AutoCloner

Multiple sequence alignment - TraesCS7A01G555800

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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	TraesCS7A01G555800	chr7A	100.000	2648	0	0	1	2648	727531525	727534172	0.000000e+00	4891.0
1	TraesCS7A01G555800	chr7A	79.753	973	147	36	725	1688	727692100	727693031	0.000000e+00	660.0
2	TraesCS7A01G555800	chr7A	84.211	456	60	8	1969	2417	130190847	130191297	1.460000e-117	433.0
3	TraesCS7A01G555800	chr7A	78.899	327	54	11	989	1315	727832969	727833280	9.610000e-50	207.0
4	TraesCS7A01G555800	chr7A	74.860	537	89	26	1126	1659	727710462	727710955	4.470000e-48	202.0
5	TraesCS7A01G555800	chr7A	83.969	131	13	4	438	560	727586522	727586652	4.630000e-23	119.0
6	TraesCS7A01G555800	chr7A	91.837	49	4	0	521	569	727710101	727710149	4.730000e-08	69.4
7	TraesCS7A01G555800	chr7D	91.785	1765	120	15	1	1756	638383220	638381472	0.000000e+00	2433.0
8	TraesCS7A01G555800	chr7D	87.889	900	92	13	1754	2646	638381432	638380543	0.000000e+00	1042.0
9	TraesCS7A01G555800	chr7D	93.561	264	13	3	349	610	638400655	638400394	8.890000e-105	390.0
10	TraesCS7A01G555800	chr7D	86.761	355	30	5	1	355	638401173	638400836	1.920000e-101	379.0
11	TraesCS7A01G555800	chr7D	77.757	526	90	16	1103	1625	638288414	638287913	5.540000e-77	298.0
12	TraesCS7A01G555800	chr7D	75.581	430	66	20	1101	1527	638274331	638273938	2.710000e-40	176.0
13	TraesCS7A01G555800	chr7B	89.689	611	56	3	1	611	734359315	734359918	0.000000e+00	773.0
14	TraesCS7A01G555800	chr7B	92.188	512	40	0	1164	1675	734360560	734361071	0.000000e+00	725.0
15	TraesCS7A01G555800	chr7B	77.143	665	110	26	992	1647	734379429	734380060	5.420000e-92	348.0
16	TraesCS7A01G555800	chr7B	90.157	254	20	1	864	1112	734360306	734360559	2.540000e-85	326.0
17	TraesCS7A01G555800	chr7B	76.224	429	68	19	1098	1524	734426581	734426977	2.080000e-46	196.0
18	TraesCS7A01G555800	chr7B	90.604	149	11	2	725	872	734359906	734360052	7.480000e-46	195.0
19	TraesCS7A01G555800	chr7B	76.737	331	44	21	993	1323	734430283	734430580	1.270000e-33	154.0
20	TraesCS7A01G555800	chr3A	83.275	574	82	14	1965	2528	14036542	14035973	1.410000e-142	516.0
21	TraesCS7A01G555800	chr3A	90.625	64	5	1	666	729	728313141	728313079	1.690000e-12	84.2
22	TraesCS7A01G555800	chr3A	90.000	50	4	1	674	722	739389239	739389190	2.200000e-06	63.9
23	TraesCS7A01G555800	chr3A	100.000	29	0	0	1725	1753	41173510	41173538	1.000000e-03	54.7
24	TraesCS7A01G555800	chr5D	85.106	517	59	15	1952	2460	560255833	560256339	1.820000e-141	512.0
25	TraesCS7A01G555800	chr5D	79.232	573	99	14	1972	2528	96427257	96426689	5.350000e-102	381.0
26	TraesCS7A01G555800	chr2A	84.267	464	60	9	1961	2417	440097128	440097585	8.700000e-120	440.0
27	TraesCS7A01G555800	chr2A	83.913	460	62	8	1965	2417	21259030	21258576	1.880000e-116	429.0
28	TraesCS7A01G555800	chr6D	83.264	484	63	13	2065	2537	429875962	429876438	1.880000e-116	429.0
29	TraesCS7A01G555800	chr4A	83.913	460	62	8	1965	2417	522132773	522133227	1.880000e-116	429.0
30	TraesCS7A01G555800	chr6B	87.037	108	12	2	1409	1516	717596712	717596607	1.290000e-23	121.0
31	TraesCS7A01G555800	chr1D	79.167	120	19	6	600	717	19289929	19289814	7.860000e-11	78.7
32	TraesCS7A01G555800	chr5B	92.157	51	4	0	672	722	417587097	417587147	3.660000e-09	73.1
33	TraesCS7A01G555800	chr3D	90.741	54	5	0	673	726	558339351	558339298	3.660000e-09	73.1
34	TraesCS7A01G555800	chr3B	92.000	50	4	0	673	722	567533408	567533359	1.320000e-08	71.3
35	TraesCS7A01G555800	chr4D	93.333	45	3	0	673	717	419112685	419112729	1.700000e-07	67.6
36	TraesCS7A01G555800	chr4B	80.435	92	14	4	609	699	139635560	139635648	1.700000e-07	67.6

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	TraesCS7A01G555800	chr7A	727531525	727534172	2647	False	4891.00	4891	100.0000	1	2648	1	chr7A.!!$F2	2647
1	TraesCS7A01G555800	chr7A	727692100	727693031	931	False	660.00	660	79.7530	725	1688	1	chr7A.!!$F4	963
2	TraesCS7A01G555800	chr7D	638380543	638383220	2677	True	1737.50	2433	89.8370	1	2646	2	chr7D.!!$R3	2645
3	TraesCS7A01G555800	chr7D	638400394	638401173	779	True	384.50	390	90.1610	1	610	2	chr7D.!!$R4	609
4	TraesCS7A01G555800	chr7D	638287913	638288414	501	True	298.00	298	77.7570	1103	1625	1	chr7D.!!$R2	522
5	TraesCS7A01G555800	chr7B	734359315	734361071	1756	False	504.75	773	90.6595	1	1675	4	chr7B.!!$F2	1674
6	TraesCS7A01G555800	chr7B	734379429	734380060	631	False	348.00	348	77.1430	992	1647	1	chr7B.!!$F1	655
7	TraesCS7A01G555800	chr3A	14035973	14036542	569	True	516.00	516	83.2750	1965	2528	1	chr3A.!!$R1	563
8	TraesCS7A01G555800	chr5D	560255833	560256339	506	False	512.00	512	85.1060	1952	2460	1	chr5D.!!$F1	508
9	TraesCS7A01G555800	chr5D	96426689	96427257	568	True	381.00	381	79.2320	1972	2528	1	chr5D.!!$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	Self end TH	Hairpin	End Stability	Orientation
963	1442	0.674895	ACATCCGCTCAGTCAAAGCC	60.675	55.0	0.0	0.0	36.36	4.35	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2184	2727	0.250424	TCGTACAGACACCGACCTGA	60.25	55.0	0.0	0.0	34.65	3.86	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
27	28	7.609960	TGATTTTGCTTACATGGCTATTTTCA	58.390	30.769	0.00	0.00	0.00	2.69
112	114	3.903090	TCATTTCTTCACCATTTTGGCCT	59.097	39.130	3.32	0.00	42.67	5.19
163	165	9.558396	TGCTATTTTCTCCAAATTTTTGTTGAT	57.442	25.926	2.63	0.00	36.43	2.57
185	187	7.537715	TGATGAACAAAGAATTTCGTGCATAT	58.462	30.769	0.00	0.00	36.31	1.78
192	194	6.889301	AAGAATTTCGTGCATATGATCCAT	57.111	33.333	6.97	0.00	0.00	3.41
198	200	6.638096	TTCGTGCATATGATCCATCATTTT	57.362	33.333	6.97	0.00	44.70	1.82
239	241	2.324541	AGCCATTTTTGCACAACCCTA	58.675	42.857	0.00	0.00	0.00	3.53
249	251	8.522178	TTTTTGCACAACCCTATAATAAAACG	57.478	30.769	0.00	0.00	0.00	3.60
250	252	6.821031	TTGCACAACCCTATAATAAAACGT	57.179	33.333	0.00	0.00	0.00	3.99
251	253	6.821031	TGCACAACCCTATAATAAAACGTT	57.179	33.333	0.00	0.00	0.00	3.99
252	254	7.216973	TGCACAACCCTATAATAAAACGTTT	57.783	32.000	7.96	7.96	0.00	3.60
253	255	7.659186	TGCACAACCCTATAATAAAACGTTTT	58.341	30.769	27.65	27.65	0.00	2.43
414	606	7.871853	ACTTTACAATAATGAAAGTGCTTCGT	58.128	30.769	7.25	0.00	40.87	3.85
614	807	5.502079	TCCAAAGCAAAAGGATAATACCGA	58.498	37.500	0.00	0.00	34.73	4.69
625	818	7.604657	AAGGATAATACCGATTCAGTCTCTT	57.395	36.000	0.00	0.00	34.73	2.85
627	820	6.015010	AGGATAATACCGATTCAGTCTCTTGG	60.015	42.308	0.00	0.00	34.73	3.61
629	822	5.677319	AATACCGATTCAGTCTCTTGGAA	57.323	39.130	0.00	0.00	0.00	3.53
635	828	3.845781	TTCAGTCTCTTGGAAGTGCTT	57.154	42.857	0.00	0.00	0.00	3.91
639	832	6.605471	TCAGTCTCTTGGAAGTGCTTATAA	57.395	37.500	0.00	0.00	0.00	0.98
640	833	6.634805	TCAGTCTCTTGGAAGTGCTTATAAG	58.365	40.000	8.20	8.20	0.00	1.73
641	834	5.814705	CAGTCTCTTGGAAGTGCTTATAAGG	59.185	44.000	14.28	0.00	0.00	2.69
646	839	7.565398	TCTCTTGGAAGTGCTTATAAGGATAGT	59.435	37.037	14.28	1.16	0.00	2.12
647	840	7.500992	TCTTGGAAGTGCTTATAAGGATAGTG	58.499	38.462	14.28	1.06	0.00	2.74
648	841	5.611374	TGGAAGTGCTTATAAGGATAGTGC	58.389	41.667	14.28	6.80	0.00	4.40
685	878	6.192682	CGTTCATAAAAATGAGTGTATGCGTG	59.807	38.462	0.00	0.00	31.46	5.34
686	879	6.735678	TCATAAAAATGAGTGTATGCGTGT	57.264	33.333	0.00	0.00	0.00	4.49
701	894	7.753580	GTGTATGCGTGTATATATGAGTGCTTA	59.246	37.037	0.00	0.00	0.00	3.09
707	900	8.182227	GCGTGTATATATGAGTGCTTATGTCTA	58.818	37.037	0.00	0.00	0.00	2.59
832	1029	2.609610	ACTACCACATGGGCCCGT	60.610	61.111	19.37	15.91	42.05	5.28
834	1031	1.001393	CTACCACATGGGCCCGTTT	60.001	57.895	16.04	4.87	42.05	3.60
879	1336	1.763546	TTCCACTGCCGTGACATCCA	61.764	55.000	10.15	0.00	43.97	3.41
908	1365	8.942338	ATTCATCTACGCTATAAAAACTCACA	57.058	30.769	0.00	0.00	0.00	3.58
909	1366	8.766000	TTCATCTACGCTATAAAAACTCACAA	57.234	30.769	0.00	0.00	0.00	3.33
945	1423	2.348666	GTCAGAACTCACACACACACAC	59.651	50.000	0.00	0.00	0.00	3.82
946	1424	2.028567	TCAGAACTCACACACACACACA	60.029	45.455	0.00	0.00	0.00	3.72
963	1442	0.674895	ACATCCGCTCAGTCAAAGCC	60.675	55.000	0.00	0.00	36.36	4.35
1152	1634	1.754803	GACTCGGACATGGTGGTGATA	59.245	52.381	0.00	0.00	0.00	2.15
1182	1664	1.373497	GCTGTGTGCGCTAGTCTGT	60.373	57.895	9.73	0.00	0.00	3.41
1196	1678	4.135153	CTGTGTCCTCGGCCTCGG	62.135	72.222	0.00	0.00	36.95	4.63
1392	1877	1.595382	GGAGTGCGCGATATGCCTT	60.595	57.895	12.10	0.00	42.08	4.35
1453	1938	2.904866	GCGGCCACAACTTCCACA	60.905	61.111	2.24	0.00	0.00	4.17
1456	1941	0.888736	CGGCCACAACTTCCACATGA	60.889	55.000	2.24	0.00	0.00	3.07
1570	2058	3.798511	TGGTCGTGGTGGTGGCAA	61.799	61.111	0.00	0.00	0.00	4.52
1683	2171	6.700520	ACTCTTTTTCGAGTGTTACTGTTAGG	59.299	38.462	0.00	0.00	42.39	2.69
1729	2217	2.328099	GCAGTTTGTCAGGGAGCCG	61.328	63.158	0.00	0.00	0.00	5.52
1801	2331	3.632604	TGTGGGCTTCGTGTAATTTCAAA	59.367	39.130	0.00	0.00	0.00	2.69
1802	2332	4.279671	TGTGGGCTTCGTGTAATTTCAAAT	59.720	37.500	0.00	0.00	0.00	2.32
1806	2336	4.558860	GGCTTCGTGTAATTTCAAATCTGC	59.441	41.667	0.00	0.00	0.00	4.26
1845	2375	4.761235	CATGCTATTGGTATGCTCTTGG	57.239	45.455	0.00	0.00	31.81	3.61
1850	2380	4.276926	GCTATTGGTATGCTCTTGGAAAGG	59.723	45.833	0.00	0.00	46.24	3.11
1852	2382	3.634397	TGGTATGCTCTTGGAAAGGAG	57.366	47.619	0.00	0.00	46.24	3.69
1854	2384	3.055094	TGGTATGCTCTTGGAAAGGAGTC	60.055	47.826	0.00	0.00	46.24	3.36
1857	2387	2.329267	TGCTCTTGGAAAGGAGTCAGA	58.671	47.619	0.00	0.00	46.24	3.27
1866	2396	5.065914	TGGAAAGGAGTCAGACTTGAAATG	58.934	41.667	4.05	0.00	34.49	2.32
1873	2403	5.278512	GGAGTCAGACTTGAAATGTTTTCCC	60.279	44.000	4.05	0.00	34.49	3.97
1877	2407	3.960102	AGACTTGAAATGTTTTCCCTGCA	59.040	39.130	0.00	0.00	0.00	4.41
1897	2427	3.003793	GCAAAAGAGAAAAAGTCCGCTCT	59.996	43.478	0.00	0.00	39.27	4.09
1936	2467	5.357257	AGTCTGTACTGTTGTTGTACCTTG	58.643	41.667	0.00	0.00	39.42	3.61
1967	2498	8.992835	TCTTCTACCTTTCGTTTTTATCTACC	57.007	34.615	0.00	0.00	0.00	3.18
1975	2506	7.650104	CCTTTCGTTTTTATCTACCAGCAAAAA	59.350	33.333	0.00	0.00	0.00	1.94
2015	2546	3.335579	GGAGAAGAAAATACCGCACAGT	58.664	45.455	0.00	0.00	0.00	3.55
2016	2547	3.751698	GGAGAAGAAAATACCGCACAGTT	59.248	43.478	0.00	0.00	0.00	3.16
2084	2621	4.377635	GCGTCTCTCTCGGTATAAGATGAC	60.378	50.000	0.00	0.00	0.00	3.06
2120	2660	4.191544	TCCATGGAAGATTTTACTGAGCG	58.808	43.478	13.46	0.00	0.00	5.03
2131	2671	0.806241	TACTGAGCGTACATGCACGA	59.194	50.000	22.37	0.31	44.69	4.35
2140	2680	3.245284	GCGTACATGCACGATTATCAACT	59.755	43.478	22.37	0.00	44.69	3.16
2184	2727	5.163426	TGACTTTGAGGTGTTCATTGCAATT	60.163	36.000	9.83	0.00	35.27	2.32
2197	2740	0.396435	TGCAATTCAGGTCGGTGTCT	59.604	50.000	0.00	0.00	0.00	3.41
2213	2756	5.181811	TCGGTGTCTGTACGAAAGAAAGATA	59.818	40.000	0.00	0.00	33.21	1.98
2219	2762	6.141053	GTCTGTACGAAAGAAAGATAGATCGC	59.859	42.308	0.00	0.00	33.88	4.58
2230	2774	3.879427	AGATAGATCGCGCGCTATTATC	58.121	45.455	30.48	26.13	0.00	1.75
2255	2799	8.034215	TCAAGGTTGCATCCTAAATAACATTTG	58.966	33.333	16.73	7.48	36.74	2.32
2609	3160	3.468071	ACACAGGTGTAGAGTGGGATA	57.532	47.619	2.68	0.00	42.90	2.59
2613	3164	4.162320	CACAGGTGTAGAGTGGGATAATGT	59.838	45.833	0.00	0.00	0.00	2.71
2614	3165	4.162320	ACAGGTGTAGAGTGGGATAATGTG	59.838	45.833	0.00	0.00	0.00	3.21
2615	3166	3.134804	AGGTGTAGAGTGGGATAATGTGC	59.865	47.826	0.00	0.00	0.00	4.57
2616	3167	3.118408	GGTGTAGAGTGGGATAATGTGCA	60.118	47.826	0.00	0.00	0.00	4.57
2617	3168	4.444876	GGTGTAGAGTGGGATAATGTGCAT	60.445	45.833	0.00	0.00	0.00	3.96
2618	3169	4.512944	GTGTAGAGTGGGATAATGTGCATG	59.487	45.833	0.00	0.00	0.00	4.06
2619	3170	3.939740	AGAGTGGGATAATGTGCATGT	57.060	42.857	0.00	0.00	0.00	3.21
2620	3171	5.365314	TGTAGAGTGGGATAATGTGCATGTA	59.635	40.000	0.00	0.00	0.00	2.29
2621	3172	5.573380	AGAGTGGGATAATGTGCATGTAT	57.427	39.130	0.00	0.00	0.00	2.29
2622	3173	5.311265	AGAGTGGGATAATGTGCATGTATG	58.689	41.667	0.00	0.00	0.00	2.39

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
87	89	5.055812	GCCAAAATGGTGAAGAAATGACAA	58.944	37.500	0.00	0.00	40.46	3.18
163	165	6.907741	TCATATGCACGAAATTCTTTGTTCA	58.092	32.000	0.00	0.00	0.00	3.18
192	194	6.070995	ACAGGTCTATTCGTAGTCCAAAATGA	60.071	38.462	2.50	0.00	0.00	2.57
198	200	4.337555	GCTTACAGGTCTATTCGTAGTCCA	59.662	45.833	2.50	0.00	0.00	4.02
203	205	5.864418	AATGGCTTACAGGTCTATTCGTA	57.136	39.130	0.00	0.00	0.00	3.43
266	268	4.989797	TCGTACCTCAAACATAAGCGAAAA	59.010	37.500	0.00	0.00	0.00	2.29
341	346	4.017130	AGGGCCCTTCTGACTAAAATCATT	60.017	41.667	22.28	0.00	0.00	2.57
355	547	1.227292	GTCGATTCGAGGGCCCTTC	60.227	63.158	29.39	18.89	36.23	3.46
412	604	6.071840	TCCCAAAGGAAAAATGTTATGGTACG	60.072	38.462	0.00	0.00	40.08	3.67
414	606	6.071051	GCTCCCAAAGGAAAAATGTTATGGTA	60.071	38.462	0.00	0.00	43.40	3.25
614	807	4.363991	AAGCACTTCCAAGAGACTGAAT	57.636	40.909	0.00	0.00	0.00	2.57
625	818	5.611374	GCACTATCCTTATAAGCACTTCCA	58.389	41.667	6.99	0.00	0.00	3.53
627	820	5.175856	CACGCACTATCCTTATAAGCACTTC	59.824	44.000	6.99	0.00	0.00	3.01
629	822	4.099573	ACACGCACTATCCTTATAAGCACT	59.900	41.667	6.99	0.00	0.00	4.40
635	828	3.007979	CGCACACGCACTATCCTTATA	57.992	47.619	0.00	0.00	38.40	0.98
656	849	2.521933	CACTCATTTTTATGAACGCGCG	59.478	45.455	30.96	30.96	0.00	6.86
658	851	5.169561	GCATACACTCATTTTTATGAACGCG	59.830	40.000	3.53	3.53	0.00	6.01
668	861	9.705290	TCATATATACACGCATACACTCATTTT	57.295	29.630	0.00	0.00	0.00	1.82
692	885	6.775594	ACACAGTATAGACATAAGCACTCA	57.224	37.500	0.00	0.00	0.00	3.41
728	921	9.998106	ACTTCGCTTGTATTATTATTGTATCCT	57.002	29.630	0.00	0.00	0.00	3.24
732	925	8.339714	GGCAACTTCGCTTGTATTATTATTGTA	58.660	33.333	0.00	0.00	0.00	2.41
733	926	7.148154	TGGCAACTTCGCTTGTATTATTATTGT	60.148	33.333	0.00	0.00	37.61	2.71
734	927	7.165812	GTGGCAACTTCGCTTGTATTATTATTG	59.834	37.037	0.00	0.00	37.61	1.90
750	945	3.254014	ATGCACGCGTGGCAACTTC	62.254	57.895	37.47	20.74	45.60	3.01
770	965	3.181464	TGCATGGCAATGGGATATTTGTG	60.181	43.478	2.54	0.00	34.76	3.33
832	1029	1.205460	GGGCCCAGGACAGGTAGAAA	61.205	60.000	19.95	0.00	0.00	2.52
834	1031	2.040606	GGGCCCAGGACAGGTAGA	59.959	66.667	19.95	0.00	0.00	2.59
879	1336	8.644318	AGTTTTTATAGCGTAGATGAATCGTT	57.356	30.769	0.00	0.00	0.00	3.85
908	1365	4.280494	ACCGTGCGTCGTGAGCTT	62.280	61.111	0.00	0.00	37.94	3.74
909	1366	4.702081	GACCGTGCGTCGTGAGCT	62.702	66.667	0.00	0.00	37.94	4.09
945	1423	1.372087	GGGCTTTGACTGAGCGGATG	61.372	60.000	0.00	0.00	41.03	3.51
946	1424	1.078143	GGGCTTTGACTGAGCGGAT	60.078	57.895	0.00	0.00	41.03	4.18
963	1442	1.070289	GGAATACTCCGGTGGCTAAGG	59.930	57.143	8.63	0.00	30.03	2.69
1392	1877	0.242825	CTCCGTCCGTAAACTCTGCA	59.757	55.000	0.00	0.00	0.00	4.41
1570	2058	3.276846	GCACCTGTTGTTCGCCGT	61.277	61.111	0.00	0.00	0.00	5.68
1698	2186	6.338214	TGACAAACTGCCAAGCAATTAATA	57.662	33.333	0.00	0.00	38.41	0.98
1699	2187	5.212532	TGACAAACTGCCAAGCAATTAAT	57.787	34.783	0.00	0.00	38.41	1.40
1701	2189	3.005684	CCTGACAAACTGCCAAGCAATTA	59.994	43.478	0.00	0.00	38.41	1.40
1702	2190	2.224113	CCTGACAAACTGCCAAGCAATT	60.224	45.455	0.00	0.00	38.41	2.32
1703	2191	1.342174	CCTGACAAACTGCCAAGCAAT	59.658	47.619	0.00	0.00	38.41	3.56
1705	2193	1.108727	CCCTGACAAACTGCCAAGCA	61.109	55.000	0.00	0.00	36.92	3.91
1706	2194	0.823356	TCCCTGACAAACTGCCAAGC	60.823	55.000	0.00	0.00	0.00	4.01
1707	2195	1.242076	CTCCCTGACAAACTGCCAAG	58.758	55.000	0.00	0.00	0.00	3.61
1708	2196	0.823356	GCTCCCTGACAAACTGCCAA	60.823	55.000	0.00	0.00	0.00	4.52
1709	2197	1.228245	GCTCCCTGACAAACTGCCA	60.228	57.895	0.00	0.00	0.00	4.92
1710	2198	1.973812	GGCTCCCTGACAAACTGCC	60.974	63.158	0.00	0.00	0.00	4.85
1711	2199	2.328099	CGGCTCCCTGACAAACTGC	61.328	63.158	0.00	0.00	0.00	4.40
1712	2200	1.672356	CCGGCTCCCTGACAAACTG	60.672	63.158	0.00	0.00	0.00	3.16
1729	2217	5.180304	GTCTCACAAAAGATTCAGTTCCTCC	59.820	44.000	0.00	0.00	0.00	4.30
1737	2225	8.680001	CATCCAATATGTCTCACAAAAGATTCA	58.320	33.333	0.00	0.00	0.00	2.57
1745	2233	4.808895	GCGTACATCCAATATGTCTCACAA	59.191	41.667	0.00	0.00	33.76	3.33
1772	2302	1.002257	ACGAAGCCCACATGCATGA	60.002	52.632	32.75	0.00	0.00	3.07
1777	2307	3.190327	TGAAATTACACGAAGCCCACATG	59.810	43.478	0.00	0.00	0.00	3.21
1778	2308	3.417101	TGAAATTACACGAAGCCCACAT	58.583	40.909	0.00	0.00	0.00	3.21
1779	2309	2.852449	TGAAATTACACGAAGCCCACA	58.148	42.857	0.00	0.00	0.00	4.17
1780	2310	3.907894	TTGAAATTACACGAAGCCCAC	57.092	42.857	0.00	0.00	0.00	4.61
1781	2311	4.764823	AGATTTGAAATTACACGAAGCCCA	59.235	37.500	0.00	0.00	0.00	5.36
1806	2336	8.854614	ATAGCATGCCTTAACTTTATAGAAGG	57.145	34.615	15.66	0.00	41.26	3.46
1845	2375	6.625873	AACATTTCAAGTCTGACTCCTTTC	57.374	37.500	11.31	0.00	0.00	2.62
1850	2380	5.532779	AGGGAAAACATTTCAAGTCTGACTC	59.467	40.000	11.31	0.00	0.00	3.36
1852	2382	5.523369	CAGGGAAAACATTTCAAGTCTGAC	58.477	41.667	0.00	0.00	0.00	3.51
1854	2384	4.202141	TGCAGGGAAAACATTTCAAGTCTG	60.202	41.667	5.32	7.41	0.00	3.51
1857	2387	4.751767	TTGCAGGGAAAACATTTCAAGT	57.248	36.364	5.32	0.00	0.00	3.16
1873	2403	3.045688	GCGGACTTTTTCTCTTTTGCAG	58.954	45.455	0.00	0.00	0.00	4.41
1936	2467	7.943413	AAAAACGAAAGGTAGAAGAGTACTC	57.057	36.000	15.41	15.41	0.00	2.59
1941	2472	9.085250	GGTAGATAAAAACGAAAGGTAGAAGAG	57.915	37.037	0.00	0.00	0.00	2.85
1947	2478	6.465948	TGCTGGTAGATAAAAACGAAAGGTA	58.534	36.000	0.00	0.00	0.00	3.08
1975	2506	1.582610	CCGTTGTAATGCACGGGCTT	61.583	55.000	12.74	0.00	41.91	4.35
1988	2519	3.332034	CGGTATTTTCTTCTCCCGTTGT	58.668	45.455	0.00	0.00	0.00	3.32
2015	2546	8.044908	GTCTTAGTCATGGTTATTGGGTTAGAA	58.955	37.037	0.00	0.00	0.00	2.10
2016	2547	7.365295	GGTCTTAGTCATGGTTATTGGGTTAGA	60.365	40.741	0.00	0.00	0.00	2.10
2099	2638	3.941483	ACGCTCAGTAAAATCTTCCATGG	59.059	43.478	4.97	4.97	0.00	3.66
2104	2643	5.063438	TGCATGTACGCTCAGTAAAATCTTC	59.937	40.000	0.00	0.00	37.02	2.87
2115	2654	2.570442	TAATCGTGCATGTACGCTCA	57.430	45.000	28.51	14.32	43.40	4.26
2120	2660	5.718649	ACAGTTGATAATCGTGCATGTAC	57.281	39.130	5.68	3.51	0.00	2.90
2131	2671	8.786826	TGGAGACGAAATAAACAGTTGATAAT	57.213	30.769	0.00	0.00	0.00	1.28
2140	2680	7.504924	AGTCAAATTGGAGACGAAATAAACA	57.495	32.000	0.00	0.00	39.67	2.83
2184	2727	0.250424	TCGTACAGACACCGACCTGA	60.250	55.000	0.00	0.00	34.65	3.86
2197	2740	4.968181	CGCGATCTATCTTTCTTTCGTACA	59.032	41.667	0.00	0.00	0.00	2.90
2213	2756	2.254459	CTTGATAATAGCGCGCGATCT	58.746	47.619	37.18	24.41	0.00	2.75
2219	2762	1.597195	TGCAACCTTGATAATAGCGCG	59.403	47.619	0.00	0.00	0.00	6.86
2230	2774	8.034215	TCAAATGTTATTTAGGATGCAACCTTG	58.966	33.333	21.80	9.07	41.00	3.61
2341	2885	9.854303	ATACCCATATCTTGTATACCCTAACTT	57.146	33.333	0.00	0.00	0.00	2.66
2417	2964	1.882308	TAGCGGAAAACCCCCTATCA	58.118	50.000	0.00	0.00	0.00	2.15
2420	2967	3.743092	ATTTTAGCGGAAAACCCCCTA	57.257	42.857	2.20	0.00	39.83	3.53
2530	3080	0.526954	CGGGACAATCCTACGAACCG	60.527	60.000	0.00	0.00	36.57	4.44
2531	3081	0.819582	TCGGGACAATCCTACGAACC	59.180	55.000	0.00	0.00	36.57	3.62
2535	3086	2.373540	TTGTTCGGGACAATCCTACG	57.626	50.000	0.00	0.00	43.13	3.51
2570	3121	4.122776	GTGTAGACATGCCAATCCTACTG	58.877	47.826	0.00	0.00	33.01	2.74
2615	3166	2.291465	CCATGTTTCTCCCGCATACATG	59.709	50.000	0.00	0.00	43.42	3.21
2616	3167	2.172505	TCCATGTTTCTCCCGCATACAT	59.827	45.455	0.00	0.00	0.00	2.29
2617	3168	1.557371	TCCATGTTTCTCCCGCATACA	59.443	47.619	0.00	0.00	0.00	2.29
2618	3169	2.325583	TCCATGTTTCTCCCGCATAC	57.674	50.000	0.00	0.00	0.00	2.39
2619	3170	3.013921	GTTTCCATGTTTCTCCCGCATA	58.986	45.455	0.00	0.00	0.00	3.14
2620	3171	1.818674	GTTTCCATGTTTCTCCCGCAT	59.181	47.619	0.00	0.00	0.00	4.73
2621	3172	1.243902	GTTTCCATGTTTCTCCCGCA	58.756	50.000	0.00	0.00	0.00	5.69
2622	3173	1.243902	TGTTTCCATGTTTCTCCCGC	58.756	50.000	0.00	0.00	0.00	6.13
2623	3174	5.637006	TTAATGTTTCCATGTTTCTCCCG	57.363	39.130	0.00	0.00	0.00	5.14

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.