AutoCloner

Multiple sequence alignment - TraesCS2A01G244200

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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	TraesCS2A01G244200	chr2A	100.000	5410	0	0	1	5410	348094454	348089045	0.000000e+00	9991
1	TraesCS2A01G244200	chr2D	97.910	4162	66	13	578	4731	288616258	288612110	0.000000e+00	7184
2	TraesCS2A01G244200	chr2D	97.250	509	14	0	4727	5235	370049083	370049591	0.000000e+00	863
3	TraesCS2A01G244200	chr2D	83.912	547	71	14	1	536	318559112	318558572	1.740000e-139	507
4	TraesCS2A01G244200	chr2D	83.091	550	83	7	1	544	87417112	87416567	4.870000e-135	492
5	TraesCS2A01G244200	chr2D	82.633	547	83	8	1	540	394534247	394534788	1.760000e-129	473
6	TraesCS2A01G244200	chr2D	97.740	177	4	0	5234	5410	288612124	288611948	6.810000e-79	305
7	TraesCS2A01G244200	chr2B	96.898	3191	76	8	1555	4731	316051515	316048334	0.000000e+00	5323
8	TraesCS2A01G244200	chr2B	94.241	903	30	7	618	1515	316052495	316051610	0.000000e+00	1360
9	TraesCS2A01G244200	chr2B	93.785	177	9	2	5234	5410	316048348	316048174	1.160000e-66	265
10	TraesCS2A01G244200	chr6B	97.692	520	10	2	4727	5246	290687391	290686874	0.000000e+00	893
11	TraesCS2A01G244200	chr6B	97.661	513	12	0	4727	5239	290709074	290708562	0.000000e+00	881
12	TraesCS2A01G244200	chr5B	98.035	509	10	0	4727	5235	556966240	556966748	0.000000e+00	885
13	TraesCS2A01G244200	chr5B	82.983	523	79	8	2	516	35449340	35448820	1.060000e-126	464
14	TraesCS2A01G244200	chr5B	82.635	167	26	2	1023	1189	534365519	534365356	1.570000e-30	145
15	TraesCS2A01G244200	chr3A	98.035	509	10	0	4727	5235	82463864	82464372	0.000000e+00	885
16	TraesCS2A01G244200	chr3A	80.762	551	87	12	1	540	186326	185784	3.900000e-111	412
17	TraesCS2A01G244200	chr3A	82.472	445	38	13	1	442	716875466	716875873	2.400000e-93	353
18	TraesCS2A01G244200	chr7B	96.869	511	15	1	4725	5235	13321021	13321530	0.000000e+00	854
19	TraesCS2A01G244200	chr1A	96.464	509	18	0	4727	5235	396281296	396280788	0.000000e+00	841
20	TraesCS2A01G244200	chr4B	96.071	509	16	1	4727	5235	638544384	638543880	0.000000e+00	826
21	TraesCS2A01G244200	chr6D	94.106	509	30	0	4727	5235	386638521	386638013	0.000000e+00	774
22	TraesCS2A01G244200	chr4D	85.740	554	61	15	1	543	91079786	91079240	2.190000e-158	569
23	TraesCS2A01G244200	chr5D	84.268	553	75	10	1	546	542619400	542619947	3.710000e-146	529
24	TraesCS2A01G244200	chr5D	83.333	162	24	2	1028	1189	439678252	439678094	4.370000e-31	147
25	TraesCS2A01G244200	chr3D	86.639	479	53	7	3	476	434953036	434953508	2.230000e-143	520
26	TraesCS2A01G244200	chr4A	84.288	541	64	12	1	536	328250342	328250866	4.830000e-140	508
27	TraesCS2A01G244200	chr5A	83.234	167	28	0	1023	1189	555568264	555568098	2.610000e-33	154

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	TraesCS2A01G244200	chr2A	348089045	348094454	5409	True	9991.0	9991	100.000000	1	5410	1	chr2A.!!$R1	5409
1	TraesCS2A01G244200	chr2D	288611948	288616258	4310	True	3744.5	7184	97.825000	578	5410	2	chr2D.!!$R3	4832
2	TraesCS2A01G244200	chr2D	370049083	370049591	508	False	863.0	863	97.250000	4727	5235	1	chr2D.!!$F1	508
3	TraesCS2A01G244200	chr2D	318558572	318559112	540	True	507.0	507	83.912000	1	536	1	chr2D.!!$R2	535
4	TraesCS2A01G244200	chr2D	87416567	87417112	545	True	492.0	492	83.091000	1	544	1	chr2D.!!$R1	543
5	TraesCS2A01G244200	chr2D	394534247	394534788	541	False	473.0	473	82.633000	1	540	1	chr2D.!!$F2	539
6	TraesCS2A01G244200	chr2B	316048174	316052495	4321	True	2316.0	5323	94.974667	618	5410	3	chr2B.!!$R1	4792
7	TraesCS2A01G244200	chr6B	290686874	290687391	517	True	893.0	893	97.692000	4727	5246	1	chr6B.!!$R1	519
8	TraesCS2A01G244200	chr6B	290708562	290709074	512	True	881.0	881	97.661000	4727	5239	1	chr6B.!!$R2	512
9	TraesCS2A01G244200	chr5B	556966240	556966748	508	False	885.0	885	98.035000	4727	5235	1	chr5B.!!$F1	508
10	TraesCS2A01G244200	chr5B	35448820	35449340	520	True	464.0	464	82.983000	2	516	1	chr5B.!!$R1	514
11	TraesCS2A01G244200	chr3A	82463864	82464372	508	False	885.0	885	98.035000	4727	5235	1	chr3A.!!$F1	508
12	TraesCS2A01G244200	chr3A	185784	186326	542	True	412.0	412	80.762000	1	540	1	chr3A.!!$R1	539
13	TraesCS2A01G244200	chr7B	13321021	13321530	509	False	854.0	854	96.869000	4725	5235	1	chr7B.!!$F1	510
14	TraesCS2A01G244200	chr1A	396280788	396281296	508	True	841.0	841	96.464000	4727	5235	1	chr1A.!!$R1	508
15	TraesCS2A01G244200	chr4B	638543880	638544384	504	True	826.0	826	96.071000	4727	5235	1	chr4B.!!$R1	508
16	TraesCS2A01G244200	chr6D	386638013	386638521	508	True	774.0	774	94.106000	4727	5235	1	chr6D.!!$R1	508
17	TraesCS2A01G244200	chr4D	91079240	91079786	546	True	569.0	569	85.740000	1	543	1	chr4D.!!$R1	542
18	TraesCS2A01G244200	chr5D	542619400	542619947	547	False	529.0	529	84.268000	1	546	1	chr5D.!!$F1	545
19	TraesCS2A01G244200	chr4A	328250342	328250866	524	False	508.0	508	84.288000	1	536	1	chr4A.!!$F1	535

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
512	534	0.105408	GGCGATTTTACGAGCCCCTA	59.895	55.000	0.00	0.00	43.54	3.53	F
1495	1522	1.290955	GGTGGCTGCGTGTACAGTA	59.709	57.895	0.00	0.00	39.96	2.74	F
1568	1651	0.323908	CCTTGGCGGGGGATTTGTTA	60.324	55.000	0.00	0.00	0.00	2.41	F
2219	2304	1.742761	TACTTGCATGGAGAGCTTGC	58.257	50.000	4.44	0.21	36.91	4.01	F
3980	4066	1.287730	CCAGCACTGACGACAAGAGC	61.288	60.000	0.00	0.00	0.00	4.09	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1553	1636	1.037493	GGATTAACAAATCCCCCGCC	58.963	55.000	5.95	42.25	6.13	R
3340	3426	1.825090	AGCAATCTGAATTCGTGGCA	58.175	45.000	0.04	0.00	4.92	R
3622	3708	3.426159	CCCGAAGTTGCATGTTACATCAC	60.426	47.826	0.00	0.00	3.06	R
4240	4326	0.313672	GCCTGTGTTCGCCATCAAAA	59.686	50.000	0.00	0.00	2.44	R
4892	4989	0.753479	TTCAAACAAGGGCCAAGCGA	60.753	50.000	6.18	0.00	4.93	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
56	57	2.647875	CGCCCTAGAGCAGATCGG	59.352	66.667	0.00	0.00	0.00	4.18
58	59	2.502492	GCCCTAGAGCAGATCGGCA	61.502	63.158	20.15	0.00	33.47	5.69
170	171	2.040606	GTAGGGGTCCAGCAGGGA	59.959	66.667	0.00	0.00	45.89	4.20
258	259	1.664965	GCTCAGCGTGTTCTTCGGT	60.665	57.895	0.00	0.00	39.57	4.69
270	271	0.388134	TCTTCGGTCTGTAGTTGCGC	60.388	55.000	0.00	0.00	0.00	6.09
272	273	1.812686	TTCGGTCTGTAGTTGCGCCT	61.813	55.000	4.18	0.00	0.00	5.52
273	274	1.374252	CGGTCTGTAGTTGCGCCTT	60.374	57.895	4.18	0.00	0.00	4.35
274	275	0.949105	CGGTCTGTAGTTGCGCCTTT	60.949	55.000	4.18	0.00	0.00	3.11
275	276	1.235724	GGTCTGTAGTTGCGCCTTTT	58.764	50.000	4.18	0.00	0.00	2.27
375	389	3.146066	CGAATCTTTGTCCCTTTGACCA	58.854	45.455	0.00	0.00	43.78	4.02
384	398	6.800072	TTGTCCCTTTGACCAAATTTTAGT	57.200	33.333	0.00	0.00	43.78	2.24
459	477	1.991230	CTGGAAACCCGATCACCCT	59.009	57.895	0.00	0.00	0.00	4.34
483	502	1.735198	CGACTTTAGCGCCGGTTCA	60.735	57.895	2.29	0.00	0.00	3.18
490	509	4.875713	GCGCCGGTTCATCCCCAT	62.876	66.667	1.90	0.00	0.00	4.00
512	534	0.105408	GGCGATTTTACGAGCCCCTA	59.895	55.000	0.00	0.00	43.54	3.53
536	558	3.497405	GGATCCAATGGCTGAAGATGCTA	60.497	47.826	6.95	0.00	0.00	3.49
544	566	4.321718	TGGCTGAAGATGCTATAATGCTC	58.678	43.478	0.00	0.00	0.00	4.26
545	567	4.041321	TGGCTGAAGATGCTATAATGCTCT	59.959	41.667	0.00	0.00	0.00	4.09
547	569	6.169094	GGCTGAAGATGCTATAATGCTCTTA	58.831	40.000	0.00	0.00	33.76	2.10
548	570	6.091986	GGCTGAAGATGCTATAATGCTCTTAC	59.908	42.308	0.00	0.00	33.76	2.34
549	571	6.873076	GCTGAAGATGCTATAATGCTCTTACT	59.127	38.462	0.00	0.00	33.76	2.24
550	572	7.387397	GCTGAAGATGCTATAATGCTCTTACTT	59.613	37.037	0.00	0.00	33.76	2.24
551	573	8.599055	TGAAGATGCTATAATGCTCTTACTTG	57.401	34.615	0.00	0.00	33.76	3.16
552	574	8.206867	TGAAGATGCTATAATGCTCTTACTTGT	58.793	33.333	0.00	0.00	33.76	3.16
553	575	8.970859	AAGATGCTATAATGCTCTTACTTGTT	57.029	30.769	0.00	0.00	32.74	2.83
554	576	8.600449	AGATGCTATAATGCTCTTACTTGTTC	57.400	34.615	0.00	0.00	0.00	3.18
555	577	8.206867	AGATGCTATAATGCTCTTACTTGTTCA	58.793	33.333	0.00	0.00	0.00	3.18
556	578	8.737168	ATGCTATAATGCTCTTACTTGTTCAA	57.263	30.769	0.00	0.00	0.00	2.69
557	579	8.560355	TGCTATAATGCTCTTACTTGTTCAAA	57.440	30.769	0.00	0.00	0.00	2.69
558	580	9.008965	TGCTATAATGCTCTTACTTGTTCAAAA	57.991	29.630	0.00	0.00	0.00	2.44
559	581	9.840427	GCTATAATGCTCTTACTTGTTCAAAAA	57.160	29.630	0.00	0.00	0.00	1.94
592	614	9.881529	GTGTTTTGCAATATGATGTTTCAAAAT	57.118	25.926	13.29	0.00	35.38	1.82
652	675	3.258372	ACAGACAACCTGAGAGCGAAATA	59.742	43.478	0.00	0.00	45.78	1.40
675	698	3.257561	CCGGCTGATCGACAAGCG	61.258	66.667	13.38	9.46	42.69	4.68
790	814	4.596585	CCACCCCACCACCACCAC	62.597	72.222	0.00	0.00	0.00	4.16
791	815	4.596585	CACCCCACCACCACCACC	62.597	72.222	0.00	0.00	0.00	4.61
796	820	2.520458	CACCACCACCACCACCAT	59.480	61.111	0.00	0.00	0.00	3.55
806	830	2.284625	ACCACCATCTCCCTCGCA	60.285	61.111	0.00	0.00	0.00	5.10
1050	1077	4.176851	GGCGACGAGGAGGACGAC	62.177	72.222	0.00	0.00	34.70	4.34
1146	1173	1.666553	CTACGTCACCCAGCGCAAA	60.667	57.895	11.47	0.00	0.00	3.68
1299	1326	1.813178	GGAGATGATCGCGATCCAGTA	59.187	52.381	38.25	24.48	37.02	2.74
1491	1518	2.452813	CGATGGTGGCTGCGTGTAC	61.453	63.158	0.00	0.00	0.00	2.90
1492	1519	1.375396	GATGGTGGCTGCGTGTACA	60.375	57.895	0.00	0.00	0.00	2.90
1493	1520	1.361668	GATGGTGGCTGCGTGTACAG	61.362	60.000	0.00	0.00	40.80	2.74
1494	1521	2.030562	GGTGGCTGCGTGTACAGT	59.969	61.111	0.00	0.00	39.96	3.55
1495	1522	1.290955	GGTGGCTGCGTGTACAGTA	59.709	57.895	0.00	0.00	39.96	2.74
1568	1651	0.323908	CCTTGGCGGGGGATTTGTTA	60.324	55.000	0.00	0.00	0.00	2.41
1829	1914	2.699321	AGCTGCATCTCTCTTAGCATGA	59.301	45.455	1.02	0.00	36.28	3.07
1830	1915	2.801679	GCTGCATCTCTCTTAGCATGAC	59.198	50.000	0.00	0.00	36.28	3.06
1848	1933	6.653320	AGCATGACCTGAATTCTAAAACGTTA	59.347	34.615	0.00	0.00	0.00	3.18
2219	2304	1.742761	TACTTGCATGGAGAGCTTGC	58.257	50.000	4.44	0.21	36.91	4.01
2271	2356	9.313118	GAAAATGTCCTACTTGTTTCAACAATT	57.687	29.630	5.59	3.37	46.71	2.32
2321	2406	6.211986	TCCGGACTTAAACCTAATCTTGAGAA	59.788	38.462	0.00	0.00	0.00	2.87
2616	2701	3.407698	TGTTGATATGTGGTCGTTTGCT	58.592	40.909	0.00	0.00	0.00	3.91
2707	2792	7.011482	GCGAAGATGAGGTATTTGTTACATTCT	59.989	37.037	0.00	0.00	31.99	2.40
2823	2909	3.719924	AGAAACACAATGTTGGCACATG	58.280	40.909	0.00	0.00	43.34	3.21
2824	2910	3.384146	AGAAACACAATGTTGGCACATGA	59.616	39.130	0.00	0.00	43.34	3.07
3001	3087	7.694093	AGGGCTCCATTTCTAATTAGATAAGG	58.306	38.462	15.82	16.27	31.40	2.69
3622	3708	8.908436	TGTTACCAACATTGCTTCTAAGAGCAG	61.908	40.741	0.00	0.00	43.98	4.24
3668	3754	1.827789	GCCTGACAGTTGTGCCCAA	60.828	57.895	0.93	0.00	0.00	4.12
3980	4066	1.287730	CCAGCACTGACGACAAGAGC	61.288	60.000	0.00	0.00	0.00	4.09
4325	4411	4.050852	TGATGAGGATGACACAGATTCG	57.949	45.455	0.00	0.00	0.00	3.34
4331	4417	1.936547	GATGACACAGATTCGAAGCCC	59.063	52.381	10.29	0.00	0.00	5.19
4449	4535	5.444663	AACTTCTTCATCAAAGCTTGGAC	57.555	39.130	5.44	0.00	34.76	4.02
4892	4989	2.048127	GCTCGGGCTCGACACTTT	60.048	61.111	3.45	0.00	40.88	2.66
5088	5189	2.103263	GTCCATCTCTACCGAGGCAAAT	59.897	50.000	0.00	0.00	37.86	2.32
5163	5264	1.066787	TCCGCATGTGGTGTATTTCGA	60.067	47.619	24.28	0.00	0.00	3.71
5180	5281	2.485903	TCGATGGCGTGTAACAAACTT	58.514	42.857	0.00	0.00	35.74	2.66
5184	5286	5.179742	TCGATGGCGTGTAACAAACTTTATT	59.820	36.000	0.00	0.00	35.74	1.40
5374	5476	3.056250	CGATCTGTATAATCTGGCTGGCT	60.056	47.826	2.00	0.00	0.00	4.75

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	2.601666	ACTCCAGCTCCGTCTGCA	60.602	61.111	0.00	0.00	32.87	4.41
80	81	4.047059	GAACGACGACGCCTCCCA	62.047	66.667	7.30	0.00	43.96	4.37
170	171	4.003788	CCTCCTTGACACGGCCGT	62.004	66.667	28.70	28.70	0.00	5.68
248	249	2.750948	GCAACTACAGACCGAAGAACA	58.249	47.619	0.00	0.00	0.00	3.18
399	414	6.090783	CCCAGACGCCTTATTTAAAGTTTTC	58.909	40.000	0.00	0.00	0.00	2.29
445	463	1.340697	GGCTTAAGGGTGATCGGGTTT	60.341	52.381	4.29	0.00	0.00	3.27
453	471	2.354403	GCTAAAGTCGGCTTAAGGGTGA	60.354	50.000	0.94	0.00	33.95	4.02
455	473	1.405121	CGCTAAAGTCGGCTTAAGGGT	60.405	52.381	0.94	0.00	33.95	4.34
459	477	2.758497	GGCGCTAAAGTCGGCTTAA	58.242	52.632	7.64	0.00	46.90	1.85
490	509	0.528249	GGGCTCGTAAAATCGCCGTA	60.528	55.000	0.00	0.00	43.38	4.02
512	534	1.600058	TCTTCAGCCATTGGATCCCT	58.400	50.000	9.90	0.00	0.00	4.20
517	539	3.870538	ATAGCATCTTCAGCCATTGGA	57.129	42.857	6.95	0.00	0.00	3.53
522	544	4.041321	AGAGCATTATAGCATCTTCAGCCA	59.959	41.667	0.00	0.00	36.85	4.75
556	578	8.659925	TCATATTGCAAAACACATGTCTTTTT	57.340	26.923	8.87	8.58	0.00	1.94
557	579	8.714179	CATCATATTGCAAAACACATGTCTTTT	58.286	29.630	1.71	6.05	0.00	2.27
558	580	7.874016	ACATCATATTGCAAAACACATGTCTTT	59.126	29.630	1.71	0.00	0.00	2.52
559	581	7.380536	ACATCATATTGCAAAACACATGTCTT	58.619	30.769	1.71	0.00	0.00	3.01
560	582	6.927416	ACATCATATTGCAAAACACATGTCT	58.073	32.000	1.71	0.00	0.00	3.41
561	583	7.585286	AACATCATATTGCAAAACACATGTC	57.415	32.000	1.71	0.00	0.00	3.06
562	584	7.656542	TGAAACATCATATTGCAAAACACATGT	59.343	29.630	1.71	5.94	0.00	3.21
563	585	8.019769	TGAAACATCATATTGCAAAACACATG	57.980	30.769	1.71	5.29	0.00	3.21
564	586	8.604640	TTGAAACATCATATTGCAAAACACAT	57.395	26.923	1.71	0.00	0.00	3.21
565	587	8.429493	TTTGAAACATCATATTGCAAAACACA	57.571	26.923	1.71	0.00	0.00	3.72
566	588	9.881529	ATTTTGAAACATCATATTGCAAAACAC	57.118	25.926	1.71	0.00	36.82	3.32
570	592	8.937884	CCAGATTTTGAAACATCATATTGCAAA	58.062	29.630	1.71	0.00	0.00	3.68
571	593	8.312564	TCCAGATTTTGAAACATCATATTGCAA	58.687	29.630	0.00	0.00	0.00	4.08
572	594	7.838884	TCCAGATTTTGAAACATCATATTGCA	58.161	30.769	0.00	0.00	0.00	4.08
573	595	8.192774	TCTCCAGATTTTGAAACATCATATTGC	58.807	33.333	4.00	0.00	0.00	3.56
592	614	2.616842	GTGTTTCGCCTTTTTCTCCAGA	59.383	45.455	0.00	0.00	0.00	3.86
652	675	2.122167	GTCGATCAGCCGGGAGAGT	61.122	63.158	2.18	0.00	0.00	3.24
675	698	5.007626	TCGCACCTGCTATTTTTGATGTATC	59.992	40.000	0.00	0.00	39.32	2.24
734	757	0.620700	TTTCAGGGGGTAGAGGGAGC	60.621	60.000	0.00	0.00	0.00	4.70
789	813	1.690219	GATGCGAGGGAGATGGTGGT	61.690	60.000	0.00	0.00	0.00	4.16
790	814	1.070445	GATGCGAGGGAGATGGTGG	59.930	63.158	0.00	0.00	0.00	4.61
791	815	1.300465	CGATGCGAGGGAGATGGTG	60.300	63.158	0.00	0.00	0.00	4.17
796	820	2.909209	GCGATCGATGCGAGGGAGA	61.909	63.158	21.57	0.00	39.91	3.71
907	931	1.666553	TCGCTCGTTCGTTGGCAAT	60.667	52.632	1.92	0.00	0.00	3.56
914	938	4.695231	CGGTGGTCGCTCGTTCGT	62.695	66.667	0.00	0.00	0.00	3.85
1146	1173	3.175710	AAGTTGCCCCACCCGAGT	61.176	61.111	0.00	0.00	0.00	4.18
1299	1326	5.402472	GCGTGCATTAGACGGAGGATACT	62.402	52.174	0.00	0.00	43.78	2.12
1553	1636	1.037493	GGATTAACAAATCCCCCGCC	58.963	55.000	5.95	0.00	42.25	6.13
1564	1647	5.355071	CAGTAGCAGCAGAAATGGATTAACA	59.645	40.000	0.00	0.00	0.00	2.41
1568	1651	3.285484	CCAGTAGCAGCAGAAATGGATT	58.715	45.455	3.50	0.00	0.00	3.01
1848	1933	6.047870	TGCACAAGTGAAGCAATAAAATTGT	58.952	32.000	4.04	0.00	34.97	2.71
2219	2304	8.869897	CAAGTTTCAAATCTGAATGGATGATTG	58.130	33.333	0.00	0.00	41.22	2.67
2321	2406	2.061061	CATTAGGATTCCCCTCAGGCT	58.939	52.381	0.00	0.00	43.31	4.58
2445	2530	3.015327	CCCATCCAAGCTTCTTTCTGAG	58.985	50.000	0.00	0.00	0.00	3.35
2616	2701	2.873170	CGAGCTCAAACGCAATACAA	57.127	45.000	15.40	0.00	0.00	2.41
2707	2792	3.636300	GCATCATGGGTTAGGTTAATGCA	59.364	43.478	0.00	0.00	38.44	3.96
2817	2903	4.568359	ACTCTTCAACACGATATCATGTGC	59.432	41.667	5.00	0.00	39.71	4.57
3001	3087	7.129622	CGAGAACTGTACATTAGTCTCATCTC	58.870	42.308	17.99	11.51	0.00	2.75
3306	3392	5.106948	ACTGCTGAGTTTGTTGATTGTATCG	60.107	40.000	0.00	0.00	0.00	2.92
3340	3426	1.825090	AGCAATCTGAATTCGTGGCA	58.175	45.000	0.04	0.00	0.00	4.92
3622	3708	3.426159	CCCGAAGTTGCATGTTACATCAC	60.426	47.826	0.00	0.00	0.00	3.06
3668	3754	3.903090	TGTTCCCCTTTGCATCAATTCTT	59.097	39.130	0.00	0.00	0.00	2.52
3778	3864	3.886505	TGTTCCAGTGTTGGGATTTACAC	59.113	43.478	0.00	0.00	45.10	2.90
3980	4066	0.657312	TGCTGCTCTTTGTGTCAACG	59.343	50.000	0.00	0.00	0.00	4.10
4240	4326	0.313672	GCCTGTGTTCGCCATCAAAA	59.686	50.000	0.00	0.00	0.00	2.44
4242	4328	1.971167	GGCCTGTGTTCGCCATCAA	60.971	57.895	0.00	0.00	45.01	2.57
4271	4357	2.735134	GTTAGTCTGTAACTTGGCACCG	59.265	50.000	0.00	0.00	39.55	4.94
4331	4417	0.660005	CCGCAACACGTCCAACATTG	60.660	55.000	0.00	0.00	41.42	2.82
4449	4535	6.889301	ATATGCCTCTCCACAATAAACATG	57.111	37.500	0.00	0.00	0.00	3.21
4522	4617	2.575735	TGATCAAGGTTGGCTCCATACA	59.424	45.455	0.00	0.00	0.00	2.29
4722	4819	2.680841	CAATCTATCCGCCGTCCAAAAA	59.319	45.455	0.00	0.00	0.00	1.94
4892	4989	0.753479	TTCAAACAAGGGCCAAGCGA	60.753	50.000	6.18	0.00	0.00	4.93
5088	5189	2.238847	CTCCGGCGATGACCCAAAGA	62.239	60.000	9.30	0.00	0.00	2.52
5163	5264	6.430000	AGAGAATAAAGTTTGTTACACGCCAT	59.570	34.615	0.00	0.00	0.00	4.40
5184	5286	7.379059	TGCCTCATCCATTAAATAAGAGAGA	57.621	36.000	0.00	0.00	0.00	3.10
5235	5337	4.797275	GCCCAGTCAAAGTCCAAAAGAATG	60.797	45.833	0.00	0.00	0.00	2.67
5239	5341	2.031120	TGCCCAGTCAAAGTCCAAAAG	58.969	47.619	0.00	0.00	0.00	2.27
5242	5344	1.425066	AGATGCCCAGTCAAAGTCCAA	59.575	47.619	0.00	0.00	0.00	3.53
5243	5345	1.067295	AGATGCCCAGTCAAAGTCCA	58.933	50.000	0.00	0.00	0.00	4.02
5244	5346	2.206576	AAGATGCCCAGTCAAAGTCC	57.793	50.000	0.00	0.00	0.00	3.85
5245	5347	3.674997	TGTAAGATGCCCAGTCAAAGTC	58.325	45.455	0.00	0.00	0.00	3.01
5246	5348	3.788227	TGTAAGATGCCCAGTCAAAGT	57.212	42.857	0.00	0.00	0.00	2.66
5247	5349	5.649782	AAATGTAAGATGCCCAGTCAAAG	57.350	39.130	0.00	0.00	0.00	2.77

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.