AutoCloner

Multiple sequence alignment - TraesCS2D01G010900

Loading Multiple Alignment...

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	TraesCS2D01G010900	chr2D	100.000	4862	0	0	1	4862	5388244	5393105	0.000000e+00	8979.0
1	TraesCS2D01G010900	chr2D	79.000	2419	454	31	1491	3868	2342125	2344530	0.000000e+00	1604.0
2	TraesCS2D01G010900	chr2D	78.323	1264	226	30	339	1566	11427046	11425795	0.000000e+00	773.0
3	TraesCS2D01G010900	chr2D	88.667	150	14	3	27	176	11427339	11427193	3.870000e-41	180.0
4	TraesCS2D01G010900	chr2D	77.019	322	50	15	4333	4636	121733173	121732858	3.890000e-36	163.0
5	TraesCS2D01G010900	chr2A	93.760	4888	278	18	1	4862	4037187	4042073	0.000000e+00	7312.0
6	TraesCS2D01G010900	chr2A	78.947	2432	449	40	1491	3880	2334734	2337144	0.000000e+00	1596.0
7	TraesCS2D01G010900	chr2A	79.156	2370	434	47	1575	3907	3976128	3978474	0.000000e+00	1585.0
8	TraesCS2D01G010900	chr2A	82.039	1030	153	18	566	1570	3974959	3975981	0.000000e+00	848.0
9	TraesCS2D01G010900	chr2B	91.917	4528	281	28	176	4638	6040661	6036154	0.000000e+00	6255.0
10	TraesCS2D01G010900	chr2B	93.128	4220	242	13	117	4303	6140379	6136175	0.000000e+00	6143.0
11	TraesCS2D01G010900	chr2B	84.215	1134	144	18	535	1642	6159869	6158745	0.000000e+00	1070.0
12	TraesCS2D01G010900	chr2B	78.317	1093	203	23	508	1572	17831133	17830047	0.000000e+00	675.0
13	TraesCS2D01G010900	chr2B	95.714	140	4	2	4660	4797	6035943	6035804	1.760000e-54	224.0
14	TraesCS2D01G010900	chr2B	89.714	175	15	3	8	181	6042946	6042774	2.280000e-53	220.0
15	TraesCS2D01G010900	chr2B	85.263	190	18	5	10	191	6140578	6140391	2.310000e-43	187.0
16	TraesCS2D01G010900	chr2B	83.333	228	10	6	4640	4862	6135682	6135478	8.310000e-43	185.0
17	TraesCS2D01G010900	chr2B	90.769	130	12	0	4021	4150	185107771	185107642	1.800000e-39	174.0
18	TraesCS2D01G010900	chr2B	76.448	259	45	12	4333	4577	775110921	775111177	5.110000e-25	126.0
19	TraesCS2D01G010900	chr2B	93.443	61	4	0	10	70	17833272	17833212	1.860000e-14	91.6
20	TraesCS2D01G010900	chr4B	78.290	2561	488	57	1312	3827	4953648	4951111	0.000000e+00	1587.0
21	TraesCS2D01G010900	chr4B	90.000	140	11	3	4014	4152	475151748	475151885	1.390000e-40	178.0
22	TraesCS2D01G010900	chr4B	87.821	156	10	8	4000	4151	471344799	471344949	1.800000e-39	174.0
23	TraesCS2D01G010900	chr4D	79.312	2122	409	28	1300	3407	3713942	3716047	0.000000e+00	1459.0
24	TraesCS2D01G010900	chr4D	79.215	433	84	5	3479	3907	3716147	3716577	3.680000e-76	296.0
25	TraesCS2D01G010900	chr3B	80.144	1944	358	23	1491	3420	52892619	52890690	0.000000e+00	1426.0
26	TraesCS2D01G010900	chr3B	79.261	487	86	11	3429	3907	52890650	52890171	4.690000e-85	326.0
27	TraesCS2D01G010900	chr4A	80.912	351	65	1	3479	3827	600916289	600915939	4.790000e-70	276.0
28	TraesCS2D01G010900	chr4A	75.519	241	55	4	1248	1486	601311336	601311574	1.110000e-21	115.0
29	TraesCS2D01G010900	chr5A	88.000	150	17	1	4000	4149	494282092	494282240	5.000000e-40	176.0
30	TraesCS2D01G010900	chr7D	87.500	152	18	1	4000	4151	91140379	91140229	1.800000e-39	174.0
31	TraesCS2D01G010900	chr1B	86.364	154	18	3	4000	4152	135255050	135254899	1.080000e-36	165.0
32	TraesCS2D01G010900	chr5D	75.719	313	54	10	4333	4636	391898818	391899117	2.360000e-28	137.0
33	TraesCS2D01G010900	chr7A	72.056	501	123	16	791	1283	2663822	2663331	3.050000e-27	134.0
34	TraesCS2D01G010900	chr3D	78.771	179	29	3	4333	4508	602731799	602731627	1.430000e-20	111.0

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	TraesCS2D01G010900	chr2D	5388244	5393105	4861	False	8979.000000	8979	100.000000	1	4862	1	chr2D.!!$F2	4861
1	TraesCS2D01G010900	chr2D	2342125	2344530	2405	False	1604.000000	1604	79.000000	1491	3868	1	chr2D.!!$F1	2377
2	TraesCS2D01G010900	chr2D	11425795	11427339	1544	True	476.500000	773	83.495000	27	1566	2	chr2D.!!$R2	1539
3	TraesCS2D01G010900	chr2A	4037187	4042073	4886	False	7312.000000	7312	93.760000	1	4862	1	chr2A.!!$F2	4861
4	TraesCS2D01G010900	chr2A	2334734	2337144	2410	False	1596.000000	1596	78.947000	1491	3880	1	chr2A.!!$F1	2389
5	TraesCS2D01G010900	chr2A	3974959	3978474	3515	False	1216.500000	1585	80.597500	566	3907	2	chr2A.!!$F3	3341
6	TraesCS2D01G010900	chr2B	6035804	6042946	7142	True	2233.000000	6255	92.448333	8	4797	3	chr2B.!!$R3	4789
7	TraesCS2D01G010900	chr2B	6135478	6140578	5100	True	2171.666667	6143	87.241333	10	4862	3	chr2B.!!$R4	4852
8	TraesCS2D01G010900	chr2B	6158745	6159869	1124	True	1070.000000	1070	84.215000	535	1642	1	chr2B.!!$R1	1107
9	TraesCS2D01G010900	chr2B	17830047	17833272	3225	True	383.300000	675	85.880000	10	1572	2	chr2B.!!$R5	1562
10	TraesCS2D01G010900	chr4B	4951111	4953648	2537	True	1587.000000	1587	78.290000	1312	3827	1	chr4B.!!$R1	2515
11	TraesCS2D01G010900	chr4D	3713942	3716577	2635	False	877.500000	1459	79.263500	1300	3907	2	chr4D.!!$F1	2607
12	TraesCS2D01G010900	chr3B	52890171	52892619	2448	True	876.000000	1426	79.702500	1491	3907	2	chr3B.!!$R1	2416

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
545	4493	0.459899	CCACAGCCATGCGACTAGTA	59.540	55.000	0.00	0.0	1.82	F
1298	5275	0.739112	CGAGAGCTGTCCCTTGAAGC	60.739	60.000	5.11	37.2	3.86	F
1454	5575	1.871039	TCTTAGCGGCAACAAACTCAC	59.129	47.619	1.45	0.0	3.51	F
2904	7168	2.114657	TAGGGACCGGGGGATATGGG	62.115	65.000	6.32	0.0	4.00	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2143	6407	0.466739	TTATCTGCGAGGCTCGGGTA	60.467	55.000	35.03	18.89	40.84	3.69	R
2889	7153	1.152096	AGACCCATATCCCCCGGTC	60.152	63.158	0.00	0.00	44.31	4.79	R
3277	7541	2.095110	TGCAAGCTCGAAATTCCACATG	60.095	45.455	0.00	0.00	0.00	3.21	R
4807	9395	1.442520	CGGCTTGCCGACATGTTTG	60.443	57.895	27.61	0.00	34.88	2.93	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
139	232	3.119245	CCCTTGAAAATCATGAGCACAGG	60.119	47.826	0.09	1.79	0.00	4.00
342	4264	8.034804	CCAGTCCAAAATTCTAGGGTTAATTTG	58.965	37.037	1.78	0.00	35.89	2.32
346	4268	8.093927	TCCAAAATTCTAGGGTTAATTTGCAAG	58.906	33.333	0.00	0.00	35.89	4.01
347	4269	7.148423	CCAAAATTCTAGGGTTAATTTGCAAGC	60.148	37.037	0.00	0.00	35.89	4.01
369	4291	4.378459	GCAACGTCCAGAACCAGAATTTAG	60.378	45.833	0.00	0.00	0.00	1.85
386	4312	1.354101	TAGGTGGACACGGTTTCCAT	58.646	50.000	18.24	6.94	45.05	3.41
410	4336	6.640518	TGCTAAGACGAGGTGAGATTATTTT	58.359	36.000	0.00	0.00	0.00	1.82
457	4394	2.106683	GTACGCGGCCAAATGAGCT	61.107	57.895	12.47	0.00	0.00	4.09
475	4412	1.486726	GCTGCCTACCTACCATGAAGT	59.513	52.381	0.00	0.00	0.00	3.01
477	4414	3.798202	CTGCCTACCTACCATGAAGTTC	58.202	50.000	0.00	0.00	0.00	3.01
498	4445	3.554324	TCGCATATAAGGTGAAGTTTCGC	59.446	43.478	0.00	0.00	36.98	4.70
545	4493	0.459899	CCACAGCCATGCGACTAGTA	59.540	55.000	0.00	0.00	0.00	1.82
554	4502	4.302455	CCATGCGACTAGTAATGGAGAAG	58.698	47.826	19.96	0.89	0.00	2.85
717	4677	1.203174	CCTGGGGAATGGGAAACAACT	60.203	52.381	0.00	0.00	0.00	3.16
722	4685	4.017126	GGGGAATGGGAAACAACTCTAAG	58.983	47.826	0.00	0.00	0.00	2.18
814	4791	3.160748	GGCTGAGAGGGGAGCTCC	61.161	72.222	25.59	25.59	35.42	4.70
1050	5027	6.038714	GTGAAATACCAAGGCAAATAGGAGAG	59.961	42.308	0.00	0.00	0.00	3.20
1068	5045	5.247110	AGGAGAGCTAGAAAATCTTGTGACA	59.753	40.000	0.00	0.00	0.00	3.58
1074	5051	8.316640	AGCTAGAAAATCTTGTGACACTTAAG	57.683	34.615	7.20	0.00	0.00	1.85
1153	5130	4.762251	AGCTTGTCAGGTTAGATTTTGTCC	59.238	41.667	0.00	0.00	0.00	4.02
1183	5160	3.244491	CCTCATAGGCTCCATTCCAAGAG	60.244	52.174	0.00	0.00	0.00	2.85
1222	5199	7.233962	TCACTAAACTCACCATCTTGTACCTTA	59.766	37.037	0.00	0.00	0.00	2.69
1261	5238	6.785076	TCTGGATATCTTCCTCGAGAACTAT	58.215	40.000	15.71	4.84	45.68	2.12
1270	5247	4.851843	TCCTCGAGAACTATGTTACCTGA	58.148	43.478	15.71	0.00	0.00	3.86
1296	5273	1.919240	TACGAGAGCTGTCCCTTGAA	58.081	50.000	5.11	0.00	0.00	2.69
1298	5275	0.739112	CGAGAGCTGTCCCTTGAAGC	60.739	60.000	5.11	0.00	37.20	3.86
1342	5319	3.388350	CCCTGATACCTTTGGGAGTCTAC	59.612	52.174	0.00	0.00	42.11	2.59
1354	5331	4.748701	TGGGAGTCTACTTAACCTCACTT	58.251	43.478	0.00	0.00	0.00	3.16
1396	5517	5.550290	ACAAACTTTTTGGGCATATTCCTG	58.450	37.500	3.82	0.00	0.00	3.86
1397	5518	5.071653	ACAAACTTTTTGGGCATATTCCTGT	59.928	36.000	3.82	0.00	0.00	4.00
1441	5562	9.737427	TGAATTTAGAAGACTTAGATCTTAGCG	57.263	33.333	8.64	0.00	39.08	4.26
1454	5575	1.871039	TCTTAGCGGCAACAAACTCAC	59.129	47.619	1.45	0.00	0.00	3.51
1546	5738	7.394816	ACTTTCTGGATTTATTCCTCGAGAAA	58.605	34.615	15.71	0.00	45.68	2.52
1626	5890	2.793288	TCCCGGATACCTTTGGAAAC	57.207	50.000	0.73	0.00	0.00	2.78
1659	5923	3.062763	CACTACCTTGCAACTCAGTGAG	58.937	50.000	18.83	18.83	36.37	3.51
1802	6066	5.048434	GGCTCAAGAATTTTACTGCAGAAGT	60.048	40.000	23.35	3.03	43.40	3.01
1911	6175	4.323409	GGAGATATTTCTGAGATGGGAGCC	60.323	50.000	0.00	0.00	30.30	4.70
1930	6194	4.040755	AGCCCATCCAAATCTAGTGTACT	58.959	43.478	0.00	0.00	0.00	2.73
1980	6244	9.944079	TTTGGTCAATTATCTTATAAATGGGGA	57.056	29.630	0.00	0.00	0.00	4.81
2068	6332	4.535526	ATGGGGCAAATGTTTCAACTAC	57.464	40.909	0.00	0.00	0.00	2.73
2209	6473	5.584551	AGAAATTTGGTCCCTGTCTAGTT	57.415	39.130	0.00	0.00	0.00	2.24
2283	6547	7.222224	GGATCAATTGAGAATTGTTTGATGCTC	59.778	37.037	14.54	0.53	46.46	4.26
2488	6752	4.023707	GCTTGATCCCGTCATCATTTAAGG	60.024	45.833	0.00	0.00	36.54	2.69
2598	6862	8.098286	CCAATCCAATGGTTCATGCATAATAAT	58.902	33.333	0.00	0.00	35.65	1.28
2680	6944	7.670364	AGGGAAAATGAAAGGATACAAAACAG	58.330	34.615	0.00	0.00	41.41	3.16
2828	7092	5.252863	TCTCTATTTGGAGTTTTGATGGGGA	59.747	40.000	0.00	0.00	35.11	4.81
2842	7106	4.478203	TGATGGGGAAAATGTGTTCAAGA	58.522	39.130	0.00	0.00	0.00	3.02
2889	7153	3.272574	AGTGAGACACATTGCATAGGG	57.727	47.619	4.75	0.00	36.74	3.53
2904	7168	2.114657	TAGGGACCGGGGGATATGGG	62.115	65.000	6.32	0.00	0.00	4.00
3069	7333	6.879993	TCGTTAAGCTATTTGGGTATTGTTCA	59.120	34.615	0.00	0.00	0.00	3.18
3238	7502	3.486375	GCATCATGATTGTTCGTCACCAG	60.486	47.826	5.16	0.00	0.00	4.00
3348	7612	7.660030	TCTCGATATTGATGGCCAGAATATA	57.340	36.000	23.51	14.24	0.00	0.86
3435	7741	9.897744	AACTAGTTTTGTGAATGTGATGTATTG	57.102	29.630	1.12	0.00	0.00	1.90
3913	8224	7.498900	TGTGCCATGTAATTTCTTCTATACCAG	59.501	37.037	0.00	0.00	0.00	4.00
4084	8395	2.306805	TCGTGTCCCTACTTCTCCTGTA	59.693	50.000	0.00	0.00	0.00	2.74
4199	8519	9.469807	GTTGTTCCTACATAGATCAACATAGAG	57.530	37.037	0.00	0.00	35.36	2.43
4303	8623	3.873910	CCACCCGAGTTCATCACTTAAT	58.126	45.455	0.00	0.00	35.01	1.40
4556	8949	2.045926	GCATCGCCAACCACTCCT	60.046	61.111	0.00	0.00	0.00	3.69
4784	9372	1.267038	GCGTGCTACAACATGATCGTG	60.267	52.381	13.53	13.53	0.00	4.35
4821	9409	3.181482	ACATTTGTCAAACATGTCGGCAA	60.181	39.130	10.32	10.32	0.00	4.52
4839	9427	3.119137	GGCAAGCCGTATTTCCTTTGAAT	60.119	43.478	0.00	0.00	0.00	2.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
4	5	4.440802	CGTTCCTGATGCTAAAGCTACTCT	60.441	45.833	3.26	0.00	42.66	3.24
139	232	5.880054	TTGGATTCAACGAAAAGATCTCC	57.120	39.130	0.00	0.00	0.00	3.71
342	4264	1.282875	GGTTCTGGACGTTGCTTGC	59.717	57.895	0.00	0.00	0.00	4.01
346	4268	1.523758	ATTCTGGTTCTGGACGTTGC	58.476	50.000	0.00	0.00	0.00	4.17
347	4269	4.154195	CCTAAATTCTGGTTCTGGACGTTG	59.846	45.833	0.00	0.00	0.00	4.10
386	4312	5.854010	AATAATCTCACCTCGTCTTAGCA	57.146	39.130	0.00	0.00	0.00	3.49
410	4336	5.644636	GGACACAAGGGTCATAATTTTACGA	59.355	40.000	4.68	0.00	39.59	3.43
421	4356	1.046472	ACGACTGGACACAAGGGTCA	61.046	55.000	4.68	0.00	39.59	4.02
430	4365	4.409218	GCCGCGTACGACTGGACA	62.409	66.667	21.65	0.00	43.93	4.02
457	4394	2.167693	CGAACTTCATGGTAGGTAGGCA	59.832	50.000	0.00	0.00	0.00	4.75
459	4396	2.167693	TGCGAACTTCATGGTAGGTAGG	59.832	50.000	0.00	0.00	0.00	3.18
475	4412	4.033587	GCGAAACTTCACCTTATATGCGAA	59.966	41.667	0.00	0.00	0.00	4.70
477	4414	3.308595	TGCGAAACTTCACCTTATATGCG	59.691	43.478	0.00	0.00	0.00	4.73
498	4445	0.327924	TGGGTCTTGGTGTATGCCTG	59.672	55.000	0.00	0.00	0.00	4.85
545	4493	1.886422	GGAGAGGGGACTTCTCCATT	58.114	55.000	18.99	0.00	45.96	3.16
554	4502	0.683504	TGAAGCGTAGGAGAGGGGAC	60.684	60.000	0.00	0.00	0.00	4.46
717	4677	4.473520	GCTGCAGGGCCGCTTAGA	62.474	66.667	17.12	1.09	35.94	2.10
754	4717	1.610522	GGTGACTTGCTTGATGCTTGT	59.389	47.619	0.00	0.00	43.37	3.16
814	4791	2.317609	CCGTGAAGTTGAGGGCGTG	61.318	63.158	0.00	0.00	0.00	5.34
1050	5027	8.089115	ACTTAAGTGTCACAAGATTTTCTAGC	57.911	34.615	7.48	0.00	0.00	3.42
1074	5051	8.398665	GGACCAGACAAGTTATTGATTGATAAC	58.601	37.037	0.00	0.00	40.93	1.89
1080	5057	5.255397	TGGGACCAGACAAGTTATTGATT	57.745	39.130	0.00	0.00	38.83	2.57
1081	5058	4.927267	TGGGACCAGACAAGTTATTGAT	57.073	40.909	0.00	0.00	38.83	2.57
1082	5059	4.324254	GGATGGGACCAGACAAGTTATTGA	60.324	45.833	0.00	0.00	38.83	2.57
1087	5064	0.698818	GGGATGGGACCAGACAAGTT	59.301	55.000	0.00	0.00	0.00	2.66
1153	5130	2.290260	TGGAGCCTATGAGGTTGTTGTG	60.290	50.000	0.00	0.00	37.80	3.33
1183	5160	7.496263	GGTGAGTTTAGTGAGATTCCCTAAATC	59.504	40.741	0.00	0.00	43.58	2.17
1261	5238	5.810587	GCTCTCGTAAATTCATCAGGTAACA	59.189	40.000	0.00	0.00	41.41	2.41
1270	5247	3.452627	AGGGACAGCTCTCGTAAATTCAT	59.547	43.478	0.00	0.00	0.00	2.57
1296	5273	1.880027	GAACCCGTGAGTTCATTTGCT	59.120	47.619	5.60	0.00	44.55	3.91
1298	5275	2.226330	TGGAACCCGTGAGTTCATTTG	58.774	47.619	11.02	0.00	46.52	2.32
1342	5319	6.312426	CAGAGATACAAGCAAGTGAGGTTAAG	59.688	42.308	0.00	0.00	0.00	1.85
1354	5331	5.692115	TTGTTATCCCAGAGATACAAGCA	57.308	39.130	0.00	0.00	37.18	3.91
1396	5517	5.990120	TTCACCAGGTAACCTAGTTCTAC	57.010	43.478	0.00	0.00	29.64	2.59
1397	5518	7.563724	AAATTCACCAGGTAACCTAGTTCTA	57.436	36.000	0.00	0.00	29.64	2.10
1441	5562	1.067060	GGAACCAGTGAGTTTGTTGCC	59.933	52.381	0.00	0.00	0.00	4.52
1454	5575	5.133221	CAAAGGTATTAGGGATGGAACCAG	58.867	45.833	0.00	0.00	0.00	4.00
1546	5738	6.958192	TCTTCTAGTTTCACCAGGTAACCTAT	59.042	38.462	0.00	0.00	29.64	2.57
1588	5852	3.372566	GGGATGGAACCCATGATTGTGTA	60.373	47.826	2.81	0.00	45.26	2.90
1626	5890	3.929610	GCAAGGTAGTGAGCTTAGTCAAG	59.070	47.826	0.00	0.00	41.49	3.02
1802	6066	5.007682	GCAAAGGTCCATTCAGGTAGTTAA	58.992	41.667	0.00	0.00	39.02	2.01
1980	6244	9.646427	CTTAGCTTGTTAAGTTTATGAGACTCT	57.354	33.333	3.68	0.00	0.00	3.24
2068	6332	9.770503	CTTGTTTGATGAAAGATCAAGTATCTG	57.229	33.333	0.00	0.00	44.56	2.90
2143	6407	0.466739	TTATCTGCGAGGCTCGGGTA	60.467	55.000	35.03	18.89	40.84	3.69
2147	6411	1.789464	GTGAATTATCTGCGAGGCTCG	59.211	52.381	31.40	31.40	43.89	5.03
2209	6473	5.967088	TGACGAAAAATCCAAAAACTCCAA	58.033	33.333	0.00	0.00	0.00	3.53
2283	6547	5.295431	TGTGTCTCAAATTAAATGAGCGG	57.705	39.130	13.93	0.00	43.19	5.52
2488	6752	4.789012	TCAATGTCAAGCTTTCCATTCC	57.211	40.909	14.50	0.00	0.00	3.01
2598	6862	6.716284	TCCTTTCACAACACCACATATCATA	58.284	36.000	0.00	0.00	0.00	2.15
2680	6944	2.711542	AGTAACCATGGCTAGTGCAAC	58.288	47.619	13.04	0.00	41.91	4.17
2828	7092	8.558973	TTCCACAATTTTCTTGAACACATTTT	57.441	26.923	0.00	0.00	0.00	1.82
2842	7106	4.213564	TGTTGGTTGCTTCCACAATTTT	57.786	36.364	0.18	0.00	37.20	1.82
2889	7153	1.152096	AGACCCATATCCCCCGGTC	60.152	63.158	0.00	0.00	44.31	4.79
2904	7168	6.448006	TGAAACTCTAGCTTTGTAGACAGAC	58.552	40.000	0.00	0.00	0.00	3.51
2976	7240	3.818210	ACATTGCCTCGTTGACATAACAA	59.182	39.130	0.00	0.00	0.00	2.83
2981	7245	2.503331	TGAACATTGCCTCGTTGACAT	58.497	42.857	0.00	0.00	0.00	3.06
2985	7249	3.916172	CAGAATTGAACATTGCCTCGTTG	59.084	43.478	0.00	0.00	0.00	4.10
3048	7312	9.778741	CTAGATGAACAATACCCAAATAGCTTA	57.221	33.333	0.00	0.00	0.00	3.09
3051	7315	7.715249	TGTCTAGATGAACAATACCCAAATAGC	59.285	37.037	0.00	0.00	0.00	2.97
3114	7378	6.925718	TGGATCTCAATATTTCTGCTAAGTCG	59.074	38.462	0.00	0.00	0.00	4.18
3238	7502	5.238868	TGCTCGTTATATCTCTGTGGACTAC	59.761	44.000	0.00	0.00	0.00	2.73
3277	7541	2.095110	TGCAAGCTCGAAATTCCACATG	60.095	45.455	0.00	0.00	0.00	3.21
3280	7544	2.927553	ATGCAAGCTCGAAATTCCAC	57.072	45.000	0.00	0.00	0.00	4.02
3348	7612	2.597510	GTCCCCGCAAGCCTTGTT	60.598	61.111	6.28	0.00	0.00	2.83
3786	8093	5.527582	ACATGCTTTAATCGTGGATAACTCC	59.472	40.000	0.00	0.00	42.45	3.85
3795	8102	4.858140	TGATTTGCACATGCTTTAATCGTG	59.142	37.500	5.31	0.00	42.66	4.35
3913	8224	2.671888	GCTTTCCAAGGAAGTACGTAGC	59.328	50.000	0.00	3.71	35.38	3.58
4055	8366	6.295719	AGAAGTAGGGACACGATGTTTTAT	57.704	37.500	0.00	0.00	0.00	1.40
4084	8395	3.378512	TGGTGATCTGAGCTAGATGGTT	58.621	45.455	9.53	0.00	46.12	3.67
4199	8519	5.926542	TGTTATCTATGCCAGATTTCTACGC	59.073	40.000	3.49	0.00	41.49	4.42
4418	8811	1.856802	TCGAACAGCGATGATGATGG	58.143	50.000	8.12	0.00	45.59	3.51
4511	8904	2.400158	CGACGGCGAAGAGAGGAGT	61.400	63.158	16.62	0.00	40.82	3.85
4556	8949	3.094062	GCATGGCGCTCCAGGAGTA	62.094	63.158	18.37	3.06	46.59	2.59
4806	9394	1.851021	CGGCTTGCCGACATGTTTGA	61.851	55.000	27.61	0.00	34.88	2.69
4807	9395	1.442520	CGGCTTGCCGACATGTTTG	60.443	57.895	27.61	0.00	34.88	2.93
4821	9409	7.657761	CAGATACTATTCAAAGGAAATACGGCT	59.342	37.037	0.00	0.00	36.43	5.52

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.