AutoCloner

Multiple sequence alignment - TraesCS6A01G017600

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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	TraesCS6A01G017600	chr6A	100.000	2522	0	0	1	2522	8711254	8713775	0.000000e+00	4658.0
1	TraesCS6A01G017600	chr6A	88.376	1841	148	22	697	2489	8624821	8622999	0.000000e+00	2154.0
2	TraesCS6A01G017600	chr6A	79.260	1244	215	36	962	2181	35581638	35580414	0.000000e+00	828.0
3	TraesCS6A01G017600	chr6A	79.823	679	126	10	1509	2181	9572511	9573184	3.770000e-133	484.0
4	TraesCS6A01G017600	chr6A	93.478	46	3	0	7	52	8625096	8625051	4.500000e-08	69.4
5	TraesCS6A01G017600	chr6D	89.902	1634	126	18	912	2522	8147284	8145667	0.000000e+00	2067.0
6	TraesCS6A01G017600	chr6D	87.990	1557	136	29	988	2512	8249774	8251311	0.000000e+00	1792.0
7	TraesCS6A01G017600	chr6D	80.597	1474	224	41	739	2181	8245222	8246664	0.000000e+00	1081.0
8	TraesCS6A01G017600	chr6D	79.607	1221	213	28	979	2181	8967563	8968765	0.000000e+00	843.0
9	TraesCS6A01G017600	chr6D	78.820	1237	215	37	970	2181	7885716	7886930	0.000000e+00	789.0
10	TraesCS6A01G017600	chr6D	78.679	1196	214	32	988	2163	8552807	8551633	0.000000e+00	758.0
11	TraesCS6A01G017600	chr6D	79.937	633	119	8	1532	2160	14518180	14518808	2.290000e-125	459.0
12	TraesCS6A01G017600	chr6D	90.419	167	9	2	512	671	8244912	8245078	1.970000e-51	213.0
13	TraesCS6A01G017600	chr6D	89.474	57	6	0	74	130	114764062	114764118	3.480000e-09	73.1
14	TraesCS6A01G017600	chr6D	90.566	53	2	3	104	154	72040220	72040169	1.620000e-07	67.6
15	TraesCS6A01G017600	chr6B	87.517	1514	126	24	843	2330	15115836	15114360	0.000000e+00	1690.0
16	TraesCS6A01G017600	chr6B	89.593	1230	115	9	962	2181	21458671	21459897	0.000000e+00	1550.0
17	TraesCS6A01G017600	chr6B	90.255	667	50	7	1	659	15116719	15116060	0.000000e+00	857.0
18	TraesCS6A01G017600	chr6B	90.426	658	47	8	1	650	21457649	21458298	0.000000e+00	852.0
19	TraesCS6A01G017600	chr6B	77.787	1202	230	32	978	2158	15744098	15742913	0.000000e+00	706.0
20	TraesCS6A01G017600	chr6B	77.750	1200	220	37	988	2163	52981060	52979884	0.000000e+00	693.0
21	TraesCS6A01G017600	chr6B	94.231	156	7	2	2368	2522	15114362	15114208	1.170000e-58	237.0
22	TraesCS6A01G017600	chr7D	79.043	1212	215	31	980	2174	161390632	161391821	0.000000e+00	795.0
23	TraesCS6A01G017600	chr5A	88.608	79	6	3	76	153	688042932	688042856	2.670000e-15	93.5
24	TraesCS6A01G017600	chr2D	92.857	56	4	0	75	130	130759760	130759705	5.780000e-12	82.4
25	TraesCS6A01G017600	chr5B	84.615	78	10	2	78	154	401007028	401006952	2.690000e-10	76.8
26	TraesCS6A01G017600	chrUn	83.117	77	9	4	78	153	258567159	258567086	1.620000e-07	67.6
27	TraesCS6A01G017600	chr5D	87.719	57	7	0	74	130	353785394	353785450	1.620000e-07	67.6

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	TraesCS6A01G017600	chr6A	8711254	8713775	2521	False	4658.000000	4658	100.000000	1	2522	1	chr6A.!!$F1	2521
1	TraesCS6A01G017600	chr6A	8622999	8625096	2097	True	1111.700000	2154	90.927000	7	2489	2	chr6A.!!$R2	2482
2	TraesCS6A01G017600	chr6A	35580414	35581638	1224	True	828.000000	828	79.260000	962	2181	1	chr6A.!!$R1	1219
3	TraesCS6A01G017600	chr6A	9572511	9573184	673	False	484.000000	484	79.823000	1509	2181	1	chr6A.!!$F2	672
4	TraesCS6A01G017600	chr6D	8145667	8147284	1617	True	2067.000000	2067	89.902000	912	2522	1	chr6D.!!$R1	1610
5	TraesCS6A01G017600	chr6D	8244912	8251311	6399	False	1028.666667	1792	86.335333	512	2512	3	chr6D.!!$F5	2000
6	TraesCS6A01G017600	chr6D	8967563	8968765	1202	False	843.000000	843	79.607000	979	2181	1	chr6D.!!$F2	1202
7	TraesCS6A01G017600	chr6D	7885716	7886930	1214	False	789.000000	789	78.820000	970	2181	1	chr6D.!!$F1	1211
8	TraesCS6A01G017600	chr6D	8551633	8552807	1174	True	758.000000	758	78.679000	988	2163	1	chr6D.!!$R2	1175
9	TraesCS6A01G017600	chr6D	14518180	14518808	628	False	459.000000	459	79.937000	1532	2160	1	chr6D.!!$F3	628
10	TraesCS6A01G017600	chr6B	21457649	21459897	2248	False	1201.000000	1550	90.009500	1	2181	2	chr6B.!!$F1	2180
11	TraesCS6A01G017600	chr6B	15114208	15116719	2511	True	928.000000	1690	90.667667	1	2522	3	chr6B.!!$R3	2521
12	TraesCS6A01G017600	chr6B	15742913	15744098	1185	True	706.000000	706	77.787000	978	2158	1	chr6B.!!$R1	1180
13	TraesCS6A01G017600	chr6B	52979884	52981060	1176	True	693.000000	693	77.750000	988	2163	1	chr6B.!!$R2	1175
14	TraesCS6A01G017600	chr7D	161390632	161391821	1189	False	795.000000	795	79.043000	980	2174	1	chr7D.!!$F1	1194

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
372	374	0.034186	GGGCCATGGTGAGACAATCA	60.034	55.0	14.67	0.0	34.79	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1522	6101	0.687354	GCTTGACCACCCTCTCAAGA	59.313	55.0	10.82	0.0	44.22	3.02	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
83	84	6.057533	TGAGTCCAATTGCATGGTATTCTAG	58.942	40.000	6.24	0.00	41.46	2.43
205	206	6.842676	AGGAGTATATTGAAAACCCTCCATC	58.157	40.000	0.00	0.00	39.55	3.51
208	209	7.017254	GGAGTATATTGAAAACCCTCCATCCTA	59.983	40.741	0.00	0.00	37.53	2.94
226	227	1.470098	CTATTTGGCTGACTGGTGTGC	59.530	52.381	0.00	0.00	0.00	4.57
252	253	2.611974	CAAAGCGTTGCTAACCGAAT	57.388	45.000	0.00	0.00	38.25	3.34
262	263	6.370593	CGTTGCTAACCGAATAATGCATATT	58.629	36.000	0.00	0.16	36.91	1.28
282	283	1.180907	TGCTTCACACTTTGGTTGCA	58.819	45.000	0.00	0.00	0.00	4.08
333	334	6.467723	AATATTATTTCGTCGGTGATGCTC	57.532	37.500	0.00	0.00	0.00	4.26
336	337	1.006825	TTTCGTCGGTGATGCTCGTG	61.007	55.000	0.00	0.00	0.00	4.35
372	374	0.034186	GGGCCATGGTGAGACAATCA	60.034	55.000	14.67	0.00	34.79	2.57
380	382	2.080700	TGAGACAATCACATGCGCG	58.919	52.632	0.00	0.00	31.12	6.86
385	387	1.349627	CAATCACATGCGCGAGGAC	59.650	57.895	12.10	0.00	0.00	3.85
386	388	2.167219	AATCACATGCGCGAGGACG	61.167	57.895	12.10	0.00	42.93	4.79
388	390	3.545481	CACATGCGCGAGGACGAC	61.545	66.667	12.10	0.00	42.66	4.34
401	404	3.436496	GAGGACGACCAATAGAAACTCG	58.564	50.000	6.71	0.00	38.94	4.18
412	415	2.171341	AGAAACTCGAACTCTTGCCC	57.829	50.000	0.00	0.00	0.00	5.36
507	510	1.599797	AACACTAGCGGGGTTGCAC	60.600	57.895	0.00	0.00	40.50	4.57
519	522	1.583054	GGTTGCACAAAGACGAGTCT	58.417	50.000	0.00	0.00	42.75	3.24
632	640	5.661458	TCAAGTTAAATTTGCCCGAAAACA	58.339	33.333	0.00	0.00	0.00	2.83
671	685	1.656652	CGGATCCAAATGAAGAGCGT	58.343	50.000	13.41	0.00	0.00	5.07
674	688	2.271800	GATCCAAATGAAGAGCGTCGT	58.728	47.619	0.00	0.00	0.00	4.34
677	691	2.875933	TCCAAATGAAGAGCGTCGTTTT	59.124	40.909	1.70	0.00	35.09	2.43
678	692	3.314080	TCCAAATGAAGAGCGTCGTTTTT	59.686	39.130	1.70	0.00	35.09	1.94
679	693	3.421888	CCAAATGAAGAGCGTCGTTTTTG	59.578	43.478	1.70	0.00	35.09	2.44
681	695	3.795561	ATGAAGAGCGTCGTTTTTGAG	57.204	42.857	0.00	0.00	0.00	3.02
682	696	2.816689	TGAAGAGCGTCGTTTTTGAGA	58.183	42.857	0.00	0.00	0.00	3.27
684	698	3.807622	TGAAGAGCGTCGTTTTTGAGATT	59.192	39.130	0.00	0.00	0.00	2.40
685	699	4.986034	TGAAGAGCGTCGTTTTTGAGATTA	59.014	37.500	0.00	0.00	0.00	1.75
686	700	4.905412	AGAGCGTCGTTTTTGAGATTAC	57.095	40.909	0.00	0.00	0.00	1.89
687	701	4.304110	AGAGCGTCGTTTTTGAGATTACA	58.696	39.130	0.00	0.00	0.00	2.41
688	702	4.748102	AGAGCGTCGTTTTTGAGATTACAA	59.252	37.500	0.00	0.00	0.00	2.41
689	703	5.408604	AGAGCGTCGTTTTTGAGATTACAAT	59.591	36.000	0.00	0.00	0.00	2.71
690	704	5.382303	AGCGTCGTTTTTGAGATTACAATG	58.618	37.500	0.00	0.00	0.00	2.82
692	706	5.280678	GCGTCGTTTTTGAGATTACAATGAC	59.719	40.000	0.00	0.00	0.00	3.06
693	707	6.359545	CGTCGTTTTTGAGATTACAATGACA	58.640	36.000	0.00	0.00	0.00	3.58
695	709	6.303259	GTCGTTTTTGAGATTACAATGACAGC	59.697	38.462	0.00	0.00	0.00	4.40
697	711	6.303970	CGTTTTTGAGATTACAATGACAGCAG	59.696	38.462	0.00	0.00	0.00	4.24
698	712	7.362662	GTTTTTGAGATTACAATGACAGCAGA	58.637	34.615	0.00	0.00	0.00	4.26
699	713	7.692460	TTTTGAGATTACAATGACAGCAGAT	57.308	32.000	0.00	0.00	0.00	2.90
700	714	8.791327	TTTTGAGATTACAATGACAGCAGATA	57.209	30.769	0.00	0.00	0.00	1.98
701	715	7.776933	TTGAGATTACAATGACAGCAGATAC	57.223	36.000	0.00	0.00	0.00	2.24
702	716	5.979517	TGAGATTACAATGACAGCAGATACG	59.020	40.000	0.00	0.00	0.00	3.06
703	717	5.907207	AGATTACAATGACAGCAGATACGT	58.093	37.500	0.00	0.00	0.00	3.57
722	853	4.347813	ACGTGTGCTCATGTTTGTTTTAC	58.652	39.130	7.80	0.00	40.42	2.01
729	860	8.173775	TGTGCTCATGTTTGTTTTACATTTTTG	58.826	29.630	0.00	0.00	34.11	2.44
766	897	1.286880	GGCTCATGTTTGCAAGCGT	59.713	52.632	8.84	5.42	35.58	5.07
852	1041	3.744940	TTTTGAGATTCTCCAGCCCAT	57.255	42.857	11.12	0.00	0.00	4.00
874	1067	1.382146	AGCCCATCCAAGCCCATTG	60.382	57.895	0.00	0.00	38.74	2.82
875	1068	3.097921	GCCCATCCAAGCCCATTGC	62.098	63.158	0.00	0.00	37.60	3.56
877	1070	1.686455	CCATCCAAGCCCATTGCCA	60.686	57.895	0.00	0.00	42.71	4.92
878	1071	1.052124	CCATCCAAGCCCATTGCCAT	61.052	55.000	0.00	0.00	42.71	4.40
879	1072	1.707106	CATCCAAGCCCATTGCCATA	58.293	50.000	0.00	0.00	42.71	2.74
880	1073	2.253610	CATCCAAGCCCATTGCCATAT	58.746	47.619	0.00	0.00	42.71	1.78
881	1074	1.707106	TCCAAGCCCATTGCCATATG	58.293	50.000	0.00	0.00	42.71	1.78
882	1075	0.682852	CCAAGCCCATTGCCATATGG	59.317	55.000	18.07	18.07	43.90	2.74
919	1129	4.057428	GACGCACGAGTCCAGCCT	62.057	66.667	0.00	0.00	35.22	4.58
949	1159	0.900647	CCACACCCTCTCCGTCTCTT	60.901	60.000	0.00	0.00	0.00	2.85
1033	1289	3.640407	GCTGCACCCTCACCCAGA	61.640	66.667	0.00	0.00	0.00	3.86
1443	6014	0.388659	GCTGCAGATCCATCGTCTCT	59.611	55.000	20.43	0.00	0.00	3.10
1462	6033	5.761234	GTCTCTGATCTACAGTACTACCTGG	59.239	48.000	0.00	0.00	45.86	4.45
1465	6036	5.368816	TCTGATCTACAGTACTACCTGGCTA	59.631	44.000	0.00	0.00	45.86	3.93
1475	6046	1.341531	CTACCTGGCTATCTTCGGGTG	59.658	57.143	4.26	0.00	42.18	4.61
1522	6101	0.622665	CCTGGCTCCTTGGTTCTGAT	59.377	55.000	0.00	0.00	0.00	2.90
1609	6188	1.028330	CCAAGCTGTGCATCGGTCAT	61.028	55.000	0.00	0.00	0.00	3.06
1856	6435	0.112995	TTCCAAGGACAGGCTGCAAT	59.887	50.000	15.89	0.00	0.00	3.56
2005	6584	2.933906	GGAAAACGGATTGCTACATCGA	59.066	45.455	0.00	0.00	0.00	3.59
2330	6926	6.266323	AGTACTATTTCTGCACACTGTATCG	58.734	40.000	0.00	0.00	0.00	2.92
2356	6952	3.008157	TGTTCTGAAATGGCCATTGCAAT	59.992	39.130	34.05	19.11	36.00	3.56
2386	6983	4.635765	TGCAATCTTCAACCTATCTTTCCG	59.364	41.667	0.00	0.00	0.00	4.30

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
65	66	7.933396	TCAACATCTAGAATACCATGCAATTG	58.067	34.615	0.00	0.00	0.00	2.32
69	70	9.797642	ATTTATCAACATCTAGAATACCATGCA	57.202	29.630	0.00	0.00	0.00	3.96
161	162	8.562949	ACTCCTACTCCCTAATTAATTGCTAA	57.437	34.615	11.05	0.00	0.00	3.09
185	186	9.588096	AAATAGGATGGAGGGTTTTCAATATAC	57.412	33.333	0.00	0.00	0.00	1.47
205	206	2.086869	CACACCAGTCAGCCAAATAGG	58.913	52.381	0.00	0.00	41.84	2.57
208	209	1.181098	GGCACACCAGTCAGCCAAAT	61.181	55.000	0.00	0.00	46.26	2.32
236	237	2.031683	GCATTATTCGGTTAGCAACGCT	59.968	45.455	0.00	0.00	43.41	5.07
262	263	1.547820	TGCAACCAAAGTGTGAAGCAA	59.452	42.857	0.00	0.00	0.00	3.91
288	289	4.891992	AGCTGGCTAAGACTTGAAACTA	57.108	40.909	0.00	0.00	0.00	2.24
298	299	7.541091	CGACGAAATAATATTAGCTGGCTAAGA	59.459	37.037	18.00	14.75	41.18	2.10
306	307	6.090898	GCATCACCGACGAAATAATATTAGCT	59.909	38.462	0.00	0.00	0.00	3.32
333	334	2.202570	GTCATCGTCCGTCCCACG	60.203	66.667	0.00	0.00	42.11	4.94
336	337	2.494918	CCAGTCATCGTCCGTCCC	59.505	66.667	0.00	0.00	0.00	4.46
372	374	4.796231	GGTCGTCCTCGCGCATGT	62.796	66.667	8.75	0.00	36.96	3.21
376	378	1.944676	CTATTGGTCGTCCTCGCGC	60.945	63.158	0.00	0.00	36.96	6.86
380	382	3.128242	TCGAGTTTCTATTGGTCGTCCTC	59.872	47.826	0.00	0.00	34.23	3.71
385	387	4.734917	AGAGTTCGAGTTTCTATTGGTCG	58.265	43.478	0.00	0.00	0.00	4.79
386	388	5.163943	GCAAGAGTTCGAGTTTCTATTGGTC	60.164	44.000	13.64	1.53	33.03	4.02
388	390	4.093556	GGCAAGAGTTCGAGTTTCTATTGG	59.906	45.833	13.64	1.86	33.03	3.16
401	404	1.172812	AAACCTGCGGGCAAGAGTTC	61.173	55.000	12.89	0.00	35.63	3.01
438	441	4.815108	GGGGGTTGGATGGTCGCC	62.815	72.222	0.00	0.00	0.00	5.54
507	510	5.518847	TGTGTAAAGTTCAGACTCGTCTTTG	59.481	40.000	0.00	0.00	37.98	2.77
519	522	5.092554	TCTGGTCACTTGTGTAAAGTTCA	57.907	39.130	0.46	0.00	0.00	3.18
632	640	8.730680	GGATCCGCTGTCATGTTTTTATATTAT	58.269	33.333	0.00	0.00	0.00	1.28
650	661	1.673168	GCTCTTCATTTGGATCCGCT	58.327	50.000	7.39	0.00	0.00	5.52
652	663	1.594862	GACGCTCTTCATTTGGATCCG	59.405	52.381	7.39	0.00	0.00	4.18
671	685	6.017523	TGCTGTCATTGTAATCTCAAAAACGA	60.018	34.615	0.00	0.00	0.00	3.85
674	688	7.509141	TCTGCTGTCATTGTAATCTCAAAAA	57.491	32.000	0.00	0.00	0.00	1.94
677	691	6.476706	CGTATCTGCTGTCATTGTAATCTCAA	59.523	38.462	0.00	0.00	0.00	3.02
678	692	5.979517	CGTATCTGCTGTCATTGTAATCTCA	59.020	40.000	0.00	0.00	0.00	3.27
679	693	5.980116	ACGTATCTGCTGTCATTGTAATCTC	59.020	40.000	0.00	0.00	0.00	2.75
681	695	5.520288	ACACGTATCTGCTGTCATTGTAATC	59.480	40.000	0.00	0.00	0.00	1.75
682	696	5.291858	CACACGTATCTGCTGTCATTGTAAT	59.708	40.000	0.00	0.00	0.00	1.89
684	698	4.173256	CACACGTATCTGCTGTCATTGTA	58.827	43.478	0.00	0.00	0.00	2.41
685	699	2.995939	CACACGTATCTGCTGTCATTGT	59.004	45.455	0.00	0.00	0.00	2.71
686	700	2.222886	GCACACGTATCTGCTGTCATTG	60.223	50.000	5.10	0.00	0.00	2.82
687	701	2.002586	GCACACGTATCTGCTGTCATT	58.997	47.619	5.10	0.00	0.00	2.57
688	702	1.205655	AGCACACGTATCTGCTGTCAT	59.794	47.619	12.41	0.00	42.29	3.06
689	703	0.603065	AGCACACGTATCTGCTGTCA	59.397	50.000	12.41	0.00	42.29	3.58
690	704	1.272781	GAGCACACGTATCTGCTGTC	58.727	55.000	16.79	3.30	43.94	3.51
692	706	1.591619	CATGAGCACACGTATCTGCTG	59.408	52.381	16.79	3.25	43.94	4.41
693	707	1.205655	ACATGAGCACACGTATCTGCT	59.794	47.619	12.91	12.91	46.63	4.24
695	709	3.433274	ACAAACATGAGCACACGTATCTG	59.567	43.478	0.00	0.00	0.00	2.90
697	711	4.404507	AACAAACATGAGCACACGTATC	57.595	40.909	0.00	0.00	0.00	2.24
698	712	4.829064	AAACAAACATGAGCACACGTAT	57.171	36.364	0.00	0.00	0.00	3.06
699	713	4.624336	AAAACAAACATGAGCACACGTA	57.376	36.364	0.00	0.00	0.00	3.57
700	714	3.502191	AAAACAAACATGAGCACACGT	57.498	38.095	0.00	0.00	0.00	4.49
701	715	4.346970	TGTAAAACAAACATGAGCACACG	58.653	39.130	0.00	0.00	0.00	4.49
702	716	6.826893	AATGTAAAACAAACATGAGCACAC	57.173	33.333	0.00	0.00	37.62	3.82
703	717	7.840342	AAAATGTAAAACAAACATGAGCACA	57.160	28.000	0.00	0.00	37.62	4.57
722	853	7.518731	TCTCAAAAACGAAACCTCAAAAATG	57.481	32.000	0.00	0.00	0.00	2.32
729	860	3.253432	AGCCATCTCAAAAACGAAACCTC	59.747	43.478	0.00	0.00	0.00	3.85
781	916	4.703379	ATCAAGGCATCCCTAGAAGAAG	57.297	45.455	0.00	0.00	41.90	2.85
783	918	6.770286	AATAATCAAGGCATCCCTAGAAGA	57.230	37.500	0.00	0.00	41.90	2.87
820	978	8.134895	TGGAGAATCTCAAAAACACATTGTAAC	58.865	33.333	12.79	0.00	33.73	2.50
852	1041	3.743017	GGCTTGGATGGGCTGGGA	61.743	66.667	0.00	0.00	0.00	4.37
875	1068	0.177836	TCACCTCACGTGCCATATGG	59.822	55.000	18.07	18.07	42.69	2.74
877	1070	1.410517	CTCTCACCTCACGTGCCATAT	59.589	52.381	11.67	0.00	42.69	1.78
878	1071	0.817654	CTCTCACCTCACGTGCCATA	59.182	55.000	11.67	0.00	42.69	2.74
879	1072	1.593787	CTCTCACCTCACGTGCCAT	59.406	57.895	11.67	0.00	42.69	4.40
880	1073	2.574018	CCTCTCACCTCACGTGCCA	61.574	63.158	11.67	0.00	42.69	4.92
881	1074	2.262915	CCTCTCACCTCACGTGCC	59.737	66.667	11.67	0.00	42.69	5.01
882	1075	2.433318	GCCTCTCACCTCACGTGC	60.433	66.667	11.67	0.00	42.69	5.34
883	1076	1.373497	GTGCCTCTCACCTCACGTG	60.373	63.158	9.94	9.94	44.50	4.49
884	1077	2.920645	CGTGCCTCTCACCTCACGT	61.921	63.158	5.58	0.00	44.84	4.49
885	1078	2.126307	CGTGCCTCTCACCTCACG	60.126	66.667	0.00	0.00	44.62	4.35
886	1079	1.080434	GTCGTGCCTCTCACCTCAC	60.080	63.158	0.00	0.00	42.69	3.51
887	1080	2.626780	CGTCGTGCCTCTCACCTCA	61.627	63.158	0.00	0.00	42.69	3.86
888	1081	2.179517	CGTCGTGCCTCTCACCTC	59.820	66.667	0.00	0.00	42.69	3.85
889	1082	4.057428	GCGTCGTGCCTCTCACCT	62.057	66.667	0.00	0.00	42.69	4.00
890	1083	4.357947	TGCGTCGTGCCTCTCACC	62.358	66.667	0.00	0.00	45.60	4.02
891	1084	3.106407	GTGCGTCGTGCCTCTCAC	61.106	66.667	0.00	0.00	45.60	3.51
892	1085	4.700365	CGTGCGTCGTGCCTCTCA	62.700	66.667	0.00	0.00	45.60	3.27
893	1086	4.400109	TCGTGCGTCGTGCCTCTC	62.400	66.667	0.00	0.00	45.60	3.20
919	1129	0.991355	AGGGTGTGGTGAGGGTTTGA	60.991	55.000	0.00	0.00	0.00	2.69
949	1159	4.992511	GCGGCGTGGTTGGTGGTA	62.993	66.667	9.37	0.00	0.00	3.25
1033	1289	1.479757	GGCGTAGGGAGAAGAGAGGAT	60.480	57.143	0.00	0.00	0.00	3.24
1420	5991	1.664017	CGATGGATCTGCAGCGGAG	60.664	63.158	9.47	0.00	0.00	4.63
1443	6014	4.521536	AGCCAGGTAGTACTGTAGATCA	57.478	45.455	5.39	0.00	36.75	2.92
1462	6033	1.510480	GCCATGCACCCGAAGATAGC	61.510	60.000	0.00	0.00	0.00	2.97
1465	6036	1.153086	GAGCCATGCACCCGAAGAT	60.153	57.895	0.00	0.00	0.00	2.40
1522	6101	0.687354	GCTTGACCACCCTCTCAAGA	59.313	55.000	10.82	0.00	44.22	3.02
1609	6188	3.200825	GGTTGATTCTGAGGATCCTTGGA	59.799	47.826	17.42	14.09	0.00	3.53
1898	6477	1.067416	GCCGATGAGCGATGTACCA	59.933	57.895	0.00	0.00	44.57	3.25
2005	6584	2.308690	GCAGAATAGTAGTCCCGGTCT	58.691	52.381	0.00	0.56	0.00	3.85
2261	6855	1.344114	GGATGCCCTGATCTCTCACTC	59.656	57.143	0.00	0.00	0.00	3.51
2330	6926	4.567959	GCAATGGCCATTTCAGAACATAAC	59.432	41.667	28.68	0.00	0.00	1.89
2356	6952	6.716628	AGATAGGTTGAAGATTGCACTGAAAA	59.283	34.615	0.00	0.00	0.00	2.29
2386	6983	4.248058	CCAAAATGGGAGCATTCTTTCAC	58.752	43.478	0.00	0.00	32.67	3.18
2397	6994	2.459644	TCTTCATGGCCAAAATGGGAG	58.540	47.619	10.96	6.18	38.19	4.30
2439	7036	7.547370	AGAAGTCCACGATTTTCATCTAAAGAG	59.453	37.037	0.00	0.00	0.00	2.85
2440	7037	7.386851	AGAAGTCCACGATTTTCATCTAAAGA	58.613	34.615	0.00	0.00	0.00	2.52
2486	7084	1.066573	CAACTGGCCAACAACAAACCA	60.067	47.619	7.01	0.00	0.00	3.67

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.