AutoCloner

Multiple sequence alignment - TraesCS3D01G343700

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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	TraesCS3D01G343700	chr3D	100.000	2930	0	0	1	2930	455868636	455871565	0.000000e+00	5411.0
1	TraesCS3D01G343700	chr3D	79.606	559	108	4	1	557	73455557	73455003	2.120000e-106	396.0
2	TraesCS3D01G343700	chr3D	75.062	802	158	34	1087	1873	331657180	331657954	4.680000e-88	335.0
3	TraesCS3D01G343700	chr3D	74.419	817	166	31	1094	1887	482190994	482190198	7.890000e-81	311.0
4	TraesCS3D01G343700	chr3D	74.163	836	163	43	1082	1887	480842433	480843245	6.140000e-77	298.0
5	TraesCS3D01G343700	chr3D	75.989	354	69	14	1571	1919	480376361	480376703	5.020000e-38	169.0
6	TraesCS3D01G343700	chr3B	93.742	1518	55	19	599	2103	602330768	602332258	0.000000e+00	2241.0
7	TraesCS3D01G343700	chr3B	92.922	1540	64	18	584	2097	602351814	602353334	0.000000e+00	2198.0
8	TraesCS3D01G343700	chr3B	94.847	621	23	3	2317	2928	602355779	602356399	0.000000e+00	961.0
9	TraesCS3D01G343700	chr3B	79.501	561	103	9	2	557	712557662	712557109	3.540000e-104	388.0
10	TraesCS3D01G343700	chr3B	74.783	805	155	37	1087	1873	431040208	431040982	4.710000e-83	318.0
11	TraesCS3D01G343700	chr3B	94.681	188	10	0	2137	2324	602353338	602353525	2.860000e-75	292.0
12	TraesCS3D01G343700	chr3B	73.827	810	168	35	1101	1887	644172589	644171801	6.180000e-72	281.0
13	TraesCS3D01G343700	chr3B	87.552	241	24	6	2326	2565	602336144	602336379	1.030000e-69	274.0
14	TraesCS3D01G343700	chr3B	75.365	617	119	27	1082	1678	641660691	641661294	1.730000e-67	267.0
15	TraesCS3D01G343700	chr3B	96.296	54	2	0	2324	2377	602353633	602353686	4.020000e-14	89.8
16	TraesCS3D01G343700	chr3A	93.929	1466	66	11	660	2110	598553062	598554519	0.000000e+00	2193.0
17	TraesCS3D01G343700	chr3A	98.116	584	11	0	2347	2930	598554921	598555504	0.000000e+00	1018.0
18	TraesCS3D01G343700	chr3A	75.561	802	154	31	1087	1873	448701979	448702753	9.990000e-95	357.0
19	TraesCS3D01G343700	chr3A	74.970	823	155	36	1094	1889	625210531	625209733	6.050000e-87	331.0
20	TraesCS3D01G343700	chr3A	74.421	821	162	37	1094	1887	623610120	623610919	2.840000e-80	309.0
21	TraesCS3D01G343700	chr3A	93.878	196	9	1	2132	2324	598554613	598554808	2.860000e-75	292.0
22	TraesCS3D01G343700	chr5B	81.091	550	98	4	1	550	67481487	67482030	4.480000e-118	435.0
23	TraesCS3D01G343700	chr4B	81.413	538	91	6	20	554	508431635	508432166	5.800000e-117	431.0
24	TraesCS3D01G343700	chr1A	80.790	557	99	4	1	557	61356911	61356363	2.090000e-116	429.0
25	TraesCS3D01G343700	chr2D	80.287	558	106	2	1	557	536984823	536984269	4.520000e-113	418.0
26	TraesCS3D01G343700	chr2D	75.793	347	72	9	1322	1665	560399393	560399730	6.500000e-37	165.0
27	TraesCS3D01G343700	chr5A	80.109	548	98	6	1	542	296178309	296178851	5.880000e-107	398.0
28	TraesCS3D01G343700	chr5A	72.150	614	123	38	1093	1679	41373866	41374458	3.040000e-30	143.0
29	TraesCS3D01G343700	chr7B	79.747	553	100	10	10	557	316143468	316142923	9.850000e-105	390.0
30	TraesCS3D01G343700	chr6D	79.464	560	107	7	1	557	49863075	49862521	9.850000e-105	390.0

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	TraesCS3D01G343700	chr3D	455868636	455871565	2929	False	5411.000000	5411	100.000000	1	2930	1	chr3D.!!$F2	2929
1	TraesCS3D01G343700	chr3D	73455003	73455557	554	True	396.000000	396	79.606000	1	557	1	chr3D.!!$R1	556
2	TraesCS3D01G343700	chr3D	331657180	331657954	774	False	335.000000	335	75.062000	1087	1873	1	chr3D.!!$F1	786
3	TraesCS3D01G343700	chr3D	482190198	482190994	796	True	311.000000	311	74.419000	1094	1887	1	chr3D.!!$R2	793
4	TraesCS3D01G343700	chr3D	480842433	480843245	812	False	298.000000	298	74.163000	1082	1887	1	chr3D.!!$F4	805
5	TraesCS3D01G343700	chr3B	602330768	602336379	5611	False	1257.500000	2241	90.647000	599	2565	2	chr3B.!!$F3	1966
6	TraesCS3D01G343700	chr3B	602351814	602356399	4585	False	885.200000	2198	94.686500	584	2928	4	chr3B.!!$F4	2344
7	TraesCS3D01G343700	chr3B	712557109	712557662	553	True	388.000000	388	79.501000	2	557	1	chr3B.!!$R2	555
8	TraesCS3D01G343700	chr3B	431040208	431040982	774	False	318.000000	318	74.783000	1087	1873	1	chr3B.!!$F1	786
9	TraesCS3D01G343700	chr3B	644171801	644172589	788	True	281.000000	281	73.827000	1101	1887	1	chr3B.!!$R1	786
10	TraesCS3D01G343700	chr3B	641660691	641661294	603	False	267.000000	267	75.365000	1082	1678	1	chr3B.!!$F2	596
11	TraesCS3D01G343700	chr3A	598553062	598555504	2442	False	1167.666667	2193	95.307667	660	2930	3	chr3A.!!$F3	2270
12	TraesCS3D01G343700	chr3A	448701979	448702753	774	False	357.000000	357	75.561000	1087	1873	1	chr3A.!!$F1	786
13	TraesCS3D01G343700	chr3A	625209733	625210531	798	True	331.000000	331	74.970000	1094	1889	1	chr3A.!!$R1	795
14	TraesCS3D01G343700	chr3A	623610120	623610919	799	False	309.000000	309	74.421000	1094	1887	1	chr3A.!!$F2	793
15	TraesCS3D01G343700	chr5B	67481487	67482030	543	False	435.000000	435	81.091000	1	550	1	chr5B.!!$F1	549
16	TraesCS3D01G343700	chr4B	508431635	508432166	531	False	431.000000	431	81.413000	20	554	1	chr4B.!!$F1	534
17	TraesCS3D01G343700	chr1A	61356363	61356911	548	True	429.000000	429	80.790000	1	557	1	chr1A.!!$R1	556
18	TraesCS3D01G343700	chr2D	536984269	536984823	554	True	418.000000	418	80.287000	1	557	1	chr2D.!!$R1	556
19	TraesCS3D01G343700	chr5A	296178309	296178851	542	False	398.000000	398	80.109000	1	542	1	chr5A.!!$F2	541
20	TraesCS3D01G343700	chr7B	316142923	316143468	545	True	390.000000	390	79.747000	10	557	1	chr7B.!!$R1	547
21	TraesCS3D01G343700	chr6D	49862521	49863075	554	True	390.000000	390	79.464000	1	557	1	chr6D.!!$R1	556

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
240	244	0.02877	CGTCGCCAAACAGAAAGCAA	59.971	50.0	0.0	0.0	0.0	3.91	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2141	2306	0.789383	GAAAATGACTGGCGCGTTCG	60.789	55.0	8.43	0.0	39.07	3.95	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
18	19	1.562691	TTTGACGACGAGCTTTGCG	59.437	52.632	0.00	0.00	0.00	4.85
41	42	3.266772	AGGGAAATATGCAGGACTTGTGA	59.733	43.478	0.00	0.00	0.00	3.58
88	89	4.521062	GCGCCAGTCCTCATCGCT	62.521	66.667	0.00	0.00	42.19	4.93
90	91	1.299468	CGCCAGTCCTCATCGCTAC	60.299	63.158	0.00	0.00	0.00	3.58
95	97	0.757188	AGTCCTCATCGCTACCTGGG	60.757	60.000	0.00	0.00	0.00	4.45
98	100	1.750930	CTCATCGCTACCTGGGCAT	59.249	57.895	0.00	0.00	0.00	4.40
102	104	1.987807	ATCGCTACCTGGGCATGCTT	61.988	55.000	18.92	0.00	0.00	3.91
117	119	1.739562	GCTTCACCACAGCTCCGAG	60.740	63.158	0.00	0.00	34.15	4.63
133	135	1.676006	CCGAGTTCAAAGCAACCAAGT	59.324	47.619	0.00	0.00	0.00	3.16
150	152	4.475016	ACCAAGTAACCCATAGAAGAGCAT	59.525	41.667	0.00	0.00	0.00	3.79
163	165	1.591703	GAGCATCTCGGACACACCA	59.408	57.895	0.00	0.00	38.90	4.17
192	195	4.124351	CTACCGAAGTCCGCGCCA	62.124	66.667	0.00	0.00	36.84	5.69
196	199	2.586079	CGAAGTCCGCGCCATGAT	60.586	61.111	0.00	0.00	0.00	2.45
237	241	1.135972	CCATCGTCGCCAAACAGAAAG	60.136	52.381	0.00	0.00	0.00	2.62
240	244	0.028770	CGTCGCCAAACAGAAAGCAA	59.971	50.000	0.00	0.00	0.00	3.91
270	280	0.317770	CAGCAAACAACACGGCGAAT	60.318	50.000	16.62	0.00	0.00	3.34
274	284	2.667171	GCAAACAACACGGCGAATATGT	60.667	45.455	16.62	10.21	0.00	2.29
298	309	2.455960	ATCCACCCGTCTCCCAGTCA	62.456	60.000	0.00	0.00	0.00	3.41
308	319	1.689233	TCCCAGTCATAGCCGGCTT	60.689	57.895	37.74	19.80	0.00	4.35
313	324	1.038130	AGTCATAGCCGGCTTCGAGT	61.038	55.000	37.74	28.65	35.61	4.18
314	325	0.666913	GTCATAGCCGGCTTCGAGTA	59.333	55.000	37.74	16.84	35.61	2.59
381	392	5.235305	CGATCCAACGGATTTGAGATTTT	57.765	39.130	0.00	0.00	43.27	1.82
407	418	2.215451	GAGCCAAAGCCATGGGGAGA	62.215	60.000	15.13	0.00	41.01	3.71
408	419	1.075748	GCCAAAGCCATGGGGAGAT	60.076	57.895	15.13	0.00	41.01	2.75
409	420	0.185901	GCCAAAGCCATGGGGAGATA	59.814	55.000	15.13	0.00	41.01	1.98
430	442	2.734591	GAGCACACCTCCACGACA	59.265	61.111	0.00	0.00	34.35	4.35
439	451	0.600255	CCTCCACGACAACGCTTTCT	60.600	55.000	0.00	0.00	43.96	2.52
520	532	1.021390	ATTTCTCCTGGAGTTGCGCG	61.021	55.000	22.50	0.00	0.00	6.86
557	569	2.343758	CCACCGACCACTGACCAG	59.656	66.667	0.00	0.00	0.00	4.00
558	570	2.207229	CCACCGACCACTGACCAGA	61.207	63.158	3.76	0.00	0.00	3.86
559	571	1.544825	CCACCGACCACTGACCAGAT	61.545	60.000	3.76	0.00	0.00	2.90
560	572	0.108615	CACCGACCACTGACCAGATC	60.109	60.000	3.76	0.00	0.00	2.75
561	573	0.251832	ACCGACCACTGACCAGATCT	60.252	55.000	3.76	0.00	0.00	2.75
562	574	0.898320	CCGACCACTGACCAGATCTT	59.102	55.000	3.76	0.00	0.00	2.40
563	575	1.276421	CCGACCACTGACCAGATCTTT	59.724	52.381	3.76	0.00	0.00	2.52
564	576	2.289694	CCGACCACTGACCAGATCTTTT	60.290	50.000	3.76	0.00	0.00	2.27
565	577	2.738846	CGACCACTGACCAGATCTTTTG	59.261	50.000	3.76	0.00	0.00	2.44
566	578	3.554960	CGACCACTGACCAGATCTTTTGA	60.555	47.826	3.76	0.00	0.00	2.69
567	579	4.389374	GACCACTGACCAGATCTTTTGAA	58.611	43.478	3.76	0.00	0.00	2.69
568	580	4.990526	ACCACTGACCAGATCTTTTGAAT	58.009	39.130	3.76	0.00	0.00	2.57
569	581	4.763793	ACCACTGACCAGATCTTTTGAATG	59.236	41.667	3.76	0.00	0.00	2.67
570	582	5.005740	CCACTGACCAGATCTTTTGAATGA	58.994	41.667	3.76	0.00	0.00	2.57
571	583	5.474532	CCACTGACCAGATCTTTTGAATGAA	59.525	40.000	3.76	0.00	0.00	2.57
572	584	6.349115	CCACTGACCAGATCTTTTGAATGAAG	60.349	42.308	3.76	0.00	0.00	3.02
573	585	6.206243	CACTGACCAGATCTTTTGAATGAAGT	59.794	38.462	3.76	0.00	0.00	3.01
574	586	6.206243	ACTGACCAGATCTTTTGAATGAAGTG	59.794	38.462	3.76	0.00	0.00	3.16
575	587	5.474532	TGACCAGATCTTTTGAATGAAGTGG	59.525	40.000	0.00	0.00	0.00	4.00
576	588	5.634118	ACCAGATCTTTTGAATGAAGTGGA	58.366	37.500	0.00	0.00	0.00	4.02
577	589	6.251471	ACCAGATCTTTTGAATGAAGTGGAT	58.749	36.000	0.00	0.00	0.00	3.41
578	590	6.723052	ACCAGATCTTTTGAATGAAGTGGATT	59.277	34.615	0.00	0.00	0.00	3.01
579	591	7.094032	ACCAGATCTTTTGAATGAAGTGGATTC	60.094	37.037	0.00	0.00	38.50	2.52
677	697	4.274147	ACATAACAGATCGAGAGGACTGT	58.726	43.478	0.00	0.00	44.52	3.55
715	735	5.345202	CAGTACAGTGTTTGAACGAGTATCC	59.655	44.000	0.00	0.00	0.00	2.59
886	914	2.640184	CCCAAATTCCTAACGAGACCC	58.360	52.381	0.00	0.00	0.00	4.46
921	952	7.210873	AGTACAGTATAAATCAAGCAGGTAGC	58.789	38.462	0.00	0.00	46.19	3.58
940	971	0.105593	CACAGCAGCGTCCCATATCT	59.894	55.000	0.00	0.00	0.00	1.98
963	994	1.871126	GCAAGAAGCAAGCCCCACTC	61.871	60.000	0.00	0.00	44.79	3.51
972	1010	1.783250	AAGCCCCACTCCCTTGTGAG	61.783	60.000	0.00	0.00	40.12	3.51
989	1027	2.509336	GCGAAAGAGCTAGCCGCA	60.509	61.111	24.25	0.00	44.55	5.69
990	1028	2.520904	GCGAAAGAGCTAGCCGCAG	61.521	63.158	24.25	8.78	44.55	5.18
991	1029	2.520904	CGAAAGAGCTAGCCGCAGC	61.521	63.158	12.13	6.68	42.61	5.25
1036	1076	2.186384	CCAGCAGCTCCTTCTCCG	59.814	66.667	0.00	0.00	0.00	4.63
1038	1078	1.153667	CAGCAGCTCCTTCTCCGTC	60.154	63.158	0.00	0.00	0.00	4.79
1074	1114	1.690845	GCCATCTTCCTCCTCTCCTCA	60.691	57.143	0.00	0.00	0.00	3.86
1077	1117	0.032615	TCTTCCTCCTCTCCTCAGCC	60.033	60.000	0.00	0.00	0.00	4.85
1185	1225	2.094659	CGCCTTCGTCAACATCGCT	61.095	57.895	0.00	0.00	0.00	4.93
1956	2025	1.493950	CGATCTCATTCCTGCACGGC	61.494	60.000	0.00	0.00	0.00	5.68
2070	2143	8.336080	GCGGGATTTATATCGAATAAAAGGATC	58.664	37.037	13.19	8.55	0.00	3.36
2077	2153	9.706691	TTATATCGAATAAAAGGATCTGTCACC	57.293	33.333	0.00	0.00	0.00	4.02
2079	2155	5.419542	TCGAATAAAAGGATCTGTCACCTG	58.580	41.667	0.00	0.00	36.56	4.00
2111	2197	1.801178	GCTGCTGGACTTACAGTCAAC	59.199	52.381	6.25	0.00	46.79	3.18
2276	2779	0.606401	CATGGACCTGTGGCGTCTTT	60.606	55.000	0.00	0.00	0.00	2.52
2324	2827	3.371898	GCAGTTTATTCAATTGGCCAAGC	59.628	43.478	24.94	12.94	0.00	4.01
2344	8421	2.659897	GTGCTATGAGCGGCCTCG	60.660	66.667	0.00	0.00	46.26	4.63
2410	8487	1.973812	GCACCCCAGAAGAGGTTGC	60.974	63.158	0.00	0.00	32.72	4.17
2461	8538	7.559533	AGTTTGCCCATACATACATTGATACAA	59.440	33.333	0.00	0.00	0.00	2.41
2759	8845	2.571212	TCGCAGACTTGTTGAACCAAT	58.429	42.857	0.00	0.00	0.00	3.16
2796	8882	1.005215	CCCTCCAGCTTCAGGTTCATT	59.995	52.381	6.91	0.00	0.00	2.57
2844	8930	3.183775	CGTAAGGAAGGTGTTCAAAGACG	59.816	47.826	0.00	0.00	33.93	4.18
2847	8933	1.594331	GAAGGTGTTCAAAGACGGCT	58.406	50.000	0.00	0.00	32.36	5.52
2892	8978	1.202114	GCAACGGCCTTTTCATGATCA	59.798	47.619	0.00	0.00	0.00	2.92

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
15	16	0.836606	TCCTGCATATTTCCCTCGCA	59.163	50.000	0.00	0.00	0.00	5.10
18	19	3.629398	CACAAGTCCTGCATATTTCCCTC	59.371	47.826	0.00	0.00	0.00	4.30
41	42	4.988716	TCTGGAGGGCACGGTCGT	62.989	66.667	0.00	0.00	0.00	4.34
76	77	0.757188	CCCAGGTAGCGATGAGGACT	60.757	60.000	0.00	0.00	0.00	3.85
80	81	0.602106	CATGCCCAGGTAGCGATGAG	60.602	60.000	0.00	0.00	0.00	2.90
83	84	1.987807	AAGCATGCCCAGGTAGCGAT	61.988	55.000	15.66	0.00	0.00	4.58
88	89	1.302949	GGTGAAGCATGCCCAGGTA	59.697	57.895	15.66	0.00	0.00	3.08
90	91	2.036098	TGGTGAAGCATGCCCAGG	59.964	61.111	15.66	0.00	0.00	4.45
95	97	1.505353	GAGCTGTGGTGAAGCATGC	59.495	57.895	10.51	10.51	43.37	4.06
98	100	2.031012	CGGAGCTGTGGTGAAGCA	59.969	61.111	0.00	0.00	43.37	3.91
102	104	1.112916	TGAACTCGGAGCTGTGGTGA	61.113	55.000	4.58	0.00	0.00	4.02
117	119	3.131400	TGGGTTACTTGGTTGCTTTGAAC	59.869	43.478	0.00	0.00	0.00	3.18
133	135	3.574396	CCGAGATGCTCTTCTATGGGTTA	59.426	47.826	0.00	0.00	0.00	2.85
150	152	0.178973	TCTTCCTGGTGTGTCCGAGA	60.179	55.000	0.00	0.00	39.52	4.04
160	162	1.264295	GGTAGTCGGTTCTTCCTGGT	58.736	55.000	0.00	0.00	0.00	4.00
163	165	1.817447	CTTCGGTAGTCGGTTCTTCCT	59.183	52.381	0.00	0.00	39.77	3.36
187	190	2.550101	GGAGCTTGGATCATGGCGC	61.550	63.158	0.00	0.00	0.00	6.53
192	195	2.079170	TCGAGAGGAGCTTGGATCAT	57.921	50.000	0.00	0.00	0.00	2.45
196	199	1.680522	GGCATCGAGAGGAGCTTGGA	61.681	60.000	0.00	0.00	0.00	3.53
224	228	1.539776	GCGTTGCTTTCTGTTTGGCG	61.540	55.000	0.00	0.00	0.00	5.69
274	284	3.458163	GAGACGGGTGGATGGCGA	61.458	66.667	0.00	0.00	0.00	5.54
298	309	1.542030	CATCTACTCGAAGCCGGCTAT	59.458	52.381	33.07	20.22	36.24	2.97
308	319	1.048724	CCTTGGGGGCATCTACTCGA	61.049	60.000	0.00	0.00	0.00	4.04
313	324	0.400525	CTCCTCCTTGGGGGCATCTA	60.401	60.000	0.00	0.00	36.20	1.98
314	325	1.695597	CTCCTCCTTGGGGGCATCT	60.696	63.158	0.00	0.00	36.20	2.90
430	442	3.927142	CCACGATCTTTCTAGAAAGCGTT	59.073	43.478	31.24	22.41	45.48	4.84
439	451	1.899814	ACAGGTGCCACGATCTTTCTA	59.100	47.619	0.00	0.00	0.00	2.10
476	488	2.125552	CCAGTCTTCATCGGCGCA	60.126	61.111	10.83	0.00	0.00	6.09
479	491	0.391661	TTGCTCCAGTCTTCATCGGC	60.392	55.000	0.00	0.00	0.00	5.54
520	532	3.557290	GGTGGCGATAGGGGGTCC	61.557	72.222	0.00	0.00	0.00	4.46
525	537	3.151710	TGGTCGGTGGCGATAGGG	61.152	66.667	0.00	0.00	0.00	3.53
546	558	4.437682	TTCAAAAGATCTGGTCAGTGGT	57.562	40.909	0.00	0.00	0.00	4.16
568	580	9.898152	AAAGGTTTAAATTTTGAATCCACTTCA	57.102	25.926	0.00	0.00	42.15	3.02
645	658	3.245284	CGATCTGTTATGTTACGGGCTTG	59.755	47.826	0.00	0.00	0.00	4.01
677	697	6.993079	ACACTGTACTGACTTGTTCATATCA	58.007	36.000	6.77	0.00	32.17	2.15
715	735	7.290118	GTTGCTAATTTTAACTGCATGTTTGG	58.710	34.615	6.82	0.00	39.89	3.28
840	868	1.025812	CTCGAGGTAACGCTGGAGAT	58.974	55.000	3.91	0.00	46.39	2.75
841	869	1.030488	CCTCGAGGTAACGCTGGAGA	61.030	60.000	24.04	0.00	46.39	3.71
886	914	5.428496	TTTATACTGTACTCCGGTGATCG	57.572	43.478	11.17	0.00	33.63	3.69
900	931	5.817296	TGTGCTACCTGCTTGATTTATACTG	59.183	40.000	0.00	0.00	43.37	2.74
901	932	5.989477	TGTGCTACCTGCTTGATTTATACT	58.011	37.500	0.00	0.00	43.37	2.12
902	933	5.277538	GCTGTGCTACCTGCTTGATTTATAC	60.278	44.000	0.00	0.00	43.37	1.47
903	934	4.816385	GCTGTGCTACCTGCTTGATTTATA	59.184	41.667	0.00	0.00	43.37	0.98
904	935	3.629398	GCTGTGCTACCTGCTTGATTTAT	59.371	43.478	0.00	0.00	43.37	1.40
921	952	0.105593	AGATATGGGACGCTGCTGTG	59.894	55.000	2.21	2.21	0.00	3.66
922	953	1.704641	TAGATATGGGACGCTGCTGT	58.295	50.000	0.00	0.00	0.00	4.40
940	971	1.256812	GGGGCTTGCTTCTTGCTTTA	58.743	50.000	0.00	0.00	43.37	1.85
960	991	1.001406	CTCTTTCGCTCACAAGGGAGT	59.999	52.381	0.76	0.00	44.35	3.85
963	994	0.321122	AGCTCTTTCGCTCACAAGGG	60.321	55.000	0.00	0.00	34.57	3.95
986	1024	1.137404	GCCATTGTTGGTAGCTGCG	59.863	57.895	0.00	0.00	45.57	5.18
989	1027	1.686115	GGATGGCCATTGTTGGTAGCT	60.686	52.381	21.84	0.00	45.57	3.32
990	1028	0.746659	GGATGGCCATTGTTGGTAGC	59.253	55.000	21.84	2.92	45.57	3.58
991	1029	1.402787	GGGATGGCCATTGTTGGTAG	58.597	55.000	21.84	0.00	45.57	3.18
992	1030	0.395036	CGGGATGGCCATTGTTGGTA	60.395	55.000	21.84	0.00	45.57	3.25
993	1031	1.682005	CGGGATGGCCATTGTTGGT	60.682	57.895	21.84	0.00	45.57	3.67
1185	1225	1.003355	CCCGAAGCTGCAGAGGAAA	60.003	57.895	20.43	0.00	0.00	3.13
1956	2025	4.250305	CGGCTCCCATAACCCGGG	62.250	72.222	22.25	22.25	46.03	5.73
2013	2084	6.509677	GCACAGATAAATTAACTACGCCAGTC	60.510	42.308	0.00	0.00	36.04	3.51
2015	2086	5.556382	CGCACAGATAAATTAACTACGCCAG	60.556	44.000	0.00	0.00	0.00	4.85
2077	2153	1.797046	CAGCAGCAGAACACTGTACAG	59.203	52.381	21.44	21.44	37.47	2.74
2079	2155	1.151668	CCAGCAGCAGAACACTGTAC	58.848	55.000	0.00	0.00	37.47	2.90
2141	2306	0.789383	GAAAATGACTGGCGCGTTCG	60.789	55.000	8.43	0.00	39.07	3.95
2180	2614	3.005539	AGAGTGCCTCGGCCACAT	61.006	61.111	2.24	0.00	41.09	3.21
2249	2752	2.806434	CCACAGGTCCATGAATTCCAA	58.194	47.619	2.27	0.00	0.00	3.53
2276	2779	0.173481	GCAGCATCCTGTACGAGACA	59.827	55.000	0.00	0.00	41.26	3.41
2324	2827	2.590007	GGCCGCTCATAGCACTGG	60.590	66.667	0.00	0.00	42.58	4.00
2344	8421	0.313672	TTGTTCATCGCCAGGCAAAC	59.686	50.000	13.30	10.28	0.00	2.93
2461	8538	6.820656	GTCTTCATGTATTTCACTGTGGATCT	59.179	38.462	8.11	0.00	0.00	2.75
2759	8845	3.454812	GGAGGGATCAGTTGGCTAAGTTA	59.545	47.826	0.00	0.00	0.00	2.24
2844	8930	1.861982	TAGGTGGGTTCTGTAGAGCC	58.138	55.000	6.25	6.25	43.68	4.70
2847	8933	3.967326	CCATGATAGGTGGGTTCTGTAGA	59.033	47.826	0.00	0.00	32.98	2.59
2892	8978	5.505181	TCTACTTTCAGCAAAGAGGGATT	57.495	39.130	3.70	0.00	41.60	3.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.