AutoCloner

Multiple sequence alignment - TraesCS5B01G189400

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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	TraesCS5B01G189400	chr5B	100.000	3305	0	0	1	3305	341515035	341511731	0.000000e+00	6104
1	TraesCS5B01G189400	chr2B	96.722	2288	51	2	946	3209	83722182	83724469	0.000000e+00	3788
2	TraesCS5B01G189400	chr2D	96.156	2263	82	4	946	3208	302022205	302019948	0.000000e+00	3692
3	TraesCS5B01G189400	chr2D	97.910	957	19	1	1	956	302024780	302023824	0.000000e+00	1655
4	TraesCS5B01G189400	chr2D	97.492	957	23	1	1	956	459639406	459638450	0.000000e+00	1633
5	TraesCS5B01G189400	chr3A	95.667	2285	73	11	946	3208	717429381	717431661	0.000000e+00	3648
6	TraesCS5B01G189400	chr3A	97.806	957	20	1	1	956	717421357	717422313	0.000000e+00	1650
7	TraesCS5B01G189400	chr1A	95.365	2287	68	9	946	3208	14735493	14737765	0.000000e+00	3602
8	TraesCS5B01G189400	chr1A	98.537	957	13	1	1	956	14727674	14728630	0.000000e+00	1688
9	TraesCS5B01G189400	chr1A	97.938	97	2	0	3209	3305	570164508	570164412	5.670000e-38	169
10	TraesCS5B01G189400	chr5A	92.019	2293	140	26	946	3208	338458873	338456594	0.000000e+00	3181
11	TraesCS5B01G189400	chr5A	93.105	1813	112	7	946	2752	501189736	501187931	0.000000e+00	2643
12	TraesCS5B01G189400	chr7A	95.724	1988	59	6	946	2910	720224344	720222360	0.000000e+00	3177
13	TraesCS5B01G189400	chr7A	96.907	97	3	0	3209	3305	106019068	106019164	2.640000e-36	163
14	TraesCS5B01G189400	chr1D	93.712	1972	102	12	946	2910	419053278	419055234	0.000000e+00	2935
15	TraesCS5B01G189400	chr1D	92.948	1971	118	14	946	2912	34229448	34231401	0.000000e+00	2850
16	TraesCS5B01G189400	chr1D	98.010	955	18	1	3	956	419034895	419035849	0.000000e+00	1657
17	TraesCS5B01G189400	chr1D	97.906	955	17	3	3	956	34209150	34210102	0.000000e+00	1650
18	TraesCS5B01G189400	chr1D	91.193	352	29	2	2858	3208	419055226	419055576	8.300000e-131	477
19	TraesCS5B01G189400	chr4B	92.394	1972	117	19	946	2910	642268778	642270723	0.000000e+00	2780
20	TraesCS5B01G189400	chr4B	98.010	955	18	1	3	956	642259828	642260782	0.000000e+00	1657
21	TraesCS5B01G189400	chr4B	98.947	95	1	0	3209	3303	665550304	665550398	1.580000e-38	171
22	TraesCS5B01G189400	chr4B	97.872	94	2	0	3212	3305	419216200	419216107	2.640000e-36	163
23	TraesCS5B01G189400	chr4A	98.528	951	14	0	1	951	601699684	601698734	0.000000e+00	1679
24	TraesCS5B01G189400	chr4A	96.591	352	12	0	2858	3209	601690959	601690608	4.750000e-163	584
25	TraesCS5B01G189400	chr4A	95.876	97	4	0	3209	3305	624916283	624916379	1.230000e-34	158
26	TraesCS5B01G189400	chr4A	94.845	97	5	0	3209	3305	603963278	603963182	5.710000e-33	152
27	TraesCS5B01G189400	chr4A	93.269	104	6	1	3203	3305	743039078	743038975	5.710000e-33	152
28	TraesCS5B01G189400	chr2A	97.592	955	22	1	3	956	685525376	685524422	0.000000e+00	1635
29	TraesCS5B01G189400	chr2A	96.907	97	3	0	3209	3305	617940952	617940856	2.640000e-36	163
30	TraesCS5B01G189400	chr3B	84.028	1271	148	25	1869	3091	794848010	794846747	0.000000e+00	1171
31	TraesCS5B01G189400	chrUn	90.751	346	32	0	2863	3208	57103100	57102755	2.320000e-126	462
32	TraesCS5B01G189400	chr6B	97.872	94	2	0	3212	3305	44830665	44830572	2.640000e-36	163

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	TraesCS5B01G189400	chr5B	341511731	341515035	3304	True	6104.0	6104	100.0000	1	3305	1	chr5B.!!$R1	3304
1	TraesCS5B01G189400	chr2B	83722182	83724469	2287	False	3788.0	3788	96.7220	946	3209	1	chr2B.!!$F1	2263
2	TraesCS5B01G189400	chr2D	302019948	302024780	4832	True	2673.5	3692	97.0330	1	3208	2	chr2D.!!$R2	3207
3	TraesCS5B01G189400	chr2D	459638450	459639406	956	True	1633.0	1633	97.4920	1	956	1	chr2D.!!$R1	955
4	TraesCS5B01G189400	chr3A	717429381	717431661	2280	False	3648.0	3648	95.6670	946	3208	1	chr3A.!!$F2	2262
5	TraesCS5B01G189400	chr3A	717421357	717422313	956	False	1650.0	1650	97.8060	1	956	1	chr3A.!!$F1	955
6	TraesCS5B01G189400	chr1A	14735493	14737765	2272	False	3602.0	3602	95.3650	946	3208	1	chr1A.!!$F2	2262
7	TraesCS5B01G189400	chr1A	14727674	14728630	956	False	1688.0	1688	98.5370	1	956	1	chr1A.!!$F1	955
8	TraesCS5B01G189400	chr5A	338456594	338458873	2279	True	3181.0	3181	92.0190	946	3208	1	chr5A.!!$R1	2262
9	TraesCS5B01G189400	chr5A	501187931	501189736	1805	True	2643.0	2643	93.1050	946	2752	1	chr5A.!!$R2	1806
10	TraesCS5B01G189400	chr7A	720222360	720224344	1984	True	3177.0	3177	95.7240	946	2910	1	chr7A.!!$R1	1964
11	TraesCS5B01G189400	chr1D	34229448	34231401	1953	False	2850.0	2850	92.9480	946	2912	1	chr1D.!!$F2	1966
12	TraesCS5B01G189400	chr1D	419053278	419055576	2298	False	1706.0	2935	92.4525	946	3208	2	chr1D.!!$F4	2262
13	TraesCS5B01G189400	chr1D	419034895	419035849	954	False	1657.0	1657	98.0100	3	956	1	chr1D.!!$F3	953
14	TraesCS5B01G189400	chr1D	34209150	34210102	952	False	1650.0	1650	97.9060	3	956	1	chr1D.!!$F1	953
15	TraesCS5B01G189400	chr4B	642268778	642270723	1945	False	2780.0	2780	92.3940	946	2910	1	chr4B.!!$F2	1964
16	TraesCS5B01G189400	chr4B	642259828	642260782	954	False	1657.0	1657	98.0100	3	956	1	chr4B.!!$F1	953
17	TraesCS5B01G189400	chr4A	601698734	601699684	950	True	1679.0	1679	98.5280	1	951	1	chr4A.!!$R2	950
18	TraesCS5B01G189400	chr2A	685524422	685525376	954	True	1635.0	1635	97.5920	3	956	1	chr2A.!!$R2	953
19	TraesCS5B01G189400	chr3B	794846747	794848010	1263	True	1171.0	1171	84.0280	1869	3091	1	chr3B.!!$R1	1222

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
429	430	3.081710	ACACCCACTTTATTACAGCCC	57.918	47.619	0.0	0.0	0.0	5.19	F
1776	3439	0.904649	TGAATCACCTCCGCACAGAT	59.095	50.000	0.0	0.0	0.0	2.90	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1988	3652	1.002430	CTTCAGCTACAGCCTTGGTCA	59.998	52.381	0.00	0.00	43.38	4.02	R
3243	5054	0.456995	GGAAGCCTCTTCGTGACGAG	60.457	60.000	8.02	2.93	37.14	4.18	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
429	430	3.081710	ACACCCACTTTATTACAGCCC	57.918	47.619	0.00	0.00	0.00	5.19
475	476	3.371285	GTCACTATCGTTTCCTTCCAAGC	59.629	47.826	0.00	0.00	0.00	4.01
1000	2631	4.714802	ACTACCCTGTGCACTGTGATAATA	59.285	41.667	19.41	2.76	0.00	0.98
1193	2847	3.788227	TTGTTCAAGGAGTGCCACTAT	57.212	42.857	0.00	0.00	36.29	2.12
1282	2936	8.943594	ACTACCAACCATCAATTTTTACCTTA	57.056	30.769	0.00	0.00	0.00	2.69
1290	2944	8.188139	ACCATCAATTTTTACCTTATTGCGTAG	58.812	33.333	0.00	0.00	31.08	3.51
1322	2976	9.226606	CTAATATTGTTTGAGTTACTCCACCAA	57.773	33.333	10.10	4.44	0.00	3.67
1564	3221	7.147302	ACCTATCAGCCACCTAAAATTACAGAT	60.147	37.037	0.00	0.00	0.00	2.90
1776	3439	0.904649	TGAATCACCTCCGCACAGAT	59.095	50.000	0.00	0.00	0.00	2.90
1847	3510	6.830324	TGCATGATAGCTTTCCTTACAAAGAT	59.170	34.615	0.00	0.00	35.67	2.40
1988	3652	8.547173	AGAAGATGGACAAGAATCAAACTCTAT	58.453	33.333	0.00	0.00	0.00	1.98
2043	3707	5.305585	CACACTAAGAAGCCAAGGTTTCTA	58.694	41.667	16.95	6.65	43.18	2.10
2171	3838	2.092429	TGACCAAGCAGTTGAAGGAGTT	60.092	45.455	0.00	0.00	35.46	3.01
2490	4159	1.466856	TGGAGATGCAAGGTCAATGC	58.533	50.000	0.00	0.00	44.08	3.56
2562	4236	4.464951	TGGAGATGTAAGTTCTTCGGCTTA	59.535	41.667	0.00	0.00	0.00	3.09
2662	4365	7.095187	CCTCGAAACACACTTTCTAGCTAAAAT	60.095	37.037	0.00	0.00	0.00	1.82
2681	4385	3.691049	ATAACACATGTGCCGCATAAC	57.309	42.857	25.68	0.00	35.74	1.89
2727	4431	2.130426	ACGTGCAAATGGGCCAACA	61.130	52.632	11.89	3.77	0.00	3.33
2790	4502	1.923356	CCAGCTGTGGTAAAATGGGT	58.077	50.000	13.81	0.00	39.30	4.51
2800	4512	2.594131	GTAAAATGGGTCCATAGGCCC	58.406	52.381	0.00	0.00	45.04	5.80
3130	4941	3.760693	CGGATTTCAGGACCGTCAT	57.239	52.632	0.00	0.00	41.47	3.06
3209	5020	7.381678	ACAGATTAACGACTTTCTTGTAGTGTC	59.618	37.037	0.00	0.00	0.00	3.67
3213	5024	3.624900	CGACTTTCTTGTAGTGTCGTCA	58.375	45.455	0.00	0.00	43.43	4.35
3214	5025	4.039703	CGACTTTCTTGTAGTGTCGTCAA	58.960	43.478	0.00	0.00	43.43	3.18
3215	5026	4.146616	CGACTTTCTTGTAGTGTCGTCAAG	59.853	45.833	0.00	0.00	43.43	3.02
3216	5027	3.802685	ACTTTCTTGTAGTGTCGTCAAGC	59.197	43.478	0.00	0.00	38.56	4.01
3217	5028	2.433868	TCTTGTAGTGTCGTCAAGCC	57.566	50.000	0.00	0.00	38.56	4.35
3218	5029	1.000506	TCTTGTAGTGTCGTCAAGCCC	59.999	52.381	0.00	0.00	38.56	5.19
3219	5030	0.753867	TTGTAGTGTCGTCAAGCCCA	59.246	50.000	0.00	0.00	0.00	5.36
3220	5031	0.973632	TGTAGTGTCGTCAAGCCCAT	59.026	50.000	0.00	0.00	0.00	4.00
3221	5032	1.346395	TGTAGTGTCGTCAAGCCCATT	59.654	47.619	0.00	0.00	0.00	3.16
3222	5033	1.732259	GTAGTGTCGTCAAGCCCATTG	59.268	52.381	0.00	0.00	40.52	2.82
3223	5034	0.396435	AGTGTCGTCAAGCCCATTGA	59.604	50.000	0.00	0.00	45.79	2.57
3232	5043	4.994907	TCAAGCCCATTGAGAATGAATG	57.005	40.909	0.00	0.00	43.09	2.67
3233	5044	4.602107	TCAAGCCCATTGAGAATGAATGA	58.398	39.130	0.00	0.00	42.60	2.57
3234	5045	5.018149	TCAAGCCCATTGAGAATGAATGAA	58.982	37.500	0.00	0.00	42.60	2.57
3235	5046	5.126545	TCAAGCCCATTGAGAATGAATGAAG	59.873	40.000	0.00	0.00	42.60	3.02
3236	5047	4.607239	AGCCCATTGAGAATGAATGAAGT	58.393	39.130	0.00	0.00	42.60	3.01
3237	5048	4.401519	AGCCCATTGAGAATGAATGAAGTG	59.598	41.667	0.00	0.00	42.60	3.16
3238	5049	4.400251	GCCCATTGAGAATGAATGAAGTGA	59.600	41.667	0.00	0.00	42.60	3.41
3239	5050	5.105635	GCCCATTGAGAATGAATGAAGTGAA	60.106	40.000	0.00	0.00	42.60	3.18
3240	5051	6.327934	CCCATTGAGAATGAATGAAGTGAAC	58.672	40.000	0.00	0.00	42.60	3.18
3241	5052	6.152323	CCCATTGAGAATGAATGAAGTGAACT	59.848	38.462	0.00	0.00	42.60	3.01
3242	5053	7.249147	CCATTGAGAATGAATGAAGTGAACTC	58.751	38.462	0.00	0.00	42.60	3.01
3243	5054	6.808008	TTGAGAATGAATGAAGTGAACTCC	57.192	37.500	0.00	0.00	0.00	3.85
3244	5055	6.119240	TGAGAATGAATGAAGTGAACTCCT	57.881	37.500	0.00	0.00	0.00	3.69
3245	5056	6.169094	TGAGAATGAATGAAGTGAACTCCTC	58.831	40.000	0.00	0.00	0.00	3.71
3246	5057	5.174395	AGAATGAATGAAGTGAACTCCTCG	58.826	41.667	0.00	0.00	0.00	4.63
3247	5058	4.543590	ATGAATGAAGTGAACTCCTCGT	57.456	40.909	0.00	0.00	0.00	4.18
3248	5059	3.914312	TGAATGAAGTGAACTCCTCGTC	58.086	45.455	0.00	0.00	0.00	4.20
3249	5060	3.320826	TGAATGAAGTGAACTCCTCGTCA	59.679	43.478	0.00	0.00	32.93	4.35
3250	5061	2.795175	TGAAGTGAACTCCTCGTCAC	57.205	50.000	0.00	0.00	0.00	3.67
3251	5062	1.001706	TGAAGTGAACTCCTCGTCACG	60.002	52.381	0.00	0.00	38.07	4.35
3252	5063	1.266175	GAAGTGAACTCCTCGTCACGA	59.734	52.381	0.00	0.00	38.07	4.35
3253	5064	1.315690	AGTGAACTCCTCGTCACGAA	58.684	50.000	0.00	0.00	38.07	3.85
3254	5065	1.267261	AGTGAACTCCTCGTCACGAAG	59.733	52.381	0.00	0.00	38.07	3.79
3255	5066	1.266175	GTGAACTCCTCGTCACGAAGA	59.734	52.381	0.00	0.00	34.74	2.87
3256	5067	1.535896	TGAACTCCTCGTCACGAAGAG	59.464	52.381	21.83	21.83	46.13	2.85
3259	5070	3.279183	CCTCGTCACGAAGAGGCT	58.721	61.111	14.77	0.00	46.87	4.58
3260	5071	1.587054	CCTCGTCACGAAGAGGCTT	59.413	57.895	14.77	0.00	46.87	4.35
3261	5072	0.456995	CCTCGTCACGAAGAGGCTTC	60.457	60.000	14.77	0.00	46.87	3.86
3262	5073	0.456995	CTCGTCACGAAGAGGCTTCC	60.457	60.000	0.00	0.00	34.74	3.46
3263	5074	0.894184	TCGTCACGAAGAGGCTTCCT	60.894	55.000	0.00	0.00	31.38	3.36
3264	5075	0.809385	CGTCACGAAGAGGCTTCCTA	59.191	55.000	0.00	0.00	31.76	2.94
3265	5076	1.201647	CGTCACGAAGAGGCTTCCTAA	59.798	52.381	0.00	0.00	31.76	2.69
3266	5077	2.159226	CGTCACGAAGAGGCTTCCTAAT	60.159	50.000	0.00	0.00	31.76	1.73
3267	5078	3.190874	GTCACGAAGAGGCTTCCTAATG	58.809	50.000	0.00	0.00	31.76	1.90
3268	5079	2.168521	TCACGAAGAGGCTTCCTAATGG	59.831	50.000	0.00	0.00	31.76	3.16
3269	5080	2.168521	CACGAAGAGGCTTCCTAATGGA	59.831	50.000	0.00	0.00	41.36	3.41
3270	5081	3.041946	ACGAAGAGGCTTCCTAATGGAT	58.958	45.455	0.00	0.00	42.81	3.41
3271	5082	3.181461	ACGAAGAGGCTTCCTAATGGATG	60.181	47.826	0.00	0.00	42.81	3.51
3272	5083	3.070159	CGAAGAGGCTTCCTAATGGATGA	59.930	47.826	0.00	0.00	42.81	2.92
3273	5084	4.640364	GAAGAGGCTTCCTAATGGATGAG	58.360	47.826	0.00	0.00	42.81	2.90
3274	5085	3.933886	AGAGGCTTCCTAATGGATGAGA	58.066	45.455	0.00	0.00	42.81	3.27
3275	5086	3.903090	AGAGGCTTCCTAATGGATGAGAG	59.097	47.826	0.00	0.00	42.81	3.20
3276	5087	3.645687	GAGGCTTCCTAATGGATGAGAGT	59.354	47.826	0.00	0.00	42.81	3.24
3277	5088	3.390639	AGGCTTCCTAATGGATGAGAGTG	59.609	47.826	0.00	0.00	42.81	3.51
3278	5089	3.135530	GGCTTCCTAATGGATGAGAGTGT	59.864	47.826	0.00	0.00	42.81	3.55
3279	5090	4.345257	GGCTTCCTAATGGATGAGAGTGTA	59.655	45.833	0.00	0.00	42.81	2.90
3280	5091	5.012561	GGCTTCCTAATGGATGAGAGTGTAT	59.987	44.000	0.00	0.00	42.81	2.29
3281	5092	6.162777	GCTTCCTAATGGATGAGAGTGTATC	58.837	44.000	0.00	0.00	42.81	2.24
3282	5093	6.239430	GCTTCCTAATGGATGAGAGTGTATCA	60.239	42.308	0.00	0.00	42.81	2.15
3283	5094	6.907853	TCCTAATGGATGAGAGTGTATCAG	57.092	41.667	0.00	0.00	37.46	2.90
3284	5095	5.244851	TCCTAATGGATGAGAGTGTATCAGC	59.755	44.000	0.00	0.00	37.46	4.26
3288	5099	3.383620	GATGAGAGTGTATCAGCCAGG	57.616	52.381	0.00	0.00	0.00	4.45
3289	5100	1.489481	TGAGAGTGTATCAGCCAGGG	58.511	55.000	0.00	0.00	0.00	4.45
3290	5101	1.273267	TGAGAGTGTATCAGCCAGGGT	60.273	52.381	0.00	0.00	0.00	4.34
3291	5102	1.410882	GAGAGTGTATCAGCCAGGGTC	59.589	57.143	0.00	0.00	0.00	4.46
3292	5103	1.007721	AGAGTGTATCAGCCAGGGTCT	59.992	52.381	0.00	0.00	0.00	3.85
3293	5104	1.834263	GAGTGTATCAGCCAGGGTCTT	59.166	52.381	0.00	0.00	0.00	3.01
3294	5105	1.556911	AGTGTATCAGCCAGGGTCTTG	59.443	52.381	0.00	0.00	0.00	3.02
3295	5106	1.555075	GTGTATCAGCCAGGGTCTTGA	59.445	52.381	0.00	0.00	0.00	3.02
3296	5107	1.555075	TGTATCAGCCAGGGTCTTGAC	59.445	52.381	0.00	0.00	0.00	3.18
3297	5108	1.134371	GTATCAGCCAGGGTCTTGACC	60.134	57.143	11.13	11.13	0.00	4.02
3298	5109	0.548682	ATCAGCCAGGGTCTTGACCT	60.549	55.000	17.99	3.38	39.43	3.85
3299	5110	0.768221	TCAGCCAGGGTCTTGACCTT	60.768	55.000	17.99	9.06	35.78	3.50
3300	5111	0.607489	CAGCCAGGGTCTTGACCTTG	60.607	60.000	20.64	20.64	35.78	3.61
3301	5112	1.062488	AGCCAGGGTCTTGACCTTGT	61.062	55.000	23.93	9.38	35.78	3.16
3302	5113	0.178990	GCCAGGGTCTTGACCTTGTT	60.179	55.000	23.93	6.15	35.78	2.83
3303	5114	1.609208	CCAGGGTCTTGACCTTGTTG	58.391	55.000	23.93	14.90	35.78	3.33
3304	5115	1.142870	CCAGGGTCTTGACCTTGTTGA	59.857	52.381	23.93	0.00	35.78	3.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
420	421	5.422012	CCAATTTTACTCCTTGGGCTGTAAT	59.578	40.000	0.00	0.00	36.58	1.89
429	430	8.533569	ACCAATATACCCAATTTTACTCCTTG	57.466	34.615	0.00	0.00	0.00	3.61
475	476	1.011968	TTCTCCGCAAACGATGACCG	61.012	55.000	0.00	0.00	43.93	4.79
676	677	3.992999	TGCCCAATACTTCAAATCCCAT	58.007	40.909	0.00	0.00	0.00	4.00
1000	2631	3.758554	GAGCCACATGTTTGACTTACCAT	59.241	43.478	0.00	0.00	0.00	3.55
1193	2847	6.512741	CGGTGTAGCTTTTCTTTTTCTTGCTA	60.513	38.462	0.00	0.00	0.00	3.49
1509	3166	6.083630	TGTCAAAGTGATTATGCGCTTTTAC	58.916	36.000	9.73	0.00	43.80	2.01
1847	3510	2.228925	TCAGCAAGCTTACATGCAACA	58.771	42.857	10.57	0.00	42.93	3.33
1988	3652	1.002430	CTTCAGCTACAGCCTTGGTCA	59.998	52.381	0.00	0.00	43.38	4.02
2043	3707	1.611419	CTGGATCCCCACATGCTGT	59.389	57.895	9.90	0.00	37.58	4.40
2171	3838	1.406069	GCCTGATCCTTGCTTCTTCGA	60.406	52.381	0.00	0.00	0.00	3.71
2490	4159	6.205464	AGGAACAACATCACAAATCACAGTAG	59.795	38.462	0.00	0.00	0.00	2.57
2562	4236	6.783708	TGTTTCTACACAAAATGGGTTTCT	57.216	33.333	0.00	0.00	34.65	2.52
2662	4365	2.705730	AGTTATGCGGCACATGTGTTA	58.294	42.857	26.01	11.10	40.06	2.41
2681	4385	5.717078	ATATGCACATCAGCCCATTAAAG	57.283	39.130	0.00	0.00	0.00	1.85
2727	4431	6.065976	TGGTCCATAATCATTCACACTCTT	57.934	37.500	0.00	0.00	0.00	2.85
2790	4502	2.487746	TGTACATCTGGGCCTATGGA	57.512	50.000	19.29	11.22	0.00	3.41
2800	4512	6.638610	TGGCCCATTTATTTTTGTACATCTG	58.361	36.000	0.00	0.00	0.00	2.90
3029	4840	2.912771	TGAATTGTGACGGTCTGTTGT	58.087	42.857	9.88	0.00	0.00	3.32
3130	4941	2.184020	CTGTCAAGGATGGCCGGTCA	62.184	60.000	13.22	13.22	39.96	4.02
3209	5020	2.358957	TCATTCTCAATGGGCTTGACG	58.641	47.619	0.00	0.00	38.97	4.35
3210	5021	4.400251	TCATTCATTCTCAATGGGCTTGAC	59.600	41.667	0.00	0.00	38.97	3.18
3211	5022	4.602107	TCATTCATTCTCAATGGGCTTGA	58.398	39.130	0.00	0.00	41.61	3.02
3212	5023	4.994907	TCATTCATTCTCAATGGGCTTG	57.005	40.909	0.00	0.00	39.38	4.01
3213	5024	5.021458	ACTTCATTCATTCTCAATGGGCTT	58.979	37.500	0.00	0.00	39.38	4.35
3214	5025	4.401519	CACTTCATTCATTCTCAATGGGCT	59.598	41.667	0.00	0.00	39.38	5.19
3215	5026	4.400251	TCACTTCATTCATTCTCAATGGGC	59.600	41.667	0.00	0.00	39.38	5.36
3216	5027	6.152323	AGTTCACTTCATTCATTCTCAATGGG	59.848	38.462	0.00	0.00	39.38	4.00
3217	5028	7.154435	AGTTCACTTCATTCATTCTCAATGG	57.846	36.000	0.00	0.00	39.38	3.16
3218	5029	7.120873	AGGAGTTCACTTCATTCATTCTCAATG	59.879	37.037	0.00	0.00	40.28	2.82
3219	5030	7.173722	AGGAGTTCACTTCATTCATTCTCAAT	58.826	34.615	0.00	0.00	0.00	2.57
3220	5031	6.537355	AGGAGTTCACTTCATTCATTCTCAA	58.463	36.000	0.00	0.00	0.00	3.02
3221	5032	6.119240	AGGAGTTCACTTCATTCATTCTCA	57.881	37.500	0.00	0.00	0.00	3.27
3222	5033	5.290643	CGAGGAGTTCACTTCATTCATTCTC	59.709	44.000	0.00	0.00	0.00	2.87
3223	5034	5.174395	CGAGGAGTTCACTTCATTCATTCT	58.826	41.667	0.00	0.00	0.00	2.40
3224	5035	4.932200	ACGAGGAGTTCACTTCATTCATTC	59.068	41.667	0.00	0.00	0.00	2.67
3225	5036	4.899502	ACGAGGAGTTCACTTCATTCATT	58.100	39.130	0.00	0.00	0.00	2.57
3226	5037	4.021104	TGACGAGGAGTTCACTTCATTCAT	60.021	41.667	0.00	0.00	0.00	2.57
3227	5038	3.320826	TGACGAGGAGTTCACTTCATTCA	59.679	43.478	0.00	0.00	0.00	2.57
3228	5039	3.675698	GTGACGAGGAGTTCACTTCATTC	59.324	47.826	0.00	0.00	32.19	2.67
3229	5040	3.654414	GTGACGAGGAGTTCACTTCATT	58.346	45.455	0.00	0.00	32.19	2.57
3230	5041	2.351835	CGTGACGAGGAGTTCACTTCAT	60.352	50.000	0.00	0.00	32.50	2.57
3231	5042	1.001706	CGTGACGAGGAGTTCACTTCA	60.002	52.381	0.00	0.00	32.50	3.02
3232	5043	1.266175	TCGTGACGAGGAGTTCACTTC	59.734	52.381	2.39	0.00	32.50	3.01
3233	5044	1.315690	TCGTGACGAGGAGTTCACTT	58.684	50.000	2.39	0.00	32.50	3.16
3234	5045	1.267261	CTTCGTGACGAGGAGTTCACT	59.733	52.381	11.94	0.00	37.14	3.41
3235	5046	1.266175	TCTTCGTGACGAGGAGTTCAC	59.734	52.381	15.93	0.00	37.08	3.18
3236	5047	1.601166	TCTTCGTGACGAGGAGTTCA	58.399	50.000	15.93	0.00	37.08	3.18
3243	5054	0.456995	GGAAGCCTCTTCGTGACGAG	60.457	60.000	8.02	2.93	37.14	4.18
3244	5055	0.894184	AGGAAGCCTCTTCGTGACGA	60.894	55.000	2.39	2.39	0.00	4.20
3245	5056	0.809385	TAGGAAGCCTCTTCGTGACG	59.191	55.000	0.00	0.00	34.61	4.35
3246	5057	3.190874	CATTAGGAAGCCTCTTCGTGAC	58.809	50.000	10.83	0.00	34.61	3.67
3247	5058	2.168521	CCATTAGGAAGCCTCTTCGTGA	59.831	50.000	10.83	4.61	36.89	4.35
3248	5059	2.168521	TCCATTAGGAAGCCTCTTCGTG	59.831	50.000	10.83	3.67	42.23	4.35
3249	5060	2.467880	TCCATTAGGAAGCCTCTTCGT	58.532	47.619	6.93	6.93	42.23	3.85
3261	5072	5.477510	GCTGATACACTCTCATCCATTAGG	58.522	45.833	0.00	0.00	0.00	2.69
3262	5073	5.011431	TGGCTGATACACTCTCATCCATTAG	59.989	44.000	0.00	0.00	34.78	1.73
3263	5074	4.901250	TGGCTGATACACTCTCATCCATTA	59.099	41.667	0.00	0.00	34.78	1.90
3264	5075	3.713248	TGGCTGATACACTCTCATCCATT	59.287	43.478	0.00	0.00	34.78	3.16
3265	5076	3.311990	TGGCTGATACACTCTCATCCAT	58.688	45.455	0.00	0.00	34.78	3.41
3266	5077	2.697229	CTGGCTGATACACTCTCATCCA	59.303	50.000	0.00	0.00	36.76	3.41
3267	5078	2.036992	CCTGGCTGATACACTCTCATCC	59.963	54.545	0.00	0.00	31.09	3.51
3268	5079	2.036992	CCCTGGCTGATACACTCTCATC	59.963	54.545	0.00	0.00	0.00	2.92
3269	5080	2.045524	CCCTGGCTGATACACTCTCAT	58.954	52.381	0.00	0.00	0.00	2.90
3270	5081	1.273267	ACCCTGGCTGATACACTCTCA	60.273	52.381	0.00	0.00	0.00	3.27
3271	5082	1.410882	GACCCTGGCTGATACACTCTC	59.589	57.143	0.00	0.00	0.00	3.20
3272	5083	1.007721	AGACCCTGGCTGATACACTCT	59.992	52.381	0.00	0.00	0.00	3.24
3273	5084	1.490574	AGACCCTGGCTGATACACTC	58.509	55.000	0.00	0.00	0.00	3.51
3274	5085	1.556911	CAAGACCCTGGCTGATACACT	59.443	52.381	0.00	0.00	0.00	3.55
3275	5086	1.555075	TCAAGACCCTGGCTGATACAC	59.445	52.381	0.00	0.00	0.00	2.90
3276	5087	1.555075	GTCAAGACCCTGGCTGATACA	59.445	52.381	0.00	0.00	0.00	2.29
3277	5088	1.134371	GGTCAAGACCCTGGCTGATAC	60.134	57.143	8.06	0.00	45.68	2.24
3278	5089	1.204146	GGTCAAGACCCTGGCTGATA	58.796	55.000	8.06	0.00	45.68	2.15
3279	5090	1.994463	GGTCAAGACCCTGGCTGAT	59.006	57.895	8.06	0.00	45.68	2.90
3280	5091	3.483587	GGTCAAGACCCTGGCTGA	58.516	61.111	8.06	0.00	45.68	4.26

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.