AutoCloner

Multiple sequence alignment - TraesCS7B01G017700

Loading Multiple Alignment...

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	TraesCS7B01G017700	chr7B	100.000	3178	0	0	1	3178	15021744	15018567	0.000000e+00	5869.0
1	TraesCS7B01G017700	chr7B	88.088	999	80	19	902	1886	15301002	15300029	0.000000e+00	1149.0
2	TraesCS7B01G017700	chr7B	88.260	937	78	17	949	1880	15072354	15071445	0.000000e+00	1092.0
3	TraesCS7B01G017700	chr7B	93.469	689	25	10	2494	3176	15299430	15298756	0.000000e+00	1005.0
4	TraesCS7B01G017700	chr7B	88.348	884	42	26	1	860	15302298	15301452	0.000000e+00	1005.0
5	TraesCS7B01G017700	chr7B	88.457	797	57	12	79	860	15079754	15078978	0.000000e+00	929.0
6	TraesCS7B01G017700	chr7B	86.008	729	83	13	1167	1886	15269910	15269192	0.000000e+00	763.0
7	TraesCS7B01G017700	chr7B	91.727	556	37	5	314	860	15292470	15291915	0.000000e+00	763.0
8	TraesCS7B01G017700	chr7B	88.770	561	45	10	1891	2442	15299989	15299438	0.000000e+00	671.0
9	TraesCS7B01G017700	chr7B	94.602	389	18	1	1877	2262	15071411	15071023	1.630000e-167	599.0
10	TraesCS7B01G017700	chr7B	90.845	284	19	3	900	1180	15289086	15288807	1.080000e-99	374.0
11	TraesCS7B01G017700	chr7B	89.226	297	30	2	1877	2172	15269164	15268869	1.390000e-98	370.0
12	TraesCS7B01G017700	chr7B	91.729	133	11	0	2491	2623	286566615	286566747	5.410000e-43	185.0
13	TraesCS7B01G017700	chr7B	80.769	234	32	11	1993	2220	14778490	14778716	1.520000e-38	171.0
14	TraesCS7B01G017700	chr7B	98.824	85	1	0	1	85	15100349	15100265	5.490000e-33	152.0
15	TraesCS7B01G017700	chr7B	100.000	39	0	0	3140	3178	14981212	14981174	4.400000e-09	73.1
16	TraesCS7B01G017700	chr7B	87.500	64	5	1	1877	1937	286566348	286566411	1.580000e-08	71.3
17	TraesCS7B01G017700	chr7A	88.932	768	58	9	1980	2741	77197167	77196421	0.000000e+00	922.0
18	TraesCS7B01G017700	chr7A	85.922	618	55	19	238	841	77198062	77197463	5.790000e-177	630.0
19	TraesCS7B01G017700	chr7A	91.630	227	17	2	1	226	77198343	77198118	2.380000e-81	313.0
20	TraesCS7B01G017700	chr7A	76.712	219	25	16	2959	3176	63356291	63356098	7.250000e-17	99.0
21	TraesCS7B01G017700	chr7D	86.158	708	47	12	953	1643	73115351	73116024	0.000000e+00	717.0
22	TraesCS7B01G017700	chr7D	82.507	726	78	31	2412	3111	72217492	72216790	2.730000e-165	592.0
23	TraesCS7B01G017700	chr7D	80.000	690	86	23	1170	1858	72218736	72218098	2.230000e-126	462.0
24	TraesCS7B01G017700	chr7D	80.488	656	77	30	2528	3176	73116136	73116747	3.740000e-124	455.0
25	TraesCS7B01G017700	chr7D	95.035	282	13	1	238	519	73114224	73114504	2.910000e-120	442.0
26	TraesCS7B01G017700	chr7D	92.576	229	14	2	1	226	73113937	73114165	3.060000e-85	326.0
27	TraesCS7B01G017700	chr7D	76.471	629	103	32	2257	2855	71862837	71863450	1.850000e-77	300.0
28	TraesCS7B01G017700	chr7D	82.965	317	24	18	2870	3176	71863829	71864125	3.140000e-65	259.0
29	TraesCS7B01G017700	chr7D	78.781	443	44	28	2755	3178	72129289	72128878	5.260000e-63	252.0
30	TraesCS7B01G017700	chrUn	80.303	792	113	30	2410	3178	82603909	82604680	2.770000e-155	558.0
31	TraesCS7B01G017700	chrUn	78.392	796	102	40	2410	3176	84316654	84317408	1.340000e-123	453.0
32	TraesCS7B01G017700	chrUn	83.566	286	39	7	2503	2783	82602069	82602351	8.740000e-66	261.0
33	TraesCS7B01G017700	chrUn	86.638	232	27	4	2410	2639	82567047	82566818	1.460000e-63	254.0
34	TraesCS7B01G017700	chrUn	78.781	443	44	28	2755	3178	273470068	273470479	5.260000e-63	252.0
35	TraesCS7B01G017700	chr6B	87.097	217	25	2	2431	2644	141085935	141086151	3.170000e-60	243.0
36	TraesCS7B01G017700	chr3D	93.671	79	5	0	2548	2626	189780205	189780127	5.570000e-23	119.0
37	TraesCS7B01G017700	chr2A	92.727	55	4	0	1790	1844	619761846	619761792	2.630000e-11	80.5

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	TraesCS7B01G017700	chr7B	15018567	15021744	3177	True	5869.000000	5869	100.00000	1	3178	1	chr7B.!!$R2	3177
1	TraesCS7B01G017700	chr7B	15298756	15302298	3542	True	957.500000	1149	89.66875	1	3176	4	chr7B.!!$R8	3175
2	TraesCS7B01G017700	chr7B	15078978	15079754	776	True	929.000000	929	88.45700	79	860	1	chr7B.!!$R3	781
3	TraesCS7B01G017700	chr7B	15071023	15072354	1331	True	845.500000	1092	91.43100	949	2262	2	chr7B.!!$R5	1313
4	TraesCS7B01G017700	chr7B	15288807	15292470	3663	True	568.500000	763	91.28600	314	1180	2	chr7B.!!$R7	866
5	TraesCS7B01G017700	chr7B	15268869	15269910	1041	True	566.500000	763	87.61700	1167	2172	2	chr7B.!!$R6	1005
6	TraesCS7B01G017700	chr7A	77196421	77198343	1922	True	621.666667	922	88.82800	1	2741	3	chr7A.!!$R2	2740
7	TraesCS7B01G017700	chr7D	72216790	72218736	1946	True	527.000000	592	81.25350	1170	3111	2	chr7D.!!$R2	1941
8	TraesCS7B01G017700	chr7D	73113937	73116747	2810	False	485.000000	717	88.56425	1	3176	4	chr7D.!!$F2	3175
9	TraesCS7B01G017700	chr7D	71862837	71864125	1288	False	279.500000	300	79.71800	2257	3176	2	chr7D.!!$F1	919
10	TraesCS7B01G017700	chrUn	84316654	84317408	754	False	453.000000	453	78.39200	2410	3176	1	chrUn.!!$F1	766
11	TraesCS7B01G017700	chrUn	82602069	82604680	2611	False	409.500000	558	81.93450	2410	3178	2	chrUn.!!$F3	768

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	End Stability	Orientation
554	656	0.175760	TGTAATGGAGTCTGGAGCGC	59.824	55.0	0.00	0.00	5.92	F
902	2672	0.387929	TCCATTAGCTACTTCGGCCG	59.612	55.0	22.12	22.12	6.13	F
1343	4430	0.732880	CGGCAACTCTCTGTACACGG	60.733	60.0	0.00	0.00	4.94	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1643	4733	0.460811	TGCTGCTATGTGGAAGCTCG	60.461	55.000	40.73	5.03	R
2001	5176	0.968405	TTGCCCTTCACAATCTTGCC	59.032	50.000	0.00	4.52	R
2180	5355	1.207089	TGTACTGTGACCAGGCTATGC	59.793	52.381	43.36	3.14	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
261	313	2.719046	CTGACGTTTCATTTTCGGTTGC	59.281	45.455	0.00	0.00	0.00	4.17
461	515	5.342806	ACATAACATTGTCCGCGATTATG	57.657	39.130	8.23	11.70	0.00	1.90
554	656	0.175760	TGTAATGGAGTCTGGAGCGC	59.824	55.000	0.00	0.00	0.00	5.92
811	945	2.358957	CATTAGCTAGTTGGTGCAGCA	58.641	47.619	15.99	15.99	37.78	4.41
841	975	2.228822	CCAAAGTAAAACAGCGCCATCT	59.771	45.455	2.29	0.00	0.00	2.90
849	1013	1.141881	CAGCGCCATCTTACGGACT	59.858	57.895	2.29	0.00	0.00	3.85
860	1026	3.276857	TCTTACGGACTAAGCGAGACAT	58.723	45.455	0.00	0.00	32.98	3.06
863	2633	2.025155	ACGGACTAAGCGAGACATCAT	58.975	47.619	0.00	0.00	0.00	2.45
866	2636	3.365465	CGGACTAAGCGAGACATCATAGG	60.365	52.174	0.00	0.00	0.00	2.57
868	2638	2.959030	ACTAAGCGAGACATCATAGGCA	59.041	45.455	0.00	0.00	0.00	4.75
869	2639	2.988010	AAGCGAGACATCATAGGCAA	57.012	45.000	0.00	0.00	0.00	4.52
886	2656	3.527533	GGCAACTTCATGTACGTATCCA	58.472	45.455	0.00	0.00	0.00	3.41
887	2657	4.127171	GGCAACTTCATGTACGTATCCAT	58.873	43.478	0.00	0.00	0.00	3.41
889	2659	5.756347	GGCAACTTCATGTACGTATCCATTA	59.244	40.000	0.00	0.00	0.00	1.90
892	2662	6.406692	ACTTCATGTACGTATCCATTAGCT	57.593	37.500	0.00	0.00	0.00	3.32
894	2664	7.368833	ACTTCATGTACGTATCCATTAGCTAC	58.631	38.462	0.00	0.00	0.00	3.58
899	2669	4.500603	ACGTATCCATTAGCTACTTCGG	57.499	45.455	0.00	0.00	0.00	4.30
900	2670	3.243336	CGTATCCATTAGCTACTTCGGC	58.757	50.000	0.00	0.00	0.00	5.54
901	2671	2.841442	ATCCATTAGCTACTTCGGCC	57.159	50.000	0.00	0.00	0.00	6.13
902	2672	0.387929	TCCATTAGCTACTTCGGCCG	59.612	55.000	22.12	22.12	0.00	6.13
904	2674	1.069258	ATTAGCTACTTCGGCCGGC	59.931	57.895	27.83	21.18	0.00	6.13
932	3981	4.449131	TCGTCATCGACTTCATAGGTAGT	58.551	43.478	0.00	0.00	41.35	2.73
933	3982	5.604565	TCGTCATCGACTTCATAGGTAGTA	58.395	41.667	0.00	0.00	41.35	1.82
934	3983	6.228995	TCGTCATCGACTTCATAGGTAGTAT	58.771	40.000	0.00	0.00	41.35	2.12
935	3984	6.147328	TCGTCATCGACTTCATAGGTAGTATG	59.853	42.308	0.00	0.00	41.35	2.39
936	3985	6.073167	CGTCATCGACTTCATAGGTAGTATGT	60.073	42.308	0.00	0.00	38.50	2.29
947	3999	4.428294	AGGTAGTATGTACCTACGCTCA	57.572	45.455	6.80	0.00	45.47	4.26
1192	4271	2.293318	AACAGAGCCATCGCCTCCA	61.293	57.895	0.00	0.00	34.57	3.86
1194	4273	2.042537	AGAGCCATCGCCTCCAGA	60.043	61.111	0.00	0.00	34.57	3.86
1213	4296	2.711547	AGAGGCTCCAGTGGTAAAAAGT	59.288	45.455	11.71	0.00	0.00	2.66
1266	4353	5.633830	ACATGGTCTGAATTTTACAGCTG	57.366	39.130	13.48	13.48	35.61	4.24
1276	4363	7.172190	TCTGAATTTTACAGCTGAAACAGAGAG	59.828	37.037	23.35	7.82	35.61	3.20
1343	4430	0.732880	CGGCAACTCTCTGTACACGG	60.733	60.000	0.00	0.00	0.00	4.94
1351	4438	1.736126	TCTCTGTACACGGTCGACATC	59.264	52.381	18.91	0.00	0.00	3.06
1367	4454	1.942657	ACATCGGCCAGAATGATTTCG	59.057	47.619	14.78	0.00	39.69	3.46
1435	4522	3.572642	TCCTTCGGTTATCAGCCAGATA	58.427	45.455	0.00	0.00	38.19	1.98
1444	4531	5.244851	GGTTATCAGCCAGATATCAGAGACA	59.755	44.000	5.32	0.00	38.93	3.41
1487	4574	9.933723	GTAGTAGAAAACTAGAAATGGTGGTTA	57.066	33.333	0.00	0.00	41.42	2.85
1492	4579	9.449719	AGAAAACTAGAAATGGTGGTTAGTATG	57.550	33.333	0.00	0.00	0.00	2.39
1497	4584	8.041323	ACTAGAAATGGTGGTTAGTATGACTTG	58.959	37.037	0.00	0.00	0.00	3.16
1498	4585	6.180472	AGAAATGGTGGTTAGTATGACTTGG	58.820	40.000	0.00	0.00	0.00	3.61
1504	4591	6.177610	GGTGGTTAGTATGACTTGGAATGAA	58.822	40.000	0.00	0.00	0.00	2.57
1525	4612	7.670009	TGAACAAAATAATTGGCAAATCTGG	57.330	32.000	3.01	0.00	0.00	3.86
1643	4733	1.206371	TGCTACCCGGCTTTTCTAGTC	59.794	52.381	0.00	0.00	0.00	2.59
1770	4860	3.430374	GGTTAGGAAGACGCTGCAGAATA	60.430	47.826	20.43	0.00	0.00	1.75
1838	4928	1.202903	AGGCATCCAGAAGATCATGGC	60.203	52.381	6.85	6.85	41.06	4.40
1863	4953	7.820044	GAGCTTTCTCTCGAATCTTTTTCTA	57.180	36.000	0.00	0.00	36.42	2.10
1864	4954	8.245701	GAGCTTTCTCTCGAATCTTTTTCTAA	57.754	34.615	0.00	0.00	36.42	2.10
1873	4963	7.878127	TCTCGAATCTTTTTCTAACATCCAACT	59.122	33.333	0.00	0.00	0.00	3.16
2001	5176	0.532573	AGATCTGTACTGTGGCACCG	59.467	55.000	16.26	11.76	0.00	4.94
2023	5198	2.224018	GCAAGATTGTGAAGGGCAACAA	60.224	45.455	0.00	0.00	39.74	2.83
2178	5353	1.039856	AAAACTTTGCCAGCCGTGAT	58.960	45.000	0.00	0.00	0.00	3.06
2180	5355	1.577328	AACTTTGCCAGCCGTGATCG	61.577	55.000	0.00	0.00	0.00	3.69
2190	5365	1.665916	CCGTGATCGCATAGCCTGG	60.666	63.158	7.12	0.00	35.54	4.45
2216	5398	7.327275	GTCACAGTACAAGTTTACTCAGAGATG	59.673	40.741	3.79	0.00	29.30	2.90
2284	5466	3.386768	TTAGTCAGAGACAGTGTTGCC	57.613	47.619	0.00	0.00	34.60	4.52
2286	5468	0.946221	GTCAGAGACAGTGTTGCCGG	60.946	60.000	0.00	0.00	32.09	6.13
2317	5499	9.899226	AAATTACTCATTCTGTCAGTTAAAAGC	57.101	29.630	0.00	0.00	0.00	3.51
2326	5508	6.216569	TCTGTCAGTTAAAAGCTGTGTAGAG	58.783	40.000	0.00	0.00	35.60	2.43
2332	5514	7.813148	TCAGTTAAAAGCTGTGTAGAGTGATAC	59.187	37.037	0.00	0.00	35.60	2.24
2352	5534	9.547753	GTGATACCAGAAAATAAGAGCTTCATA	57.452	33.333	0.00	0.00	0.00	2.15
2353	5535	9.770097	TGATACCAGAAAATAAGAGCTTCATAG	57.230	33.333	0.00	0.00	0.00	2.23
2373	5555	7.769220	TCATAGTAGTAGTAAGTTTGTCCTGC	58.231	38.462	0.00	0.00	0.00	4.85
2385	5567	5.482908	AGTTTGTCCTGCTATAGACTTGTG	58.517	41.667	3.21	0.00	34.02	3.33
2405	5588	4.347876	TGTGTCTGCTATAATGCCCACTAT	59.652	41.667	0.00	0.00	0.00	2.12
2472	6321	9.846248	ACAGTAATTATCAACTGCAAATTTCTC	57.154	29.630	6.09	0.00	45.65	2.87
2598	6953	8.045176	AGCACAGAACTTAATTAACAAGATCC	57.955	34.615	5.81	0.00	0.00	3.36
2650	7018	1.154908	CAAGTTTCGAACGACGGCG	60.155	57.895	10.39	10.39	42.82	6.46
2750	7118	3.930336	TCACATCGAACAGAGCAGAAAT	58.070	40.909	0.00	0.00	0.00	2.17
2785	7153	3.058501	CACCAAATCCCTGTACAAACGTC	60.059	47.826	0.00	0.00	0.00	4.34
2947	7327	3.562973	CCGCAGAATAACAGAGCAATGAT	59.437	43.478	0.00	0.00	0.00	2.45
2988	7382	8.743085	AATTAGCATCACATGATAACTGAACT	57.257	30.769	0.00	0.00	43.03	3.01
2989	7383	8.743085	ATTAGCATCACATGATAACTGAACTT	57.257	30.769	0.00	0.00	43.03	2.66
3038	7432	1.681793	ACGATCCATAGGAACAGACGG	59.318	52.381	0.00	0.00	34.34	4.79
3105	7507	1.996191	GATCACGAGACAAGAACAGCC	59.004	52.381	0.00	0.00	0.00	4.85
3147	7555	3.103911	GGCGACCACGACGAACAG	61.104	66.667	0.00	0.00	42.66	3.16
3148	7556	3.764049	GCGACCACGACGAACAGC	61.764	66.667	0.00	0.00	42.66	4.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
261	313	1.272212	AGGTTTATGCTTTTGCCACCG	59.728	47.619	0.00	0.00	46.87	4.94
271	324	2.108250	ACCAACAGTCCAGGTTTATGCT	59.892	45.455	0.00	0.00	29.58	3.79
312	366	2.687935	GGCTTTCACAAACTCCTTCACA	59.312	45.455	0.00	0.00	0.00	3.58
461	515	2.361119	TCACTGTACATATGCGGAGACC	59.639	50.000	1.58	0.00	0.00	3.85
737	869	0.098728	CCTAACATTTCCTTGGCGCG	59.901	55.000	0.00	0.00	0.00	6.86
811	945	4.668289	CTGTTTTACTTTGGAAGCACGTT	58.332	39.130	0.00	0.00	0.00	3.99
841	975	3.011818	TGATGTCTCGCTTAGTCCGTAA	58.988	45.455	0.00	0.00	0.00	3.18
849	1013	3.384789	AGTTGCCTATGATGTCTCGCTTA	59.615	43.478	0.00	0.00	0.00	3.09
860	1026	4.465632	ACGTACATGAAGTTGCCTATGA	57.534	40.909	0.00	0.00	0.00	2.15
863	2633	4.403113	TGGATACGTACATGAAGTTGCCTA	59.597	41.667	0.00	0.00	42.51	3.93
866	2636	5.734855	AATGGATACGTACATGAAGTTGC	57.265	39.130	0.00	0.00	42.51	4.17
868	2638	6.817184	AGCTAATGGATACGTACATGAAGTT	58.183	36.000	0.00	0.00	42.51	2.66
869	2639	6.406692	AGCTAATGGATACGTACATGAAGT	57.593	37.500	0.00	0.00	42.51	3.01
871	2641	7.520451	AGTAGCTAATGGATACGTACATGAA	57.480	36.000	0.00	0.00	41.23	2.57
877	2647	4.083110	GCCGAAGTAGCTAATGGATACGTA	60.083	45.833	0.00	0.00	41.23	3.57
878	2648	3.305199	GCCGAAGTAGCTAATGGATACGT	60.305	47.826	0.00	0.00	41.23	3.57
882	2652	1.000955	CGGCCGAAGTAGCTAATGGAT	59.999	52.381	24.07	0.00	0.00	3.41
883	2653	0.387929	CGGCCGAAGTAGCTAATGGA	59.612	55.000	24.07	0.00	0.00	3.41
884	2654	0.600255	CCGGCCGAAGTAGCTAATGG	60.600	60.000	30.73	0.00	0.00	3.16
886	2656	1.069258	GCCGGCCGAAGTAGCTAAT	59.931	57.895	30.73	0.00	0.00	1.73
887	2657	2.497770	GCCGGCCGAAGTAGCTAA	59.502	61.111	30.73	0.00	0.00	3.09
932	3981	2.042686	ACGGTGAGCGTAGGTACATA	57.957	50.000	8.33	0.00	39.88	2.29
933	3982	1.135199	CAACGGTGAGCGTAGGTACAT	60.135	52.381	11.01	0.00	39.88	2.29
934	3983	0.241749	CAACGGTGAGCGTAGGTACA	59.758	55.000	11.01	0.00	39.88	2.90
935	3984	0.457337	CCAACGGTGAGCGTAGGTAC	60.457	60.000	11.01	0.00	39.88	3.34
936	3985	0.895100	ACCAACGGTGAGCGTAGGTA	60.895	55.000	11.01	0.00	39.88	3.08
947	3999	6.036735	CGTCAGAATTATATCAAACCAACGGT	59.963	38.462	0.00	0.00	37.65	4.83
1192	4271	2.711547	ACTTTTTACCACTGGAGCCTCT	59.288	45.455	0.71	0.00	0.00	3.69
1194	4273	3.138468	AGAACTTTTTACCACTGGAGCCT	59.862	43.478	0.71	0.00	0.00	4.58
1198	4277	4.410883	TCAGGAGAACTTTTTACCACTGGA	59.589	41.667	0.71	0.00	0.00	3.86
1266	4353	2.052157	CGAACGACCACTCTCTGTTTC	58.948	52.381	0.00	0.00	0.00	2.78
1276	4363	2.032377	TGAAATTCAAGCGAACGACCAC	60.032	45.455	0.00	0.00	32.81	4.16
1343	4430	0.179111	TCATTCTGGCCGATGTCGAC	60.179	55.000	9.11	9.11	43.02	4.20
1351	4438	1.097547	AGGCGAAATCATTCTGGCCG	61.098	55.000	0.00	0.00	43.12	6.13
1435	4522	8.950210	CACAAAATTACCTGTATTGTCTCTGAT	58.050	33.333	0.00	0.00	32.25	2.90
1492	4579	7.387397	TGCCAATTATTTTGTTCATTCCAAGTC	59.613	33.333	0.00	0.00	0.00	3.01
1497	4584	8.949177	AGATTTGCCAATTATTTTGTTCATTCC	58.051	29.630	0.00	0.00	0.00	3.01
1498	4585	9.763465	CAGATTTGCCAATTATTTTGTTCATTC	57.237	29.630	0.00	0.00	0.00	2.67
1504	4591	5.939296	CCACCAGATTTGCCAATTATTTTGT	59.061	36.000	0.00	0.00	0.00	2.83
1525	4612	1.742761	CCACACATGATGGAGTCCAC	58.257	55.000	15.86	9.34	39.87	4.02
1643	4733	0.460811	TGCTGCTATGTGGAAGCTCG	60.461	55.000	0.00	0.00	40.73	5.03
1783	4873	5.589855	AGCATGACGGAATATTTGTCAATCA	59.410	36.000	21.19	7.88	44.90	2.57
1784	4874	6.064846	AGCATGACGGAATATTTGTCAATC	57.935	37.500	21.19	16.68	44.90	2.67
1863	4953	8.594550	ACTTGATACTTGTACTAGTTGGATGTT	58.405	33.333	15.11	0.00	0.00	2.71
1864	4954	8.135382	ACTTGATACTTGTACTAGTTGGATGT	57.865	34.615	15.11	7.14	0.00	3.06
2001	5176	0.968405	TTGCCCTTCACAATCTTGCC	59.032	50.000	0.00	0.00	0.00	4.52
2178	5353	1.257750	ACTGTGACCAGGCTATGCGA	61.258	55.000	0.00	0.00	43.36	5.10
2180	5355	1.207089	TGTACTGTGACCAGGCTATGC	59.793	52.381	0.00	0.00	43.36	3.14
2190	5365	6.736123	TCTCTGAGTAAACTTGTACTGTGAC	58.264	40.000	4.32	0.00	34.40	3.67
2284	5466	3.440173	ACAGAATGAGTAATTTGGTGCCG	59.560	43.478	0.00	0.00	39.69	5.69
2286	5468	5.182001	ACTGACAGAATGAGTAATTTGGTGC	59.818	40.000	10.08	0.00	39.69	5.01
2317	5499	9.307121	CTTATTTTCTGGTATCACTCTACACAG	57.693	37.037	0.00	0.00	0.00	3.66
2326	5508	7.849804	TGAAGCTCTTATTTTCTGGTATCAC	57.150	36.000	0.00	0.00	0.00	3.06
2352	5534	7.957992	ATAGCAGGACAAACTTACTACTACT	57.042	36.000	0.00	0.00	0.00	2.57
2353	5535	9.118300	TCTATAGCAGGACAAACTTACTACTAC	57.882	37.037	0.00	0.00	0.00	2.73
2355	5537	7.835181	AGTCTATAGCAGGACAAACTTACTACT	59.165	37.037	0.00	0.00	35.18	2.57
2365	5547	5.073311	GACACAAGTCTATAGCAGGACAA	57.927	43.478	0.00	0.00	41.64	3.18
2385	5567	7.118496	AGATATAGTGGGCATTATAGCAGAC	57.882	40.000	0.00	0.00	35.83	3.51
2434	6280	9.453325	GTTGATAATTACTGTAGAGACTACAGC	57.547	37.037	27.77	15.93	46.46	4.40
2472	6321	5.971792	GTCTTCATGATGATTCTTGTGCATG	59.028	40.000	13.82	0.00	35.63	4.06
2598	6953	6.806751	TGGTCTACTTTATCTCCATTTCTCG	58.193	40.000	0.00	0.00	0.00	4.04
2650	7018	7.423199	ACATGTGATGTGATTCTGAATTATGC	58.577	34.615	4.11	0.00	43.01	3.14
2750	7118	4.283212	GGGATTTGGTGAACTCATTTTGGA	59.717	41.667	0.00	0.00	0.00	3.53
2803	7174	2.287909	TGTTATTTTTGCGTGGTGGCTC	60.288	45.455	0.00	0.00	0.00	4.70
2947	7327	5.626142	TGCTAATTTTGTCTTCCAGTACCA	58.374	37.500	0.00	0.00	0.00	3.25
2989	7383	5.545588	TCGAATGAAATGGCAATGGAAAAA	58.454	33.333	0.00	0.00	0.00	1.94
3038	7432	4.700268	TGTTGGTGTTGATATGATGTGC	57.300	40.909	0.00	0.00	0.00	4.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.