AutoCloner

Multiple sequence alignment - TraesCS7A01G079900

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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	TraesCS7A01G079900	chr7A	100.000	4552	0	0	1	4552	45858758	45854207	0.000000e+00	8407.0
1	TraesCS7A01G079900	chr7A	87.538	2632	237	43	1082	3679	45982387	45979813	0.000000e+00	2959.0
2	TraesCS7A01G079900	chr7A	85.951	2598	287	44	1083	3646	46061948	46059395	0.000000e+00	2704.0
3	TraesCS7A01G079900	chr7A	85.941	2582	296	41	1087	3646	44821947	44824483	0.000000e+00	2695.0
4	TraesCS7A01G079900	chr7A	85.027	2765	263	81	943	3646	44448401	44445727	0.000000e+00	2673.0
5	TraesCS7A01G079900	chr7A	85.417	2599	297	48	1083	3646	46100539	46097988	0.000000e+00	2625.0
6	TraesCS7A01G079900	chr7A	82.680	306	40	10	365	660	497271478	497271780	4.520000e-65	259.0
7	TraesCS7A01G079900	chr7A	85.990	207	15	3	3763	3955	45978634	45978428	4.610000e-50	209.0
8	TraesCS7A01G079900	chr7A	92.857	98	6	1	4440	4537	44443948	44443852	1.710000e-29	141.0
9	TraesCS7A01G079900	chr7A	91.667	72	3	2	3838	3906	45979655	45979584	3.750000e-16	97.1
10	TraesCS7A01G079900	chr4A	96.578	3478	53	15	1090	4546	653074415	653077847	0.000000e+00	5703.0
11	TraesCS7A01G079900	chr4A	88.350	2515	255	22	1087	3581	654059649	654057153	0.000000e+00	2987.0
12	TraesCS7A01G079900	chr4A	87.786	2227	230	21	1087	3292	652815135	652817340	0.000000e+00	2567.0
13	TraesCS7A01G079900	chr4A	87.500	1688	162	30	1919	3582	653410937	653412599	0.000000e+00	1903.0
14	TraesCS7A01G079900	chr4A	88.278	819	84	4	1087	1896	653410135	653410950	0.000000e+00	970.0
15	TraesCS7A01G079900	chr4A	89.575	259	13	6	531	784	653073443	653073692	2.640000e-82	316.0
16	TraesCS7A01G079900	chr4A	86.192	239	4	11	841	1071	653073697	653073914	9.850000e-57	231.0
17	TraesCS7A01G079900	chr4A	93.519	108	4	2	4440	4545	597866230	597866124	1.700000e-34	158.0
18	TraesCS7A01G079900	chr4A	87.368	95	1	6	3462	3550	573662592	573662681	1.040000e-16	99.0
19	TraesCS7A01G079900	chr4A	89.394	66	4	3	3462	3526	597889007	597888944	3.780000e-11	80.5
20	TraesCS7A01G079900	chr7D	95.891	3553	85	19	1009	4552	43634636	43631136	0.000000e+00	5696.0
21	TraesCS7A01G079900	chr7D	87.837	1521	151	20	1916	3422	43637647	43636147	0.000000e+00	1753.0
22	TraesCS7A01G079900	chr7D	91.152	825	33	10	1	824	43635426	43634641	0.000000e+00	1083.0
23	TraesCS7A01G079900	chr7D	87.812	361	38	5	1	359	474882367	474882011	7.040000e-113	418.0
24	TraesCS7A01G079900	chr7D	81.090	312	44	12	372	671	446420568	446420876	7.610000e-58	235.0
25	TraesCS7A01G079900	chr3D	89.503	362	33	4	1	360	312757720	312758078	1.930000e-123	453.0
26	TraesCS7A01G079900	chr3D	87.637	364	38	6	1	360	404265425	404265785	2.530000e-112	416.0
27	TraesCS7A01G079900	chr3D	81.029	311	42	15	379	677	129260176	129260481	9.850000e-57	231.0
28	TraesCS7A01G079900	chr3D	97.222	36	1	0	4069	4104	11443780	11443745	1.370000e-05	62.1
29	TraesCS7A01G079900	chr5A	88.202	356	38	4	7	360	434530399	434530046	5.440000e-114	422.0
30	TraesCS7A01G079900	chr2D	89.521	334	32	3	29	360	284397600	284397268	1.960000e-113	420.0
31	TraesCS7A01G079900	chr2D	87.637	364	39	3	1	360	153896467	153896828	7.040000e-113	418.0
32	TraesCS7A01G079900	chr5D	88.921	343	30	6	19	358	297356421	297356084	2.530000e-112	416.0
33	TraesCS7A01G079900	chr7B	87.500	368	32	10	1	360	646965453	646965814	3.280000e-111	412.0
34	TraesCS7A01G079900	chr2A	83.113	302	43	8	365	660	16028200	16028499	7.510000e-68	268.0
35	TraesCS7A01G079900	chr1A	81.494	308	54	2	356	660	388000503	388000810	2.720000e-62	250.0
36	TraesCS7A01G079900	chr1D	81.759	307	42	13	364	661	25471516	25471817	1.260000e-60	244.0
37	TraesCS7A01G079900	chr1B	85.294	238	22	10	449	677	40728549	40728782	2.740000e-57	233.0
38	TraesCS7A01G079900	chr1B	80.195	308	43	14	364	660	40877757	40878057	9.920000e-52	215.0
39	TraesCS7A01G079900	chr4D	86.735	98	2	5	3462	3553	29412823	29412731	1.040000e-16	99.0
40	TraesCS7A01G079900	chr4B	86.735	98	2	5	3462	3553	41844255	41844163	1.040000e-16	99.0
41	TraesCS7A01G079900	chr6B	100.000	33	0	0	3462	3494	625883132	625883164	1.370000e-05	62.1
42	TraesCS7A01G079900	chr3B	97.222	36	1	0	4069	4104	16132285	16132250	1.370000e-05	62.1

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	TraesCS7A01G079900	chr7A	45854207	45858758	4551	True	8407.000000	8407	100.000000	1	4552	1	chr7A.!!$R1	4551
1	TraesCS7A01G079900	chr7A	46059395	46061948	2553	True	2704.000000	2704	85.951000	1083	3646	1	chr7A.!!$R2	2563
2	TraesCS7A01G079900	chr7A	44821947	44824483	2536	False	2695.000000	2695	85.941000	1087	3646	1	chr7A.!!$F1	2559
3	TraesCS7A01G079900	chr7A	46097988	46100539	2551	True	2625.000000	2625	85.417000	1083	3646	1	chr7A.!!$R3	2563
4	TraesCS7A01G079900	chr7A	44443852	44448401	4549	True	1407.000000	2673	88.942000	943	4537	2	chr7A.!!$R4	3594
5	TraesCS7A01G079900	chr7A	45978428	45982387	3959	True	1088.366667	2959	88.398333	1082	3955	3	chr7A.!!$R5	2873
6	TraesCS7A01G079900	chr4A	654057153	654059649	2496	True	2987.000000	2987	88.350000	1087	3581	1	chr4A.!!$R3	2494
7	TraesCS7A01G079900	chr4A	652815135	652817340	2205	False	2567.000000	2567	87.786000	1087	3292	1	chr4A.!!$F2	2205
8	TraesCS7A01G079900	chr4A	653073443	653077847	4404	False	2083.333333	5703	90.781667	531	4546	3	chr4A.!!$F3	4015
9	TraesCS7A01G079900	chr4A	653410135	653412599	2464	False	1436.500000	1903	87.889000	1087	3582	2	chr4A.!!$F4	2495
10	TraesCS7A01G079900	chr7D	43631136	43637647	6511	True	2844.000000	5696	91.626667	1	4552	3	chr7D.!!$R2	4551

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	End Stability	Orientation
864	3090	0.036875	CGCCCTTCCCCTTCATATCC	59.963	60.0	2.59	F
912	3138	0.251430	CCCTATCTCGTCCTCTCCCC	60.251	65.0	4.81	F
2468	5210	0.107017	AGGTTTCCATCATCGGCAGG	60.107	55.0	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2385	5124	0.771755	AACCCTCTGTTGAGAACCCC	59.228	55.000	0.00	0.00	42.73	4.95	R
2578	5323	1.375140	TCAAGGAGAGCAGCGCTTG	60.375	57.895	7.50	4.59	39.88	4.01	R
3990	7930	1.423584	TTCTTCAGGCCAGTGACTCA	58.576	50.000	5.01	0.00	0.00	3.41	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
73	2295	9.720874	AACTATATATCAGAAGATGGGCATAGA	57.279	33.333	0.00	0.00	35.67	1.98
84	2306	1.335132	GGGCATAGAAGGTGGACCGA	61.335	60.000	0.00	0.00	42.08	4.69
133	2355	1.898574	GTGTCTTGTGCCCACCAGG	60.899	63.158	0.42	0.00	39.47	4.45
213	2435	6.611381	TCTCCGTAAATTTTCAGCTCATTTG	58.389	36.000	0.00	0.00	0.00	2.32
254	2476	3.654414	ACTCTGACGTAGCTTTTTCAGG	58.346	45.455	14.70	9.86	36.84	3.86
259	2481	2.737252	GACGTAGCTTTTTCAGGTCCAG	59.263	50.000	0.00	0.00	34.13	3.86
290	2512	1.696336	GCCAGCATTCTCCCTCTATGA	59.304	52.381	0.00	0.00	0.00	2.15
311	2533	9.376075	CTATGAGTAAACCTGGCATATTATGAG	57.624	37.037	7.87	0.00	0.00	2.90
319	2541	7.141758	ACCTGGCATATTATGAGAGAAAAGA	57.858	36.000	7.87	0.00	0.00	2.52
320	2542	7.753630	ACCTGGCATATTATGAGAGAAAAGAT	58.246	34.615	7.87	0.00	0.00	2.40
382	2604	9.659830	AACACTCGTTCAACATTTTAAATACTC	57.340	29.630	0.00	0.00	0.00	2.59
383	2605	8.007716	ACACTCGTTCAACATTTTAAATACTCG	58.992	33.333	0.00	0.00	0.00	4.18
384	2606	8.007716	CACTCGTTCAACATTTTAAATACTCGT	58.992	33.333	0.00	0.00	0.00	4.18
385	2607	8.553696	ACTCGTTCAACATTTTAAATACTCGTT	58.446	29.630	0.00	0.00	0.00	3.85
386	2608	8.922738	TCGTTCAACATTTTAAATACTCGTTC	57.077	30.769	0.00	0.00	0.00	3.95
387	2609	7.736880	TCGTTCAACATTTTAAATACTCGTTCG	59.263	33.333	0.00	0.00	0.00	3.95
388	2610	7.736880	CGTTCAACATTTTAAATACTCGTTCGA	59.263	33.333	0.00	0.00	0.00	3.71
389	2611	8.824779	GTTCAACATTTTAAATACTCGTTCGAC	58.175	33.333	0.00	0.00	0.00	4.20
390	2612	8.074474	TCAACATTTTAAATACTCGTTCGACA	57.926	30.769	0.00	0.00	0.00	4.35
391	2613	8.714179	TCAACATTTTAAATACTCGTTCGACAT	58.286	29.630	0.00	0.00	0.00	3.06
392	2614	9.325150	CAACATTTTAAATACTCGTTCGACATT	57.675	29.630	0.00	0.00	0.00	2.71
393	2615	9.887406	AACATTTTAAATACTCGTTCGACATTT	57.113	25.926	11.79	11.79	0.00	2.32
394	2616	9.887406	ACATTTTAAATACTCGTTCGACATTTT	57.113	25.926	12.13	6.24	0.00	1.82
448	2670	9.335891	TGCTTGATTAACATTTTTGTATACACG	57.664	29.630	4.68	0.00	0.00	4.49
673	2899	9.500785	AAAAACATGAAAAACAGAAAGAAAGGA	57.499	25.926	0.00	0.00	0.00	3.36
674	2900	8.707938	AAACATGAAAAACAGAAAGAAAGGAG	57.292	30.769	0.00	0.00	0.00	3.69
676	2902	5.262588	TGAAAAACAGAAAGAAAGGAGGC	57.737	39.130	0.00	0.00	0.00	4.70
677	2903	4.709397	TGAAAAACAGAAAGAAAGGAGGCA	59.291	37.500	0.00	0.00	0.00	4.75
679	2905	5.876651	AAAACAGAAAGAAAGGAGGCAAT	57.123	34.783	0.00	0.00	0.00	3.56
680	2906	6.976934	AAAACAGAAAGAAAGGAGGCAATA	57.023	33.333	0.00	0.00	0.00	1.90
685	2911	6.013293	ACAGAAAGAAAGGAGGCAATAGTACT	60.013	38.462	0.00	0.00	0.00	2.73
686	2912	7.180408	ACAGAAAGAAAGGAGGCAATAGTACTA	59.820	37.037	4.77	4.77	0.00	1.82
687	2913	8.041323	CAGAAAGAAAGGAGGCAATAGTACTAA	58.959	37.037	6.70	0.00	0.00	2.24
688	2914	8.603304	AGAAAGAAAGGAGGCAATAGTACTAAA	58.397	33.333	6.70	0.00	0.00	1.85
690	2916	9.582648	AAAGAAAGGAGGCAATAGTACTAAAAA	57.417	29.630	6.70	0.00	0.00	1.94
691	2917	8.794335	AGAAAGGAGGCAATAGTACTAAAAAG	57.206	34.615	6.70	0.00	0.00	2.27
693	2919	8.794335	AAAGGAGGCAATAGTACTAAAAAGAG	57.206	34.615	6.70	0.00	0.00	2.85
694	2920	6.890293	AGGAGGCAATAGTACTAAAAAGAGG	58.110	40.000	6.70	0.00	0.00	3.69
695	2921	6.672657	AGGAGGCAATAGTACTAAAAAGAGGA	59.327	38.462	6.70	0.00	0.00	3.71
696	2922	6.987404	GGAGGCAATAGTACTAAAAAGAGGAG	59.013	42.308	6.70	0.00	0.00	3.69
697	2923	6.890293	AGGCAATAGTACTAAAAAGAGGAGG	58.110	40.000	6.70	0.00	0.00	4.30
698	2924	5.527951	GGCAATAGTACTAAAAAGAGGAGGC	59.472	44.000	6.70	0.00	0.00	4.70
699	2925	6.113411	GCAATAGTACTAAAAAGAGGAGGCA	58.887	40.000	6.70	0.00	0.00	4.75
815	3041	3.014623	GCCAGTTTTATTACGCCCTTCT	58.985	45.455	0.00	0.00	0.00	2.85
824	3050	2.537633	TACGCCCTTCTCCTTCCTAA	57.462	50.000	0.00	0.00	0.00	2.69
825	3051	1.652947	ACGCCCTTCTCCTTCCTAAA	58.347	50.000	0.00	0.00	0.00	1.85
826	3052	1.982958	ACGCCCTTCTCCTTCCTAAAA	59.017	47.619	0.00	0.00	0.00	1.52
827	3053	2.374170	ACGCCCTTCTCCTTCCTAAAAA	59.626	45.455	0.00	0.00	0.00	1.94
856	3082	3.965470	AAAATATTACGCCCTTCCCCT	57.035	42.857	0.00	0.00	0.00	4.79
857	3083	3.965470	AAATATTACGCCCTTCCCCTT	57.035	42.857	0.00	0.00	0.00	3.95
858	3084	3.503800	AATATTACGCCCTTCCCCTTC	57.496	47.619	0.00	0.00	0.00	3.46
859	3085	1.882308	TATTACGCCCTTCCCCTTCA	58.118	50.000	0.00	0.00	0.00	3.02
860	3086	1.222567	ATTACGCCCTTCCCCTTCAT	58.777	50.000	0.00	0.00	0.00	2.57
861	3087	1.882308	TTACGCCCTTCCCCTTCATA	58.118	50.000	0.00	0.00	0.00	2.15
862	3088	2.112279	TACGCCCTTCCCCTTCATAT	57.888	50.000	0.00	0.00	0.00	1.78
863	3089	0.765510	ACGCCCTTCCCCTTCATATC	59.234	55.000	0.00	0.00	0.00	1.63
864	3090	0.036875	CGCCCTTCCCCTTCATATCC	59.963	60.000	0.00	0.00	0.00	2.59
865	3091	1.450360	GCCCTTCCCCTTCATATCCT	58.550	55.000	0.00	0.00	0.00	3.24
866	3092	1.352687	GCCCTTCCCCTTCATATCCTC	59.647	57.143	0.00	0.00	0.00	3.71
908	3134	3.558033	GAGAAACCCTATCTCGTCCTCT	58.442	50.000	0.00	0.00	34.50	3.69
909	3135	3.558033	AGAAACCCTATCTCGTCCTCTC	58.442	50.000	0.00	0.00	0.00	3.20
910	3136	2.368311	AACCCTATCTCGTCCTCTCC	57.632	55.000	0.00	0.00	0.00	3.71
911	3137	0.479378	ACCCTATCTCGTCCTCTCCC	59.521	60.000	0.00	0.00	0.00	4.30
912	3138	0.251430	CCCTATCTCGTCCTCTCCCC	60.251	65.000	0.00	0.00	0.00	4.81
913	3139	0.606944	CCTATCTCGTCCTCTCCCCG	60.607	65.000	0.00	0.00	0.00	5.73
914	3140	1.228184	TATCTCGTCCTCTCCCCGC	60.228	63.158	0.00	0.00	0.00	6.13
915	3141	2.693896	TATCTCGTCCTCTCCCCGCC	62.694	65.000	0.00	0.00	0.00	6.13
1923	4659	2.203998	CCAGGACCACCTCCACCT	60.204	66.667	0.00	0.00	45.94	4.00
1933	4669	0.614415	ACCTCCACCTCTCTCTGCTG	60.614	60.000	0.00	0.00	0.00	4.41
2048	4787	0.816825	AACCTGTGCAGCAGTGACAG	60.817	55.000	0.00	0.00	43.55	3.51
2102	4841	5.047021	ACCTCCACGGTATGATTCATATCTG	60.047	44.000	13.65	12.03	46.73	2.90
2227	4966	2.710377	TCATCGTCAACTCCATTTGGG	58.290	47.619	0.00	0.00	35.41	4.12
2369	5108	1.077787	TCGCCAAATTCGCCATCCT	60.078	52.632	0.00	0.00	0.00	3.24
2370	5109	1.064621	CGCCAAATTCGCCATCCTG	59.935	57.895	0.00	0.00	0.00	3.86
2371	5110	1.438814	GCCAAATTCGCCATCCTGG	59.561	57.895	0.00	0.00	41.55	4.45
2373	5112	1.027357	CCAAATTCGCCATCCTGGAG	58.973	55.000	1.52	0.00	40.96	3.86
2374	5113	1.408683	CCAAATTCGCCATCCTGGAGA	60.409	52.381	1.52	0.00	44.66	3.71
2375	5114	1.672881	CAAATTCGCCATCCTGGAGAC	59.327	52.381	1.52	0.00	45.99	3.36
2376	5115	0.911769	AATTCGCCATCCTGGAGACA	59.088	50.000	1.52	0.00	45.99	3.41
2386	5125	3.625897	TGGAGACAGCACACGGGG	61.626	66.667	0.00	0.00	35.01	5.73
2387	5126	4.394712	GGAGACAGCACACGGGGG	62.395	72.222	0.00	0.00	0.00	5.40
2468	5210	0.107017	AGGTTTCCATCATCGGCAGG	60.107	55.000	0.00	0.00	0.00	4.85
2578	5323	2.029307	GATGGTAGCACCCGAGGGAC	62.029	65.000	16.26	6.51	37.50	4.46
2969	5730	1.971167	GGCGTGGAGGCAATCAACA	60.971	57.895	0.00	0.00	45.92	3.33
3025	5786	2.731976	CGTGAACTTCACTGCTACTTCC	59.268	50.000	17.81	0.00	44.85	3.46
3327	6089	4.096003	CATCCTGGAACCCGCCGT	62.096	66.667	0.00	0.00	0.00	5.68
3759	7672	3.711704	AGATTGCCTGGCTAGCTAGTTTA	59.288	43.478	24.56	10.78	27.49	2.01
3760	7673	3.992943	TTGCCTGGCTAGCTAGTTTAA	57.007	42.857	24.56	14.17	0.00	1.52
3761	7674	3.992943	TGCCTGGCTAGCTAGTTTAAA	57.007	42.857	24.56	4.64	0.00	1.52
3766	7679	5.504173	GCCTGGCTAGCTAGTTTAAATTTCG	60.504	44.000	24.56	8.08	0.00	3.46
3956	7896	2.805671	TGGTAACTGTGCATGAAACTCG	59.194	45.455	0.00	0.00	37.61	4.18
3988	7928	4.649088	TGTATGACGGTATGAGTGGAAG	57.351	45.455	0.00	0.00	0.00	3.46
3990	7930	4.893524	TGTATGACGGTATGAGTGGAAGAT	59.106	41.667	0.00	0.00	0.00	2.40
4015	7955	3.057946	GTCACTGGCCTGAAGAAATCAAC	60.058	47.826	17.64	0.00	37.67	3.18
4546	9686	2.732016	CCAAAGCAGCAGCAGCAA	59.268	55.556	12.92	0.00	45.49	3.91

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	3.513662	GAGACTACTTTCGGGAAGAAGC	58.486	50.000	2.29	0.00	40.40	3.86
3	4	3.453059	AGGAGACTACTTTCGGGAAGA	57.547	47.619	2.29	0.00	40.61	2.87
5	6	6.616237	AAATAAGGAGACTACTTTCGGGAA	57.384	37.500	4.95	0.00	42.68	3.97
56	2278	3.135348	CACCTTCTATGCCCATCTTCTGA	59.865	47.826	0.00	0.00	0.00	3.27
73	2295	2.284699	CCCTCCTCGGTCCACCTT	60.285	66.667	0.00	0.00	0.00	3.50
213	2435	5.536916	AGAGTTACCTAGTATGCACATCTCC	59.463	44.000	0.00	0.00	0.00	3.71
224	2446	5.350504	AGCTACGTCAGAGTTACCTAGTA	57.649	43.478	0.00	0.00	0.00	1.82
226	2448	5.564048	AAAGCTACGTCAGAGTTACCTAG	57.436	43.478	0.00	0.00	0.00	3.02
254	2476	1.471684	CTGGCAGCTGAAATTCTGGAC	59.528	52.381	20.43	0.00	0.00	4.02
259	2481	2.165845	AGAATGCTGGCAGCTGAAATTC	59.834	45.455	36.50	32.10	42.97	2.17
290	2512	7.618019	TCTCTCATAATATGCCAGGTTTACT	57.382	36.000	0.00	0.00	0.00	2.24
376	2598	9.537848	GTATTTTGAAAATGTCGAACGAGTATT	57.462	29.630	13.08	0.00	28.61	1.89
377	2599	8.932791	AGTATTTTGAAAATGTCGAACGAGTAT	58.067	29.630	13.08	0.00	28.61	2.12
378	2600	8.301730	AGTATTTTGAAAATGTCGAACGAGTA	57.698	30.769	13.08	0.00	28.61	2.59
379	2601	7.186021	AGTATTTTGAAAATGTCGAACGAGT	57.814	32.000	13.08	0.00	28.61	4.18
380	2602	7.586300	ACAAGTATTTTGAAAATGTCGAACGAG	59.414	33.333	13.08	4.26	28.61	4.18
381	2603	7.411274	ACAAGTATTTTGAAAATGTCGAACGA	58.589	30.769	13.08	0.00	28.61	3.85
382	2604	7.603297	ACAAGTATTTTGAAAATGTCGAACG	57.397	32.000	13.08	0.00	28.61	3.95
383	2605	9.015577	TGAACAAGTATTTTGAAAATGTCGAAC	57.984	29.630	13.08	3.27	28.61	3.95
384	2606	9.574458	TTGAACAAGTATTTTGAAAATGTCGAA	57.426	25.926	13.08	0.00	0.00	3.71
385	2607	9.015577	GTTGAACAAGTATTTTGAAAATGTCGA	57.984	29.630	13.08	0.00	0.00	4.20
386	2608	8.802856	TGTTGAACAAGTATTTTGAAAATGTCG	58.197	29.630	13.08	2.34	0.00	4.35
388	2610	9.651913	ACTGTTGAACAAGTATTTTGAAAATGT	57.348	25.926	13.08	1.35	0.00	2.71
391	2613	9.482627	ACAACTGTTGAACAAGTATTTTGAAAA	57.517	25.926	26.00	0.00	0.00	2.29
392	2614	9.482627	AACAACTGTTGAACAAGTATTTTGAAA	57.517	25.926	26.00	0.00	36.80	2.69
654	2880	4.709397	TGCCTCCTTTCTTTCTGTTTTTCA	59.291	37.500	0.00	0.00	0.00	2.69
671	2897	6.885922	TCCTCTTTTTAGTACTATTGCCTCC	58.114	40.000	2.79	0.00	0.00	4.30
673	2899	6.632900	GCCTCCTCTTTTTAGTACTATTGCCT	60.633	42.308	2.79	0.00	0.00	4.75
674	2900	5.527951	GCCTCCTCTTTTTAGTACTATTGCC	59.472	44.000	2.79	0.00	0.00	4.52
676	2902	6.258947	GCTGCCTCCTCTTTTTAGTACTATTG	59.741	42.308	2.79	0.00	0.00	1.90
677	2903	6.350103	GCTGCCTCCTCTTTTTAGTACTATT	58.650	40.000	2.79	0.00	0.00	1.73
679	2905	4.142227	CGCTGCCTCCTCTTTTTAGTACTA	60.142	45.833	0.00	0.00	0.00	1.82
680	2906	3.368531	CGCTGCCTCCTCTTTTTAGTACT	60.369	47.826	0.00	0.00	0.00	2.73
685	2911	2.038557	AGTTCGCTGCCTCCTCTTTTTA	59.961	45.455	0.00	0.00	0.00	1.52
686	2912	1.202818	AGTTCGCTGCCTCCTCTTTTT	60.203	47.619	0.00	0.00	0.00	1.94
687	2913	0.398318	AGTTCGCTGCCTCCTCTTTT	59.602	50.000	0.00	0.00	0.00	2.27
688	2914	0.321122	CAGTTCGCTGCCTCCTCTTT	60.321	55.000	0.00	0.00	38.53	2.52
690	2916	2.654079	CCAGTTCGCTGCCTCCTCT	61.654	63.158	0.00	0.00	43.67	3.69
691	2917	2.125350	CCAGTTCGCTGCCTCCTC	60.125	66.667	0.00	0.00	43.67	3.71
768	2994	7.966753	CGAAAATCCTATATCTACGAATCCGAA	59.033	37.037	0.00	0.00	39.50	4.30
835	3061	4.259933	AGGGGAAGGGCGTAATATTTTT	57.740	40.909	0.00	0.00	0.00	1.94
836	3062	3.965470	AGGGGAAGGGCGTAATATTTT	57.035	42.857	0.00	0.00	0.00	1.82
837	3063	3.203487	TGAAGGGGAAGGGCGTAATATTT	59.797	43.478	0.00	0.00	0.00	1.40
838	3064	2.781174	TGAAGGGGAAGGGCGTAATATT	59.219	45.455	0.00	0.00	0.00	1.28
839	3065	2.414612	TGAAGGGGAAGGGCGTAATAT	58.585	47.619	0.00	0.00	0.00	1.28
840	3066	1.882308	TGAAGGGGAAGGGCGTAATA	58.118	50.000	0.00	0.00	0.00	0.98
841	3067	1.222567	ATGAAGGGGAAGGGCGTAAT	58.777	50.000	0.00	0.00	0.00	1.89
842	3068	1.882308	TATGAAGGGGAAGGGCGTAA	58.118	50.000	0.00	0.00	0.00	3.18
843	3069	1.975680	GATATGAAGGGGAAGGGCGTA	59.024	52.381	0.00	0.00	0.00	4.42
844	3070	0.765510	GATATGAAGGGGAAGGGCGT	59.234	55.000	0.00	0.00	0.00	5.68
845	3071	0.036875	GGATATGAAGGGGAAGGGCG	59.963	60.000	0.00	0.00	0.00	6.13
846	3072	1.352687	GAGGATATGAAGGGGAAGGGC	59.647	57.143	0.00	0.00	0.00	5.19
847	3073	1.988846	GGAGGATATGAAGGGGAAGGG	59.011	57.143	0.00	0.00	0.00	3.95
848	3074	2.909662	GAGGAGGATATGAAGGGGAAGG	59.090	54.545	0.00	0.00	0.00	3.46
849	3075	2.564947	CGAGGAGGATATGAAGGGGAAG	59.435	54.545	0.00	0.00	0.00	3.46
850	3076	2.609747	CGAGGAGGATATGAAGGGGAA	58.390	52.381	0.00	0.00	0.00	3.97
851	3077	1.827647	GCGAGGAGGATATGAAGGGGA	60.828	57.143	0.00	0.00	0.00	4.81
852	3078	0.610687	GCGAGGAGGATATGAAGGGG	59.389	60.000	0.00	0.00	0.00	4.79
853	3079	1.001406	GTGCGAGGAGGATATGAAGGG	59.999	57.143	0.00	0.00	0.00	3.95
854	3080	1.967066	AGTGCGAGGAGGATATGAAGG	59.033	52.381	0.00	0.00	0.00	3.46
855	3081	2.625314	TCAGTGCGAGGAGGATATGAAG	59.375	50.000	0.00	0.00	0.00	3.02
856	3082	2.666317	TCAGTGCGAGGAGGATATGAA	58.334	47.619	0.00	0.00	0.00	2.57
857	3083	2.364972	TCAGTGCGAGGAGGATATGA	57.635	50.000	0.00	0.00	0.00	2.15
858	3084	3.761218	AGTATCAGTGCGAGGAGGATATG	59.239	47.826	0.00	0.00	0.00	1.78
859	3085	4.040936	AGTATCAGTGCGAGGAGGATAT	57.959	45.455	0.00	0.00	0.00	1.63
860	3086	3.510531	AGTATCAGTGCGAGGAGGATA	57.489	47.619	0.00	0.00	0.00	2.59
861	3087	2.373335	AGTATCAGTGCGAGGAGGAT	57.627	50.000	0.00	0.00	0.00	3.24
862	3088	2.145397	AAGTATCAGTGCGAGGAGGA	57.855	50.000	0.00	0.00	0.00	3.71
863	3089	2.482142	GGAAAGTATCAGTGCGAGGAGG	60.482	54.545	0.00	0.00	0.00	4.30
864	3090	2.796383	CGGAAAGTATCAGTGCGAGGAG	60.796	54.545	0.00	0.00	0.00	3.69
865	3091	1.134367	CGGAAAGTATCAGTGCGAGGA	59.866	52.381	0.00	0.00	0.00	3.71
866	3092	1.560923	CGGAAAGTATCAGTGCGAGG	58.439	55.000	0.00	0.00	0.00	4.63
1923	4659	2.363018	CCGTCCCCAGCAGAGAGA	60.363	66.667	0.00	0.00	0.00	3.10
1933	4669	4.331622	GATGGGTTTTCCGTCCCC	57.668	61.111	0.00	0.00	44.08	4.81
2102	4841	2.180131	CTTGAGCACCTTGACGCAGC	62.180	60.000	0.00	0.00	0.00	5.25
2349	5088	1.376609	GGATGGCGAATTTGGCGAGT	61.377	55.000	14.10	3.37	37.19	4.18
2369	5108	3.625897	CCCCGTGTGCTGTCTCCA	61.626	66.667	0.00	0.00	0.00	3.86
2370	5109	4.394712	CCCCCGTGTGCTGTCTCC	62.395	72.222	0.00	0.00	0.00	3.71
2384	5123	1.134438	ACCCTCTGTTGAGAACCCCC	61.134	60.000	0.00	0.00	42.73	5.40
2385	5124	0.771755	AACCCTCTGTTGAGAACCCC	59.228	55.000	0.00	0.00	42.73	4.95
2578	5323	1.375140	TCAAGGAGAGCAGCGCTTG	60.375	57.895	7.50	4.59	39.88	4.01
3025	5786	0.250234	TCCTCTCACGCTCCAAATGG	59.750	55.000	0.00	0.00	0.00	3.16
3130	5891	0.741221	GCCGCAGAGAAACTAGTGGG	60.741	60.000	0.00	0.00	32.25	4.61
3211	5973	4.142138	ACGGCCTATCAACAAAACAAAACA	60.142	37.500	0.00	0.00	0.00	2.83
3327	6089	3.070590	CCATCTCTAGCATGTCATCCACA	59.929	47.826	0.00	0.00	40.18	4.17
3759	7672	8.950208	TTTCAAAAATTCCCTGTACGAAATTT	57.050	26.923	0.00	0.00	33.86	1.82
3760	7673	8.950208	TTTTCAAAAATTCCCTGTACGAAATT	57.050	26.923	0.00	0.00	0.00	1.82
3761	7674	8.417884	TCTTTTCAAAAATTCCCTGTACGAAAT	58.582	29.630	0.00	0.00	0.00	2.17
3766	7679	9.594478	TCTTTTCTTTTCAAAAATTCCCTGTAC	57.406	29.630	0.00	0.00	0.00	2.90
3956	7896	7.094631	TCATACCGTCATACATTATGGTTAGC	58.905	38.462	0.00	0.00	36.41	3.09
3988	7928	1.552337	TCTTCAGGCCAGTGACTCATC	59.448	52.381	5.01	0.00	0.00	2.92
3990	7930	1.423584	TTCTTCAGGCCAGTGACTCA	58.576	50.000	5.01	0.00	0.00	3.41
4015	7955	3.460857	AGTTTAGGGAATCAGCTAGCG	57.539	47.619	9.55	4.60	0.00	4.26

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.