AutoCloner

Multiple sequence alignment - TraesCS3D01G029200

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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	TraesCS3D01G029200	chr3D	100.000	2979	0	0	1	2979	10565516	10568494	0.000000e+00	5502.0
1	TraesCS3D01G029200	chr3D	95.329	1777	61	21	749	2508	10390242	10388471	0.000000e+00	2802.0
2	TraesCS3D01G029200	chr3D	96.935	522	16	0	1	522	10390916	10390395	0.000000e+00	876.0
3	TraesCS3D01G029200	chr3D	96.479	142	4	1	557	697	10390393	10390252	1.790000e-57	233.0
4	TraesCS3D01G029200	chr3D	86.628	172	18	5	157	326	373615928	373615760	5.070000e-43	185.0
5	TraesCS3D01G029200	chr3B	91.062	1130	83	11	1389	2508	15048296	15049417	0.000000e+00	1511.0
6	TraesCS3D01G029200	chr3B	87.351	925	93	16	1087	1999	26595707	26594795	0.000000e+00	1038.0
7	TraesCS3D01G029200	chr3B	88.758	596	55	6	1302	1891	26781515	26782104	0.000000e+00	719.0
8	TraesCS3D01G029200	chr3B	78.901	455	48	24	1916	2330	26785807	26786253	6.330000e-67	265.0
9	TraesCS3D01G029200	chr3B	87.719	228	17	8	2509	2729	15049448	15049671	3.810000e-64	255.0
10	TraesCS3D01G029200	chr3B	89.552	201	16	2	2526	2726	26786586	26786781	1.770000e-62	250.0
11	TraesCS3D01G029200	chr3B	94.656	131	7	0	2849	2979	15049799	15049929	1.400000e-48	204.0
12	TraesCS3D01G029200	chr3B	83.406	229	21	11	2283	2508	26593597	26593383	2.340000e-46	196.0
13	TraesCS3D01G029200	chr3B	88.889	162	12	3	2509	2667	26593352	26593194	8.430000e-46	195.0
14	TraesCS3D01G029200	chr3B	92.366	131	10	0	2849	2979	26593068	26592938	1.410000e-43	187.0
15	TraesCS3D01G029200	chr3B	86.628	172	20	3	157	326	186875259	186875429	1.410000e-43	187.0
16	TraesCS3D01G029200	chr3B	77.429	319	44	18	979	1271	26780967	26781283	6.610000e-37	165.0
17	TraesCS3D01G029200	chr3B	93.578	109	5	1	861	969	15046507	15046613	8.550000e-36	161.0
18	TraesCS3D01G029200	chr3B	91.743	109	9	0	2745	2853	26786760	26786868	5.140000e-33	152.0
19	TraesCS3D01G029200	chr3B	88.496	113	10	2	526	638	26780507	26780616	1.860000e-27	134.0
20	TraesCS3D01G029200	chr3B	94.937	79	4	0	978	1056	26595783	26595705	1.120000e-24	124.0
21	TraesCS3D01G029200	chr3B	89.000	100	9	2	2755	2853	15049665	15049763	4.030000e-24	122.0
22	TraesCS3D01G029200	chr3B	79.070	215	17	9	2072	2281	26594793	26594602	4.030000e-24	122.0
23	TraesCS3D01G029200	chr3B	100.000	31	0	0	393	423	266498157	266498127	1.150000e-04	58.4
24	TraesCS3D01G029200	chr3A	89.966	887	55	13	1364	2236	17689130	17688264	0.000000e+00	1114.0
25	TraesCS3D01G029200	chr3A	89.899	297	28	2	984	1278	17689696	17689400	6.030000e-102	381.0
26	TraesCS3D01G029200	chr3A	89.308	159	17	0	168	326	393811408	393811566	1.810000e-47	200.0
27	TraesCS3D01G029200	chr3A	93.893	131	8	0	2849	2979	17687711	17687581	6.510000e-47	198.0
28	TraesCS3D01G029200	chr3A	79.556	225	26	10	752	956	17690299	17690075	3.100000e-30	143.0
29	TraesCS3D01G029200	chr3A	100.000	31	0	0	392	422	410589473	410589443	1.150000e-04	58.4
30	TraesCS3D01G029200	chr6A	88.439	173	19	1	155	326	514704872	514705044	1.080000e-49	207.0
31	TraesCS3D01G029200	chr1D	86.857	175	21	2	153	326	451388334	451388507	8.430000e-46	195.0
32	TraesCS3D01G029200	chr6B	86.628	172	20	3	157	326	364557572	364557402	1.410000e-43	187.0
33	TraesCS3D01G029200	chr5B	86.047	172	21	3	157	326	223585553	223585723	6.560000e-42	182.0
34	TraesCS3D01G029200	chr4B	86.047	172	21	3	157	326	170677663	170677493	6.560000e-42	182.0
35	TraesCS3D01G029200	chr7D	100.000	31	0	0	393	423	106715449	106715479	1.150000e-04	58.4
36	TraesCS3D01G029200	chr7D	100.000	31	0	0	392	422	427643962	427643992	1.150000e-04	58.4
37	TraesCS3D01G029200	chr7B	97.059	34	1	0	392	425	140467266	140467233	1.150000e-04	58.4
38	TraesCS3D01G029200	chr4D	100.000	31	0	0	392	422	42733718	42733748	1.150000e-04	58.4
39	TraesCS3D01G029200	chr4A	100.000	31	0	0	392	422	213746581	213746551	1.150000e-04	58.4
40	TraesCS3D01G029200	chr1B	100.000	31	0	0	393	423	663421608	663421638	1.150000e-04	58.4

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	TraesCS3D01G029200	chr3D	10565516	10568494	2978	False	5502.000000	5502	100.000000	1	2979	1	chr3D.!!$F1	2978
1	TraesCS3D01G029200	chr3D	10388471	10390916	2445	True	1303.666667	2802	96.247667	1	2508	3	chr3D.!!$R2	2507
2	TraesCS3D01G029200	chr3B	15046507	15049929	3422	False	450.600000	1511	91.203000	861	2979	5	chr3B.!!$F2	2118
3	TraesCS3D01G029200	chr3B	26592938	26595783	2845	True	310.333333	1038	87.669833	978	2979	6	chr3B.!!$R2	2001
4	TraesCS3D01G029200	chr3B	26780507	26786868	6361	False	280.833333	719	85.813167	526	2853	6	chr3B.!!$F3	2327
5	TraesCS3D01G029200	chr3A	17687581	17690299	2718	True	459.000000	1114	88.328500	752	2979	4	chr3A.!!$R2	2227

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
529	530	0.034574	TGACACCAAACTGCACACCT	60.035	50.0	0.0	0.0	0.0	4.0	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2344	9197	1.305219	TTTGCTGGCATGAGCGGTAC	61.305	55.0	0.0	0.0	42.32	3.34	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
84	85	2.588877	CTATGGGCAGCCGGTTCG	60.589	66.667	5.00	0.00	0.00	3.95
93	94	4.424566	GCCGGTTCGTCCTGCGTA	62.425	66.667	1.90	0.00	42.13	4.42
103	104	1.711206	GTCCTGCGTAACCAGTCTTC	58.289	55.000	0.00	0.00	0.00	2.87
107	108	0.388134	TGCGTAACCAGTCTTCGAGC	60.388	55.000	0.00	0.00	0.00	5.03
115	116	2.266554	CCAGTCTTCGAGCAGATTGAC	58.733	52.381	10.30	3.02	33.39	3.18
122	123	0.043566	CGAGCAGATTGACGAATGCG	60.044	55.000	0.00	0.00	43.41	4.73
188	189	1.683938	CCGGGTTTATTGGTCCCCTTC	60.684	57.143	0.00	0.00	38.09	3.46
213	214	6.456718	CGCATTTTGTGACAAATTTTGACCTT	60.457	34.615	11.97	0.00	0.00	3.50
217	218	9.883142	ATTTTGTGACAAATTTTGACCTTAGAA	57.117	25.926	11.97	3.39	0.00	2.10
290	291	8.561738	AACTATGTTCAAATACGAATCCAGTT	57.438	30.769	0.00	0.00	0.00	3.16
522	523	6.486657	TCTTCTTTTAGGATGACACCAAACTG	59.513	38.462	0.00	0.00	0.00	3.16
523	524	4.518970	TCTTTTAGGATGACACCAAACTGC	59.481	41.667	0.00	0.00	0.00	4.40
524	525	3.500448	TTAGGATGACACCAAACTGCA	57.500	42.857	0.00	0.00	0.00	4.41
525	526	1.609208	AGGATGACACCAAACTGCAC	58.391	50.000	0.00	0.00	0.00	4.57
526	527	1.133823	AGGATGACACCAAACTGCACA	60.134	47.619	0.00	0.00	0.00	4.57
527	528	1.001378	GGATGACACCAAACTGCACAC	60.001	52.381	0.00	0.00	0.00	3.82
528	529	1.001378	GATGACACCAAACTGCACACC	60.001	52.381	0.00	0.00	0.00	4.16
529	530	0.034574	TGACACCAAACTGCACACCT	60.035	50.000	0.00	0.00	0.00	4.00
535	536	2.238521	CCAAACTGCACACCTACCAAT	58.761	47.619	0.00	0.00	0.00	3.16
555	556	1.617018	TTCCATGCTCCGGAGTCTGG	61.617	60.000	32.46	32.46	35.10	3.86
601	602	5.164031	CGGAAGTCGAAACAAACGATCAATA	60.164	40.000	0.00	0.00	41.62	1.90
679	680	6.795098	TGTACATTTGCGATTTGTAAGTCT	57.205	33.333	0.00	0.00	0.00	3.24
691	692	6.955963	CGATTTGTAAGTCTCTTGAAATTCCG	59.044	38.462	0.00	0.00	0.00	4.30
712	713	0.468214	TGGGCGGTGGTTGAATTTCA	60.468	50.000	0.00	0.00	0.00	2.69
714	715	0.671251	GGCGGTGGTTGAATTTCACA	59.329	50.000	0.00	0.00	33.45	3.58
715	716	1.272212	GGCGGTGGTTGAATTTCACAT	59.728	47.619	0.00	0.00	33.45	3.21
728	729	9.003658	GTTGAATTTCACATAGAAGAAGAAGGA	57.996	33.333	0.00	0.00	37.57	3.36
736	737	5.656416	ACATAGAAGAAGAAGGAGAGGACTG	59.344	44.000	0.00	0.00	0.00	3.51
737	738	4.396357	AGAAGAAGAAGGAGAGGACTGA	57.604	45.455	0.00	0.00	0.00	3.41
738	739	4.746466	AGAAGAAGAAGGAGAGGACTGAA	58.254	43.478	0.00	0.00	0.00	3.02
739	740	4.526650	AGAAGAAGAAGGAGAGGACTGAAC	59.473	45.833	0.00	0.00	0.00	3.18
740	741	3.169908	AGAAGAAGGAGAGGACTGAACC	58.830	50.000	0.00	0.00	0.00	3.62
741	742	3.169908	GAAGAAGGAGAGGACTGAACCT	58.830	50.000	0.00	0.00	43.64	3.50
743	744	4.405756	AGAAGGAGAGGACTGAACCTTA	57.594	45.455	0.00	0.00	40.42	2.69
744	745	4.753186	AGAAGGAGAGGACTGAACCTTAA	58.247	43.478	0.00	0.00	40.42	1.85
745	746	5.155905	AGAAGGAGAGGACTGAACCTTAAA	58.844	41.667	0.00	0.00	40.42	1.52
746	747	5.607171	AGAAGGAGAGGACTGAACCTTAAAA	59.393	40.000	0.00	0.00	40.42	1.52
822	829	9.347934	CCATTAAATTGCACGTAAACATAAAGA	57.652	29.630	0.00	0.00	0.00	2.52
880	914	2.996621	CAAAGCCTCCTCGTTAACTGAG	59.003	50.000	15.93	15.93	0.00	3.35
956	998	1.863880	CACGTCGCTCGCTCAGTAC	60.864	63.158	0.00	0.00	44.19	2.73
958	1000	1.863880	CGTCGCTCGCTCAGTACAC	60.864	63.158	0.00	0.00	0.00	2.90
965	1007	4.933400	TCGCTCGCTCAGTACACATATATA	59.067	41.667	0.00	0.00	0.00	0.86
966	1008	5.585047	TCGCTCGCTCAGTACACATATATAT	59.415	40.000	0.00	0.00	0.00	0.86
968	1010	6.195428	CGCTCGCTCAGTACACATATATATTG	59.805	42.308	0.00	0.00	0.00	1.90
971	1368	7.535997	TCGCTCAGTACACATATATATTGGTC	58.464	38.462	0.00	0.00	0.00	4.02
1026	1426	2.345991	GCCGGTAGCAAGGTGACA	59.654	61.111	1.90	0.00	42.97	3.58
1358	2083	2.278854	GGTGCTCTGCTCTCTTGATTC	58.721	52.381	0.00	0.00	0.00	2.52
1813	3853	0.472471	TTGGTGGCTCTTTCCTCGTT	59.528	50.000	0.00	0.00	0.00	3.85
2344	9197	6.980978	ACCATTGTGAATCTACTTGATACTCG	59.019	38.462	0.00	0.00	34.45	4.18
2370	9223	4.321452	CCGCTCATGCCAGCAAAATAATAT	60.321	41.667	7.14	0.00	39.62	1.28
2485	9340	2.232452	ACACTAGAGCTGTAGCCTTGTG	59.768	50.000	17.40	21.99	43.20	3.33
2543	9444	5.105716	TGAGCTGTCTACCACAAACTCTATC	60.106	44.000	0.00	0.00	38.38	2.08
2551	9479	7.541437	GTCTACCACAAACTCTATCAGTAACAC	59.459	40.741	0.00	0.00	32.30	3.32
2585	9513	3.891977	GGCTTTTCTTCTTCCTGTTTCCT	59.108	43.478	0.00	0.00	0.00	3.36
2607	9535	7.107542	TCCTAGTTTAAAAATACCGCACAGAT	58.892	34.615	0.00	0.00	0.00	2.90
2637	9567	7.056844	AGAAGATCCTATTGCCAGTTACTAC	57.943	40.000	0.00	0.00	0.00	2.73
2654	9584	1.411612	CTACCTTTAGGCTACCACCGG	59.588	57.143	0.00	0.00	39.32	5.28
2681	9611	4.954970	AGCACAACACGCCCCTGG	62.955	66.667	0.00	0.00	0.00	4.45
2698	9628	2.248835	GGTAGCACAACAACGCCGT	61.249	57.895	0.00	0.00	0.00	5.68
2704	9634	4.622456	CAACAACGCCGTGGCACC	62.622	66.667	12.86	0.00	42.06	5.01
2715	9645	3.978193	TGGCACCCACCATGGTCC	61.978	66.667	16.53	13.69	36.12	4.46
2716	9646	3.978193	GGCACCCACCATGGTCCA	61.978	66.667	16.53	0.00	36.12	4.02
2717	9647	2.360191	GCACCCACCATGGTCCAT	59.640	61.111	16.53	0.00	36.12	3.41
2718	9648	1.305213	GCACCCACCATGGTCCATT	60.305	57.895	16.53	0.00	36.12	3.16
2719	9649	1.322538	GCACCCACCATGGTCCATTC	61.323	60.000	16.53	0.46	36.12	2.67
2720	9650	0.039472	CACCCACCATGGTCCATTCA	59.961	55.000	16.53	0.00	36.12	2.57
2721	9651	0.332632	ACCCACCATGGTCCATTCAG	59.667	55.000	16.53	1.17	35.17	3.02
2722	9652	1.039233	CCCACCATGGTCCATTCAGC	61.039	60.000	16.53	0.00	35.17	4.26
2723	9653	1.039233	CCACCATGGTCCATTCAGCC	61.039	60.000	16.53	0.00	31.35	4.85
2724	9654	0.323633	CACCATGGTCCATTCAGCCA	60.324	55.000	16.53	0.00	36.64	4.75
2725	9655	0.632835	ACCATGGTCCATTCAGCCAT	59.367	50.000	13.00	0.00	43.14	4.40
2726	9656	1.007479	ACCATGGTCCATTCAGCCATT	59.993	47.619	13.00	0.00	40.68	3.16
2727	9657	1.684983	CCATGGTCCATTCAGCCATTC	59.315	52.381	2.57	0.00	40.68	2.67
2728	9658	2.380941	CATGGTCCATTCAGCCATTCA	58.619	47.619	0.00	0.00	40.68	2.57
2729	9659	2.601240	TGGTCCATTCAGCCATTCAA	57.399	45.000	0.00	0.00	0.00	2.69
2730	9660	2.449464	TGGTCCATTCAGCCATTCAAG	58.551	47.619	0.00	0.00	0.00	3.02
2731	9661	1.753073	GGTCCATTCAGCCATTCAAGG	59.247	52.381	0.00	0.00	0.00	3.61
2769	9766	1.019673	CGGTCCATTCAGCCATCTTG	58.980	55.000	0.00	0.00	0.00	3.02
2772	9769	1.674962	GTCCATTCAGCCATCTTGCTC	59.325	52.381	0.00	0.00	40.32	4.26
2779	9776	0.610174	AGCCATCTTGCTCGACTCAA	59.390	50.000	0.00	0.00	36.75	3.02
2791	9788	1.548719	TCGACTCAATTCACCCATCGT	59.451	47.619	0.00	0.00	0.00	3.73
2800	9797	1.044611	TCACCCATCGTGACACTCAA	58.955	50.000	3.68	0.00	46.80	3.02
2866	9903	8.630054	TGTTTGCTGAACTGGTAAATACTATT	57.370	30.769	5.39	0.00	39.08	1.73
2880	9917	8.179615	GGTAAATACTATTGTTCGGAAGTTTGG	58.820	37.037	0.00	0.00	0.00	3.28

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
84	85	1.711206	GAAGACTGGTTACGCAGGAC	58.289	55.000	5.98	1.21	0.00	3.85
90	91	1.199327	TCTGCTCGAAGACTGGTTACG	59.801	52.381	0.00	0.00	0.00	3.18
93	94	2.300152	TCAATCTGCTCGAAGACTGGTT	59.700	45.455	0.00	0.00	0.00	3.67
103	104	0.043566	CGCATTCGTCAATCTGCTCG	60.044	55.000	0.00	0.00	32.48	5.03
107	108	0.659427	ATGCCGCATTCGTCAATCTG	59.341	50.000	0.00	0.00	0.00	2.90
115	116	1.010350	GAAGCTGATGCCGCATTCG	60.010	57.895	7.43	3.04	40.80	3.34
122	123	2.012673	CTGGTTGTAGAAGCTGATGCC	58.987	52.381	3.31	0.00	40.80	4.40
188	189	5.006552	AGGTCAAAATTTGTCACAAAATGCG	59.993	36.000	7.14	0.00	30.21	4.73
342	343	6.381498	TGACCATTACCAGGTATTTTCTGA	57.619	37.500	0.00	0.00	40.09	3.27
450	451	3.420893	TGATCCAACCTGATCAAACCAC	58.579	45.455	0.00	0.00	46.08	4.16
522	523	2.417243	GCATGGAAATTGGTAGGTGTGC	60.417	50.000	0.00	0.00	0.00	4.57
523	524	3.091545	AGCATGGAAATTGGTAGGTGTG	58.908	45.455	0.00	0.00	0.00	3.82
524	525	3.356290	GAGCATGGAAATTGGTAGGTGT	58.644	45.455	0.00	0.00	0.00	4.16
525	526	2.689983	GGAGCATGGAAATTGGTAGGTG	59.310	50.000	0.00	0.00	0.00	4.00
526	527	2.683742	CGGAGCATGGAAATTGGTAGGT	60.684	50.000	0.00	0.00	0.00	3.08
527	528	1.949525	CGGAGCATGGAAATTGGTAGG	59.050	52.381	0.00	0.00	0.00	3.18
528	529	1.949525	CCGGAGCATGGAAATTGGTAG	59.050	52.381	0.00	0.00	0.00	3.18
529	530	1.562008	TCCGGAGCATGGAAATTGGTA	59.438	47.619	0.00	0.00	30.98	3.25
535	536	0.250234	CAGACTCCGGAGCATGGAAA	59.750	55.000	31.56	0.00	34.44	3.13
555	556	4.380128	CGCCCTTTATACACCCTCAAAAAC	60.380	45.833	0.00	0.00	0.00	2.43
601	602	2.428181	AAGTTGTACTACCCCACCCT	57.572	50.000	3.72	0.00	0.00	4.34
679	680	0.878416	CGCCCAACGGAATTTCAAGA	59.122	50.000	0.00	0.00	38.44	3.02
691	692	0.391228	AAATTCAACCACCGCCCAAC	59.609	50.000	0.00	0.00	0.00	3.77
700	701	8.690203	TTCTTCTTCTATGTGAAATTCAACCA	57.310	30.769	0.00	0.00	33.79	3.67
704	705	8.597167	TCTCCTTCTTCTTCTATGTGAAATTCA	58.403	33.333	0.00	0.00	33.79	2.57
712	713	5.656416	CAGTCCTCTCCTTCTTCTTCTATGT	59.344	44.000	0.00	0.00	0.00	2.29
714	715	6.086011	TCAGTCCTCTCCTTCTTCTTCTAT	57.914	41.667	0.00	0.00	0.00	1.98
715	716	5.522315	TCAGTCCTCTCCTTCTTCTTCTA	57.478	43.478	0.00	0.00	0.00	2.10
748	749	8.567104	GGCTGATTATTTTTCAACCACAAATTT	58.433	29.630	0.00	0.00	31.11	1.82
749	750	7.718753	TGGCTGATTATTTTTCAACCACAAATT	59.281	29.630	0.00	0.00	35.08	1.82
750	751	7.222872	TGGCTGATTATTTTTCAACCACAAAT	58.777	30.769	0.00	0.00	35.08	2.32
758	759	8.138712	ACGTTAAGTTGGCTGATTATTTTTCAA	58.861	29.630	0.00	0.00	0.00	2.69
822	829	0.409484	CCCATTCCCAGGAAACCAGT	59.591	55.000	2.65	0.00	37.69	4.00
880	914	0.868406	CTTCGTCTTCCACACCAAGC	59.132	55.000	0.00	0.00	0.00	4.01
914	949	1.845266	CTAGTGGTAGATGCACGCAG	58.155	55.000	0.00	0.00	0.00	5.18
956	998	7.121315	TCTCCTCACTCGACCAATATATATGTG	59.879	40.741	0.00	0.00	0.00	3.21
958	1000	7.476667	GTCTCCTCACTCGACCAATATATATG	58.523	42.308	0.00	0.00	0.00	1.78
965	1007	0.811915	CGTCTCCTCACTCGACCAAT	59.188	55.000	0.00	0.00	0.00	3.16
966	1008	0.536687	ACGTCTCCTCACTCGACCAA	60.537	55.000	0.00	0.00	0.00	3.67
968	1010	1.646624	GGACGTCTCCTCACTCGACC	61.647	65.000	16.46	0.00	33.07	4.79
971	1368	0.378962	GATGGACGTCTCCTCACTCG	59.621	60.000	16.46	0.00	37.48	4.18
1026	1426	0.832135	TCGGCTCCTCCACTTTGACT	60.832	55.000	0.00	0.00	34.01	3.41
1167	1588	4.883354	GGGGCGCCAAGGGAGATG	62.883	72.222	30.85	0.00	0.00	2.90
1813	3853	2.695359	CCAACTAAAGTAAGCGCTCCA	58.305	47.619	12.06	0.00	0.00	3.86
1896	7614	2.589540	CAACTATCCTGCCGCCCA	59.410	61.111	0.00	0.00	0.00	5.36
2062	7818	6.534793	ACAAGGCTAACAAACATTCACAAAAG	59.465	34.615	0.00	0.00	0.00	2.27
2344	9197	1.305219	TTTGCTGGCATGAGCGGTAC	61.305	55.000	0.00	0.00	42.32	3.34
2485	9340	2.294449	AAAAGAGAACAAGAGCCCCC	57.706	50.000	0.00	0.00	0.00	5.40
2543	9444	3.311106	CCAAATGCTGCAAGTGTTACTG	58.689	45.455	6.36	0.00	35.30	2.74
2585	9513	6.403855	GCCATCTGTGCGGTATTTTTAAACTA	60.404	38.462	0.00	0.00	0.00	2.24
2615	9545	5.905913	AGGTAGTAACTGGCAATAGGATCTT	59.094	40.000	0.00	0.00	0.00	2.40
2622	9552	5.427481	AGCCTAAAGGTAGTAACTGGCAATA	59.573	40.000	15.42	0.00	41.33	1.90
2627	9557	4.713321	TGGTAGCCTAAAGGTAGTAACTGG	59.287	45.833	0.00	0.00	37.57	4.00
2637	9567	1.525442	CCCGGTGGTAGCCTAAAGG	59.475	63.158	0.00	0.00	38.53	3.11
2654	9584	0.598065	GTGTTGTGCTGAATGGACCC	59.402	55.000	0.00	0.00	36.06	4.46
2658	9588	1.081242	GGCGTGTTGTGCTGAATGG	60.081	57.895	0.00	0.00	0.00	3.16
2681	9611	1.083015	CACGGCGTTGTTGTGCTAC	60.083	57.895	11.19	0.00	0.00	3.58
2698	9628	3.978193	GGACCATGGTGGGTGCCA	61.978	66.667	25.52	0.00	43.37	4.92
2701	9631	0.039472	TGAATGGACCATGGTGGGTG	59.961	55.000	25.52	0.00	43.37	4.61
2704	9634	1.039233	GGCTGAATGGACCATGGTGG	61.039	60.000	25.52	0.00	45.02	4.61
2705	9635	0.323633	TGGCTGAATGGACCATGGTG	60.324	55.000	25.52	6.97	0.00	4.17
2706	9636	0.632835	ATGGCTGAATGGACCATGGT	59.367	50.000	19.89	19.89	42.59	3.55
2707	9637	1.684983	GAATGGCTGAATGGACCATGG	59.315	52.381	11.19	11.19	43.40	3.66
2708	9638	2.380941	TGAATGGCTGAATGGACCATG	58.619	47.619	8.02	0.00	43.40	3.66
2709	9639	2.832643	TGAATGGCTGAATGGACCAT	57.167	45.000	0.00	0.00	46.15	3.55
2710	9640	2.449464	CTTGAATGGCTGAATGGACCA	58.551	47.619	0.00	0.00	37.99	4.02
2711	9641	1.753073	CCTTGAATGGCTGAATGGACC	59.247	52.381	0.00	0.00	0.00	4.46
2769	9766	1.936547	GATGGGTGAATTGAGTCGAGC	59.063	52.381	0.00	0.00	0.00	5.03
2772	9769	2.010145	ACGATGGGTGAATTGAGTCG	57.990	50.000	0.00	0.00	0.00	4.18
2866	9903	5.496556	ACATCATATCCAAACTTCCGAACA	58.503	37.500	0.00	0.00	0.00	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.