AutoCloner

Multiple sequence alignment - TraesCS1A01G437300

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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	TraesCS1A01G437300	chr1A	100.000	2969	0	0	1	2969	586936591	586939559	0.000000e+00	5483.0
1	TraesCS1A01G437300	chr1A	91.304	828	64	6	2147	2969	543940841	543940017	0.000000e+00	1123.0
2	TraesCS1A01G437300	chr1A	83.588	524	45	19	828	1318	586949928	586950443	1.250000e-123	453.0
3	TraesCS1A01G437300	chr1A	80.146	549	80	13	1439	1974	586950780	586951312	1.670000e-102	383.0
4	TraesCS1A01G437300	chr1A	92.683	41	0	2	728	765	586949835	586949875	4.130000e-04	56.5
5	TraesCS1A01G437300	chr1B	88.924	1571	101	33	586	2117	679722434	679723970	0.000000e+00	1869.0
6	TraesCS1A01G437300	chr1B	81.594	527	56	27	806	1318	679744802	679745301	5.960000e-107	398.0
7	TraesCS1A01G437300	chr1B	77.879	547	86	18	1439	1975	679745695	679746216	1.030000e-79	307.0
8	TraesCS1A01G437300	chr1B	82.222	225	23	10	237	454	679722205	679722419	8.460000e-41	178.0
9	TraesCS1A01G437300	chr1D	90.355	1379	78	27	1	1344	487909434	487910792	0.000000e+00	1759.0
10	TraesCS1A01G437300	chr1D	94.337	671	28	3	1451	2117	487910845	487911509	0.000000e+00	1020.0
11	TraesCS1A01G437300	chr1D	81.157	536	46	26	806	1318	487948857	487949360	2.160000e-101	379.0
12	TraesCS1A01G437300	chr1D	78.808	604	71	40	731	1313	488545858	488545291	1.310000e-93	353.0
13	TraesCS1A01G437300	chr7A	96.455	818	23	5	2155	2969	16638423	16639237	0.000000e+00	1345.0
14	TraesCS1A01G437300	chr7A	91.941	819	56	6	2155	2969	162762374	162763186	0.000000e+00	1138.0
15	TraesCS1A01G437300	chr3A	92.935	821	48	9	2154	2969	693067824	693068639	0.000000e+00	1186.0
16	TraesCS1A01G437300	chr3A	85.714	133	9	7	727	855	118573779	118573905	6.680000e-27	132.0
17	TraesCS1A01G437300	chr3A	88.660	97	3	5	740	834	691473283	691473373	8.700000e-21	111.0
18	TraesCS1A01G437300	chr5A	92.083	821	54	6	2155	2969	165527152	165526337	0.000000e+00	1146.0
19	TraesCS1A01G437300	chr5A	91.232	844	60	9	2135	2969	702452558	702453396	0.000000e+00	1136.0
20	TraesCS1A01G437300	chr5A	91.707	820	62	5	2154	2969	109632861	109633678	0.000000e+00	1133.0
21	TraesCS1A01G437300	chr5A	85.714	133	9	7	727	855	28653332	28653206	6.680000e-27	132.0
22	TraesCS1A01G437300	chr5A	84.252	127	12	4	731	855	640275595	640275475	1.870000e-22	117.0
23	TraesCS1A01G437300	chr6B	91.839	821	58	6	2154	2969	96678122	96677306	0.000000e+00	1136.0
24	TraesCS1A01G437300	chr6A	91.738	823	58	6	2152	2969	559750653	559749836	0.000000e+00	1134.0
25	TraesCS1A01G437300	chr7B	82.466	365	45	13	972	1334	656419838	656420185	4.810000e-78	302.0
26	TraesCS1A01G437300	chr7B	82.184	348	43	13	972	1317	656286792	656287122	6.270000e-72	281.0
27	TraesCS1A01G437300	chrUn	76.399	661	79	47	691	1313	269772568	269771947	4.840000e-73	285.0
28	TraesCS1A01G437300	chr7D	78.013	473	61	26	862	1313	585666785	585667235	1.060000e-64	257.0
29	TraesCS1A01G437300	chr2A	84.962	133	10	7	727	855	60075770	60075644	3.110000e-25	126.0

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	TraesCS1A01G437300	chr1A	586936591	586939559	2968	False	5483.0	5483	100.000000	1	2969	1	chr1A.!!$F1	2968
1	TraesCS1A01G437300	chr1A	543940017	543940841	824	True	1123.0	1123	91.304000	2147	2969	1	chr1A.!!$R1	822
2	TraesCS1A01G437300	chr1A	586949835	586951312	1477	False	297.5	453	85.472333	728	1974	3	chr1A.!!$F2	1246
3	TraesCS1A01G437300	chr1B	679722205	679723970	1765	False	1023.5	1869	85.573000	237	2117	2	chr1B.!!$F1	1880
4	TraesCS1A01G437300	chr1B	679744802	679746216	1414	False	352.5	398	79.736500	806	1975	2	chr1B.!!$F2	1169
5	TraesCS1A01G437300	chr1D	487909434	487911509	2075	False	1389.5	1759	92.346000	1	2117	2	chr1D.!!$F2	2116
6	TraesCS1A01G437300	chr1D	487948857	487949360	503	False	379.0	379	81.157000	806	1318	1	chr1D.!!$F1	512
7	TraesCS1A01G437300	chr1D	488545291	488545858	567	True	353.0	353	78.808000	731	1313	1	chr1D.!!$R1	582
8	TraesCS1A01G437300	chr7A	16638423	16639237	814	False	1345.0	1345	96.455000	2155	2969	1	chr7A.!!$F1	814
9	TraesCS1A01G437300	chr7A	162762374	162763186	812	False	1138.0	1138	91.941000	2155	2969	1	chr7A.!!$F2	814
10	TraesCS1A01G437300	chr3A	693067824	693068639	815	False	1186.0	1186	92.935000	2154	2969	1	chr3A.!!$F3	815
11	TraesCS1A01G437300	chr5A	165526337	165527152	815	True	1146.0	1146	92.083000	2155	2969	1	chr5A.!!$R2	814
12	TraesCS1A01G437300	chr5A	702452558	702453396	838	False	1136.0	1136	91.232000	2135	2969	1	chr5A.!!$F2	834
13	TraesCS1A01G437300	chr5A	109632861	109633678	817	False	1133.0	1133	91.707000	2154	2969	1	chr5A.!!$F1	815
14	TraesCS1A01G437300	chr6B	96677306	96678122	816	True	1136.0	1136	91.839000	2154	2969	1	chr6B.!!$R1	815
15	TraesCS1A01G437300	chr6A	559749836	559750653	817	True	1134.0	1134	91.738000	2152	2969	1	chr6A.!!$R1	817
16	TraesCS1A01G437300	chrUn	269771947	269772568	621	True	285.0	285	76.399000	691	1313	1	chrUn.!!$R1	622

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
541	546	0.468648	GGGTGCTAGTGACATACCCC	59.531	60.0	0.0	0.0	44.14	4.95	F
1389	1567	0.103937	CCACCGAAGAGATCAGGAGC	59.896	60.0	0.0	0.0	0.00	4.70	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1932	2437	0.251832	TCTGGGAGACGAAGAAGCCT	60.252	55.0	0.0	0.0	0.00	4.58	R
2397	2916	0.409876	AGGCCTCTCATATAGCGGGA	59.590	55.0	0.0	0.0	30.06	5.14	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
42	43	5.069383	TGACAAAGTTAGCTACTGTACACCA	59.931	40.000	0.00	0.00	37.12	4.17
47	48	7.713734	AAGTTAGCTACTGTACACCAAGATA	57.286	36.000	0.00	0.00	37.12	1.98
48	49	7.713734	AGTTAGCTACTGTACACCAAGATAA	57.286	36.000	0.00	0.00	35.19	1.75
107	108	6.073980	GCATGTGGAATCAATGTGATAATTGC	60.074	38.462	0.00	0.00	35.76	3.56
140	141	1.005215	CTTTCAGCTGTGGGGAAGGAT	59.995	52.381	14.67	0.00	0.00	3.24
159	160	7.973048	AAGGATAAAACCTTTTTATCTCCCC	57.027	36.000	21.94	12.04	46.61	4.81
160	161	6.441222	AGGATAAAACCTTTTTATCTCCCCC	58.559	40.000	21.94	11.78	39.86	5.40
211	212	0.739462	TCGAAAATCTGATGGCGCGT	60.739	50.000	8.43	0.00	0.00	6.01
228	229	5.921408	TGGCGCGTGTTTATTCTTTATTTTT	59.079	32.000	8.43	0.00	0.00	1.94
275	276	3.131400	GGGTTTTGCCTTAGTGTGTTTCA	59.869	43.478	0.00	0.00	37.43	2.69
318	321	4.610231	CGAAATGGTTTTGGCATTTTTCCG	60.610	41.667	0.00	0.00	0.00	4.30
325	328	5.050634	GGTTTTGGCATTTTTCCGTAAGAAC	60.051	40.000	0.00	0.00	43.02	3.01
541	546	0.468648	GGGTGCTAGTGACATACCCC	59.531	60.000	0.00	0.00	44.14	4.95
570	575	3.892581	GCCGCACATAGCTTGGCC	61.893	66.667	0.00	0.00	42.05	5.36
639	657	5.048434	CCGAAGCATTCTCCTTTCTTTCTTT	60.048	40.000	0.00	0.00	44.75	2.52
640	658	6.082984	CGAAGCATTCTCCTTTCTTTCTTTC	58.917	40.000	0.00	0.00	44.75	2.62
641	659	6.072783	CGAAGCATTCTCCTTTCTTTCTTTCT	60.073	38.462	0.00	0.00	44.75	2.52
642	660	7.521261	CGAAGCATTCTCCTTTCTTTCTTTCTT	60.521	37.037	0.00	0.00	44.75	2.52
645	663	7.505248	AGCATTCTCCTTTCTTTCTTTCTTTCT	59.495	33.333	0.00	0.00	0.00	2.52
646	664	8.140628	GCATTCTCCTTTCTTTCTTTCTTTCTT	58.859	33.333	0.00	0.00	0.00	2.52
649	667	9.467796	TTCTCCTTTCTTTCTTTCTTTCTTTCT	57.532	29.630	0.00	0.00	0.00	2.52
650	668	9.467796	TCTCCTTTCTTTCTTTCTTTCTTTCTT	57.532	29.630	0.00	0.00	0.00	2.52
651	669	9.729023	CTCCTTTCTTTCTTTCTTTCTTTCTTC	57.271	33.333	0.00	0.00	0.00	2.87
653	671	9.295214	CCTTTCTTTCTTTCTTTCTTTCTTCAC	57.705	33.333	0.00	0.00	0.00	3.18
700	738	1.608425	CCTAAACCTTCCCTCCCCAT	58.392	55.000	0.00	0.00	0.00	4.00
701	739	1.215423	CCTAAACCTTCCCTCCCCATG	59.785	57.143	0.00	0.00	0.00	3.66
773	833	4.277672	TCTTCCTACCTACACGTATGCATC	59.722	45.833	0.19	0.00	0.00	3.91
774	834	2.889045	TCCTACCTACACGTATGCATCC	59.111	50.000	0.19	0.00	0.00	3.51
813	884	5.049405	GGGTTAATTCCATACAGCAATCTCG	60.049	44.000	0.00	0.00	0.00	4.04
825	896	1.208293	GCAATCTCGTCCTTCCTCCTT	59.792	52.381	0.00	0.00	0.00	3.36
826	901	2.740256	GCAATCTCGTCCTTCCTCCTTC	60.740	54.545	0.00	0.00	0.00	3.46
834	909	1.007721	TCCTTCCTCCTTCCTCCTCAG	59.992	57.143	0.00	0.00	0.00	3.35
857	948	2.094675	CCCAAGCTTCGAATCAACCAT	58.905	47.619	0.00	0.00	0.00	3.55
912	1024	1.751349	GCATCATGCCAACCATCCCC	61.751	60.000	0.00	0.00	37.42	4.81
936	1053	2.108952	TCATCTCCCCTCTCGATCATCA	59.891	50.000	0.00	0.00	0.00	3.07
941	1058	1.495878	CCCTCTCGATCATCAAAGCG	58.504	55.000	0.00	0.00	0.00	4.68
997	1157	1.471676	CGATTCCTTGCCTACGCTTCT	60.472	52.381	0.00	0.00	35.36	2.85
1032	1201	3.925630	TACCAAGCAGCAGCAGCCC	62.926	63.158	6.10	0.00	45.49	5.19
1134	1309	1.555075	CTGACGGGATTCAGGAAGGAA	59.445	52.381	0.00	0.00	39.59	3.36
1260	1438	3.064324	GCAACCGCCAGCCTTGAT	61.064	61.111	0.09	0.00	0.00	2.57
1345	1523	4.263572	CCGGTGTGGCCAAGGACA	62.264	66.667	7.24	0.00	36.97	4.02
1346	1524	2.203280	CGGTGTGGCCAAGGACAA	60.203	61.111	7.24	0.00	33.39	3.18
1347	1525	2.260869	CGGTGTGGCCAAGGACAAG	61.261	63.158	7.24	0.00	33.39	3.16
1348	1526	1.903404	GGTGTGGCCAAGGACAAGG	60.903	63.158	7.24	0.00	33.39	3.61
1349	1527	1.150536	GTGTGGCCAAGGACAAGGA	59.849	57.895	7.24	0.00	33.39	3.36
1389	1567	0.103937	CCACCGAAGAGATCAGGAGC	59.896	60.000	0.00	0.00	0.00	4.70
1587	2074	3.637273	GACCAACACCCGAGGCCT	61.637	66.667	3.86	3.86	0.00	5.19
1637	2136	1.738099	CGACACCCGAGAAGCAAGG	60.738	63.158	0.00	0.00	41.76	3.61
1702	2201	3.401032	CTGGAGGACAGGGTTAGGT	57.599	57.895	0.00	0.00	43.70	3.08
1710	2209	1.072505	CAGGGTTAGGTTGTGCGGT	59.927	57.895	0.00	0.00	0.00	5.68
1875	2380	0.889186	AGTGGGCGGACAACACATTC	60.889	55.000	0.00	0.00	37.58	2.67
1932	2437	4.189188	GTCGCCGCCTTCTCGCTA	62.189	66.667	0.00	0.00	0.00	4.26
1973	2478	1.634702	CTCTTCGGTAAGTGAGCAGC	58.365	55.000	0.00	0.00	34.13	5.25
1974	2479	0.966179	TCTTCGGTAAGTGAGCAGCA	59.034	50.000	0.00	0.00	34.13	4.41
1975	2480	1.067565	TCTTCGGTAAGTGAGCAGCAG	60.068	52.381	0.00	0.00	34.13	4.24
1982	2487	1.176619	AAGTGAGCAGCAGCAATGCA	61.177	50.000	8.35	0.00	46.31	3.96
1984	2489	0.802222	GTGAGCAGCAGCAATGCATG	60.802	55.000	8.35	4.32	46.31	4.06
2017	2526	4.202461	ACCATCTCACATACACCAACAGTT	60.202	41.667	0.00	0.00	0.00	3.16
2087	2596	3.815401	AGTGACTCAACAACCATGTAAGC	59.185	43.478	0.00	0.00	39.40	3.09
2091	2600	6.149474	GTGACTCAACAACCATGTAAGCTATT	59.851	38.462	0.00	0.00	39.40	1.73
2092	2601	6.149308	TGACTCAACAACCATGTAAGCTATTG	59.851	38.462	0.00	0.00	39.40	1.90
2097	2610	2.654863	ACCATGTAAGCTATTGGTGGC	58.345	47.619	8.51	0.00	40.87	5.01
2117	2630	4.216042	TGGCATCAATCAAAGTGTGTACAG	59.784	41.667	0.00	0.00	0.00	2.74
2118	2631	4.161333	GCATCAATCAAAGTGTGTACAGC	58.839	43.478	0.00	0.00	0.00	4.40
2119	2632	4.320421	GCATCAATCAAAGTGTGTACAGCA	60.320	41.667	0.00	0.00	0.00	4.41
2120	2633	5.620654	GCATCAATCAAAGTGTGTACAGCAT	60.621	40.000	0.00	0.00	0.00	3.79
2121	2634	5.611796	TCAATCAAAGTGTGTACAGCATC	57.388	39.130	0.00	0.00	0.00	3.91
2122	2635	5.062528	TCAATCAAAGTGTGTACAGCATCA	58.937	37.500	0.00	0.00	0.00	3.07
2123	2636	5.530543	TCAATCAAAGTGTGTACAGCATCAA	59.469	36.000	0.00	0.00	0.00	2.57
2124	2637	6.039159	TCAATCAAAGTGTGTACAGCATCAAA	59.961	34.615	0.00	0.00	0.00	2.69
2125	2638	5.422666	TCAAAGTGTGTACAGCATCAAAG	57.577	39.130	0.00	0.00	0.00	2.77
2126	2639	4.881273	TCAAAGTGTGTACAGCATCAAAGT	59.119	37.500	0.00	0.00	0.00	2.66
2127	2640	6.052360	TCAAAGTGTGTACAGCATCAAAGTA	58.948	36.000	0.00	0.00	0.00	2.24
2128	2641	6.710295	TCAAAGTGTGTACAGCATCAAAGTAT	59.290	34.615	0.00	0.00	0.00	2.12
2129	2642	7.875554	TCAAAGTGTGTACAGCATCAAAGTATA	59.124	33.333	0.00	0.00	0.00	1.47
2130	2643	8.668353	CAAAGTGTGTACAGCATCAAAGTATAT	58.332	33.333	0.00	0.00	0.00	0.86
2131	2644	8.792830	AAGTGTGTACAGCATCAAAGTATATT	57.207	30.769	0.00	0.00	0.00	1.28
2132	2645	8.792830	AGTGTGTACAGCATCAAAGTATATTT	57.207	30.769	0.00	0.00	0.00	1.40
2133	2646	8.668353	AGTGTGTACAGCATCAAAGTATATTTG	58.332	33.333	0.00	0.00	0.00	2.32
2134	2647	8.450964	GTGTGTACAGCATCAAAGTATATTTGT	58.549	33.333	0.00	0.00	0.00	2.83
2135	2648	8.450180	TGTGTACAGCATCAAAGTATATTTGTG	58.550	33.333	0.00	1.03	0.00	3.33
2136	2649	7.910162	GTGTACAGCATCAAAGTATATTTGTGG	59.090	37.037	0.00	0.00	0.00	4.17
2137	2650	7.826744	TGTACAGCATCAAAGTATATTTGTGGA	59.173	33.333	0.00	0.00	0.00	4.02
2138	2651	7.701539	ACAGCATCAAAGTATATTTGTGGAA	57.298	32.000	0.74	0.00	0.00	3.53
2139	2652	7.538575	ACAGCATCAAAGTATATTTGTGGAAC	58.461	34.615	0.74	0.00	37.35	3.62
2284	2802	2.678934	TGACTACGGGCGCTCCTT	60.679	61.111	7.64	3.00	0.00	3.36
2313	2831	1.079405	CGTCACAATACCGCACCCT	60.079	57.895	0.00	0.00	0.00	4.34
2397	2916	5.450137	GCATAGGTTACATCGTGTGTCTACT	60.450	44.000	0.00	1.13	42.29	2.57
2533	3057	5.258456	TCGACACAACTCTAACAAACTCT	57.742	39.130	0.00	0.00	0.00	3.24
2627	3151	1.069204	CACCATGAGCACCGCTACTAT	59.931	52.381	0.00	0.00	39.88	2.12
2740	3266	5.036117	TCTACTTTGTGCTTCCAACTTCT	57.964	39.130	0.00	0.00	0.00	2.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
20	21	5.540400	TGGTGTACAGTAGCTAACTTTGT	57.460	39.130	0.00	0.96	35.76	2.83
71	72	6.839124	TGATTCCACATGCAGAAAAACTAT	57.161	33.333	2.44	0.00	0.00	2.12
107	108	2.818432	AGCTGAAAGAAGGTTCATGCAG	59.182	45.455	0.00	0.00	36.92	4.41
140	141	7.932683	TTTTGGGGGAGATAAAAAGGTTTTA	57.067	32.000	0.00	0.00	0.00	1.52
228	229	7.040478	CCCTTCCAATCATAATAGATTTCGCAA	60.040	37.037	0.00	0.00	36.13	4.85
230	231	6.127897	CCCCTTCCAATCATAATAGATTTCGC	60.128	42.308	0.00	0.00	36.13	4.70
231	232	6.942576	ACCCCTTCCAATCATAATAGATTTCG	59.057	38.462	0.00	0.00	36.13	3.46
318	321	5.329493	GGGCATATTCGTTTGTGTTCTTAC	58.671	41.667	0.00	0.00	0.00	2.34
325	328	1.374560	TCCGGGCATATTCGTTTGTG	58.625	50.000	0.00	0.00	0.00	3.33
395	400	1.747355	CTGGATGTGCATTCTTCCACC	59.253	52.381	7.60	0.00	36.95	4.61
570	575	1.277739	GATGTGCATCATCGTGGCG	59.722	57.895	11.70	0.00	42.57	5.69
639	657	6.715264	GGTAAATGGAGGTGAAGAAAGAAAGA	59.285	38.462	0.00	0.00	0.00	2.52
640	658	6.071896	GGGTAAATGGAGGTGAAGAAAGAAAG	60.072	42.308	0.00	0.00	0.00	2.62
641	659	5.773176	GGGTAAATGGAGGTGAAGAAAGAAA	59.227	40.000	0.00	0.00	0.00	2.52
642	660	5.074515	AGGGTAAATGGAGGTGAAGAAAGAA	59.925	40.000	0.00	0.00	0.00	2.52
645	663	4.263771	GGAGGGTAAATGGAGGTGAAGAAA	60.264	45.833	0.00	0.00	0.00	2.52
646	664	3.265995	GGAGGGTAAATGGAGGTGAAGAA	59.734	47.826	0.00	0.00	0.00	2.52
648	666	2.092375	GGGAGGGTAAATGGAGGTGAAG	60.092	54.545	0.00	0.00	0.00	3.02
649	667	1.920351	GGGAGGGTAAATGGAGGTGAA	59.080	52.381	0.00	0.00	0.00	3.18
650	668	1.591768	GGGAGGGTAAATGGAGGTGA	58.408	55.000	0.00	0.00	0.00	4.02
651	669	0.180406	CGGGAGGGTAAATGGAGGTG	59.820	60.000	0.00	0.00	0.00	4.00
653	671	1.148498	GCGGGAGGGTAAATGGAGG	59.852	63.158	0.00	0.00	0.00	4.30
701	739	4.500116	GAGTCGTGCTCCGCCTCC	62.500	72.222	0.00	0.00	35.59	4.30
708	746	1.448540	CACCCATGGAGTCGTGCTC	60.449	63.158	15.22	2.04	43.39	4.26
709	747	0.902984	TACACCCATGGAGTCGTGCT	60.903	55.000	15.22	6.30	0.00	4.40
783	854	1.129917	TATGGAATTAACCCGGCCGA	58.870	50.000	30.73	6.25	0.00	5.54
813	884	1.273324	TGAGGAGGAAGGAGGAAGGAC	60.273	57.143	0.00	0.00	0.00	3.85
825	896	1.992277	GCTTGGGCTCTGAGGAGGA	60.992	63.158	6.83	0.00	39.80	3.71
826	901	2.588989	GCTTGGGCTCTGAGGAGG	59.411	66.667	6.83	0.00	39.80	4.30
857	948	0.034574	AAGGTGTTGGCATGGCGATA	60.035	50.000	13.07	7.22	0.00	2.92
907	1019	0.491371	GAGGGGAGATGAGAGGGGAT	59.509	60.000	0.00	0.00	0.00	3.85
912	1024	2.224744	TGATCGAGAGGGGAGATGAGAG	60.225	54.545	0.00	0.00	0.00	3.20
936	1053	1.743252	GCTAGCTCTGTGGCGCTTT	60.743	57.895	7.64	0.00	37.68	3.51
941	1058	4.748409	GCTAGCTAGCTCTGTGGC	57.252	61.111	33.71	14.59	45.62	5.01
960	1118	2.743928	GCGTTGGCCTGAGAGTGG	60.744	66.667	3.32	0.00	0.00	4.00
966	1126	2.435938	GGAATCGCGTTGGCCTGA	60.436	61.111	5.77	0.00	35.02	3.86
1014	1174	2.360350	GGCTGCTGCTGCTTGGTA	60.360	61.111	26.79	0.00	40.48	3.25
1134	1309	2.526873	ACCTGCACCCGGAAGTCT	60.527	61.111	0.73	0.00	0.00	3.24
1257	1435	4.889856	CGGCCGGCGATGTCATCA	62.890	66.667	22.54	0.00	0.00	3.07
1307	1485	3.191539	CGGAAGAGGCGAGCTTGC	61.192	66.667	18.32	18.32	0.00	4.01
1377	1555	0.619832	TGGGCTTGCTCCTGATCTCT	60.620	55.000	0.00	0.00	0.00	3.10
1389	1567	2.747855	GCCTCCTTCGTGGGCTTG	60.748	66.667	0.00	0.00	42.31	4.01
1651	2150	1.302832	CTGCCGCCTTGTCCTTCTT	60.303	57.895	0.00	0.00	0.00	2.52
1710	2209	2.636412	CCTCACTTCCTCGCCGTCA	61.636	63.158	0.00	0.00	0.00	4.35
1875	2380	1.996292	TGTTCTTCCTCGCAATCTCG	58.004	50.000	0.00	0.00	0.00	4.04
1932	2437	0.251832	TCTGGGAGACGAAGAAGCCT	60.252	55.000	0.00	0.00	0.00	4.58
1982	2487	1.764723	TGAGATGGTCATCCTTCGCAT	59.235	47.619	7.28	0.00	40.59	4.73
1984	2489	1.134699	TGTGAGATGGTCATCCTTCGC	60.135	52.381	7.28	6.97	41.15	4.70
1986	2491	5.053145	GTGTATGTGAGATGGTCATCCTTC	58.947	45.833	7.28	1.24	37.56	3.46
2017	2526	2.432874	AGCCTGTACATATTACGTGCCA	59.567	45.455	0.00	0.00	0.00	4.92
2064	2573	4.994852	GCTTACATGGTTGTTGAGTCACTA	59.005	41.667	0.00	0.00	37.28	2.74
2065	2574	3.815401	GCTTACATGGTTGTTGAGTCACT	59.185	43.478	0.00	0.00	37.28	3.41
2066	2575	3.815401	AGCTTACATGGTTGTTGAGTCAC	59.185	43.478	0.00	0.00	37.28	3.67
2087	2596	5.105635	ACACTTTGATTGATGCCACCAATAG	60.106	40.000	0.00	0.00	34.67	1.73
2091	2600	2.296752	CACACTTTGATTGATGCCACCA	59.703	45.455	0.00	0.00	0.00	4.17
2092	2601	2.297033	ACACACTTTGATTGATGCCACC	59.703	45.455	0.00	0.00	0.00	4.61
2097	2610	5.361135	TGCTGTACACACTTTGATTGATG	57.639	39.130	0.00	0.00	0.00	3.07
2117	2630	8.931385	ATTGTTCCACAAATATACTTTGATGC	57.069	30.769	11.95	0.00	41.96	3.91
2136	2649	7.681939	TCTAACAAGTGGTATGGAATTGTTC	57.318	36.000	5.01	0.00	41.70	3.18
2137	2650	8.650143	ATTCTAACAAGTGGTATGGAATTGTT	57.350	30.769	0.00	0.00	44.05	2.83
2138	2651	9.747898	TTATTCTAACAAGTGGTATGGAATTGT	57.252	29.630	0.00	0.00	35.70	2.71
2142	2655	9.403583	GGATTTATTCTAACAAGTGGTATGGAA	57.596	33.333	0.00	0.00	0.00	3.53
2143	2656	7.713507	CGGATTTATTCTAACAAGTGGTATGGA	59.286	37.037	0.00	0.00	0.00	3.41
2144	2657	7.713507	TCGGATTTATTCTAACAAGTGGTATGG	59.286	37.037	0.00	0.00	0.00	2.74
2145	2658	8.657074	TCGGATTTATTCTAACAAGTGGTATG	57.343	34.615	0.00	0.00	0.00	2.39
2284	2802	0.690192	ATTGTGACGGTGTCATGGGA	59.310	50.000	2.62	0.00	44.63	4.37
2397	2916	0.409876	AGGCCTCTCATATAGCGGGA	59.590	55.000	0.00	0.00	30.06	5.14
2627	3151	1.902508	GAGTCACATGGAGTCTGGGAA	59.097	52.381	0.00	0.00	41.84	3.97
2740	3266	0.672401	GGCGTTGAACGGATTCTCCA	60.672	55.000	20.01	0.00	42.82	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.