557	4825	3.325201	GATGGTGGTGGGGTCCGAC	62.325	68.421	0.00	0.00	0.00	4.79
2560	4828	4.675029	GTGGTGGGGTCCGACGTG	62.675	72.222	0.00	0.00	0.00	4.49
2579	4847	2.461110	CGCGTGCTTGTATCCCACC	61.461	63.158	0.00	0.00	0.00	4.61
2581	4849	1.298340	CGTGCTTGTATCCCACCCA	59.702	57.895	0.00	0.00	0.00	4.51
2582	4850	0.107214	CGTGCTTGTATCCCACCCAT	60.107	55.000	0.00	0.00	0.00	4.00
2709	4977	2.027192	AGCCCACATACTAGGTGTGTTG	60.027	50.000	21.65	15.78	44.15	3.33
2712	4980	2.742053	CCACATACTAGGTGTGTTGCAC	59.258	50.000	21.65	0.00	44.15	4.57
2735	5003	4.216902	CCCCGTCGTCTGTCATAATACATA	59.783	45.833	0.00	0.00	0.00	2.29
2736	5004	5.152097	CCCGTCGTCTGTCATAATACATAC	58.848	45.833	0.00	0.00	0.00	2.39
2750	5018	1.174783	ACATACGTCTTGCCGACTCT	58.825	50.000	0.00	0.00	40.59	3.24
2788	5056	3.245229	TGTTGGTTCCTGCTCCATGTTAT	60.245	43.478	0.00	0.00	33.50	1.89
2814	5102	1.743394	GATTGGTCACTAAAAGGCCCG	59.257	52.381	0.00	0.00	0.00	6.13
2834	5122	2.416566	CGACTCAGAGATGTTGGAGGTG	60.417	54.545	3.79	0.00	0.00	4.00
2837	5125	0.393537	CAGAGATGTTGGAGGTGGGC	60.394	60.000	0.00	0.00	0.00	5.36
2840	5128	1.077429	GATGTTGGAGGTGGGCTCC	60.077	63.158	0.00	0.00	41.21	4.70
2844	5132	3.498961	TTGGAGGTGGGCTCCTGGA	62.499	63.158	0.00	0.00	41.39	3.86
2874	5162	3.697166	GGGTTGCCCTTCTCAAAAGATA	58.303	45.455	0.00	0.00	41.34	1.98

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
455	486	3.129287	GCAAGCACATTGTACCAGCTATT	59.871	43.478	0.35	0.00	41.29	1.73
612	970	6.073548	GGAAAATATCACGCAGTCCTATTCTG	60.074	42.308	0.00	0.00	41.61	3.02
663	1021	4.365723	CATTGTTTGAGAGCTGCAAAACT	58.634	39.130	11.65	0.00	37.03	2.66
669	1027	4.708726	ATTACCATTGTTTGAGAGCTGC	57.291	40.909	0.00	0.00	0.00	5.25
670	1028	6.320171	CAGAATTACCATTGTTTGAGAGCTG	58.680	40.000	0.00	0.00	0.00	4.24
671	1029	5.416952	CCAGAATTACCATTGTTTGAGAGCT	59.583	40.000	0.00	0.00	0.00	4.09
672	1030	5.644644	CCAGAATTACCATTGTTTGAGAGC	58.355	41.667	0.00	0.00	0.00	4.09
673	1031	5.183713	TGCCAGAATTACCATTGTTTGAGAG	59.816	40.000	0.00	0.00	0.00	3.20
674	1032	5.076182	TGCCAGAATTACCATTGTTTGAGA	58.924	37.500	0.00	0.00	0.00	3.27
681	1039	9.603921	ATTAATCTTTTGCCAGAATTACCATTG	57.396	29.630	0.00	0.00	0.00	2.82
754	1114	3.260269	TCTCCTCCTCTCTTTTGGTGA	57.740	47.619	0.00	0.00	0.00	4.02
1241	1764	7.601886	GCAGTAGTATGAAGATGCATAGAACAT	59.398	37.037	0.00	6.30	31.80	2.71
1281	1804	8.579850	AATTGATTAGTTTCTGCCAATCACTA	57.420	30.769	0.00	0.00	37.18	2.74
1282	1805	7.472334	AATTGATTAGTTTCTGCCAATCACT	57.528	32.000	0.00	0.00	37.18	3.41
1358	1885	3.990141	GAGCGCACTCGATCTCAC	58.010	61.111	11.47	0.00	46.50	3.51
1366	1893	2.047844	TCCAAGCTGAGCGCACTC	60.048	61.111	11.47	0.00	43.76	3.51
1462	1989	3.204526	GGAGCAAATCAGAGATCCAGTG	58.795	50.000	0.00	0.00	0.00	3.66
1668	2199	3.246112	ACGCAGTTGGGGCAGGTA	61.246	61.111	1.19	0.00	37.78	3.08
1921	2455	5.507149	CGATGGAGAGATCTGACAACTAAGG	60.507	48.000	0.00	0.00	0.00	2.69
1939	2473	1.613317	ATTGCCCACGACTCGATGGA	61.613	55.000	16.87	3.36	38.34	3.41
1940	2474	0.744414	AATTGCCCACGACTCGATGG	60.744	55.000	5.20	8.96	35.59	3.51
1965	2508	2.293399	CCTCAGTTACAACACAAAGGCC	59.707	50.000	0.00	0.00	0.00	5.19
2010	2567	5.625921	ACGAACTAGAGTACAAGACTTCC	57.374	43.478	0.00	0.00	39.06	3.46
2079	2637	2.037251	TCCTTTGTTCTGACTTCTCCCG	59.963	50.000	0.00	0.00	0.00	5.14
2199	2767	2.675889	GCAAAAGGAACGACGGGATCTA	60.676	50.000	0.00	0.00	0.00	1.98
2200	2768	1.944430	GCAAAAGGAACGACGGGATCT	60.944	52.381	0.00	0.00	0.00	2.75
2201	2769	0.446616	GCAAAAGGAACGACGGGATC	59.553	55.000	0.00	0.00	0.00	3.36
2205	2773	0.041312	CACAGCAAAAGGAACGACGG	60.041	55.000	0.00	0.00	0.00	4.79
2216	2784	1.882623	TCACAACACACACACAGCAAA	59.117	42.857	0.00	0.00	0.00	3.68
2217	2785	1.198867	GTCACAACACACACACAGCAA	59.801	47.619	0.00	0.00	0.00	3.91
2218	2786	0.801872	GTCACAACACACACACAGCA	59.198	50.000	0.00	0.00	0.00	4.41
2219	2787	1.086696	AGTCACAACACACACACAGC	58.913	50.000	0.00	0.00	0.00	4.40
2220	2788	3.306973	CAGTAGTCACAACACACACACAG	59.693	47.826	0.00	0.00	0.00	3.66
2221	2789	3.258228	CAGTAGTCACAACACACACACA	58.742	45.455	0.00	0.00	0.00	3.72
2222	2790	3.259064	ACAGTAGTCACAACACACACAC	58.741	45.455	0.00	0.00	0.00	3.82
2271	2856	2.436824	GCCGGAGAGAACCAAGCC	60.437	66.667	5.05	0.00	0.00	4.35
2286	2871	2.876368	ATAGGGTTGACGCTGCTGCC	62.876	60.000	10.24	0.00	39.60	4.85
2287	2872	1.026718	AATAGGGTTGACGCTGCTGC	61.027	55.000	10.56	5.34	39.60	5.25
2288	2873	2.159099	TCTAATAGGGTTGACGCTGCTG	60.159	50.000	10.56	0.00	39.60	4.41
2289	2874	2.108168	TCTAATAGGGTTGACGCTGCT	58.892	47.619	10.56	1.13	39.60	4.24
2304	2889	2.298610	TCTCACGGTCTCGCATCTAAT	58.701	47.619	0.00	0.00	40.63	1.73
2326	2911	2.272447	TGGTGTCGCGGTGATGAGA	61.272	57.895	6.13	0.00	0.00	3.27
2336	2921	0.880278	TTTCTCAGCTGTGGTGTCGC	60.880	55.000	14.67	0.00	32.43	5.19
2337	2922	1.143305	CTTTCTCAGCTGTGGTGTCG	58.857	55.000	14.67	0.00	32.43	4.35
2338	2923	1.869767	CACTTTCTCAGCTGTGGTGTC	59.130	52.381	14.67	0.00	32.43	3.67
2339	2924	1.475751	CCACTTTCTCAGCTGTGGTGT	60.476	52.381	14.67	8.27	43.41	4.16
2340	2925	1.233019	CCACTTTCTCAGCTGTGGTG	58.767	55.000	14.67	13.92	43.41	4.17
2341	2926	3.713902	CCACTTTCTCAGCTGTGGT	57.286	52.632	14.67	1.91	43.41	4.16
2343	2928	2.298446	TCTCTCCACTTTCTCAGCTGTG	59.702	50.000	14.67	11.96	0.00	3.66
2347	2932	3.701040	AGATCTCTCTCCACTTTCTCAGC	59.299	47.826	0.00	0.00	0.00	4.26
2349	2943	6.489603	ACTTAGATCTCTCTCCACTTTCTCA	58.510	40.000	0.00	0.00	32.66	3.27
2384	2981	5.646360	CGTATAACCTGTTCCTTGGATTTGT	59.354	40.000	0.00	0.00	0.00	2.83
2420	4682	4.944372	GTCGGCGTATGAGCGGGG	62.944	72.222	6.85	0.00	37.92	5.73
2484	4746	3.841643	CCAGACAAGCAAATCAACCATC	58.158	45.455	0.00	0.00	0.00	3.51
2485	4747	2.028748	GCCAGACAAGCAAATCAACCAT	60.029	45.455	0.00	0.00	0.00	3.55
2492	4757	1.032014	ACAACGCCAGACAAGCAAAT	58.968	45.000	0.00	0.00	0.00	2.32
2503	4768	1.679305	ACACCCAAACACAACGCCA	60.679	52.632	0.00	0.00	0.00	5.69
2504	4769	1.226831	CACACCCAAACACAACGCC	60.227	57.895	0.00	0.00	0.00	5.68
2505	4770	1.876263	GCACACCCAAACACAACGC	60.876	57.895	0.00	0.00	0.00	4.84
2506	4771	1.226831	GGCACACCCAAACACAACG	60.227	57.895	0.00	0.00	0.00	4.10
2507	4772	1.226831	CGGCACACCCAAACACAAC	60.227	57.895	0.00	0.00	0.00	3.32
2508	4773	2.418910	CCGGCACACCCAAACACAA	61.419	57.895	0.00	0.00	0.00	3.33
2509	4774	2.632602	ATCCGGCACACCCAAACACA	62.633	55.000	0.00	0.00	0.00	3.72
2510	4775	0.606944	TATCCGGCACACCCAAACAC	60.607	55.000	0.00	0.00	0.00	3.32
2512	4777	0.322187	AGTATCCGGCACACCCAAAC	60.322	55.000	0.00	0.00	0.00	2.93
2513	4778	0.035820	GAGTATCCGGCACACCCAAA	60.036	55.000	0.00	0.00	0.00	3.28
2515	4780	3.305314	GAGTATCCGGCACACCCA	58.695	61.111	0.00	0.00	0.00	4.51
2558	4826	2.399611	GGATACAAGCACGCGCAC	59.600	61.111	5.73	0.00	42.27	5.34
2559	4827	2.817834	GGGATACAAGCACGCGCA	60.818	61.111	5.73	0.00	38.87	6.09
2560	4828	2.817834	TGGGATACAAGCACGCGC	60.818	61.111	5.73	0.00	39.74	6.86
2561	4829	2.461110	GGTGGGATACAAGCACGCG	61.461	63.158	3.53	3.53	39.74	6.01
2562	4830	2.112815	GGGTGGGATACAAGCACGC	61.113	63.158	0.00	0.00	39.74	5.34
2566	4834	2.956333	GGTAAATGGGTGGGATACAAGC	59.044	50.000	0.00	0.00	39.74	4.01
2615	4883	2.573083	CCGCCACACAAAGCCCATT	61.573	57.895	0.00	0.00	0.00	3.16
2642	4910	0.469705	AGCCCACCAGCAAATCAACA	60.470	50.000	0.00	0.00	34.23	3.33
2709	4977	1.940883	TATGACAGACGACGGGGTGC	61.941	60.000	0.00	0.00	0.00	5.01
2712	4980	2.359848	TGTATTATGACAGACGACGGGG	59.640	50.000	0.00	0.00	0.00	5.73
2750	5018	1.759445	CAACACCACCAACATTTCCCA	59.241	47.619	0.00	0.00	0.00	4.37
2788	5056	5.827797	GGCCTTTTAGTGACCAATCATGATA	59.172	40.000	9.04	0.00	37.14	2.15
2814	5102	2.093764	CCACCTCCAACATCTCTGAGTC	60.094	54.545	4.32	0.00	0.00	3.36
2837	5125	2.492090	CCTTCGAGCGTCCAGGAG	59.508	66.667	0.00	0.00	0.00	3.69
2840	5128	1.738099	CAACCCTTCGAGCGTCCAG	60.738	63.158	0.00	0.00	0.00	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.