AutoCloner

Multiple sequence alignment - TraesCS5A01G175400

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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	TraesCS5A01G175400	chr5A	100.000	1856	0	0	1905	3760	368792748	368794603	0.000000e+00	3428.0
1	TraesCS5A01G175400	chr5A	100.000	762	0	0	907	1668	368791750	368792511	0.000000e+00	1408.0
2	TraesCS5A01G175400	chr5A	100.000	718	0	0	1	718	368790844	368791561	0.000000e+00	1327.0
3	TraesCS5A01G175400	chr5A	82.353	289	51	0	2432	2720	378272107	378271819	6.230000e-63	252.0
4	TraesCS5A01G175400	chr5B	95.751	1271	35	6	1905	3168	317060142	317058884	0.000000e+00	2030.0
5	TraesCS5A01G175400	chr5B	95.398	565	23	3	907	1470	317064331	317063769	0.000000e+00	896.0
6	TraesCS5A01G175400	chr5B	90.667	600	45	7	3166	3759	317058178	317057584	0.000000e+00	787.0
7	TraesCS5A01G175400	chr5B	93.382	272	7	2	457	718	317064643	317064373	3.520000e-105	392.0
8	TraesCS5A01G175400	chr5B	96.552	203	6	1	1466	1668	317060427	317060226	6.020000e-88	335.0
9	TraesCS5A01G175400	chr5B	81.356	295	54	1	2427	2720	324248739	324248445	4.850000e-59	239.0
10	TraesCS5A01G175400	chr5B	84.375	64	6	4	3201	3261	251919009	251919071	4.060000e-05	60.2
11	TraesCS5A01G175400	chr5D	96.386	1162	33	5	1905	3061	279156155	279154998	0.000000e+00	1905.0
12	TraesCS5A01G175400	chr5D	97.582	703	17	0	966	1668	279156941	279156239	0.000000e+00	1205.0
13	TraesCS5A01G175400	chr5D	92.567	713	43	5	3055	3759	279149677	279148967	0.000000e+00	1014.0
14	TraesCS5A01G175400	chr5D	92.510	721	28	7	2	711	279158095	279157390	0.000000e+00	1009.0
15	TraesCS5A01G175400	chr5D	82.414	290	49	2	2432	2720	285839832	285839544	6.230000e-63	252.0
16	TraesCS5A01G175400	chr5D	90.217	184	18	0	3519	3702	478615715	478615898	1.350000e-59	241.0
17	TraesCS5A01G175400	chr1D	83.276	293	47	2	2430	2720	372360679	372360971	6.190000e-68	268.0
18	TraesCS5A01G175400	chr1D	97.143	35	1	0	3216	3250	408436831	408436865	4.060000e-05	60.2
19	TraesCS5A01G175400	chr1A	82.935	293	48	2	2430	2720	471730130	471730422	2.880000e-66	263.0
20	TraesCS5A01G175400	chr2B	85.246	244	33	2	3511	3753	159280486	159280727	8.060000e-62	248.0
21	TraesCS5A01G175400	chr2B	89.130	184	20	0	3519	3702	459538363	459538180	2.920000e-56	230.0
22	TraesCS5A01G175400	chr2B	88.889	54	5	1	3212	3264	71242833	71242780	8.720000e-07	65.8
23	TraesCS5A01G175400	chr2B	94.872	39	2	0	3213	3251	800212160	800212122	1.130000e-05	62.1
24	TraesCS5A01G175400	chr3B	88.587	184	21	0	3519	3702	552581917	552582100	1.360000e-54	224.0
25	TraesCS5A01G175400	chr3B	90.566	53	2	3	3214	3264	27056177	27056228	2.420000e-07	67.6
26	TraesCS5A01G175400	chr3A	87.368	190	24	0	3513	3702	277166716	277166905	6.320000e-53	219.0
27	TraesCS5A01G175400	chr3D	86.432	199	26	1	3515	3712	528829188	528829386	2.270000e-52	217.0
28	TraesCS5A01G175400	chr3D	91.304	46	4	0	3216	3261	28547915	28547960	3.140000e-06	63.9
29	TraesCS5A01G175400	chr7D	81.743	241	35	8	3518	3753	214835051	214835287	3.830000e-45	193.0
30	TraesCS5A01G175400	chr2A	88.235	51	5	1	3215	3264	596353258	596353208	4.060000e-05	60.2

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	TraesCS5A01G175400	chr5A	368790844	368794603	3759	False	2054.333333	3428	100.000000	1	3760	3	chr5A.!!$F1	3759
1	TraesCS5A01G175400	chr5B	317057584	317064643	7059	True	888.000000	2030	94.350000	457	3759	5	chr5B.!!$R2	3302
2	TraesCS5A01G175400	chr5D	279154998	279158095	3097	True	1373.000000	1905	95.492667	2	3061	3	chr5D.!!$R3	3059
3	TraesCS5A01G175400	chr5D	279148967	279149677	710	True	1014.000000	1014	92.567000	3055	3759	1	chr5D.!!$R1	704

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
450	451	0.606604	ATGACCGAGTGTACACCACC	59.393	55.0	22.28	10.93	45.74	4.61	F
453	454	0.834687	ACCGAGTGTACACCACCCAT	60.835	55.0	22.28	2.35	45.74	4.00	F
640	651	0.940126	CATGAGCCGTTCATAGTGCC	59.060	55.0	0.00	0.00	44.76	5.01	F
1406	1611	0.521735	GCCGGTGATGGTCTTTGTTC	59.478	55.0	1.90	0.00	0.00	3.18	F
2254	5804	0.607489	AAGGCACCATGTCTGTCTGC	60.607	55.0	0.00	0.00	29.54	4.26	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1309	1514	0.397941	CCACCACACTGATCCTGTGT	59.602	55.000	13.64	13.64	44.93	3.72	R
1348	1553	0.681564	TCCTCTTCCTCCTGCTCGTC	60.682	60.000	0.00	0.00	0.00	4.20	R
2627	6178	1.372997	GCCGCAGTTCTTCTCGTGA	60.373	57.895	0.00	0.00	0.00	4.35	R
2672	6223	0.815213	AGCGCTTGTGCTTGAAGTCA	60.815	50.000	2.64	0.00	44.46	3.41	R
3670	7938	0.040067	GTCAAGCAAACGCCCAGAAG	60.040	55.000	0.00	0.00	0.00	2.85	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
49	50	2.103094	TGCCTCTATACACTGGTGATGC	59.897	50.000	7.78	0.00	0.00	3.91
50	51	2.366916	GCCTCTATACACTGGTGATGCT	59.633	50.000	7.78	0.00	0.00	3.79
51	52	3.553922	GCCTCTATACACTGGTGATGCTC	60.554	52.174	7.78	0.00	0.00	4.26
52	53	3.894427	CCTCTATACACTGGTGATGCTCT	59.106	47.826	7.78	0.00	0.00	4.09
53	54	4.261952	CCTCTATACACTGGTGATGCTCTG	60.262	50.000	7.78	0.00	0.00	3.35
54	55	4.536765	TCTATACACTGGTGATGCTCTGA	58.463	43.478	7.78	0.00	0.00	3.27
96	97	9.104965	CCAATGTCGAGGTCATTTATTAAAGTA	57.895	33.333	0.00	0.00	33.92	2.24
296	297	8.523464	GTGCAAAATGATAAAACTTATGCTACG	58.477	33.333	0.00	0.00	32.74	3.51
326	327	5.908341	AGTTCTTTTTATGCGGGAAAACAA	58.092	33.333	0.00	0.00	0.00	2.83
389	390	6.175471	TGTGAGATTCAGCATGTTCATAACT	58.825	36.000	0.00	0.00	37.40	2.24
436	437	3.383505	GCCAACCCCTACAAATAATGACC	59.616	47.826	0.00	0.00	0.00	4.02
441	442	4.127171	CCCCTACAAATAATGACCGAGTG	58.873	47.826	0.00	0.00	0.00	3.51
443	444	5.163385	CCCCTACAAATAATGACCGAGTGTA	60.163	44.000	0.00	0.00	0.00	2.90
444	445	5.751990	CCCTACAAATAATGACCGAGTGTAC	59.248	44.000	0.00	0.00	0.00	2.90
445	446	6.334989	CCTACAAATAATGACCGAGTGTACA	58.665	40.000	0.00	0.00	0.00	2.90
446	447	6.255020	CCTACAAATAATGACCGAGTGTACAC	59.745	42.308	18.56	18.56	0.00	2.90
447	448	4.933400	ACAAATAATGACCGAGTGTACACC	59.067	41.667	22.28	12.64	0.00	4.16
448	449	4.811969	AATAATGACCGAGTGTACACCA	57.188	40.909	22.28	12.85	0.00	4.17
449	450	2.450609	AATGACCGAGTGTACACCAC	57.549	50.000	22.28	15.22	44.89	4.16
450	451	0.606604	ATGACCGAGTGTACACCACC	59.393	55.000	22.28	10.93	45.74	4.61
451	452	1.291272	GACCGAGTGTACACCACCC	59.709	63.158	22.28	8.54	45.74	4.61
452	453	1.458020	ACCGAGTGTACACCACCCA	60.458	57.895	22.28	0.00	45.74	4.51
453	454	0.834687	ACCGAGTGTACACCACCCAT	60.835	55.000	22.28	2.35	45.74	4.00
454	455	1.187974	CCGAGTGTACACCACCCATA	58.812	55.000	22.28	0.00	45.74	2.74
455	456	1.551430	CCGAGTGTACACCACCCATAA	59.449	52.381	22.28	0.00	45.74	1.90
464	465	5.416326	TGTACACCACCCATAAAATAACAGC	59.584	40.000	0.00	0.00	0.00	4.40
582	593	3.000925	ACAACGAAGAACTGCTTACAACG	59.999	43.478	0.00	0.00	36.83	4.10
640	651	0.940126	CATGAGCCGTTCATAGTGCC	59.060	55.000	0.00	0.00	44.76	5.01
947	958	1.298014	CAGGTTCACTGCTCCCCTC	59.702	63.158	0.00	0.00	40.97	4.30
993	1198	1.542030	TCTAGCTAGCTATCAAGGCGC	59.458	52.381	24.36	0.00	34.52	6.53
1110	1315	2.327325	AACAAGCACTCCCTCTCCTA	57.673	50.000	0.00	0.00	0.00	2.94
1116	1321	1.872773	CACTCCCTCTCCTAAGCCTT	58.127	55.000	0.00	0.00	0.00	4.35
1209	1414	6.648192	ACTTAAGAAGGAAGATGAGGATGTG	58.352	40.000	10.09	0.00	0.00	3.21
1234	1439	1.937546	CTCACTCCAAATTGGGCCGC	61.938	60.000	12.67	0.00	38.32	6.53
1296	1501	1.065199	AGTGATGGTGGTTGCGATGAT	60.065	47.619	0.00	0.00	0.00	2.45
1309	1514	1.199789	GCGATGATGCAACAGGAACAA	59.800	47.619	2.25	0.00	34.15	2.83
1314	1519	2.358582	TGATGCAACAGGAACAACACAG	59.641	45.455	0.00	0.00	0.00	3.66
1406	1611	0.521735	GCCGGTGATGGTCTTTGTTC	59.478	55.000	1.90	0.00	0.00	3.18
1651	5201	1.669779	GCAGCTGATGTCCAAGATCAC	59.330	52.381	20.43	0.00	0.00	3.06
1944	5494	1.605058	TAGCTTGTGAGACGAGGGCC	61.605	60.000	0.00	0.00	30.15	5.80
2164	5714	5.728741	AGGTACCATGAAAATTCTCTCTCCT	59.271	40.000	15.94	0.00	0.00	3.69
2254	5804	0.607489	AAGGCACCATGTCTGTCTGC	60.607	55.000	0.00	0.00	29.54	4.26
2284	5834	5.651139	GCATTACCAATAGATCCATGCATCT	59.349	40.000	4.19	4.19	36.41	2.90
2769	6320	1.726791	CCAAAATGTGACCGTCGAGAG	59.273	52.381	0.00	0.00	0.00	3.20
2770	6321	1.126846	CAAAATGTGACCGTCGAGAGC	59.873	52.381	0.00	0.00	0.00	4.09
2771	6322	0.389948	AAATGTGACCGTCGAGAGCC	60.390	55.000	0.00	0.00	0.00	4.70
2772	6323	1.532604	AATGTGACCGTCGAGAGCCA	61.533	55.000	0.00	0.00	0.00	4.75
2773	6324	2.126424	GTGACCGTCGAGAGCCAC	60.126	66.667	0.00	0.00	0.00	5.01
2817	6368	1.202651	ACGGCCTGCCAGTGATTATAC	60.203	52.381	9.17	0.00	35.37	1.47
2822	6373	3.187227	GCCTGCCAGTGATTATACGATTG	59.813	47.826	0.00	0.00	0.00	2.67
2856	6407	0.033503	GGGGACCGATTGATTTGGGT	60.034	55.000	0.00	0.00	40.86	4.51
2876	6427	4.322801	GGGTATCCATGGTATTCTCCTTCG	60.323	50.000	12.58	0.00	0.00	3.79
2886	6437	5.932303	TGGTATTCTCCTTCGCATAATAAGC	59.068	40.000	0.00	0.00	0.00	3.09
3027	6584	9.685828	GTAAGTTATGGCAACTTAATTTGTTCA	57.314	29.630	12.15	6.76	42.36	3.18
3119	6676	7.928706	GCAAATACTCTCACATATACCACTCTT	59.071	37.037	0.00	0.00	0.00	2.85
3163	6720	1.343069	AGTTTGAGAGAACTCGCCCT	58.657	50.000	3.43	0.00	45.25	5.19
3169	7434	4.553330	TGAGAGAACTCGCCCTTTAAAT	57.447	40.909	3.43	0.00	45.25	1.40
3243	7508	6.464222	TCATCCGTCTCAAAATAAGTGTCTT	58.536	36.000	0.00	0.00	0.00	3.01
3246	7511	8.883731	CATCCGTCTCAAAATAAGTGTCTTAAT	58.116	33.333	0.00	0.00	0.00	1.40
3294	7559	9.726232	GTATATTTTAACGACCCTCCAAAATTC	57.274	33.333	0.00	0.00	32.61	2.17
3303	7568	6.210584	ACGACCCTCCAAAATTCAATTATTGT	59.789	34.615	4.77	0.00	0.00	2.71
3307	7572	6.818142	CCCTCCAAAATTCAATTATTGTCACC	59.182	38.462	4.77	0.00	0.00	4.02
3577	7845	6.263168	CACTACTCCTATTTGCCCCTAATTTG	59.737	42.308	0.00	0.00	0.00	2.32
3603	7871	3.384467	GCATGCTTAAATTTGCCCCTCTA	59.616	43.478	11.37	0.00	0.00	2.43
3620	7888	5.169295	CCCTCTACTGTTAGTTGCACTTAC	58.831	45.833	0.00	0.00	0.00	2.34
3633	7901	5.239525	AGTTGCACTTACAGAAATGTCCTTC	59.760	40.000	0.00	0.00	0.00	3.46
3639	7907	3.446442	ACAGAAATGTCCTTCCATGCT	57.554	42.857	0.00	0.00	0.00	3.79
3759	8034	6.079712	AGTTCTTACCTTTTGGCATAGGAT	57.920	37.500	19.56	8.92	45.59	3.24

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	3.068873	GCCTCTAAGGTAGGTCTCACATG	59.931	52.174	0.00	0.00	37.80	3.21
1	2	3.301274	GCCTCTAAGGTAGGTCTCACAT	58.699	50.000	0.00	0.00	37.80	3.21
2	3	2.042569	TGCCTCTAAGGTAGGTCTCACA	59.957	50.000	0.00	0.00	37.80	3.58
3	4	2.691011	CTGCCTCTAAGGTAGGTCTCAC	59.309	54.545	3.39	0.00	43.39	3.51
4	5	3.019799	CTGCCTCTAAGGTAGGTCTCA	57.980	52.381	3.39	0.00	43.39	3.27
10	11	1.134371	GCAACCCTGCCTCTAAGGTAG	60.134	57.143	4.28	4.28	46.21	3.18
35	36	3.771479	TCTTCAGAGCATCACCAGTGTAT	59.229	43.478	0.00	0.00	37.82	2.29
49	50	3.243501	GGTGCTAGCTCTCATCTTCAGAG	60.244	52.174	17.23	0.00	40.50	3.35
50	51	2.692557	GGTGCTAGCTCTCATCTTCAGA	59.307	50.000	17.23	0.00	0.00	3.27
51	52	2.429971	TGGTGCTAGCTCTCATCTTCAG	59.570	50.000	17.23	0.00	0.00	3.02
52	53	2.460669	TGGTGCTAGCTCTCATCTTCA	58.539	47.619	17.23	1.01	0.00	3.02
53	54	3.533606	TTGGTGCTAGCTCTCATCTTC	57.466	47.619	17.23	0.00	0.00	2.87
54	55	3.199508	ACATTGGTGCTAGCTCTCATCTT	59.800	43.478	17.23	0.00	0.00	2.40
67	68	1.453155	AATGACCTCGACATTGGTGC	58.547	50.000	0.00	0.00	36.74	5.01
201	202	7.120923	AGGGTACGTGTGTATTTCATTCTAT	57.879	36.000	0.00	0.00	32.11	1.98
214	215	5.957798	TCTACAAATCTAAGGGTACGTGTG	58.042	41.667	0.00	0.00	0.00	3.82
215	216	6.379133	TCATCTACAAATCTAAGGGTACGTGT	59.621	38.462	0.00	0.00	0.00	4.49
389	390	7.120138	GCTACTTGCTTATAAGTGTGGGTTTTA	59.880	37.037	13.91	0.00	40.85	1.52
418	419	3.778629	ACTCGGTCATTATTTGTAGGGGT	59.221	43.478	0.00	0.00	0.00	4.95
420	421	4.766375	ACACTCGGTCATTATTTGTAGGG	58.234	43.478	0.00	0.00	0.00	3.53
423	424	6.101332	GGTGTACACTCGGTCATTATTTGTA	58.899	40.000	24.55	0.00	0.00	2.41
441	442	5.416326	TGCTGTTATTTTATGGGTGGTGTAC	59.584	40.000	0.00	0.00	0.00	2.90
443	444	4.411927	TGCTGTTATTTTATGGGTGGTGT	58.588	39.130	0.00	0.00	0.00	4.16
444	445	5.596836	ATGCTGTTATTTTATGGGTGGTG	57.403	39.130	0.00	0.00	0.00	4.17
445	446	7.912778	AATATGCTGTTATTTTATGGGTGGT	57.087	32.000	0.00	0.00	0.00	4.16
454	455	9.195411	CGCCAATGATTAATATGCTGTTATTTT	57.805	29.630	0.00	0.00	0.00	1.82
455	456	8.359642	ACGCCAATGATTAATATGCTGTTATTT	58.640	29.630	0.00	0.00	0.00	1.40
464	465	4.502171	TGGCACGCCAATGATTAATATG	57.498	40.909	8.67	0.00	44.12	1.78
640	651	0.368227	GCTTCATTCGCAGAGACGTG	59.632	55.000	0.00	0.00	38.43	4.49
906	917	5.257816	TGGGTGATAGCTATTATAGGGGAGA	59.742	44.000	7.87	0.00	0.00	3.71
907	918	5.529289	TGGGTGATAGCTATTATAGGGGAG	58.471	45.833	7.87	0.00	0.00	4.30
908	919	5.529289	CTGGGTGATAGCTATTATAGGGGA	58.471	45.833	7.87	0.00	0.00	4.81
909	920	4.656112	CCTGGGTGATAGCTATTATAGGGG	59.344	50.000	7.87	3.84	0.00	4.79
910	921	5.281314	ACCTGGGTGATAGCTATTATAGGG	58.719	45.833	20.50	15.38	0.00	3.53
911	922	6.440647	TGAACCTGGGTGATAGCTATTATAGG	59.559	42.308	7.87	14.21	0.00	2.57
912	923	7.179338	AGTGAACCTGGGTGATAGCTATTATAG	59.821	40.741	7.87	4.41	0.00	1.31
913	924	7.016914	AGTGAACCTGGGTGATAGCTATTATA	58.983	38.462	7.87	0.00	0.00	0.98
914	925	5.846714	AGTGAACCTGGGTGATAGCTATTAT	59.153	40.000	7.87	0.00	0.00	1.28
915	926	5.070446	CAGTGAACCTGGGTGATAGCTATTA	59.930	44.000	7.87	0.00	37.54	0.98
921	932	1.556911	AGCAGTGAACCTGGGTGATAG	59.443	52.381	0.00	0.00	41.81	2.08
947	958	1.202663	TCCTAGAGTGGAGGATCGTCG	60.203	57.143	9.20	0.00	38.22	5.12
993	1198	1.153168	CGGGTTGGACATGGCTAGG	60.153	63.158	0.00	0.00	0.00	3.02
1032	1237	5.076057	AGGGGAAGAAAGGACGATCTATA	57.924	43.478	0.00	0.00	0.00	1.31
1110	1315	1.599576	GCTCGAAGGGAGAAGGCTT	59.400	57.895	0.00	0.00	46.23	4.35
1116	1321	1.043816	GATCATGGCTCGAAGGGAGA	58.956	55.000	0.00	0.00	46.23	3.71
1209	1414	3.119352	GCCCAATTTGGAGTGAGATGTTC	60.119	47.826	17.24	0.00	40.96	3.18
1296	1501	1.102154	CCTGTGTTGTTCCTGTTGCA	58.898	50.000	0.00	0.00	0.00	4.08
1309	1514	0.397941	CCACCACACTGATCCTGTGT	59.602	55.000	13.64	13.64	44.93	3.72
1314	1519	1.675641	GCCACCACCACACTGATCC	60.676	63.158	0.00	0.00	0.00	3.36
1348	1553	0.681564	TCCTCTTCCTCCTGCTCGTC	60.682	60.000	0.00	0.00	0.00	4.20
1406	1611	2.100631	CCAGCGGCAAAGTACTCCG	61.101	63.158	15.30	15.30	45.46	4.63
1553	5103	8.503458	AACTTAGATGGATGCATATATGAAGC	57.497	34.615	17.10	8.78	0.00	3.86
1907	5457	2.743938	CTACTACCACATCACGGATGC	58.256	52.381	12.16	0.00	43.15	3.91
1944	5494	1.689273	GGCCCCAGTCTCTACACTATG	59.311	57.143	0.00	0.00	0.00	2.23
2037	5587	2.630580	GGAGGAAGCCCTACATCTGTAG	59.369	54.545	9.88	9.88	44.53	2.74
2254	5804	5.614308	TGGATCTATTGGTAATGCTGTCAG	58.386	41.667	0.00	0.00	0.00	3.51
2624	6175	1.603172	CCGCAGTTCTTCTCGTGAGTT	60.603	52.381	0.00	0.00	0.00	3.01
2627	6178	1.372997	GCCGCAGTTCTTCTCGTGA	60.373	57.895	0.00	0.00	0.00	4.35
2672	6223	0.815213	AGCGCTTGTGCTTGAAGTCA	60.815	50.000	2.64	0.00	44.46	3.41
2753	6304	1.215647	GGCTCTCGACGGTCACATT	59.784	57.895	9.10	0.00	0.00	2.71
2769	6320	2.139917	TGCATATTTATCGTCCGTGGC	58.860	47.619	0.00	0.00	0.00	5.01
2770	6321	3.125146	CCATGCATATTTATCGTCCGTGG	59.875	47.826	0.00	0.00	0.00	4.94
2771	6322	3.424829	GCCATGCATATTTATCGTCCGTG	60.425	47.826	0.00	0.00	0.00	4.94
2772	6323	2.742053	GCCATGCATATTTATCGTCCGT	59.258	45.455	0.00	0.00	0.00	4.69
2773	6324	2.095853	GGCCATGCATATTTATCGTCCG	59.904	50.000	0.00	0.00	0.00	4.79
2822	6373	2.623416	GGTCCCCTAATATTGCACAAGC	59.377	50.000	0.00	0.00	42.57	4.01
2854	6405	4.822026	CGAAGGAGAATACCATGGATACC	58.178	47.826	21.47	12.17	0.00	2.73
2856	6407	3.901222	TGCGAAGGAGAATACCATGGATA	59.099	43.478	21.47	7.65	0.00	2.59
2886	6437	7.804614	GCTAGCAGCTAGTAACATAGTAATG	57.195	40.000	27.00	1.74	38.45	1.90
3169	7434	8.547967	ACAGCGATTTAGTTTAATGAAAGAGA	57.452	30.769	0.00	0.00	0.00	3.10
3219	7484	6.037786	AGACACTTATTTTGAGACGGATGA	57.962	37.500	0.00	0.00	0.00	2.92
3221	7486	9.449719	AATTAAGACACTTATTTTGAGACGGAT	57.550	29.630	0.00	0.00	0.00	4.18
3294	7559	8.818141	ATCGTACATCTAGGTGACAATAATTG	57.182	34.615	10.76	0.00	0.00	2.32
3303	7568	6.238293	CGAAACACTATCGTACATCTAGGTGA	60.238	42.308	10.76	0.00	35.64	4.02
3489	7757	7.875327	AATTATACCAAAATCTACAACGCCT	57.125	32.000	0.00	0.00	0.00	5.52
3577	7845	2.938451	GGGCAAATTTAAGCATGCTTCC	59.062	45.455	35.10	25.93	38.79	3.46
3603	7871	7.254795	GACATTTCTGTAAGTGCAACTAACAGT	60.255	37.037	15.34	2.19	41.09	3.55
3620	7888	3.087031	ACAGCATGGAAGGACATTTCTG	58.913	45.455	0.00	0.00	43.62	3.02
3633	7901	4.456280	TGACTAGACAGTAACAGCATGG	57.544	45.455	0.00	0.00	35.91	3.66
3639	7907	3.901844	AGCCCTTTGACTAGACAGTAACA	59.098	43.478	0.00	0.00	34.21	2.41
3670	7938	0.040067	GTCAAGCAAACGCCCAGAAG	60.040	55.000	0.00	0.00	0.00	2.85
3707	7978	8.193438	CACTCTCTTTTCCTTTTCAATTTCTGT	58.807	33.333	0.00	0.00	0.00	3.41
3721	7996	5.049336	GGTAAGAACTTGCACTCTCTTTTCC	60.049	44.000	8.26	8.09	30.90	3.13

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.