AutoCloner

Multiple sequence alignment - TraesCS5D01G543100

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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	TraesCS5D01G543100	chr5D	100.000	3545	0	0	1	3545	553504587	553508131	0.000000e+00	6547.0
1	TraesCS5D01G543100	chr5D	76.512	281	41	18	2326	2594	469060369	469060102	2.870000e-26	130.0
2	TraesCS5D01G543100	chr5B	95.915	1885	53	7	831	2707	697188277	697186409	0.000000e+00	3033.0
3	TraesCS5D01G543100	chr5B	94.083	845	37	5	2706	3545	697186295	697185459	0.000000e+00	1271.0
4	TraesCS5D01G543100	chr5B	85.888	822	98	17	1	815	158899562	158900372	0.000000e+00	859.0
5	TraesCS5D01G543100	chr5B	86.154	520	40	11	2223	2711	697245030	697244512	1.870000e-147	532.0
6	TraesCS5D01G543100	chr5B	86.976	453	56	3	2848	3299	697244454	697244004	1.140000e-139	507.0
7	TraesCS5D01G543100	chr5B	83.154	558	60	14	1058	1591	697530649	697530102	2.480000e-131	479.0
8	TraesCS5D01G543100	chr5B	78.906	768	81	37	1205	1949	697246088	697245379	2.510000e-121	446.0
9	TraesCS5D01G543100	chr5B	75.120	1045	135	72	2224	3196	697529652	697528661	1.200000e-99	374.0
10	TraesCS5D01G543100	chr5B	82.850	379	50	4	2223	2600	697568355	697567991	3.410000e-85	326.0
11	TraesCS5D01G543100	chr5B	87.324	284	23	9	1989	2267	697245381	697245106	2.660000e-81	313.0
12	TraesCS5D01G543100	chr5B	76.087	598	81	33	2261	2814	697610427	697609848	4.540000e-64	255.0
13	TraesCS5D01G543100	chr5B	75.613	652	84	38	2228	2812	697510981	697510338	1.630000e-63	254.0
14	TraesCS5D01G543100	chr5B	78.571	392	66	13	2224	2601	8000419	8000806	3.540000e-60	243.0
15	TraesCS5D01G543100	chr5B	79.522	293	39	11	2914	3202	697609772	697609497	4.670000e-44	189.0
16	TraesCS5D01G543100	chr5B	88.350	103	11	1	2497	2599	575781377	575781276	4.810000e-24	122.0
17	TraesCS5D01G543100	chr5B	91.489	47	2	1	877	923	697531170	697531126	2.950000e-06	63.9
18	TraesCS5D01G543100	chr2D	96.196	815	31	0	1	815	2120416	2119602	0.000000e+00	1334.0
19	TraesCS5D01G543100	chr2D	95.221	816	38	1	1	815	587685281	587686096	0.000000e+00	1290.0
20	TraesCS5D01G543100	chr3D	96.074	815	31	1	1	815	148303513	148302700	0.000000e+00	1327.0
21	TraesCS5D01G543100	chr1D	86.392	801	94	14	20	815	32317101	32317891	0.000000e+00	861.0
22	TraesCS5D01G543100	chr7D	86.118	814	92	19	1	805	404697076	404697877	0.000000e+00	857.0
23	TraesCS5D01G543100	chr6B	86.090	798	96	15	18	809	165416425	165417213	0.000000e+00	845.0
24	TraesCS5D01G543100	chr6B	85.505	821	101	17	1	815	585976831	585977639	0.000000e+00	841.0
25	TraesCS5D01G543100	chr2B	85.262	821	106	14	1	815	359297316	359298127	0.000000e+00	832.0
26	TraesCS5D01G543100	chr4A	77.291	753	116	30	1844	2590	615197302	615196599	3.320000e-105	392.0
27	TraesCS5D01G543100	chr4A	84.639	332	48	3	1262	1592	615197988	615197659	9.490000e-86	327.0
28	TraesCS5D01G543100	chr4A	77.807	374	66	11	2707	3065	615194812	615194441	7.710000e-52	215.0
29	TraesCS5D01G543100	chr4A	73.805	565	109	14	1030	1584	615201719	615201184	1.680000e-43	187.0
30	TraesCS5D01G543100	chr4A	83.333	114	15	4	2702	2814	615196366	615196256	6.260000e-18	102.0
31	TraesCS5D01G543100	chr1B	79.016	386	65	13	2229	2601	347845152	347844770	2.110000e-62	250.0
32	TraesCS5D01G543100	chr5A	76.653	484	75	17	2620	3066	171178050	171178532	2.130000e-57	233.0
33	TraesCS5D01G543100	chr5A	75.826	484	79	19	2620	3066	171219900	171220382	9.970000e-51	211.0
34	TraesCS5D01G543100	chr5A	75.645	349	67	12	2260	2599	589221501	589221162	1.320000e-34	158.0
35	TraesCS5D01G543100	chr7B	78.117	393	64	14	2224	2600	613655900	613655514	2.750000e-56	230.0

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	TraesCS5D01G543100	chr5D	553504587	553508131	3544	False	6547.000000	6547	100.000000	1	3545	1	chr5D.!!$F1	3544
1	TraesCS5D01G543100	chr5B	697185459	697188277	2818	True	2152.000000	3033	94.999000	831	3545	2	chr5B.!!$R4	2714
2	TraesCS5D01G543100	chr5B	158899562	158900372	810	False	859.000000	859	85.888000	1	815	1	chr5B.!!$F2	814
3	TraesCS5D01G543100	chr5B	697244004	697246088	2084	True	449.500000	532	84.840000	1205	3299	4	chr5B.!!$R5	2094
4	TraesCS5D01G543100	chr5B	697528661	697531170	2509	True	305.633333	479	83.254333	877	3196	3	chr5B.!!$R6	2319
5	TraesCS5D01G543100	chr5B	697510338	697510981	643	True	254.000000	254	75.613000	2228	2812	1	chr5B.!!$R2	584
6	TraesCS5D01G543100	chr5B	697609497	697610427	930	True	222.000000	255	77.804500	2261	3202	2	chr5B.!!$R7	941
7	TraesCS5D01G543100	chr2D	2119602	2120416	814	True	1334.000000	1334	96.196000	1	815	1	chr2D.!!$R1	814
8	TraesCS5D01G543100	chr2D	587685281	587686096	815	False	1290.000000	1290	95.221000	1	815	1	chr2D.!!$F1	814
9	TraesCS5D01G543100	chr3D	148302700	148303513	813	True	1327.000000	1327	96.074000	1	815	1	chr3D.!!$R1	814
10	TraesCS5D01G543100	chr1D	32317101	32317891	790	False	861.000000	861	86.392000	20	815	1	chr1D.!!$F1	795
11	TraesCS5D01G543100	chr7D	404697076	404697877	801	False	857.000000	857	86.118000	1	805	1	chr7D.!!$F1	804
12	TraesCS5D01G543100	chr6B	165416425	165417213	788	False	845.000000	845	86.090000	18	809	1	chr6B.!!$F1	791
13	TraesCS5D01G543100	chr6B	585976831	585977639	808	False	841.000000	841	85.505000	1	815	1	chr6B.!!$F2	814
14	TraesCS5D01G543100	chr2B	359297316	359298127	811	False	832.000000	832	85.262000	1	815	1	chr2B.!!$F1	814
15	TraesCS5D01G543100	chr4A	615194441	615201719	7278	True	244.600000	392	79.375000	1030	3065	5	chr4A.!!$R1	2035

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
157	164	0.250124	AAGAACACATGAACCCGCGA	60.250	50.0	8.23	0.0	0.00	5.87	F
869	886	0.461163	CGGCATGTTGTGTCCGGATA	60.461	55.0	7.81	0.1	41.05	2.59	F
1924	6088	0.034767	TCTGGCTCTGCTTGGATTGG	60.035	55.0	0.00	0.0	0.00	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1767	5912	1.999735	ACAATACGTTGGCAGATCACG	59.000	47.619	7.82	7.82	39.70	4.35	R
2322	6618	1.021968	GGGTTGCTCGTTCAGTTGTT	58.978	50.000	0.00	0.00	0.00	2.83	R
3420	9534	0.445436	AAAGAAGAATGCAGAGCGCG	59.555	50.000	0.00	0.00	46.97	6.86	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
133	136	8.258007	AGGAACTACGAAGATAATGTGATGAAA	58.742	33.333	0.00	0.00	36.02	2.69
157	164	0.250124	AAGAACACATGAACCCGCGA	60.250	50.000	8.23	0.00	0.00	5.87
418	430	1.198178	GATAAGTGGGCGCGAAAAACA	59.802	47.619	12.10	0.00	0.00	2.83
543	556	0.691904	TGACAGGTGACATCATGGCA	59.308	50.000	0.00	0.00	34.69	4.92
815	832	5.794894	CGACTTAAGGCCCATAGTGATAAT	58.205	41.667	7.53	0.00	0.00	1.28
816	833	6.231211	CGACTTAAGGCCCATAGTGATAATT	58.769	40.000	7.53	0.00	0.00	1.40
817	834	6.369065	CGACTTAAGGCCCATAGTGATAATTC	59.631	42.308	7.53	0.00	0.00	2.17
818	835	7.394144	ACTTAAGGCCCATAGTGATAATTCT	57.606	36.000	7.53	0.00	0.00	2.40
819	836	7.816411	ACTTAAGGCCCATAGTGATAATTCTT	58.184	34.615	7.53	0.00	0.00	2.52
820	837	8.282256	ACTTAAGGCCCATAGTGATAATTCTTT	58.718	33.333	7.53	0.00	0.00	2.52
821	838	8.691661	TTAAGGCCCATAGTGATAATTCTTTC	57.308	34.615	0.00	0.00	0.00	2.62
822	839	5.635120	AGGCCCATAGTGATAATTCTTTCC	58.365	41.667	0.00	0.00	0.00	3.13
823	840	4.455877	GGCCCATAGTGATAATTCTTTCCG	59.544	45.833	0.00	0.00	0.00	4.30
824	841	5.063880	GCCCATAGTGATAATTCTTTCCGT	58.936	41.667	0.00	0.00	0.00	4.69
825	842	5.179555	GCCCATAGTGATAATTCTTTCCGTC	59.820	44.000	0.00	0.00	0.00	4.79
826	843	5.405571	CCCATAGTGATAATTCTTTCCGTCG	59.594	44.000	0.00	0.00	0.00	5.12
827	844	5.107453	CCATAGTGATAATTCTTTCCGTCGC	60.107	44.000	0.00	0.00	0.00	5.19
828	845	3.857052	AGTGATAATTCTTTCCGTCGCA	58.143	40.909	0.00	0.00	0.00	5.10
829	846	3.865745	AGTGATAATTCTTTCCGTCGCAG	59.134	43.478	0.00	0.00	0.00	5.18
845	862	3.371102	CGCAGTATGTGGCAGTATACT	57.629	47.619	15.09	15.09	44.40	2.12
846	863	4.499037	CGCAGTATGTGGCAGTATACTA	57.501	45.455	18.58	0.00	44.40	1.82
847	864	5.060662	CGCAGTATGTGGCAGTATACTAT	57.939	43.478	18.58	0.00	44.40	2.12
848	865	4.859245	CGCAGTATGTGGCAGTATACTATG	59.141	45.833	18.58	12.30	44.40	2.23
850	867	5.864474	GCAGTATGTGGCAGTATACTATGTC	59.136	44.000	18.58	0.00	37.87	3.06
864	881	1.665679	CTATGTCGGCATGTTGTGTCC	59.334	52.381	13.98	0.00	36.58	4.02
869	886	0.461163	CGGCATGTTGTGTCCGGATA	60.461	55.000	7.81	0.10	41.05	2.59
914	931	8.583296	ACCTCTTAGATCTGTAAAAACGTACTT	58.417	33.333	5.18	0.00	0.00	2.24
924	941	9.241317	TCTGTAAAAACGTACTTCAGTAGAAAG	57.759	33.333	0.00	0.00	32.35	2.62
925	942	8.356533	TGTAAAAACGTACTTCAGTAGAAAGG	57.643	34.615	0.00	0.00	32.35	3.11
969	1302	1.064783	GAGCGCAAATTAGCCCAGC	59.935	57.895	11.47	0.00	0.00	4.85
1160	1544	2.027460	CCAACACCAAGGCAACGC	59.973	61.111	0.00	0.00	46.39	4.84
1613	5738	0.759346	GGATAGCCGATTGGTCTGGT	59.241	55.000	0.00	0.00	37.67	4.00
1614	5739	1.270358	GGATAGCCGATTGGTCTGGTC	60.270	57.143	0.00	2.46	37.67	4.02
1615	5740	1.412710	GATAGCCGATTGGTCTGGTCA	59.587	52.381	0.00	0.00	37.67	4.02
1616	5741	1.271856	TAGCCGATTGGTCTGGTCAA	58.728	50.000	0.00	0.00	37.67	3.18
1617	5742	0.620556	AGCCGATTGGTCTGGTCAAT	59.379	50.000	0.00	0.00	37.52	2.57
1618	5743	1.017387	GCCGATTGGTCTGGTCAATC	58.983	55.000	0.00	6.71	44.04	2.67
1619	5744	1.678728	GCCGATTGGTCTGGTCAATCA	60.679	52.381	14.51	0.00	46.37	2.57
1620	5745	2.710377	CCGATTGGTCTGGTCAATCAA	58.290	47.619	14.51	0.00	46.37	2.57
1621	5746	2.420022	CCGATTGGTCTGGTCAATCAAC	59.580	50.000	14.51	0.00	46.37	3.18
1622	5747	2.094258	CGATTGGTCTGGTCAATCAACG	59.906	50.000	14.51	1.41	46.37	4.10
1623	5748	2.920724	TTGGTCTGGTCAATCAACGA	57.079	45.000	0.00	0.00	0.00	3.85
1656	5785	2.627699	TCTGTCCAGAAATTTTGGTGCC	59.372	45.455	14.88	8.28	37.02	5.01
1675	5804	2.002586	CCGTCAGTGGTTATCTGCTTG	58.997	52.381	0.00	0.00	33.48	4.01
1683	5812	7.335924	GTCAGTGGTTATCTGCTTGGTTATTTA	59.664	37.037	0.00	0.00	33.48	1.40
1696	5831	7.617723	TGCTTGGTTATTTATGGGTACATCTTT	59.382	33.333	0.00	0.00	38.53	2.52
1767	5912	2.586258	ATGCGAGTCTGTATGTCACC	57.414	50.000	0.00	0.00	0.00	4.02
1780	5925	0.602638	TGTCACCGTGATCTGCCAAC	60.603	55.000	4.13	0.00	0.00	3.77
1826	5971	4.906618	TCTGGGTCAATAAGTTCTTGTCC	58.093	43.478	8.22	8.22	32.96	4.02
1873	6034	1.339438	TGCACTCTTCTTCCTGGCATC	60.339	52.381	0.00	0.00	0.00	3.91
1924	6088	0.034767	TCTGGCTCTGCTTGGATTGG	60.035	55.000	0.00	0.00	0.00	3.16
1952	6116	8.128582	TGTAATTTTTGTGTGAACTGAGCTAAG	58.871	33.333	0.00	0.00	0.00	2.18
2069	6241	6.414732	TGGGAAGTAGAATAAATGGACACAG	58.585	40.000	0.00	0.00	0.00	3.66
2187	6359	5.592104	TGATCGAAGCTGGTAATTACTCA	57.408	39.130	15.05	10.29	0.00	3.41
2271	6565	6.096423	TGAGTACACACTAATTGGCCTAGTAG	59.904	42.308	18.17	18.17	34.21	2.57
2289	6583	7.685481	CCTAGTAGTTAGATCCAGATCTCAGA	58.315	42.308	13.34	0.00	44.37	3.27
2322	6618	7.230712	TGTTGAGTAATGCTATCGATCTAAGGA	59.769	37.037	0.00	0.00	0.00	3.36
2682	7068	4.306600	GCCAGATTTTTCACAATTCCGTT	58.693	39.130	0.00	0.00	0.00	4.44
2833	7386	4.439837	GGCTCTCTTGAAATTGCAGAATCC	60.440	45.833	0.00	0.00	0.00	3.01
2860	8959	5.263872	TGGGCTACTCCAAGGAAAAATAA	57.736	39.130	0.00	0.00	36.21	1.40
2878	8977	5.965033	AATAATGGTCACTGAGGATGACT	57.035	39.130	5.22	0.00	44.88	3.41
2901	9002	9.626045	GACTTGTAAGGAGGAATAAATTTGTTG	57.374	33.333	4.76	0.00	0.00	3.33
2904	9005	8.485578	TGTAAGGAGGAATAAATTTGTTGGTT	57.514	30.769	4.76	0.00	0.00	3.67
2912	9013	7.436970	AGGAATAAATTTGTTGGTTCGACAAAC	59.563	33.333	13.64	0.91	46.32	2.93
3039	9151	2.408361	CGTGCGCTTTACATTTTGTTGC	60.408	45.455	9.73	0.00	0.00	4.17
3230	9344	0.322456	TATGTTGGACACCTGCTGCC	60.322	55.000	0.00	0.00	0.00	4.85
3271	9385	0.534203	AGTGGCACCCTGTTGTTACG	60.534	55.000	15.27	0.00	0.00	3.18
3359	9473	5.178809	AGTTGTCCTCTAATTACACAAACGC	59.821	40.000	0.00	0.00	0.00	4.84
3393	9507	1.607801	CCGGTGTCCTCATCTGCAGA	61.608	60.000	20.79	20.79	0.00	4.26
3420	9534	1.142097	GGAGTACGGAGAGCAAGGC	59.858	63.158	0.00	0.00	0.00	4.35
3436	9550	2.022484	GCGCGCTCTGCATTCTTC	59.978	61.111	26.67	0.00	46.97	2.87
3476	9594	4.022416	TCTGCATTCTTACGGCACAATTTT	60.022	37.500	0.00	0.00	33.34	1.82
3488	9606	3.243839	GGCACAATTTTCATGTGGTCTGT	60.244	43.478	8.55	0.00	46.43	3.41
3491	9609	5.801947	GCACAATTTTCATGTGGTCTGTATC	59.198	40.000	8.55	0.00	46.43	2.24

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
123	126	9.181061	TCATGTGTTCTTCATATTTCATCACAT	57.819	29.630	0.00	0.00	42.19	3.21
133	136	3.627577	GCGGGTTCATGTGTTCTTCATAT	59.372	43.478	0.00	0.00	0.00	1.78
157	164	4.141158	CCCCTTAGATCTGCATTAGGGTTT	60.141	45.833	19.04	0.00	40.60	3.27
300	308	4.441695	CTGCCGCTCGAGCTTCCA	62.442	66.667	32.88	23.85	39.32	3.53
418	430	6.096423	GGATAACTTAATTTTTCGGCCTCCTT	59.904	38.462	0.00	0.00	0.00	3.36
480	493	8.855279	CGATATATCTCAACGGATCTTTTTCTC	58.145	37.037	10.93	0.00	0.00	2.87
543	556	1.553704	CCTTAGAACCCGCAGTAACCT	59.446	52.381	0.00	0.00	0.00	3.50
620	635	6.145535	GGTTCATGTCAATCTTCAACACTTC	58.854	40.000	0.00	0.00	0.00	3.01
805	822	5.597806	TGCGACGGAAAGAATTATCACTAT	58.402	37.500	0.00	0.00	0.00	2.12
815	832	2.333926	CACATACTGCGACGGAAAGAA	58.666	47.619	0.00	0.00	0.00	2.52
816	833	1.403647	CCACATACTGCGACGGAAAGA	60.404	52.381	0.00	0.00	0.00	2.52
817	834	0.999406	CCACATACTGCGACGGAAAG	59.001	55.000	0.00	0.00	0.00	2.62
818	835	1.017177	GCCACATACTGCGACGGAAA	61.017	55.000	0.00	0.00	0.00	3.13
819	836	1.447140	GCCACATACTGCGACGGAA	60.447	57.895	0.00	0.00	0.00	4.30
820	837	2.183300	GCCACATACTGCGACGGA	59.817	61.111	0.00	0.00	0.00	4.69
821	838	2.125713	TGCCACATACTGCGACGG	60.126	61.111	0.00	0.00	0.00	4.79
822	839	0.179148	TACTGCCACATACTGCGACG	60.179	55.000	0.00	0.00	0.00	5.12
823	840	2.225068	ATACTGCCACATACTGCGAC	57.775	50.000	0.00	0.00	0.00	5.19
824	841	2.956333	AGTATACTGCCACATACTGCGA	59.044	45.455	4.10	0.00	36.76	5.10
825	842	3.371102	AGTATACTGCCACATACTGCG	57.629	47.619	4.10	0.00	36.76	5.18
826	843	5.784177	ACATAGTATACTGCCACATACTGC	58.216	41.667	15.90	0.00	38.22	4.40
827	844	6.086871	CGACATAGTATACTGCCACATACTG	58.913	44.000	15.90	2.25	38.22	2.74
828	845	5.183331	CCGACATAGTATACTGCCACATACT	59.817	44.000	15.90	6.48	40.30	2.12
829	846	5.399858	CCGACATAGTATACTGCCACATAC	58.600	45.833	15.90	0.00	0.00	2.39
844	861	1.665679	GGACACAACATGCCGACATAG	59.334	52.381	0.00	0.00	33.67	2.23
845	862	1.732941	GGACACAACATGCCGACATA	58.267	50.000	0.00	0.00	33.67	2.29
846	863	1.298157	CGGACACAACATGCCGACAT	61.298	55.000	1.39	0.00	45.37	3.06
847	864	1.958715	CGGACACAACATGCCGACA	60.959	57.895	1.39	0.00	45.37	4.35
848	865	2.677003	CCGGACACAACATGCCGAC	61.677	63.158	0.00	0.00	45.37	4.79
850	867	0.461163	TATCCGGACACAACATGCCG	60.461	55.000	6.12	0.00	43.47	5.69
869	886	2.676342	GGTGTATGCGACGGAAAGAATT	59.324	45.455	0.00	0.00	0.00	2.17
914	931	0.547712	AGGCAGGCCCTTTCTACTGA	60.548	55.000	6.70	0.00	43.06	3.41
924	941	3.361786	TCTAAATTAACAAGGCAGGCCC	58.638	45.455	6.70	0.00	36.58	5.80
925	942	4.270008	TCTCTAAATTAACAAGGCAGGCC	58.730	43.478	0.97	0.97	0.00	5.19
969	1302	6.696411	AGAATTGAAGTCCAGTCTAACTCTG	58.304	40.000	0.00	0.00	0.00	3.35
1160	1544	3.072486	ATAGCGTTGTCCCCGACGG	62.072	63.158	6.99	6.99	46.49	4.79
1613	5738	8.729756	ACAGAATACAAATGAATCGTTGATTGA	58.270	29.630	3.88	0.00	31.89	2.57
1614	5739	8.900511	ACAGAATACAAATGAATCGTTGATTG	57.099	30.769	3.88	0.00	31.89	2.67
1615	5740	8.184192	GGACAGAATACAAATGAATCGTTGATT	58.816	33.333	3.88	0.00	34.71	2.57
1616	5741	7.336679	TGGACAGAATACAAATGAATCGTTGAT	59.663	33.333	3.88	0.00	0.00	2.57
1617	5742	6.652900	TGGACAGAATACAAATGAATCGTTGA	59.347	34.615	3.88	0.00	0.00	3.18
1618	5743	6.841119	TGGACAGAATACAAATGAATCGTTG	58.159	36.000	0.00	0.00	0.00	4.10
1619	5744	6.878923	TCTGGACAGAATACAAATGAATCGTT	59.121	34.615	0.00	0.00	33.91	3.85
1620	5745	6.406370	TCTGGACAGAATACAAATGAATCGT	58.594	36.000	0.00	0.00	33.91	3.73
1621	5746	6.908870	TCTGGACAGAATACAAATGAATCG	57.091	37.500	0.00	0.00	33.91	3.34
1656	5785	2.002586	CCAAGCAGATAACCACTGACG	58.997	52.381	0.00	0.00	37.54	4.35
1683	5812	9.091220	GAACCTATCTACTAAAGATGTACCCAT	57.909	37.037	0.00	0.00	44.95	4.00
1767	5912	1.999735	ACAATACGTTGGCAGATCACG	59.000	47.619	7.82	7.82	39.70	4.35
1780	5925	9.825972	AGAAACAAGAAACATATTCACAATACG	57.174	29.630	0.00	0.00	0.00	3.06
1826	5971	2.384382	GAACGCATGGACAAACAACAG	58.616	47.619	0.00	0.00	0.00	3.16
1873	6034	2.949678	CGACGAACGCATCCTCGG	60.950	66.667	0.00	0.00	39.38	4.63
1924	6088	5.458779	GCTCAGTTCACACAAAAATTACACC	59.541	40.000	0.00	0.00	0.00	4.16
1971	6135	3.009363	CCTGCTTGGATTGGGGAATTTTT	59.991	43.478	0.00	0.00	38.35	1.94
2069	6241	4.894784	TCTGATGACAAGTCAACCTAACC	58.105	43.478	7.02	0.00	43.58	2.85
2187	6359	7.518370	CGTTGTTCACAGTTCTGCTAATAACTT	60.518	37.037	16.66	0.00	33.72	2.66
2289	6583	7.433680	TCGATAGCATTACTCAACACATACAT	58.566	34.615	0.00	0.00	0.00	2.29
2322	6618	1.021968	GGGTTGCTCGTTCAGTTGTT	58.978	50.000	0.00	0.00	0.00	2.83
2773	7315	4.697352	GCCACTAGAATATGGGCATTAGTG	59.303	45.833	0.00	0.00	38.91	2.74
2833	7386	1.165270	CCTTGGAGTAGCCCAAAACG	58.835	55.000	0.00	0.00	44.78	3.60
2860	8959	2.909006	ACAAGTCATCCTCAGTGACCAT	59.091	45.455	2.90	0.00	45.47	3.55
2878	8977	8.485578	ACCAACAAATTTATTCCTCCTTACAA	57.514	30.769	0.00	0.00	0.00	2.41
2978	9081	3.604582	AGAGGAATGCAGTTCACTTAGC	58.395	45.455	0.00	0.00	38.64	3.09
3141	9253	7.149973	GTCACTACAAGTCTACAATTACCACA	58.850	38.462	0.00	0.00	0.00	4.17
3142	9254	7.149973	TGTCACTACAAGTCTACAATTACCAC	58.850	38.462	0.00	0.00	30.91	4.16
3230	9344	7.254795	CCACTGTTCTAACTTTAGGAACAACTG	60.255	40.741	8.67	7.09	34.07	3.16
3271	9385	8.429493	TGACAATTCAGAATGTATCATCAGAC	57.571	34.615	0.00	0.00	37.40	3.51
3305	9419	6.290605	TGCCAATTCAGAATCATTCTCGATA	58.709	36.000	0.00	0.00	38.11	2.92
3306	9420	5.128205	TGCCAATTCAGAATCATTCTCGAT	58.872	37.500	0.00	0.00	38.11	3.59
3308	9422	4.888038	TGCCAATTCAGAATCATTCTCG	57.112	40.909	0.00	0.00	38.11	4.04
3359	9473	6.231211	AGGACACCGGCAAATTAGAATATAG	58.769	40.000	0.00	0.00	0.00	1.31
3393	9507	1.065636	TCTCCGTACTCCGTGAGACAT	60.066	52.381	7.76	0.00	37.71	3.06
3401	9515	1.433879	CCTTGCTCTCCGTACTCCG	59.566	63.158	0.00	0.00	0.00	4.63
3420	9534	0.445436	AAAGAAGAATGCAGAGCGCG	59.555	50.000	0.00	0.00	46.97	6.86
3436	9550	3.004002	TGCAGAGCACAACATTCTGAAAG	59.996	43.478	5.00	0.00	40.54	2.62
3446	9560	2.159653	CCGTAAGAATGCAGAGCACAAC	60.160	50.000	0.00	0.00	40.64	3.32
3476	9594	2.089201	ACGTCGATACAGACCACATGA	58.911	47.619	0.00	0.00	37.85	3.07

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.