AutoCloner

Multiple sequence alignment - TraesCS7B01G147600

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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	TraesCS7B01G147600	chr7B	100.000	2687	0	0	1	2687	193948873	193951559	0.000000e+00	4963.0
1	TraesCS7B01G147600	chr7B	99.434	884	5	0	23	906	37089298	37090181	0.000000e+00	1605.0
2	TraesCS7B01G147600	chr7B	95.672	878	37	1	1149	2026	193826818	193825942	0.000000e+00	1410.0
3	TraesCS7B01G147600	chr7B	84.436	559	69	8	360	904	23972902	23973456	3.940000e-148	534.0
4	TraesCS7B01G147600	chr7B	96.463	311	11	0	1805	2115	193802917	193802607	5.130000e-142	514.0
5	TraesCS7B01G147600	chr7B	85.377	424	31	12	1518	1941	193782951	193782559	6.920000e-111	411.0
6	TraesCS7B01G147600	chr7B	94.737	247	13	0	906	1152	193847285	193847039	4.200000e-103	385.0
7	TraesCS7B01G147600	chr7B	77.795	635	115	19	27	643	56384332	56384958	4.230000e-98	368.0
8	TraesCS7B01G147600	chr7B	84.046	351	42	7	2170	2510	193782230	193781884	2.580000e-85	326.0
9	TraesCS7B01G147600	chr5B	99.545	880	3	1	27	906	533503435	533502557	0.000000e+00	1602.0
10	TraesCS7B01G147600	chr1A	99.432	881	5	0	26	906	435081992	435082872	0.000000e+00	1600.0
11	TraesCS7B01G147600	chrUn	99.288	843	6	0	65	907	32492664	32491822	0.000000e+00	1524.0
12	TraesCS7B01G147600	chrUn	99.813	535	1	0	26	560	431448526	431447992	0.000000e+00	983.0
13	TraesCS7B01G147600	chrUn	98.134	536	1	1	25	560	374822455	374822981	0.000000e+00	926.0
14	TraesCS7B01G147600	chr3A	99.391	657	4	0	251	907	32593151	32593807	0.000000e+00	1192.0
15	TraesCS7B01G147600	chr7D	97.441	547	11	1	1278	1821	207208409	207207863	0.000000e+00	929.0
16	TraesCS7B01G147600	chr7D	93.855	358	14	4	927	1276	207209643	207209286	1.420000e-147	532.0
17	TraesCS7B01G147600	chr7D	97.980	297	6	0	1819	2115	207207703	207207407	1.430000e-142	516.0
18	TraesCS7B01G147600	chr3B	98.134	536	1	1	25	560	52615457	52615983	0.000000e+00	926.0
19	TraesCS7B01G147600	chr3B	99.710	345	1	0	562	906	53040323	53039979	1.360000e-177	632.0
20	TraesCS7B01G147600	chr3B	99.706	340	1	0	567	906	52616546	52616885	8.170000e-175	623.0
21	TraesCS7B01G147600	chr4A	84.821	560	69	7	360	906	709969366	709968810	1.410000e-152	549.0
22	TraesCS7B01G147600	chr7A	85.205	365	36	7	2161	2517	219864438	219864084	2.540000e-95	359.0
23	TraesCS7B01G147600	chr7A	88.276	145	15	2	2544	2687	219863642	219863499	3.560000e-39	172.0
24	TraesCS7B01G147600	chr7A	79.412	204	23	10	1946	2146	219864679	219864492	2.810000e-25	126.0
25	TraesCS7B01G147600	chr6D	77.808	365	72	8	1103	1465	278608467	278608110	1.620000e-52	217.0
26	TraesCS7B01G147600	chr4D	97.143	35	1	0	2640	2674	499224151	499224185	2.890000e-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	TraesCS7B01G147600	chr7B	193948873	193951559	2686	False	4963.0	4963	100.000000	1	2687	1	chr7B.!!$F4	2686
1	TraesCS7B01G147600	chr7B	37089298	37090181	883	False	1605.0	1605	99.434000	23	906	1	chr7B.!!$F2	883
2	TraesCS7B01G147600	chr7B	193825942	193826818	876	True	1410.0	1410	95.672000	1149	2026	1	chr7B.!!$R2	877
3	TraesCS7B01G147600	chr7B	23972902	23973456	554	False	534.0	534	84.436000	360	904	1	chr7B.!!$F1	544
4	TraesCS7B01G147600	chr7B	193781884	193782951	1067	True	368.5	411	84.711500	1518	2510	2	chr7B.!!$R4	992
5	TraesCS7B01G147600	chr7B	56384332	56384958	626	False	368.0	368	77.795000	27	643	1	chr7B.!!$F3	616
6	TraesCS7B01G147600	chr5B	533502557	533503435	878	True	1602.0	1602	99.545000	27	906	1	chr5B.!!$R1	879
7	TraesCS7B01G147600	chr1A	435081992	435082872	880	False	1600.0	1600	99.432000	26	906	1	chr1A.!!$F1	880
8	TraesCS7B01G147600	chrUn	32491822	32492664	842	True	1524.0	1524	99.288000	65	907	1	chrUn.!!$R1	842
9	TraesCS7B01G147600	chrUn	431447992	431448526	534	True	983.0	983	99.813000	26	560	1	chrUn.!!$R2	534
10	TraesCS7B01G147600	chrUn	374822455	374822981	526	False	926.0	926	98.134000	25	560	1	chrUn.!!$F1	535
11	TraesCS7B01G147600	chr3A	32593151	32593807	656	False	1192.0	1192	99.391000	251	907	1	chr3A.!!$F1	656
12	TraesCS7B01G147600	chr7D	207207407	207209643	2236	True	659.0	929	96.425333	927	2115	3	chr7D.!!$R1	1188
13	TraesCS7B01G147600	chr3B	52615457	52616885	1428	False	774.5	926	98.920000	25	906	2	chr3B.!!$F1	881
14	TraesCS7B01G147600	chr4A	709968810	709969366	556	True	549.0	549	84.821000	360	906	1	chr4A.!!$R1	546
15	TraesCS7B01G147600	chr7A	219863499	219864679	1180	True	219.0	359	84.297667	1946	2687	3	chr7A.!!$R1	741

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
21	22	0.396811	CACCCGTCTTCCAGGTTTCT	59.603	55.0	0.00	0.00	0.00	2.52	F
935	1510	1.114842	CTGTTCGTTCGTTCGTTCGA	58.885	50.0	9.17	9.17	38.08	3.71	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1622	3080	1.326213	CGCCTGAGGTCCAGTCATCT	61.326	60.0	0.0	0.0	41.33	2.90	R
2542	4302	1.013596	TAATTGCCGCCGTGATCTTG	58.986	50.0	0.0	0.0	0.00	3.02	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
17	18	3.637273	GCCACCCGTCTTCCAGGT	61.637	66.667	0.00	0.00	0.00	4.00
18	19	3.157680	CCACCCGTCTTCCAGGTT	58.842	61.111	0.00	0.00	0.00	3.50
19	20	1.454539	CCACCCGTCTTCCAGGTTT	59.545	57.895	0.00	0.00	0.00	3.27
20	21	0.605589	CCACCCGTCTTCCAGGTTTC	60.606	60.000	0.00	0.00	0.00	2.78
21	22	0.396811	CACCCGTCTTCCAGGTTTCT	59.603	55.000	0.00	0.00	0.00	2.52
909	1484	5.347620	AAGGTAAAAGCCTTTTTCGGTTT	57.652	34.783	7.88	0.00	45.91	3.27
910	1485	4.940463	AGGTAAAAGCCTTTTTCGGTTTC	58.060	39.130	7.88	0.00	37.64	2.78
911	1486	4.647853	AGGTAAAAGCCTTTTTCGGTTTCT	59.352	37.500	7.88	0.00	37.64	2.52
912	1487	4.980434	GGTAAAAGCCTTTTTCGGTTTCTC	59.020	41.667	7.88	0.00	37.64	2.87
913	1488	5.221185	GGTAAAAGCCTTTTTCGGTTTCTCT	60.221	40.000	7.88	0.00	37.64	3.10
914	1489	5.339008	AAAAGCCTTTTTCGGTTTCTCTT	57.661	34.783	0.00	0.00	30.85	2.85
915	1490	4.569761	AAGCCTTTTTCGGTTTCTCTTC	57.430	40.909	0.00	0.00	0.00	2.87
916	1491	2.885266	AGCCTTTTTCGGTTTCTCTTCC	59.115	45.455	0.00	0.00	0.00	3.46
917	1492	2.885266	GCCTTTTTCGGTTTCTCTTCCT	59.115	45.455	0.00	0.00	0.00	3.36
918	1493	3.304726	GCCTTTTTCGGTTTCTCTTCCTG	60.305	47.826	0.00	0.00	0.00	3.86
919	1494	3.883489	CCTTTTTCGGTTTCTCTTCCTGT	59.117	43.478	0.00	0.00	0.00	4.00
920	1495	4.338400	CCTTTTTCGGTTTCTCTTCCTGTT	59.662	41.667	0.00	0.00	0.00	3.16
921	1496	5.494632	TTTTTCGGTTTCTCTTCCTGTTC	57.505	39.130	0.00	0.00	0.00	3.18
922	1497	2.433868	TCGGTTTCTCTTCCTGTTCG	57.566	50.000	0.00	0.00	0.00	3.95
923	1498	1.684983	TCGGTTTCTCTTCCTGTTCGT	59.315	47.619	0.00	0.00	0.00	3.85
924	1499	2.101917	TCGGTTTCTCTTCCTGTTCGTT	59.898	45.455	0.00	0.00	0.00	3.85
925	1500	2.475487	CGGTTTCTCTTCCTGTTCGTTC	59.525	50.000	0.00	0.00	0.00	3.95
930	1505	1.714460	CTCTTCCTGTTCGTTCGTTCG	59.286	52.381	0.00	0.00	0.00	3.95
933	1508	1.480205	TCCTGTTCGTTCGTTCGTTC	58.520	50.000	2.67	0.00	0.00	3.95
935	1510	1.114842	CTGTTCGTTCGTTCGTTCGA	58.885	50.000	9.17	9.17	38.08	3.71
977	1552	1.334059	GCATTCGCATGTGTAATCCCG	60.334	52.381	6.09	0.00	38.36	5.14
986	1561	6.038825	TCGCATGTGTAATCCCGATTTTATTT	59.961	34.615	6.09	0.00	32.50	1.40
987	1562	6.359617	CGCATGTGTAATCCCGATTTTATTTC	59.640	38.462	0.00	0.00	32.50	2.17
997	1572	7.083875	TCCCGATTTTATTTCATCTGTTCAC	57.916	36.000	0.00	0.00	0.00	3.18
1695	3153	3.387374	ACAAGAGCTTCTGATCGATCCAT	59.613	43.478	22.31	2.21	33.18	3.41
1776	3237	2.547855	CGTGACCTTGTTGTCCATCTGA	60.548	50.000	0.00	0.00	34.25	3.27
1883	3506	6.990341	TTGATGATTGTGAGAACCATGTAG	57.010	37.500	0.00	0.00	0.00	2.74
2081	3787	2.029918	GCGAGAAAAGGTGGCAAGAAAT	60.030	45.455	0.00	0.00	0.00	2.17
2095	3801	4.202253	GGCAAGAAATGGTTTTTGGTCTCT	60.202	41.667	0.00	0.00	0.00	3.10
2139	3852	6.031751	AGCAGACTAAAAGTTGGAGACTAG	57.968	41.667	0.00	0.00	37.72	2.57
2142	3855	6.929606	GCAGACTAAAAGTTGGAGACTAGAAA	59.070	38.462	0.00	0.00	37.72	2.52
2147	3860	9.847224	ACTAAAAGTTGGAGACTAGAAATTTGA	57.153	29.630	0.00	0.00	37.72	2.69
2182	3933	8.795513	TCATATTCATGTGAAATTAATCCGCAT	58.204	29.630	9.66	9.66	37.61	4.73
2267	4018	9.978044	TCAACACAATTGTTCATCAATCATAAA	57.022	25.926	8.77	0.00	44.57	1.40
2285	4036	9.881529	AATCATAAAACAAAATGCATCAAACAC	57.118	25.926	0.00	0.00	0.00	3.32
2286	4037	7.562412	TCATAAAACAAAATGCATCAAACACG	58.438	30.769	0.00	0.00	0.00	4.49
2292	4044	2.314561	ATGCATCAAACACGAACACG	57.685	45.000	0.00	0.00	0.00	4.49
2303	4055	7.064674	TCAAACACGAACACGAAACATATAAC	58.935	34.615	0.00	0.00	0.00	1.89
2308	4060	7.484007	ACACGAACACGAAACATATAACTAGAG	59.516	37.037	0.00	0.00	0.00	2.43
2309	4061	6.471519	ACGAACACGAAACATATAACTAGAGC	59.528	38.462	0.00	0.00	0.00	4.09
2366	4119	8.660373	CACTCCTCTGTGATAAATGTTTAAGAC	58.340	37.037	0.00	0.00	40.12	3.01
2390	4144	2.550978	AGTGGTATCCGCATTTCGAAG	58.449	47.619	0.00	0.00	41.67	3.79
2391	4145	1.597663	GTGGTATCCGCATTTCGAAGG	59.402	52.381	0.00	0.00	41.67	3.46
2393	4147	1.597663	GGTATCCGCATTTCGAAGGTG	59.402	52.381	0.00	3.09	41.67	4.00
2395	4149	2.107950	ATCCGCATTTCGAAGGTGAA	57.892	45.000	14.53	0.00	41.67	3.18
2396	4150	1.153353	TCCGCATTTCGAAGGTGAAC	58.847	50.000	14.53	0.38	41.67	3.18
2397	4151	1.156736	CCGCATTTCGAAGGTGAACT	58.843	50.000	14.53	0.00	41.67	3.01
2427	4186	4.536765	AGTGTTGATGTTGTCTTCCCTTT	58.463	39.130	0.00	0.00	0.00	3.11
2429	4188	5.422012	AGTGTTGATGTTGTCTTCCCTTTTT	59.578	36.000	0.00	0.00	0.00	1.94
2430	4189	5.519927	GTGTTGATGTTGTCTTCCCTTTTTG	59.480	40.000	0.00	0.00	0.00	2.44
2431	4190	4.320608	TGATGTTGTCTTCCCTTTTTGC	57.679	40.909	0.00	0.00	0.00	3.68
2489	4249	6.272822	AGTAATCCAAATTTGACCAAGCTC	57.727	37.500	19.86	2.84	0.00	4.09
2490	4250	5.774690	AGTAATCCAAATTTGACCAAGCTCA	59.225	36.000	19.86	0.00	0.00	4.26
2491	4251	5.750352	AATCCAAATTTGACCAAGCTCAT	57.250	34.783	19.86	0.00	0.00	2.90
2511	4271	3.090210	TGCTCAATGATCATGTTGGGT	57.910	42.857	9.46	0.00	0.00	4.51
2512	4272	4.233632	TGCTCAATGATCATGTTGGGTA	57.766	40.909	9.46	2.05	0.00	3.69
2513	4273	4.598022	TGCTCAATGATCATGTTGGGTAA	58.402	39.130	9.46	0.00	0.00	2.85
2514	4274	4.641541	TGCTCAATGATCATGTTGGGTAAG	59.358	41.667	9.46	0.59	0.00	2.34
2515	4275	4.883585	GCTCAATGATCATGTTGGGTAAGA	59.116	41.667	9.46	0.00	0.00	2.10
2516	4276	5.533903	GCTCAATGATCATGTTGGGTAAGAT	59.466	40.000	9.46	0.00	0.00	2.40
2517	4277	6.040166	GCTCAATGATCATGTTGGGTAAGATT	59.960	38.462	9.46	0.00	0.00	2.40
2518	4278	7.417116	GCTCAATGATCATGTTGGGTAAGATTT	60.417	37.037	9.46	0.00	0.00	2.17
2519	4279	8.365060	TCAATGATCATGTTGGGTAAGATTTT	57.635	30.769	9.46	0.00	0.00	1.82
2520	4280	8.814931	TCAATGATCATGTTGGGTAAGATTTTT	58.185	29.630	9.46	0.00	0.00	1.94
2559	4319	2.764314	GCAAGATCACGGCGGCAAT	61.764	57.895	13.24	0.48	0.00	3.56
2560	4320	1.802636	CAAGATCACGGCGGCAATT	59.197	52.632	13.24	0.00	0.00	2.32
2566	4326	0.943673	TCACGGCGGCAATTATGATG	59.056	50.000	13.24	0.00	0.00	3.07
2570	4330	1.136363	CGGCGGCAATTATGATGTACG	60.136	52.381	10.53	0.00	0.00	3.67
2608	4368	1.926108	AGAACCGAGCTAGTCCTTGT	58.074	50.000	0.00	0.00	0.00	3.16
2616	4376	4.338682	CCGAGCTAGTCCTTGTACAATAGT	59.661	45.833	9.13	6.25	0.00	2.12
2663	4869	2.102252	GCACTCTCCACATCCTTCCTAG	59.898	54.545	0.00	0.00	0.00	3.02
2664	4870	2.102252	CACTCTCCACATCCTTCCTAGC	59.898	54.545	0.00	0.00	0.00	3.42
2665	4871	2.023501	ACTCTCCACATCCTTCCTAGCT	60.024	50.000	0.00	0.00	0.00	3.32
2667	4873	0.833287	TCCACATCCTTCCTAGCTGC	59.167	55.000	0.00	0.00	0.00	5.25
2669	4875	2.042464	CCACATCCTTCCTAGCTGCTA	58.958	52.381	9.34	9.34	0.00	3.49

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
5	6	2.689646	GAAGAGAAACCTGGAAGACGG	58.310	52.381	0.00	0.00	34.07	4.79
6	7	2.329379	CGAAGAGAAACCTGGAAGACG	58.671	52.381	0.00	0.00	34.07	4.18
7	8	2.299297	TCCGAAGAGAAACCTGGAAGAC	59.701	50.000	0.00	0.00	34.07	3.01
8	9	2.605257	TCCGAAGAGAAACCTGGAAGA	58.395	47.619	0.00	0.00	34.07	2.87
9	10	3.265791	CATCCGAAGAGAAACCTGGAAG	58.734	50.000	0.00	0.00	0.00	3.46
10	11	2.615493	GCATCCGAAGAGAAACCTGGAA	60.615	50.000	0.00	0.00	0.00	3.53
11	12	1.066143	GCATCCGAAGAGAAACCTGGA	60.066	52.381	0.00	0.00	0.00	3.86
12	13	1.373570	GCATCCGAAGAGAAACCTGG	58.626	55.000	0.00	0.00	0.00	4.45
13	14	1.002366	CGCATCCGAAGAGAAACCTG	58.998	55.000	0.00	0.00	36.29	4.00
14	15	0.108138	CCGCATCCGAAGAGAAACCT	60.108	55.000	0.00	0.00	36.29	3.50
15	16	0.391263	ACCGCATCCGAAGAGAAACC	60.391	55.000	0.00	0.00	36.29	3.27
16	17	1.439679	AACCGCATCCGAAGAGAAAC	58.560	50.000	0.00	0.00	36.29	2.78
17	18	2.178912	AAACCGCATCCGAAGAGAAA	57.821	45.000	0.00	0.00	36.29	2.52
18	19	2.178912	AAAACCGCATCCGAAGAGAA	57.821	45.000	0.00	0.00	36.29	2.87
19	20	2.073816	GAAAAACCGCATCCGAAGAGA	58.926	47.619	0.00	0.00	36.29	3.10
20	21	2.076863	AGAAAAACCGCATCCGAAGAG	58.923	47.619	0.00	0.00	36.29	2.85
21	22	2.073816	GAGAAAAACCGCATCCGAAGA	58.926	47.619	0.00	0.00	36.29	2.87
907	1482	3.447918	ACGAACGAACAGGAAGAGAAA	57.552	42.857	0.14	0.00	0.00	2.52
908	1483	3.378339	GAACGAACGAACAGGAAGAGAA	58.622	45.455	0.14	0.00	0.00	2.87
909	1484	2.603892	CGAACGAACGAACAGGAAGAGA	60.604	50.000	0.14	0.00	35.09	3.10
910	1485	1.714460	CGAACGAACGAACAGGAAGAG	59.286	52.381	0.14	0.00	35.09	2.85
911	1486	1.066002	ACGAACGAACGAACAGGAAGA	59.934	47.619	11.97	0.00	37.03	2.87
912	1487	1.484356	ACGAACGAACGAACAGGAAG	58.516	50.000	11.97	0.00	37.03	3.46
913	1488	1.854126	GAACGAACGAACGAACAGGAA	59.146	47.619	11.97	0.00	37.03	3.36
914	1489	1.480205	GAACGAACGAACGAACAGGA	58.520	50.000	11.97	0.00	37.03	3.86
915	1490	0.158096	CGAACGAACGAACGAACAGG	59.842	55.000	11.97	0.00	37.03	4.00
916	1491	1.114842	TCGAACGAACGAACGAACAG	58.885	50.000	11.97	2.62	39.34	3.16
917	1492	1.710249	GATCGAACGAACGAACGAACA	59.290	47.619	17.94	3.78	45.16	3.18
918	1493	2.378567	GATCGAACGAACGAACGAAC	57.621	50.000	17.94	13.94	45.16	3.95
935	1510	5.527214	TGCAAGAAACCATTAATCGATCGAT	59.473	36.000	24.60	24.60	36.23	3.59
966	1541	8.620416	CAGATGAAATAAAATCGGGATTACACA	58.380	33.333	0.00	0.00	0.00	3.72
970	1545	9.402320	TGAACAGATGAAATAAAATCGGGATTA	57.598	29.630	0.00	0.00	0.00	1.75
977	1552	7.514125	GCATGCGTGAACAGATGAAATAAAATC	60.514	37.037	10.93	0.00	0.00	2.17
986	1561	1.081094	CTGCATGCGTGAACAGATGA	58.919	50.000	14.09	0.00	31.67	2.92
987	1562	0.800631	ACTGCATGCGTGAACAGATG	59.199	50.000	14.09	0.00	34.25	2.90
1276	2734	2.721167	CGATGAGGTGGGCGAGGAA	61.721	63.158	0.00	0.00	0.00	3.36
1407	2865	3.125376	GCCGATGGCCAGGAGGAAT	62.125	63.158	23.32	0.00	44.06	3.01
1622	3080	1.326213	CGCCTGAGGTCCAGTCATCT	61.326	60.000	0.00	0.00	41.33	2.90
1695	3153	2.861274	TGCATGTCTGGTCAACATCAA	58.139	42.857	0.00	0.00	35.19	2.57
1883	3506	8.119226	GCTAACATGACACAAGAATCTGATTAC	58.881	37.037	2.28	0.00	0.00	1.89
2081	3787	8.977412	AGAAAATTTTCTAGAGACCAAAAACCA	58.023	29.630	27.95	0.00	45.17	3.67
2168	3919	9.944663	TGTGTTTTATCTATGCGGATTAATTTC	57.055	29.630	0.00	0.00	0.00	2.17
2213	3964	9.835389	ATTGGGGTTAAATATTGATGAATTGTG	57.165	29.630	0.00	0.00	0.00	3.33
2217	3968	9.659135	TGAGATTGGGGTTAAATATTGATGAAT	57.341	29.630	0.00	0.00	0.00	2.57
2227	3978	6.933514	ATTGTGTTGAGATTGGGGTTAAAT	57.066	33.333	0.00	0.00	0.00	1.40
2267	4018	4.867047	TGTTCGTGTTTGATGCATTTTGTT	59.133	33.333	0.00	0.00	0.00	2.83
2285	4036	6.691818	AGCTCTAGTTATATGTTTCGTGTTCG	59.308	38.462	0.00	0.00	38.55	3.95
2286	4037	7.988904	AGCTCTAGTTATATGTTTCGTGTTC	57.011	36.000	0.00	0.00	0.00	3.18
2292	4044	8.852135	AGACCACTAGCTCTAGTTATATGTTTC	58.148	37.037	6.82	0.00	43.35	2.78
2303	4055	4.739195	GTCAACAAGACCACTAGCTCTAG	58.261	47.826	0.00	2.55	41.56	2.43
2324	4076	4.302067	AGGAGTGATGGACATGGAATAGT	58.698	43.478	0.00	0.00	0.00	2.12
2356	4108	6.537660	GCGGATACCACTAAAGTCTTAAACAT	59.462	38.462	0.00	0.00	0.00	2.71
2362	4115	4.755266	ATGCGGATACCACTAAAGTCTT	57.245	40.909	0.00	0.00	0.00	3.01
2363	4116	4.755266	AATGCGGATACCACTAAAGTCT	57.245	40.909	0.00	0.00	0.00	3.24
2366	4119	4.116961	TCGAAATGCGGATACCACTAAAG	58.883	43.478	0.00	0.00	41.33	1.85
2370	4123	2.550978	CTTCGAAATGCGGATACCACT	58.449	47.619	0.00	0.00	41.33	4.00
2390	4144	5.560966	TCAACACTTTCTTCAAGTTCACC	57.439	39.130	0.00	0.00	43.89	4.02
2391	4145	6.555315	ACATCAACACTTTCTTCAAGTTCAC	58.445	36.000	0.00	0.00	43.89	3.18
2393	4147	7.029563	ACAACATCAACACTTTCTTCAAGTTC	58.970	34.615	0.00	0.00	43.89	3.01
2396	4150	6.789262	AGACAACATCAACACTTTCTTCAAG	58.211	36.000	0.00	0.00	38.64	3.02
2397	4151	6.757897	AGACAACATCAACACTTTCTTCAA	57.242	33.333	0.00	0.00	0.00	2.69
2430	4189	3.134127	GAAGGGTGGTGCATCCGC	61.134	66.667	9.56	9.56	40.09	5.54
2431	4190	2.819595	CGAAGGGTGGTGCATCCG	60.820	66.667	0.00	0.00	40.09	4.18
2455	4215	7.556275	TCAAATTTGGATTACTCCTACCATGAC	59.444	37.037	17.90	0.00	42.59	3.06
2460	4220	6.184789	TGGTCAAATTTGGATTACTCCTACC	58.815	40.000	17.90	13.38	42.59	3.18
2490	4250	3.638860	ACCCAACATGATCATTGAGCAT	58.361	40.909	11.51	11.51	39.36	3.79
2491	4251	3.090210	ACCCAACATGATCATTGAGCA	57.910	42.857	5.16	7.12	30.86	4.26
2523	4283	6.662865	TCTTGCCCAACATAGAATCAAAAA	57.337	33.333	0.00	0.00	0.00	1.94
2524	4284	6.436847	TGATCTTGCCCAACATAGAATCAAAA	59.563	34.615	0.00	0.00	0.00	2.44
2525	4285	5.951148	TGATCTTGCCCAACATAGAATCAAA	59.049	36.000	0.00	0.00	0.00	2.69
2526	4286	5.357878	GTGATCTTGCCCAACATAGAATCAA	59.642	40.000	0.00	0.00	0.00	2.57
2527	4287	4.883585	GTGATCTTGCCCAACATAGAATCA	59.116	41.667	0.00	0.00	0.00	2.57
2528	4288	4.024556	CGTGATCTTGCCCAACATAGAATC	60.025	45.833	0.00	0.00	0.00	2.52
2529	4289	3.879295	CGTGATCTTGCCCAACATAGAAT	59.121	43.478	0.00	0.00	0.00	2.40
2530	4290	3.270027	CGTGATCTTGCCCAACATAGAA	58.730	45.455	0.00	0.00	0.00	2.10
2531	4291	2.419990	CCGTGATCTTGCCCAACATAGA	60.420	50.000	0.00	0.00	0.00	1.98
2532	4292	1.942657	CCGTGATCTTGCCCAACATAG	59.057	52.381	0.00	0.00	0.00	2.23
2533	4293	2.016604	GCCGTGATCTTGCCCAACATA	61.017	52.381	0.00	0.00	0.00	2.29
2534	4294	1.315257	GCCGTGATCTTGCCCAACAT	61.315	55.000	0.00	0.00	0.00	2.71
2535	4295	1.971167	GCCGTGATCTTGCCCAACA	60.971	57.895	0.00	0.00	0.00	3.33
2536	4296	2.877691	GCCGTGATCTTGCCCAAC	59.122	61.111	0.00	0.00	0.00	3.77
2537	4297	2.745884	CGCCGTGATCTTGCCCAA	60.746	61.111	0.00	0.00	0.00	4.12
2538	4298	4.776322	CCGCCGTGATCTTGCCCA	62.776	66.667	0.00	0.00	0.00	5.36
2541	4301	2.270297	AATTGCCGCCGTGATCTTGC	62.270	55.000	0.00	0.00	0.00	4.01
2542	4302	1.013596	TAATTGCCGCCGTGATCTTG	58.986	50.000	0.00	0.00	0.00	3.02
2583	4343	4.087907	AGGACTAGCTCGGTTCTTTAACT	58.912	43.478	0.00	0.00	35.81	2.24
2586	4346	3.830755	ACAAGGACTAGCTCGGTTCTTTA	59.169	43.478	9.73	0.00	30.83	1.85
2595	4355	8.468399	AGTTTACTATTGTACAAGGACTAGCTC	58.532	37.037	14.65	3.36	0.00	4.09
2599	4359	7.093201	CCCCAGTTTACTATTGTACAAGGACTA	60.093	40.741	14.65	0.60	0.00	2.59
2608	4368	5.244189	TGCAACCCCAGTTTACTATTGTA	57.756	39.130	0.00	0.00	32.45	2.41
2616	4376	4.219115	TGAGATTTTGCAACCCCAGTTTA	58.781	39.130	0.00	0.00	32.45	2.01
2647	4853	1.202627	GCAGCTAGGAAGGATGTGGAG	60.203	57.143	0.00	0.00	0.00	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.