AutoCloner

Multiple sequence alignment - TraesCS6B01G395300

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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	TraesCS6B01G395300	chr6B	100.000	3152	0	0	1	3152	670593694	670590543	0.000000e+00	5821
1	TraesCS6B01G395300	chr6B	86.364	2244	230	18	979	3152	15397967	15395730	0.000000e+00	2379
2	TraesCS6B01G395300	chr6B	86.645	1565	156	28	1023	2548	15381511	15379961	0.000000e+00	1683
3	TraesCS6B01G395300	chr6B	82.416	1598	228	33	991	2545	16320565	16322152	0.000000e+00	1345
4	TraesCS6B01G395300	chr6B	81.677	1610	224	31	1121	2675	15715092	15713499	0.000000e+00	1273
5	TraesCS6B01G395300	chr6B	89.192	842	55	12	1	820	498517806	498518633	0.000000e+00	1018
6	TraesCS6B01G395300	chr6B	77.671	1245	239	24	917	2130	670602289	670601053	0.000000e+00	723
7	TraesCS6B01G395300	chr6B	76.348	1391	262	47	823	2170	53077331	53075965	0.000000e+00	684
8	TraesCS6B01G395300	chr6B	81.874	651	66	27	2548	3146	16269016	16269666	4.690000e-138	501
9	TraesCS6B01G395300	chr6B	79.282	724	112	19	1	696	135362212	135361499	3.680000e-129	472
10	TraesCS6B01G395300	chr6B	80.200	601	91	14	885	1464	16338696	16339289	2.910000e-115	425
11	TraesCS6B01G395300	chr6B	85.067	375	31	10	2803	3152	16238726	16239100	2.990000e-95	359
12	TraesCS6B01G395300	chr6B	77.625	581	65	25	2385	2906	15215434	15214860	3.070000e-75	292
13	TraesCS6B01G395300	chr6B	88.832	197	19	3	2952	3146	15232709	15232514	4.060000e-59	239
14	TraesCS6B01G395300	chr5B	87.661	2245	172	39	993	3152	556795756	556793532	0.000000e+00	2514
15	TraesCS6B01G395300	chr5B	87.245	196	24	1	2952	3146	556624414	556624219	4.090000e-54	222
16	TraesCS6B01G395300	chr6A	88.109	2094	173	24	1124	3152	9355310	9357392	0.000000e+00	2418
17	TraesCS6B01G395300	chr6A	90.355	1576	127	10	993	2545	9461449	9463022	0.000000e+00	2045
18	TraesCS6B01G395300	chr2B	85.079	2225	258	32	994	3152	709569766	709567550	0.000000e+00	2202
19	TraesCS6B01G395300	chr2B	81.254	1579	241	28	993	2543	54016668	54015117	0.000000e+00	1225
20	TraesCS6B01G395300	chr2B	81.064	1579	240	29	993	2543	54044020	54042473	0.000000e+00	1205
21	TraesCS6B01G395300	chr2B	79.026	1273	195	35	1713	2921	89491333	89492597	0.000000e+00	806
22	TraesCS6B01G395300	chr2B	78.133	407	53	15	895	1267	709514981	709514577	3.160000e-55	226
23	TraesCS6B01G395300	chr2B	90.000	170	16	1	1	170	181661094	181660926	5.290000e-53	219
24	TraesCS6B01G395300	chr2B	90.625	128	12	0	2548	2675	709252196	709252069	1.500000e-38	171
25	TraesCS6B01G395300	chr6D	84.381	2068	237	32	993	2992	33895045	33897094	0.000000e+00	1951
26	TraesCS6B01G395300	chr6D	83.867	1562	205	27	1022	2545	8987253	8988805	0.000000e+00	1445
27	TraesCS6B01G395300	chr6D	88.478	920	100	5	1451	2366	8568351	8567434	0.000000e+00	1107
28	TraesCS6B01G395300	chr6D	88.250	817	41	11	2385	3152	8567266	8566456	0.000000e+00	926
29	TraesCS6B01G395300	chr5D	83.894	1279	187	18	1121	2387	42076178	42077449	0.000000e+00	1203
30	TraesCS6B01G395300	chr5D	84.582	467	49	8	19	464	560032877	560032413	2.890000e-120	442
31	TraesCS6B01G395300	chr5D	88.372	258	24	4	2677	2930	499863236	499862981	3.950000e-79	305
32	TraesCS6B01G395300	chrUn	84.202	1209	184	6	1182	2387	95438036	95439240	0.000000e+00	1168
33	TraesCS6B01G395300	chr3B	90.747	843	55	9	1	820	71367376	71366534	0.000000e+00	1103
34	TraesCS6B01G395300	chr4B	90.036	843	58	8	1	820	145508406	145509245	0.000000e+00	1068
35	TraesCS6B01G395300	chr7D	84.401	827	90	15	1	800	66984314	66985128	0.000000e+00	776
36	TraesCS6B01G395300	chr5A	87.692	260	24	6	2677	2930	624203984	624203727	2.380000e-76	296

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	TraesCS6B01G395300	chr6B	670590543	670593694	3151	True	5821.0	5821	100.000	1	3152	1	chr6B.!!$R8	3151
1	TraesCS6B01G395300	chr6B	15395730	15397967	2237	True	2379.0	2379	86.364	979	3152	1	chr6B.!!$R4	2173
2	TraesCS6B01G395300	chr6B	15379961	15381511	1550	True	1683.0	1683	86.645	1023	2548	1	chr6B.!!$R3	1525
3	TraesCS6B01G395300	chr6B	16320565	16322152	1587	False	1345.0	1345	82.416	991	2545	1	chr6B.!!$F3	1554
4	TraesCS6B01G395300	chr6B	15713499	15715092	1593	True	1273.0	1273	81.677	1121	2675	1	chr6B.!!$R5	1554
5	TraesCS6B01G395300	chr6B	498517806	498518633	827	False	1018.0	1018	89.192	1	820	1	chr6B.!!$F5	819
6	TraesCS6B01G395300	chr6B	670601053	670602289	1236	True	723.0	723	77.671	917	2130	1	chr6B.!!$R9	1213
7	TraesCS6B01G395300	chr6B	53075965	53077331	1366	True	684.0	684	76.348	823	2170	1	chr6B.!!$R6	1347
8	TraesCS6B01G395300	chr6B	16269016	16269666	650	False	501.0	501	81.874	2548	3146	1	chr6B.!!$F2	598
9	TraesCS6B01G395300	chr6B	135361499	135362212	713	True	472.0	472	79.282	1	696	1	chr6B.!!$R7	695
10	TraesCS6B01G395300	chr6B	16338696	16339289	593	False	425.0	425	80.200	885	1464	1	chr6B.!!$F4	579
11	TraesCS6B01G395300	chr6B	15214860	15215434	574	True	292.0	292	77.625	2385	2906	1	chr6B.!!$R1	521
12	TraesCS6B01G395300	chr5B	556793532	556795756	2224	True	2514.0	2514	87.661	993	3152	1	chr5B.!!$R2	2159
13	TraesCS6B01G395300	chr6A	9355310	9357392	2082	False	2418.0	2418	88.109	1124	3152	1	chr6A.!!$F1	2028
14	TraesCS6B01G395300	chr6A	9461449	9463022	1573	False	2045.0	2045	90.355	993	2545	1	chr6A.!!$F2	1552
15	TraesCS6B01G395300	chr2B	709567550	709569766	2216	True	2202.0	2202	85.079	994	3152	1	chr2B.!!$R6	2158
16	TraesCS6B01G395300	chr2B	54015117	54016668	1551	True	1225.0	1225	81.254	993	2543	1	chr2B.!!$R1	1550
17	TraesCS6B01G395300	chr2B	54042473	54044020	1547	True	1205.0	1205	81.064	993	2543	1	chr2B.!!$R2	1550
18	TraesCS6B01G395300	chr2B	89491333	89492597	1264	False	806.0	806	79.026	1713	2921	1	chr2B.!!$F1	1208
19	TraesCS6B01G395300	chr6D	33895045	33897094	2049	False	1951.0	1951	84.381	993	2992	1	chr6D.!!$F2	1999
20	TraesCS6B01G395300	chr6D	8987253	8988805	1552	False	1445.0	1445	83.867	1022	2545	1	chr6D.!!$F1	1523
21	TraesCS6B01G395300	chr6D	8566456	8568351	1895	True	1016.5	1107	88.364	1451	3152	2	chr6D.!!$R1	1701
22	TraesCS6B01G395300	chr5D	42076178	42077449	1271	False	1203.0	1203	83.894	1121	2387	1	chr5D.!!$F1	1266
23	TraesCS6B01G395300	chrUn	95438036	95439240	1204	False	1168.0	1168	84.202	1182	2387	1	chrUn.!!$F1	1205
24	TraesCS6B01G395300	chr3B	71366534	71367376	842	True	1103.0	1103	90.747	1	820	1	chr3B.!!$R1	819
25	TraesCS6B01G395300	chr4B	145508406	145509245	839	False	1068.0	1068	90.036	1	820	1	chr4B.!!$F1	819
26	TraesCS6B01G395300	chr7D	66984314	66985128	814	False	776.0	776	84.401	1	800	1	chr7D.!!$F1	799

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
687	719	0.038455	AGTACCACTCGCTGAGGACT	59.962	55.0	9.75	5.26	33.35	3.85	F
1500	1610	0.109532	TCCGGGTGATGAAGTTTGCA	59.890	50.0	0.00	0.00	0.00	4.08	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1519	1629	0.179097	GGCTTGATCACCCTCTCGAC	60.179	60.0	0.0	0.0	0.0	4.20	R
2915	3312	2.833631	AGTTTACTAGCCGCAAGTGT	57.166	45.0	0.0	0.0	0.0	3.55	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
162	164	6.926280	TTGCACATGTTTCGACAAAATATC	57.074	33.333	0.00	0.00	0.00	1.63
186	188	6.038603	TCTGAGTTTCTCAATTTGGTTCACAG	59.961	38.462	0.00	0.00	40.18	3.66
282	285	5.925969	CCAATGACTAAAAATGTGTGGAACC	59.074	40.000	0.00	0.00	34.36	3.62
408	433	7.871853	TCACCTTCAAAAATACTAGTTCTTGC	58.128	34.615	0.00	0.00	0.00	4.01
453	479	9.956720	ACTTTTTGATAATCTGTTTGAAGTCTG	57.043	29.630	0.00	0.00	0.00	3.51
546	576	4.809958	TCTCGTGTTTTCCGAAATGTGTTA	59.190	37.500	0.00	0.00	33.34	2.41
633	665	3.604772	GCTTAAATAAGGTCGCGATGCAG	60.605	47.826	14.06	0.00	33.95	4.41
641	673	3.527533	AGGTCGCGATGCAGTTTTAATA	58.472	40.909	14.06	0.00	0.00	0.98
644	676	3.001330	GTCGCGATGCAGTTTTAATAGCT	59.999	43.478	14.06	0.00	0.00	3.32
651	683	7.042658	GCGATGCAGTTTTAATAGCTAGTAACT	60.043	37.037	12.93	8.17	0.00	2.24
686	718	1.671845	CTAGTACCACTCGCTGAGGAC	59.328	57.143	9.75	3.53	33.35	3.85
687	719	0.038455	AGTACCACTCGCTGAGGACT	59.962	55.000	9.75	5.26	33.35	3.85
692	724	0.318441	CACTCGCTGAGGACTTGGAA	59.682	55.000	9.75	0.00	33.35	3.53
711	743	4.768448	TGGAAGTCACAAGTTCGATACCTA	59.232	41.667	0.00	0.00	35.94	3.08
725	757	5.125356	TCGATACCTAACATCGTCACCTTA	58.875	41.667	4.83	0.00	44.36	2.69
744	776	5.791480	ACCTTATGTTTTCGCGATTTTTACG	59.209	36.000	10.88	0.00	0.00	3.18
806	843	4.927782	ACGGCTCCTGTGCGCAAA	62.928	61.111	14.00	5.57	0.00	3.68
810	847	2.253758	GCTCCTGTGCGCAAACTGA	61.254	57.895	14.00	5.78	0.00	3.41
820	857	1.732405	GCGCAAACTGACAATTAGCCC	60.732	52.381	0.30	0.00	0.00	5.19
821	858	1.812571	CGCAAACTGACAATTAGCCCT	59.187	47.619	0.00	0.00	0.00	5.19
822	859	2.228822	CGCAAACTGACAATTAGCCCTT	59.771	45.455	0.00	0.00	0.00	3.95
823	860	3.578688	GCAAACTGACAATTAGCCCTTG	58.421	45.455	0.00	0.00	0.00	3.61
824	861	3.614870	GCAAACTGACAATTAGCCCTTGG	60.615	47.826	0.00	0.00	0.00	3.61
825	862	2.514458	ACTGACAATTAGCCCTTGGG	57.486	50.000	0.32	0.32	0.00	4.12
826	863	1.710809	ACTGACAATTAGCCCTTGGGT	59.289	47.619	7.61	0.00	37.19	4.51
827	864	2.094675	CTGACAATTAGCCCTTGGGTG	58.905	52.381	7.61	0.00	34.28	4.61
828	865	1.272425	TGACAATTAGCCCTTGGGTGG	60.272	52.381	7.61	0.00	34.28	4.61
829	866	0.783850	ACAATTAGCCCTTGGGTGGT	59.216	50.000	7.61	0.00	34.28	4.16
858	895	2.776536	AGGGCACTTGAGCTGATCTAAT	59.223	45.455	0.00	0.00	34.17	1.73
859	896	3.969976	AGGGCACTTGAGCTGATCTAATA	59.030	43.478	0.00	0.00	34.17	0.98
860	897	4.410228	AGGGCACTTGAGCTGATCTAATAA	59.590	41.667	0.00	0.00	34.17	1.40
861	898	5.104360	AGGGCACTTGAGCTGATCTAATAAA	60.104	40.000	0.00	0.00	34.17	1.40
862	899	5.767168	GGGCACTTGAGCTGATCTAATAAAT	59.233	40.000	0.00	0.00	34.17	1.40
863	900	6.293845	GGGCACTTGAGCTGATCTAATAAATG	60.294	42.308	0.00	0.00	34.17	2.32
864	901	6.293845	GGCACTTGAGCTGATCTAATAAATGG	60.294	42.308	0.00	0.00	34.17	3.16
865	902	6.293845	GCACTTGAGCTGATCTAATAAATGGG	60.294	42.308	0.00	0.00	0.00	4.00
866	903	6.769822	CACTTGAGCTGATCTAATAAATGGGT	59.230	38.462	0.00	0.00	0.00	4.51
867	904	6.995091	ACTTGAGCTGATCTAATAAATGGGTC	59.005	38.462	0.00	0.00	0.00	4.46
868	905	6.753913	TGAGCTGATCTAATAAATGGGTCT	57.246	37.500	0.00	0.00	0.00	3.85
869	906	7.855784	TGAGCTGATCTAATAAATGGGTCTA	57.144	36.000	0.00	0.00	0.00	2.59
871	908	8.150945	TGAGCTGATCTAATAAATGGGTCTAAC	58.849	37.037	0.00	0.00	0.00	2.34
872	909	7.454225	AGCTGATCTAATAAATGGGTCTAACC	58.546	38.462	0.00	0.00	37.60	2.85
881	918	2.272471	GGTCTAACCCAGCCCAGC	59.728	66.667	0.00	0.00	30.04	4.85
882	919	2.272471	GTCTAACCCAGCCCAGCC	59.728	66.667	0.00	0.00	0.00	4.85
883	920	3.015145	TCTAACCCAGCCCAGCCC	61.015	66.667	0.00	0.00	0.00	5.19
905	942	2.773918	CAGCCCAGCCCATCCCTA	60.774	66.667	0.00	0.00	0.00	3.53
907	944	3.096495	GCCCAGCCCATCCCTACA	61.096	66.667	0.00	0.00	0.00	2.74
909	946	2.505982	CCAGCCCATCCCTACACG	59.494	66.667	0.00	0.00	0.00	4.49
911	948	1.153369	CAGCCCATCCCTACACGTG	60.153	63.158	15.48	15.48	0.00	4.49
954	991	1.691195	TTGGACCAGAGACACCGCAA	61.691	55.000	0.00	0.00	0.00	4.85
988	1042	1.457643	CCACTCTATCCCCTCGCCA	60.458	63.158	0.00	0.00	0.00	5.69
989	1043	0.833834	CCACTCTATCCCCTCGCCAT	60.834	60.000	0.00	0.00	0.00	4.40
1017	1080	2.755876	ATGCTCTGGCTCCGTCGA	60.756	61.111	0.00	0.00	39.59	4.20
1049	1115	2.364448	GCTCCCCTCGTCTCCCTT	60.364	66.667	0.00	0.00	0.00	3.95
1059	1143	2.042843	TCTCCCTTCGCCTCTCCC	60.043	66.667	0.00	0.00	0.00	4.30
1060	1144	2.042435	CTCCCTTCGCCTCTCCCT	60.042	66.667	0.00	0.00	0.00	4.20
1061	1145	1.687493	CTCCCTTCGCCTCTCCCTT	60.687	63.158	0.00	0.00	0.00	3.95
1062	1146	0.397254	CTCCCTTCGCCTCTCCCTTA	60.397	60.000	0.00	0.00	0.00	2.69
1063	1147	0.264955	TCCCTTCGCCTCTCCCTTAT	59.735	55.000	0.00	0.00	0.00	1.73
1064	1148	0.682292	CCCTTCGCCTCTCCCTTATC	59.318	60.000	0.00	0.00	0.00	1.75
1065	1149	0.682292	CCTTCGCCTCTCCCTTATCC	59.318	60.000	0.00	0.00	0.00	2.59
1066	1150	0.682292	CTTCGCCTCTCCCTTATCCC	59.318	60.000	0.00	0.00	0.00	3.85
1067	1151	1.113517	TTCGCCTCTCCCTTATCCCG	61.114	60.000	0.00	0.00	0.00	5.14
1119	1221	3.411517	ATCTCCCCAAGCACCGGG	61.412	66.667	6.32	0.00	44.07	5.73
1500	1610	0.109532	TCCGGGTGATGAAGTTTGCA	59.890	50.000	0.00	0.00	0.00	4.08
1519	1629	1.063616	CAAATGTCCTCTCATGCAGCG	59.936	52.381	0.00	0.00	0.00	5.18
1566	1677	1.227002	GTACCTGCTAGAGTGCGGC	60.227	63.158	0.00	0.00	37.96	6.53
1701	1815	0.322816	GCTCTGGGATGTTCAGGCAA	60.323	55.000	0.00	0.00	32.55	4.52
1748	1874	2.801342	GCGAGGAGGAGATCACAATCAC	60.801	54.545	0.00	0.00	34.07	3.06
1754	1880	1.009829	GAGATCACAATCACGGTGGC	58.990	55.000	8.50	0.00	36.90	5.01
1856	1982	0.239347	AAGAAATCACTGCAGCGCAC	59.761	50.000	15.27	0.68	33.79	5.34
2223	2351	1.281867	TCTGTTAGATGCTGGGTTGGG	59.718	52.381	0.00	0.00	0.00	4.12
2327	2461	7.614494	CCATGGATTGGTTATGAACTTTTTCT	58.386	34.615	5.56	0.00	40.99	2.52
2381	2650	6.493802	TGGAACTAAGTAAGTGTGAGATCAGT	59.506	38.462	0.00	0.00	38.88	3.41
2404	2691	7.857885	CAGTCCATTTCAGTTTTCAAGTTAGTC	59.142	37.037	0.00	0.00	0.00	2.59
2449	2742	4.767409	GCCAAGGTAAGTTCTCCTTCATTT	59.233	41.667	8.69	0.00	41.44	2.32
2545	2839	3.699538	GCCCTTCCCAAACTAGGTAAATG	59.300	47.826	0.00	0.00	0.00	2.32
2624	2967	6.349115	GGTTTGCTCATATGCAGATTCATAGG	60.349	42.308	0.00	0.00	44.27	2.57
2641	2989	6.916360	TCATAGGGATCTGTTTTTGCTTTT	57.084	33.333	0.00	0.00	0.00	2.27
2915	3312	9.739276	AGTAATGTTATTGAGACAATGGAGAAA	57.261	29.630	7.16	0.00	0.00	2.52
2923	3320	2.549754	AGACAATGGAGAAACACTTGCG	59.450	45.455	0.00	0.00	0.00	4.85
2947	3384	8.299570	GCGGCTAGTAAACTTAGGTGTATTATA	58.700	37.037	0.00	0.00	0.00	0.98
2964	3401	4.607293	TTATATCCTGCTCTGCACGATT	57.393	40.909	8.73	2.44	36.21	3.34
3121	3583	4.654091	ATGTCTGAGCTAGCTCTTCTTC	57.346	45.455	37.42	24.42	43.12	2.87
3127	3589	5.712446	TCTGAGCTAGCTCTTCTTCAGTTTA	59.288	40.000	37.42	17.17	43.12	2.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
142	144	7.521529	ACTCAGATATTTTGTCGAAACATGTG	58.478	34.615	0.00	0.00	34.73	3.21
162	164	6.038603	TCTGTGAACCAAATTGAGAAACTCAG	59.961	38.462	0.00	0.00	41.75	3.35
259	262	6.748132	AGGTTCCACACATTTTTAGTCATTG	58.252	36.000	0.00	0.00	0.00	2.82
296	299	9.500785	GGAATCCTGAATGTTTTTCCAAATAAA	57.499	29.630	0.00	0.00	34.20	1.40
398	423	9.950680	TGAACATTTTCTAAAAGCAAGAACTAG	57.049	29.630	0.00	0.00	32.81	2.57
434	459	9.950680	TTGTTTTCAGACTTCAAACAGATTATC	57.049	29.630	8.34	0.00	40.54	1.75
564	594	8.016497	TGTTGCATTTTATTTTCTGTATGTGC	57.984	30.769	0.00	0.00	0.00	4.57
641	673	5.297278	CCACTCGAGATAACAGTTACTAGCT	59.703	44.000	21.68	0.00	0.00	3.32
644	676	5.191426	AGCCACTCGAGATAACAGTTACTA	58.809	41.667	21.68	0.00	0.00	1.82
651	683	3.881688	GGTACTAGCCACTCGAGATAACA	59.118	47.826	21.68	0.00	0.00	2.41
686	718	4.389077	GGTATCGAACTTGTGACTTCCAAG	59.611	45.833	0.00	0.00	43.87	3.61
687	719	4.039973	AGGTATCGAACTTGTGACTTCCAA	59.960	41.667	0.00	0.00	0.00	3.53
692	724	5.717078	TGTTAGGTATCGAACTTGTGACT	57.283	39.130	0.55	0.00	31.18	3.41
711	743	4.378046	GCGAAAACATAAGGTGACGATGTT	60.378	41.667	0.00	4.06	46.83	2.71
725	757	4.407496	TCCGTAAAAATCGCGAAAACAT	57.593	36.364	15.24	0.99	0.00	2.71
744	776	0.316689	CAACGGCGAACTGTGTTTCC	60.317	55.000	16.62	0.00	34.87	3.13
806	843	1.710809	ACCCAAGGGCTAATTGTCAGT	59.289	47.619	4.70	0.00	39.32	3.41
810	847	0.783850	ACCACCCAAGGGCTAATTGT	59.216	50.000	4.70	0.00	39.32	2.71
843	880	7.222872	AGACCCATTTATTAGATCAGCTCAAG	58.777	38.462	0.00	0.00	0.00	3.02
865	902	2.272471	GGCTGGGCTGGGTTAGAC	59.728	66.667	0.00	0.00	0.00	2.59
866	903	3.015145	GGGCTGGGCTGGGTTAGA	61.015	66.667	0.00	0.00	0.00	2.10
867	904	3.338250	TGGGCTGGGCTGGGTTAG	61.338	66.667	0.00	0.00	0.00	2.34
868	905	3.338250	CTGGGCTGGGCTGGGTTA	61.338	66.667	0.00	0.00	0.00	2.85
904	941	1.049855	ACCAACTGACCCCACGTGTA	61.050	55.000	15.65	0.00	0.00	2.90
905	942	2.319890	GACCAACTGACCCCACGTGT	62.320	60.000	15.65	0.00	0.00	4.49
907	944	1.415672	ATGACCAACTGACCCCACGT	61.416	55.000	0.00	0.00	0.00	4.49
909	946	0.322546	GGATGACCAACTGACCCCAC	60.323	60.000	0.00	0.00	35.97	4.61
911	948	0.253327	GAGGATGACCAACTGACCCC	59.747	60.000	0.00	0.00	38.94	4.95
954	991	1.077357	TGGTGAGGGTTTGCGTTGT	60.077	52.632	0.00	0.00	0.00	3.32
1037	1100	2.756283	AGGCGAAGGGAGACGAGG	60.756	66.667	0.00	0.00	0.00	4.63
1049	1115	1.530891	CGGGATAAGGGAGAGGCGA	60.531	63.158	0.00	0.00	0.00	5.54
1119	1221	1.153881	GTACTCCTCCACGGCGAAC	60.154	63.158	16.62	0.00	0.00	3.95
1161	1263	2.740714	CTTAACGGCCTGTGCTCGC	61.741	63.158	0.00	0.00	37.74	5.03
1176	1278	2.001269	GAGCTTGGGGGAGGCCTTA	61.001	63.158	6.77	0.00	0.00	2.69
1456	1559	0.250513	GTGTCCAAGGAGCCGAAGAT	59.749	55.000	0.00	0.00	0.00	2.40
1500	1610	1.339438	ACGCTGCATGAGAGGACATTT	60.339	47.619	0.00	0.00	0.00	2.32
1519	1629	0.179097	GGCTTGATCACCCTCTCGAC	60.179	60.000	0.00	0.00	0.00	4.20
1566	1677	3.814842	TGGCAATATCGCAATCACCTAAG	59.185	43.478	0.00	0.00	0.00	2.18
1677	1791	1.191489	TGAACATCCCAGAGCCACGA	61.191	55.000	0.00	0.00	0.00	4.35
1701	1815	2.267174	ATGCAACAGACTGAAGTGCT	57.733	45.000	22.08	11.34	0.00	4.40
1748	1874	1.352156	GCTCTTCAAGTACGCCACCG	61.352	60.000	0.00	0.00	41.14	4.94
2134	2260	7.325660	TCTTGGCTTATGTGAATCTGAAATC	57.674	36.000	0.00	0.00	0.00	2.17
2223	2351	3.120304	GCTTCATCACTCGTTAACAACCC	60.120	47.826	6.39	0.00	0.00	4.11
2381	2650	6.512741	GCGACTAACTTGAAAACTGAAATGGA	60.513	38.462	0.00	0.00	0.00	3.41
2404	2691	2.874086	TCATTATCTCAATGCACAGGCG	59.126	45.455	0.00	0.00	45.35	5.52
2449	2742	4.865905	ACATTAGGAATGCATTACCCACA	58.134	39.130	18.34	4.63	42.69	4.17
2545	2839	8.466798	TGAAAAATAGATTAAGCTAAAGCCACC	58.533	33.333	4.26	0.00	43.38	4.61
2624	2967	8.865590	TTGTTAGTAAAAGCAAAAACAGATCC	57.134	30.769	0.00	0.00	0.00	3.36
2675	3025	5.284582	ACCTCTGATCCAACTAAAGGAGAT	58.715	41.667	0.00	0.00	38.83	2.75
2915	3312	2.833631	AGTTTACTAGCCGCAAGTGT	57.166	45.000	0.00	0.00	0.00	3.55
2964	3401	8.753133	TCCACAATAAACACATAATTTATGGCA	58.247	29.630	18.24	0.00	40.47	4.92

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.