AutoCloner

Multiple sequence alignment - TraesCS2D01G291400

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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	TraesCS2D01G291400	chr2D	100.000	3163	0	0	1	3163	373654664	373651502	0.000000e+00	5842
1	TraesCS2D01G291400	chr2D	94.332	2082	86	16	407	2470	373750012	373752079	0.000000e+00	3162
2	TraesCS2D01G291400	chr2D	88.703	239	24	2	2488	2724	609889998	609889761	3.990000e-74	289
3	TraesCS2D01G291400	chr2D	86.975	238	30	1	2488	2724	373651048	373651285	1.870000e-67	267
4	TraesCS2D01G291400	chr2D	94.286	70	4	0	2987	3056	641372897	641372966	1.200000e-19	108
5	TraesCS2D01G291400	chr2A	91.426	2799	159	38	409	3159	505080486	505077721	0.000000e+00	3764
6	TraesCS2D01G291400	chr2A	92.422	1821	100	19	586	2376	505208565	505210377	0.000000e+00	2564
7	TraesCS2D01G291400	chr2A	85.652	230	23	4	10	238	729555216	729554996	1.900000e-57	233
8	TraesCS2D01G291400	chr2A	83.969	131	16	3	274	403	509069230	509069356	1.540000e-23	121
9	TraesCS2D01G291400	chr2B	93.232	2497	106	20	1	2451	443149383	443146904	0.000000e+00	3616
10	TraesCS2D01G291400	chr2B	94.171	1990	78	20	407	2376	443223072	443225043	0.000000e+00	2998
11	TraesCS2D01G291400	chr2B	78.838	241	46	5	2487	2724	109204130	109203892	1.170000e-34	158
12	TraesCS2D01G291400	chr3D	75.090	554	123	12	1408	1952	566081016	566081563	8.760000e-61	244
13	TraesCS2D01G291400	chr3D	85.463	227	23	4	10	235	590751783	590752000	8.830000e-56	228
14	TraesCS2D01G291400	chr3D	78.926	242	48	3	2485	2724	442981737	442981977	9.080000e-36	161
15	TraesCS2D01G291400	chr3D	83.929	168	24	3	2559	2724	527681315	527681481	1.170000e-34	158
16	TraesCS2D01G291400	chr3D	83.234	167	25	3	2560	2724	517743564	517743399	1.970000e-32	150
17	TraesCS2D01G291400	chr3B	75.045	557	118	18	1408	1952	755806067	755806614	4.080000e-59	239
18	TraesCS2D01G291400	chr3B	85.903	227	22	4	10	235	727161164	727161381	1.900000e-57	233
19	TraesCS2D01G291400	chr7A	86.087	230	20	5	10	235	252954085	252954306	1.470000e-58	237
20	TraesCS2D01G291400	chr3A	75.000	560	115	19	1407	1952	701218937	701218389	5.270000e-58	235
21	TraesCS2D01G291400	chr6B	84.322	236	36	1	2490	2724	566638865	566639100	2.450000e-56	230
22	TraesCS2D01G291400	chr7B	85.088	228	21	8	12	238	603248319	603248104	1.480000e-53	220
23	TraesCS2D01G291400	chr6A	85.022	227	23	5	10	235	22626345	22626561	1.480000e-53	220
24	TraesCS2D01G291400	chr6A	84.416	231	26	4	6	235	539231882	539232103	5.310000e-53	219
25	TraesCS2D01G291400	chr5A	84.581	227	25	4	10	235	91625573	91625790	1.910000e-52	217
26	TraesCS2D01G291400	chr7D	81.863	204	32	5	2524	2724	559111882	559111681	1.950000e-37	167
27	TraesCS2D01G291400	chr6D	83.929	168	24	3	2559	2724	456819563	456819729	1.170000e-34	158

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	TraesCS2D01G291400	chr2D	373651502	373654664	3162	True	5842	5842	100.000	1	3163	1	chr2D.!!$R1	3162
1	TraesCS2D01G291400	chr2D	373750012	373752079	2067	False	3162	3162	94.332	407	2470	1	chr2D.!!$F2	2063
2	TraesCS2D01G291400	chr2A	505077721	505080486	2765	True	3764	3764	91.426	409	3159	1	chr2A.!!$R1	2750
3	TraesCS2D01G291400	chr2A	505208565	505210377	1812	False	2564	2564	92.422	586	2376	1	chr2A.!!$F1	1790
4	TraesCS2D01G291400	chr2B	443146904	443149383	2479	True	3616	3616	93.232	1	2451	1	chr2B.!!$R2	2450
5	TraesCS2D01G291400	chr2B	443223072	443225043	1971	False	2998	2998	94.171	407	2376	1	chr2B.!!$F1	1969
6	TraesCS2D01G291400	chr3D	566081016	566081563	547	False	244	244	75.090	1408	1952	1	chr3D.!!$F3	544
7	TraesCS2D01G291400	chr3B	755806067	755806614	547	False	239	239	75.045	1408	1952	1	chr3B.!!$F2	544
8	TraesCS2D01G291400	chr3A	701218389	701218937	548	True	235	235	75.000	1407	1952	1	chr3A.!!$R1	545

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
71	72	0.108041	CGCACACCTTACCCGGTTAT	60.108	55.0	0.00	0.0	34.29	1.89	F
177	179	0.388649	CGTCTTCTCCCACTGAACGG	60.389	60.0	0.00	0.0	0.00	4.44	F
1009	1097	0.807667	GCAGTGATCGATGGCGTCTT	60.808	55.0	0.54	0.0	38.98	3.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1488	1591	1.795170	GCGTTGATGTGCAGGTTGGT	61.795	55.000	0.00	0.0	0.00	3.67	R
1658	1767	2.994995	TCGACGGGCACACCATCT	60.995	61.111	0.00	0.0	40.22	2.90	R
2626	2768	0.183492	GGCCTGGCCTGTCATAATCA	59.817	55.000	30.42	0.0	46.69	2.57	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
22	23	1.555477	TGCATACGCTCATACACACG	58.445	50.000	0.00	0.00	39.64	4.49
23	24	0.229753	GCATACGCTCATACACACGC	59.770	55.000	0.00	0.00	34.30	5.34
35	36	1.282248	ACACACGCGCATACACTCAC	61.282	55.000	5.73	0.00	0.00	3.51
45	46	3.123804	GCATACACTCACCCTATGAACG	58.876	50.000	0.00	0.00	36.69	3.95
53	54	0.669318	ACCCTATGAACGCACACACG	60.669	55.000	0.00	0.00	39.50	4.49
64	65	1.938861	CACACACGCACACCTTACC	59.061	57.895	0.00	0.00	0.00	2.85
71	72	0.108041	CGCACACCTTACCCGGTTAT	60.108	55.000	0.00	0.00	34.29	1.89
83	84	1.909302	CCCGGTTATCCCTATGAGCAT	59.091	52.381	0.00	0.00	0.00	3.79
87	88	3.766591	CGGTTATCCCTATGAGCATCTCT	59.233	47.826	0.00	0.00	34.92	3.10
149	151	1.746615	TCGTAGGCGCCTCGTAGTT	60.747	57.895	36.73	10.36	38.14	2.24
172	174	3.516578	GGAACGTCTTCTCCCACTG	57.483	57.895	0.00	0.00	0.00	3.66
177	179	0.388649	CGTCTTCTCCCACTGAACGG	60.389	60.000	0.00	0.00	0.00	4.44
208	210	7.920682	CACCGGAAATCCTAAAATAAATTCAGG	59.079	37.037	9.46	0.00	36.92	3.86
225	227	6.949352	ATTCAGGATAAATGTAAGCACCAG	57.051	37.500	0.00	0.00	0.00	4.00
264	290	5.235305	ACCATCGCATCACAATTTAGTTC	57.765	39.130	0.00	0.00	0.00	3.01
270	296	4.675146	CGCATCACAATTTAGTTCCCAAGG	60.675	45.833	0.00	0.00	0.00	3.61
279	305	8.049721	ACAATTTAGTTCCCAAGGAATCTAGAG	58.950	37.037	0.00	0.00	44.04	2.43
321	347	5.220912	GGCGTACTTTTTGTGTTAGGTCTTT	60.221	40.000	0.00	0.00	0.00	2.52
327	353	7.200455	ACTTTTTGTGTTAGGTCTTTGCATAC	58.800	34.615	0.00	0.00	0.00	2.39
328	354	6.952773	TTTTGTGTTAGGTCTTTGCATACT	57.047	33.333	0.00	0.00	0.00	2.12
353	379	2.014857	CAGATGTCTGCACATTCTGGG	58.985	52.381	0.00	0.00	43.79	4.45
379	405	5.625311	CGTTAAAAATGTTGCACTCTCCTTC	59.375	40.000	0.00	0.00	0.00	3.46
381	407	5.444663	AAAAATGTTGCACTCTCCTTCTC	57.555	39.130	0.00	0.00	0.00	2.87
468	495	2.246719	ACTTGACACCTTGTGCTCTC	57.753	50.000	0.00	0.00	36.98	3.20
473	500	4.415881	TGACACCTTGTGCTCTCTTAAA	57.584	40.909	0.00	0.00	36.98	1.52
661	717	4.466015	GGATAAATTTTTGTCCTGGCTGGA	59.534	41.667	9.30	9.30	42.93	3.86
712	768	1.532868	GCAGATGACACTTGACACCAC	59.467	52.381	0.00	0.00	0.00	4.16
753	823	2.161609	GGATTTGAATCAACCGTTCGCT	59.838	45.455	0.00	0.00	37.15	4.93
978	1066	3.802948	ACTAGCAGTAAAGATCACCCG	57.197	47.619	0.00	0.00	0.00	5.28
1008	1096	1.227089	GCAGTGATCGATGGCGTCT	60.227	57.895	0.54	0.00	38.98	4.18
1009	1097	0.807667	GCAGTGATCGATGGCGTCTT	60.808	55.000	0.54	0.00	38.98	3.01
1345	1448	2.600867	GCAGCTGAAGTTACTGATCGAC	59.399	50.000	20.43	0.00	33.10	4.20
1488	1591	1.881903	CTTCTGCCTGCTCTCCGACA	61.882	60.000	0.00	0.00	0.00	4.35
1628	1737	1.686110	GAGGACGGTCACCTGGGAT	60.686	63.158	10.76	0.00	37.93	3.85
1658	1767	0.968901	ACCGCCTCGTCATCACCTTA	60.969	55.000	0.00	0.00	0.00	2.69
1661	1770	1.338337	CGCCTCGTCATCACCTTAGAT	59.662	52.381	0.00	0.00	0.00	1.98
2257	2386	5.286438	TGCTATGCTACGTTATTGGTAGTG	58.714	41.667	0.00	0.00	39.60	2.74
2286	2415	5.052172	CGCATTTGCTTTCCGAATAAATCAG	60.052	40.000	0.51	0.00	39.32	2.90
2295	2427	2.289002	CCGAATAAATCAGCTGCTGGTC	59.711	50.000	27.79	14.52	31.51	4.02
2362	2503	0.960364	GGAAATCCAGGCGTTGCTCA	60.960	55.000	0.00	0.00	35.64	4.26
2474	2616	2.806244	ACAGTATTTCGTTGAGCCACAC	59.194	45.455	0.00	0.00	0.00	3.82
2503	2645	7.611213	AAGTTCGGGAGTGAATAACATAAAG	57.389	36.000	0.00	0.00	0.00	1.85
2507	2649	7.062749	TCGGGAGTGAATAACATAAAGCTAT	57.937	36.000	0.00	0.00	0.00	2.97
2517	2659	9.107367	GAATAACATAAAGCTATCACAATTCGC	57.893	33.333	0.00	0.00	0.00	4.70
2527	2669	3.799137	TCACAATTCGCGTTAAGGTTC	57.201	42.857	5.77	0.00	0.00	3.62
2530	2672	2.224784	ACAATTCGCGTTAAGGTTCCAC	59.775	45.455	5.77	0.00	0.00	4.02
2552	2694	8.311836	TCCACAAAACTACCACAAATTTGTTTA	58.688	29.630	21.10	13.71	40.98	2.01
2557	2699	8.568732	AAACTACCACAAATTTGTTTATGACG	57.431	30.769	21.10	8.18	39.91	4.35
2574	2716	8.851416	GTTTATGACGGATAACTATCAGAATCG	58.149	37.037	4.20	0.00	34.40	3.34
2580	2722	2.510768	AACTATCAGAATCGGCGTCC	57.489	50.000	6.85	0.00	0.00	4.79
2625	2767	2.095110	CCGAGTGCTTTGCAATTGATCA	60.095	45.455	10.34	0.00	39.99	2.92
2626	2768	3.428452	CCGAGTGCTTTGCAATTGATCAT	60.428	43.478	10.34	0.00	39.99	2.45
2628	2770	4.673320	CGAGTGCTTTGCAATTGATCATGA	60.673	41.667	10.34	0.00	39.99	3.07
2636	2778	7.436970	GCTTTGCAATTGATCATGATTATGACA	59.563	33.333	10.14	0.00	45.54	3.58
2637	2779	8.865590	TTTGCAATTGATCATGATTATGACAG	57.134	30.769	10.14	0.00	45.54	3.51
2638	2780	6.977213	TGCAATTGATCATGATTATGACAGG	58.023	36.000	10.14	0.00	45.54	4.00
2639	2781	5.862323	GCAATTGATCATGATTATGACAGGC	59.138	40.000	10.14	4.71	45.54	4.85
2640	2782	6.387465	CAATTGATCATGATTATGACAGGCC	58.613	40.000	10.14	0.00	45.54	5.19
2641	2783	4.710313	TGATCATGATTATGACAGGCCA	57.290	40.909	10.14	0.00	45.54	5.36
2642	2784	4.648651	TGATCATGATTATGACAGGCCAG	58.351	43.478	10.14	0.00	45.54	4.85
2643	2785	3.497103	TCATGATTATGACAGGCCAGG	57.503	47.619	5.01	0.00	38.37	4.45
2644	2786	1.884579	CATGATTATGACAGGCCAGGC	59.115	52.381	5.01	1.26	36.36	4.85
2645	2787	3.398062	CATGATTATGACAGGCCAGGCC	61.398	54.545	24.90	24.90	42.13	5.19
2655	2797	2.489751	GCCAGGCCGCACATAAAC	59.510	61.111	0.00	0.00	0.00	2.01
2679	2821	4.081322	ACCATCTGTTTGACCGTTTACT	57.919	40.909	0.00	0.00	0.00	2.24
2684	2826	6.459024	CCATCTGTTTGACCGTTTACTTTGAA	60.459	38.462	0.00	0.00	0.00	2.69
2686	2828	4.649977	TGTTTGACCGTTTACTTTGAACG	58.350	39.130	2.68	2.68	46.82	3.95
2703	2845	2.025418	CGTTACCTGACGTGTGGGC	61.025	63.158	0.00	0.00	38.19	5.36
2880	3022	4.049640	GACAAATGGCGCCGGCAA	62.050	61.111	28.98	12.05	42.43	4.52
2901	3043	3.231889	CTGCAGTGTCCAGGTCGCT	62.232	63.158	5.25	0.00	0.00	4.93
2917	3059	2.816958	CTACAGCAGCGTGGCAGG	60.817	66.667	2.14	2.14	35.83	4.85
2962	3104	4.554363	CTCGCCGGCTGTAGGTCG	62.554	72.222	26.68	6.06	43.42	4.79

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
7	8	4.370494	CGCGTGTGTATGAGCGTA	57.630	55.556	0.00	0.00	46.48	4.42
18	19	1.736645	GGTGAGTGTATGCGCGTGT	60.737	57.895	13.61	0.00	0.00	4.49
19	20	2.452813	GGGTGAGTGTATGCGCGTG	61.453	63.158	13.61	0.00	0.00	5.34
22	23	1.068588	TCATAGGGTGAGTGTATGCGC	59.931	52.381	0.00	0.00	31.80	6.09
23	24	3.123804	GTTCATAGGGTGAGTGTATGCG	58.876	50.000	0.00	0.00	38.29	4.73
35	36	1.966493	GCGTGTGTGCGTTCATAGGG	61.966	60.000	0.00	0.00	0.00	3.53
45	46	1.278637	GTAAGGTGTGCGTGTGTGC	59.721	57.895	0.00	0.00	0.00	4.57
53	54	1.660167	GATAACCGGGTAAGGTGTGC	58.340	55.000	1.67	0.00	45.21	4.57
64	65	2.834549	AGATGCTCATAGGGATAACCGG	59.165	50.000	0.00	0.00	46.96	5.28
71	72	3.397282	TCTCTCAGAGATGCTCATAGGGA	59.603	47.826	0.00	0.00	33.35	4.20
83	84	0.393673	CCGGCTCAGTCTCTCAGAGA	60.394	60.000	0.00	0.00	36.22	3.10
87	88	1.683707	ATGCCGGCTCAGTCTCTCA	60.684	57.895	29.70	2.45	0.00	3.27
208	210	9.516314	GTTTAAATCCTGGTGCTTACATTTATC	57.484	33.333	0.00	0.00	0.00	1.75
215	217	6.315642	GGTAGAGTTTAAATCCTGGTGCTTAC	59.684	42.308	0.00	0.00	0.00	2.34
217	219	5.254115	GGTAGAGTTTAAATCCTGGTGCTT	58.746	41.667	0.00	0.00	0.00	3.91
225	227	4.743644	CGATGGTCGGTAGAGTTTAAATCC	59.256	45.833	0.00	0.00	36.00	3.01
264	290	5.615289	CATACAACCTCTAGATTCCTTGGG	58.385	45.833	0.00	0.00	0.00	4.12
270	296	7.170658	GTGAAGATGCATACAACCTCTAGATTC	59.829	40.741	0.00	0.00	0.00	2.52
279	305	1.064060	GCCGTGAAGATGCATACAACC	59.936	52.381	0.00	0.00	0.00	3.77
321	347	3.429960	GCAGACATCTGAGACAGTATGCA	60.430	47.826	23.10	0.00	46.59	3.96
327	353	2.738013	TGTGCAGACATCTGAGACAG	57.262	50.000	13.15	0.00	46.59	3.51
328	354	3.260128	AGAATGTGCAGACATCTGAGACA	59.740	43.478	13.15	13.36	46.59	3.41
353	379	3.638484	AGAGTGCAACATTTTTAACGGC	58.362	40.909	0.00	0.00	41.43	5.68
379	405	1.095600	TCATCGAAGACCACGAGGAG	58.904	55.000	5.68	0.00	43.51	3.69
381	407	0.526211	TGTCATCGAAGACCACGAGG	59.474	55.000	17.41	0.00	42.51	4.63
575	602	9.467258	CCACCAAAAATTGCACAATATATAGAG	57.533	33.333	0.00	0.00	0.00	2.43
581	631	4.009002	GGCCACCAAAAATTGCACAATAT	58.991	39.130	0.00	0.00	0.00	1.28
582	632	3.181451	TGGCCACCAAAAATTGCACAATA	60.181	39.130	0.00	0.00	0.00	1.90
661	717	2.496070	TGGCTAAGCAGAATCTACGTGT	59.504	45.455	0.00	0.00	0.00	4.49
712	768	2.956964	GGCGCTTGGTCTCGATCG	60.957	66.667	9.36	9.36	0.00	3.69
978	1066	1.335496	GATCACTGCTAGTCGGTCTCC	59.665	57.143	0.00	0.00	30.14	3.71
1191	1279	2.124570	ACCGGGATCATGCACTGC	60.125	61.111	6.32	0.00	0.00	4.40
1192	1280	2.475466	GCACCGGGATCATGCACTG	61.475	63.158	6.32	0.00	39.23	3.66
1313	1405	2.816087	ACTTCAGCTGCGAAATGAATGT	59.184	40.909	9.47	0.00	32.82	2.71
1328	1420	3.172050	CACGGTCGATCAGTAACTTCAG	58.828	50.000	0.00	0.00	0.00	3.02
1488	1591	1.795170	GCGTTGATGTGCAGGTTGGT	61.795	55.000	0.00	0.00	0.00	3.67
1658	1767	2.994995	TCGACGGGCACACCATCT	60.995	61.111	0.00	0.00	40.22	2.90
1721	1830	4.717629	CGGAAGACGGACAGCGCA	62.718	66.667	11.47	0.00	39.42	6.09
2286	2415	1.630244	GACACGACATGACCAGCAGC	61.630	60.000	0.00	0.00	0.00	5.25
2295	2427	2.348872	GCTGACACAAAGACACGACATG	60.349	50.000	0.00	0.00	0.00	3.21
2362	2503	2.364972	AAAAAGTAGCCTGGCACACT	57.635	45.000	22.65	19.57	0.00	3.55
2426	2568	8.339344	TCTGACACATGTAACATGAAAATCAT	57.661	30.769	0.00	0.00	37.65	2.45
2448	2590	5.005779	GTGGCTCAACGAAATACTGTATCTG	59.994	44.000	0.00	0.00	0.00	2.90
2491	2633	9.107367	GCGAATTGTGATAGCTTTATGTTATTC	57.893	33.333	0.00	0.00	0.00	1.75
2496	2638	4.570772	ACGCGAATTGTGATAGCTTTATGT	59.429	37.500	15.93	0.00	0.00	2.29
2503	2645	3.308866	ACCTTAACGCGAATTGTGATAGC	59.691	43.478	15.93	0.00	0.00	2.97
2507	2649	2.481185	GGAACCTTAACGCGAATTGTGA	59.519	45.455	15.93	0.00	0.00	3.58
2515	2657	2.032426	AGTTTTGTGGAACCTTAACGCG	59.968	45.455	3.53	3.53	34.36	6.01
2517	2659	4.575645	TGGTAGTTTTGTGGAACCTTAACG	59.424	41.667	0.00	0.00	34.36	3.18
2527	2669	6.976636	AACAAATTTGTGGTAGTTTTGTGG	57.023	33.333	23.93	0.00	41.31	4.17
2552	2694	5.622460	GCCGATTCTGATAGTTATCCGTCAT	60.622	44.000	0.00	0.00	31.71	3.06
2557	2699	4.167268	GACGCCGATTCTGATAGTTATCC	58.833	47.826	0.00	0.00	31.71	2.59
2574	2716	1.503818	TTTTTGAGACAGCGGACGCC	61.504	55.000	13.63	0.00	43.17	5.68
2625	2767	1.202976	GGCCTGGCCTGTCATAATCAT	60.203	52.381	30.42	0.00	46.69	2.45
2626	2768	0.183492	GGCCTGGCCTGTCATAATCA	59.817	55.000	30.42	0.00	46.69	2.57
2637	2779	2.753849	TTTATGTGCGGCCTGGCC	60.754	61.111	28.17	28.17	46.75	5.36
2638	2780	1.872197	TTGTTTATGTGCGGCCTGGC	61.872	55.000	11.05	11.05	0.00	4.85
2639	2781	0.600557	TTTGTTTATGTGCGGCCTGG	59.399	50.000	0.00	0.00	0.00	4.45
2640	2782	1.668628	GGTTTGTTTATGTGCGGCCTG	60.669	52.381	0.00	0.00	0.00	4.85
2641	2783	0.601057	GGTTTGTTTATGTGCGGCCT	59.399	50.000	0.00	0.00	0.00	5.19
2642	2784	0.315568	TGGTTTGTTTATGTGCGGCC	59.684	50.000	0.00	0.00	0.00	6.13
2643	2785	2.094752	AGATGGTTTGTTTATGTGCGGC	60.095	45.455	0.00	0.00	0.00	6.53
2644	2786	3.057596	ACAGATGGTTTGTTTATGTGCGG	60.058	43.478	0.00	0.00	0.00	5.69
2645	2787	4.159377	ACAGATGGTTTGTTTATGTGCG	57.841	40.909	0.00	0.00	0.00	5.34
2686	2828	1.670083	GGCCCACACGTCAGGTAAC	60.670	63.158	0.00	0.00	0.00	2.50
2798	2940	9.657728	TTTCAAAAACTTTTAGGGACCCTATTA	57.342	29.630	21.41	9.73	35.87	0.98
2799	2941	8.555896	TTTCAAAAACTTTTAGGGACCCTATT	57.444	30.769	21.41	9.59	35.87	1.73
2832	2974	2.134933	GCTTCTCCTAGGGACCCGG	61.135	68.421	9.46	0.76	0.00	5.73
2880	3022	1.810606	CGACCTGGACACTGCAGAGT	61.811	60.000	23.35	20.07	38.14	3.24
2889	3031	1.877576	CTGCTGTAGCGACCTGGACA	61.878	60.000	0.00	0.00	45.83	4.02
2952	3094	4.208686	CCTCCCGCGACCTACAGC	62.209	72.222	8.23	0.00	0.00	4.40
2955	3097	4.208686	CTGCCTCCCGCGACCTAC	62.209	72.222	8.23	0.00	42.08	3.18
2980	3122	3.749064	TCGAGCTGCTCCACCGAC	61.749	66.667	22.97	0.00	0.00	4.79
2981	3123	3.749064	GTCGAGCTGCTCCACCGA	61.749	66.667	22.97	14.82	0.00	4.69
3061	3203	3.983420	CCCCCTTCTTGGCAGCCA	61.983	66.667	11.22	11.22	0.00	4.75

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.