AutoCloner

Multiple sequence alignment - TraesCS1D01G424200

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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	TraesCS1D01G424200	chr1D	100.000	3795	0	0	1	3795	478770220	478766426	0.000000e+00	7009.0
1	TraesCS1D01G424200	chr1D	95.960	594	20	3	3205	3795	104465459	104466051	0.000000e+00	961.0
2	TraesCS1D01G424200	chr1D	90.053	563	45	9	3205	3763	415157590	415157035	0.000000e+00	719.0
3	TraesCS1D01G424200	chr1A	96.349	1753	32	12	1468	3212	574845747	574844019	0.000000e+00	2854.0
4	TraesCS1D01G424200	chr1A	92.014	576	14	16	860	1403	574846348	574845773	0.000000e+00	780.0
5	TraesCS1D01G424200	chr4A	93.524	803	48	3	1	800	97302003	97301202	0.000000e+00	1192.0
6	TraesCS1D01G424200	chr3B	91.687	806	58	5	1	801	250024171	250024972	0.000000e+00	1109.0
7	TraesCS1D01G424200	chr3B	86.022	186	22	4	619	800	57319995	57319810	2.990000e-46	196.0
8	TraesCS1D01G424200	chr3B	95.349	43	0	2	3172	3212	821053394	821053352	2.450000e-07	67.6
9	TraesCS1D01G424200	chr2A	91.574	807	57	7	1	800	83116341	83115539	0.000000e+00	1103.0
10	TraesCS1D01G424200	chr6B	89.596	817	66	12	1	800	715094948	715094134	0.000000e+00	1020.0
11	TraesCS1D01G424200	chr7D	95.805	596	19	5	3204	3795	103804273	103803680	0.000000e+00	957.0
12	TraesCS1D01G424200	chr7D	88.964	589	49	14	3204	3785	568324930	568325509	0.000000e+00	713.0
13	TraesCS1D01G424200	chr2D	95.791	594	19	4	3206	3795	53761221	53761812	0.000000e+00	953.0
14	TraesCS1D01G424200	chr2D	85.539	816	93	13	1	800	376367950	376368756	0.000000e+00	830.0
15	TraesCS1D01G424200	chr2D	95.781	474	16	3	3207	3676	579080109	579080582	0.000000e+00	761.0
16	TraesCS1D01G424200	chr2D	94.309	123	7	0	3673	3795	579080545	579080667	5.000000e-44	189.0
17	TraesCS1D01G424200	chr6D	94.004	567	25	3	3205	3762	469011291	469010725	0.000000e+00	850.0
18	TraesCS1D01G424200	chr3D	95.893	487	19	1	1	487	515817016	515817501	0.000000e+00	787.0
19	TraesCS1D01G424200	chr3D	75.269	186	43	3	2119	2301	15909252	15909437	6.750000e-13	86.1
20	TraesCS1D01G424200	chr5A	90.038	522	40	11	3246	3763	457006660	457007173	0.000000e+00	665.0
21	TraesCS1D01G424200	chr5A	82.011	189	29	3	376	563	16484524	16484708	5.080000e-34	156.0
22	TraesCS1D01G424200	chr7B	86.622	598	61	14	3204	3788	703110424	703109833	0.000000e+00	643.0
23	TraesCS1D01G424200	chr7B	86.222	225	19	4	1	225	735282670	735282882	2.280000e-57	233.0
24	TraesCS1D01G424200	chr7B	88.235	51	4	2	3206	3255	291940129	291940080	4.090000e-05	60.2
25	TraesCS1D01G424200	chr7B	100.000	28	0	0	3207	3234	533553603	533553630	7.000000e-03	52.8
26	TraesCS1D01G424200	chr6A	84.659	176	24	3	628	800	586331614	586331439	5.040000e-39	172.0
27	TraesCS1D01G424200	chr2B	86.486	148	18	2	619	765	694728036	694728182	1.090000e-35	161.0
28	TraesCS1D01G424200	chr1B	84.242	165	26	0	636	800	563748844	563748680	1.090000e-35	161.0
29	TraesCS1D01G424200	chr5B	97.059	34	0	1	524	556	596557798	596557831	5.300000e-04	56.5

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	TraesCS1D01G424200	chr1D	478766426	478770220	3794	True	7009	7009	100.0000	1	3795	1	chr1D.!!$R2	3794
1	TraesCS1D01G424200	chr1D	104465459	104466051	592	False	961	961	95.9600	3205	3795	1	chr1D.!!$F1	590
2	TraesCS1D01G424200	chr1D	415157035	415157590	555	True	719	719	90.0530	3205	3763	1	chr1D.!!$R1	558
3	TraesCS1D01G424200	chr1A	574844019	574846348	2329	True	1817	2854	94.1815	860	3212	2	chr1A.!!$R1	2352
4	TraesCS1D01G424200	chr4A	97301202	97302003	801	True	1192	1192	93.5240	1	800	1	chr4A.!!$R1	799
5	TraesCS1D01G424200	chr3B	250024171	250024972	801	False	1109	1109	91.6870	1	801	1	chr3B.!!$F1	800
6	TraesCS1D01G424200	chr2A	83115539	83116341	802	True	1103	1103	91.5740	1	800	1	chr2A.!!$R1	799
7	TraesCS1D01G424200	chr6B	715094134	715094948	814	True	1020	1020	89.5960	1	800	1	chr6B.!!$R1	799
8	TraesCS1D01G424200	chr7D	103803680	103804273	593	True	957	957	95.8050	3204	3795	1	chr7D.!!$R1	591
9	TraesCS1D01G424200	chr7D	568324930	568325509	579	False	713	713	88.9640	3204	3785	1	chr7D.!!$F1	581
10	TraesCS1D01G424200	chr2D	53761221	53761812	591	False	953	953	95.7910	3206	3795	1	chr2D.!!$F1	589
11	TraesCS1D01G424200	chr2D	376367950	376368756	806	False	830	830	85.5390	1	800	1	chr2D.!!$F2	799
12	TraesCS1D01G424200	chr2D	579080109	579080667	558	False	475	761	95.0450	3207	3795	2	chr2D.!!$F3	588
13	TraesCS1D01G424200	chr6D	469010725	469011291	566	True	850	850	94.0040	3205	3762	1	chr6D.!!$R1	557
14	TraesCS1D01G424200	chr5A	457006660	457007173	513	False	665	665	90.0380	3246	3763	1	chr5A.!!$F2	517
15	TraesCS1D01G424200	chr7B	703109833	703110424	591	True	643	643	86.6220	3204	3788	1	chr7B.!!$R2	584

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	Hairpin	End Stability	Orientation
596	625	0.320697	GACTGGGTGGCTTAACGTCT	59.679	55.0	0.00	0.0	4.18	F
782	816	1.084018	AGGATCCCCAATTGTGGTGT	58.916	50.0	8.55	44.3	4.16	F
2118	2184	0.107410	TGGGCAATGTATCCGTCACC	60.107	55.0	0.00	0.0	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1642	1708	0.322187	GACGGTGGCCCTGTGTTATT	60.322	55.0	10.10	0.00	0.00	1.40	R
2605	2671	0.601558	GTCGTAGGACAGGACAGCAA	59.398	55.0	10.63	0.00	42.91	3.91	R
3288	3362	0.787908	GATAACACGTGGCGCAAACG	60.788	55.0	26.91	26.91	46.32	3.60	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
363	377	1.074775	TTCTTCGGTGGGCTGCAAT	59.925	52.632	0.50	0.00	0.00	3.56
365	379	1.973281	CTTCGGTGGGCTGCAATGT	60.973	57.895	0.50	0.00	0.00	2.71
366	380	1.526575	CTTCGGTGGGCTGCAATGTT	61.527	55.000	0.50	0.00	0.00	2.71
383	397	1.661617	TGTTGTCCAAGTTCGTCGTTG	59.338	47.619	0.00	0.00	0.00	4.10
413	427	1.228154	GGTGTTCTTGGAGGCGGTT	60.228	57.895	0.00	0.00	0.00	4.44
596	625	0.320697	GACTGGGTGGCTTAACGTCT	59.679	55.000	0.00	0.00	0.00	4.18
607	636	4.750098	TGGCTTAACGTCTTCTTCTTCTTG	59.250	41.667	0.00	0.00	0.00	3.02
719	748	5.588246	TCTGAAAACTGTCAGCACAATGTTA	59.412	36.000	0.00	0.00	44.01	2.41
782	816	1.084018	AGGATCCCCAATTGTGGTGT	58.916	50.000	8.55	0.00	44.30	4.16
821	855	8.727100	ACTCTATATTCAGAGAGAGAGAGAGA	57.273	38.462	9.12	0.00	41.78	3.10
822	856	9.159254	ACTCTATATTCAGAGAGAGAGAGAGAA	57.841	37.037	9.12	0.00	41.78	2.87
850	884	5.470845	GCGTCAGCATATGGGTAATTATC	57.529	43.478	4.56	0.00	44.35	1.75
851	885	4.935205	GCGTCAGCATATGGGTAATTATCA	59.065	41.667	4.56	0.00	44.35	2.15
852	886	5.586243	GCGTCAGCATATGGGTAATTATCAT	59.414	40.000	4.56	4.17	44.35	2.45
853	887	6.094048	GCGTCAGCATATGGGTAATTATCATT	59.906	38.462	4.56	0.00	44.35	2.57
854	888	7.362056	GCGTCAGCATATGGGTAATTATCATTT	60.362	37.037	4.56	0.00	44.35	2.32
855	889	9.161629	CGTCAGCATATGGGTAATTATCATTTA	57.838	33.333	4.56	0.00	0.00	1.40
938	980	5.117287	GCGTACGCCATTTTTATTTGTGAAA	59.883	36.000	29.51	0.00	34.56	2.69
940	982	6.361214	CGTACGCCATTTTTATTTGTGAAAGT	59.639	34.615	0.52	0.00	0.00	2.66
973	1029	6.641314	CAGATAGTATTTAGTAGTTGCCCACG	59.359	42.308	0.00	0.00	0.00	4.94
1022	1088	2.851263	TAAAAGGGTGCACAGTCGAT	57.149	45.000	20.43	2.34	0.00	3.59
1054	1120	3.483421	ACACCAAACCACTAGCTAAACC	58.517	45.455	0.00	0.00	0.00	3.27
1332	1398	1.680668	GAGAAGAGCTATACGCAGCG	58.319	55.000	14.82	14.82	46.52	5.18
1459	1525	3.200593	CGCAGGAGCAGCACCATC	61.201	66.667	11.90	1.21	42.27	3.51
1460	1526	2.045634	GCAGGAGCAGCACCATCA	60.046	61.111	11.90	0.00	41.58	3.07
1461	1527	2.113433	GCAGGAGCAGCACCATCAG	61.113	63.158	11.90	0.00	41.58	2.90
1462	1528	1.451567	CAGGAGCAGCACCATCAGG	60.452	63.158	11.90	0.00	42.21	3.86
1463	1529	2.827642	GGAGCAGCACCATCAGGC	60.828	66.667	3.59	0.00	39.06	4.85
1464	1530	2.045634	GAGCAGCACCATCAGGCA	60.046	61.111	0.00	0.00	39.06	4.75
1465	1531	2.360852	AGCAGCACCATCAGGCAC	60.361	61.111	0.00	0.00	39.06	5.01
1466	1532	2.360852	GCAGCACCATCAGGCACT	60.361	61.111	0.00	0.00	43.88	4.40
1573	1639	2.350895	CACCGCCAATGGGAGACA	59.649	61.111	0.00	0.00	35.76	3.41
1599	1665	6.101332	TGAATTTGCAGATATGCTTTTCCAC	58.899	36.000	14.34	0.49	35.49	4.02
1641	1707	5.864474	GCAGTATATTAGAGTGCGTATGCTT	59.136	40.000	8.69	0.00	43.34	3.91
1642	1708	7.027760	GCAGTATATTAGAGTGCGTATGCTTA	58.972	38.462	8.69	0.00	43.34	3.09
1643	1709	7.541091	GCAGTATATTAGAGTGCGTATGCTTAA	59.459	37.037	8.69	2.91	43.34	1.85
1874	1940	4.814294	CGGTGACTACAGGCCGGC	62.814	72.222	21.18	21.18	40.45	6.13
1982	2048	4.116961	TCTGTATCTTTTAACGCCATCGG	58.883	43.478	0.00	0.00	40.69	4.18
2089	2155	3.426568	GCAAGCTCGTCCTGCCAC	61.427	66.667	0.00	0.00	0.00	5.01
2090	2156	2.743928	CAAGCTCGTCCTGCCACC	60.744	66.667	0.00	0.00	0.00	4.61
2091	2157	4.379243	AAGCTCGTCCTGCCACCG	62.379	66.667	0.00	0.00	0.00	4.94
2118	2184	0.107410	TGGGCAATGTATCCGTCACC	60.107	55.000	0.00	0.00	0.00	4.02
2154	2220	0.676466	CGGCTTTGGAGGTATGCACA	60.676	55.000	0.00	0.00	0.00	4.57
2404	2470	2.746277	GGCTTTGGATCGCGGTGT	60.746	61.111	6.13	0.00	0.00	4.16
2416	2482	0.788391	CGCGGTGTACAGGTTCTTTC	59.212	55.000	0.00	0.00	0.00	2.62
2502	2568	1.462541	GCGTTCGAGCTCATTGTTGTC	60.463	52.381	15.40	0.00	0.00	3.18
2514	2580	3.316029	TCATTGTTGTCAAGAAGCACCAG	59.684	43.478	1.35	0.00	36.97	4.00
2605	2671	2.034558	CGTCTTTCTGCATGTTTGGGTT	59.965	45.455	0.00	0.00	0.00	4.11
2701	2769	5.365619	AGTGTGTGTTTACCTTCCTTGTAG	58.634	41.667	0.00	0.00	0.00	2.74
2748	2816	3.576982	AGTGTGTGTTTATCTTCCTCGGA	59.423	43.478	0.00	0.00	0.00	4.55
2754	2822	5.175859	GTGTTTATCTTCCTCGGATGTTGA	58.824	41.667	0.00	0.00	0.00	3.18
2792	2860	8.067189	GTGTGTTGTTTGTTTCTGTTGAAAATT	58.933	29.630	0.00	0.00	42.94	1.82
2887	2956	0.462937	CCCTGTGTCCGTTTGTGTCA	60.463	55.000	0.00	0.00	0.00	3.58
2929	2998	1.461127	GAACAACACACTCAGCGATCC	59.539	52.381	0.00	0.00	0.00	3.36
3052	3121	4.620803	CGGGATAGACTTAATTAGGCGCAT	60.621	45.833	10.83	3.98	36.79	4.73
3275	3347	1.134367	CTCCGTGCGTTGGATCTCTTA	59.866	52.381	0.00	0.00	34.32	2.10
3288	3362	4.709250	GGATCTCTTAATCCAAGGACACC	58.291	47.826	0.00	0.00	44.04	4.16
3306	3380	1.205568	CGTTTGCGCCACGTGTTAT	59.794	52.632	15.65	0.00	32.80	1.89
3472	3559	0.882042	CCCAAGGCGGATCTCGATTG	60.882	60.000	7.64	9.96	42.43	2.67
3520	3610	0.258194	TAACTCTCCCCTCGTCCTCC	59.742	60.000	0.00	0.00	0.00	4.30
3577	3667	1.499368	TTAGGGTTAGGGCGGGTTAG	58.501	55.000	0.00	0.00	0.00	2.34

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
274	287	1.402896	CCTCGGCCTCTCTAATGCCA	61.403	60.000	0.00	0.00	45.63	4.92
349	362	2.115052	AACATTGCAGCCCACCGA	59.885	55.556	0.00	0.00	0.00	4.69
363	377	1.661617	CAACGACGAACTTGGACAACA	59.338	47.619	0.00	0.00	0.00	3.33
365	379	1.292061	CCAACGACGAACTTGGACAA	58.708	50.000	9.50	0.00	39.58	3.18
366	380	1.155424	GCCAACGACGAACTTGGACA	61.155	55.000	17.25	0.00	39.58	4.02
596	625	6.668323	CAATAGGAAAACGCAAGAAGAAGAA	58.332	36.000	0.00	0.00	43.62	2.52
607	636	2.163412	TGACATGGCAATAGGAAAACGC	59.837	45.455	0.00	0.00	0.00	4.84
801	835	8.663167	TCAGATTCTCTCTCTCTCTCTGAATAT	58.337	37.037	0.00	0.00	35.86	1.28
802	836	8.033178	TCAGATTCTCTCTCTCTCTCTGAATA	57.967	38.462	0.00	0.00	35.86	1.75
803	837	6.903516	TCAGATTCTCTCTCTCTCTCTGAAT	58.096	40.000	0.00	0.00	35.86	2.57
804	838	6.312141	TCAGATTCTCTCTCTCTCTCTGAA	57.688	41.667	0.00	0.00	35.86	3.02
805	839	5.685861	GCTCAGATTCTCTCTCTCTCTCTGA	60.686	48.000	0.00	0.00	36.94	3.27
806	840	4.514441	GCTCAGATTCTCTCTCTCTCTCTG	59.486	50.000	0.00	0.00	29.16	3.35
807	841	4.712476	GCTCAGATTCTCTCTCTCTCTCT	58.288	47.826	0.00	0.00	29.16	3.10
808	842	3.496130	CGCTCAGATTCTCTCTCTCTCTC	59.504	52.174	0.00	0.00	29.16	3.20
809	843	3.118261	ACGCTCAGATTCTCTCTCTCTCT	60.118	47.826	0.00	0.00	29.16	3.10
810	844	3.206150	ACGCTCAGATTCTCTCTCTCTC	58.794	50.000	0.00	0.00	29.16	3.20
811	845	3.206150	GACGCTCAGATTCTCTCTCTCT	58.794	50.000	0.00	0.00	29.16	3.10
812	846	2.942376	TGACGCTCAGATTCTCTCTCTC	59.058	50.000	0.00	0.00	29.16	3.20
813	847	2.997980	TGACGCTCAGATTCTCTCTCT	58.002	47.619	0.00	0.00	29.16	3.10
824	858	0.105593	ACCCATATGCTGACGCTCAG	59.894	55.000	9.73	9.73	46.90	3.35
825	859	1.408969	TACCCATATGCTGACGCTCA	58.591	50.000	0.00	0.00	36.97	4.26
826	860	2.526304	TTACCCATATGCTGACGCTC	57.474	50.000	0.00	0.00	36.97	5.03
827	861	3.492102	AATTACCCATATGCTGACGCT	57.508	42.857	0.00	0.00	36.97	5.07
828	862	4.935205	TGATAATTACCCATATGCTGACGC	59.065	41.667	0.00	0.00	0.00	5.19
829	863	7.615582	AATGATAATTACCCATATGCTGACG	57.384	36.000	0.00	0.00	0.00	4.35
884	918	6.534079	GCAACGACTTACTATATCCACTGTTT	59.466	38.462	0.00	0.00	0.00	2.83
891	928	3.988517	GCTGGCAACGACTTACTATATCC	59.011	47.826	0.00	0.00	42.51	2.59
899	936	2.475098	TACGCGCTGGCAACGACTTA	62.475	55.000	15.36	1.07	39.92	2.24
985	1041	5.453339	CCTTTTATACTAGCAGTAGCAGCCA	60.453	44.000	0.00	0.00	45.49	4.75
989	1045	5.684030	GCACCCTTTTATACTAGCAGTAGCA	60.684	44.000	0.00	0.00	45.49	3.49
1054	1120	2.798283	CAGTTGAACCAGCTGCAATTTG	59.202	45.455	8.66	6.86	36.07	2.32
1232	1298	2.198304	CTGGAGGTGGGGTAAGTGGC	62.198	65.000	0.00	0.00	0.00	5.01
1445	1511	2.996395	CCTGATGGTGCTGCTCCT	59.004	61.111	20.19	7.25	0.00	3.69
1446	1512	2.827642	GCCTGATGGTGCTGCTCC	60.828	66.667	13.60	13.60	35.27	4.70
1447	1513	2.045634	TGCCTGATGGTGCTGCTC	60.046	61.111	0.00	0.00	35.27	4.26
1448	1514	2.360852	GTGCCTGATGGTGCTGCT	60.361	61.111	0.00	0.00	35.27	4.24
1449	1515	2.360852	AGTGCCTGATGGTGCTGC	60.361	61.111	0.00	0.00	35.27	5.25
1450	1516	2.697761	GCAGTGCCTGATGGTGCTG	61.698	63.158	2.85	0.00	38.90	4.41
1451	1517	2.360852	GCAGTGCCTGATGGTGCT	60.361	61.111	2.85	0.00	32.20	4.40
1452	1518	3.446570	GGCAGTGCCTGATGGTGC	61.447	66.667	27.48	0.00	46.69	5.01
1463	1529	2.433838	CGTCTCCTGCAGGCAGTG	60.434	66.667	28.91	16.78	42.15	3.66
1464	1530	4.385405	GCGTCTCCTGCAGGCAGT	62.385	66.667	28.91	0.00	42.15	4.40
1641	1707	0.985760	ACGGTGGCCCTGTGTTATTA	59.014	50.000	0.00	0.00	0.00	0.98
1642	1708	0.322187	GACGGTGGCCCTGTGTTATT	60.322	55.000	10.10	0.00	0.00	1.40
1643	1709	1.298667	GACGGTGGCCCTGTGTTAT	59.701	57.895	10.10	0.00	0.00	1.89
1874	1940	1.688197	GGAGGAGAGCAAGGAGATGAG	59.312	57.143	0.00	0.00	0.00	2.90
2074	2140	4.379243	CGGTGGCAGGACGAGCTT	62.379	66.667	0.00	0.00	0.00	3.74
2079	2145	3.583276	TAACAGCGGTGGCAGGACG	62.583	63.158	20.20	0.00	43.41	4.79
2080	2146	2.033194	GTAACAGCGGTGGCAGGAC	61.033	63.158	20.20	5.31	43.41	3.85
2081	2147	2.214216	AGTAACAGCGGTGGCAGGA	61.214	57.895	20.20	0.00	43.41	3.86
2082	2148	2.034879	CAGTAACAGCGGTGGCAGG	61.035	63.158	20.20	0.34	43.41	4.85
2083	2149	2.034879	CCAGTAACAGCGGTGGCAG	61.035	63.158	20.20	5.64	43.41	4.85
2084	2150	2.031919	CCAGTAACAGCGGTGGCA	59.968	61.111	20.20	2.66	43.41	4.92
2085	2151	2.746277	CCCAGTAACAGCGGTGGC	60.746	66.667	20.20	8.66	40.37	5.01
2086	2152	2.746277	GCCCAGTAACAGCGGTGG	60.746	66.667	20.20	0.00	0.00	4.61
2087	2153	0.960364	ATTGCCCAGTAACAGCGGTG	60.960	55.000	14.13	14.13	0.00	4.94
2088	2154	0.960364	CATTGCCCAGTAACAGCGGT	60.960	55.000	0.00	0.00	0.00	5.68
2089	2155	0.960364	ACATTGCCCAGTAACAGCGG	60.960	55.000	0.00	0.00	0.00	5.52
2090	2156	1.732941	TACATTGCCCAGTAACAGCG	58.267	50.000	0.00	0.00	0.00	5.18
2091	2157	2.618709	GGATACATTGCCCAGTAACAGC	59.381	50.000	0.00	0.00	0.00	4.40
2092	2158	2.872245	CGGATACATTGCCCAGTAACAG	59.128	50.000	0.00	0.00	0.00	3.16
2118	2184	3.181367	GCCATGTTGACGAGGCAG	58.819	61.111	10.57	0.00	46.26	4.85
2154	2220	4.323417	TGTTGTCGACAAAAGATATGCCT	58.677	39.130	31.20	0.00	37.63	4.75
2169	2235	3.003275	AGCAAACCACAGTATTGTTGTCG	59.997	43.478	0.00	0.00	32.48	4.35
2416	2482	4.680110	CGCGATCTTGGTAAAGTATAGGTG	59.320	45.833	0.00	0.00	34.78	4.00
2458	2524	2.154462	GAACACACCAGCAATGCTACT	58.846	47.619	7.70	0.00	36.40	2.57
2502	2568	3.594134	CTTCCTCTACTGGTGCTTCTTG	58.406	50.000	0.00	0.00	0.00	3.02
2514	2580	4.223255	AGCTTCTTGGTTACCTTCCTCTAC	59.777	45.833	2.07	0.00	0.00	2.59
2605	2671	0.601558	GTCGTAGGACAGGACAGCAA	59.398	55.000	10.63	0.00	42.91	3.91
2638	2704	1.796459	GCTCGGTAAACACACATTCGT	59.204	47.619	0.00	0.00	0.00	3.85
2643	2709	1.541670	GGGAAGCTCGGTAAACACACA	60.542	52.381	0.00	0.00	0.00	3.72
2701	2769	3.979495	CACACACGTAGAGAACCACTTAC	59.021	47.826	0.00	0.00	0.00	2.34
2748	2816	4.521639	ACACACATGCAGAAAGATCAACAT	59.478	37.500	0.00	0.00	0.00	2.71
2754	2822	4.924305	AACAACACACATGCAGAAAGAT	57.076	36.364	0.00	0.00	0.00	2.40
2792	2860	7.024768	GCCACAGCATAACGACTTTTTATTTA	58.975	34.615	0.00	0.00	39.53	1.40
2824	2892	0.890683	CAGACACAGGGGGAATTTGC	59.109	55.000	0.00	0.00	0.00	3.68
2865	2934	1.099689	CACAAACGGACACAGGGTTT	58.900	50.000	0.00	0.00	34.42	3.27
2887	2956	2.026262	ACAACACAAGGACTGACAGGTT	60.026	45.455	7.51	0.00	0.00	3.50
2916	2985	1.439228	CGATGGGATCGCTGAGTGT	59.561	57.895	11.46	0.00	46.55	3.55
2929	2998	4.811024	ACATTACTGTACTGCAATCGATGG	59.189	41.667	0.00	0.00	32.49	3.51
2935	3004	6.554334	AACGAAACATTACTGTACTGCAAT	57.446	33.333	5.22	0.00	33.36	3.56
2938	3007	7.342318	TCTAAACGAAACATTACTGTACTGC	57.658	36.000	5.22	0.00	33.36	4.40
2939	3008	9.135843	TGATCTAAACGAAACATTACTGTACTG	57.864	33.333	3.88	3.88	33.36	2.74
2940	3009	9.701098	TTGATCTAAACGAAACATTACTGTACT	57.299	29.630	0.00	0.00	33.36	2.73
2941	3010	9.737025	GTTGATCTAAACGAAACATTACTGTAC	57.263	33.333	0.00	0.00	33.36	2.90
2942	3011	8.928733	GGTTGATCTAAACGAAACATTACTGTA	58.071	33.333	0.00	0.00	33.36	2.74
3052	3121	7.228507	ACACTTGTATTGACTGCAATAGTTTCA	59.771	33.333	0.00	0.00	45.08	2.69
3201	3273	1.611977	GCCACAAACACTTCCCTTACC	59.388	52.381	0.00	0.00	0.00	2.85
3202	3274	1.611977	GGCCACAAACACTTCCCTTAC	59.388	52.381	0.00	0.00	0.00	2.34
3275	3347	0.958822	GCAAACGGTGTCCTTGGATT	59.041	50.000	0.00	0.00	0.00	3.01
3288	3362	0.787908	GATAACACGTGGCGCAAACG	60.788	55.000	26.91	26.91	46.32	3.60
3472	3559	2.430921	CGCCATAGATCGCCGGAC	60.431	66.667	5.05	0.00	0.00	4.79
3520	3610	2.618053	GAGACAACACAACGATAGGGG	58.382	52.381	0.00	0.00	43.77	4.79
3681	3772	4.722700	CCCACAACCCTGCGGGAG	62.723	72.222	15.09	5.75	46.59	4.30
3717	3810	3.175438	AGCCACCAGAAGCCTAAAAAT	57.825	42.857	0.00	0.00	0.00	1.82

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.