AutoCloner

Multiple sequence alignment - TraesCS5D01G343700

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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	TraesCS5D01G343700	chr5D	100.000	4326	0	0	993	5318	431619089	431614764	0.000000e+00	7989.0
1	TraesCS5D01G343700	chr5D	100.000	739	0	0	1	739	431620081	431619343	0.000000e+00	1365.0
2	TraesCS5D01G343700	chr5D	88.657	1102	115	7	993	2089	431617910	431616814	0.000000e+00	1334.0
3	TraesCS5D01G343700	chr5D	88.657	1102	115	7	2172	3268	431619089	431617993	0.000000e+00	1334.0
4	TraesCS5D01G343700	chr5D	87.101	845	86	11	993	1833	431609829	431609004	0.000000e+00	935.0
5	TraesCS5D01G343700	chr5D	84.859	885	109	13	2131	3010	431609870	431609006	0.000000e+00	869.0
6	TraesCS5D01G343700	chr5D	82.000	250	36	5	4142	4383	431608948	431608700	2.510000e-48	204.0
7	TraesCS5D01G343700	chr5D	87.705	122	13	2	4609	4728	431608521	431608400	2.000000e-29	141.0
8	TraesCS5D01G343700	chr5B	96.516	3559	88	18	993	4537	521162308	521158772	0.000000e+00	5853.0
9	TraesCS5D01G343700	chr5B	89.371	1129	112	6	2144	3268	521162336	521161212	0.000000e+00	1413.0
10	TraesCS5D01G343700	chr5B	88.828	1092	99	11	993	2080	521154632	521153560	0.000000e+00	1319.0
11	TraesCS5D01G343700	chr5B	88.283	1101	121	6	993	2089	521161130	521160034	0.000000e+00	1312.0
12	TraesCS5D01G343700	chr5B	85.185	1242	152	18	2131	3365	521154673	521153457	0.000000e+00	1245.0
13	TraesCS5D01G343700	chr5B	88.905	694	55	9	1	683	522508494	522509176	0.000000e+00	835.0
14	TraesCS5D01G343700	chr5B	89.717	671	44	14	1	661	521224026	521223371	0.000000e+00	833.0
15	TraesCS5D01G343700	chr5B	91.579	190	12	3	5132	5318	521158636	521158448	5.280000e-65	259.0
16	TraesCS5D01G343700	chr5B	75.837	418	71	22	4612	5011	521153082	521152677	9.100000e-43	185.0
17	TraesCS5D01G343700	chr5B	95.238	42	1	1	660	701	521162541	521162501	1.240000e-06	65.8
18	TraesCS5D01G343700	chr5A	96.798	2873	72	11	993	3861	546704683	546701827	0.000000e+00	4778.0
19	TraesCS5D01G343700	chr5A	91.345	1710	124	14	2161	3863	546893380	546895072	0.000000e+00	2316.0
20	TraesCS5D01G343700	chr5A	95.632	1099	42	6	993	2089	546893391	546894485	0.000000e+00	1759.0
21	TraesCS5D01G343700	chr5A	88.251	1115	120	5	2161	3268	546704694	546703584	0.000000e+00	1323.0
22	TraesCS5D01G343700	chr5A	87.931	1102	123	8	993	2089	546703501	546702405	0.000000e+00	1290.0
23	TraesCS5D01G343700	chr5A	84.346	1169	137	25	2354	3513	546968349	546969480	0.000000e+00	1103.0
24	TraesCS5D01G343700	chr5A	94.250	713	25	9	4141	4850	546701829	546701130	0.000000e+00	1075.0
25	TraesCS5D01G343700	chr5A	88.293	914	78	15	1174	2080	546968348	546969239	0.000000e+00	1068.0
26	TraesCS5D01G343700	chr5A	90.887	812	38	14	4510	5318	546895386	546896164	0.000000e+00	1057.0
27	TraesCS5D01G343700	chr5A	89.189	592	49	9	80	663	546890831	546891415	0.000000e+00	725.0
28	TraesCS5D01G343700	chr5A	93.750	336	13	4	4141	4472	546895070	546895401	1.030000e-136	497.0
29	TraesCS5D01G343700	chr5A	88.889	405	32	8	4923	5318	546701041	546700641	2.230000e-133	486.0
30	TraesCS5D01G343700	chr5A	92.197	346	21	3	1	340	546705490	546705145	8.010000e-133	484.0
31	TraesCS5D01G343700	chr5A	85.027	374	34	2	1716	2083	546697946	546697589	1.410000e-95	361.0
32	TraesCS5D01G343700	chr5A	87.622	307	23	10	411	709	546705145	546704846	5.100000e-90	342.0
33	TraesCS5D01G343700	chr5A	92.857	224	16	0	2137	2360	546698174	546697951	5.140000e-85	326.0
34	TraesCS5D01G343700	chr5A	92.593	189	14	0	993	1181	546698139	546697951	6.790000e-69	272.0
35	TraesCS5D01G343700	chr5A	98.000	50	0	1	690	739	546891516	546891564	9.490000e-13	86.1
36	TraesCS5D01G343700	chr5A	100.000	31	0	0	671	701	546698371	546698341	2.070000e-04	58.4
37	TraesCS5D01G343700	chr5A	94.737	38	0	2	664	701	546900706	546900741	2.070000e-04	58.4
38	TraesCS5D01G343700	chr4B	74.143	1021	219	33	2362	3369	565743392	565742404	1.080000e-101	381.0
39	TraesCS5D01G343700	chr4B	75.062	810	156	31	2476	3259	568610050	568610839	8.530000e-88	335.0
40	TraesCS5D01G343700	chr7A	88.000	275	30	1	3862	4136	110258871	110258600	6.640000e-84	322.0
41	TraesCS5D01G343700	chr7B	91.176	238	18	1	3902	4139	63932298	63932532	2.390000e-83	320.0

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	TraesCS5D01G343700	chr5D	431614764	431620081	5317	True	3005.500	7989	94.328500	1	5318	4	chr5D.!!$R2	5317
1	TraesCS5D01G343700	chr5D	431608400	431609870	1470	True	537.250	935	85.416250	993	4728	4	chr5D.!!$R1	3735
2	TraesCS5D01G343700	chr5B	521152677	521162541	9864	True	1456.475	5853	88.854625	660	5318	8	chr5B.!!$R2	4658
3	TraesCS5D01G343700	chr5B	522508494	522509176	682	False	835.000	835	88.905000	1	683	1	chr5B.!!$F1	682
4	TraesCS5D01G343700	chr5B	521223371	521224026	655	True	833.000	833	89.717000	1	661	1	chr5B.!!$R1	660
5	TraesCS5D01G343700	chr5A	546968348	546969480	1132	False	1085.500	1103	86.319500	1174	3513	2	chr5A.!!$F3	2339
6	TraesCS5D01G343700	chr5A	546890831	546896164	5333	False	1073.350	2316	93.133833	80	5318	6	chr5A.!!$F2	5238
7	TraesCS5D01G343700	chr5A	546697589	546705490	7901	True	981.400	4778	91.492273	1	5318	11	chr5A.!!$R1	5317
8	TraesCS5D01G343700	chr4B	565742404	565743392	988	True	381.000	381	74.143000	2362	3369	1	chr4B.!!$R1	1007
9	TraesCS5D01G343700	chr4B	568610050	568610839	789	False	335.000	335	75.062000	2476	3259	1	chr4B.!!$F1	783

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
359	377	0.603569	GCGTCGGTCTCCATCCATAT	59.396	55.000	0.00	0.00	0.00	1.78	F
400	418	1.899142	TGCATAGACAGGCTGTGTGTA	59.101	47.619	27.45	16.64	40.56	2.90	F
1052	2731	2.685380	CCCCAGGAGCCTCGTCTT	60.685	66.667	0.00	0.00	0.00	3.01	F
1172	2851	3.475774	CCACAACGAGTACCGCGC	61.476	66.667	0.00	0.00	43.32	6.86	F
3071	4775	3.706373	GCCGTTGCTCCCTCCTCA	61.706	66.667	0.00	0.00	33.53	3.86	F
3492	5214	0.519077	CGCCTTCTCTGGTTTTCTGC	59.481	55.000	0.00	0.00	0.00	4.26	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1414	3093	0.738412	ACCGTGGCATTACAGCGTAC	60.738	55.000	0.00	0.00	34.64	3.67	R
2090	3776	2.296752	TGTTCATCATGCACCTTGTTGG	59.703	45.455	0.00	0.00	42.93	3.77	R
2732	4421	2.035704	GAGATCATGTCGCTCCACTGAT	59.964	50.000	0.00	0.00	0.00	2.90	R
3407	5126	7.347508	TGAGAAGAATAAAGCAACGTAGAAC	57.652	36.000	0.00	0.00	0.00	3.01	R
4023	5752	0.463204	ATGCGACCAGAGTCCTGATG	59.537	55.000	0.00	0.00	43.02	3.07	R
5294	7105	0.663688	CCATCTGAGCAGCTGCAATC	59.336	55.000	38.24	27.87	45.16	2.67	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
68	69	7.301868	TCAAAAGAAGCCAAAATCCACTTAT	57.698	32.000	0.00	0.00	0.00	1.73
275	287	3.344515	CCTGTCCTAAACCTTTACCAGC	58.655	50.000	0.00	0.00	0.00	4.85
284	297	7.610305	TCCTAAACCTTTACCAGCATAAGAAAG	59.390	37.037	0.00	0.00	0.00	2.62
359	377	0.603569	GCGTCGGTCTCCATCCATAT	59.396	55.000	0.00	0.00	0.00	1.78
366	384	2.373169	GGTCTCCATCCATATCTTGGCA	59.627	50.000	0.00	0.00	46.01	4.92
369	387	3.911894	TCTCCATCCATATCTTGGCATGA	59.088	43.478	5.47	5.47	46.01	3.07
374	392	3.213506	TCCATATCTTGGCATGAAACCG	58.786	45.455	7.20	0.00	46.01	4.44
400	418	1.899142	TGCATAGACAGGCTGTGTGTA	59.101	47.619	27.45	16.64	40.56	2.90
408	431	3.941483	GACAGGCTGTGTGTAGCAATTAT	59.059	43.478	27.45	0.00	45.46	1.28
418	441	9.494479	CTGTGTGTAGCAATTATGTCATAAAAG	57.506	33.333	9.31	6.37	0.00	2.27
422	445	8.184192	GTGTAGCAATTATGTCATAAAAGCTGT	58.816	33.333	28.08	15.89	38.50	4.40
435	458	4.705337	AAAAGCTGTTTTGTTGACGGTA	57.295	36.364	0.00	0.00	34.44	4.02
459	482	2.727123	TGGTGCGTCCCATTATCATT	57.273	45.000	0.00	0.00	34.77	2.57
466	489	4.943093	TGCGTCCCATTATCATTATCATGG	59.057	41.667	0.00	0.00	36.84	3.66
478	501	7.926674	ATCATTATCATGGCATAACATTCGA	57.073	32.000	0.00	0.00	0.00	3.71
510	537	7.801716	TTTCTTAGATGGAATAACATTCGGG	57.198	36.000	0.00	0.00	0.00	5.14
629	656	8.620641	CGGTTCGTTATTTTAACATTAACACAC	58.379	33.333	0.00	0.00	0.00	3.82
630	657	9.448294	GGTTCGTTATTTTAACATTAACACACA	57.552	29.630	0.00	0.00	0.00	3.72
632	659	9.999009	TTCGTTATTTTAACATTAACACACACA	57.001	25.926	0.00	0.00	0.00	3.72
1051	2730	3.966930	GACCCCAGGAGCCTCGTCT	62.967	68.421	0.00	0.00	0.00	4.18
1052	2731	2.685380	CCCCAGGAGCCTCGTCTT	60.685	66.667	0.00	0.00	0.00	3.01
1172	2851	3.475774	CCACAACGAGTACCGCGC	61.476	66.667	0.00	0.00	43.32	6.86
2090	3776	4.036971	CACTGGAGGTACATACAGACTAGC	59.963	50.000	25.93	0.00	35.08	3.42
3071	4775	3.706373	GCCGTTGCTCCCTCCTCA	61.706	66.667	0.00	0.00	33.53	3.86
3407	5126	4.434198	CGCCCAAATACGTCGATGAATATG	60.434	45.833	12.58	5.11	0.00	1.78
3408	5127	4.451096	GCCCAAATACGTCGATGAATATGT	59.549	41.667	12.58	0.00	0.00	2.29
3409	5128	5.049680	GCCCAAATACGTCGATGAATATGTT	60.050	40.000	12.58	0.00	0.00	2.71
3410	5129	6.590357	CCCAAATACGTCGATGAATATGTTC	58.410	40.000	12.58	0.00	34.85	3.18
3411	5130	6.423905	CCCAAATACGTCGATGAATATGTTCT	59.576	38.462	12.58	0.00	35.33	3.01
3412	5131	7.597369	CCCAAATACGTCGATGAATATGTTCTA	59.403	37.037	12.58	0.00	35.33	2.10
3413	5132	8.425491	CCAAATACGTCGATGAATATGTTCTAC	58.575	37.037	12.58	0.00	35.33	2.59
3492	5214	0.519077	CGCCTTCTCTGGTTTTCTGC	59.481	55.000	0.00	0.00	0.00	4.26
3493	5215	0.519077	GCCTTCTCTGGTTTTCTGCG	59.481	55.000	0.00	0.00	0.00	5.18
3530	5255	7.114882	CAGTACTGCTACATTATTCTGATGC	57.885	40.000	10.54	0.00	0.00	3.91
3539	5264	7.816513	GCTACATTATTCTGATGCTGAGTCATA	59.183	37.037	0.00	0.00	0.00	2.15
3578	5303	3.748083	TGTAGTCAACCACGAGTAGTCT	58.252	45.455	0.00	0.00	0.00	3.24
3579	5304	3.750130	TGTAGTCAACCACGAGTAGTCTC	59.250	47.826	0.00	0.00	37.35	3.36
3672	5398	1.577736	AAGTAGGCAGCTGACCAGAT	58.422	50.000	18.28	0.00	0.00	2.90
3717	5444	3.527665	AGGGGCTGTATCCTGTATGTTTT	59.472	43.478	0.00	0.00	31.11	2.43
3773	5501	6.256757	GCTGGTTATGCTCAAGAGTTAGTTAG	59.743	42.308	0.00	0.00	0.00	2.34
3948	5677	1.528248	CGTTTGTTTCGCTGCCAACG	61.528	55.000	0.00	0.00	0.00	4.10
3991	5720	4.255999	CGATACAGCGTTTCAGAAAATCG	58.744	43.478	9.77	9.77	0.00	3.34
4021	5750	6.273825	GCTCGATACAGAGGTGATTAGAAAA	58.726	40.000	0.00	0.00	38.63	2.29
4022	5751	6.926272	GCTCGATACAGAGGTGATTAGAAAAT	59.074	38.462	0.00	0.00	38.63	1.82
4023	5752	7.115663	GCTCGATACAGAGGTGATTAGAAAATC	59.884	40.741	0.00	0.00	39.12	2.17
4106	5836	0.240145	GGGTCTTGTTACGGCAAAGC	59.760	55.000	0.00	0.00	0.00	3.51
4175	5905	8.985315	TGATATGGACAGCTAAAGATGAAATT	57.015	30.769	1.62	0.00	35.09	1.82
4290	6024	0.329261	CCTCTGATGAAGCCCCACAA	59.671	55.000	0.00	0.00	0.00	3.33
4384	6131	4.455190	AGAAAGACTTTGAAGATGAGCTGC	59.545	41.667	4.85	0.00	0.00	5.25
4674	6427	4.021981	GCTACTCAAAACTGGATTGCCTTT	60.022	41.667	0.00	0.00	34.31	3.11
4704	6460	5.005779	CACTTGAGTTATGGATCGTGCTTAC	59.994	44.000	0.00	0.00	0.00	2.34
4945	6747	7.726033	AAAGGACTACTAGTCTGACATCAAT	57.274	36.000	14.61	0.00	44.46	2.57
5021	6823	7.440523	ACTTTGAAGATTAACAGTAGCAAGG	57.559	36.000	0.00	0.00	0.00	3.61
5023	6825	7.389053	ACTTTGAAGATTAACAGTAGCAAGGAG	59.611	37.037	0.00	0.00	0.00	3.69
5055	6857	2.930950	ACAAGCAAGCAGAGTAACCAA	58.069	42.857	0.00	0.00	0.00	3.67
5056	6858	2.880890	ACAAGCAAGCAGAGTAACCAAG	59.119	45.455	0.00	0.00	0.00	3.61
5057	6859	2.880890	CAAGCAAGCAGAGTAACCAAGT	59.119	45.455	0.00	0.00	0.00	3.16
5076	6883	4.355543	AGTGACAACAACACATCAACAC	57.644	40.909	0.00	0.00	40.25	3.32
5105	6912	1.216427	TGCATTGCACCATATGGGGTA	59.784	47.619	24.97	18.68	41.84	3.69
5112	6919	3.118038	TGCACCATATGGGGTACTTCTTC	60.118	47.826	24.97	6.46	41.84	2.87
5116	6923	3.073062	CCATATGGGGTACTTCTTCCAGG	59.927	52.174	14.52	0.00	32.30	4.45
5143	6951	0.607489	CTTGGTTCAGGCTCTGGTGG	60.607	60.000	2.86	0.00	31.51	4.61
5173	6983	1.909302	ACCAGTAGTGTGGATCCCTTG	59.091	52.381	9.90	0.00	40.44	3.61
5205	7015	3.403057	CGCACCGGAGTTGTCGTG	61.403	66.667	9.46	0.00	0.00	4.35
5244	7055	4.474651	TGTATTCCTGTTCCATGTCCATCT	59.525	41.667	0.00	0.00	0.00	2.90
5294	7105	5.116180	TGTAAGATCTCCATAAAACCGCTG	58.884	41.667	0.00	0.00	0.00	5.18
5295	7106	4.487714	AAGATCTCCATAAAACCGCTGA	57.512	40.909	0.00	0.00	0.00	4.26

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
24	25	3.640967	TGAACAAGTTTCTGAAATGGGGG	59.359	43.478	6.06	0.00	0.00	5.40
68	69	6.499106	TGGTCATTGAATATCTCTTAGCCA	57.501	37.500	0.00	0.00	0.00	4.75
252	264	2.040679	TGGTAAAGGTTTAGGACAGGGC	59.959	50.000	0.00	0.00	0.00	5.19
275	287	6.039159	GGAGGAGAATGGCTTTCTTTCTTATG	59.961	42.308	15.80	0.00	44.88	1.90
284	297	7.339466	TGTTAAATAAGGAGGAGAATGGCTTTC	59.661	37.037	5.04	5.04	34.31	2.62
359	377	0.886938	TTCGCGGTTTCATGCCAAGA	60.887	50.000	6.13	0.00	0.00	3.02
366	384	2.942376	TCTATGCATTTCGCGGTTTCAT	59.058	40.909	3.54	6.64	46.97	2.57
369	387	2.080693	TGTCTATGCATTTCGCGGTTT	58.919	42.857	3.54	0.00	46.97	3.27
374	392	1.003116	CAGCCTGTCTATGCATTTCGC	60.003	52.381	3.54	0.00	42.89	4.70
400	418	8.928733	CAAAACAGCTTTTATGACATAATTGCT	58.071	29.630	20.48	20.48	35.52	3.91
408	431	5.741510	CGTCAACAAAACAGCTTTTATGACA	59.258	36.000	19.02	0.00	40.84	3.58
418	441	4.735662	TGTATACCGTCAACAAAACAGC	57.264	40.909	0.00	0.00	0.00	4.40
422	445	4.083217	GCACCATGTATACCGTCAACAAAA	60.083	41.667	0.00	0.00	0.00	2.44
459	482	7.230309	TGGAAAATCGAATGTTATGCCATGATA	59.770	33.333	0.00	0.00	0.00	2.15
466	489	7.992180	AGAAATGGAAAATCGAATGTTATGC	57.008	32.000	0.00	0.00	0.00	3.14
502	529	0.820074	TGCACCGAAAACCCGAATGT	60.820	50.000	0.00	0.00	0.00	2.71
510	537	1.305201	TCTTCCTGTGCACCGAAAAC	58.695	50.000	15.69	0.00	0.00	2.43
642	669	7.882179	ACCTGCTAAAATAACGATTTCTGTTT	58.118	30.769	0.00	0.00	34.01	2.83
1353	3032	2.514360	TGCATGATGTCGCGGCAT	60.514	55.556	28.71	28.71	0.00	4.40
1414	3093	0.738412	ACCGTGGCATTACAGCGTAC	60.738	55.000	0.00	0.00	34.64	3.67
2090	3776	2.296752	TGTTCATCATGCACCTTGTTGG	59.703	45.455	0.00	0.00	42.93	3.77
2732	4421	2.035704	GAGATCATGTCGCTCCACTGAT	59.964	50.000	0.00	0.00	0.00	2.90
3407	5126	7.347508	TGAGAAGAATAAAGCAACGTAGAAC	57.652	36.000	0.00	0.00	0.00	3.01
3408	5127	8.547967	AATGAGAAGAATAAAGCAACGTAGAA	57.452	30.769	0.00	0.00	0.00	2.10
3409	5128	8.547967	AAATGAGAAGAATAAAGCAACGTAGA	57.452	30.769	0.00	0.00	0.00	2.59
3410	5129	9.267096	GAAAATGAGAAGAATAAAGCAACGTAG	57.733	33.333	0.00	0.00	0.00	3.51
3411	5130	8.999431	AGAAAATGAGAAGAATAAAGCAACGTA	58.001	29.630	0.00	0.00	0.00	3.57
3412	5131	7.805071	CAGAAAATGAGAAGAATAAAGCAACGT	59.195	33.333	0.00	0.00	0.00	3.99
3413	5132	7.201299	GCAGAAAATGAGAAGAATAAAGCAACG	60.201	37.037	0.00	0.00	0.00	4.10
3530	5255	2.534298	CAACTCTGCGGTATGACTCAG	58.466	52.381	0.00	0.00	0.00	3.35
3551	5276	4.817517	ACTCGTGGTTGACTACAATAAGG	58.182	43.478	0.00	0.00	38.32	2.69
3562	5287	2.552743	CACAGAGACTACTCGTGGTTGA	59.447	50.000	0.00	0.00	46.64	3.18
3578	5303	3.507233	GGCATGACAGGAAAAATCACAGA	59.493	43.478	0.00	0.00	0.00	3.41
3579	5304	3.671433	CGGCATGACAGGAAAAATCACAG	60.671	47.826	0.00	0.00	0.00	3.66
3672	5398	7.327975	CCTACTACACATTCACCATTGAGTTA	58.672	38.462	0.00	0.00	31.71	2.24
3717	5444	8.880244	ACCATATATACTAGAGCATCCAAACAA	58.120	33.333	0.00	0.00	33.66	2.83
3907	5636	3.604772	GCTAGCTATGGTTTCGCAAATCG	60.605	47.826	7.70	0.00	40.15	3.34
3948	5677	2.304413	GAAAGCGCTGTTACGGAAAAC	58.696	47.619	12.58	0.00	0.00	2.43
3991	5720	1.134560	ACCTCTGTATCGAGCGGTTTC	59.865	52.381	0.00	0.00	25.53	2.78
4021	5750	0.749649	GCGACCAGAGTCCTGATGAT	59.250	55.000	0.00	0.00	43.02	2.45
4022	5751	0.611896	TGCGACCAGAGTCCTGATGA	60.612	55.000	0.00	0.00	43.02	2.92
4023	5752	0.463204	ATGCGACCAGAGTCCTGATG	59.537	55.000	0.00	0.00	43.02	3.07
4106	5836	1.592400	GGCCCGGGTAACGTATTCG	60.592	63.158	24.63	0.00	42.24	3.34
4175	5905	1.899142	GCACTTTGCCCCCTCAAAATA	59.101	47.619	0.00	0.00	37.42	1.40
4674	6427	5.995282	ACGATCCATAACTCAAGTGAAAACA	59.005	36.000	0.00	0.00	0.00	2.83
4704	6460	6.203145	TCTGCCATTCACAATGTTTTGAAATG	59.797	34.615	0.00	9.51	38.19	2.32
4969	6771	9.828691	TCATATAAGTTAGATGGAAGATGGAGA	57.171	33.333	15.65	0.00	0.00	3.71
5021	6823	4.025313	GCTTGCTTGTACTATTAGCAGCTC	60.025	45.833	0.00	0.00	44.80	4.09
5023	6825	3.623060	TGCTTGCTTGTACTATTAGCAGC	59.377	43.478	16.77	16.77	44.80	5.25
5055	6857	3.128589	GGTGTTGATGTGTTGTTGTCACT	59.871	43.478	0.00	0.00	36.83	3.41
5056	6858	3.119673	TGGTGTTGATGTGTTGTTGTCAC	60.120	43.478	0.00	0.00	36.48	3.67
5057	6859	3.084786	TGGTGTTGATGTGTTGTTGTCA	58.915	40.909	0.00	0.00	0.00	3.58
5076	6883	1.017177	GGTGCAATGCAATGCTGTGG	61.017	55.000	26.10	0.00	46.54	4.17
5105	6912	1.151810	TCTGGGGCCTGGAAGAAGT	60.152	57.895	0.84	0.00	34.07	3.01
5173	6983	3.195698	GCGCCACCGATGAAGGTC	61.196	66.667	0.00	0.00	43.89	3.85
5294	7105	0.663688	CCATCTGAGCAGCTGCAATC	59.336	55.000	38.24	27.87	45.16	2.67
5295	7106	1.384989	GCCATCTGAGCAGCTGCAAT	61.385	55.000	38.24	21.10	45.16	3.56

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.