AutoCloner

Multiple sequence alignment - TraesCS4A01G345800

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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	TraesCS4A01G345800	chr4A	100.000	2426	0	0	1	2426	625031335	625028910	0.000000e+00	4481.0
1	TraesCS4A01G345800	chr4A	85.904	603	74	10	1807	2399	698481490	698482091	1.220000e-177	632.0
2	TraesCS4A01G345800	chr4A	100.000	36	0	0	609	644	36532493	36532528	1.560000e-07	67.6
3	TraesCS4A01G345800	chr7A	97.639	1567	36	1	834	2399	74649296	74650862	0.000000e+00	2687.0
4	TraesCS4A01G345800	chr7A	92.056	428	30	4	20	444	19470176	19469750	1.240000e-167	599.0
5	TraesCS4A01G345800	chr7A	85.092	436	25	15	20	443	108835797	108836204	2.250000e-110	409.0
6	TraesCS4A01G345800	chr7A	84.698	281	33	9	1517	1792	653638250	653638525	3.070000e-69	272.0
7	TraesCS4A01G345800	chr7A	85.496	262	31	6	1535	1792	653622679	653622937	1.430000e-67	267.0
8	TraesCS4A01G345800	chr7D	91.982	1746	101	10	669	2396	254372331	254370607	0.000000e+00	2412.0
9	TraesCS4A01G345800	chr7D	93.578	218	13	1	20	237	343299175	343298959	8.370000e-85	324.0
10	TraesCS4A01G345800	chr7D	88.571	210	21	3	238	444	343286285	343286076	4.000000e-63	252.0
11	TraesCS4A01G345800	chr7D	94.444	162	8	1	442	603	627187795	627187955	5.180000e-62	248.0
12	TraesCS4A01G345800	chr7D	82.192	219	36	3	1292	1508	71820291	71820508	4.120000e-43	185.0
13	TraesCS4A01G345800	chr7B	89.645	1748	126	12	667	2396	231696670	231694960	0.000000e+00	2174.0
14	TraesCS4A01G345800	chr7B	86.833	600	63	16	1807	2399	478838600	478838010	0.000000e+00	656.0
15	TraesCS4A01G345800	chr2D	90.739	1231	74	8	667	1858	533091966	533093195	0.000000e+00	1605.0
16	TraesCS4A01G345800	chr2D	92.857	168	10	2	442	609	54497024	54496859	2.410000e-60	243.0
17	TraesCS4A01G345800	chr3A	96.404	584	19	2	20	603	706869002	706869583	0.000000e+00	961.0
18	TraesCS4A01G345800	chr3D	93.816	566	34	1	668	1233	360691009	360690445	0.000000e+00	850.0
19	TraesCS4A01G345800	chr3D	91.165	532	22	7	1327	1858	360642092	360641586	0.000000e+00	699.0
20	TraesCS4A01G345800	chr3D	90.845	426	35	3	20	442	310698319	310697895	3.500000e-158	568.0
21	TraesCS4A01G345800	chr3D	84.722	288	38	5	1492	1778	553871184	553871466	1.420000e-72	283.0
22	TraesCS4A01G345800	chr3D	93.210	162	10	1	442	603	493175253	493175413	1.120000e-58	237.0
23	TraesCS4A01G345800	chr4B	88.167	600	58	12	1807	2399	96629507	96630100	0.000000e+00	702.0
24	TraesCS4A01G345800	chr4B	88.000	600	59	13	1807	2399	636043493	636042900	0.000000e+00	697.0
25	TraesCS4A01G345800	chr4B	95.062	162	7	1	442	603	647849722	647849882	1.110000e-63	254.0
26	TraesCS4A01G345800	chr4B	94.444	162	8	1	442	603	4742905	4743065	5.180000e-62	248.0
27	TraesCS4A01G345800	chr4B	95.455	44	1	1	602	644	535296925	535296968	4.330000e-08	69.4
28	TraesCS4A01G345800	chr4B	95.455	44	1	1	602	644	535424941	535424984	4.330000e-08	69.4
29	TraesCS4A01G345800	chr5B	87.667	600	61	13	1807	2399	429187244	429187837	0.000000e+00	686.0
30	TraesCS4A01G345800	chr1D	87.605	597	57	16	1807	2396	249621233	249620647	0.000000e+00	676.0
31	TraesCS4A01G345800	chr6A	91.589	428	30	4	20	442	575588667	575588241	9.660000e-164	586.0
32	TraesCS4A01G345800	chr6A	91.101	427	33	3	20	442	108184546	108184971	7.520000e-160	573.0
33	TraesCS4A01G345800	chr2A	80.404	643	93	17	933	1557	227536837	227537464	2.200000e-125	459.0
34	TraesCS4A01G345800	chr3B	84.477	277	33	9	1521	1792	662540279	662540008	5.140000e-67	265.0
35	TraesCS4A01G345800	chr5D	92.262	168	12	1	442	609	143839251	143839085	1.120000e-58	237.0
36	TraesCS4A01G345800	chr4D	95.455	44	1	1	602	644	435145431	435145474	4.330000e-08	69.4

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	TraesCS4A01G345800	chr4A	625028910	625031335	2425	True	4481	4481	100.000	1	2426	1	chr4A.!!$R1	2425
1	TraesCS4A01G345800	chr4A	698481490	698482091	601	False	632	632	85.904	1807	2399	1	chr4A.!!$F2	592
2	TraesCS4A01G345800	chr7A	74649296	74650862	1566	False	2687	2687	97.639	834	2399	1	chr7A.!!$F1	1565
3	TraesCS4A01G345800	chr7D	254370607	254372331	1724	True	2412	2412	91.982	669	2396	1	chr7D.!!$R1	1727
4	TraesCS4A01G345800	chr7B	231694960	231696670	1710	True	2174	2174	89.645	667	2396	1	chr7B.!!$R1	1729
5	TraesCS4A01G345800	chr7B	478838010	478838600	590	True	656	656	86.833	1807	2399	1	chr7B.!!$R2	592
6	TraesCS4A01G345800	chr2D	533091966	533093195	1229	False	1605	1605	90.739	667	1858	1	chr2D.!!$F1	1191
7	TraesCS4A01G345800	chr3A	706869002	706869583	581	False	961	961	96.404	20	603	1	chr3A.!!$F1	583
8	TraesCS4A01G345800	chr3D	360690445	360691009	564	True	850	850	93.816	668	1233	1	chr3D.!!$R3	565
9	TraesCS4A01G345800	chr3D	360641586	360642092	506	True	699	699	91.165	1327	1858	1	chr3D.!!$R2	531
10	TraesCS4A01G345800	chr4B	96629507	96630100	593	False	702	702	88.167	1807	2399	1	chr4B.!!$F2	592
11	TraesCS4A01G345800	chr4B	636042900	636043493	593	True	697	697	88.000	1807	2399	1	chr4B.!!$R1	592
12	TraesCS4A01G345800	chr5B	429187244	429187837	593	False	686	686	87.667	1807	2399	1	chr5B.!!$F1	592
13	TraesCS4A01G345800	chr1D	249620647	249621233	586	True	676	676	87.605	1807	2396	1	chr1D.!!$R1	589
14	TraesCS4A01G345800	chr2A	227536837	227537464	627	False	459	459	80.404	933	1557	1	chr2A.!!$F1	624

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
665	666	0.104671	ACACATTTTGCACACCAGCC	59.895	50.0	0.0	0.0	0.0	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1567	1608	0.390472	CCAGAGACAGACTTTCGCCC	60.39	60.0	0.0	0.0	0.0	6.13	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
209	210	3.505680	AGGCTATAGCACTCTGAGATTCG	59.494	47.826	25.53	0.00	44.36	3.34
217	218	3.063180	GCACTCTGAGATTCGGTGAATTG	59.937	47.826	12.44	0.00	31.89	2.32
303	304	5.292101	TCAACGCAAAATCGATTTGGTTTTT	59.708	32.000	23.38	11.97	46.93	1.94
356	357	4.130118	GAGTTGAGGAAGACTTTTCAGCA	58.870	43.478	15.06	2.62	0.00	4.41
451	452	1.600636	CCGCCACTGCAAGGAAAGA	60.601	57.895	8.96	0.00	39.30	2.52
547	548	1.915141	AACAAGCATGAGAACCCCTG	58.085	50.000	0.00	0.00	0.00	4.45
556	557	4.202090	GCATGAGAACCCCTGAAAATCATC	60.202	45.833	0.00	0.00	0.00	2.92
586	587	3.838565	AGATGGAGTATGGTGTCTCGAT	58.161	45.455	0.00	0.00	33.23	3.59
603	604	6.605995	TGTCTCGATAGTATTCTGGGAAGAAA	59.394	38.462	0.00	0.00	37.40	2.52
604	605	7.123697	TGTCTCGATAGTATTCTGGGAAGAAAA	59.876	37.037	0.00	0.00	37.40	2.29
605	606	7.980099	GTCTCGATAGTATTCTGGGAAGAAAAA	59.020	37.037	0.00	0.00	37.40	1.94
627	628	8.697507	AAAAATAAGTTTCTCTCCATGAGTGT	57.302	30.769	0.00	0.00	43.13	3.55
628	629	8.697507	AAAATAAGTTTCTCTCCATGAGTGTT	57.302	30.769	0.00	0.00	43.13	3.32
629	630	8.697507	AAATAAGTTTCTCTCCATGAGTGTTT	57.302	30.769	0.00	0.00	43.13	2.83
630	631	7.913674	ATAAGTTTCTCTCCATGAGTGTTTC	57.086	36.000	0.00	0.00	43.13	2.78
631	632	5.559148	AGTTTCTCTCCATGAGTGTTTCT	57.441	39.130	0.00	0.00	43.13	2.52
632	633	5.934781	AGTTTCTCTCCATGAGTGTTTCTT	58.065	37.500	0.00	0.00	43.13	2.52
633	634	6.360618	AGTTTCTCTCCATGAGTGTTTCTTT	58.639	36.000	0.00	0.00	43.13	2.52
634	635	6.261826	AGTTTCTCTCCATGAGTGTTTCTTTG	59.738	38.462	0.00	0.00	43.13	2.77
635	636	5.296151	TCTCTCCATGAGTGTTTCTTTGT	57.704	39.130	0.00	0.00	43.13	2.83
636	637	5.059161	TCTCTCCATGAGTGTTTCTTTGTG	58.941	41.667	0.00	0.00	43.13	3.33
637	638	3.565482	TCTCCATGAGTGTTTCTTTGTGC	59.435	43.478	0.00	0.00	0.00	4.57
638	639	3.286353	TCCATGAGTGTTTCTTTGTGCA	58.714	40.909	0.00	0.00	0.00	4.57
639	640	3.890756	TCCATGAGTGTTTCTTTGTGCAT	59.109	39.130	0.00	0.00	0.00	3.96
640	641	5.069318	TCCATGAGTGTTTCTTTGTGCATA	58.931	37.500	0.00	0.00	0.00	3.14
641	642	5.048782	TCCATGAGTGTTTCTTTGTGCATAC	60.049	40.000	0.00	0.00	0.00	2.39
642	643	5.278414	CCATGAGTGTTTCTTTGTGCATACA	60.278	40.000	0.00	0.00	34.31	2.29
643	644	5.826601	TGAGTGTTTCTTTGTGCATACAA	57.173	34.783	0.00	0.00	44.66	2.41
644	645	5.820131	TGAGTGTTTCTTTGTGCATACAAG	58.180	37.500	0.00	0.00	46.63	3.16
645	646	5.588246	TGAGTGTTTCTTTGTGCATACAAGA	59.412	36.000	0.00	0.00	46.63	3.02
646	647	6.094742	TGAGTGTTTCTTTGTGCATACAAGAA	59.905	34.615	11.76	11.76	46.63	2.52
647	648	6.265577	AGTGTTTCTTTGTGCATACAAGAAC	58.734	36.000	14.25	9.93	46.63	3.01
648	649	6.033341	GTGTTTCTTTGTGCATACAAGAACA	58.967	36.000	14.25	11.68	46.63	3.18
649	650	6.020678	GTGTTTCTTTGTGCATACAAGAACAC	60.021	38.462	20.19	20.19	46.63	3.32
650	651	5.826601	TTCTTTGTGCATACAAGAACACA	57.173	34.783	11.76	0.00	46.63	3.72
651	652	6.389830	TTCTTTGTGCATACAAGAACACAT	57.610	33.333	11.76	0.00	46.63	3.21
652	653	6.389830	TCTTTGTGCATACAAGAACACATT	57.610	33.333	0.00	0.00	46.63	2.71
653	654	6.804677	TCTTTGTGCATACAAGAACACATTT	58.195	32.000	0.00	0.00	46.63	2.32
654	655	7.264221	TCTTTGTGCATACAAGAACACATTTT	58.736	30.769	0.00	0.00	46.63	1.82
655	656	6.825284	TTGTGCATACAAGAACACATTTTG	57.175	33.333	0.00	0.00	41.66	2.44
656	657	4.744137	TGTGCATACAAGAACACATTTTGC	59.256	37.500	0.00	0.00	38.07	3.68
657	658	4.744137	GTGCATACAAGAACACATTTTGCA	59.256	37.500	0.00	0.00	35.42	4.08
658	659	4.744137	TGCATACAAGAACACATTTTGCAC	59.256	37.500	0.00	0.00	33.09	4.57
659	660	4.744137	GCATACAAGAACACATTTTGCACA	59.256	37.500	0.00	0.00	0.00	4.57
660	661	5.332506	GCATACAAGAACACATTTTGCACAC	60.333	40.000	0.00	0.00	0.00	3.82
661	662	3.520569	ACAAGAACACATTTTGCACACC	58.479	40.909	0.00	0.00	0.00	4.16
662	663	3.056250	ACAAGAACACATTTTGCACACCA	60.056	39.130	0.00	0.00	0.00	4.17
663	664	3.441496	AGAACACATTTTGCACACCAG	57.559	42.857	0.00	0.00	0.00	4.00
664	665	1.860326	GAACACATTTTGCACACCAGC	59.140	47.619	0.00	0.00	0.00	4.85
665	666	0.104671	ACACATTTTGCACACCAGCC	59.895	50.000	0.00	0.00	0.00	4.85
1107	1109	4.148825	GAGGTGTCGGCCGATGCT	62.149	66.667	33.58	15.69	37.74	3.79
1148	1150	2.892425	GTCTCGGGGCTTCATGCG	60.892	66.667	0.00	0.00	44.05	4.73
1444	1485	2.268076	GGCGATGTGGTGGTTGCTT	61.268	57.895	0.00	0.00	0.00	3.91
1567	1608	2.509336	GTGTGGGAGACGATGCCG	60.509	66.667	0.00	0.00	43.95	5.69
1810	1852	1.689813	ACTCGTGTGTGGTTGATGGTA	59.310	47.619	0.00	0.00	0.00	3.25
1826	1868	1.888512	TGGTAGTGTTCTGTACGGGTC	59.111	52.381	0.85	0.00	0.00	4.46
1985	2028	0.810031	CAACCTGCTAATCGTCCCGG	60.810	60.000	0.00	0.00	0.00	5.73
2054	2100	1.823470	GTGGTGCTCCTGTGTTGCA	60.823	57.895	6.34	0.00	34.23	4.08
2124	2171	2.777692	GTCTTGGTATTGGGATCCCTCA	59.222	50.000	31.05	18.31	36.94	3.86
2132	2179	4.614967	ATTGGGATCCCTCAATGAAACT	57.385	40.909	31.05	0.00	36.94	2.66
2157	2204	4.751060	ACAACTACTTGTGTCTTTCGTGA	58.249	39.130	0.00	0.00	39.28	4.35
2177	2224	4.646945	GTGATGATGGTCCTCTTAGTCTGA	59.353	45.833	0.00	0.00	0.00	3.27
2328	2379	6.782988	CCCTTATAAACTGGATCACTCTCCTA	59.217	42.308	0.00	0.00	36.20	2.94
2329	2380	7.456269	CCCTTATAAACTGGATCACTCTCCTAT	59.544	40.741	0.00	0.00	36.20	2.57
2421	2473	9.908152	AAAAGTATTATGTACCAAGTGAAAAGC	57.092	29.630	0.00	0.00	0.00	3.51
2422	2474	8.630054	AAGTATTATGTACCAAGTGAAAAGCA	57.370	30.769	0.00	0.00	0.00	3.91
2423	2475	8.630054	AGTATTATGTACCAAGTGAAAAGCAA	57.370	30.769	0.00	0.00	0.00	3.91
2424	2476	8.730680	AGTATTATGTACCAAGTGAAAAGCAAG	58.269	33.333	0.00	0.00	0.00	4.01
2425	2477	3.708563	TGTACCAAGTGAAAAGCAAGC	57.291	42.857	0.00	0.00	0.00	4.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
4	5	3.853330	CATTCGCAGTCCGCACCG	61.853	66.667	0.00	0.00	42.60	4.94
5	6	4.166011	GCATTCGCAGTCCGCACC	62.166	66.667	0.00	0.00	42.60	5.01
6	7	4.166011	GGCATTCGCAGTCCGCAC	62.166	66.667	0.00	0.00	42.60	5.34
83	84	1.746991	GCCTAGGTCTGCACTTGCC	60.747	63.158	11.31	0.00	41.18	4.52
110	111	1.580845	GCCTGTGTTAGTGCCAGCAG	61.581	60.000	0.00	0.00	0.00	4.24
116	117	0.109597	GCATGTGCCTGTGTTAGTGC	60.110	55.000	0.00	0.00	34.31	4.40
237	238	5.505181	CCCATGGCAATTATCTACTACCT	57.495	43.478	6.09	0.00	0.00	3.08
356	357	1.845143	AGGAAAGGATGATGAGCTGCT	59.155	47.619	0.00	0.00	0.00	4.24
362	363	3.333381	TCAACCCAAGGAAAGGATGATGA	59.667	43.478	0.00	0.00	0.00	2.92
413	414	3.412386	GGAGCTACAAAGAAAAGCCTGA	58.588	45.455	0.00	0.00	36.92	3.86
414	415	2.160417	CGGAGCTACAAAGAAAAGCCTG	59.840	50.000	0.00	0.00	36.92	4.85
451	452	8.951243	GCTTCTGGTCAGTTTATCTATTTCTTT	58.049	33.333	0.00	0.00	0.00	2.52
556	557	9.784531	AGACACCATACTCCATCTTATTTATTG	57.215	33.333	0.00	0.00	0.00	1.90
615	616	3.565482	GCACAAAGAAACACTCATGGAGA	59.435	43.478	0.00	0.00	33.32	3.71
616	617	3.316029	TGCACAAAGAAACACTCATGGAG	59.684	43.478	0.00	0.00	35.52	3.86
617	618	3.286353	TGCACAAAGAAACACTCATGGA	58.714	40.909	0.00	0.00	0.00	3.41
618	619	3.713858	TGCACAAAGAAACACTCATGG	57.286	42.857	0.00	0.00	0.00	3.66
619	620	5.761003	TGTATGCACAAAGAAACACTCATG	58.239	37.500	0.00	0.00	0.00	3.07
620	621	6.262944	TCTTGTATGCACAAAGAAACACTCAT	59.737	34.615	5.35	0.00	43.92	2.90
621	622	5.588246	TCTTGTATGCACAAAGAAACACTCA	59.412	36.000	5.35	0.00	43.92	3.41
622	623	6.060028	TCTTGTATGCACAAAGAAACACTC	57.940	37.500	5.35	0.00	43.92	3.51
623	624	6.127758	TGTTCTTGTATGCACAAAGAAACACT	60.128	34.615	17.28	0.00	43.92	3.55
624	625	6.020678	GTGTTCTTGTATGCACAAAGAAACAC	60.021	38.462	17.28	19.52	44.49	3.32
625	626	6.033341	GTGTTCTTGTATGCACAAAGAAACA	58.967	36.000	17.28	14.86	43.92	2.83
626	627	6.033341	TGTGTTCTTGTATGCACAAAGAAAC	58.967	36.000	17.28	16.51	43.92	2.78
627	628	6.201226	TGTGTTCTTGTATGCACAAAGAAA	57.799	33.333	17.28	8.86	43.92	2.52
628	629	5.826601	TGTGTTCTTGTATGCACAAAGAA	57.173	34.783	13.49	13.49	43.92	2.52
629	630	6.389830	AATGTGTTCTTGTATGCACAAAGA	57.610	33.333	0.00	0.00	43.92	2.52
630	631	7.339207	CAAAATGTGTTCTTGTATGCACAAAG	58.661	34.615	0.00	0.00	43.92	2.77
631	632	6.238049	GCAAAATGTGTTCTTGTATGCACAAA	60.238	34.615	0.00	0.00	43.92	2.83
632	633	5.233902	GCAAAATGTGTTCTTGTATGCACAA	59.766	36.000	0.00	0.00	43.70	3.33
633	634	4.744137	GCAAAATGTGTTCTTGTATGCACA	59.256	37.500	0.00	0.00	44.43	4.57
634	635	4.744137	TGCAAAATGTGTTCTTGTATGCAC	59.256	37.500	0.00	0.00	36.46	4.57
635	636	4.744137	GTGCAAAATGTGTTCTTGTATGCA	59.256	37.500	0.00	0.00	38.78	3.96
636	637	4.744137	TGTGCAAAATGTGTTCTTGTATGC	59.256	37.500	0.00	0.00	0.00	3.14
637	638	5.175491	GGTGTGCAAAATGTGTTCTTGTATG	59.825	40.000	0.00	0.00	0.00	2.39
638	639	5.163468	TGGTGTGCAAAATGTGTTCTTGTAT	60.163	36.000	0.00	0.00	0.00	2.29
639	640	4.158579	TGGTGTGCAAAATGTGTTCTTGTA	59.841	37.500	0.00	0.00	0.00	2.41
640	641	3.056250	TGGTGTGCAAAATGTGTTCTTGT	60.056	39.130	0.00	0.00	0.00	3.16
641	642	3.519579	TGGTGTGCAAAATGTGTTCTTG	58.480	40.909	0.00	0.00	0.00	3.02
642	643	3.784338	CTGGTGTGCAAAATGTGTTCTT	58.216	40.909	0.00	0.00	0.00	2.52
643	644	2.481795	GCTGGTGTGCAAAATGTGTTCT	60.482	45.455	0.00	0.00	0.00	3.01
644	645	1.860326	GCTGGTGTGCAAAATGTGTTC	59.140	47.619	0.00	0.00	0.00	3.18
645	646	1.473080	GGCTGGTGTGCAAAATGTGTT	60.473	47.619	0.00	0.00	34.04	3.32
646	647	0.104671	GGCTGGTGTGCAAAATGTGT	59.895	50.000	0.00	0.00	34.04	3.72
647	648	0.940519	CGGCTGGTGTGCAAAATGTG	60.941	55.000	0.00	0.00	34.04	3.21
648	649	1.363443	CGGCTGGTGTGCAAAATGT	59.637	52.632	0.00	0.00	34.04	2.71
649	650	1.373246	CCGGCTGGTGTGCAAAATG	60.373	57.895	2.29	0.00	34.04	2.32
650	651	3.050339	CCGGCTGGTGTGCAAAAT	58.950	55.556	2.29	0.00	34.04	1.82
651	652	3.910490	GCCGGCTGGTGTGCAAAA	61.910	61.111	22.15	0.00	37.67	2.44
1107	1109	2.046023	CATCGGGCAGCAGAACCA	60.046	61.111	0.00	0.00	0.00	3.67
1148	1150	1.522580	GAGATCTGGGCGGAACTGC	60.523	63.158	0.00	0.00	0.00	4.40
1567	1608	0.390472	CCAGAGACAGACTTTCGCCC	60.390	60.000	0.00	0.00	0.00	6.13
1810	1852	1.530013	CCGGACCCGTACAGAACACT	61.530	60.000	0.00	0.00	37.81	3.55
1985	2028	1.522580	GGAGCTCCGCCAGTGAATC	60.523	63.158	19.06	0.00	0.00	2.52
2054	2100	0.891904	GTGCATACCAAACCCACGGT	60.892	55.000	0.00	0.00	37.65	4.83
2157	2204	6.015918	CCTATCAGACTAAGAGGACCATCAT	58.984	44.000	0.00	0.00	0.00	2.45
2399	2451	7.484959	GCTTGCTTTTCACTTGGTACATAATAC	59.515	37.037	0.00	0.00	39.30	1.89
2400	2452	7.535139	GCTTGCTTTTCACTTGGTACATAATA	58.465	34.615	0.00	0.00	39.30	0.98
2401	2453	6.389906	GCTTGCTTTTCACTTGGTACATAAT	58.610	36.000	0.00	0.00	39.30	1.28
2402	2454	5.768317	GCTTGCTTTTCACTTGGTACATAA	58.232	37.500	0.00	0.00	39.30	1.90
2403	2455	5.371115	GCTTGCTTTTCACTTGGTACATA	57.629	39.130	0.00	0.00	39.30	2.29
2404	2456	4.243007	GCTTGCTTTTCACTTGGTACAT	57.757	40.909	0.00	0.00	39.30	2.29
2405	2457	3.708563	GCTTGCTTTTCACTTGGTACA	57.291	42.857	0.00	0.00	0.00	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.