AutoCloner

Multiple sequence alignment - TraesCS7D01G208900

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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	TraesCS7D01G208900	chr7D	100.000	3473	0	0	1	3473	167079573	167076101	0.000000e+00	6414.0
1	TraesCS7D01G208900	chr7D	76.583	1042	197	37	1364	2392	166514005	166512998	2.370000e-146	529.0
2	TraesCS7D01G208900	chr7D	82.136	487	74	9	87	568	567714865	567715343	4.170000e-109	405.0
3	TraesCS7D01G208900	chr7D	95.349	43	2	0	2835	2877	167076657	167076615	6.220000e-08	69.4
4	TraesCS7D01G208900	chr7D	95.349	43	2	0	2917	2959	167076739	167076697	6.220000e-08	69.4
5	TraesCS7D01G208900	chr7D	90.196	51	5	0	732	782	167078902	167078852	2.240000e-07	67.6
6	TraesCS7D01G208900	chr7B	96.354	1810	48	6	945	2745	131179212	131177412	0.000000e+00	2961.0
7	TraesCS7D01G208900	chr7B	91.812	916	67	5	4	917	131181000	131180091	0.000000e+00	1269.0
8	TraesCS7D01G208900	chr7B	76.465	1041	200	35	1364	2392	130747019	130746012	1.100000e-144	523.0
9	TraesCS7D01G208900	chr7A	95.669	1801	69	3	945	2745	168461099	168459308	0.000000e+00	2885.0
10	TraesCS7D01G208900	chr7A	91.941	881	65	3	4	883	168465255	168464380	0.000000e+00	1229.0
11	TraesCS7D01G208900	chr7A	76.679	1042	196	37	1364	2392	167904377	167903370	5.100000e-148	534.0
12	TraesCS7D01G208900	chr7A	88.529	401	24	11	3003	3399	168458390	168458008	1.890000e-127	466.0
13	TraesCS7D01G208900	chr7A	96.429	112	3	1	2745	2855	168459200	168459089	2.130000e-42	183.0
14	TraesCS7D01G208900	chr7A	96.104	77	2	1	3397	3472	168445276	168445200	1.310000e-24	124.0
15	TraesCS7D01G208900	chr7A	93.750	48	2	1	671	717	168464530	168464483	1.730000e-08	71.3
16	TraesCS7D01G208900	chr6A	75.796	1194	233	48	1225	2402	525030861	525029708	1.410000e-153	553.0
17	TraesCS7D01G208900	chr6D	75.481	1195	235	50	1225	2402	383227981	383226828	6.600000e-147	531.0
18	TraesCS7D01G208900	chr6B	75.209	1194	236	52	1225	2400	573414846	573413695	8.600000e-141	510.0
19	TraesCS7D01G208900	chr6B	78.689	549	103	10	86	625	449046487	449045944	1.530000e-93	353.0
20	TraesCS7D01G208900	chr5A	81.499	627	104	9	86	707	258035530	258036149	4.000000e-139	505.0
21	TraesCS7D01G208900	chr1A	74.472	1183	243	43	1225	2391	559707826	559706687	1.140000e-124	457.0
22	TraesCS7D01G208900	chr1A	79.032	186	20	10	1	167	586721585	586721400	3.660000e-20	110.0
23	TraesCS7D01G208900	chr2D	80.885	565	92	7	86	646	367805747	367805195	6.890000e-117	431.0
24	TraesCS7D01G208900	chrUn	80.651	553	95	10	160	707	115096965	115097510	5.360000e-113	418.0
25	TraesCS7D01G208900	chr2B	81.670	491	82	7	86	571	436518342	436517855	5.400000e-108	401.0
26	TraesCS7D01G208900	chr5D	80.847	496	80	8	84	571	217946062	217946550	3.270000e-100	375.0
27	TraesCS7D01G208900	chr5D	88.333	60	7	0	19	78	526112399	526112340	4.810000e-09	73.1
28	TraesCS7D01G208900	chr1B	78.197	477	83	14	107	568	650434593	650435063	5.670000e-73	285.0
29	TraesCS7D01G208900	chr2A	82.456	228	35	5	437	662	647924144	647923920	9.840000e-46	195.0
30	TraesCS7D01G208900	chr3D	88.312	77	9	0	1	77	324584866	324584942	3.690000e-15	93.5
31	TraesCS7D01G208900	chr5B	95.652	46	2	0	33	78	661133448	661133403	1.340000e-09	75.0

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	TraesCS7D01G208900	chr7D	167076101	167079573	3472	True	1655.10	6414	95.2235	1	3473	4	chr7D.!!$R2	3472
1	TraesCS7D01G208900	chr7D	166512998	166514005	1007	True	529.00	529	76.5830	1364	2392	1	chr7D.!!$R1	1028
2	TraesCS7D01G208900	chr7B	131177412	131181000	3588	True	2115.00	2961	94.0830	4	2745	2	chr7B.!!$R2	2741
3	TraesCS7D01G208900	chr7B	130746012	130747019	1007	True	523.00	523	76.4650	1364	2392	1	chr7B.!!$R1	1028
4	TraesCS7D01G208900	chr7A	168458008	168465255	7247	True	966.86	2885	93.2636	4	3399	5	chr7A.!!$R3	3395
5	TraesCS7D01G208900	chr7A	167903370	167904377	1007	True	534.00	534	76.6790	1364	2392	1	chr7A.!!$R1	1028
6	TraesCS7D01G208900	chr6A	525029708	525030861	1153	True	553.00	553	75.7960	1225	2402	1	chr6A.!!$R1	1177
7	TraesCS7D01G208900	chr6D	383226828	383227981	1153	True	531.00	531	75.4810	1225	2402	1	chr6D.!!$R1	1177
8	TraesCS7D01G208900	chr6B	573413695	573414846	1151	True	510.00	510	75.2090	1225	2400	1	chr6B.!!$R2	1175
9	TraesCS7D01G208900	chr6B	449045944	449046487	543	True	353.00	353	78.6890	86	625	1	chr6B.!!$R1	539
10	TraesCS7D01G208900	chr5A	258035530	258036149	619	False	505.00	505	81.4990	86	707	1	chr5A.!!$F1	621
11	TraesCS7D01G208900	chr1A	559706687	559707826	1139	True	457.00	457	74.4720	1225	2391	1	chr1A.!!$R1	1166
12	TraesCS7D01G208900	chr2D	367805195	367805747	552	True	431.00	431	80.8850	86	646	1	chr2D.!!$R1	560
13	TraesCS7D01G208900	chrUn	115096965	115097510	545	False	418.00	418	80.6510	160	707	1	chrUn.!!$F1	547

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
420	427	0.039035	AAAAGCGGTATGGAGCCCAA	59.961	50.0	0.0	0.0	36.95	4.12	F
571	581	0.105709	CTGGAAGGGGTTTTGGGTGT	60.106	55.0	0.0	0.0	0.00	4.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1347	5389	3.113386	CTCGATGAGGCGCGACTGA	62.113	63.158	25.24	13.87	32.51	3.41	R
2494	6536	0.035881	TCAAACAGCAGAGGAGCAGG	59.964	55.000	0.00	0.00	36.85	4.85	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
41	42	3.564644	TCCGAAAGCGTTGGTGAAAATTA	59.435	39.130	0.00	0.00	35.23	1.40
156	157	2.185350	CTCTTCCGCATGCTCCGT	59.815	61.111	17.13	0.00	0.00	4.69
278	282	4.748102	TCATATCCGAATCCGTTGCTTTAC	59.252	41.667	0.00	0.00	0.00	2.01
297	303	6.648879	TTTACAGAAGAAGGGACCAAAATG	57.351	37.500	0.00	0.00	0.00	2.32
316	322	1.276705	TGTAGCACGGGCATTTCACTA	59.723	47.619	14.57	0.00	44.61	2.74
346	352	4.386867	CCAGTCATGGTGAGTAACGTAT	57.613	45.455	0.00	0.00	42.17	3.06
350	357	2.498078	TCATGGTGAGTAACGTATGGCA	59.502	45.455	0.00	0.00	0.00	4.92
368	375	2.267642	GATGGTACCTGTGCGGCA	59.732	61.111	14.36	0.00	35.61	5.69
393	400	0.842030	AGGAGAGGTGTGGAATGGCA	60.842	55.000	0.00	0.00	0.00	4.92
420	427	0.039035	AAAAGCGGTATGGAGCCCAA	59.961	50.000	0.00	0.00	36.95	4.12
571	581	0.105709	CTGGAAGGGGTTTTGGGTGT	60.106	55.000	0.00	0.00	0.00	4.16
669	679	3.181483	GGGTAGAAAGAGCGTTCGGATTA	60.181	47.826	0.00	0.00	32.50	1.75
711	721	3.767131	TCCGTGTTGGATGACTAATCAGA	59.233	43.478	0.00	0.00	43.74	3.27
716	726	6.313658	CGTGTTGGATGACTAATCAGATTTGA	59.686	38.462	11.09	0.00	38.57	2.69
729	739	2.806244	CAGATTTGAACCGTTCGAACCT	59.194	45.455	22.07	8.96	35.96	3.50
730	740	3.991773	CAGATTTGAACCGTTCGAACCTA	59.008	43.478	22.07	2.73	35.96	3.08
768	778	2.799126	TCCGTGTTGGATGGCTAATT	57.201	45.000	0.00	0.00	43.74	1.40
775	785	4.035208	GTGTTGGATGGCTAATTAGGTTCG	59.965	45.833	14.28	0.00	0.00	3.95
810	820	3.601685	GGTTGGTTGTGGGCGGTG	61.602	66.667	0.00	0.00	0.00	4.94
841	851	5.163447	TGCGCTTTGTAGATGTCCTAAGTAT	60.163	40.000	9.73	0.00	0.00	2.12
850	860	6.426646	AGATGTCCTAAGTATTTAGCCAGG	57.573	41.667	0.00	0.00	35.88	4.45
980	5022	2.666596	AATCGATCCCGCCTCCTTGC	62.667	60.000	0.00	0.00	35.37	4.01
981	5023	4.918201	CGATCCCGCCTCCTTGCC	62.918	72.222	0.00	0.00	0.00	4.52
982	5024	3.483869	GATCCCGCCTCCTTGCCT	61.484	66.667	0.00	0.00	0.00	4.75
983	5025	3.468326	GATCCCGCCTCCTTGCCTC	62.468	68.421	0.00	0.00	0.00	4.70
986	5028	3.721706	CCGCCTCCTTGCCTCCTT	61.722	66.667	0.00	0.00	0.00	3.36
987	5029	2.437359	CGCCTCCTTGCCTCCTTG	60.437	66.667	0.00	0.00	0.00	3.61
991	5033	1.078848	CTCCTTGCCTCCTTGGACG	60.079	63.158	0.00	0.00	38.35	4.79
1004	5046	2.107041	TTGGACGCCTCGACAATGGT	62.107	55.000	0.00	0.00	0.00	3.55
1144	5186	2.358615	CCACTGTAAGCAGCGCCA	60.359	61.111	2.29	0.00	46.30	5.69
1178	5220	1.750930	CACTCTATGCCGGCCTCAT	59.249	57.895	26.77	13.98	0.00	2.90
2697	6748	6.310941	TGGGATTTAAAGTGAATTGACCAGA	58.689	36.000	0.00	0.00	0.00	3.86
2720	6771	2.403259	TGTACGTCTTGTGCACATGAG	58.597	47.619	29.69	24.33	38.35	2.90
2722	6773	1.131218	CGTCTTGTGCACATGAGCG	59.869	57.895	29.69	27.83	37.31	5.03
2734	6785	3.548587	CACATGAGCGTCTCAACTTTTG	58.451	45.455	12.43	8.91	44.04	2.44
2736	6787	3.248602	ACATGAGCGTCTCAACTTTTGTC	59.751	43.478	12.43	0.00	44.04	3.18
2765	6924	1.134759	GCTAGTTCGGAGTTCCCCTTC	60.135	57.143	0.00	0.00	0.00	3.46
2768	6927	1.160145	TTCGGAGTTCCCCTTCCCT	59.840	57.895	0.00	0.00	0.00	4.20
2770	6929	0.908180	TCGGAGTTCCCCTTCCCTTC	60.908	60.000	0.00	0.00	0.00	3.46
2817	6977	2.390696	TGATCCATTGCCCCAAATGAG	58.609	47.619	0.00	0.00	39.46	2.90
2818	6978	1.690352	GATCCATTGCCCCAAATGAGG	59.310	52.381	0.00	0.00	39.46	3.86
2883	7349	5.471116	TGCATCAGAACATATCTTATGTGCC	59.529	40.000	1.16	0.00	40.45	5.01
2904	7370	6.018588	GTGCCTACGTGTTTTGTATATATGCA	60.019	38.462	0.00	0.00	0.00	3.96
2984	7556	2.364647	GGGGACTATTTCGGACGAGATT	59.635	50.000	3.06	0.00	0.00	2.40
2993	7565	6.651975	ATTTCGGACGAGATTCCTAGTTAT	57.348	37.500	0.00	0.00	32.88	1.89
2994	7566	5.434352	TTCGGACGAGATTCCTAGTTATG	57.566	43.478	0.00	0.00	32.88	1.90
3016	7727	1.210870	TAAGTAATAAAGCGGCGGCG	58.789	50.000	28.70	28.70	46.35	6.46
3022	7733	1.772063	ATAAAGCGGCGGCGTTGATC	61.772	55.000	32.35	15.45	46.35	2.92
3148	7860	9.739276	TGTGACCTATGAAATATTCAGAAAAGT	57.261	29.630	0.00	0.00	43.98	2.66
3166	7878	9.626045	CAGAAAAGTGAAATGAAATAGGTTACC	57.374	33.333	0.00	0.00	0.00	2.85
3293	8007	8.617809	TCAAAATAGCGAAATGGAAATAGGTAC	58.382	33.333	0.00	0.00	0.00	3.34
3395	8109	9.804758	AATTGAAACCGTGACTTTTGTAAATAA	57.195	25.926	0.00	0.00	0.00	1.40
3399	8113	8.806177	AAACCGTGACTTTTGTAAATAAATCC	57.194	30.769	0.00	0.00	0.00	3.01
3400	8114	7.513371	ACCGTGACTTTTGTAAATAAATCCA	57.487	32.000	0.00	0.00	0.00	3.41
3401	8115	7.942990	ACCGTGACTTTTGTAAATAAATCCAA	58.057	30.769	0.00	0.00	0.00	3.53
3402	8116	8.079809	ACCGTGACTTTTGTAAATAAATCCAAG	58.920	33.333	0.00	0.00	0.00	3.61
3403	8117	8.293867	CCGTGACTTTTGTAAATAAATCCAAGA	58.706	33.333	0.00	0.00	0.00	3.02
3404	8118	9.840427	CGTGACTTTTGTAAATAAATCCAAGAT	57.160	29.630	0.00	0.00	0.00	2.40
3423	8137	9.373450	TCCAAGATTAGTATGCTCTAAAGATCT	57.627	33.333	0.00	0.00	34.28	2.75
3424	8138	9.995003	CCAAGATTAGTATGCTCTAAAGATCTT	57.005	33.333	0.88	0.88	34.28	2.40
3428	8142	9.973450	GATTAGTATGCTCTAAAGATCTTGTCA	57.027	33.333	9.17	3.57	34.28	3.58
3429	8143	9.757227	ATTAGTATGCTCTAAAGATCTTGTCAC	57.243	33.333	9.17	0.00	34.28	3.67
3430	8144	7.416964	AGTATGCTCTAAAGATCTTGTCACT	57.583	36.000	9.17	0.00	0.00	3.41
3431	8145	8.526667	AGTATGCTCTAAAGATCTTGTCACTA	57.473	34.615	9.17	0.00	0.00	2.74
3432	8146	8.629158	AGTATGCTCTAAAGATCTTGTCACTAG	58.371	37.037	9.17	6.75	0.00	2.57
3433	8147	6.214191	TGCTCTAAAGATCTTGTCACTAGG	57.786	41.667	9.17	2.78	0.00	3.02
3434	8148	5.952347	TGCTCTAAAGATCTTGTCACTAGGA	59.048	40.000	9.17	0.21	0.00	2.94
3435	8149	6.609212	TGCTCTAAAGATCTTGTCACTAGGAT	59.391	38.462	9.17	0.00	0.00	3.24
3436	8150	7.124901	TGCTCTAAAGATCTTGTCACTAGGATT	59.875	37.037	9.17	0.00	0.00	3.01
3437	8151	8.634444	GCTCTAAAGATCTTGTCACTAGGATTA	58.366	37.037	9.17	0.00	0.00	1.75
3438	8152	9.959749	CTCTAAAGATCTTGTCACTAGGATTAC	57.040	37.037	9.17	0.00	0.00	1.89
3439	8153	9.475620	TCTAAAGATCTTGTCACTAGGATTACA	57.524	33.333	9.17	0.00	0.00	2.41
3442	8156	9.965902	AAAGATCTTGTCACTAGGATTACAAAT	57.034	29.630	9.17	0.00	31.90	2.32

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
41	42	1.002888	CCTGATGCCCTATTCGCTGAT	59.997	52.381	0.00	0.00	0.00	2.90
156	157	1.207488	ATAGGTGGCCCTTGCAGACA	61.207	55.000	0.00	0.00	42.66	3.41
174	175	1.269465	CGGATGAGACAGCGATGACAT	60.269	52.381	8.12	9.96	0.00	3.06
175	176	0.101219	CGGATGAGACAGCGATGACA	59.899	55.000	8.12	5.00	0.00	3.58
278	282	4.156739	GCTACATTTTGGTCCCTTCTTCTG	59.843	45.833	0.00	0.00	0.00	3.02
297	303	2.018542	TAGTGAAATGCCCGTGCTAC	57.981	50.000	0.00	0.00	38.71	3.58
346	352	1.299648	GCACAGGTACCATCTGCCA	59.700	57.895	15.94	0.00	35.78	4.92
350	357	2.244117	CTGCCGCACAGGTACCATCT	62.244	60.000	15.94	0.00	43.19	2.90
368	375	1.304547	CCACACCTCTCCTCCGTCT	60.305	63.158	0.00	0.00	0.00	4.18
393	400	1.369625	CATACCGCTTTTTCTCCGCT	58.630	50.000	0.00	0.00	0.00	5.52
420	427	3.258372	TCCGTCTTCTCAAATGCTACACT	59.742	43.478	0.00	0.00	0.00	3.55
571	581	0.888619	GGACTCTGACACCATCGACA	59.111	55.000	0.00	0.00	0.00	4.35
768	778	1.870055	GACTGCACGGTCCGAACCTA	61.870	60.000	20.51	0.00	44.04	3.08
810	820	2.010145	TCTACAAAGCGCATCCTCAC	57.990	50.000	11.47	0.00	0.00	3.51
841	851	4.100963	TGAATATTCTCGCTCCTGGCTAAA	59.899	41.667	16.24	0.00	39.13	1.85
850	860	1.346068	AGCCCCTGAATATTCTCGCTC	59.654	52.381	16.24	3.81	0.00	5.03
980	5022	3.068691	TCGAGGCGTCCAAGGAGG	61.069	66.667	4.49	4.49	39.47	4.30
981	5023	2.154798	TTGTCGAGGCGTCCAAGGAG	62.155	60.000	0.00	0.00	0.00	3.69
982	5024	1.541310	ATTGTCGAGGCGTCCAAGGA	61.541	55.000	0.00	0.00	0.00	3.36
983	5025	1.079127	ATTGTCGAGGCGTCCAAGG	60.079	57.895	0.00	0.00	0.00	3.61
984	5026	1.361668	CCATTGTCGAGGCGTCCAAG	61.362	60.000	0.00	0.00	0.00	3.61
985	5027	1.375396	CCATTGTCGAGGCGTCCAA	60.375	57.895	0.00	0.79	0.00	3.53
986	5028	2.264480	CCATTGTCGAGGCGTCCA	59.736	61.111	0.00	0.00	0.00	4.02
987	5029	2.100631	CACCATTGTCGAGGCGTCC	61.101	63.158	0.00	0.00	0.00	4.79
991	5033	1.079503	GAAGTCACCATTGTCGAGGC	58.920	55.000	0.00	0.00	0.00	4.70
1004	5046	1.967535	CTGAGCGGGAGTGAAGTCA	59.032	57.895	0.00	0.00	0.00	3.41
1107	5149	2.052690	GTAGAGCCAGGCGGTGAGA	61.053	63.158	5.55	0.00	33.28	3.27
1108	5150	2.496817	GTAGAGCCAGGCGGTGAG	59.503	66.667	5.55	0.00	33.28	3.51
1144	5186	1.210204	AGTGGGGTGCAGTGATGGAT	61.210	55.000	0.00	0.00	0.00	3.41
1178	5220	0.240678	TAGTACGACGGCGAGCAAAA	59.759	50.000	22.49	0.00	41.64	2.44
1347	5389	3.113386	CTCGATGAGGCGCGACTGA	62.113	63.158	25.24	13.87	32.51	3.41
2459	6501	0.737367	CGCAAATCAGTCTCGCTGGA	60.737	55.000	0.00	0.00	45.08	3.86
2494	6536	0.035881	TCAAACAGCAGAGGAGCAGG	59.964	55.000	0.00	0.00	36.85	4.85
2557	6599	5.729974	TCGATACTATATTCGTGGGATCG	57.270	43.478	0.00	0.00	36.74	3.69
2608	6659	4.386867	ACTCGTCTCTCACACTGAAAAA	57.613	40.909	0.00	0.00	0.00	1.94
2697	6748	4.754322	TCATGTGCACAAGACGTACATAT	58.246	39.130	25.72	0.00	37.56	1.78
2720	6771	3.545633	GACATGACAAAAGTTGAGACGC	58.454	45.455	0.00	0.00	0.00	5.19
2722	6773	5.514279	CAAGGACATGACAAAAGTTGAGAC	58.486	41.667	0.00	0.00	0.00	3.36
2734	6785	2.094182	TCCGAACTAGCAAGGACATGAC	60.094	50.000	0.00	0.00	0.00	3.06
2736	6787	2.093973	ACTCCGAACTAGCAAGGACATG	60.094	50.000	0.00	0.00	0.00	3.21
2765	6924	1.266989	GAAAAGTTGCACCGAGAAGGG	59.733	52.381	0.00	0.00	46.96	3.95
2768	6927	2.552315	GGATGAAAAGTTGCACCGAGAA	59.448	45.455	0.00	0.00	0.00	2.87
2770	6929	1.879380	TGGATGAAAAGTTGCACCGAG	59.121	47.619	0.00	0.00	0.00	4.63
2874	7340	4.742438	ACAAAACACGTAGGCACATAAG	57.258	40.909	0.00	0.00	0.00	1.73
2883	7349	9.191995	TCTGATGCATATATACAAAACACGTAG	57.808	33.333	0.00	0.00	0.00	3.51
2924	7390	9.890629	TTCTGATGCATATACTTAGTTGTCTTT	57.109	29.630	0.00	0.00	0.00	2.52
2962	7533	1.108776	CTCGTCCGAAATAGTCCCCA	58.891	55.000	0.00	0.00	0.00	4.96
2993	7565	3.181508	GCCGCCGCTTTATTACTTAAACA	60.182	43.478	0.00	0.00	0.00	2.83
2994	7566	3.357021	GCCGCCGCTTTATTACTTAAAC	58.643	45.455	0.00	0.00	0.00	2.01
3069	7781	9.574516	ACCTAATTTCACTGTCATTTAGAAGTT	57.425	29.630	0.00	0.00	0.00	2.66
3070	7782	9.003658	CACCTAATTTCACTGTCATTTAGAAGT	57.996	33.333	0.00	0.00	0.00	3.01
3071	7783	9.003658	ACACCTAATTTCACTGTCATTTAGAAG	57.996	33.333	0.00	0.00	0.00	2.85
3072	7784	8.783093	CACACCTAATTTCACTGTCATTTAGAA	58.217	33.333	0.00	0.00	0.00	2.10
3073	7785	8.154203	TCACACCTAATTTCACTGTCATTTAGA	58.846	33.333	0.00	0.00	0.00	2.10
3074	7786	8.322906	TCACACCTAATTTCACTGTCATTTAG	57.677	34.615	0.00	0.00	0.00	1.85
3075	7787	8.684386	TTCACACCTAATTTCACTGTCATTTA	57.316	30.769	0.00	0.00	0.00	1.40
3076	7788	7.581213	TTCACACCTAATTTCACTGTCATTT	57.419	32.000	0.00	0.00	0.00	2.32
3077	7789	7.068103	TGTTTCACACCTAATTTCACTGTCATT	59.932	33.333	0.00	0.00	0.00	2.57
3078	7790	6.545666	TGTTTCACACCTAATTTCACTGTCAT	59.454	34.615	0.00	0.00	0.00	3.06
3079	7791	5.883115	TGTTTCACACCTAATTTCACTGTCA	59.117	36.000	0.00	0.00	0.00	3.58
3080	7792	6.371809	TGTTTCACACCTAATTTCACTGTC	57.628	37.500	0.00	0.00	0.00	3.51
3081	7793	6.959639	ATGTTTCACACCTAATTTCACTGT	57.040	33.333	0.00	0.00	0.00	3.55
3082	7794	6.863126	GGAATGTTTCACACCTAATTTCACTG	59.137	38.462	0.00	0.00	0.00	3.66
3083	7795	6.549364	TGGAATGTTTCACACCTAATTTCACT	59.451	34.615	0.00	0.00	0.00	3.41
3084	7796	6.640907	GTGGAATGTTTCACACCTAATTTCAC	59.359	38.462	0.00	0.00	34.32	3.18
3085	7797	6.239176	GGTGGAATGTTTCACACCTAATTTCA	60.239	38.462	15.06	0.00	42.62	2.69
3086	7798	6.156519	GGTGGAATGTTTCACACCTAATTTC	58.843	40.000	15.06	0.00	42.62	2.17
3087	7799	6.096673	GGTGGAATGTTTCACACCTAATTT	57.903	37.500	15.06	0.00	42.62	1.82
3140	7852	9.626045	GGTAACCTATTTCATTTCACTTTTCTG	57.374	33.333	0.00	0.00	0.00	3.02
3154	7866	8.561738	TCTCACTCATTTTGGTAACCTATTTC	57.438	34.615	0.00	0.00	0.00	2.17
3158	7870	8.375493	AGTATCTCACTCATTTTGGTAACCTA	57.625	34.615	0.00	0.00	28.33	3.08
3159	7871	7.259088	AGTATCTCACTCATTTTGGTAACCT	57.741	36.000	0.00	0.00	28.33	3.50
3160	7872	7.923414	AAGTATCTCACTCATTTTGGTAACC	57.077	36.000	0.00	0.00	36.04	2.85
3273	7986	5.617528	TGGTACCTATTTCCATTTCGCTA	57.382	39.130	14.36	0.00	0.00	4.26
3277	7991	7.222000	TGTGTTTGGTACCTATTTCCATTTC	57.778	36.000	14.36	0.00	0.00	2.17
3372	8086	9.453325	GATTTATTTACAAAAGTCACGGTTTCA	57.547	29.630	0.00	0.00	0.00	2.69
3402	8116	9.973450	TGACAAGATCTTTAGAGCATACTAATC	57.027	33.333	4.86	0.00	33.29	1.75
3403	8117	9.757227	GTGACAAGATCTTTAGAGCATACTAAT	57.243	33.333	4.86	0.00	33.29	1.73
3404	8118	8.972127	AGTGACAAGATCTTTAGAGCATACTAA	58.028	33.333	4.86	0.00	31.88	2.24
3405	8119	8.526667	AGTGACAAGATCTTTAGAGCATACTA	57.473	34.615	4.86	0.00	31.88	1.82
3406	8120	7.416964	AGTGACAAGATCTTTAGAGCATACT	57.583	36.000	4.86	0.00	31.88	2.12
3407	8121	7.865385	CCTAGTGACAAGATCTTTAGAGCATAC	59.135	40.741	4.86	0.00	31.88	2.39
3408	8122	7.780271	TCCTAGTGACAAGATCTTTAGAGCATA	59.220	37.037	4.86	0.00	31.88	3.14
3409	8123	6.609212	TCCTAGTGACAAGATCTTTAGAGCAT	59.391	38.462	4.86	0.00	31.88	3.79
3410	8124	5.952347	TCCTAGTGACAAGATCTTTAGAGCA	59.048	40.000	4.86	0.00	31.88	4.26
3411	8125	6.458232	TCCTAGTGACAAGATCTTTAGAGC	57.542	41.667	4.86	0.00	0.00	4.09
3412	8126	9.959749	GTAATCCTAGTGACAAGATCTTTAGAG	57.040	37.037	4.86	0.00	0.00	2.43
3413	8127	9.475620	TGTAATCCTAGTGACAAGATCTTTAGA	57.524	33.333	4.86	0.00	0.00	2.10
3416	8130	9.965902	ATTTGTAATCCTAGTGACAAGATCTTT	57.034	29.630	4.86	0.00	33.60	2.52

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.