AutoCloner

Multiple sequence alignment - TraesCS7A01G399900

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	TraesCS7A01G399900	chr7A	100.000	3152	0	0	1	3152	579731725	579734876	0.000000e+00	5821.0
1	TraesCS7A01G399900	chr7A	90.408	834	63	13	1	820	461793004	461793834	0.000000e+00	1081.0
2	TraesCS7A01G399900	chr7A	90.000	800	65	5	22	821	28355040	28354256	0.000000e+00	1020.0
3	TraesCS7A01G399900	chr7A	88.902	838	74	7	1	820	162589139	162589975	0.000000e+00	1014.0
4	TraesCS7A01G399900	chr7D	92.875	1614	84	15	813	2400	509200043	509201651	0.000000e+00	2314.0
5	TraesCS7A01G399900	chr7D	92.196	756	54	4	2398	3152	509201735	509202486	0.000000e+00	1064.0
6	TraesCS7A01G399900	chr7D	89.101	734	58	13	22	743	594140482	594139759	0.000000e+00	893.0
7	TraesCS7A01G399900	chr7D	83.975	805	107	11	22	820	104636597	104637385	0.000000e+00	752.0
8	TraesCS7A01G399900	chr7D	78.140	430	61	21	2747	3151	622542294	622541873	3.140000e-60	243.0
9	TraesCS7A01G399900	chr7D	80.864	162	21	9	2968	3124	574296620	574296464	5.520000e-23	119.0
10	TraesCS7A01G399900	chr7B	93.686	1457	79	6	880	2331	537384076	537385524	0.000000e+00	2169.0
11	TraesCS7A01G399900	chr6D	91.205	830	56	7	1	820	139291416	139290594	0.000000e+00	1112.0
12	TraesCS7A01G399900	chr6D	88.634	827	63	13	1	820	408217674	408218476	0.000000e+00	977.0
13	TraesCS7A01G399900	chr4D	90.326	827	68	2	1	818	381097543	381098366	0.000000e+00	1074.0
14	TraesCS7A01G399900	chr1D	90.590	797	64	7	22	818	482020180	482020965	0.000000e+00	1046.0
15	TraesCS7A01G399900	chr1D	85.215	629	80	8	193	820	269991391	269992007	4.440000e-178	634.0
16	TraesCS7A01G399900	chr1D	79.206	428	70	12	2741	3152	59302915	59303339	2.390000e-71	279.0
17	TraesCS7A01G399900	chr5A	90.811	740	52	7	1	731	436305956	436306688	0.000000e+00	976.0
18	TraesCS7A01G399900	chr5A	72.938	388	71	22	2774	3143	343963509	343963138	1.550000e-18	104.0
19	TraesCS7A01G399900	chr2A	91.022	724	56	6	1	720	613268252	613268970	0.000000e+00	968.0
20	TraesCS7A01G399900	chr6A	86.642	801	96	7	1	795	34072527	34073322	0.000000e+00	876.0
21	TraesCS7A01G399900	chr2D	84.083	823	105	10	1	820	143495187	143494388	0.000000e+00	771.0
22	TraesCS7A01G399900	chr1A	82.487	748	109	16	78	820	281654088	281653358	1.230000e-178	636.0
23	TraesCS7A01G399900	chr3A	86.325	117	14	2	3033	3148	725069949	725070064	3.300000e-25	126.0
24	TraesCS7A01G399900	chr3B	83.761	117	16	3	3033	3148	797728433	797728547	1.200000e-19	108.0
25	TraesCS7A01G399900	chr3B	81.132	106	16	4	3032	3135	797729413	797729516	7.250000e-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	TraesCS7A01G399900	chr7A	579731725	579734876	3151	False	5821	5821	100.0000	1	3152	1	chr7A.!!$F3	3151
1	TraesCS7A01G399900	chr7A	461793004	461793834	830	False	1081	1081	90.4080	1	820	1	chr7A.!!$F2	819
2	TraesCS7A01G399900	chr7A	28354256	28355040	784	True	1020	1020	90.0000	22	821	1	chr7A.!!$R1	799
3	TraesCS7A01G399900	chr7A	162589139	162589975	836	False	1014	1014	88.9020	1	820	1	chr7A.!!$F1	819
4	TraesCS7A01G399900	chr7D	509200043	509202486	2443	False	1689	2314	92.5355	813	3152	2	chr7D.!!$F2	2339
5	TraesCS7A01G399900	chr7D	594139759	594140482	723	True	893	893	89.1010	22	743	1	chr7D.!!$R2	721
6	TraesCS7A01G399900	chr7D	104636597	104637385	788	False	752	752	83.9750	22	820	1	chr7D.!!$F1	798
7	TraesCS7A01G399900	chr7B	537384076	537385524	1448	False	2169	2169	93.6860	880	2331	1	chr7B.!!$F1	1451
8	TraesCS7A01G399900	chr6D	139290594	139291416	822	True	1112	1112	91.2050	1	820	1	chr6D.!!$R1	819
9	TraesCS7A01G399900	chr6D	408217674	408218476	802	False	977	977	88.6340	1	820	1	chr6D.!!$F1	819
10	TraesCS7A01G399900	chr4D	381097543	381098366	823	False	1074	1074	90.3260	1	818	1	chr4D.!!$F1	817
11	TraesCS7A01G399900	chr1D	482020180	482020965	785	False	1046	1046	90.5900	22	818	1	chr1D.!!$F3	796
12	TraesCS7A01G399900	chr1D	269991391	269992007	616	False	634	634	85.2150	193	820	1	chr1D.!!$F2	627
13	TraesCS7A01G399900	chr5A	436305956	436306688	732	False	976	976	90.8110	1	731	1	chr5A.!!$F1	730
14	TraesCS7A01G399900	chr2A	613268252	613268970	718	False	968	968	91.0220	1	720	1	chr2A.!!$F1	719
15	TraesCS7A01G399900	chr6A	34072527	34073322	795	False	876	876	86.6420	1	795	1	chr6A.!!$F1	794
16	TraesCS7A01G399900	chr2D	143494388	143495187	799	True	771	771	84.0830	1	820	1	chr2D.!!$R1	819
17	TraesCS7A01G399900	chr1A	281653358	281654088	730	True	636	636	82.4870	78	820	1	chr1A.!!$R1	742

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
702	785	1.076559	TCTGGAATAGGTCGCCCGA	60.077	57.895	0.0	0.0	35.12	5.14	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2679	2887	0.371301	CGTGTGTCATGCAGAATCCG	59.629	55.0	0.0	0.0	0.0	4.18	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
535	583	1.756561	TCGATGGCGTCCTCCATGA	60.757	57.895	0.14	0.00	46.29	3.07
580	648	1.598685	GACGGGAGCGTTTTTGGGA	60.599	57.895	0.00	0.00	0.00	4.37
650	730	4.806481	GCGCGCGTCTGTCTCGTA	62.806	66.667	32.35	0.00	0.00	3.43
702	785	1.076559	TCTGGAATAGGTCGCCCGA	60.077	57.895	0.00	0.00	35.12	5.14
737	820	2.019951	CACGTCCGTTTGAGTCGGG	61.020	63.158	4.58	0.00	46.82	5.14
738	821	2.195567	ACGTCCGTTTGAGTCGGGA	61.196	57.895	4.58	0.00	46.82	5.14
766	849	1.800681	GCCACTTTTATCCGCGCTT	59.199	52.632	5.56	0.00	0.00	4.68
774	857	2.335316	TTATCCGCGCTTACCCAAAT	57.665	45.000	5.56	0.00	0.00	2.32
828	911	4.144297	TGGAGTTGCTCTTAATTTGCAGT	58.856	39.130	0.00	0.00	38.01	4.40
829	912	5.312895	TGGAGTTGCTCTTAATTTGCAGTA	58.687	37.500	0.00	0.00	38.01	2.74
832	915	6.749118	GGAGTTGCTCTTAATTTGCAGTATTG	59.251	38.462	6.43	0.00	38.01	1.90
844	927	3.344904	GCAGTATTGCTTGCATCGATT	57.655	42.857	2.45	0.00	46.95	3.34
866	950	8.060679	CGATTGATCAACATACAAGATGAAGAC	58.939	37.037	11.07	0.00	0.00	3.01
867	951	6.892310	TGATCAACATACAAGATGAAGACG	57.108	37.500	0.00	0.00	0.00	4.18
868	952	6.630071	TGATCAACATACAAGATGAAGACGA	58.370	36.000	0.00	0.00	0.00	4.20
869	953	6.753744	TGATCAACATACAAGATGAAGACGAG	59.246	38.462	0.00	0.00	0.00	4.18
870	954	6.267496	TCAACATACAAGATGAAGACGAGA	57.733	37.500	0.00	0.00	0.00	4.04
872	956	5.255710	ACATACAAGATGAAGACGAGAGG	57.744	43.478	0.00	0.00	0.00	3.69
873	957	2.663826	ACAAGATGAAGACGAGAGGC	57.336	50.000	0.00	0.00	42.06	4.70
900	995	5.831702	ACTATTAGTAGTCGAGGTGTTGG	57.168	43.478	0.00	0.00	36.41	3.77
924	1025	5.291905	TCAGCTGAATCATCATCATCTGT	57.708	39.130	15.67	0.00	40.30	3.41
931	1032	3.918294	TCATCATCATCTGTCTTGCCA	57.082	42.857	0.00	0.00	0.00	4.92
934	1035	1.279846	TCATCATCTGTCTTGCCAGCA	59.720	47.619	0.00	0.00	32.32	4.41
1053	1169	1.153489	CAGCCTGGACCTCATGTCG	60.153	63.158	0.00	0.00	45.46	4.35
1095	1211	3.066814	GGCCAGACCTACGACCGT	61.067	66.667	0.00	0.00	34.51	4.83
1273	1389	2.572284	GGGACAACCTCCTCGACG	59.428	66.667	0.00	0.00	39.39	5.12
1274	1390	2.126031	GGACAACCTCCTCGACGC	60.126	66.667	0.00	0.00	35.89	5.19
1275	1391	2.126031	GACAACCTCCTCGACGCC	60.126	66.667	0.00	0.00	0.00	5.68
1353	1475	4.467107	AGGTCGCTCTCCCCTCCC	62.467	72.222	0.00	0.00	0.00	4.30
1492	1614	1.349026	TGCAGGAGGAGAAGAAGTTGG	59.651	52.381	0.00	0.00	0.00	3.77
1503	1625	0.695347	AGAAGTTGGCCTCCTCCTTG	59.305	55.000	3.32	0.00	0.00	3.61
1527	1649	4.506802	GCCTTCCTTTTAAGACAAGGGAGA	60.507	45.833	12.63	0.00	46.75	3.71
1777	1899	0.457443	CCTGCTCTCGTACATCAGCA	59.543	55.000	8.79	8.79	39.58	4.41
1778	1900	1.134995	CCTGCTCTCGTACATCAGCAA	60.135	52.381	10.02	0.00	41.27	3.91
1836	1958	1.761174	GACCCTGGCTCTGGAAACA	59.239	57.895	0.00	0.00	39.59	2.83
1887	2009	3.402681	AGGCAGGCCATGTACGCT	61.403	61.111	13.63	0.00	38.92	5.07
2331	2453	1.865865	TTCTCTCAAGTGGCAACGAC	58.134	50.000	0.00	0.00	42.51	4.34
2356	2478	0.601576	AATGTCCGTGCGTTGCTACA	60.602	50.000	0.00	0.00	0.00	2.74
2360	2482	0.531090	TCCGTGCGTTGCTACAAACT	60.531	50.000	0.00	0.00	0.00	2.66
2421	2629	8.735692	TTATGATATCATTCTGCAAGTGTTGA	57.264	30.769	22.84	0.00	37.76	3.18
2432	2640	4.392047	TGCAAGTGTTGATCTCACAAGAT	58.608	39.130	18.44	0.00	45.16	2.40
2440	2648	8.898761	AGTGTTGATCTCACAAGATAGTAGTAG	58.101	37.037	18.44	0.00	42.46	2.57
2573	2781	1.704628	TCCCACACATGAACTCACCAT	59.295	47.619	0.00	0.00	0.00	3.55
2577	2785	3.760151	CCACACATGAACTCACCATCAAT	59.240	43.478	0.00	0.00	0.00	2.57
2625	2833	2.378038	TCTTCTGCATATTTGGGGCAC	58.622	47.619	0.00	0.00	33.34	5.01
2636	2844	1.240641	TTGGGGCACGCTACATGTTG	61.241	55.000	2.30	2.50	43.80	3.33
2657	2865	6.487668	TGTTGGCTGATTAATACATGGATCAG	59.512	38.462	15.16	15.16	45.14	2.90
2660	2868	7.464273	TGGCTGATTAATACATGGATCAGATT	58.536	34.615	19.99	0.00	45.17	2.40
2670	2878	0.681733	GGATCAGATTAGCCGCCTCA	59.318	55.000	0.00	0.00	0.00	3.86
2672	2880	2.411904	GATCAGATTAGCCGCCTCAAG	58.588	52.381	0.00	0.00	0.00	3.02
2692	2900	1.521457	GCCGTCGGATTCTGCATGA	60.521	57.895	17.49	0.00	0.00	3.07
2709	2917	0.885879	TGACACACGTCTAATCGCCT	59.114	50.000	0.00	0.00	43.06	5.52
2717	2925	0.461961	GTCTAATCGCCTGCTCCAGT	59.538	55.000	0.00	0.00	0.00	4.00
2745	2953	0.035152	AGCATGGCTTCCATTGTCGA	60.035	50.000	0.00	0.00	42.23	4.20
2764	2972	3.884693	TCGAGGTATTTGCACGGTAGATA	59.115	43.478	0.00	0.00	0.00	1.98
2766	2974	4.261489	CGAGGTATTTGCACGGTAGATACT	60.261	45.833	0.00	0.00	0.00	2.12
2771	2979	8.863086	AGGTATTTGCACGGTAGATACTATAAA	58.137	33.333	0.00	0.00	0.00	1.40
2798	3006	0.608640	ATCTCGTGTGGTTGGGACTC	59.391	55.000	0.00	0.00	0.00	3.36
2824	3032	2.034879	CCAACGGCGTCTGAATGCT	61.035	57.895	15.17	0.00	37.57	3.79
2857	3065	0.038251	GCACCGATGACACAGAGACA	60.038	55.000	0.00	0.00	0.00	3.41
2867	3075	2.166664	GACACAGAGACATACCCAGGTC	59.833	54.545	0.00	0.00	35.69	3.85
2869	3077	1.078823	ACAGAGACATACCCAGGTCCA	59.921	52.381	0.00	0.00	36.09	4.02
2872	3080	0.716591	AGACATACCCAGGTCCAGGA	59.283	55.000	0.82	0.00	36.09	3.86
2886	3094	3.474570	AGGACCCTCGCATGGAGC	61.475	66.667	0.00	0.00	41.71	4.70
2890	3098	0.394565	GACCCTCGCATGGAGCTAAT	59.605	55.000	0.00	0.00	41.71	1.73
2902	3110	3.845860	TGGAGCTAATACCCTAGTCCTG	58.154	50.000	0.00	0.00	0.00	3.86
2933	3141	0.687354	ATGAGGAACACGGTTGCTCT	59.313	50.000	26.18	15.78	37.69	4.09
2944	3152	4.021368	ACACGGTTGCTCTTAGAGTTGTAT	60.021	41.667	11.18	0.00	31.39	2.29
2946	3154	4.219944	ACGGTTGCTCTTAGAGTTGTATCA	59.780	41.667	11.18	0.00	31.39	2.15
2952	3160	5.358442	TGCTCTTAGAGTTGTATCAGAGGAC	59.642	44.000	11.18	0.00	31.39	3.85
2953	3161	5.358442	GCTCTTAGAGTTGTATCAGAGGACA	59.642	44.000	11.18	0.00	31.39	4.02
2956	3164	8.190326	TCTTAGAGTTGTATCAGAGGACAAAA	57.810	34.615	2.87	0.00	37.31	2.44
2957	3165	8.647796	TCTTAGAGTTGTATCAGAGGACAAAAA	58.352	33.333	2.87	0.00	37.31	1.94
2987	3195	0.922626	TAGCTCTGCTCTCTCCCTCA	59.077	55.000	0.00	0.00	40.44	3.86
3004	3212	2.358957	CTCATGTATGTGGGTGTGGTG	58.641	52.381	0.00	0.00	0.00	4.17
3018	3226	2.037772	GTGTGGTGGTGAGAATGAGTCT	59.962	50.000	0.00	0.00	40.25	3.24

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
351	380	1.229209	AAGGGAGTCGGCCAAGAGA	60.229	57.895	2.24	0.00	0.00	3.10
580	648	1.053264	TGGCAGCCACCACCATTTTT	61.053	50.000	11.22	0.00	33.75	1.94
616	694	1.112315	CGCATGCCTACTCCTCTCCT	61.112	60.000	13.15	0.00	0.00	3.69
702	785	1.227321	TGCGTCCGTTTTTCGTCCT	60.227	52.632	0.00	0.00	37.94	3.85
737	820	1.232621	AAAAGTGGCGGCCTAACGTC	61.233	55.000	21.46	3.97	39.28	4.34
738	821	0.035176	TAAAAGTGGCGGCCTAACGT	59.965	50.000	21.46	6.33	35.98	3.99
743	826	1.451387	CGGATAAAAGTGGCGGCCT	60.451	57.895	21.46	1.18	0.00	5.19
766	849	1.015085	CGTCCGCGTTCATTTGGGTA	61.015	55.000	4.92	0.00	0.00	3.69
774	857	2.752322	ATTTCGTCCGTCCGCGTTCA	62.752	55.000	4.92	0.00	36.15	3.18
828	911	5.066246	TGTTGATCAATCGATGCAAGCAATA	59.934	36.000	12.12	0.00	29.66	1.90
829	912	4.142337	TGTTGATCAATCGATGCAAGCAAT	60.142	37.500	12.12	0.00	29.66	3.56
832	915	3.409851	TGTTGATCAATCGATGCAAGC	57.590	42.857	12.12	0.00	29.66	4.01
836	919	6.291067	TCTTGTATGTTGATCAATCGATGC	57.709	37.500	12.12	8.47	29.66	3.91
844	927	6.630071	TCGTCTTCATCTTGTATGTTGATCA	58.370	36.000	0.00	0.00	0.00	2.92
866	950	6.380095	ACTACTAATAGTTTCAGCCTCTCG	57.620	41.667	0.00	0.00	38.59	4.04
867	951	6.260493	TCGACTACTAATAGTTTCAGCCTCTC	59.740	42.308	0.00	0.00	41.98	3.20
868	952	6.120905	TCGACTACTAATAGTTTCAGCCTCT	58.879	40.000	0.00	0.00	41.98	3.69
869	953	6.374565	TCGACTACTAATAGTTTCAGCCTC	57.625	41.667	0.00	0.00	41.98	4.70
870	954	5.299782	CCTCGACTACTAATAGTTTCAGCCT	59.700	44.000	0.00	0.00	41.98	4.58
872	956	5.972382	CACCTCGACTACTAATAGTTTCAGC	59.028	44.000	0.00	0.00	41.98	4.26
873	957	7.086230	ACACCTCGACTACTAATAGTTTCAG	57.914	40.000	0.00	0.00	41.98	3.02
874	958	7.310664	CAACACCTCGACTACTAATAGTTTCA	58.689	38.462	0.00	0.00	41.98	2.69
875	959	6.750963	CCAACACCTCGACTACTAATAGTTTC	59.249	42.308	0.00	0.00	41.98	2.78
876	960	6.210185	ACCAACACCTCGACTACTAATAGTTT	59.790	38.462	0.00	0.00	41.98	2.66
877	961	5.713861	ACCAACACCTCGACTACTAATAGTT	59.286	40.000	0.00	0.00	41.98	2.24
878	962	5.259632	ACCAACACCTCGACTACTAATAGT	58.740	41.667	0.00	0.00	44.74	2.12
931	1032	1.003597	CAGCTGAAGTGAGCCTGCT	60.004	57.895	8.42	0.00	40.08	4.24
934	1035	2.350514	GGCAGCTGAAGTGAGCCT	59.649	61.111	20.43	0.00	42.01	4.58
980	1096	3.712016	TCAGCTCACTCTCTAGTCACT	57.288	47.619	0.00	0.00	31.97	3.41
981	1097	3.944650	TCATCAGCTCACTCTCTAGTCAC	59.055	47.826	0.00	0.00	31.97	3.67
982	1098	4.227864	TCATCAGCTCACTCTCTAGTCA	57.772	45.455	0.00	0.00	31.97	3.41
983	1099	4.580167	ACATCATCAGCTCACTCTCTAGTC	59.420	45.833	0.00	0.00	31.97	2.59
984	1100	4.535781	ACATCATCAGCTCACTCTCTAGT	58.464	43.478	0.00	0.00	35.91	2.57
985	1101	5.067544	TCAACATCATCAGCTCACTCTCTAG	59.932	44.000	0.00	0.00	0.00	2.43
986	1102	4.952335	TCAACATCATCAGCTCACTCTCTA	59.048	41.667	0.00	0.00	0.00	2.43
987	1103	3.768215	TCAACATCATCAGCTCACTCTCT	59.232	43.478	0.00	0.00	0.00	3.10
988	1104	4.120792	TCAACATCATCAGCTCACTCTC	57.879	45.455	0.00	0.00	0.00	3.20
1053	1169	4.716977	AGGAGGGTGACGGGGTCC	62.717	72.222	0.00	0.00	0.00	4.46
1192	1308	3.426568	GAGGTGCTTGAGCGTGCC	61.427	66.667	0.00	1.29	45.83	5.01
1419	1541	2.283532	AGGAGGCAGTCGAGTGCT	60.284	61.111	36.62	25.41	43.45	4.40
1503	1625	2.826128	CCCTTGTCTTAAAAGGAAGGCC	59.174	50.000	6.06	0.00	46.08	5.19
1527	1649	2.441001	CAGGCCTATCTTGATCTTGGGT	59.559	50.000	3.98	0.00	0.00	4.51
1620	1742	4.175337	GCGGCCAGTGCTCCCATA	62.175	66.667	2.24	0.00	37.74	2.74
1777	1899	2.358737	CTTTCTGGAGCCGCCGTT	60.359	61.111	0.00	0.00	40.66	4.44
1778	1900	3.302347	CTCTTTCTGGAGCCGCCGT	62.302	63.158	0.00	0.00	40.66	5.68
1836	1958	1.286260	GACGAGCACGAGTTCCAGT	59.714	57.895	11.40	0.00	42.66	4.00
2234	2356	5.028549	AGATGACCATGAGCTCGTTAATT	57.971	39.130	5.46	0.00	0.00	1.40
2331	2453	3.803082	CGCACGGACATTGGGCTG	61.803	66.667	0.00	0.00	0.00	4.85
2335	2457	1.295357	TAGCAACGCACGGACATTGG	61.295	55.000	0.00	0.00	0.00	3.16
2400	2522	7.226128	TGAGATCAACACTTGCAGAATGATATC	59.774	37.037	13.25	13.25	39.69	1.63
2445	2653	9.865484	GTGCTTTTACTAAAACAAACAAACAAA	57.135	25.926	0.00	0.00	0.00	2.83
2496	2704	3.279434	CCATTTGTGGGGCTAGTAACTC	58.721	50.000	0.00	0.00	0.00	3.01
2499	2707	2.818751	CCCATTTGTGGGGCTAGTAA	57.181	50.000	5.56	0.00	45.34	2.24
2538	2746	4.202514	TGTGTGGGATCAACAACCTTCATA	60.203	41.667	2.32	0.00	0.00	2.15
2545	2753	3.569701	AGTTCATGTGTGGGATCAACAAC	59.430	43.478	2.32	0.00	0.00	3.32
2546	2754	3.820467	GAGTTCATGTGTGGGATCAACAA	59.180	43.478	2.32	0.00	0.00	2.83
2552	2760	1.704628	TGGTGAGTTCATGTGTGGGAT	59.295	47.619	0.00	0.00	0.00	3.85
2573	2781	4.927267	ACTCCATGTAGGTTGGAATTGA	57.073	40.909	0.00	0.00	42.56	2.57
2577	2785	6.134535	ACAAATACTCCATGTAGGTTGGAA	57.865	37.500	0.00	0.00	42.56	3.53
2606	2814	1.066002	CGTGCCCCAAATATGCAGAAG	59.934	52.381	0.00	0.00	35.33	2.85
2625	2833	4.818534	ATTAATCAGCCAACATGTAGCG	57.181	40.909	13.43	9.58	0.00	4.26
2636	2844	7.934855	AATCTGATCCATGTATTAATCAGCC	57.065	36.000	6.38	0.00	43.04	4.85
2657	2865	0.882484	GGCTCTTGAGGCGGCTAATC	60.882	60.000	13.24	0.00	0.00	1.75
2670	2878	1.153549	GCAGAATCCGACGGCTCTT	60.154	57.895	9.66	2.23	0.00	2.85
2672	2880	1.227380	ATGCAGAATCCGACGGCTC	60.227	57.895	9.66	8.37	0.00	4.70
2679	2887	0.371301	CGTGTGTCATGCAGAATCCG	59.629	55.000	0.00	0.00	0.00	4.18
2692	2900	0.736325	GCAGGCGATTAGACGTGTGT	60.736	55.000	0.00	0.00	35.59	3.72
2717	2925	1.066716	GGAAGCCATGCTGCAAATTGA	60.067	47.619	6.36	0.00	39.62	2.57
2745	2953	6.912951	ATAGTATCTACCGTGCAAATACCT	57.087	37.500	0.00	0.00	0.00	3.08
2764	2972	6.273825	CACACGAGATAAGCCACTTTATAGT	58.726	40.000	0.00	0.00	34.00	2.12
2766	2974	5.128171	ACCACACGAGATAAGCCACTTTATA	59.872	40.000	0.00	0.00	0.00	0.98
2771	2979	1.267121	ACCACACGAGATAAGCCACT	58.733	50.000	0.00	0.00	0.00	4.00
2817	3025	1.209261	TCGTGCCTAATCCAGCATTCA	59.791	47.619	0.00	0.00	41.86	2.57
2819	3027	1.959042	CTCGTGCCTAATCCAGCATT	58.041	50.000	0.00	0.00	41.86	3.56
2824	3032	1.220749	GGTGCTCGTGCCTAATCCA	59.779	57.895	7.05	0.00	38.71	3.41
2867	3075	3.083349	TCCATGCGAGGGTCCTGG	61.083	66.667	0.00	0.00	0.00	4.45
2869	3077	3.474570	GCTCCATGCGAGGGTCCT	61.475	66.667	11.63	0.00	39.22	3.85
2886	3094	4.223953	TCCTTGCAGGACTAGGGTATTAG	58.776	47.826	0.00	0.00	40.06	1.73
2902	3110	3.873952	GTGTTCCTCATAGTGATCCTTGC	59.126	47.826	0.00	0.00	0.00	4.01
2918	3126	2.288886	ACTCTAAGAGCAACCGTGTTCC	60.289	50.000	0.00	0.00	35.69	3.62
2987	3195	1.072266	ACCACCACACCCACATACAT	58.928	50.000	0.00	0.00	0.00	2.29
3004	3212	1.737363	GCGGTCAGACTCATTCTCACC	60.737	57.143	0.00	0.00	42.17	4.02
3018	3226	2.365105	CCCCCTAGAAGGCGGTCA	60.365	66.667	0.00	0.00	32.73	4.02
3023	3231	2.447714	CAGGAGCCCCCTAGAAGGC	61.448	68.421	13.52	13.52	45.60	4.35
3068	3277	4.463891	CCACCTTCTCAGGCATTTTGTAAT	59.536	41.667	0.00	0.00	45.56	1.89

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.