AutoCloner

Multiple sequence alignment - TraesCS6B01G292000

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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	TraesCS6B01G292000	chr6B	100.000	2660	0	0	1	2660	525312649	525315308	0.000000e+00	4913.0
1	TraesCS6B01G292000	chr6B	84.884	602	88	3	1046	1646	79955401	79956000	2.930000e-169	604.0
2	TraesCS6B01G292000	chr6B	84.884	602	88	3	1046	1646	80007920	80008519	2.930000e-169	604.0
3	TraesCS6B01G292000	chr6D	89.061	2130	144	38	4	2105	353101310	353099242	0.000000e+00	2560.0
4	TraesCS6B01G292000	chr6D	88.158	304	32	4	2357	2658	365726160	365725859	2.520000e-95	359.0
5	TraesCS6B01G292000	chr6D	81.694	366	55	10	45	402	303064716	303064355	7.200000e-76	294.0
6	TraesCS6B01G292000	chr6D	82.059	340	44	14	72	402	30278826	30279157	9.380000e-70	274.0
7	TraesCS6B01G292000	chr6D	81.231	325	48	12	45	365	462278213	462278528	1.580000e-62	250.0
8	TraesCS6B01G292000	chr6D	97.222	36	1	0	2012	2047	312136220	312136255	7.950000e-06	62.1
9	TraesCS6B01G292000	chr6A	93.054	1526	76	15	747	2255	489441322	489442834	0.000000e+00	2204.0
10	TraesCS6B01G292000	chr6A	92.180	422	26	4	2241	2660	489443592	489444008	8.200000e-165	590.0
11	TraesCS6B01G292000	chr6A	82.805	599	99	3	1050	1646	46593356	46593952	1.400000e-147	532.0
12	TraesCS6B01G292000	chr6A	89.967	299	26	4	2363	2658	506525858	506525561	1.490000e-102	383.0
13	TraesCS6B01G292000	chr6A	79.396	364	53	20	47	402	32664023	32663674	1.230000e-58	237.0
14	TraesCS6B01G292000	chrUn	84.950	598	86	3	1051	1646	27583036	27582441	1.050000e-168	603.0
15	TraesCS6B01G292000	chrUn	86.101	554	77	0	1093	1646	27607311	27606758	4.900000e-167	597.0
16	TraesCS6B01G292000	chrUn	84.474	599	87	5	1051	1646	334070582	334069987	1.060000e-163	586.0
17	TraesCS6B01G292000	chr7D	79.467	901	137	35	794	1662	22650158	22651042	1.760000e-166	595.0
18	TraesCS6B01G292000	chr7D	89.667	300	27	4	2362	2658	332728305	332728603	1.930000e-101	379.0
19	TraesCS6B01G292000	chr7D	97.222	36	1	0	2012	2047	621646364	621646399	7.950000e-06	62.1
20	TraesCS6B01G292000	chr4A	84.168	619	86	11	1051	1662	705628192	705627579	8.200000e-165	590.0
21	TraesCS6B01G292000	chr1D	89.562	297	28	3	2363	2657	450034360	450034655	8.990000e-100	374.0
22	TraesCS6B01G292000	chr1D	88.040	301	29	7	2363	2658	188538943	188539241	1.520000e-92	350.0
23	TraesCS6B01G292000	chr3D	89.226	297	29	3	2363	2658	262649602	262649308	4.180000e-98	368.0
24	TraesCS6B01G292000	chr5B	88.629	299	31	3	2361	2657	132596780	132596483	7.000000e-96	361.0
25	TraesCS6B01G292000	chr5B	81.293	294	41	12	403	688	4554123	4554410	2.660000e-55	226.0
26	TraesCS6B01G292000	chr2A	87.879	297	32	3	2363	2658	496925362	496925069	1.960000e-91	346.0
27	TraesCS6B01G292000	chr2A	76.395	699	101	34	74	734	13248635	13247963	4.270000e-83	318.0
28	TraesCS6B01G292000	chr7A	76.512	711	109	33	45	718	577829383	577828694	4.240000e-88	335.0
29	TraesCS6B01G292000	chr7A	83.582	335	38	12	74	402	4890065	4890388	5.570000e-77	298.0
30	TraesCS6B01G292000	chr7A	77.812	320	37	15	429	741	122210776	122210484	1.640000e-37	167.0
31	TraesCS6B01G292000	chr4D	82.787	366	49	12	45	402	55234789	55235148	5.530000e-82	315.0
32	TraesCS6B01G292000	chr3A	81.744	367	48	12	45	402	298211086	298210730	3.350000e-74	289.0
33	TraesCS6B01G292000	chr3A	80.405	296	53	5	429	720	674468693	674468399	1.240000e-53	220.0
34	TraesCS6B01G292000	chr3A	79.130	345	51	17	403	734	104114492	104114156	4.460000e-53	219.0
35	TraesCS6B01G292000	chr5A	80.609	361	51	13	46	402	116029620	116029275	7.300000e-66	261.0
36	TraesCS6B01G292000	chr7B	79.751	321	56	6	429	744	64697234	64696918	9.580000e-55	224.0
37	TraesCS6B01G292000	chr7B	97.059	34	1	0	2014	2047	654137554	654137521	1.030000e-04	58.4
38	TraesCS6B01G292000	chr7B	94.444	36	2	0	2012	2047	688588805	688588840	3.700000e-04	56.5
39	TraesCS6B01G292000	chr2B	78.086	324	47	16	437	741	682225593	682225911	1.630000e-42	183.0
40	TraesCS6B01G292000	chr2B	80.233	258	39	8	356	602	752821871	752821615	1.630000e-42	183.0
41	TraesCS6B01G292000	chr1B	94.872	39	2	0	2012	2050	222308870	222308832	7.950000e-06	62.1

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	TraesCS6B01G292000	chr6B	525312649	525315308	2659	False	4913	4913	100.000	1	2660	1	chr6B.!!$F3	2659
1	TraesCS6B01G292000	chr6B	79955401	79956000	599	False	604	604	84.884	1046	1646	1	chr6B.!!$F1	600
2	TraesCS6B01G292000	chr6B	80007920	80008519	599	False	604	604	84.884	1046	1646	1	chr6B.!!$F2	600
3	TraesCS6B01G292000	chr6D	353099242	353101310	2068	True	2560	2560	89.061	4	2105	1	chr6D.!!$R2	2101
4	TraesCS6B01G292000	chr6A	489441322	489444008	2686	False	1397	2204	92.617	747	2660	2	chr6A.!!$F2	1913
5	TraesCS6B01G292000	chr6A	46593356	46593952	596	False	532	532	82.805	1050	1646	1	chr6A.!!$F1	596
6	TraesCS6B01G292000	chrUn	27582441	27583036	595	True	603	603	84.950	1051	1646	1	chrUn.!!$R1	595
7	TraesCS6B01G292000	chrUn	27606758	27607311	553	True	597	597	86.101	1093	1646	1	chrUn.!!$R2	553
8	TraesCS6B01G292000	chrUn	334069987	334070582	595	True	586	586	84.474	1051	1646	1	chrUn.!!$R3	595
9	TraesCS6B01G292000	chr7D	22650158	22651042	884	False	595	595	79.467	794	1662	1	chr7D.!!$F1	868
10	TraesCS6B01G292000	chr4A	705627579	705628192	613	True	590	590	84.168	1051	1662	1	chr4A.!!$R1	611
11	TraesCS6B01G292000	chr2A	13247963	13248635	672	True	318	318	76.395	74	734	1	chr2A.!!$R1	660
12	TraesCS6B01G292000	chr7A	577828694	577829383	689	True	335	335	76.512	45	718	1	chr7A.!!$R2	673

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
35	36	0.036294	GGGACCTCCTATAATGCGCC	60.036	60.0	4.18	0.0	35.95	6.53	F
734	826	0.109964	TTCTAATTGCAACGCACGGC	60.110	50.0	0.00	0.0	38.71	5.68	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1020	1128	0.178533	TGCATCCATCGCAGATGTCA	59.821	50.0	14.50	6.82	45.12	3.58	R
2299	3211	0.388649	GAGCGGCGAGAGAGAAAACA	60.389	55.0	12.98	0.00	0.00	2.83	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
35	36	0.036294	GGGACCTCCTATAATGCGCC	60.036	60.000	4.18	0.00	35.95	6.53
37	38	0.977395	GACCTCCTATAATGCGCCCT	59.023	55.000	4.18	0.00	0.00	5.19
39	40	1.900486	ACCTCCTATAATGCGCCCTAC	59.100	52.381	4.18	0.00	0.00	3.18
53	54	2.579787	CTACGCGCTGGGACTTCG	60.580	66.667	5.73	0.00	0.00	3.79
67	68	5.196341	GGGACTTCGAAAAAGTTCCAAAT	57.804	39.130	8.02	0.00	43.89	2.32
161	165	7.542477	TGTTCGTGATGTTGTAAAAACAATGTT	59.458	29.630	0.00	0.00	33.42	2.71
412	463	9.617523	AAATCATGGATTTAAATTCCACCAATC	57.382	29.630	16.64	0.00	40.00	2.67
449	503	4.500127	TGATTCTAGAAATGTTCGCCGAA	58.500	39.130	9.71	0.00	34.02	4.30
562	631	8.902040	AGATTTTAGAAATTGTTCGAGCATTC	57.098	30.769	1.75	5.15	38.90	2.67
564	633	3.122937	AGAAATTGTTCGAGCATTCGC	57.877	42.857	1.75	0.00	46.28	4.70
581	651	3.247563	TCGCAAAAGTGTTCACGAATC	57.752	42.857	0.00	0.00	0.00	2.52
583	653	4.052608	TCGCAAAAGTGTTCACGAATCTA	58.947	39.130	0.00	0.00	0.00	1.98
665	757	3.939066	TGAGAGTGACAGTGTATCTCGA	58.061	45.455	19.73	11.30	39.39	4.04
670	762	6.292150	AGAGTGACAGTGTATCTCGATGATA	58.708	40.000	16.38	0.00	36.65	2.15
690	782	5.476254	TGATACAGCAAAATGTGGTCATGAA	59.524	36.000	0.00	0.00	35.13	2.57
734	826	0.109964	TTCTAATTGCAACGCACGGC	60.110	50.000	0.00	0.00	38.71	5.68
741	833	2.556287	CAACGCACGGCCTCTTTC	59.444	61.111	0.00	0.00	0.00	2.62
766	858	5.813672	GCCCGTAACAGAAATATACTGAACA	59.186	40.000	14.17	0.00	38.55	3.18
782	874	2.905085	TGAACATACGGACCCAAGGTAA	59.095	45.455	0.00	0.00	35.25	2.85
784	876	1.835531	ACATACGGACCCAAGGTAAGG	59.164	52.381	0.00	0.00	35.25	2.69
894	992	1.464608	CATTGCCTGTTCGATCGTTGT	59.535	47.619	15.94	0.00	0.00	3.32
920	1018	5.630061	CGATCTATACTCTCTCACATGCTG	58.370	45.833	0.00	0.00	0.00	4.41
926	1024	2.570752	ACTCTCTCACATGCTGACCAAT	59.429	45.455	0.00	0.00	0.00	3.16
983	1081	1.153549	GGATCGTGTGTGCTCCTCC	60.154	63.158	0.00	0.00	0.00	4.30
1020	1128	2.668889	AGTGACGACGGCGACTCT	60.669	61.111	22.49	16.10	41.64	3.24
1772	1905	1.555075	TGCTCGCCTCTAGGATTGTTT	59.445	47.619	0.00	0.00	37.39	2.83
1774	1907	3.010420	GCTCGCCTCTAGGATTGTTTTT	58.990	45.455	0.00	0.00	37.39	1.94
1814	1947	4.890158	TTCTGGTACTGCAGATCAGAAA	57.110	40.909	29.56	20.40	45.72	2.52
1959	2096	2.304761	TGGCTCAAACCTAAGTACCCAG	59.695	50.000	0.00	0.00	0.00	4.45
1962	2099	3.600388	CTCAAACCTAAGTACCCAGCTG	58.400	50.000	6.78	6.78	0.00	4.24
2007	2144	9.326413	CACGAGGACAATAAGACCTTTATATTT	57.674	33.333	0.00	0.00	42.62	1.40
2008	2145	9.326413	ACGAGGACAATAAGACCTTTATATTTG	57.674	33.333	0.00	0.00	42.62	2.32
2018	2155	5.129815	AGACCTTTATATTTGCGTACTCCCA	59.870	40.000	0.00	0.00	0.00	4.37
2021	2158	2.234300	ATATTTGCGTACTCCCACCG	57.766	50.000	0.00	0.00	0.00	4.94
2039	2176	3.001939	CACCGTCCCAAAATAAGTATCGC	59.998	47.826	0.00	0.00	0.00	4.58
2047	2184	8.617809	GTCCCAAAATAAGTATCGCTGATTTAA	58.382	33.333	0.00	0.00	37.29	1.52
2125	2265	9.525409	GCTTTCATCTTGATTTGTATTGCTATT	57.475	29.630	0.00	0.00	0.00	1.73
2163	2303	3.200294	TCAACATGTGCACATTTAGCG	57.800	42.857	29.48	19.52	33.61	4.26
2166	2306	1.468520	ACATGTGCACATTTAGCGGTC	59.531	47.619	29.48	0.00	33.61	4.79
2167	2307	1.094785	ATGTGCACATTTAGCGGTCC	58.905	50.000	26.61	0.00	31.37	4.46
2189	2329	2.260434	GTCGCCTTCGCACACCTA	59.740	61.111	0.00	0.00	35.26	3.08
2201	2341	1.881925	GCACACCTAGCACATTCCACA	60.882	52.381	0.00	0.00	0.00	4.17
2205	2345	1.897133	ACCTAGCACATTCCACACGTA	59.103	47.619	0.00	0.00	0.00	3.57
2213	2353	2.299013	ACATTCCACACGTAGAAGCTGA	59.701	45.455	0.00	0.00	0.00	4.26
2218	2358	2.612972	CCACACGTAGAAGCTGACCATT	60.613	50.000	0.00	0.00	0.00	3.16
2219	2359	3.067106	CACACGTAGAAGCTGACCATTT	58.933	45.455	0.00	0.00	0.00	2.32
2224	2364	2.299326	AGAAGCTGACCATTTGCCTT	57.701	45.000	0.00	0.00	0.00	4.35
2255	2395	4.408921	CCCAGGTGAGATGTATGTTCCTTA	59.591	45.833	0.00	0.00	0.00	2.69
2257	2397	6.226787	CCAGGTGAGATGTATGTTCCTTATC	58.773	44.000	0.00	0.00	0.00	1.75
2290	3202	0.529773	GTGTGTGAGCCACTCGTTCA	60.530	55.000	6.83	0.00	44.81	3.18
2296	3208	2.668550	GCCACTCGTTCACACCCC	60.669	66.667	0.00	0.00	0.00	4.95
2299	3211	0.250727	CCACTCGTTCACACCCCATT	60.251	55.000	0.00	0.00	0.00	3.16
2300	3212	0.874390	CACTCGTTCACACCCCATTG	59.126	55.000	0.00	0.00	0.00	2.82
2347	3259	0.110295	CCATTGTCCTCACACCACCA	59.890	55.000	0.00	0.00	29.76	4.17
2349	3261	1.814394	CATTGTCCTCACACCACCATG	59.186	52.381	0.00	0.00	29.76	3.66
2352	3264	0.036010	GTCCTCACACCACCATGGAG	60.036	60.000	21.47	11.19	40.96	3.86
2356	3268	1.278985	CTCACACCACCATGGAGCTAA	59.721	52.381	21.47	0.00	40.96	3.09
2391	3303	4.407296	TGCAACTAATCCCCTGTTTGTTTT	59.593	37.500	0.00	0.00	0.00	2.43
2392	3304	4.749598	GCAACTAATCCCCTGTTTGTTTTG	59.250	41.667	0.00	0.00	0.00	2.44
2393	3305	5.296748	CAACTAATCCCCTGTTTGTTTTGG	58.703	41.667	0.00	0.00	0.00	3.28
2394	3306	4.552674	ACTAATCCCCTGTTTGTTTTGGT	58.447	39.130	0.00	0.00	0.00	3.67
2430	3342	9.616634	CAACATATACATCATTGAACTAATGCC	57.383	33.333	0.00	0.00	44.69	4.40
2451	3364	9.617523	AATGCCTATTCAAAAATTATTTCAGGG	57.382	29.630	0.00	0.00	0.00	4.45
2465	3378	5.921962	ATTTCAGGGAAGTTCATTTAGGC	57.078	39.130	5.01	0.00	0.00	3.93
2467	3380	4.591321	TCAGGGAAGTTCATTTAGGCAT	57.409	40.909	5.01	0.00	0.00	4.40
2490	3403	4.082625	TGGCAATGAGATGTGAATGTGAAC	60.083	41.667	0.00	0.00	0.00	3.18
2492	3405	4.157289	GCAATGAGATGTGAATGTGAACCT	59.843	41.667	0.00	0.00	0.00	3.50
2577	3491	9.904198	TGATCAAAGATCACATTAAGTCCATAA	57.096	29.630	5.63	0.00	0.00	1.90
2594	3508	8.682936	AGTCCATAAGAAAGCCAATACTATTG	57.317	34.615	2.17	2.17	0.00	1.90
2598	3512	9.956720	CCATAAGAAAGCCAATACTATTGAAAG	57.043	33.333	9.97	0.00	0.00	2.62
2606	3520	6.012745	GCCAATACTATTGAAAGGGGATGAT	58.987	40.000	9.97	0.00	0.00	2.45
2618	3532	6.262944	TGAAAGGGGATGATATTTTGATCGTG	59.737	38.462	0.00	0.00	0.00	4.35
2624	3538	6.652481	GGGATGATATTTTGATCGTGAGTCAT	59.348	38.462	0.00	0.00	0.00	3.06
2627	3541	9.941664	GATGATATTTTGATCGTGAGTCATTTT	57.058	29.630	0.00	0.00	0.00	1.82
2652	3566	6.097412	TCTCAAGTGCTTAGAGATATTGCTCA	59.903	38.462	0.00	0.00	37.37	4.26

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	0.982852	TCCCTACTGCATGGGTCTGG	60.983	60.000	16.13	5.02	43.74	3.86
17	18	0.036294	GGGCGCATTATAGGAGGTCC	60.036	60.000	10.83	0.00	0.00	4.46
35	36	2.202756	GAAGTCCCAGCGCGTAGG	60.203	66.667	8.43	10.20	0.00	3.18
37	38	2.144833	TTTCGAAGTCCCAGCGCGTA	62.145	55.000	8.43	0.00	0.00	4.42
39	40	1.837538	TTTTTCGAAGTCCCAGCGCG	61.838	55.000	0.00	0.00	0.00	6.86
393	419	6.790232	TGGAGATTGGTGGAATTTAAATCC	57.210	37.500	0.10	5.58	37.48	3.01
423	474	3.302740	GCGAACATTTCTAGAATCAGCGG	60.303	47.826	5.89	0.00	0.00	5.52
424	475	3.302740	GGCGAACATTTCTAGAATCAGCG	60.303	47.826	5.89	8.19	0.00	5.18
425	476	3.302740	CGGCGAACATTTCTAGAATCAGC	60.303	47.826	5.89	8.56	0.00	4.26
426	477	4.112634	TCGGCGAACATTTCTAGAATCAG	58.887	43.478	7.35	2.10	0.00	2.90
427	478	4.118093	TCGGCGAACATTTCTAGAATCA	57.882	40.909	7.35	0.00	0.00	2.57
537	606	8.902040	GAATGCTCGAACAATTTCTAAAATCT	57.098	30.769	0.00	0.00	0.00	2.40
562	631	3.253371	AGATTCGTGAACACTTTTGCG	57.747	42.857	3.51	0.00	0.00	4.85
636	728	8.753133	AGATACACTGTCACTCTCAATTTCATA	58.247	33.333	0.00	0.00	0.00	2.15
665	757	5.653330	TCATGACCACATTTTGCTGTATCAT	59.347	36.000	0.00	0.00	35.84	2.45
670	762	3.384146	TGTTCATGACCACATTTTGCTGT	59.616	39.130	0.00	0.00	34.15	4.40
718	810	1.917782	GAGGCCGTGCGTTGCAATTA	61.918	55.000	0.59	0.00	41.47	1.40
719	811	3.267597	GAGGCCGTGCGTTGCAATT	62.268	57.895	0.59	0.00	41.47	2.32
720	812	3.737172	GAGGCCGTGCGTTGCAAT	61.737	61.111	0.59	0.00	41.47	3.56
734	826	0.245539	TCTGTTACGGGCGAAAGAGG	59.754	55.000	0.00	0.00	0.00	3.69
741	833	4.613944	TCAGTATATTTCTGTTACGGGCG	58.386	43.478	7.25	0.00	34.86	6.13
766	858	0.835276	GCCTTACCTTGGGTCCGTAT	59.165	55.000	0.00	0.00	37.09	3.06
851	948	1.676746	TCGGATCGGAGTAACAGAGG	58.323	55.000	0.00	0.00	0.00	3.69
894	992	5.352846	GCATGTGAGAGAGTATAGATCGCTA	59.647	44.000	0.00	0.00	0.00	4.26
901	999	4.582240	TGGTCAGCATGTGAGAGAGTATAG	59.418	45.833	0.00	0.00	35.13	1.31
904	1002	2.807676	TGGTCAGCATGTGAGAGAGTA	58.192	47.619	0.00	0.00	35.13	2.59
905	1003	1.637338	TGGTCAGCATGTGAGAGAGT	58.363	50.000	0.00	0.00	35.13	3.24
906	1004	2.756840	TTGGTCAGCATGTGAGAGAG	57.243	50.000	0.00	0.00	35.13	3.20
908	1006	3.340928	TGAATTGGTCAGCATGTGAGAG	58.659	45.455	0.00	0.00	35.13	3.20
920	1018	3.282885	GAGGAATGGGACTGAATTGGTC	58.717	50.000	0.00	0.00	0.00	4.02
926	1024	1.218047	CGCGAGGAATGGGACTGAA	59.782	57.895	0.00	0.00	0.00	3.02
931	1029	1.667154	CTCTGACGCGAGGAATGGGA	61.667	60.000	15.93	0.00	0.00	4.37
983	1081	4.637534	CACTCATCCCTCAAATTGTACTGG	59.362	45.833	0.00	0.00	0.00	4.00
1020	1128	0.178533	TGCATCCATCGCAGATGTCA	59.821	50.000	14.50	6.82	45.12	3.58
1774	1907	5.175859	CAGAATCCTAGACGCACCTAAAAA	58.824	41.667	0.00	0.00	0.00	1.94
1959	2096	5.869344	GTGAAGAAAATAAAACCATCCCAGC	59.131	40.000	0.00	0.00	0.00	4.85
1962	2099	6.262193	TCGTGAAGAAAATAAAACCATCCC	57.738	37.500	0.00	0.00	0.00	3.85
1995	2132	5.235831	GTGGGAGTACGCAAATATAAAGGTC	59.764	44.000	0.00	0.00	40.47	3.85
2007	2144	3.376078	GGACGGTGGGAGTACGCA	61.376	66.667	0.00	0.00	36.64	5.24
2008	2145	4.139234	GGGACGGTGGGAGTACGC	62.139	72.222	0.00	0.00	0.00	4.42
2018	2155	3.118519	AGCGATACTTATTTTGGGACGGT	60.119	43.478	0.00	0.00	0.00	4.83
2021	2158	6.619801	AATCAGCGATACTTATTTTGGGAC	57.380	37.500	0.00	0.00	0.00	4.46
2125	2265	8.962679	ACATGTTGAAAAGGTGTAGTTTTAGAA	58.037	29.630	0.00	0.00	0.00	2.10
2139	2279	5.387649	CGCTAAATGTGCACATGTTGAAAAG	60.388	40.000	31.98	20.38	36.56	2.27
2144	2284	2.252747	CCGCTAAATGTGCACATGTTG	58.747	47.619	31.98	26.76	36.56	3.33
2178	2318	1.438651	GAATGTGCTAGGTGTGCGAA	58.561	50.000	0.00	0.00	0.00	4.70
2182	2322	1.806542	GTGTGGAATGTGCTAGGTGTG	59.193	52.381	0.00	0.00	0.00	3.82
2189	2329	2.688507	CTTCTACGTGTGGAATGTGCT	58.311	47.619	0.00	0.00	29.71	4.40
2201	2341	2.076863	GCAAATGGTCAGCTTCTACGT	58.923	47.619	0.00	0.00	0.00	3.57
2205	2345	1.891150	CAAGGCAAATGGTCAGCTTCT	59.109	47.619	0.00	0.00	0.00	2.85
2213	2353	2.995480	CCCCATCAAGGCAAATGGT	58.005	52.632	10.63	0.00	40.76	3.55
2224	2364	2.863383	ATCTCACCTGGGCCCCATCA	62.863	60.000	22.27	0.00	30.82	3.07
2236	2376	8.738645	AAAAGATAAGGAACATACATCTCACC	57.261	34.615	0.00	0.00	0.00	4.02
2255	2395	2.006888	CACACCGCCGTATGAAAAGAT	58.993	47.619	0.00	0.00	0.00	2.40
2257	2397	1.136085	CACACACCGCCGTATGAAAAG	60.136	52.381	0.00	0.00	0.00	2.27
2290	3202	3.756117	GAGAGAGAAAACAATGGGGTGT	58.244	45.455	0.00	0.00	0.00	4.16
2296	3208	1.201965	GCGGCGAGAGAGAAAACAATG	60.202	52.381	12.98	0.00	0.00	2.82
2299	3211	0.388649	GAGCGGCGAGAGAGAAAACA	60.389	55.000	12.98	0.00	0.00	2.83
2300	3212	1.079317	GGAGCGGCGAGAGAGAAAAC	61.079	60.000	12.98	0.00	0.00	2.43
2352	3264	1.148310	TGCACTTTCAGCGAGTTAGC	58.852	50.000	0.00	0.00	37.41	3.09
2356	3268	2.526304	TAGTTGCACTTTCAGCGAGT	57.474	45.000	0.00	0.00	33.70	4.18
2441	3354	6.951198	TGCCTAAATGAACTTCCCTGAAATAA	59.049	34.615	0.00	0.00	0.00	1.40
2451	3364	4.454728	TTGCCATGCCTAAATGAACTTC	57.545	40.909	0.00	0.00	0.00	3.01
2465	3378	4.097286	TCACATTCACATCTCATTGCCATG	59.903	41.667	0.00	0.00	0.00	3.66
2467	3380	3.688235	TCACATTCACATCTCATTGCCA	58.312	40.909	0.00	0.00	0.00	4.92
2490	3403	3.985925	GCTTTGTTCTTGCATTTGAGAGG	59.014	43.478	0.00	0.00	0.00	3.69
2492	3405	4.652421	TGCTTTGTTCTTGCATTTGAGA	57.348	36.364	0.00	0.00	0.00	3.27
2568	3482	9.125026	CAATAGTATTGGCTTTCTTATGGACTT	57.875	33.333	14.14	0.00	0.00	3.01
2577	3491	5.893824	CCCCTTTCAATAGTATTGGCTTTCT	59.106	40.000	20.25	0.00	0.00	2.52
2594	3508	6.486657	TCACGATCAAAATATCATCCCCTTTC	59.513	38.462	0.00	0.00	0.00	2.62
2598	3512	5.308825	ACTCACGATCAAAATATCATCCCC	58.691	41.667	0.00	0.00	0.00	4.81
2606	3520	8.546597	TGAGAAAATGACTCACGATCAAAATA	57.453	30.769	0.00	0.00	39.10	1.40
2618	3532	6.870965	TCTCTAAGCACTTGAGAAAATGACTC	59.129	38.462	8.93	0.00	34.39	3.36
2624	3538	7.826252	AGCAATATCTCTAAGCACTTGAGAAAA	59.174	33.333	13.03	7.85	39.80	2.29
2627	3541	6.097412	TGAGCAATATCTCTAAGCACTTGAGA	59.903	38.462	12.02	12.02	40.52	3.27

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.