AutoCloner

Multiple sequence alignment - TraesCS1B01G198200

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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	TraesCS1B01G198200	chr1B	100.000	2813	0	0	1	2813	356299456	356296644	0.000000e+00	5195.0
1	TraesCS1B01G198200	chr1B	95.842	1996	65	16	1	1987	406092521	406090535	0.000000e+00	3210.0
2	TraesCS1B01G198200	chr1B	88.995	1045	97	12	809	1844	231604980	231603945	0.000000e+00	1277.0
3	TraesCS1B01G198200	chr1B	93.642	755	48	0	2059	2813	683987907	683988661	0.000000e+00	1129.0
4	TraesCS1B01G198200	chr1B	94.716	511	25	2	2305	2813	406051542	406051032	0.000000e+00	793.0
5	TraesCS1B01G198200	chr1B	92.727	220	14	1	1980	2197	406066536	406066317	1.630000e-82	316.0
6	TraesCS1B01G198200	chr1B	94.805	154	8	0	2157	2310	406066053	406065900	1.010000e-59	241.0
7	TraesCS1B01G198200	chr1B	88.119	202	15	7	270	467	406087405	406087209	6.060000e-57	231.0
8	TraesCS1B01G198200	chr1B	82.397	267	22	4	2071	2335	683987212	683987455	2.840000e-50	209.0
9	TraesCS1B01G198200	chr1B	92.063	126	10	0	2071	2196	406066627	406066502	8.010000e-41	178.0
10	TraesCS1B01G198200	chr1B	97.143	35	1	0	2059	2093	683987467	683987501	3.030000e-05	60.2
11	TraesCS1B01G198200	chr1D	87.350	1336	114	38	604	1903	478880121	478878805	0.000000e+00	1480.0
12	TraesCS1B01G198200	chr1D	83.201	756	68	29	2077	2812	478867747	478867031	3.060000e-179	638.0
13	TraesCS1B01G198200	chr1D	85.106	188	19	8	265	451	478875228	478875049	1.720000e-42	183.0
14	TraesCS1B01G198200	chr6D	87.208	1329	118	35	604	1899	389946387	389945078	0.000000e+00	1465.0
15	TraesCS1B01G198200	chr6D	84.656	756	76	30	2077	2812	389925555	389924820	0.000000e+00	717.0
16	TraesCS1B01G198200	chr6D	80.214	187	19	8	265	451	389933007	389932839	1.060000e-24	124.0
17	TraesCS1B01G198200	chr4A	88.417	941	96	9	910	1844	16000326	16001259	0.000000e+00	1122.0
18	TraesCS1B01G198200	chr4A	87.261	785	88	9	919	1695	682734149	682733369	0.000000e+00	885.0
19	TraesCS1B01G198200	chr4D	84.803	737	91	10	910	1638	450841299	450840576	0.000000e+00	721.0
20	TraesCS1B01G198200	chr4B	80.000	775	133	16	1081	1845	621622317	621621555	1.140000e-153	553.0
21	TraesCS1B01G198200	chr4B	90.099	202	10	8	604	803	621624245	621624052	1.290000e-63	254.0
22	TraesCS1B01G198200	chr7B	82.380	647	101	11	1203	1845	165121583	165120946	4.100000e-153	551.0
23	TraesCS1B01G198200	chr2D	82.955	616	90	12	1234	1845	376995543	376994939	2.460000e-150	542.0
24	TraesCS1B01G198200	chr2A	87.342	316	31	7	2502	2812	480024468	480024779	1.240000e-93	353.0
25	TraesCS1B01G198200	chr2A	86.624	314	38	4	2502	2813	540831830	540831519	7.460000e-91	344.0
26	TraesCS1B01G198200	chr3A	83.492	315	46	4	2502	2813	11790210	11789899	3.550000e-74	289.0

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	TraesCS1B01G198200	chr1B	356296644	356299456	2812	True	5195.000000	5195	100.000000	1	2813	1	chr1B.!!$R2	2812
1	TraesCS1B01G198200	chr1B	406087209	406092521	5312	True	1720.500000	3210	91.980500	1	1987	2	chr1B.!!$R5	1986
2	TraesCS1B01G198200	chr1B	231603945	231604980	1035	True	1277.000000	1277	88.995000	809	1844	1	chr1B.!!$R1	1035
3	TraesCS1B01G198200	chr1B	406051032	406051542	510	True	793.000000	793	94.716000	2305	2813	1	chr1B.!!$R3	508
4	TraesCS1B01G198200	chr1B	683987212	683988661	1449	False	466.066667	1129	91.060667	2059	2813	3	chr1B.!!$F1	754
5	TraesCS1B01G198200	chr1B	406065900	406066627	727	True	245.000000	316	93.198333	1980	2310	3	chr1B.!!$R4	330
6	TraesCS1B01G198200	chr1D	478875049	478880121	5072	True	831.500000	1480	86.228000	265	1903	2	chr1D.!!$R2	1638
7	TraesCS1B01G198200	chr1D	478867031	478867747	716	True	638.000000	638	83.201000	2077	2812	1	chr1D.!!$R1	735
8	TraesCS1B01G198200	chr6D	389945078	389946387	1309	True	1465.000000	1465	87.208000	604	1899	1	chr6D.!!$R3	1295
9	TraesCS1B01G198200	chr6D	389924820	389925555	735	True	717.000000	717	84.656000	2077	2812	1	chr6D.!!$R1	735
10	TraesCS1B01G198200	chr4A	16000326	16001259	933	False	1122.000000	1122	88.417000	910	1844	1	chr4A.!!$F1	934
11	TraesCS1B01G198200	chr4A	682733369	682734149	780	True	885.000000	885	87.261000	919	1695	1	chr4A.!!$R1	776
12	TraesCS1B01G198200	chr4D	450840576	450841299	723	True	721.000000	721	84.803000	910	1638	1	chr4D.!!$R1	728
13	TraesCS1B01G198200	chr4B	621621555	621624245	2690	True	403.500000	553	85.049500	604	1845	2	chr4B.!!$R1	1241
14	TraesCS1B01G198200	chr7B	165120946	165121583	637	True	551.000000	551	82.380000	1203	1845	1	chr7B.!!$R1	642
15	TraesCS1B01G198200	chr2D	376994939	376995543	604	True	542.000000	542	82.955000	1234	1845	1	chr2D.!!$R1	611

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
415	418	1.20546	TAGAAGTTGGCTCCCCCACC	61.205	60.0	0.0	0.0	45.34	4.61	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2043	3801	0.401356	TGTTCCATTGCTGCTGGAGA	59.599	50.0	10.11	0.5	43.46	3.71	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
65	67	4.751767	AAAAAGTGTGGCCAAATGAGAA	57.248	36.364	7.24	0.00	0.00	2.87
142	144	9.989869	GAGAAAATACCTAGCAAGTTGTTTATC	57.010	33.333	4.48	0.00	0.00	1.75
163	165	5.613358	TCTCTTGAAATTCGCCTTTCTTC	57.387	39.130	9.82	0.00	36.34	2.87
223	226	7.587037	ACAAGATTGTGATTTCCAGAGAAAA	57.413	32.000	0.00	0.00	41.62	2.29
291	294	2.884827	TCGTGCATGAGACAGAATCTG	58.115	47.619	8.98	8.98	38.00	2.90
317	320	7.373966	GCAACTTGCATGAAAACACATAAAAAG	59.626	33.333	8.97	0.00	44.26	2.27
318	321	8.602328	CAACTTGCATGAAAACACATAAAAAGA	58.398	29.630	6.60	0.00	0.00	2.52
319	322	8.356533	ACTTGCATGAAAACACATAAAAAGAG	57.643	30.769	6.60	0.00	0.00	2.85
320	323	7.981225	ACTTGCATGAAAACACATAAAAAGAGT	59.019	29.630	6.60	0.00	0.00	3.24
392	395	6.414408	GGCAACTATATATGTGTGATCTGC	57.586	41.667	0.00	1.97	0.00	4.26
415	418	1.205460	TAGAAGTTGGCTCCCCCACC	61.205	60.000	0.00	0.00	45.34	4.61
417	420	4.938756	AGTTGGCTCCCCCACCCA	62.939	66.667	0.00	0.00	45.34	4.51
418	421	4.678743	GTTGGCTCCCCCACCCAC	62.679	72.222	0.00	0.00	45.34	4.61
443	446	4.363138	CCTTTTCTGCTTTTGAGGACAAC	58.637	43.478	0.00	0.00	35.63	3.32
453	456	5.675323	GCTTTTGAGGACAACGTGTTAGTTT	60.675	40.000	0.00	0.00	35.63	2.66
537	540	4.524316	CCTGATCAGGTCAATTTTTGCA	57.476	40.909	30.55	0.00	43.61	4.08
544	547	4.588106	TCAGGTCAATTTTTGCATTCCAGA	59.412	37.500	0.00	0.00	0.00	3.86
612	615	1.888512	TCCATCAAGCAAAGAAGTGCC	59.111	47.619	0.00	0.00	46.14	5.01
782	792	4.202212	TGCTACAACTTCTACAGTTCTGCA	60.202	41.667	0.00	0.00	44.60	4.41
946	2422	5.220873	GCAGCTAGACTTGCCTAAAATTACC	60.221	44.000	5.21	0.00	0.00	2.85
1022	2520	3.753815	TGATTGACCTGAATGAGTTGCA	58.246	40.909	0.00	0.00	0.00	4.08
1038	2539	3.120199	AGTTGCATGACGATACAAACTGC	60.120	43.478	0.00	0.00	0.00	4.40
1157	2658	5.501156	AGTTGAATCTCCTAATCCCACAAC	58.499	41.667	0.00	0.00	36.43	3.32
1266	2770	5.279456	GGGAACTATTGCACAAGATGGTTTT	60.279	40.000	1.56	0.00	28.76	2.43
1330	2834	2.357050	CCAACCATAGGCATGAGGTTCA	60.357	50.000	6.36	0.00	42.15	3.18
1638	3146	5.061808	ACGAAAACGAGATACAATAGTGCAC	59.938	40.000	9.40	9.40	0.00	4.57
1640	3148	6.237835	CGAAAACGAGATACAATAGTGCACAT	60.238	38.462	21.04	7.78	0.00	3.21
1755	3264	2.744202	GCCATCACTCACAAAGTACCTG	59.256	50.000	0.00	0.00	36.07	4.00
1982	3534	3.706594	TGTTTTGGGAATACAAGTTGCCA	59.293	39.130	1.81	0.00	46.18	4.92
1993	3545	3.205815	AGTTGCCAAACTTGCCTGA	57.794	47.368	0.00	0.00	44.47	3.86
1994	3546	0.746659	AGTTGCCAAACTTGCCTGAC	59.253	50.000	0.00	0.00	44.47	3.51
1995	3547	0.594796	GTTGCCAAACTTGCCTGACG	60.595	55.000	0.00	0.00	33.22	4.35
1997	3549	1.034838	TGCCAAACTTGCCTGACGTT	61.035	50.000	0.00	0.00	0.00	3.99
2000	3552	1.838913	CAAACTTGCCTGACGTTTGG	58.161	50.000	0.00	0.00	42.12	3.28
2020	3778	2.216898	GCATAGACTTGCCTGATGACC	58.783	52.381	0.00	0.00	36.60	4.02
2021	3779	2.420547	GCATAGACTTGCCTGATGACCA	60.421	50.000	0.00	0.00	36.60	4.02
2022	3780	3.746751	GCATAGACTTGCCTGATGACCAT	60.747	47.826	0.00	0.00	36.60	3.55
2023	3781	4.503817	GCATAGACTTGCCTGATGACCATA	60.504	45.833	0.00	0.00	36.60	2.74
2026	3784	4.265073	AGACTTGCCTGATGACCATAAAC	58.735	43.478	0.00	0.00	0.00	2.01
2029	3787	4.702131	ACTTGCCTGATGACCATAAACTTC	59.298	41.667	0.00	0.00	0.00	3.01
2030	3788	3.270027	TGCCTGATGACCATAAACTTCG	58.730	45.455	0.00	0.00	0.00	3.79
2031	3789	2.614057	GCCTGATGACCATAAACTTCGG	59.386	50.000	0.00	0.00	0.00	4.30
2033	3791	4.682320	GCCTGATGACCATAAACTTCGGTA	60.682	45.833	0.00	0.00	31.63	4.02
2034	3792	5.611374	CCTGATGACCATAAACTTCGGTAT	58.389	41.667	0.00	0.00	31.63	2.73
2035	3793	5.696724	CCTGATGACCATAAACTTCGGTATC	59.303	44.000	0.00	0.00	31.63	2.24
2036	3794	5.607477	TGATGACCATAAACTTCGGTATCC	58.393	41.667	0.00	0.00	31.63	2.59
2037	3795	5.365605	TGATGACCATAAACTTCGGTATCCT	59.634	40.000	0.00	0.00	31.63	3.24
2038	3796	5.018539	TGACCATAAACTTCGGTATCCTG	57.981	43.478	0.00	0.00	31.63	3.86
2039	3797	4.468510	TGACCATAAACTTCGGTATCCTGT	59.531	41.667	0.00	0.00	31.63	4.00
2040	3798	5.046159	TGACCATAAACTTCGGTATCCTGTT	60.046	40.000	0.00	0.00	31.63	3.16
2041	3799	5.812286	ACCATAAACTTCGGTATCCTGTTT	58.188	37.500	0.00	0.00	35.43	2.83
2042	3800	6.243148	ACCATAAACTTCGGTATCCTGTTTT	58.757	36.000	0.00	0.00	33.63	2.43
2043	3801	6.717997	ACCATAAACTTCGGTATCCTGTTTTT	59.282	34.615	0.00	0.00	33.63	1.94
2044	3802	7.094506	ACCATAAACTTCGGTATCCTGTTTTTC	60.095	37.037	0.00	0.00	33.63	2.29
2045	3803	7.120726	CCATAAACTTCGGTATCCTGTTTTTCT	59.879	37.037	0.00	0.00	33.63	2.52
2046	3804	6.555812	AAACTTCGGTATCCTGTTTTTCTC	57.444	37.500	0.00	0.00	0.00	2.87
2047	3805	4.576879	ACTTCGGTATCCTGTTTTTCTCC	58.423	43.478	0.00	0.00	0.00	3.71
2048	3806	4.041198	ACTTCGGTATCCTGTTTTTCTCCA	59.959	41.667	0.00	0.00	0.00	3.86
2049	3807	4.202245	TCGGTATCCTGTTTTTCTCCAG	57.798	45.455	0.00	0.00	0.00	3.86
2050	3808	2.678336	CGGTATCCTGTTTTTCTCCAGC	59.322	50.000	0.00	0.00	0.00	4.85
2051	3809	3.686016	GGTATCCTGTTTTTCTCCAGCA	58.314	45.455	0.00	0.00	0.00	4.41
2052	3810	3.691609	GGTATCCTGTTTTTCTCCAGCAG	59.308	47.826	0.00	0.00	0.00	4.24
2053	3811	1.609208	TCCTGTTTTTCTCCAGCAGC	58.391	50.000	0.00	0.00	0.00	5.25
2054	3812	1.133823	TCCTGTTTTTCTCCAGCAGCA	60.134	47.619	0.00	0.00	0.00	4.41
2055	3813	1.682854	CCTGTTTTTCTCCAGCAGCAA	59.317	47.619	0.00	0.00	0.00	3.91
2056	3814	2.298163	CCTGTTTTTCTCCAGCAGCAAT	59.702	45.455	0.00	0.00	0.00	3.56
2057	3815	3.314553	CTGTTTTTCTCCAGCAGCAATG	58.685	45.455	0.00	0.00	0.00	2.82
2058	3816	2.036217	TGTTTTTCTCCAGCAGCAATGG	59.964	45.455	0.00	0.00	39.33	3.16
2059	3817	2.291209	TTTTCTCCAGCAGCAATGGA	57.709	45.000	3.44	3.44	44.63	3.41
2060	3818	2.291209	TTTCTCCAGCAGCAATGGAA	57.709	45.000	4.97	0.00	46.04	3.53
2061	3819	1.538047	TTCTCCAGCAGCAATGGAAC	58.462	50.000	4.97	0.00	46.04	3.62
2062	3820	0.401356	TCTCCAGCAGCAATGGAACA	59.599	50.000	4.97	0.00	46.04	3.18
2063	3821	1.005097	TCTCCAGCAGCAATGGAACAT	59.995	47.619	4.97	0.00	46.04	2.71
2064	3822	2.239402	TCTCCAGCAGCAATGGAACATA	59.761	45.455	4.97	0.00	46.04	2.29
2065	3823	2.357009	CTCCAGCAGCAATGGAACATAC	59.643	50.000	4.97	0.00	46.04	2.39
2066	3824	4.182091	CTCCAGCAGCAATGGAACATACA	61.182	47.826	4.97	0.00	46.04	2.29
2086	4309	8.000709	ACATACATCCATGATGACCATAACTTT	58.999	33.333	10.84	0.00	42.09	2.66
2094	4317	7.389884	CCATGATGACCATAACTTTCCTGATAG	59.610	40.741	0.00	0.00	33.31	2.08
2132	5342	4.142403	CGTGGTACCTAGATAAAACACGGA	60.142	45.833	14.36	0.00	44.49	4.69
2136	5346	5.126061	GGTACCTAGATAAAACACGGACTCA	59.874	44.000	4.06	0.00	0.00	3.41
2139	5349	7.414222	ACCTAGATAAAACACGGACTCATAA	57.586	36.000	0.00	0.00	0.00	1.90
2310	6917	1.724623	CGACCACGAAATCACACGAAT	59.275	47.619	0.00	0.00	42.66	3.34
2314	6921	1.060553	CACGAAATCACACGAATCGGG	59.939	52.381	2.20	2.20	38.29	5.14
2317	6924	0.672401	AAATCACACGAATCGGGCGT	60.672	50.000	4.18	0.00	43.67	5.68
2413	7047	1.079503	GGGACTAGCGCAAGTGAAAG	58.920	55.000	11.47	0.00	41.68	2.62
2415	7049	1.148310	GACTAGCGCAAGTGAAAGCA	58.852	50.000	11.47	0.00	41.68	3.91
2461	7095	4.452733	GCGAGCCCTAACCAGCGT	62.453	66.667	0.00	0.00	0.00	5.07
2560	7329	2.224769	TGATGAACCGCCTCTTTCCTTT	60.225	45.455	0.00	0.00	0.00	3.11
2735	7946	4.452733	GAACCACCCCCGAGAGCG	62.453	72.222	0.00	0.00	37.24	5.03
2791	8002	1.225368	CGTTGTCGATTTGCGTCGG	60.225	57.895	6.20	0.00	41.74	4.79

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
65	67	6.862209	TCTTTTTGCAGTAGTGAACATGTTT	58.138	32.000	13.36	0.00	0.00	2.83
142	144	4.379918	GGGAAGAAAGGCGAATTTCAAGAG	60.380	45.833	13.23	0.00	40.86	2.85
291	294	5.903764	TTATGTGTTTTCATGCAAGTTGC	57.096	34.783	21.17	21.17	45.29	4.17
311	314	9.081997	CACACAAGTTGCATAAAACTCTTTTTA	57.918	29.630	1.81	0.00	39.48	1.52
317	320	5.339990	ACACACACAAGTTGCATAAAACTC	58.660	37.500	1.81	0.00	39.48	3.01
318	321	5.323371	ACACACACAAGTTGCATAAAACT	57.677	34.783	1.81	0.00	42.21	2.66
319	322	7.306515	CCATAACACACACAAGTTGCATAAAAC	60.307	37.037	1.81	0.00	0.00	2.43
320	323	6.699204	CCATAACACACACAAGTTGCATAAAA	59.301	34.615	1.81	0.00	0.00	1.52
392	395	0.815615	GGGGAGCCAACTTCTATGCG	60.816	60.000	0.00	0.00	0.00	4.73
415	418	1.070601	CAAAAGCAGAAAAGGGGGTGG	59.929	52.381	0.00	0.00	0.00	4.61
417	420	2.319844	CTCAAAAGCAGAAAAGGGGGT	58.680	47.619	0.00	0.00	0.00	4.95
418	421	1.620323	CCTCAAAAGCAGAAAAGGGGG	59.380	52.381	0.00	0.00	0.00	5.40
443	446	1.956297	TGTGTCCCCAAACTAACACG	58.044	50.000	0.00	0.00	43.81	4.49
453	456	1.959710	TAGTTGCCTATGTGTCCCCA	58.040	50.000	0.00	0.00	0.00	4.96
782	792	5.696724	CAGGAACATGAAGACTAAAGACGTT	59.303	40.000	0.00	0.00	0.00	3.99
946	2422	7.434013	AGACAATGTTTTAAAAGGCAAGTAACG	59.566	33.333	0.00	0.00	0.00	3.18
1022	2520	2.348666	GCTTCGCAGTTTGTATCGTCAT	59.651	45.455	0.00	0.00	0.00	3.06
1038	2539	1.482593	ACATCTCTTACAGGGGCTTCG	59.517	52.381	0.00	0.00	0.00	3.79
1157	2658	1.009675	GCAGCAACACGTTGGACAG	60.010	57.895	11.64	0.00	40.74	3.51
1266	2770	9.227777	CAAGCTTCATCATCATTATCTATTCCA	57.772	33.333	0.00	0.00	0.00	3.53
1638	3146	1.454479	CCTTGCCCTGCACCCTATG	60.454	63.158	0.00	0.00	38.71	2.23
1640	3148	1.619363	ATCCTTGCCCTGCACCCTA	60.619	57.895	0.00	0.00	38.71	3.53
1755	3264	3.757248	ATCCCTTGGTGCGATCGCC	62.757	63.158	35.12	25.34	43.16	5.54
1884	3397	4.661222	TGGTCAATCAGTAAATGCAGGAA	58.339	39.130	0.00	0.00	0.00	3.36
1918	3431	7.679164	GCAAAGTCATCAAAGCATTTTCCAAAA	60.679	33.333	0.00	0.00	35.03	2.44
1989	3541	2.386661	AGTCTATGCCAAACGTCAGG	57.613	50.000	2.04	2.04	0.00	3.86
1990	3542	2.159653	GCAAGTCTATGCCAAACGTCAG	60.160	50.000	0.00	0.00	40.49	3.51
1991	3543	1.804151	GCAAGTCTATGCCAAACGTCA	59.196	47.619	0.00	0.00	40.49	4.35
2000	3552	2.216898	GGTCATCAGGCAAGTCTATGC	58.783	52.381	0.00	0.00	45.67	3.14
2001	3553	3.548745	TGGTCATCAGGCAAGTCTATG	57.451	47.619	0.00	0.00	0.00	2.23
2002	3554	5.894298	TTATGGTCATCAGGCAAGTCTAT	57.106	39.130	0.00	0.00	0.00	1.98
2003	3555	5.189736	AGTTTATGGTCATCAGGCAAGTCTA	59.810	40.000	0.00	0.00	0.00	2.59
2004	3556	4.018960	AGTTTATGGTCATCAGGCAAGTCT	60.019	41.667	0.00	0.00	0.00	3.24
2016	3774	4.468510	ACAGGATACCGAAGTTTATGGTCA	59.531	41.667	0.00	0.00	37.20	4.02
2017	3775	5.019785	ACAGGATACCGAAGTTTATGGTC	57.980	43.478	0.00	0.00	37.20	4.02
2018	3776	5.431179	AACAGGATACCGAAGTTTATGGT	57.569	39.130	0.00	1.68	39.80	3.55
2020	3778	8.040716	AGAAAAACAGGATACCGAAGTTTATG	57.959	34.615	0.00	0.00	37.17	1.90
2021	3779	7.336176	GGAGAAAAACAGGATACCGAAGTTTAT	59.664	37.037	0.00	0.00	37.17	1.40
2022	3780	6.652062	GGAGAAAAACAGGATACCGAAGTTTA	59.348	38.462	0.00	0.00	37.17	2.01
2023	3781	5.472478	GGAGAAAAACAGGATACCGAAGTTT	59.528	40.000	0.00	0.00	37.17	2.66
2026	3784	4.575885	TGGAGAAAAACAGGATACCGAAG	58.424	43.478	0.00	0.00	37.17	3.79
2029	3787	2.678336	GCTGGAGAAAAACAGGATACCG	59.322	50.000	0.00	0.00	35.30	4.02
2030	3788	3.686016	TGCTGGAGAAAAACAGGATACC	58.314	45.455	0.00	0.00	35.30	2.73
2031	3789	3.127721	GCTGCTGGAGAAAAACAGGATAC	59.872	47.826	0.00	0.00	34.52	2.24
2033	3791	2.165998	GCTGCTGGAGAAAAACAGGAT	58.834	47.619	0.00	0.00	34.52	3.24
2034	3792	1.133823	TGCTGCTGGAGAAAAACAGGA	60.134	47.619	0.00	0.00	35.30	3.86
2035	3793	1.321474	TGCTGCTGGAGAAAAACAGG	58.679	50.000	0.00	0.00	35.30	4.00
2036	3794	3.314553	CATTGCTGCTGGAGAAAAACAG	58.685	45.455	0.00	0.00	37.76	3.16
2037	3795	2.036217	CCATTGCTGCTGGAGAAAAACA	59.964	45.455	0.00	0.00	35.70	2.83
2038	3796	2.297033	TCCATTGCTGCTGGAGAAAAAC	59.703	45.455	6.53	0.00	37.87	2.43
2039	3797	2.596346	TCCATTGCTGCTGGAGAAAAA	58.404	42.857	6.53	0.00	37.87	1.94
2040	3798	2.291209	TCCATTGCTGCTGGAGAAAA	57.709	45.000	6.53	0.00	37.87	2.29
2041	3799	1.888512	GTTCCATTGCTGCTGGAGAAA	59.111	47.619	10.11	0.00	43.46	2.52
2042	3800	1.202915	TGTTCCATTGCTGCTGGAGAA	60.203	47.619	10.11	2.02	43.46	2.87
2043	3801	0.401356	TGTTCCATTGCTGCTGGAGA	59.599	50.000	10.11	0.50	43.46	3.71
2044	3802	1.471119	ATGTTCCATTGCTGCTGGAG	58.529	50.000	10.11	0.00	43.46	3.86
2045	3803	2.290832	TGTATGTTCCATTGCTGCTGGA	60.291	45.455	6.53	6.53	41.03	3.86
2046	3804	2.093890	TGTATGTTCCATTGCTGCTGG	58.906	47.619	0.00	0.78	34.93	4.85
2047	3805	3.243301	GGATGTATGTTCCATTGCTGCTG	60.243	47.826	0.00	0.00	33.21	4.41
2048	3806	2.954318	GGATGTATGTTCCATTGCTGCT	59.046	45.455	0.00	0.00	33.21	4.24
2049	3807	2.689471	TGGATGTATGTTCCATTGCTGC	59.311	45.455	0.00	0.00	38.35	5.25
2056	3814	4.165758	TGGTCATCATGGATGTATGTTCCA	59.834	41.667	6.15	0.00	46.86	3.53
2057	3815	4.717877	TGGTCATCATGGATGTATGTTCC	58.282	43.478	6.15	0.00	40.55	3.62
2058	3816	7.663081	AGTTATGGTCATCATGGATGTATGTTC	59.337	37.037	6.15	0.00	40.55	3.18
2059	3817	7.520798	AGTTATGGTCATCATGGATGTATGTT	58.479	34.615	6.15	0.00	40.55	2.71
2060	3818	7.083062	AGTTATGGTCATCATGGATGTATGT	57.917	36.000	6.15	0.00	40.55	2.29
2061	3819	7.991084	AAGTTATGGTCATCATGGATGTATG	57.009	36.000	6.15	0.00	40.55	2.39
2062	3820	7.667219	GGAAAGTTATGGTCATCATGGATGTAT	59.333	37.037	6.15	3.42	40.55	2.29
2063	3821	6.998074	GGAAAGTTATGGTCATCATGGATGTA	59.002	38.462	6.15	0.00	40.55	2.29
2064	3822	5.829924	GGAAAGTTATGGTCATCATGGATGT	59.170	40.000	6.15	0.00	40.55	3.06
2065	3823	6.016527	CAGGAAAGTTATGGTCATCATGGATG	60.017	42.308	0.00	0.00	41.00	3.51
2066	3824	6.066690	CAGGAAAGTTATGGTCATCATGGAT	58.933	40.000	0.00	0.00	37.30	3.41
2070	4293	6.939163	GCTATCAGGAAAGTTATGGTCATCAT	59.061	38.462	0.00	0.00	39.78	2.45
2076	4299	5.116882	GTTCGCTATCAGGAAAGTTATGGT	58.883	41.667	0.00	0.00	0.00	3.55
2077	4300	5.116180	TGTTCGCTATCAGGAAAGTTATGG	58.884	41.667	0.00	0.00	0.00	2.74
2086	4309	4.183865	CAAGTTCATGTTCGCTATCAGGA	58.816	43.478	0.00	0.00	0.00	3.86
2132	5342	4.914177	TTTTAGTTCGGGGGTTATGAGT	57.086	40.909	0.00	0.00	0.00	3.41
2314	6921	3.199891	GTATGTTCGCCCCCACGC	61.200	66.667	0.00	0.00	0.00	5.34
2317	6924	1.275421	TGGATGTATGTTCGCCCCCA	61.275	55.000	0.00	0.00	0.00	4.96
2370	7004	5.479306	TGCTACTAGTCCTTGCTACTTTTG	58.521	41.667	0.00	0.00	0.00	2.44
2413	7047	0.531974	TTTGTCGACCTGGTCAGTGC	60.532	55.000	25.42	12.51	32.09	4.40
2415	7049	0.249322	CGTTTGTCGACCTGGTCAGT	60.249	55.000	25.42	0.00	42.86	3.41
2442	7076	2.046314	GCTGGTTAGGGCTCGCAA	60.046	61.111	0.00	0.00	0.00	4.85
2461	7095	5.163426	TGGAGTTTTTAGTAGGTTCGTCACA	60.163	40.000	0.00	0.00	0.00	3.58
2539	7308	0.984230	AGGAAAGAGGCGGTTCATCA	59.016	50.000	0.00	0.00	0.00	3.07
2791	8002	1.377333	CCTTCCTCCTCGCCCAAAC	60.377	63.158	0.00	0.00	0.00	2.93

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.