AutoCloner

Multiple sequence alignment - TraesCS6A01G075800

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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	TraesCS6A01G075800	chr6A	100.000	3128	0	0	1	3128	46297427	46294300	0.000000e+00	5777.0
1	TraesCS6A01G075800	chr6A	93.051	1252	56	14	1039	2262	45667533	45668781	0.000000e+00	1801.0
2	TraesCS6A01G075800	chr6A	85.897	1092	117	8	985	2048	33224444	33223362	0.000000e+00	1129.0
3	TraesCS6A01G075800	chr6A	93.312	628	30	8	2318	2939	45668782	45669403	0.000000e+00	917.0
4	TraesCS6A01G075800	chr6A	80.164	852	130	27	76	909	45666647	45667477	4.460000e-168	601.0
5	TraesCS6A01G075800	chr6A	94.819	193	10	0	2935	3127	45669562	45669754	5.070000e-78	302.0
6	TraesCS6A01G075800	chr6A	93.243	74	5	0	3054	3127	33222087	33222014	3.300000e-20	110.0
7	TraesCS6A01G075800	chr6A	88.000	75	7	2	2387	2460	47541595	47541522	1.550000e-13	87.9
8	TraesCS6A01G075800	chr6B	93.551	2233	103	17	929	3127	78590991	78593216	0.000000e+00	3288.0
9	TraesCS6A01G075800	chr6B	93.270	2199	114	15	956	3127	79555841	79553650	0.000000e+00	3210.0
10	TraesCS6A01G075800	chr6B	93.176	2198	116	15	956	3127	79438348	79436159	0.000000e+00	3197.0
11	TraesCS6A01G075800	chr6B	92.308	2236	121	19	929	3127	79642201	79639980	0.000000e+00	3129.0
12	TraesCS6A01G075800	chr6B	83.367	1503	185	24	986	2460	60107940	60106475	0.000000e+00	1330.0
13	TraesCS6A01G075800	chr6B	79.667	300	50	2	510	809	78590311	78590599	4.090000e-49	206.0
14	TraesCS6A01G075800	chrUn	93.338	1366	57	6	929	2263	112304558	112303196	0.000000e+00	1988.0
15	TraesCS6A01G075800	chrUn	92.671	1269	72	9	956	2206	27743532	27744797	0.000000e+00	1808.0
16	TraesCS6A01G075800	chrUn	94.299	842	33	7	2294	3127	112303198	112302364	0.000000e+00	1275.0
17	TraesCS6A01G075800	chrUn	82.260	947	129	24	2	915	112305547	112304607	0.000000e+00	782.0
18	TraesCS6A01G075800	chrUn	96.286	377	14	0	2126	2502	27744797	27745173	1.230000e-173	619.0
19	TraesCS6A01G075800	chrUn	97.131	244	3	3	2544	2783	27745171	27745414	2.900000e-110	409.0
20	TraesCS6A01G075800	chrUn	92.647	272	13	3	2863	3127	27745415	27745686	4.890000e-103	385.0
21	TraesCS6A01G075800	chrUn	81.879	447	50	20	2542	2970	112679725	112680158	6.420000e-92	348.0
22	TraesCS6A01G075800	chr6D	83.610	1507	183	17	985	2460	29194773	29196246	0.000000e+00	1356.0

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	TraesCS6A01G075800	chr6A	46294300	46297427	3127	True	5777.000000	5777	100.000000	1	3128	1	chr6A.!!$R1	3127
1	TraesCS6A01G075800	chr6A	45666647	45669754	3107	False	905.250000	1801	90.336500	76	3127	4	chr6A.!!$F1	3051
2	TraesCS6A01G075800	chr6A	33222014	33224444	2430	True	619.500000	1129	89.570000	985	3127	2	chr6A.!!$R3	2142
3	TraesCS6A01G075800	chr6B	79553650	79555841	2191	True	3210.000000	3210	93.270000	956	3127	1	chr6B.!!$R3	2171
4	TraesCS6A01G075800	chr6B	79436159	79438348	2189	True	3197.000000	3197	93.176000	956	3127	1	chr6B.!!$R2	2171
5	TraesCS6A01G075800	chr6B	79639980	79642201	2221	True	3129.000000	3129	92.308000	929	3127	1	chr6B.!!$R4	2198
6	TraesCS6A01G075800	chr6B	78590311	78593216	2905	False	1747.000000	3288	86.609000	510	3127	2	chr6B.!!$F1	2617
7	TraesCS6A01G075800	chr6B	60106475	60107940	1465	True	1330.000000	1330	83.367000	986	2460	1	chr6B.!!$R1	1474
8	TraesCS6A01G075800	chrUn	112302364	112305547	3183	True	1348.333333	1988	89.965667	2	3127	3	chrUn.!!$R1	3125
9	TraesCS6A01G075800	chrUn	27743532	27745686	2154	False	805.250000	1808	94.683750	956	3127	4	chrUn.!!$F2	2171
10	TraesCS6A01G075800	chr6D	29194773	29196246	1473	False	1356.000000	1356	83.610000	985	2460	1	chr6D.!!$F1	1475

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
917	1189	0.035056	CTTTGGGCCGACTCATTCCT	60.035	55.0	0.0	0.0	0.0	3.36	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2217	2913	1.198637	GTTGCAGAGGTCATCAAGCAC	59.801	52.381	4.44	0.0	39.84	4.4	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
37	38	2.746359	GCCGGCTATCCTGCTGAT	59.254	61.111	22.15	0.00	41.56	2.90
38	39	1.670406	GCCGGCTATCCTGCTGATG	60.670	63.158	22.15	0.00	41.56	3.07
39	40	2.052779	CCGGCTATCCTGCTGATGA	58.947	57.895	0.00	0.00	41.56	2.92
51	53	2.905085	CTGCTGATGATAGGGTGGATCT	59.095	50.000	0.00	0.00	0.00	2.75
57	59	0.892063	GATAGGGTGGATCTCGAGCC	59.108	60.000	7.81	4.69	41.67	4.70
65	67	1.896660	GATCTCGAGCCGCTCCTCT	60.897	63.158	14.85	0.00	0.00	3.69
87	89	2.048127	GCTTCCTTCCGCACGACT	60.048	61.111	0.00	0.00	0.00	4.18
95	97	0.525455	TTCCGCACGACTGATCATCG	60.525	55.000	19.36	19.36	45.17	3.84
117	119	3.250744	GACGTCCGTTCATCAAATCTCA	58.749	45.455	3.51	0.00	0.00	3.27
119	121	3.254060	CGTCCGTTCATCAAATCTCAGT	58.746	45.455	0.00	0.00	0.00	3.41
135	137	7.444703	AATCTCAGTTATTTAGCTCCTCCTT	57.555	36.000	0.00	0.00	0.00	3.36
145	147	1.835693	CTCCTCCTTGGATCCAGCC	59.164	63.158	15.53	0.00	45.16	4.85
159	161	1.798735	CAGCCTTGGATGCGAACAG	59.201	57.895	0.00	0.00	0.00	3.16
162	164	0.169009	GCCTTGGATGCGAACAGTTC	59.831	55.000	2.85	2.85	0.00	3.01
181	183	3.795688	TCCCATCTTGATAATCTGGGC	57.204	47.619	0.92	0.00	45.16	5.36
183	185	2.108776	CCCATCTTGATAATCTGGGCCA	59.891	50.000	5.85	5.85	40.12	5.36
190	192	2.040009	ATAATCTGGGCCACGACGGG	62.040	60.000	0.00	0.00	34.06	5.28
194	196	4.192453	TGGGCCACGACGGGTTTT	62.192	61.111	0.00	0.00	34.06	2.43
244	247	2.298610	CTGCTGAAGATGGATGCATGT	58.701	47.619	2.46	0.00	33.02	3.21
259	262	4.808414	TGCATGTACAAGCTAGAGAGTT	57.192	40.909	22.32	0.00	0.00	3.01
265	268	3.710209	ACAAGCTAGAGAGTTTGCCAT	57.290	42.857	0.00	0.00	45.16	4.40
267	270	3.008375	ACAAGCTAGAGAGTTTGCCATCA	59.992	43.478	0.00	0.00	45.16	3.07
324	327	3.218453	CCAAGACATAACAACCACCACA	58.782	45.455	0.00	0.00	0.00	4.17
336	339	0.525242	CCACCACAACAACAACGCAG	60.525	55.000	0.00	0.00	0.00	5.18
356	359	4.400567	GCAGGCCTACAGATCAAGAATTTT	59.599	41.667	3.98	0.00	0.00	1.82
379	396	1.830477	AGTGCAGAGATCAAGTCCCTC	59.170	52.381	0.00	0.00	0.00	4.30
382	399	2.842496	TGCAGAGATCAAGTCCCTCATT	59.158	45.455	0.00	0.00	0.00	2.57
419	437	0.530870	GCTTCTCGTCCATGGGTAGC	60.531	60.000	13.02	6.74	0.00	3.58
431	449	0.252239	TGGGTAGCAGAAGAGGAGCA	60.252	55.000	0.00	0.00	0.00	4.26
460	478	1.079197	ACGACAATCCATGCTCGCA	60.079	52.632	0.00	0.00	36.60	5.10
464	482	2.124151	AATCCATGCTCGCACCCC	60.124	61.111	0.00	0.00	0.00	4.95
467	485	4.100084	CCATGCTCGCACCCCTGA	62.100	66.667	0.00	0.00	0.00	3.86
509	536	3.371097	GATCCGCTCTCGTGCCCAA	62.371	63.158	0.00	0.00	0.00	4.12
537	564	3.302347	GAGGAGGTGTGACGGGCAG	62.302	68.421	0.00	0.00	0.00	4.85
581	608	1.865865	GGACAACACAAGAAGAGCGA	58.134	50.000	0.00	0.00	0.00	4.93
584	611	1.933853	ACAACACAAGAAGAGCGACAC	59.066	47.619	0.00	0.00	0.00	3.67
636	665	5.161943	GGATAGTAATCCCCGCTAATTGT	57.838	43.478	0.00	0.00	45.37	2.71
645	674	1.715585	CGCTAATTGTGGACGCTGG	59.284	57.895	0.00	0.00	0.00	4.85
648	677	1.369625	CTAATTGTGGACGCTGGGAC	58.630	55.000	0.00	0.00	0.00	4.46
659	688	3.449227	CTGGGACTGCGCGAGGTA	61.449	66.667	12.10	0.00	0.00	3.08
660	689	2.992689	TGGGACTGCGCGAGGTAA	60.993	61.111	12.10	0.00	0.00	2.85
688	717	3.365472	GGCAGAACATTTAATCTGGGGT	58.635	45.455	6.06	0.00	42.62	4.95
729	758	7.597369	CAGATACCGTCGGATGTGATTTAATTA	59.403	37.037	20.51	0.00	0.00	1.40
761	790	4.710375	AGACGTCCCTAGTAATCATGTGTT	59.290	41.667	13.01	0.00	0.00	3.32
767	796	8.548721	CGTCCCTAGTAATCATGTGTTTATTTC	58.451	37.037	0.00	0.00	0.00	2.17
793	823	9.621629	CTTGGTGTAATTACAGGGTAATTCATA	57.378	33.333	18.56	4.02	36.78	2.15
837	906	9.915629	GTGTAGATTTAGATAGTGTAGATTGGG	57.084	37.037	0.00	0.00	0.00	4.12
855	1125	7.982252	AGATTGGGAAGATATGATACACACAT	58.018	34.615	0.00	0.00	0.00	3.21
878	1149	7.270365	ACATTCGTGCAAGAAAAATAACATACG	59.730	33.333	18.90	0.00	33.43	3.06
910	1182	3.317449	GTGTAACTTTGGGCCGACT	57.683	52.632	0.00	0.00	0.00	4.18
915	1187	1.534729	AACTTTGGGCCGACTCATTC	58.465	50.000	0.00	0.00	0.00	2.67
917	1189	0.035056	CTTTGGGCCGACTCATTCCT	60.035	55.000	0.00	0.00	0.00	3.36
919	1191	1.281419	TTGGGCCGACTCATTCCTAA	58.719	50.000	0.00	0.00	0.00	2.69
921	1193	1.631388	TGGGCCGACTCATTCCTAAAA	59.369	47.619	0.00	0.00	0.00	1.52
922	1194	2.040545	TGGGCCGACTCATTCCTAAAAA	59.959	45.455	0.00	0.00	0.00	1.94
1204	1528	3.508840	GAAATGACGCCCTGCCCG	61.509	66.667	0.00	0.00	0.00	6.13
1241	1565	1.075836	CCCCGGATTGTGTTTCCCA	59.924	57.895	0.73	0.00	0.00	4.37
1329	1659	2.473984	GGTACTCGTCTTCAACAAACCG	59.526	50.000	0.00	0.00	0.00	4.44
1335	1665	4.124238	TCGTCTTCAACAAACCGAAGAAT	58.876	39.130	3.57	0.00	46.78	2.40
1342	1672	5.551233	TCAACAAACCGAAGAATCAGATCT	58.449	37.500	0.00	0.00	0.00	2.75
1389	1719	4.988598	CACCGCCTTGTCGTGCCT	62.989	66.667	0.00	0.00	0.00	4.75
1526	1859	2.661537	CGACGAGCAACACAGGCA	60.662	61.111	0.00	0.00	0.00	4.75
1530	1863	2.545596	CGAGCAACACAGGCAAGCA	61.546	57.895	0.00	0.00	0.00	3.91
1601	1955	3.851458	TCTAATGAGTGATGCTGCCAT	57.149	42.857	0.00	0.00	0.00	4.40
1701	2055	8.143835	GGAATTCTCAAGTTTGATTTGGAGAAA	58.856	33.333	5.23	0.00	36.46	2.52
1707	2061	7.610865	TCAAGTTTGATTTGGAGAAACAAAGT	58.389	30.769	0.00	0.00	42.91	2.66
1851	2205	5.121454	GTGGAAGATGAAGACTGATTGTGAC	59.879	44.000	0.00	0.00	0.00	3.67
1905	2259	3.740115	TGAACTGGACAAGCTACTTTCC	58.260	45.455	0.00	0.00	0.00	3.13
1969	2323	6.765989	CGAGGAGGAAAATAATGTGGTATTCA	59.234	38.462	0.00	0.00	0.00	2.57
2076	2430	9.722184	CATTATCATCCATTCAGAAGTGTCTAT	57.278	33.333	0.00	0.00	30.85	1.98
2196	2892	8.392612	TGTTGAGTTAACAAGTTTAAGTAGTGC	58.607	33.333	8.61	0.00	45.86	4.40
2217	2913	4.220382	TGCCATATCACTTGTTCCTTTTGG	59.780	41.667	0.00	0.00	42.21	3.28
2233	2929	2.189594	TTGGTGCTTGATGACCTCTG	57.810	50.000	0.00	0.00	32.98	3.35
2244	2940	5.876651	TGATGACCTCTGCAACATATAGT	57.123	39.130	0.00	0.00	0.00	2.12
2614	3324	6.565974	TGCTAATGTTCTATCCCCTCTCTAT	58.434	40.000	0.00	0.00	0.00	1.98
2717	3429	6.599244	CAGTTCCTTCTGATAATGCAGGTTTA	59.401	38.462	0.00	0.00	37.61	2.01
2927	3847	4.638304	ACTGCGATTATATGGTGTTACCC	58.362	43.478	0.00	0.00	37.50	3.69
3066	4159	8.753133	AGTGAACTGATGATTGTCAGAATACTA	58.247	33.333	10.57	0.00	46.77	1.82

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
30	31	2.905085	AGATCCACCCTATCATCAGCAG	59.095	50.000	0.00	0.00	0.00	4.24
34	35	3.425659	CTCGAGATCCACCCTATCATCA	58.574	50.000	6.58	0.00	0.00	3.07
37	38	1.621992	GCTCGAGATCCACCCTATCA	58.378	55.000	18.75	0.00	0.00	2.15
38	39	0.892063	GGCTCGAGATCCACCCTATC	59.108	60.000	18.75	0.00	0.00	2.08
39	40	0.896019	CGGCTCGAGATCCACCCTAT	60.896	60.000	18.75	0.00	0.00	2.57
51	53	3.234979	CTATAGAGGAGCGGCTCGA	57.765	57.895	22.63	9.14	0.00	4.04
65	67	0.387929	CGTGCGGAAGGAAGCCTATA	59.612	55.000	0.00	0.00	31.13	1.31
71	73	0.108615	ATCAGTCGTGCGGAAGGAAG	60.109	55.000	0.00	0.00	0.00	3.46
95	97	2.603560	GAGATTTGATGAACGGACGTCC	59.396	50.000	25.28	25.28	0.00	4.79
104	106	9.113838	GGAGCTAAATAACTGAGATTTGATGAA	57.886	33.333	0.00	0.00	0.00	2.57
145	147	0.804989	GGGAACTGTTCGCATCCAAG	59.195	55.000	26.60	0.00	41.74	3.61
156	158	5.688807	CCAGATTATCAAGATGGGAACTGT	58.311	41.667	0.00	0.00	0.00	3.55
181	183	1.566018	GCTCTCAAAACCCGTCGTGG	61.566	60.000	0.00	0.00	37.55	4.94
183	185	0.878961	GTGCTCTCAAAACCCGTCGT	60.879	55.000	0.00	0.00	0.00	4.34
190	192	1.865865	TCTCCACGTGCTCTCAAAAC	58.134	50.000	10.91	0.00	0.00	2.43
191	193	2.102420	TCTTCTCCACGTGCTCTCAAAA	59.898	45.455	10.91	0.00	0.00	2.44
194	196	1.328279	TTCTTCTCCACGTGCTCTCA	58.672	50.000	10.91	0.00	0.00	3.27
217	220	2.544721	TCCATCTTCAGCAGTTCCTCT	58.455	47.619	0.00	0.00	0.00	3.69
223	226	2.298610	CATGCATCCATCTTCAGCAGT	58.701	47.619	0.00	0.00	38.75	4.40
244	247	4.222810	TGATGGCAAACTCTCTAGCTTGTA	59.777	41.667	0.00	0.00	32.44	2.41
259	262	1.064832	TCCATGTTCGGATGATGGCAA	60.065	47.619	9.80	0.00	37.20	4.52
265	268	3.544684	CAATTCCTCCATGTTCGGATGA	58.455	45.455	0.00	0.00	33.56	2.92
267	270	2.092212	AGCAATTCCTCCATGTTCGGAT	60.092	45.455	0.00	0.00	33.56	4.18
283	286	4.587520	TGGAGGACCAGGAGCAAT	57.412	55.556	0.00	0.00	41.77	3.56
291	294	0.696143	TGTCTTGGGTTGGAGGACCA	60.696	55.000	0.00	0.00	45.34	4.02
324	327	0.464735	TGTAGGCCTGCGTTGTTGTT	60.465	50.000	17.99	0.00	0.00	2.83
356	359	3.840666	AGGGACTTGATCTCTGCACTAAA	59.159	43.478	0.00	0.00	36.47	1.85
360	363	1.552337	TGAGGGACTTGATCTCTGCAC	59.448	52.381	0.00	0.00	38.77	4.57
362	365	3.557228	AATGAGGGACTTGATCTCTGC	57.443	47.619	0.00	0.00	38.77	4.26
370	373	2.472695	TCACGGAAATGAGGGACTTG	57.527	50.000	0.00	0.00	41.55	3.16
379	396	3.670055	GCACTTTCACAATCACGGAAATG	59.330	43.478	0.00	0.00	30.88	2.32
382	399	2.571212	AGCACTTTCACAATCACGGAA	58.429	42.857	0.00	0.00	0.00	4.30
419	437	1.153667	GCCGTCTGCTCCTCTTCTG	60.154	63.158	0.00	0.00	36.87	3.02
460	478	1.156322	TCCTCTCCTTCCTCAGGGGT	61.156	60.000	0.00	0.00	45.06	4.95
464	482	2.306847	GCTACTCCTCTCCTTCCTCAG	58.693	57.143	0.00	0.00	0.00	3.35
467	485	0.106419	CCGCTACTCCTCTCCTTCCT	60.106	60.000	0.00	0.00	0.00	3.36
509	536	2.203907	ACCTCCTCTGCTGTGCCT	60.204	61.111	0.00	0.00	0.00	4.75
512	539	0.320247	GTCACACCTCCTCTGCTGTG	60.320	60.000	0.00	0.00	36.20	3.66
537	564	2.672996	AGTGTGGATTGTGGCCGC	60.673	61.111	10.11	10.11	36.47	6.53
581	608	2.099921	CTCTAGCCTTGCGATACAGTGT	59.900	50.000	0.00	0.00	0.00	3.55
584	611	2.881513	TCTCTCTAGCCTTGCGATACAG	59.118	50.000	0.00	0.00	0.00	2.74
642	671	2.298158	ATTACCTCGCGCAGTCCCAG	62.298	60.000	8.75	0.00	0.00	4.45
643	672	2.292794	GATTACCTCGCGCAGTCCCA	62.293	60.000	8.75	0.00	0.00	4.37
645	674	0.872021	CAGATTACCTCGCGCAGTCC	60.872	60.000	8.75	0.00	0.00	3.85
648	677	2.240500	GGCAGATTACCTCGCGCAG	61.241	63.158	8.75	3.84	0.00	5.18
688	717	5.113383	CGGTATCTGCCACACAAACTAATA	58.887	41.667	0.00	0.00	0.00	0.98
729	758	3.904717	ACTAGGGACGTCTGATCAATCT	58.095	45.455	16.46	3.55	0.00	2.40
767	796	7.931578	TGAATTACCCTGTAATTACACCAAG	57.068	36.000	14.35	5.03	31.93	3.61
775	805	9.646522	AGAGCAAATATGAATTACCCTGTAATT	57.353	29.630	11.00	11.00	0.00	1.40
776	806	9.646522	AAGAGCAAATATGAATTACCCTGTAAT	57.353	29.630	0.00	0.00	0.00	1.89
811	841	9.915629	CCCAATCTACACTATCTAAATCTACAC	57.084	37.037	0.00	0.00	0.00	2.90
834	903	6.183360	ACGAATGTGTGTATCATATCTTCCCA	60.183	38.462	0.00	0.00	0.00	4.37
855	1125	6.889494	TCGTATGTTATTTTTCTTGCACGAA	58.111	32.000	0.75	0.75	32.42	3.85
870	1140	6.379133	ACACTGAGGTATCCTTTCGTATGTTA	59.621	38.462	0.00	0.00	31.76	2.41
873	1143	5.263968	ACACTGAGGTATCCTTTCGTATG	57.736	43.478	0.00	0.00	31.76	2.39
878	1149	6.371825	CCAAAGTTACACTGAGGTATCCTTTC	59.628	42.308	0.00	0.00	31.76	2.62
887	1158	1.534729	GGCCCAAAGTTACACTGAGG	58.465	55.000	0.00	0.00	0.00	3.86
890	1161	0.872388	GTCGGCCCAAAGTTACACTG	59.128	55.000	0.00	0.00	0.00	3.66
924	1196	1.875963	CGGGCTGTGCGAGATTTTT	59.124	52.632	0.00	0.00	0.00	1.94
926	1198	3.127533	GCGGGCTGTGCGAGATTT	61.128	61.111	0.00	0.00	0.00	2.17
927	1199	4.393155	TGCGGGCTGTGCGAGATT	62.393	61.111	0.00	0.00	34.24	2.40
971	1288	3.182996	GGGGTTGGGGGTGTCAGT	61.183	66.667	0.00	0.00	0.00	3.41
1004	1321	4.778415	CGTCGTCCTCCAGTGGCG	62.778	72.222	3.51	1.97	0.00	5.69
1241	1565	0.600255	CTGCAAGGAGAAACGACCGT	60.600	55.000	0.00	0.00	0.00	4.83
1329	1659	3.944015	CCCACACCAAGATCTGATTCTTC	59.056	47.826	0.00	0.00	33.69	2.87
1335	1665	0.984230	GGTCCCACACCAAGATCTGA	59.016	55.000	0.00	0.00	45.98	3.27
1342	1672	3.562232	GACGGGGTCCCACACCAA	61.562	66.667	10.98	0.00	43.56	3.67
1537	1891	1.750018	CAAGATCACCCCATGCGCA	60.750	57.895	14.96	14.96	0.00	6.09
1601	1955	3.391296	AGGCTTGTCAGTAGAAACCAAGA	59.609	43.478	0.00	0.00	35.64	3.02
1701	2055	2.612972	CCGTATCACAGCCAGACTTTGT	60.613	50.000	0.00	0.00	0.00	2.83
1707	2061	1.897423	CACCCGTATCACAGCCAGA	59.103	57.895	0.00	0.00	0.00	3.86
1851	2205	2.819595	CCCCATGAAGCGACACCG	60.820	66.667	0.00	0.00	39.16	4.94
1905	2259	3.513119	TGTCAGTCTCCTCAGAATTCAGG	59.487	47.826	8.44	6.86	0.00	3.86
1986	2340	3.576982	ACTCAAGATGGACCGTAAAGACA	59.423	43.478	0.00	0.00	0.00	3.41
2076	2430	1.303236	ACATGCTTTACCTGCCGCA	60.303	52.632	0.00	0.00	36.75	5.69
2196	2892	5.713025	CACCAAAAGGAACAAGTGATATGG	58.287	41.667	0.00	0.00	0.00	2.74
2217	2913	1.198637	GTTGCAGAGGTCATCAAGCAC	59.801	52.381	4.44	0.00	39.84	4.40
2233	2929	9.708222	CTACAGAAAACAATCACTATATGTTGC	57.292	33.333	0.00	0.00	37.36	4.17
2260	2960	7.011389	CACCACGCAAGAATCAGAATAGAAATA	59.989	37.037	0.00	0.00	43.62	1.40
2280	2980	1.999048	TTACATAGAACGCCACCACG	58.001	50.000	0.00	0.00	39.50	4.94
2717	3429	1.540115	TCTGGGAGCTAGAGGGAGAT	58.460	55.000	0.00	0.00	0.00	2.75
2927	3847	7.865889	TGCATAGTTATCAAATACTCACGTAGG	59.134	37.037	0.00	0.00	0.00	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.