AutoCloner

Multiple sequence alignment - TraesCS2B01G595700

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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	TraesCS2B01G595700	chr2B	100.000	3594	0	0	1	3594	779375004	779371411	0.000000e+00	6637
1	TraesCS2B01G595700	chr2B	99.083	2725	25	0	1	2725	779393529	779390805	0.000000e+00	4894
2	TraesCS2B01G595700	chr2B	99.010	2726	24	2	1	2725	779419229	779416506	0.000000e+00	4881
3	TraesCS2B01G595700	chr2B	98.936	2726	28	1	1	2725	779425683	779422958	0.000000e+00	4872
4	TraesCS2B01G595700	chr2B	98.789	2726	30	2	1	2725	779412780	779410057	0.000000e+00	4848
5	TraesCS2B01G595700	chr2B	98.679	2726	33	2	1	2725	779432138	779429415	0.000000e+00	4831
6	TraesCS2B01G595700	chr2B	97.909	2726	54	3	1	2725	779451427	779448704	0.000000e+00	4715
7	TraesCS2B01G595700	chr2B	97.836	2726	58	1	1	2725	779445014	779442289	0.000000e+00	4706
8	TraesCS2B01G595700	chr2B	97.762	2726	60	1	1	2725	779457860	779455135	0.000000e+00	4695
9	TraesCS2B01G595700	chr2B	86.475	244	17	8	3359	3594	779485483	779485248	1.660000e-63	254
10	TraesCS2B01G595700	chr2B	86.122	245	16	9	3359	3594	779427561	779427326	7.710000e-62	248
11	TraesCS2B01G595700	chr2B	86.122	245	16	9	3359	3594	779446853	779446618	7.710000e-62	248
12	TraesCS2B01G595700	chrUn	98.936	2725	28	1	1	2725	280844240	280846963	0.000000e+00	4870
13	TraesCS2B01G595700	chrUn	86.122	245	16	9	3359	3594	338367694	338367459	7.710000e-62	248
14	TraesCS2B01G595700	chrUn	86.122	245	16	9	3359	3594	345246906	345247141	7.710000e-62	248
15	TraesCS2B01G595700	chrUn	86.122	245	16	9	3359	3594	420324439	420324204	7.710000e-62	248
16	TraesCS2B01G595700	chrUn	86.463	229	18	3	2888	3103	402332002	402331774	4.640000e-59	239
17	TraesCS2B01G595700	chr2D	93.829	794	32	13	2812	3594	635270662	635269875	0.000000e+00	1179
18	TraesCS2B01G595700	chr2D	87.603	242	18	8	3359	3594	635309305	635309070	1.640000e-68	270
19	TraesCS2B01G595700	chr2D	92.523	107	8	0	2729	2835	206683056	206682950	1.730000e-33	154
20	TraesCS2B01G595700	chr2D	90.090	111	8	3	2722	2829	429269345	429269455	1.350000e-29	141
21	TraesCS2B01G595700	chr2A	89.973	738	49	15	2812	3534	777495322	777496049	0.000000e+00	929
22	TraesCS2B01G595700	chr2A	86.538	312	25	5	2806	3103	777415053	777415361	9.620000e-86	327
23	TraesCS2B01G595700	chr2A	86.538	312	25	5	2806	3103	777421358	777421666	9.620000e-86	327
24	TraesCS2B01G595700	chr2A	86.538	312	25	5	2806	3103	777427657	777427965	9.620000e-86	327
25	TraesCS2B01G595700	chr2A	86.218	312	26	5	2806	3103	777396697	777397005	4.480000e-84	322
26	TraesCS2B01G595700	chr2A	86.218	312	26	5	2806	3103	777408757	777409065	4.480000e-84	322
27	TraesCS2B01G595700	chr2A	86.218	312	26	5	2806	3103	777433952	777434260	4.480000e-84	322
28	TraesCS2B01G595700	chr7D	92.381	105	5	3	2728	2829	70086456	70086560	2.890000e-31	147
29	TraesCS2B01G595700	chr7D	92.381	105	5	3	2728	2829	563470329	563470225	2.890000e-31	147
30	TraesCS2B01G595700	chr7D	87.500	120	12	2	2699	2818	471558484	471558600	6.260000e-28	135
31	TraesCS2B01G595700	chr6D	92.381	105	5	3	2728	2829	333950605	333950501	2.890000e-31	147
32	TraesCS2B01G595700	chr1D	92.308	104	6	2	2728	2829	383818903	383819006	2.890000e-31	147
33	TraesCS2B01G595700	chr6B	92.233	103	6	2	2729	2831	423189597	423189497	1.040000e-30	145
34	TraesCS2B01G595700	chr4D	92.233	103	7	1	2715	2817	494781799	494781698	1.040000e-30	145

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	TraesCS2B01G595700	chr2B	779371411	779375004	3593	True	6637	6637	100.00000	1	3594	1	chr2B.!!$R1	3593
1	TraesCS2B01G595700	chr2B	779390805	779393529	2724	True	4894	4894	99.08300	1	2725	1	chr2B.!!$R2	2724
2	TraesCS2B01G595700	chr2B	779410057	779432138	22081	True	3936	4881	96.30720	1	3594	5	chr2B.!!$R4	3593
3	TraesCS2B01G595700	chr2B	779442289	779457860	15571	True	3591	4715	94.90725	1	3594	4	chr2B.!!$R5	3593
4	TraesCS2B01G595700	chrUn	280844240	280846963	2723	False	4870	4870	98.93600	1	2725	1	chrUn.!!$F1	2724
5	TraesCS2B01G595700	chr2D	635269875	635270662	787	True	1179	1179	93.82900	2812	3594	1	chr2D.!!$R2	782
6	TraesCS2B01G595700	chr2A	777495322	777496049	727	False	929	929	89.97300	2812	3534	1	chr2A.!!$F7	722

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
653	19995	1.136057	GGTGACGATGCGAAAGGAAAC	60.136	52.381	0.0	0.0	32.68	2.78	F
2214	34419	3.713826	AAAGGTTCGAGGGAGCATTAA	57.286	42.857	0.0	0.0	27.18	1.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2539	34744	3.740832	TGTCATTAGCGATATTCTTGGCG	59.259	43.478	0.0	0.0	0.0	5.69	R
3461	35679	0.178975	AGAGGAGGAGTAGGATGGCG	60.179	60.000	0.0	0.0	0.0	5.69	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
96	12985	7.596248	AGACAGGATTGACAATTTTGATTTTCG	59.404	33.333	15.62	0.00	0.00	3.46
486	13376	7.175641	TCCTTCTGAGATGATTGTTTCCTTTTC	59.824	37.037	0.00	0.00	0.00	2.29
653	19995	1.136057	GGTGACGATGCGAAAGGAAAC	60.136	52.381	0.00	0.00	32.68	2.78
663	20005	4.748892	TGCGAAAGGAAACAAACATGAAA	58.251	34.783	0.00	0.00	0.00	2.69
2214	34419	3.713826	AAAGGTTCGAGGGAGCATTAA	57.286	42.857	0.00	0.00	27.18	1.40
2363	34568	7.601856	TGAACATGTCTGAGTTTGTTTTCTTT	58.398	30.769	0.00	0.00	32.73	2.52
2539	34744	4.035675	GGATTAGCTGGTATTGCAACAGAC	59.964	45.833	17.19	9.08	34.21	3.51
2675	34880	8.906867	AGAAATATATCCATTGTGTCACCTTTG	58.093	33.333	0.00	0.00	0.00	2.77
2694	34899	8.999431	CACCTTTGTATCTAGCTTTTAGACAAA	58.001	33.333	12.21	12.21	0.00	2.83
2733	34938	8.682936	ATTTCAAGGTTCATATGATGTACTCC	57.317	34.615	6.17	3.40	32.04	3.85
2734	34939	6.174720	TCAAGGTTCATATGATGTACTCCC	57.825	41.667	6.17	0.00	32.04	4.30
2735	34940	5.905331	TCAAGGTTCATATGATGTACTCCCT	59.095	40.000	6.17	1.34	32.04	4.20
2736	34941	6.042093	TCAAGGTTCATATGATGTACTCCCTC	59.958	42.308	6.17	0.00	32.04	4.30
2737	34942	4.841246	AGGTTCATATGATGTACTCCCTCC	59.159	45.833	6.17	0.00	32.04	4.30
2738	34943	4.322049	GGTTCATATGATGTACTCCCTCCG	60.322	50.000	6.17	0.00	32.04	4.63
2739	34944	4.114015	TCATATGATGTACTCCCTCCGT	57.886	45.455	0.00	0.00	0.00	4.69
2740	34945	4.480115	TCATATGATGTACTCCCTCCGTT	58.520	43.478	0.00	0.00	0.00	4.44
2741	34946	4.523173	TCATATGATGTACTCCCTCCGTTC	59.477	45.833	0.00	0.00	0.00	3.95
2742	34947	1.481871	TGATGTACTCCCTCCGTTCC	58.518	55.000	0.00	0.00	0.00	3.62
2743	34948	1.272816	TGATGTACTCCCTCCGTTCCA	60.273	52.381	0.00	0.00	0.00	3.53
2744	34949	1.829222	GATGTACTCCCTCCGTTCCAA	59.171	52.381	0.00	0.00	0.00	3.53
2745	34950	1.719529	TGTACTCCCTCCGTTCCAAA	58.280	50.000	0.00	0.00	0.00	3.28
2746	34951	2.262637	TGTACTCCCTCCGTTCCAAAT	58.737	47.619	0.00	0.00	0.00	2.32
2747	34952	2.640826	TGTACTCCCTCCGTTCCAAATT	59.359	45.455	0.00	0.00	0.00	1.82
2748	34953	3.839490	TGTACTCCCTCCGTTCCAAATTA	59.161	43.478	0.00	0.00	0.00	1.40
2749	34954	3.629142	ACTCCCTCCGTTCCAAATTAG	57.371	47.619	0.00	0.00	0.00	1.73
2750	34955	2.910977	ACTCCCTCCGTTCCAAATTAGT	59.089	45.455	0.00	0.00	0.00	2.24
2751	34956	3.055312	ACTCCCTCCGTTCCAAATTAGTC	60.055	47.826	0.00	0.00	0.00	2.59
2752	34957	2.093869	TCCCTCCGTTCCAAATTAGTCG	60.094	50.000	0.00	0.00	0.00	4.18
2753	34958	2.354403	CCCTCCGTTCCAAATTAGTCGT	60.354	50.000	0.00	0.00	0.00	4.34
2754	34959	2.928116	CCTCCGTTCCAAATTAGTCGTC	59.072	50.000	0.00	0.00	0.00	4.20
2755	34960	2.597305	CTCCGTTCCAAATTAGTCGTCG	59.403	50.000	0.00	0.00	0.00	5.12
2756	34961	2.030007	TCCGTTCCAAATTAGTCGTCGT	60.030	45.455	0.00	0.00	0.00	4.34
2757	34962	2.091588	CCGTTCCAAATTAGTCGTCGTG	59.908	50.000	0.00	0.00	0.00	4.35
2758	34963	2.727798	CGTTCCAAATTAGTCGTCGTGT	59.272	45.455	0.00	0.00	0.00	4.49
2759	34964	3.182972	CGTTCCAAATTAGTCGTCGTGTT	59.817	43.478	0.00	0.00	0.00	3.32
2760	34965	4.451557	GTTCCAAATTAGTCGTCGTGTTG	58.548	43.478	0.00	0.00	0.00	3.33
2761	34966	3.719924	TCCAAATTAGTCGTCGTGTTGT	58.280	40.909	0.00	0.00	0.00	3.32
2762	34967	4.121317	TCCAAATTAGTCGTCGTGTTGTT	58.879	39.130	0.00	0.00	0.00	2.83
2763	34968	5.288015	TCCAAATTAGTCGTCGTGTTGTTA	58.712	37.500	0.00	0.00	0.00	2.41
2764	34969	5.403166	TCCAAATTAGTCGTCGTGTTGTTAG	59.597	40.000	0.00	0.00	0.00	2.34
2765	34970	5.176223	CCAAATTAGTCGTCGTGTTGTTAGT	59.824	40.000	0.00	0.00	0.00	2.24
2766	34971	6.292488	CCAAATTAGTCGTCGTGTTGTTAGTT	60.292	38.462	0.00	0.00	0.00	2.24
2767	34972	6.443876	AATTAGTCGTCGTGTTGTTAGTTC	57.556	37.500	0.00	0.00	0.00	3.01
2768	34973	3.425577	AGTCGTCGTGTTGTTAGTTCA	57.574	42.857	0.00	0.00	0.00	3.18
2769	34974	3.772932	AGTCGTCGTGTTGTTAGTTCAA	58.227	40.909	0.00	0.00	0.00	2.69
2770	34975	4.175516	AGTCGTCGTGTTGTTAGTTCAAA	58.824	39.130	0.00	0.00	0.00	2.69
2771	34976	4.807304	AGTCGTCGTGTTGTTAGTTCAAAT	59.193	37.500	0.00	0.00	0.00	2.32
2772	34977	5.292589	AGTCGTCGTGTTGTTAGTTCAAATT	59.707	36.000	0.00	0.00	0.00	1.82
2773	34978	5.961263	GTCGTCGTGTTGTTAGTTCAAATTT	59.039	36.000	0.00	0.00	0.00	1.82
2774	34979	5.960683	TCGTCGTGTTGTTAGTTCAAATTTG	59.039	36.000	12.15	12.15	0.00	2.32
2775	34980	5.960683	CGTCGTGTTGTTAGTTCAAATTTGA	59.039	36.000	16.91	16.91	34.92	2.69
2776	34981	6.466413	CGTCGTGTTGTTAGTTCAAATTTGAA	59.534	34.615	26.01	26.01	44.31	2.69
2789	34994	7.743520	TTCAAATTTGAACTAAAACCACGAC	57.256	32.000	26.01	0.00	41.88	4.34
2790	34995	5.966503	TCAAATTTGAACTAAAACCACGACG	59.033	36.000	18.45	0.00	33.55	5.12
2791	34996	5.738118	AATTTGAACTAAAACCACGACGA	57.262	34.783	0.00	0.00	0.00	4.20
2792	34997	4.519191	TTTGAACTAAAACCACGACGAC	57.481	40.909	0.00	0.00	0.00	4.34
2793	34998	3.441496	TGAACTAAAACCACGACGACT	57.559	42.857	0.00	0.00	0.00	4.18
2794	34999	4.566545	TGAACTAAAACCACGACGACTA	57.433	40.909	0.00	0.00	0.00	2.59
2795	35000	4.930963	TGAACTAAAACCACGACGACTAA	58.069	39.130	0.00	0.00	0.00	2.24
2796	35001	5.531634	TGAACTAAAACCACGACGACTAAT	58.468	37.500	0.00	0.00	0.00	1.73
2797	35002	5.984926	TGAACTAAAACCACGACGACTAATT	59.015	36.000	0.00	0.00	0.00	1.40
2798	35003	6.479660	TGAACTAAAACCACGACGACTAATTT	59.520	34.615	0.00	0.00	0.00	1.82
2799	35004	6.219302	ACTAAAACCACGACGACTAATTTG	57.781	37.500	0.00	0.00	0.00	2.32
2800	35005	4.477302	AAAACCACGACGACTAATTTGG	57.523	40.909	0.00	0.00	0.00	3.28
2801	35006	3.389925	AACCACGACGACTAATTTGGA	57.610	42.857	0.00	0.00	0.00	3.53
2802	35007	3.389925	ACCACGACGACTAATTTGGAA	57.610	42.857	0.00	0.00	0.00	3.53
2803	35008	3.062042	ACCACGACGACTAATTTGGAAC	58.938	45.455	0.00	0.00	0.00	3.62
2804	35009	2.091588	CCACGACGACTAATTTGGAACG	59.908	50.000	0.00	0.00	0.00	3.95
2805	35010	2.091588	CACGACGACTAATTTGGAACGG	59.908	50.000	0.00	0.00	0.00	4.44
2806	35011	2.030007	ACGACGACTAATTTGGAACGGA	60.030	45.455	0.00	0.00	0.00	4.69
2807	35012	2.597305	CGACGACTAATTTGGAACGGAG	59.403	50.000	0.00	0.00	0.00	4.63
2808	35013	2.928116	GACGACTAATTTGGAACGGAGG	59.072	50.000	0.00	0.00	0.00	4.30
2809	35014	2.277084	CGACTAATTTGGAACGGAGGG	58.723	52.381	0.00	0.00	0.00	4.30
2810	35015	2.093869	CGACTAATTTGGAACGGAGGGA	60.094	50.000	0.00	0.00	0.00	4.20
2867	35072	8.749354	TGTACTCTTATTGTGCAGAGAGATTTA	58.251	33.333	14.30	0.92	39.21	1.40
2894	35099	8.770438	AATTTTGCTTGAAACTAAAACTGTGA	57.230	26.923	0.00	0.00	0.00	3.58
2941	35146	4.127907	AGATGCATGCACTCAATACTCTG	58.872	43.478	25.37	0.00	0.00	3.35
2992	35197	4.780554	TGTTTACCCCATCAGTGTATGAGA	59.219	41.667	4.67	0.00	42.53	3.27
3089	35294	6.978659	TCTTAGAATGGCACTAGTTATCAACG	59.021	38.462	0.00	0.00	36.23	4.10
3144	35350	7.527457	ACCTTTCTTTATCGTGTTTAGAATGC	58.473	34.615	0.00	0.00	0.00	3.56
3277	35488	8.188799	GGGTAAATAGCACATCTAACCTTTTTC	58.811	37.037	0.00	0.00	30.10	2.29
3406	35624	2.034687	GAAGCAAGCAGGCCCAGA	59.965	61.111	0.00	0.00	0.00	3.86
3457	35675	1.069358	GAAACAAAACCCGCCAATCCA	59.931	47.619	0.00	0.00	0.00	3.41
3458	35676	1.123928	AACAAAACCCGCCAATCCAA	58.876	45.000	0.00	0.00	0.00	3.53
3459	35677	1.347062	ACAAAACCCGCCAATCCAAT	58.653	45.000	0.00	0.00	0.00	3.16
3460	35678	1.275010	ACAAAACCCGCCAATCCAATC	59.725	47.619	0.00	0.00	0.00	2.67
3461	35679	0.901827	AAAACCCGCCAATCCAATCC	59.098	50.000	0.00	0.00	0.00	3.01
3462	35680	1.319614	AAACCCGCCAATCCAATCCG	61.320	55.000	0.00	0.00	0.00	4.18
3464	35682	3.595758	CCGCCAATCCAATCCGCC	61.596	66.667	0.00	0.00	0.00	6.13
3465	35683	2.828095	CGCCAATCCAATCCGCCA	60.828	61.111	0.00	0.00	0.00	5.69
3466	35684	2.195567	CGCCAATCCAATCCGCCAT	61.196	57.895	0.00	0.00	0.00	4.40
3467	35685	1.662044	GCCAATCCAATCCGCCATC	59.338	57.895	0.00	0.00	0.00	3.51
3468	35686	1.809567	GCCAATCCAATCCGCCATCC	61.810	60.000	0.00	0.00	0.00	3.51
3470	35688	1.073763	CCAATCCAATCCGCCATCCTA	59.926	52.381	0.00	0.00	0.00	2.94
3471	35689	2.154462	CAATCCAATCCGCCATCCTAC	58.846	52.381	0.00	0.00	0.00	3.18
3489	35707	4.046876	TCCTACTCCTCCTCTAGGGTTTTT	59.953	45.833	0.00	0.00	46.55	1.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
2202	34407	5.942826	CCCTTGATCTTATTAATGCTCCCTC	59.057	44.000	0.00	0.00	0.00	4.30
2214	34419	9.646522	ATTTAACTATGTTGCCCTTGATCTTAT	57.353	29.630	0.00	0.00	0.00	1.73
2539	34744	3.740832	TGTCATTAGCGATATTCTTGGCG	59.259	43.478	0.00	0.00	0.00	5.69
2712	34917	6.179906	AGGGAGTACATCATATGAACCTTG	57.820	41.667	9.99	6.00	0.00	3.61
2716	34921	4.281182	ACGGAGGGAGTACATCATATGAAC	59.719	45.833	9.99	3.63	0.00	3.18
2725	34930	1.946984	TTGGAACGGAGGGAGTACAT	58.053	50.000	0.00	0.00	0.00	2.29
2726	34931	1.719529	TTTGGAACGGAGGGAGTACA	58.280	50.000	0.00	0.00	0.00	2.90
2727	34932	3.345508	AATTTGGAACGGAGGGAGTAC	57.654	47.619	0.00	0.00	0.00	2.73
2728	34933	4.098894	ACTAATTTGGAACGGAGGGAGTA	58.901	43.478	0.00	0.00	0.00	2.59
2729	34934	2.910977	ACTAATTTGGAACGGAGGGAGT	59.089	45.455	0.00	0.00	0.00	3.85
2730	34935	3.532542	GACTAATTTGGAACGGAGGGAG	58.467	50.000	0.00	0.00	0.00	4.30
2731	34936	2.093869	CGACTAATTTGGAACGGAGGGA	60.094	50.000	0.00	0.00	0.00	4.20
2732	34937	2.277084	CGACTAATTTGGAACGGAGGG	58.723	52.381	0.00	0.00	0.00	4.30
2733	34938	2.928116	GACGACTAATTTGGAACGGAGG	59.072	50.000	0.00	0.00	0.00	4.30
2734	34939	2.597305	CGACGACTAATTTGGAACGGAG	59.403	50.000	0.00	0.00	0.00	4.63
2735	34940	2.030007	ACGACGACTAATTTGGAACGGA	60.030	45.455	0.00	0.00	0.00	4.69
2736	34941	2.091588	CACGACGACTAATTTGGAACGG	59.908	50.000	0.00	0.00	0.00	4.44
2737	34942	2.727798	ACACGACGACTAATTTGGAACG	59.272	45.455	0.00	0.00	0.00	3.95
2738	34943	4.025480	ACAACACGACGACTAATTTGGAAC	60.025	41.667	0.00	0.00	0.00	3.62
2739	34944	4.121317	ACAACACGACGACTAATTTGGAA	58.879	39.130	0.00	0.00	0.00	3.53
2740	34945	3.719924	ACAACACGACGACTAATTTGGA	58.280	40.909	0.00	0.00	0.00	3.53
2741	34946	4.461992	AACAACACGACGACTAATTTGG	57.538	40.909	0.00	0.00	0.00	3.28
2742	34947	6.206600	ACTAACAACACGACGACTAATTTG	57.793	37.500	0.00	0.00	0.00	2.32
2743	34948	6.476380	TGAACTAACAACACGACGACTAATTT	59.524	34.615	0.00	0.00	0.00	1.82
2744	34949	5.978919	TGAACTAACAACACGACGACTAATT	59.021	36.000	0.00	0.00	0.00	1.40
2745	34950	5.522456	TGAACTAACAACACGACGACTAAT	58.478	37.500	0.00	0.00	0.00	1.73
2746	34951	4.919206	TGAACTAACAACACGACGACTAA	58.081	39.130	0.00	0.00	0.00	2.24
2747	34952	4.550577	TGAACTAACAACACGACGACTA	57.449	40.909	0.00	0.00	0.00	2.59
2748	34953	3.425577	TGAACTAACAACACGACGACT	57.574	42.857	0.00	0.00	0.00	4.18
2749	34954	4.503767	TTTGAACTAACAACACGACGAC	57.496	40.909	0.00	0.00	0.00	4.34
2750	34955	5.721876	AATTTGAACTAACAACACGACGA	57.278	34.783	0.00	0.00	0.00	4.20
2751	34956	5.960683	TCAAATTTGAACTAACAACACGACG	59.039	36.000	18.45	0.00	33.55	5.12
2752	34957	7.728580	TTCAAATTTGAACTAACAACACGAC	57.271	32.000	26.01	0.00	41.88	4.34
2765	34970	6.469595	CGTCGTGGTTTTAGTTCAAATTTGAA	59.530	34.615	26.01	26.01	44.31	2.69
2766	34971	5.966503	CGTCGTGGTTTTAGTTCAAATTTGA	59.033	36.000	16.91	16.91	34.92	2.69
2767	34972	5.966503	TCGTCGTGGTTTTAGTTCAAATTTG	59.033	36.000	12.15	12.15	0.00	2.32
2768	34973	5.967088	GTCGTCGTGGTTTTAGTTCAAATTT	59.033	36.000	0.00	0.00	0.00	1.82
2769	34974	5.295045	AGTCGTCGTGGTTTTAGTTCAAATT	59.705	36.000	0.00	0.00	0.00	1.82
2770	34975	4.812626	AGTCGTCGTGGTTTTAGTTCAAAT	59.187	37.500	0.00	0.00	0.00	2.32
2771	34976	4.183101	AGTCGTCGTGGTTTTAGTTCAAA	58.817	39.130	0.00	0.00	0.00	2.69
2772	34977	3.784338	AGTCGTCGTGGTTTTAGTTCAA	58.216	40.909	0.00	0.00	0.00	2.69
2773	34978	3.441496	AGTCGTCGTGGTTTTAGTTCA	57.559	42.857	0.00	0.00	0.00	3.18
2774	34979	6.457851	AATTAGTCGTCGTGGTTTTAGTTC	57.542	37.500	0.00	0.00	0.00	3.01
2775	34980	6.293027	CCAAATTAGTCGTCGTGGTTTTAGTT	60.293	38.462	0.00	0.00	0.00	2.24
2776	34981	5.178067	CCAAATTAGTCGTCGTGGTTTTAGT	59.822	40.000	0.00	0.00	0.00	2.24
2777	34982	5.406175	TCCAAATTAGTCGTCGTGGTTTTAG	59.594	40.000	0.00	0.00	0.00	1.85
2778	34983	5.295950	TCCAAATTAGTCGTCGTGGTTTTA	58.704	37.500	0.00	0.00	0.00	1.52
2779	34984	4.128643	TCCAAATTAGTCGTCGTGGTTTT	58.871	39.130	0.00	0.00	0.00	2.43
2780	34985	3.731089	TCCAAATTAGTCGTCGTGGTTT	58.269	40.909	0.00	0.00	0.00	3.27
2781	34986	3.389925	TCCAAATTAGTCGTCGTGGTT	57.610	42.857	0.00	0.00	0.00	3.67
2782	34987	3.062042	GTTCCAAATTAGTCGTCGTGGT	58.938	45.455	0.00	0.00	0.00	4.16
2783	34988	2.091588	CGTTCCAAATTAGTCGTCGTGG	59.908	50.000	0.00	0.00	0.00	4.94
2784	34989	2.091588	CCGTTCCAAATTAGTCGTCGTG	59.908	50.000	0.00	0.00	0.00	4.35
2785	34990	2.030007	TCCGTTCCAAATTAGTCGTCGT	60.030	45.455	0.00	0.00	0.00	4.34
2786	34991	2.597305	CTCCGTTCCAAATTAGTCGTCG	59.403	50.000	0.00	0.00	0.00	5.12
2787	34992	2.928116	CCTCCGTTCCAAATTAGTCGTC	59.072	50.000	0.00	0.00	0.00	4.20
2788	34993	2.354403	CCCTCCGTTCCAAATTAGTCGT	60.354	50.000	0.00	0.00	0.00	4.34
2789	34994	2.093869	TCCCTCCGTTCCAAATTAGTCG	60.094	50.000	0.00	0.00	0.00	4.18
2790	34995	3.055312	ACTCCCTCCGTTCCAAATTAGTC	60.055	47.826	0.00	0.00	0.00	2.59
2791	34996	2.910977	ACTCCCTCCGTTCCAAATTAGT	59.089	45.455	0.00	0.00	0.00	2.24
2792	34997	3.629142	ACTCCCTCCGTTCCAAATTAG	57.371	47.619	0.00	0.00	0.00	1.73
2793	34998	4.098894	AGTACTCCCTCCGTTCCAAATTA	58.901	43.478	0.00	0.00	0.00	1.40
2794	34999	2.910977	AGTACTCCCTCCGTTCCAAATT	59.089	45.455	0.00	0.00	0.00	1.82
2795	35000	2.547990	AGTACTCCCTCCGTTCCAAAT	58.452	47.619	0.00	0.00	0.00	2.32
2796	35001	2.019807	AGTACTCCCTCCGTTCCAAA	57.980	50.000	0.00	0.00	0.00	3.28
2797	35002	2.905415	TAGTACTCCCTCCGTTCCAA	57.095	50.000	0.00	0.00	0.00	3.53
2798	35003	3.393426	AATAGTACTCCCTCCGTTCCA	57.607	47.619	0.00	0.00	0.00	3.53
2799	35004	6.244654	AGTATAATAGTACTCCCTCCGTTCC	58.755	44.000	0.00	0.00	28.99	3.62
2922	35127	3.339253	ACAGAGTATTGAGTGCATGCA	57.661	42.857	18.46	18.46	0.00	3.96
2992	35197	4.584638	TTTGGGCTGATGTGGTTACTAT	57.415	40.909	0.00	0.00	0.00	2.12
3060	35265	4.744795	ACTAGTGCCATTCTAAGACTGG	57.255	45.455	0.00	0.00	35.79	4.00
3125	35330	7.672738	AGTTACGCATTCTAAACACGATAAAG	58.327	34.615	0.00	0.00	0.00	1.85
3214	35421	4.260538	GCTATTTTTGACAGCTCATCGGAG	60.261	45.833	0.00	0.00	44.33	4.63
3250	35457	6.576778	AAGGTTAGATGTGCTATTTACCCT	57.423	37.500	0.00	0.00	30.81	4.34
3308	35522	9.614792	CCTTAGTTAGATGTGCTATTTTACCTT	57.385	33.333	0.00	0.00	0.00	3.50
3406	35624	1.153549	GAGGCCTCGCTCGTCATTT	60.154	57.895	19.06	0.00	0.00	2.32
3457	35675	1.343069	GAGGAGTAGGATGGCGGATT	58.657	55.000	0.00	0.00	0.00	3.01
3458	35676	0.543174	GGAGGAGTAGGATGGCGGAT	60.543	60.000	0.00	0.00	0.00	4.18
3459	35677	1.152525	GGAGGAGTAGGATGGCGGA	60.153	63.158	0.00	0.00	0.00	5.54
3460	35678	1.152440	AGGAGGAGTAGGATGGCGG	60.152	63.158	0.00	0.00	0.00	6.13
3461	35679	0.178975	AGAGGAGGAGTAGGATGGCG	60.179	60.000	0.00	0.00	0.00	5.69
3462	35680	2.802719	CTAGAGGAGGAGTAGGATGGC	58.197	57.143	0.00	0.00	0.00	4.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.