AutoCloner

Multiple sequence alignment - TraesCS5B01G095300

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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	TraesCS5B01G095300	chr5B	100.000	4049	0	0	1	4049	125253666	125257714	0.000000e+00	7478.0
1	TraesCS5B01G095300	chr5B	95.735	211	9	0	722	932	125248520	125248310	1.390000e-89	340.0
2	TraesCS5B01G095300	chr5B	97.744	133	2	1	3304	3435	431076671	431076539	1.130000e-55	228.0
3	TraesCS5B01G095300	chr5A	98.276	2378	41	0	933	3310	119542509	119544886	0.000000e+00	4165.0
4	TraesCS5B01G095300	chr5A	96.613	620	16	3	3433	4049	119544884	119545501	0.000000e+00	1024.0
5	TraesCS5B01G095300	chr5D	97.521	2380	57	2	933	3310	114356343	114358722	0.000000e+00	4067.0
6	TraesCS5B01G095300	chr5D	90.200	949	44	19	1	929	170276136	170277055	0.000000e+00	1192.0
7	TraesCS5B01G095300	chr5D	92.807	570	30	7	3433	3996	114358720	114359284	0.000000e+00	815.0
8	TraesCS5B01G095300	chr5D	91.866	209	17	0	725	933	170270916	170270708	3.960000e-75	292.0
9	TraesCS5B01G095300	chr5D	100.000	32	0	0	4013	4044	114359276	114359307	4.370000e-05	60.2
10	TraesCS5B01G095300	chr7B	97.639	932	22	0	1	932	202116131	202115200	0.000000e+00	1600.0
11	TraesCS5B01G095300	chr7B	95.735	211	9	0	722	932	202133967	202134177	1.390000e-89	340.0
12	TraesCS5B01G095300	chr3B	96.996	932	15	3	1	932	648717370	648716452	0.000000e+00	1554.0
13	TraesCS5B01G095300	chr3B	97.156	211	6	0	722	932	648731041	648731251	1.380000e-94	357.0
14	TraesCS5B01G095300	chr2B	94.783	690	27	2	252	932	14832183	14832872	0.000000e+00	1066.0
15	TraesCS5B01G095300	chr2B	91.469	211	9	4	722	932	14817510	14817309	8.570000e-72	281.0
16	TraesCS5B01G095300	chr2B	94.410	161	4	1	1	161	14831848	14832003	4.040000e-60	243.0
17	TraesCS5B01G095300	chr2B	100.000	28	0	0	154	181	14831978	14832005	7.000000e-03	52.8
18	TraesCS5B01G095300	chr2A	84.433	970	84	30	1	932	595347684	595346744	0.000000e+00	893.0
19	TraesCS5B01G095300	chr1D	77.855	578	66	32	1	557	438035922	438036458	6.580000e-78	302.0
20	TraesCS5B01G095300	chr1D	98.450	129	2	0	3307	3435	43298888	43298760	1.130000e-55	228.0
21	TraesCS5B01G095300	chr1B	78.543	508	59	29	1	500	328267976	328268441	5.120000e-74	289.0
22	TraesCS5B01G095300	chr7D	77.163	578	70	32	1	557	17372340	17371804	3.080000e-71	279.0
23	TraesCS5B01G095300	chr7D	81.538	325	38	14	181	499	78266055	78265747	8.690000e-62	248.0
24	TraesCS5B01G095300	chr7D	97.710	131	3	0	3305	3435	251036054	251035924	4.070000e-55	226.0
25	TraesCS5B01G095300	chr7D	79.592	294	24	14	212	500	87242070	87242332	1.160000e-40	178.0
26	TraesCS5B01G095300	chr3D	96.992	133	4	0	3304	3436	496172751	496172883	1.460000e-54	224.0
27	TraesCS5B01G095300	chr3D	96.970	132	4	0	3305	3436	313497686	313497817	5.270000e-54	222.0
28	TraesCS5B01G095300	chr3D	95.652	138	4	2	3308	3443	536017051	536016914	1.890000e-53	220.0
29	TraesCS5B01G095300	chr2D	95.714	140	4	1	3309	3446	52026508	52026647	1.460000e-54	224.0
30	TraesCS5B01G095300	chr2D	96.992	133	4	0	3305	3437	234328745	234328877	1.460000e-54	224.0
31	TraesCS5B01G095300	chr3A	96.269	134	5	0	3309	3442	485220784	485220651	1.890000e-53	220.0
32	TraesCS5B01G095300	chr6B	89.655	145	6	4	392	527	144369459	144369603	4.160000e-40	176.0
33	TraesCS5B01G095300	chr6B	89.394	66	4	1	571	636	144369607	144369669	3.350000e-11	80.5

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	TraesCS5B01G095300	chr5B	125253666	125257714	4048	False	7478.000000	7478	100.000000	1	4049	1	chr5B.!!$F1	4048
1	TraesCS5B01G095300	chr5A	119542509	119545501	2992	False	2594.500000	4165	97.444500	933	4049	2	chr5A.!!$F1	3116
2	TraesCS5B01G095300	chr5D	114356343	114359307	2964	False	1647.400000	4067	96.776000	933	4044	3	chr5D.!!$F2	3111
3	TraesCS5B01G095300	chr5D	170276136	170277055	919	False	1192.000000	1192	90.200000	1	929	1	chr5D.!!$F1	928
4	TraesCS5B01G095300	chr7B	202115200	202116131	931	True	1600.000000	1600	97.639000	1	932	1	chr7B.!!$R1	931
5	TraesCS5B01G095300	chr3B	648716452	648717370	918	True	1554.000000	1554	96.996000	1	932	1	chr3B.!!$R1	931
6	TraesCS5B01G095300	chr2B	14831848	14832872	1024	False	453.933333	1066	96.397667	1	932	3	chr2B.!!$F1	931
7	TraesCS5B01G095300	chr2A	595346744	595347684	940	True	893.000000	893	84.433000	1	932	1	chr2A.!!$R1	931
8	TraesCS5B01G095300	chr1D	438035922	438036458	536	False	302.000000	302	77.855000	1	557	1	chr1D.!!$F1	556
9	TraesCS5B01G095300	chr7D	17371804	17372340	536	True	279.000000	279	77.163000	1	557	1	chr7D.!!$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	End Stability	Orientation
311	401	1.476488	GGCTGCACCGGAAACAATAAT	59.524	47.619	9.46	1.28	F
1084	1249	1.069668	GTAACCCGCCGATATCCAACT	59.930	52.381	0.00	3.16	F
1695	1860	1.455773	TGGGATCGTCGATGAGGCT	60.456	57.895	13.54	4.58	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1579	1744	1.989966	CTGAGGTACGCCGTGTCGAT	61.990	60.0	40.5	3.59	R
2008	2173	5.243060	TCATCTTCTTCACGACCTCAACTAA	59.757	40.0	0.0	2.24	R
3421	3587	0.759346	ATGCAATACTCCCTCCGTCC	59.241	55.0	0.0	4.79	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
62	63	3.573967	ACACAACCACAATCTCATTTCCC	59.426	43.478	0.00	0.00	0.00	3.97
311	401	1.476488	GGCTGCACCGGAAACAATAAT	59.524	47.619	9.46	0.00	0.00	1.28
852	1016	4.512944	CGCAGCAGAGGTTAACATAATGAT	59.487	41.667	8.10	0.00	0.00	2.45
1084	1249	1.069668	GTAACCCGCCGATATCCAACT	59.930	52.381	0.00	0.00	0.00	3.16
1695	1860	1.455773	TGGGATCGTCGATGAGGCT	60.456	57.895	13.54	0.00	0.00	4.58
2008	2173	0.322546	GAACGGGATGGCCAAAGAGT	60.323	55.000	10.96	5.37	35.15	3.24
2827	2992	5.564550	ACATCCTGATTAAAGCTCTGTGTT	58.435	37.500	0.00	0.00	0.00	3.32
3130	3296	1.094073	CCTCCTGCAATGAAGGCTCG	61.094	60.000	1.26	0.00	34.56	5.03
3307	3473	3.688475	CTCGGCGCCCATTGCTTTG	62.688	63.158	23.46	2.86	38.05	2.77
3308	3474	4.054825	CGGCGCCCATTGCTTTGT	62.055	61.111	23.46	0.00	38.05	2.83
3309	3475	2.695759	CGGCGCCCATTGCTTTGTA	61.696	57.895	23.46	0.00	38.05	2.41
3310	3476	1.153842	GGCGCCCATTGCTTTGTAC	60.154	57.895	18.11	0.00	38.05	2.90
3311	3477	1.595093	GGCGCCCATTGCTTTGTACT	61.595	55.000	18.11	0.00	38.05	2.73
3312	3478	0.179163	GCGCCCATTGCTTTGTACTC	60.179	55.000	0.00	0.00	38.05	2.59
3313	3479	0.451783	CGCCCATTGCTTTGTACTCC	59.548	55.000	0.00	0.00	38.05	3.85
3314	3480	0.817654	GCCCATTGCTTTGTACTCCC	59.182	55.000	0.00	0.00	36.87	4.30
3315	3481	1.616994	GCCCATTGCTTTGTACTCCCT	60.617	52.381	0.00	0.00	36.87	4.20
3316	3482	2.369394	CCCATTGCTTTGTACTCCCTC	58.631	52.381	0.00	0.00	0.00	4.30
3317	3483	2.369394	CCATTGCTTTGTACTCCCTCC	58.631	52.381	0.00	0.00	0.00	4.30
3318	3484	2.009774	CATTGCTTTGTACTCCCTCCG	58.990	52.381	0.00	0.00	0.00	4.63
3319	3485	1.053424	TTGCTTTGTACTCCCTCCGT	58.947	50.000	0.00	0.00	0.00	4.69
3320	3486	0.606604	TGCTTTGTACTCCCTCCGTC	59.393	55.000	0.00	0.00	0.00	4.79
3321	3487	0.108281	GCTTTGTACTCCCTCCGTCC	60.108	60.000	0.00	0.00	0.00	4.79
3322	3488	0.535797	CTTTGTACTCCCTCCGTCCC	59.464	60.000	0.00	0.00	0.00	4.46
3323	3489	0.178926	TTTGTACTCCCTCCGTCCCA	60.179	55.000	0.00	0.00	0.00	4.37
3324	3490	0.178926	TTGTACTCCCTCCGTCCCAA	60.179	55.000	0.00	0.00	0.00	4.12
3325	3491	0.178926	TGTACTCCCTCCGTCCCAAA	60.179	55.000	0.00	0.00	0.00	3.28
3326	3492	0.978907	GTACTCCCTCCGTCCCAAAA	59.021	55.000	0.00	0.00	0.00	2.44
3327	3493	1.558294	GTACTCCCTCCGTCCCAAAAT	59.442	52.381	0.00	0.00	0.00	1.82
3328	3494	1.073098	ACTCCCTCCGTCCCAAAATT	58.927	50.000	0.00	0.00	0.00	1.82
3329	3495	1.004394	ACTCCCTCCGTCCCAAAATTC	59.996	52.381	0.00	0.00	0.00	2.17
3330	3496	1.282157	CTCCCTCCGTCCCAAAATTCT	59.718	52.381	0.00	0.00	0.00	2.40
3331	3497	1.708551	TCCCTCCGTCCCAAAATTCTT	59.291	47.619	0.00	0.00	0.00	2.52
3332	3498	1.818674	CCCTCCGTCCCAAAATTCTTG	59.181	52.381	0.00	0.00	0.00	3.02
3333	3499	2.514803	CCTCCGTCCCAAAATTCTTGT	58.485	47.619	0.00	0.00	0.00	3.16
3334	3500	2.488153	CCTCCGTCCCAAAATTCTTGTC	59.512	50.000	0.00	0.00	0.00	3.18
3335	3501	3.412386	CTCCGTCCCAAAATTCTTGTCT	58.588	45.455	0.00	0.00	0.00	3.41
3336	3502	3.821033	CTCCGTCCCAAAATTCTTGTCTT	59.179	43.478	0.00	0.00	0.00	3.01
3337	3503	4.975631	TCCGTCCCAAAATTCTTGTCTTA	58.024	39.130	0.00	0.00	0.00	2.10
3338	3504	4.758165	TCCGTCCCAAAATTCTTGTCTTAC	59.242	41.667	0.00	0.00	0.00	2.34
3339	3505	4.517453	CCGTCCCAAAATTCTTGTCTTACA	59.483	41.667	0.00	0.00	0.00	2.41
3340	3506	5.183140	CCGTCCCAAAATTCTTGTCTTACAT	59.817	40.000	0.00	0.00	0.00	2.29
3341	3507	6.294508	CCGTCCCAAAATTCTTGTCTTACATT	60.295	38.462	0.00	0.00	0.00	2.71
3342	3508	7.145323	CGTCCCAAAATTCTTGTCTTACATTT	58.855	34.615	0.00	0.00	0.00	2.32
3343	3509	7.114811	CGTCCCAAAATTCTTGTCTTACATTTG	59.885	37.037	0.00	0.00	0.00	2.32
3344	3510	7.926018	GTCCCAAAATTCTTGTCTTACATTTGT	59.074	33.333	0.00	0.00	27.14	2.83
3345	3511	8.141268	TCCCAAAATTCTTGTCTTACATTTGTC	58.859	33.333	0.00	0.00	27.14	3.18
3346	3512	8.143835	CCCAAAATTCTTGTCTTACATTTGTCT	58.856	33.333	0.00	0.00	27.14	3.41
3357	3523	9.987272	TGTCTTACATTTGTCTAGATATGGATG	57.013	33.333	13.62	10.09	0.00	3.51
3358	3524	9.988815	GTCTTACATTTGTCTAGATATGGATGT	57.011	33.333	13.92	13.92	0.00	3.06
3378	3544	9.740239	TGGATGTATCTAATACTAAAACGTGAC	57.260	33.333	0.00	0.00	36.70	3.67
3379	3545	9.962783	GGATGTATCTAATACTAAAACGTGACT	57.037	33.333	0.00	0.00	36.70	3.41
3389	3555	6.963049	ACTAAAACGTGACTTGATACATCC	57.037	37.500	0.00	0.00	0.00	3.51
3390	3556	4.921470	AAAACGTGACTTGATACATCCG	57.079	40.909	0.00	0.00	0.00	4.18
3391	3557	3.587797	AACGTGACTTGATACATCCGT	57.412	42.857	0.00	0.00	0.00	4.69
3392	3558	4.707030	AACGTGACTTGATACATCCGTA	57.293	40.909	0.00	0.00	0.00	4.02
3393	3559	4.913335	ACGTGACTTGATACATCCGTAT	57.087	40.909	0.00	0.00	41.16	3.06
3409	3575	8.693120	ACATCCGTATCTAGACAAATCTAAGA	57.307	34.615	0.00	0.00	36.98	2.10
3410	3576	8.569641	ACATCCGTATCTAGACAAATCTAAGAC	58.430	37.037	0.00	0.00	36.98	3.01
3411	3577	8.568794	CATCCGTATCTAGACAAATCTAAGACA	58.431	37.037	0.00	0.00	36.98	3.41
3412	3578	8.515695	TCCGTATCTAGACAAATCTAAGACAA	57.484	34.615	0.00	0.00	36.98	3.18
3413	3579	8.622157	TCCGTATCTAGACAAATCTAAGACAAG	58.378	37.037	0.00	0.00	36.98	3.16
3414	3580	8.622157	CCGTATCTAGACAAATCTAAGACAAGA	58.378	37.037	0.00	0.00	36.98	3.02
3422	3588	8.579863	AGACAAATCTAAGACAAGAATTTTGGG	58.420	33.333	0.00	0.00	33.04	4.12
3423	3589	8.477419	ACAAATCTAAGACAAGAATTTTGGGA	57.523	30.769	0.00	0.00	33.04	4.37
3424	3590	8.360390	ACAAATCTAAGACAAGAATTTTGGGAC	58.640	33.333	0.00	0.00	33.04	4.46
3425	3591	6.743575	ATCTAAGACAAGAATTTTGGGACG	57.256	37.500	5.68	0.00	0.00	4.79
3426	3592	5.001232	TCTAAGACAAGAATTTTGGGACGG	58.999	41.667	0.00	0.00	0.00	4.79
3427	3593	3.502123	AGACAAGAATTTTGGGACGGA	57.498	42.857	0.00	0.00	0.00	4.69
3428	3594	3.412386	AGACAAGAATTTTGGGACGGAG	58.588	45.455	0.00	0.00	0.00	4.63
3429	3595	2.488153	GACAAGAATTTTGGGACGGAGG	59.512	50.000	0.00	0.00	0.00	4.30
3430	3596	1.818674	CAAGAATTTTGGGACGGAGGG	59.181	52.381	0.00	0.00	0.00	4.30
3431	3597	1.368374	AGAATTTTGGGACGGAGGGA	58.632	50.000	0.00	0.00	0.00	4.20
3496	3662	6.988109	CTGAAAATCTTTGCAGAAGAAGTG	57.012	37.500	13.04	1.85	44.98	3.16
3580	3746	7.277098	ACTTCATGCAAAAATTTATAGCTGCTG	59.723	33.333	13.43	0.00	0.00	4.41
3702	3869	7.834181	TGGAAATTGAAGTAAAGAGGATTAGGG	59.166	37.037	0.00	0.00	0.00	3.53
3725	3892	6.481976	GGGAATTTAGTTTGAAACAAAGGGTG	59.518	38.462	11.02	0.00	0.00	4.61
3866	4036	7.703621	CGATGCTTTCTGTATTGAATTTGGATT	59.296	33.333	0.00	0.00	0.00	3.01
3881	4051	1.140852	TGGATTGGCAGAAGTATCCCG	59.859	52.381	11.61	0.00	36.53	5.14
3920	4090	5.510671	AGCTTAATATTATGTGTGTTGCGC	58.489	37.500	0.00	0.00	0.00	6.09
3929	4099	2.993545	TGTGTGTTGCGCAAAGTTATC	58.006	42.857	26.87	11.98	34.22	1.75
3996	4166	3.455990	TGCAACACAGCAATGTTCAAT	57.544	38.095	2.82	0.00	40.89	2.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
62	63	5.707242	TGAGAAGGTCTGTAGTTGTAGTG	57.293	43.478	0.00	0.00	0.00	2.74
311	401	7.845037	TGCAAATCCATAATGTTCATGGTTTA	58.155	30.769	0.00	0.00	43.03	2.01
852	1016	4.797693	TTCTGTCAAACGCAAATTACGA	57.202	36.364	7.70	0.00	0.00	3.43
1048	1213	1.134670	GTTACGGGCTGAGAGATTGCT	60.135	52.381	0.00	0.00	0.00	3.91
1049	1214	1.291132	GTTACGGGCTGAGAGATTGC	58.709	55.000	0.00	0.00	0.00	3.56
1076	1241	3.307199	GGAGACGGTGGAAAAGTTGGATA	60.307	47.826	0.00	0.00	0.00	2.59
1576	1741	2.180017	GTACGCCGTGTCGATGGT	59.820	61.111	0.00	0.00	0.00	3.55
1579	1744	1.989966	CTGAGGTACGCCGTGTCGAT	61.990	60.000	0.00	0.00	40.50	3.59
2008	2173	5.243060	TCATCTTCTTCACGACCTCAACTAA	59.757	40.000	0.00	0.00	0.00	2.24
2827	2992	6.417258	TGGCATCATCAACTCTTCTTTCATA	58.583	36.000	0.00	0.00	0.00	2.15
3130	3296	0.886563	AGCAAAGATGAGCCTGTTGC	59.113	50.000	0.00	0.00	43.83	4.17
3307	3473	0.978907	TTTTGGGACGGAGGGAGTAC	59.021	55.000	0.00	0.00	0.00	2.73
3308	3474	1.961133	ATTTTGGGACGGAGGGAGTA	58.039	50.000	0.00	0.00	0.00	2.59
3309	3475	1.004394	GAATTTTGGGACGGAGGGAGT	59.996	52.381	0.00	0.00	0.00	3.85
3310	3476	1.282157	AGAATTTTGGGACGGAGGGAG	59.718	52.381	0.00	0.00	0.00	4.30
3311	3477	1.368374	AGAATTTTGGGACGGAGGGA	58.632	50.000	0.00	0.00	0.00	4.20
3312	3478	1.818674	CAAGAATTTTGGGACGGAGGG	59.181	52.381	0.00	0.00	0.00	4.30
3313	3479	2.488153	GACAAGAATTTTGGGACGGAGG	59.512	50.000	0.00	0.00	0.00	4.30
3314	3480	3.412386	AGACAAGAATTTTGGGACGGAG	58.588	45.455	0.00	0.00	0.00	4.63
3315	3481	3.502123	AGACAAGAATTTTGGGACGGA	57.498	42.857	0.00	0.00	0.00	4.69
3316	3482	4.517453	TGTAAGACAAGAATTTTGGGACGG	59.483	41.667	0.00	0.00	0.00	4.79
3317	3483	5.682943	TGTAAGACAAGAATTTTGGGACG	57.317	39.130	5.68	0.00	0.00	4.79
3318	3484	7.926018	ACAAATGTAAGACAAGAATTTTGGGAC	59.074	33.333	7.26	0.00	31.16	4.46
3319	3485	8.017418	ACAAATGTAAGACAAGAATTTTGGGA	57.983	30.769	7.26	0.00	31.16	4.37
3320	3486	8.143835	AGACAAATGTAAGACAAGAATTTTGGG	58.856	33.333	7.26	0.00	31.16	4.12
3331	3497	9.987272	CATCCATATCTAGACAAATGTAAGACA	57.013	33.333	0.00	0.00	0.00	3.41
3332	3498	9.988815	ACATCCATATCTAGACAAATGTAAGAC	57.011	33.333	0.00	0.00	0.00	3.01
3352	3518	9.740239	GTCACGTTTTAGTATTAGATACATCCA	57.260	33.333	0.00	0.00	38.21	3.41
3353	3519	9.962783	AGTCACGTTTTAGTATTAGATACATCC	57.037	33.333	0.00	0.00	38.21	3.51
3363	3529	9.095065	GGATGTATCAAGTCACGTTTTAGTATT	57.905	33.333	0.00	0.00	0.00	1.89
3364	3530	7.434307	CGGATGTATCAAGTCACGTTTTAGTAT	59.566	37.037	0.00	0.00	0.00	2.12
3365	3531	6.748658	CGGATGTATCAAGTCACGTTTTAGTA	59.251	38.462	0.00	0.00	0.00	1.82
3366	3532	5.575606	CGGATGTATCAAGTCACGTTTTAGT	59.424	40.000	0.00	0.00	0.00	2.24
3367	3533	5.575606	ACGGATGTATCAAGTCACGTTTTAG	59.424	40.000	0.00	0.00	0.00	1.85
3368	3534	5.472148	ACGGATGTATCAAGTCACGTTTTA	58.528	37.500	0.00	0.00	0.00	1.52
3369	3535	4.312443	ACGGATGTATCAAGTCACGTTTT	58.688	39.130	0.00	0.00	0.00	2.43
3370	3536	3.921677	ACGGATGTATCAAGTCACGTTT	58.078	40.909	0.00	0.00	0.00	3.60
3371	3537	3.587797	ACGGATGTATCAAGTCACGTT	57.412	42.857	0.00	0.00	0.00	3.99
3372	3538	4.913335	ATACGGATGTATCAAGTCACGT	57.087	40.909	0.00	0.00	36.56	4.49
3383	3549	9.788889	TCTTAGATTTGTCTAGATACGGATGTA	57.211	33.333	0.00	0.00	34.45	2.29
3384	3550	8.569641	GTCTTAGATTTGTCTAGATACGGATGT	58.430	37.037	0.00	0.00	0.00	3.06
3385	3551	8.568794	TGTCTTAGATTTGTCTAGATACGGATG	58.431	37.037	0.00	0.00	0.00	3.51
3386	3552	8.693120	TGTCTTAGATTTGTCTAGATACGGAT	57.307	34.615	0.00	0.00	0.00	4.18
3387	3553	8.515695	TTGTCTTAGATTTGTCTAGATACGGA	57.484	34.615	0.00	0.00	0.00	4.69
3388	3554	8.622157	TCTTGTCTTAGATTTGTCTAGATACGG	58.378	37.037	0.00	0.00	0.00	4.02
3396	3562	8.579863	CCCAAAATTCTTGTCTTAGATTTGTCT	58.420	33.333	0.00	0.00	28.79	3.41
3397	3563	8.576442	TCCCAAAATTCTTGTCTTAGATTTGTC	58.424	33.333	0.00	0.00	28.79	3.18
3398	3564	8.360390	GTCCCAAAATTCTTGTCTTAGATTTGT	58.640	33.333	0.00	0.00	28.79	2.83
3399	3565	7.538678	CGTCCCAAAATTCTTGTCTTAGATTTG	59.461	37.037	0.00	0.00	29.84	2.32
3400	3566	7.309194	CCGTCCCAAAATTCTTGTCTTAGATTT	60.309	37.037	0.00	0.00	0.00	2.17
3401	3567	6.151144	CCGTCCCAAAATTCTTGTCTTAGATT	59.849	38.462	0.00	0.00	0.00	2.40
3402	3568	5.648092	CCGTCCCAAAATTCTTGTCTTAGAT	59.352	40.000	0.00	0.00	0.00	1.98
3403	3569	5.001232	CCGTCCCAAAATTCTTGTCTTAGA	58.999	41.667	0.00	0.00	0.00	2.10
3404	3570	5.001232	TCCGTCCCAAAATTCTTGTCTTAG	58.999	41.667	0.00	0.00	0.00	2.18
3405	3571	4.975631	TCCGTCCCAAAATTCTTGTCTTA	58.024	39.130	0.00	0.00	0.00	2.10
3406	3572	3.821033	CTCCGTCCCAAAATTCTTGTCTT	59.179	43.478	0.00	0.00	0.00	3.01
3407	3573	3.412386	CTCCGTCCCAAAATTCTTGTCT	58.588	45.455	0.00	0.00	0.00	3.41
3408	3574	2.488153	CCTCCGTCCCAAAATTCTTGTC	59.512	50.000	0.00	0.00	0.00	3.18
3409	3575	2.514803	CCTCCGTCCCAAAATTCTTGT	58.485	47.619	0.00	0.00	0.00	3.16
3410	3576	1.818674	CCCTCCGTCCCAAAATTCTTG	59.181	52.381	0.00	0.00	0.00	3.02
3411	3577	1.708551	TCCCTCCGTCCCAAAATTCTT	59.291	47.619	0.00	0.00	0.00	2.52
3412	3578	1.282157	CTCCCTCCGTCCCAAAATTCT	59.718	52.381	0.00	0.00	0.00	2.40
3413	3579	1.004394	ACTCCCTCCGTCCCAAAATTC	59.996	52.381	0.00	0.00	0.00	2.17
3414	3580	1.073098	ACTCCCTCCGTCCCAAAATT	58.927	50.000	0.00	0.00	0.00	1.82
3415	3581	1.961133	TACTCCCTCCGTCCCAAAAT	58.039	50.000	0.00	0.00	0.00	1.82
3416	3582	1.961133	ATACTCCCTCCGTCCCAAAA	58.039	50.000	0.00	0.00	0.00	2.44
3417	3583	1.557832	CAATACTCCCTCCGTCCCAAA	59.442	52.381	0.00	0.00	0.00	3.28
3418	3584	1.200519	CAATACTCCCTCCGTCCCAA	58.799	55.000	0.00	0.00	0.00	4.12
3419	3585	1.335132	GCAATACTCCCTCCGTCCCA	61.335	60.000	0.00	0.00	0.00	4.37
3420	3586	1.335132	TGCAATACTCCCTCCGTCCC	61.335	60.000	0.00	0.00	0.00	4.46
3421	3587	0.759346	ATGCAATACTCCCTCCGTCC	59.241	55.000	0.00	0.00	0.00	4.79
3422	3588	2.622064	AATGCAATACTCCCTCCGTC	57.378	50.000	0.00	0.00	0.00	4.79
3423	3589	2.238646	TGAAATGCAATACTCCCTCCGT	59.761	45.455	0.00	0.00	0.00	4.69
3424	3590	2.874701	CTGAAATGCAATACTCCCTCCG	59.125	50.000	0.00	0.00	0.00	4.63
3425	3591	3.117888	TCCTGAAATGCAATACTCCCTCC	60.118	47.826	0.00	0.00	0.00	4.30
3426	3592	4.156455	TCCTGAAATGCAATACTCCCTC	57.844	45.455	0.00	0.00	0.00	4.30
3427	3593	4.591321	TTCCTGAAATGCAATACTCCCT	57.409	40.909	0.00	0.00	0.00	4.20
3428	3594	4.889409	TCATTCCTGAAATGCAATACTCCC	59.111	41.667	0.00	0.00	43.80	4.30
3429	3595	6.645790	ATCATTCCTGAAATGCAATACTCC	57.354	37.500	0.00	0.00	43.80	3.85
3430	3596	8.242053	CCATATCATTCCTGAAATGCAATACTC	58.758	37.037	0.00	0.00	43.80	2.59
3431	3597	7.946219	TCCATATCATTCCTGAAATGCAATACT	59.054	33.333	0.00	0.00	43.80	2.12
3496	3662	6.591834	TGCAAAGAGCTAGAAGAAACATACTC	59.408	38.462	0.00	0.00	45.94	2.59
3580	3746	8.937634	TTCCTCTCCAGTATTCGTAAATTAAC	57.062	34.615	0.00	0.00	0.00	2.01
3588	3754	3.128938	CGTCTTTCCTCTCCAGTATTCGT	59.871	47.826	0.00	0.00	0.00	3.85
3678	3845	9.462606	TTCCCTAATCCTCTTTACTTCAATTTC	57.537	33.333	0.00	0.00	0.00	2.17
3702	3869	7.045416	ACCACCCTTTGTTTCAAACTAAATTC	58.955	34.615	1.10	0.00	0.00	2.17
3725	3892	9.575783	CTTACTGACTACTAGAAATTTCTGACC	57.424	37.037	27.37	12.42	38.19	4.02
3840	4010	6.554419	TCCAAATTCAATACAGAAAGCATCG	58.446	36.000	0.00	0.00	0.00	3.84
3866	4036	1.757118	CTTCTCGGGATACTTCTGCCA	59.243	52.381	0.00	0.00	0.00	4.92
3881	4051	3.311486	AAGCTACAGACTGCACTTCTC	57.689	47.619	1.25	0.00	0.00	2.87
3920	4090	3.221964	GCCAAGGCACAGATAACTTTG	57.778	47.619	6.14	0.00	41.49	2.77
3996	4166	5.304778	TGAGACAAATTAGTGCAGCTACAA	58.695	37.500	0.00	0.00	0.00	2.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.