AutoCloner

Multiple sequence alignment - TraesCS3D01G438600

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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	TraesCS3D01G438600	chr3D	100.000	4138	0	0	1	4138	549375477	549371340	0.000000e+00	7642.0
1	TraesCS3D01G438600	chr3D	72.958	2718	644	78	12	2680	4960126	4957451	0.000000e+00	863.0
2	TraesCS3D01G438600	chr3B	97.599	3499	81	3	3	3499	728812792	728809295	0.000000e+00	5993.0
3	TraesCS3D01G438600	chr3B	73.434	2714	637	71	12	2680	13814348	13817022	0.000000e+00	941.0
4	TraesCS3D01G438600	chr3B	92.617	298	18	4	3485	3780	728809203	728808908	3.820000e-115	425.0
5	TraesCS3D01G438600	chr3B	92.593	243	16	2	3759	4000	728808863	728808622	8.510000e-92	348.0
6	TraesCS3D01G438600	chr3A	97.727	1188	26	1	1136	2323	686728100	686726914	0.000000e+00	2043.0
7	TraesCS3D01G438600	chr3A	95.630	1167	49	2	2319	3484	686725183	686724018	0.000000e+00	1871.0
8	TraesCS3D01G438600	chr3A	95.993	1148	19	14	3	1149	686730518	686729397	0.000000e+00	1840.0
9	TraesCS3D01G438600	chr3A	92.145	331	24	2	3809	4138	686713920	686713591	2.250000e-127	466.0
10	TraesCS3D01G438600	chr3A	91.749	303	22	3	3479	3780	686722532	686722232	6.400000e-113	418.0
11	TraesCS3D01G438600	chr5D	73.592	3143	732	82	23	3118	560010743	560007652	0.000000e+00	1116.0
12	TraesCS3D01G438600	chr5D	75.219	1372	295	36	1767	3120	559960630	559959286	3.540000e-170	608.0
13	TraesCS3D01G438600	chr5D	86.082	194	23	4	3759	3952	541440725	541440536	5.420000e-49	206.0
14	TraesCS3D01G438600	chrUn	73.879	2676	620	70	48	2680	284403506	284400867	0.000000e+00	996.0
15	TraesCS3D01G438600	chrUn	73.879	2676	620	70	48	2680	284410040	284407401	0.000000e+00	996.0
16	TraesCS3D01G438600	chrUn	73.879	2676	620	70	48	2680	302993665	302991026	0.000000e+00	996.0
17	TraesCS3D01G438600	chrUn	73.674	2697	631	73	27	2680	257887972	257885312	0.000000e+00	974.0
18	TraesCS3D01G438600	chrUn	77.027	370	53	16	3759	4104	31590876	31590515	2.540000e-42	183.0
19	TraesCS3D01G438600	chr4A	74.691	2181	490	52	532	2678	604670056	604672208	0.000000e+00	913.0
20	TraesCS3D01G438600	chr4A	75.781	128	31	0	16	143	714099991	714100118	9.600000e-07	65.8
21	TraesCS3D01G438600	chr2B	85.152	330	35	6	3440	3755	791755722	791755393	3.990000e-85	326.0
22	TraesCS3D01G438600	chr2B	84.384	333	38	4	3437	3755	103970587	103970255	8.640000e-82	315.0
23	TraesCS3D01G438600	chr2B	85.052	194	22	5	3759	3952	103970166	103969980	1.520000e-44	191.0
24	TraesCS3D01G438600	chr7B	82.583	333	44	5	3437	3755	35949437	35949769	8.760000e-72	281.0
25	TraesCS3D01G438600	chr7B	83.193	238	38	2	3437	3673	658121732	658121968	2.500000e-52	217.0
26	TraesCS3D01G438600	chr5A	81.639	305	38	11	3468	3755	692257452	692257149	1.920000e-58	237.0
27	TraesCS3D01G438600	chr7A	84.234	222	34	1	3439	3659	497708159	497708380	9.010000e-52	215.0
28	TraesCS3D01G438600	chr7A	82.773	238	38	3	3424	3659	129037683	129037447	4.190000e-50	209.0
29	TraesCS3D01G438600	chr4B	80.620	258	46	4	3417	3673	55590802	55590548	3.260000e-46	196.0
30	TraesCS3D01G438600	chr1A	82.803	157	24	3	3437	3592	578203192	578203346	2.010000e-28	137.0
31	TraesCS3D01G438600	chr6D	83.333	114	19	0	3	116	469067061	469067174	5.660000e-19	106.0
32	TraesCS3D01G438600	chr6A	78.443	167	30	6	3913	4077	135226943	135226781	2.030000e-18	104.0

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	TraesCS3D01G438600	chr3D	549371340	549375477	4137	True	7642.000000	7642	100.000000	1	4138	1	chr3D.!!$R2	4137
1	TraesCS3D01G438600	chr3D	4957451	4960126	2675	True	863.000000	863	72.958000	12	2680	1	chr3D.!!$R1	2668
2	TraesCS3D01G438600	chr3B	728808622	728812792	4170	True	2255.333333	5993	94.269667	3	4000	3	chr3B.!!$R1	3997
3	TraesCS3D01G438600	chr3B	13814348	13817022	2674	False	941.000000	941	73.434000	12	2680	1	chr3B.!!$F1	2668
4	TraesCS3D01G438600	chr3A	686722232	686730518	8286	True	1543.000000	2043	95.274750	3	3780	4	chr3A.!!$R2	3777
5	TraesCS3D01G438600	chr5D	560007652	560010743	3091	True	1116.000000	1116	73.592000	23	3118	1	chr5D.!!$R3	3095
6	TraesCS3D01G438600	chr5D	559959286	559960630	1344	True	608.000000	608	75.219000	1767	3120	1	chr5D.!!$R2	1353
7	TraesCS3D01G438600	chrUn	284400867	284410040	9173	True	996.000000	996	73.879000	48	2680	2	chrUn.!!$R4	2632
8	TraesCS3D01G438600	chrUn	302991026	302993665	2639	True	996.000000	996	73.879000	48	2680	1	chrUn.!!$R3	2632
9	TraesCS3D01G438600	chrUn	257885312	257887972	2660	True	974.000000	974	73.674000	27	2680	1	chrUn.!!$R2	2653
10	TraesCS3D01G438600	chr4A	604670056	604672208	2152	False	913.000000	913	74.691000	532	2678	1	chr4A.!!$F1	2146
11	TraesCS3D01G438600	chr2B	103969980	103970587	607	True	253.000000	315	84.718000	3437	3952	2	chr2B.!!$R2	515

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
269	270	2.102588	GGTTCAATCCCGCTAGAGCTAA	59.897	50.000	0.0	0.0	39.32	3.09	F
1515	9370	3.243234	TGCCACCAAGTTTGTTTCATACG	60.243	43.478	0.0	0.0	0.00	3.06	F
2993	12595	0.466124	GACCTTCTTCTAGCCGCCAT	59.534	55.000	0.0	0.0	0.00	4.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1909	9764	1.013596	CGTGAAGCACCACAAAGACA	58.986	50.000	8.80	0.00	36.89	3.41	R
3008	12610	1.676006	CCCAACTCGAATATTGGCACC	59.324	52.381	14.49	0.00	43.50	5.01	R
4024	15326	2.745821	GGTTTTGTAGAATGGACGGTCC	59.254	50.000	20.36	20.36	36.96	4.46	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	3.498841	CGGATACACCTCTCTATGGACCT	60.499	52.174	0.00	0.00	36.31	3.85
269	270	2.102588	GGTTCAATCCCGCTAGAGCTAA	59.897	50.000	0.00	0.00	39.32	3.09
280	281	4.519730	CCGCTAGAGCTAAGTAACCTGTAT	59.480	45.833	0.00	0.00	39.32	2.29
676	682	8.631480	TCAAAGTTATTTCCTTCTCCCTTAAC	57.369	34.615	0.00	0.00	0.00	2.01
1036	1043	9.045223	TGATGATCCTTGATATTTCAACTAACG	57.955	33.333	0.00	0.00	36.94	3.18
1115	1122	8.562892	CCAATACCTTAGCATCAAGTCAAATAG	58.437	37.037	0.00	0.00	0.00	1.73
1280	9135	6.655078	AAACCAACTTCATAGTGCAATTCT	57.345	33.333	0.00	0.00	34.01	2.40
1515	9370	3.243234	TGCCACCAAGTTTGTTTCATACG	60.243	43.478	0.00	0.00	0.00	3.06
1530	9385	8.405418	TGTTTCATACGGATAGCTTAGTAGAT	57.595	34.615	0.00	0.00	0.00	1.98
1614	9469	8.985315	AACAAATTATTAGCATGGATCTCTCA	57.015	30.769	0.00	0.00	0.00	3.27
1909	9764	3.270433	ACAATCCTTGATGGGGAACTCAT	59.730	43.478	0.00	0.00	36.37	2.90
2165	10023	3.304382	CGCTACAAATAACTTCAGCGG	57.696	47.619	5.91	0.00	45.91	5.52
2279	10137	1.001181	GCTTTTGCAGGGCATCAGAAA	59.999	47.619	0.00	0.00	46.58	2.52
2359	11952	9.778741	GGATACTAAATACATGTTCCAATCTGA	57.221	33.333	2.30	0.00	0.00	3.27
2647	12241	1.135721	CTGTGATCTCTGCGACCATGA	59.864	52.381	0.00	0.00	0.00	3.07
2876	12478	2.992847	TCACTAGAAGGAGACCCACA	57.007	50.000	0.00	0.00	33.88	4.17
2950	12552	1.503542	CCGCTGACCTTGTTCATGC	59.496	57.895	0.00	0.00	0.00	4.06
2993	12595	0.466124	GACCTTCTTCTAGCCGCCAT	59.534	55.000	0.00	0.00	0.00	4.40
3008	12610	2.095059	CCGCCATTTGGAAGTCTTTCTG	60.095	50.000	0.00	0.00	37.39	3.02
3044	12646	1.073897	GGGTTTGCTCTGCTCCTGT	59.926	57.895	0.00	0.00	0.00	4.00
3053	12655	0.113190	TCTGCTCCTGTGACTCTCCA	59.887	55.000	0.00	0.00	0.00	3.86
3204	12806	1.800805	CCGAGAACAACATCAGCTGT	58.199	50.000	14.67	0.00	40.84	4.40
3216	12818	5.466728	CAACATCAGCTGTTACACAGTACTT	59.533	40.000	14.67	0.00	46.43	2.24
3279	12881	9.527157	TTCTATCCATAAACCAAATCTTTGACA	57.473	29.630	4.25	0.00	40.55	3.58
3327	12929	1.600957	CAACACAGAGTGACTTGCTGG	59.399	52.381	3.88	0.00	36.96	4.85
3402	13005	8.480643	TCTGCTAGAACTCTGTATTAAAAAGC	57.519	34.615	0.00	0.00	0.00	3.51
3448	13051	7.187824	TCTTGTGAGCATCTACTAGGAAAAT	57.812	36.000	0.00	0.00	34.92	1.82
3506	14706	4.985044	AGAATGTGGTCGTTAAAAGTCG	57.015	40.909	0.00	0.00	0.00	4.18
3542	14742	1.878211	TGTGGTCATGATAGGCTCCA	58.122	50.000	0.00	0.00	0.00	3.86
3771	15073	9.263446	ACCAGTCTTATTTAGTATCACAACCTA	57.737	33.333	0.00	0.00	0.00	3.08
3875	15177	9.793259	ATTATGAACCAAAAACACTCTCTAGAA	57.207	29.630	0.00	0.00	0.00	2.10
3914	15216	8.380742	TGTTCATCTCTAACTAGAAAAGGGAT	57.619	34.615	0.00	0.00	0.00	3.85
3990	15292	8.887036	TGAGTGCGTATATATCATTCTTTGTT	57.113	30.769	0.00	0.00	0.00	2.83
4003	15305	6.887368	TCATTCTTTGTTGACTACAATGTCG	58.113	36.000	12.83	0.00	45.72	4.35
4004	15306	4.725556	TCTTTGTTGACTACAATGTCGC	57.274	40.909	12.83	0.00	45.72	5.19
4005	15307	4.123506	TCTTTGTTGACTACAATGTCGCA	58.876	39.130	12.83	0.00	45.72	5.10
4006	15308	4.211164	TCTTTGTTGACTACAATGTCGCAG	59.789	41.667	12.83	3.97	45.72	5.18
4007	15309	2.412870	TGTTGACTACAATGTCGCAGG	58.587	47.619	0.00	0.00	39.64	4.85
4008	15310	2.036604	TGTTGACTACAATGTCGCAGGA	59.963	45.455	0.00	0.00	39.64	3.86
4009	15311	3.262420	GTTGACTACAATGTCGCAGGAT	58.738	45.455	0.00	0.00	39.64	3.24
4010	15312	2.892374	TGACTACAATGTCGCAGGATG	58.108	47.619	0.00	0.00	39.64	3.51
4025	15327	3.393800	CAGGATGCTTCTATTACGGTGG	58.606	50.000	0.00	0.00	0.00	4.61
4026	15328	3.069586	CAGGATGCTTCTATTACGGTGGA	59.930	47.826	0.00	0.00	0.00	4.02
4027	15329	3.069729	AGGATGCTTCTATTACGGTGGAC	59.930	47.826	0.00	0.00	0.00	4.02
4028	15330	2.973694	TGCTTCTATTACGGTGGACC	57.026	50.000	0.00	0.00	0.00	4.46
4043	15345	3.773418	TGGACCGTCCATTCTACAAAA	57.227	42.857	16.73	0.00	42.67	2.44
4044	15346	3.404899	TGGACCGTCCATTCTACAAAAC	58.595	45.455	16.73	0.00	42.67	2.43
4045	15347	2.745821	GGACCGTCCATTCTACAAAACC	59.254	50.000	13.05	0.00	36.28	3.27
4046	15348	3.404899	GACCGTCCATTCTACAAAACCA	58.595	45.455	0.00	0.00	0.00	3.67
4047	15349	4.007659	GACCGTCCATTCTACAAAACCAT	58.992	43.478	0.00	0.00	0.00	3.55
4048	15350	5.168647	ACCGTCCATTCTACAAAACCATA	57.831	39.130	0.00	0.00	0.00	2.74
4049	15351	5.562635	ACCGTCCATTCTACAAAACCATAA	58.437	37.500	0.00	0.00	0.00	1.90
4050	15352	6.005198	ACCGTCCATTCTACAAAACCATAAA	58.995	36.000	0.00	0.00	0.00	1.40
4051	15353	6.661805	ACCGTCCATTCTACAAAACCATAAAT	59.338	34.615	0.00	0.00	0.00	1.40
4052	15354	7.830201	ACCGTCCATTCTACAAAACCATAAATA	59.170	33.333	0.00	0.00	0.00	1.40
4053	15355	8.679100	CCGTCCATTCTACAAAACCATAAATAA	58.321	33.333	0.00	0.00	0.00	1.40
4085	15387	9.836864	AAGTGACTACATATAAATGAATGAGCA	57.163	29.630	0.00	0.00	36.54	4.26
4086	15388	9.265901	AGTGACTACATATAAATGAATGAGCAC	57.734	33.333	0.00	0.00	36.54	4.40
4087	15389	9.045223	GTGACTACATATAAATGAATGAGCACA	57.955	33.333	0.00	0.00	36.54	4.57
4088	15390	9.612066	TGACTACATATAAATGAATGAGCACAA	57.388	29.630	0.00	0.00	36.54	3.33
4093	15395	8.752187	ACATATAAATGAATGAGCACAAAAGGT	58.248	29.630	0.00	0.00	36.54	3.50
4096	15398	6.655078	AAATGAATGAGCACAAAAGGTAGT	57.345	33.333	0.00	0.00	0.00	2.73
4097	15399	7.759489	AAATGAATGAGCACAAAAGGTAGTA	57.241	32.000	0.00	0.00	0.00	1.82
4098	15400	6.992063	ATGAATGAGCACAAAAGGTAGTAG	57.008	37.500	0.00	0.00	0.00	2.57
4099	15401	4.695455	TGAATGAGCACAAAAGGTAGTAGC	59.305	41.667	0.00	0.00	0.00	3.58
4100	15402	3.762407	TGAGCACAAAAGGTAGTAGCA	57.238	42.857	1.58	0.00	0.00	3.49
4101	15403	4.286297	TGAGCACAAAAGGTAGTAGCAT	57.714	40.909	1.58	0.00	0.00	3.79
4102	15404	5.414789	TGAGCACAAAAGGTAGTAGCATA	57.585	39.130	1.58	0.00	0.00	3.14
4103	15405	5.989477	TGAGCACAAAAGGTAGTAGCATAT	58.011	37.500	1.58	0.00	0.00	1.78
4104	15406	5.817296	TGAGCACAAAAGGTAGTAGCATATG	59.183	40.000	0.00	0.00	0.00	1.78
4105	15407	5.989477	AGCACAAAAGGTAGTAGCATATGA	58.011	37.500	6.97	0.00	0.00	2.15
4106	15408	6.414732	AGCACAAAAGGTAGTAGCATATGAA	58.585	36.000	6.97	0.00	0.00	2.57
4107	15409	7.056635	AGCACAAAAGGTAGTAGCATATGAAT	58.943	34.615	6.97	0.00	0.00	2.57
4108	15410	7.557719	AGCACAAAAGGTAGTAGCATATGAATT	59.442	33.333	6.97	0.00	0.00	2.17
4109	15411	7.857885	GCACAAAAGGTAGTAGCATATGAATTC	59.142	37.037	6.97	0.00	0.00	2.17
4110	15412	8.892723	CACAAAAGGTAGTAGCATATGAATTCA	58.107	33.333	11.26	11.26	0.00	2.57
4111	15413	9.632638	ACAAAAGGTAGTAGCATATGAATTCAT	57.367	29.630	23.75	23.75	40.22	2.57
4112	15414	9.888878	CAAAAGGTAGTAGCATATGAATTCATG	57.111	33.333	27.59	16.42	37.15	3.07
4113	15415	9.632638	AAAAGGTAGTAGCATATGAATTCATGT	57.367	29.630	27.59	19.97	37.15	3.21
4114	15416	9.632638	AAAGGTAGTAGCATATGAATTCATGTT	57.367	29.630	27.59	15.60	37.15	2.71
4115	15417	9.632638	AAGGTAGTAGCATATGAATTCATGTTT	57.367	29.630	27.59	15.17	37.15	2.83
4116	15418	9.632638	AGGTAGTAGCATATGAATTCATGTTTT	57.367	29.630	27.59	14.87	37.15	2.43
4121	15423	9.683069	GTAGCATATGAATTCATGTTTTTAGGG	57.317	33.333	27.59	10.69	37.15	3.53
4122	15424	8.310122	AGCATATGAATTCATGTTTTTAGGGT	57.690	30.769	27.59	12.94	37.15	4.34
4123	15425	9.420118	AGCATATGAATTCATGTTTTTAGGGTA	57.580	29.630	27.59	6.41	37.15	3.69

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
37	38	2.756760	GTTACCGAGGTGAGGTGTGATA	59.243	50.000	4.80	0.00	42.83	2.15
676	682	1.270550	GGCACAACACCCTCAAATGAG	59.729	52.381	3.37	3.37	41.71	2.90
1036	1043	2.505819	AGTTGACATCCCCATGTAGGTC	59.494	50.000	0.00	0.00	43.79	3.85
1115	1122	3.828657	GGGAGACTACCCGTGAAAC	57.171	57.895	0.00	0.00	40.49	2.78
1909	9764	1.013596	CGTGAAGCACCACAAAGACA	58.986	50.000	8.80	0.00	36.89	3.41
1969	9824	8.887036	ACTACAAATTTCAAAATTCCACCTTC	57.113	30.769	1.43	0.00	37.62	3.46
2165	10023	1.824852	CATACCCCAAAAGGTTGCTCC	59.175	52.381	0.00	0.00	41.58	4.70
2279	10137	1.609061	CCTGACACTCGGCATCAAAGT	60.609	52.381	0.00	0.00	0.00	2.66
2374	11967	2.512692	TTGGGCATGTACTGAAGCAT	57.487	45.000	0.00	0.00	0.00	3.79
2647	12241	2.291540	CCATGTACCCAACTGTCCCATT	60.292	50.000	0.00	0.00	0.00	3.16
2876	12478	6.117975	AGATTCCCAACAAAAATTGCATCT	57.882	33.333	0.00	0.00	0.00	2.90
2950	12552	1.871408	GCAGTAGATCGCCATCCACAG	60.871	57.143	0.00	0.00	0.00	3.66
2993	12595	2.306847	GGCACCAGAAAGACTTCCAAA	58.693	47.619	0.00	0.00	31.28	3.28
3008	12610	1.676006	CCCAACTCGAATATTGGCACC	59.324	52.381	14.49	0.00	43.50	5.01
3044	12646	2.398754	TCCTTTGGTCTGGAGAGTCA	57.601	50.000	0.00	0.00	0.00	3.41
3053	12655	3.430374	CCGTCATCGTTATCCTTTGGTCT	60.430	47.826	0.00	0.00	35.01	3.85
3279	12881	7.602265	ACAGTGCAAAAACTTTAAAACATCACT	59.398	29.630	0.00	0.00	0.00	3.41
3327	12929	8.669946	AAATTAGATAGCTAGCAAGAAGGAAC	57.330	34.615	18.83	0.00	0.00	3.62
3429	13032	9.466497	AAAAATCATTTTCCTAGTAGATGCTCA	57.534	29.630	0.00	0.00	33.48	4.26
3448	13051	9.906660	GACCACATATCTTGTTGTTAAAAATCA	57.093	29.630	0.00	0.00	34.53	2.57
3459	13062	7.739498	ACTTTTAACGACCACATATCTTGTT	57.261	32.000	0.00	0.00	36.00	2.83
3875	15177	6.306987	AGAGATGAACAACTACAATGGGTTT	58.693	36.000	0.00	0.00	0.00	3.27
3911	15213	8.026607	TGACCGAAGATTATGAAAACAAAATCC	58.973	33.333	0.00	0.00	0.00	3.01
3914	15216	7.812191	CCATGACCGAAGATTATGAAAACAAAA	59.188	33.333	0.00	0.00	0.00	2.44
3990	15292	2.892374	CATCCTGCGACATTGTAGTCA	58.108	47.619	0.00	0.00	38.43	3.41
4003	15305	2.802816	CACCGTAATAGAAGCATCCTGC	59.197	50.000	0.00	0.00	45.46	4.85
4004	15306	3.069586	TCCACCGTAATAGAAGCATCCTG	59.930	47.826	0.00	0.00	0.00	3.86
4005	15307	3.069729	GTCCACCGTAATAGAAGCATCCT	59.930	47.826	0.00	0.00	0.00	3.24
4006	15308	3.391049	GTCCACCGTAATAGAAGCATCC	58.609	50.000	0.00	0.00	0.00	3.51
4007	15309	3.391049	GGTCCACCGTAATAGAAGCATC	58.609	50.000	0.00	0.00	0.00	3.91
4008	15310	3.470645	GGTCCACCGTAATAGAAGCAT	57.529	47.619	0.00	0.00	0.00	3.79
4009	15311	2.973694	GGTCCACCGTAATAGAAGCA	57.026	50.000	0.00	0.00	0.00	3.91
4024	15326	2.745821	GGTTTTGTAGAATGGACGGTCC	59.254	50.000	20.36	20.36	36.96	4.46
4025	15327	3.404899	TGGTTTTGTAGAATGGACGGTC	58.595	45.455	0.00	0.00	0.00	4.79
4026	15328	3.495434	TGGTTTTGTAGAATGGACGGT	57.505	42.857	0.00	0.00	0.00	4.83
4027	15329	6.503589	TTTATGGTTTTGTAGAATGGACGG	57.496	37.500	0.00	0.00	0.00	4.79
4059	15361	9.836864	TGCTCATTCATTTATATGTAGTCACTT	57.163	29.630	0.00	0.00	33.34	3.16
4060	15362	9.265901	GTGCTCATTCATTTATATGTAGTCACT	57.734	33.333	0.00	0.00	33.34	3.41
4061	15363	9.045223	TGTGCTCATTCATTTATATGTAGTCAC	57.955	33.333	0.00	0.00	33.34	3.67
4062	15364	9.612066	TTGTGCTCATTCATTTATATGTAGTCA	57.388	29.630	0.00	0.00	33.34	3.41
4067	15369	8.752187	ACCTTTTGTGCTCATTCATTTATATGT	58.248	29.630	0.00	0.00	33.34	2.29
4070	15372	9.461312	ACTACCTTTTGTGCTCATTCATTTATA	57.539	29.630	0.00	0.00	0.00	0.98
4071	15373	8.353423	ACTACCTTTTGTGCTCATTCATTTAT	57.647	30.769	0.00	0.00	0.00	1.40
4072	15374	7.759489	ACTACCTTTTGTGCTCATTCATTTA	57.241	32.000	0.00	0.00	0.00	1.40
4073	15375	6.655078	ACTACCTTTTGTGCTCATTCATTT	57.345	33.333	0.00	0.00	0.00	2.32
4074	15376	6.127897	GCTACTACCTTTTGTGCTCATTCATT	60.128	38.462	0.00	0.00	0.00	2.57
4075	15377	5.355350	GCTACTACCTTTTGTGCTCATTCAT	59.645	40.000	0.00	0.00	0.00	2.57
4076	15378	4.695455	GCTACTACCTTTTGTGCTCATTCA	59.305	41.667	0.00	0.00	0.00	2.57
4077	15379	4.695455	TGCTACTACCTTTTGTGCTCATTC	59.305	41.667	0.00	0.00	0.00	2.67
4078	15380	4.651778	TGCTACTACCTTTTGTGCTCATT	58.348	39.130	0.00	0.00	0.00	2.57
4079	15381	4.286297	TGCTACTACCTTTTGTGCTCAT	57.714	40.909	0.00	0.00	0.00	2.90
4080	15382	3.762407	TGCTACTACCTTTTGTGCTCA	57.238	42.857	0.00	0.00	0.00	4.26
4081	15383	6.049149	TCATATGCTACTACCTTTTGTGCTC	58.951	40.000	0.00	0.00	0.00	4.26
4082	15384	5.989477	TCATATGCTACTACCTTTTGTGCT	58.011	37.500	0.00	0.00	0.00	4.40
4083	15385	6.677781	TTCATATGCTACTACCTTTTGTGC	57.322	37.500	0.00	0.00	0.00	4.57
4084	15386	8.892723	TGAATTCATATGCTACTACCTTTTGTG	58.107	33.333	3.38	0.00	0.00	3.33
4085	15387	9.632638	ATGAATTCATATGCTACTACCTTTTGT	57.367	29.630	19.42	0.00	34.26	2.83
4086	15388	9.888878	CATGAATTCATATGCTACTACCTTTTG	57.111	33.333	20.32	0.28	34.26	2.44
4087	15389	9.632638	ACATGAATTCATATGCTACTACCTTTT	57.367	29.630	20.32	0.00	34.26	2.27
4088	15390	9.632638	AACATGAATTCATATGCTACTACCTTT	57.367	29.630	20.32	0.00	34.26	3.11
4089	15391	9.632638	AAACATGAATTCATATGCTACTACCTT	57.367	29.630	20.32	0.00	34.26	3.50
4090	15392	9.632638	AAAACATGAATTCATATGCTACTACCT	57.367	29.630	20.32	0.00	34.26	3.08
4095	15397	9.683069	CCCTAAAAACATGAATTCATATGCTAC	57.317	33.333	20.32	0.00	34.26	3.58
4096	15398	9.420118	ACCCTAAAAACATGAATTCATATGCTA	57.580	29.630	20.32	8.06	34.26	3.49
4097	15399	8.310122	ACCCTAAAAACATGAATTCATATGCT	57.690	30.769	20.32	7.38	34.26	3.79

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.