AutoCloner

Multiple sequence alignment - TraesCS2B01G329100

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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	TraesCS2B01G329100	chr2B	100.000	3281	0	0	1	3281	472897494	472900774	0.000000e+00	6059
1	TraesCS2B01G329100	chr2B	85.266	1276	186	2	1007	2281	393463202	393464476	0.000000e+00	1314
2	TraesCS2B01G329100	chr2B	92.816	348	21	2	405	749	715527691	715527345	4.890000e-138	501
3	TraesCS2B01G329100	chr2B	86.239	436	31	10	1	428	715528002	715527588	2.320000e-121	446
4	TraesCS2B01G329100	chr2D	96.854	2479	40	18	833	3281	398779874	398782344	0.000000e+00	4111
5	TraesCS2B01G329100	chr2D	85.237	1287	185	4	996	2281	324593235	324594517	0.000000e+00	1319
6	TraesCS2B01G329100	chr2D	98.507	67	1	0	752	818	398779602	398779668	5.750000e-23	119
7	TraesCS2B01G329100	chr2A	91.726	2369	132	46	752	3079	536623393	536625738	0.000000e+00	3230
8	TraesCS2B01G329100	chr2A	85.047	1264	187	2	1019	2281	394022788	394021526	0.000000e+00	1286
9	TraesCS2B01G329100	chr2A	93.642	173	10	1	1	172	81098632	81098460	1.170000e-64	257
10	TraesCS2B01G329100	chr4D	88.762	1486	145	18	984	2456	502412838	502411362	0.000000e+00	1799
11	TraesCS2B01G329100	chr4B	89.533	1414	139	6	984	2389	646659702	646658290	0.000000e+00	1783
12	TraesCS2B01G329100	chr4B	88.392	715	31	12	23	734	407062279	407061614	0.000000e+00	813
13	TraesCS2B01G329100	chr4B	87.500	752	28	19	1	751	119277360	119278046	0.000000e+00	808
14	TraesCS2B01G329100	chr5A	88.744	1457	147	13	984	2431	685538701	685537253	0.000000e+00	1766
15	TraesCS2B01G329100	chr5A	85.757	337	25	13	107	423	350150108	350149775	5.250000e-88	335
16	TraesCS2B01G329100	chr6B	91.345	751	23	5	1	751	258758781	258758073	0.000000e+00	989
17	TraesCS2B01G329100	chr4A	90.849	754	33	8	1	751	652855668	652856388	0.000000e+00	977
18	TraesCS2B01G329100	chr4A	93.350	406	20	4	354	755	412311822	412311420	7.840000e-166	593
19	TraesCS2B01G329100	chr5B	90.596	436	30	7	309	734	700577271	700577705	4.750000e-158	568
20	TraesCS2B01G329100	chr7B	89.401	434	20	12	23	443	158182705	158182285	1.040000e-144	523
21	TraesCS2B01G329100	chr7B	88.529	401	23	8	354	751	158182446	158182066	6.410000e-127	464
22	TraesCS2B01G329100	chr7B	94.611	167	8	1	6	172	711354932	711355097	1.170000e-64	257
23	TraesCS2B01G329100	chr3A	87.246	345	17	15	102	423	1562491	1562831	5.170000e-98	368
24	TraesCS2B01G329100	chr3A	92.486	173	12	1	1	172	359355167	359354995	2.530000e-61	246
25	TraesCS2B01G329100	chr5D	86.364	330	24	8	422	751	302329830	302329522	1.130000e-89	340
26	TraesCS2B01G329100	chr1A	85.797	345	21	15	102	423	37474847	37475186	1.130000e-89	340
27	TraesCS2B01G329100	chr6A	86.012	336	21	15	110	423	523629815	523630146	1.460000e-88	337
28	TraesCS2B01G329100	chr3B	93.064	173	11	1	1	172	369098023	369097851	5.430000e-63	252
29	TraesCS2B01G329100	chr3B	92.486	173	12	1	1	172	340801768	340801940	2.530000e-61	246
30	TraesCS2B01G329100	chr3B	92.025	163	13	0	1	163	193616826	193616988	2.550000e-56	230
31	TraesCS2B01G329100	chr3B	75.686	510	81	23	1	499	242601495	242601972	7.130000e-52	215
32	TraesCS2B01G329100	chr1B	92.025	163	13	0	1	163	143631234	143631072	2.550000e-56	230

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	TraesCS2B01G329100	chr2B	472897494	472900774	3280	False	6059.0	6059	100.0000	1	3281	1	chr2B.!!$F2	3280
1	TraesCS2B01G329100	chr2B	393463202	393464476	1274	False	1314.0	1314	85.2660	1007	2281	1	chr2B.!!$F1	1274
2	TraesCS2B01G329100	chr2B	715527345	715528002	657	True	473.5	501	89.5275	1	749	2	chr2B.!!$R1	748
3	TraesCS2B01G329100	chr2D	398779602	398782344	2742	False	2115.0	4111	97.6805	752	3281	2	chr2D.!!$F2	2529
4	TraesCS2B01G329100	chr2D	324593235	324594517	1282	False	1319.0	1319	85.2370	996	2281	1	chr2D.!!$F1	1285
5	TraesCS2B01G329100	chr2A	536623393	536625738	2345	False	3230.0	3230	91.7260	752	3079	1	chr2A.!!$F1	2327
6	TraesCS2B01G329100	chr2A	394021526	394022788	1262	True	1286.0	1286	85.0470	1019	2281	1	chr2A.!!$R2	1262
7	TraesCS2B01G329100	chr4D	502411362	502412838	1476	True	1799.0	1799	88.7620	984	2456	1	chr4D.!!$R1	1472
8	TraesCS2B01G329100	chr4B	646658290	646659702	1412	True	1783.0	1783	89.5330	984	2389	1	chr4B.!!$R2	1405
9	TraesCS2B01G329100	chr4B	407061614	407062279	665	True	813.0	813	88.3920	23	734	1	chr4B.!!$R1	711
10	TraesCS2B01G329100	chr4B	119277360	119278046	686	False	808.0	808	87.5000	1	751	1	chr4B.!!$F1	750
11	TraesCS2B01G329100	chr5A	685537253	685538701	1448	True	1766.0	1766	88.7440	984	2431	1	chr5A.!!$R2	1447
12	TraesCS2B01G329100	chr6B	258758073	258758781	708	True	989.0	989	91.3450	1	751	1	chr6B.!!$R1	750
13	TraesCS2B01G329100	chr4A	652855668	652856388	720	False	977.0	977	90.8490	1	751	1	chr4A.!!$F1	750
14	TraesCS2B01G329100	chr7B	158182066	158182705	639	True	493.5	523	88.9650	23	751	2	chr7B.!!$R1	728

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
399	454	0.107508	TGCTCTTGCTGGTATGCTCC	60.108	55.0	0.0	0.0	40.48	4.7	F
403	458	0.179034	CTTGCTGGTATGCTCCTCCC	60.179	60.0	0.0	0.0	0.00	4.3	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1848	2113	0.104120	TAGCATCAACATCCGGACCG	59.896	55.000	6.12	6.99	0.00	4.79	R
2282	2547	3.118112	AGCCTATCACATGCTTAGCAACT	60.118	43.478	12.08	0.00	43.62	3.16	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
236	250	2.094390	CCGTGGAAACCTAGATCGAACA	60.094	50.000	0.00	0.00	0.00	3.18
363	418	0.179009	TTGCTGCTCTTGCTGGTCTT	60.179	50.000	0.00	0.00	40.48	3.01
364	419	0.604780	TGCTGCTCTTGCTGGTCTTC	60.605	55.000	0.00	0.00	40.48	2.87
365	420	0.321475	GCTGCTCTTGCTGGTCTTCT	60.321	55.000	0.00	0.00	40.48	2.85
366	421	1.724429	CTGCTCTTGCTGGTCTTCTC	58.276	55.000	0.00	0.00	40.48	2.87
367	422	0.322975	TGCTCTTGCTGGTCTTCTCC	59.677	55.000	0.00	0.00	40.48	3.71
368	423	0.612744	GCTCTTGCTGGTCTTCTCCT	59.387	55.000	0.00	0.00	36.03	3.69
369	424	1.405391	GCTCTTGCTGGTCTTCTCCTC	60.405	57.143	0.00	0.00	36.03	3.71
370	425	1.206849	CTCTTGCTGGTCTTCTCCTCC	59.793	57.143	0.00	0.00	0.00	4.30
371	426	0.251634	CTTGCTGGTCTTCTCCTCCC	59.748	60.000	0.00	0.00	0.00	4.30
372	427	1.201429	TTGCTGGTCTTCTCCTCCCC	61.201	60.000	0.00	0.00	0.00	4.81
373	428	1.306568	GCTGGTCTTCTCCTCCCCT	60.307	63.158	0.00	0.00	0.00	4.79
374	429	1.621672	GCTGGTCTTCTCCTCCCCTG	61.622	65.000	0.00	0.00	0.00	4.45
375	430	0.980231	CTGGTCTTCTCCTCCCCTGG	60.980	65.000	0.00	0.00	0.00	4.45
376	431	1.081277	GGTCTTCTCCTCCCCTGGT	59.919	63.158	0.00	0.00	0.00	4.00
377	432	0.547954	GGTCTTCTCCTCCCCTGGTT	60.548	60.000	0.00	0.00	0.00	3.67
378	433	0.615850	GTCTTCTCCTCCCCTGGTTG	59.384	60.000	0.00	0.00	0.00	3.77
379	434	1.201429	TCTTCTCCTCCCCTGGTTGC	61.201	60.000	0.00	0.00	0.00	4.17
380	435	1.151810	TTCTCCTCCCCTGGTTGCT	60.152	57.895	0.00	0.00	0.00	3.91
381	436	1.492133	TTCTCCTCCCCTGGTTGCTG	61.492	60.000	0.00	0.00	0.00	4.41
382	437	3.635268	CTCCTCCCCTGGTTGCTGC	62.635	68.421	0.00	0.00	0.00	5.25
383	438	3.655211	CCTCCCCTGGTTGCTGCT	61.655	66.667	0.00	0.00	0.00	4.24
384	439	2.045536	CTCCCCTGGTTGCTGCTC	60.046	66.667	0.00	0.00	0.00	4.26
385	440	2.530151	TCCCCTGGTTGCTGCTCT	60.530	61.111	0.00	0.00	0.00	4.09
386	441	2.134630	CTCCCCTGGTTGCTGCTCTT	62.135	60.000	0.00	0.00	0.00	2.85
387	442	1.975407	CCCCTGGTTGCTGCTCTTG	60.975	63.158	0.00	0.00	0.00	3.02
388	443	2.633509	CCCTGGTTGCTGCTCTTGC	61.634	63.158	0.00	0.00	40.20	4.01
389	444	1.602888	CCTGGTTGCTGCTCTTGCT	60.603	57.895	0.00	0.00	40.48	3.91
390	445	1.579932	CTGGTTGCTGCTCTTGCTG	59.420	57.895	0.00	0.00	40.48	4.41
391	446	1.863662	CTGGTTGCTGCTCTTGCTGG	61.864	60.000	0.00	0.00	40.48	4.85
392	447	1.900498	GGTTGCTGCTCTTGCTGGT	60.900	57.895	0.00	0.00	40.48	4.00
393	448	0.606401	GGTTGCTGCTCTTGCTGGTA	60.606	55.000	0.00	0.00	40.48	3.25
394	449	1.457346	GTTGCTGCTCTTGCTGGTAT	58.543	50.000	0.00	0.00	40.48	2.73
395	450	1.131883	GTTGCTGCTCTTGCTGGTATG	59.868	52.381	0.00	0.00	40.48	2.39
396	451	1.028330	TGCTGCTCTTGCTGGTATGC	61.028	55.000	0.00	0.00	40.48	3.14
397	452	0.747283	GCTGCTCTTGCTGGTATGCT	60.747	55.000	0.00	0.00	40.48	3.79
398	453	1.297664	CTGCTCTTGCTGGTATGCTC	58.702	55.000	0.00	0.00	40.48	4.26
399	454	0.107508	TGCTCTTGCTGGTATGCTCC	60.108	55.000	0.00	0.00	40.48	4.70
400	455	0.179936	GCTCTTGCTGGTATGCTCCT	59.820	55.000	0.00	0.00	36.03	3.69
401	456	1.809651	GCTCTTGCTGGTATGCTCCTC	60.810	57.143	0.00	0.00	36.03	3.71
402	457	0.833287	TCTTGCTGGTATGCTCCTCC	59.167	55.000	0.00	0.00	0.00	4.30
403	458	0.179034	CTTGCTGGTATGCTCCTCCC	60.179	60.000	0.00	0.00	0.00	4.30
404	459	1.635817	TTGCTGGTATGCTCCTCCCC	61.636	60.000	0.00	0.00	0.00	4.81
405	460	1.768077	GCTGGTATGCTCCTCCCCT	60.768	63.158	0.00	0.00	0.00	4.79
406	461	1.763546	GCTGGTATGCTCCTCCCCTC	61.764	65.000	0.00	0.00	0.00	4.30
407	462	1.074471	TGGTATGCTCCTCCCCTCC	60.074	63.158	0.00	0.00	0.00	4.30
408	463	1.237458	GGTATGCTCCTCCCCTCCT	59.763	63.158	0.00	0.00	0.00	3.69
409	464	0.834261	GGTATGCTCCTCCCCTCCTC	60.834	65.000	0.00	0.00	0.00	3.71
410	465	0.834261	GTATGCTCCTCCCCTCCTCC	60.834	65.000	0.00	0.00	0.00	4.30
411	466	2.037304	TATGCTCCTCCCCTCCTCCC	62.037	65.000	0.00	0.00	0.00	4.30
412	467	4.890306	GCTCCTCCCCTCCTCCCC	62.890	77.778	0.00	0.00	0.00	4.81
413	468	3.039526	CTCCTCCCCTCCTCCCCT	61.040	72.222	0.00	0.00	0.00	4.79
414	469	3.368501	TCCTCCCCTCCTCCCCTG	61.369	72.222	0.00	0.00	0.00	4.45
415	470	4.505970	CCTCCCCTCCTCCCCTGG	62.506	77.778	0.00	0.00	0.00	4.45
416	471	3.700350	CTCCCCTCCTCCCCTGGT	61.700	72.222	0.00	0.00	0.00	4.00
417	472	3.216371	TCCCCTCCTCCCCTGGTT	61.216	66.667	0.00	0.00	0.00	3.67
418	473	3.017581	CCCCTCCTCCCCTGGTTG	61.018	72.222	0.00	0.00	0.00	3.77
419	474	3.732849	CCCTCCTCCCCTGGTTGC	61.733	72.222	0.00	0.00	0.00	4.17
420	475	2.612115	CCTCCTCCCCTGGTTGCT	60.612	66.667	0.00	0.00	0.00	3.91
421	476	2.673523	CTCCTCCCCTGGTTGCTG	59.326	66.667	0.00	0.00	0.00	4.41
422	477	3.635268	CTCCTCCCCTGGTTGCTGC	62.635	68.421	0.00	0.00	0.00	5.25
423	478	3.655211	CCTCCCCTGGTTGCTGCT	61.655	66.667	0.00	0.00	0.00	4.24
424	479	2.360852	CTCCCCTGGTTGCTGCTG	60.361	66.667	0.00	0.00	0.00	4.41
425	480	4.666253	TCCCCTGGTTGCTGCTGC	62.666	66.667	8.89	8.89	40.20	5.25
426	481	4.673375	CCCCTGGTTGCTGCTGCT	62.673	66.667	17.00	0.00	40.48	4.24
427	482	3.371063	CCCTGGTTGCTGCTGCTG	61.371	66.667	17.00	0.77	40.48	4.41
428	483	3.371063	CCTGGTTGCTGCTGCTGG	61.371	66.667	17.00	7.30	40.48	4.85
429	484	2.596631	CTGGTTGCTGCTGCTGGT	60.597	61.111	17.00	0.00	40.48	4.00
430	485	1.302752	CTGGTTGCTGCTGCTGGTA	60.303	57.895	17.00	0.67	40.48	3.25
431	486	0.679002	CTGGTTGCTGCTGCTGGTAT	60.679	55.000	17.00	0.00	40.48	2.73
515	573	0.972983	TTGTTGTTGGTGGTGGTGGG	60.973	55.000	0.00	0.00	0.00	4.61
630	688	9.392259	GCTGGTTTTATTGTACCTACTTTCTAT	57.608	33.333	0.00	0.00	35.41	1.98
653	711	2.913613	CTTAACTCACGTCGACTCGTT	58.086	47.619	14.70	12.66	42.27	3.85
660	718	1.002250	ACGTCGACTCGTTGCATGTC	61.002	55.000	14.70	0.00	41.37	3.06
785	859	6.721704	ATTTTCCTTGCTTTCAGAAGAAGT	57.278	33.333	0.00	0.00	34.71	3.01
818	892	1.873572	GGAAATTCATGCACGCCGC	60.874	57.895	0.00	0.00	42.89	6.53
819	893	1.873572	GAAATTCATGCACGCCGCC	60.874	57.895	0.00	0.00	41.33	6.13
820	894	2.270297	GAAATTCATGCACGCCGCCT	62.270	55.000	0.00	0.00	41.33	5.52
822	896	1.876497	AATTCATGCACGCCGCCTTT	61.876	50.000	0.00	0.00	41.33	3.11
825	899	1.211449	CATGCACGCCGCCTTTTTA	59.789	52.632	0.00	0.00	41.33	1.52
826	900	0.387878	CATGCACGCCGCCTTTTTAA	60.388	50.000	0.00	0.00	41.33	1.52
847	1112	2.906389	ACTCTGTTAGTTGGAGGCATCA	59.094	45.455	0.00	0.00	33.35	3.07
863	1128	5.452255	AGGCATCATGTAGGAAATTCATGT	58.548	37.500	0.00	0.00	39.61	3.21
872	1137	3.759581	AGGAAATTCATGTGTGCACTCT	58.240	40.909	19.41	1.83	0.00	3.24
1269	1534	3.058160	CCCAAGGCCAAGACTGCG	61.058	66.667	5.01	0.00	0.00	5.18
1432	1697	2.223829	GCGGCACTTCTGCTAGAGAATA	60.224	50.000	0.00	0.00	43.66	1.75
1437	1702	5.395768	GGCACTTCTGCTAGAGAATAAGGAA	60.396	44.000	0.00	0.00	43.66	3.36
1824	2089	6.598503	TGATGATGTTGCTGGAATAATCTCT	58.401	36.000	8.31	0.00	0.00	3.10
2282	2547	2.945008	CGGCTAAGATCATGGCTTGAAA	59.055	45.455	7.20	0.00	38.03	2.69
2341	2610	3.033909	AGCCTTTTCAGTTCCTTTGCTT	58.966	40.909	0.00	0.00	0.00	3.91
2437	2712	3.201487	TCCATCTTGCTCATGAACTGGAT	59.799	43.478	0.00	0.00	0.00	3.41
2658	2971	2.213499	CTGTCTTGTGTGGTTCCTGTC	58.787	52.381	0.00	0.00	0.00	3.51
2837	3150	6.496571	AGTTGATGATGCTTAGTACTCGTAC	58.503	40.000	0.00	0.00	36.35	3.67
2840	3153	6.495706	TGATGATGCTTAGTACTCGTACAAG	58.504	40.000	0.00	0.00	38.48	3.16
2865	3178	3.514309	ACAACGAAGCCAGTAGGTATCTT	59.486	43.478	0.00	0.00	37.19	2.40
2868	3181	5.927281	ACGAAGCCAGTAGGTATCTTAAA	57.073	39.130	0.00	0.00	37.19	1.52
3079	3425	6.821388	ACCATGTAAAATTTGCCACAGTTTA	58.179	32.000	0.00	0.00	0.00	2.01
3181	3528	1.293924	GTCATGTCATGGGCTTCTCG	58.706	55.000	12.90	0.00	0.00	4.04

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
43	44	2.740055	CCTGCCAGTGCGACTCAC	60.740	66.667	0.00	0.00	45.98	3.51
147	159	2.536761	AATTGAGTCGTTCGACCCAA	57.463	45.000	20.33	20.33	37.29	4.12
236	250	2.691252	GTCGGGGGAGGGGAACAT	60.691	66.667	0.00	0.00	0.00	2.71
281	299	3.185203	AAGCCAGCAACCAGGGGA	61.185	61.111	0.00	0.00	0.00	4.81
363	418	1.920325	CAGCAACCAGGGGAGGAGA	60.920	63.158	0.00	0.00	0.00	3.71
364	419	2.673523	CAGCAACCAGGGGAGGAG	59.326	66.667	0.00	0.00	0.00	3.69
365	420	3.650950	GCAGCAACCAGGGGAGGA	61.651	66.667	0.00	0.00	0.00	3.71
366	421	3.635268	GAGCAGCAACCAGGGGAGG	62.635	68.421	0.00	0.00	0.00	4.30
367	422	2.045536	GAGCAGCAACCAGGGGAG	60.046	66.667	0.00	0.00	0.00	4.30
368	423	2.156098	AAGAGCAGCAACCAGGGGA	61.156	57.895	0.00	0.00	0.00	4.81
369	424	1.975407	CAAGAGCAGCAACCAGGGG	60.975	63.158	0.00	0.00	0.00	4.79
370	425	2.633509	GCAAGAGCAGCAACCAGGG	61.634	63.158	0.00	0.00	41.58	4.45
371	426	1.602888	AGCAAGAGCAGCAACCAGG	60.603	57.895	0.00	0.00	45.49	4.45
372	427	1.579932	CAGCAAGAGCAGCAACCAG	59.420	57.895	0.00	0.00	45.49	4.00
373	428	1.900016	CCAGCAAGAGCAGCAACCA	60.900	57.895	0.00	0.00	45.49	3.67
374	429	0.606401	TACCAGCAAGAGCAGCAACC	60.606	55.000	0.00	0.00	45.49	3.77
375	430	1.131883	CATACCAGCAAGAGCAGCAAC	59.868	52.381	0.00	0.00	45.49	4.17
376	431	1.456296	CATACCAGCAAGAGCAGCAA	58.544	50.000	0.00	0.00	45.49	3.91
377	432	1.028330	GCATACCAGCAAGAGCAGCA	61.028	55.000	0.00	0.00	45.49	4.41
378	433	0.747283	AGCATACCAGCAAGAGCAGC	60.747	55.000	0.00	0.00	45.49	5.25
379	434	1.297664	GAGCATACCAGCAAGAGCAG	58.702	55.000	0.00	0.00	45.49	4.24
380	435	0.107508	GGAGCATACCAGCAAGAGCA	60.108	55.000	0.00	0.00	45.49	4.26
381	436	0.179936	AGGAGCATACCAGCAAGAGC	59.820	55.000	0.00	0.00	42.56	4.09
382	437	1.202627	GGAGGAGCATACCAGCAAGAG	60.203	57.143	0.00	0.00	36.85	2.85
383	438	0.833287	GGAGGAGCATACCAGCAAGA	59.167	55.000	0.00	0.00	36.85	3.02
384	439	0.179034	GGGAGGAGCATACCAGCAAG	60.179	60.000	0.00	0.00	36.85	4.01
385	440	1.635817	GGGGAGGAGCATACCAGCAA	61.636	60.000	0.00	0.00	36.85	3.91
386	441	2.072487	GGGGAGGAGCATACCAGCA	61.072	63.158	0.00	0.00	36.85	4.41
387	442	1.763546	GAGGGGAGGAGCATACCAGC	61.764	65.000	0.00	0.00	0.00	4.85
388	443	1.124477	GGAGGGGAGGAGCATACCAG	61.124	65.000	0.00	0.00	0.00	4.00
389	444	1.074471	GGAGGGGAGGAGCATACCA	60.074	63.158	0.00	0.00	0.00	3.25
390	445	0.834261	GAGGAGGGGAGGAGCATACC	60.834	65.000	0.00	0.00	0.00	2.73
391	446	0.834261	GGAGGAGGGGAGGAGCATAC	60.834	65.000	0.00	0.00	0.00	2.39
392	447	1.549297	GGAGGAGGGGAGGAGCATA	59.451	63.158	0.00	0.00	0.00	3.14
393	448	2.288643	GGAGGAGGGGAGGAGCAT	59.711	66.667	0.00	0.00	0.00	3.79
394	449	4.095400	GGGAGGAGGGGAGGAGCA	62.095	72.222	0.00	0.00	0.00	4.26
395	450	4.890306	GGGGAGGAGGGGAGGAGC	62.890	77.778	0.00	0.00	0.00	4.70
396	451	3.039526	AGGGGAGGAGGGGAGGAG	61.040	72.222	0.00	0.00	0.00	3.69
397	452	3.368501	CAGGGGAGGAGGGGAGGA	61.369	72.222	0.00	0.00	0.00	3.71
398	453	4.505970	CCAGGGGAGGAGGGGAGG	62.506	77.778	0.00	0.00	0.00	4.30
399	454	3.274550	AACCAGGGGAGGAGGGGAG	62.275	68.421	0.00	0.00	0.00	4.30
400	455	3.216371	AACCAGGGGAGGAGGGGA	61.216	66.667	0.00	0.00	0.00	4.81
401	456	3.017581	CAACCAGGGGAGGAGGGG	61.018	72.222	0.00	0.00	0.00	4.79
402	457	3.732849	GCAACCAGGGGAGGAGGG	61.733	72.222	0.00	0.00	0.00	4.30
403	458	2.612115	AGCAACCAGGGGAGGAGG	60.612	66.667	0.00	0.00	0.00	4.30
404	459	2.673523	CAGCAACCAGGGGAGGAG	59.326	66.667	0.00	0.00	0.00	3.69
405	460	3.650950	GCAGCAACCAGGGGAGGA	61.651	66.667	0.00	0.00	0.00	3.71
406	461	3.655211	AGCAGCAACCAGGGGAGG	61.655	66.667	0.00	0.00	0.00	4.30
407	462	2.360852	CAGCAGCAACCAGGGGAG	60.361	66.667	0.00	0.00	0.00	4.30
408	463	4.666253	GCAGCAGCAACCAGGGGA	62.666	66.667	0.00	0.00	41.58	4.81
409	464	4.673375	AGCAGCAGCAACCAGGGG	62.673	66.667	3.17	0.00	45.49	4.79
410	465	3.371063	CAGCAGCAGCAACCAGGG	61.371	66.667	3.17	0.00	45.49	4.45
411	466	2.753009	TACCAGCAGCAGCAACCAGG	62.753	60.000	3.17	0.00	45.49	4.45
412	467	0.679002	ATACCAGCAGCAGCAACCAG	60.679	55.000	3.17	0.00	45.49	4.00
413	468	0.961857	CATACCAGCAGCAGCAACCA	60.962	55.000	3.17	0.00	45.49	3.67
414	469	1.805254	CATACCAGCAGCAGCAACC	59.195	57.895	3.17	0.00	45.49	3.77
415	470	1.138247	GCATACCAGCAGCAGCAAC	59.862	57.895	3.17	0.00	45.49	4.17
416	471	1.001764	AGCATACCAGCAGCAGCAA	60.002	52.632	3.17	0.00	45.49	3.91
417	472	1.450848	GAGCATACCAGCAGCAGCA	60.451	57.895	3.17	0.00	45.49	4.41
418	473	2.185494	GGAGCATACCAGCAGCAGC	61.185	63.158	0.00	0.00	42.56	5.25
419	474	0.532417	GAGGAGCATACCAGCAGCAG	60.532	60.000	0.00	0.00	36.85	4.24
420	475	1.524002	GAGGAGCATACCAGCAGCA	59.476	57.895	0.00	0.00	36.85	4.41
421	476	1.227793	GGAGGAGCATACCAGCAGC	60.228	63.158	0.00	0.00	36.85	5.25
422	477	1.449353	GGGAGGAGCATACCAGCAG	59.551	63.158	0.00	0.00	36.85	4.24
423	478	2.072487	GGGGAGGAGCATACCAGCA	61.072	63.158	0.00	0.00	36.85	4.41
424	479	1.763546	GAGGGGAGGAGCATACCAGC	61.764	65.000	0.00	0.00	0.00	4.85
425	480	0.399091	TGAGGGGAGGAGCATACCAG	60.399	60.000	0.00	0.00	0.00	4.00
426	481	0.268869	ATGAGGGGAGGAGCATACCA	59.731	55.000	0.00	0.00	0.00	3.25
427	482	0.980423	GATGAGGGGAGGAGCATACC	59.020	60.000	0.00	0.00	0.00	2.73
428	483	0.980423	GGATGAGGGGAGGAGCATAC	59.020	60.000	0.00	0.00	0.00	2.39
429	484	0.178891	GGGATGAGGGGAGGAGCATA	60.179	60.000	0.00	0.00	0.00	3.14
430	485	1.463018	GGGATGAGGGGAGGAGCAT	60.463	63.158	0.00	0.00	0.00	3.79
431	486	2.040464	GGGATGAGGGGAGGAGCA	60.040	66.667	0.00	0.00	0.00	4.26
515	573	3.086600	CAGGGGAGGAGCAGACCC	61.087	72.222	0.00	0.00	43.69	4.46
736	810	5.362263	AGTTTAGCACAAGGTTTTCGAGTA	58.638	37.500	0.00	0.00	0.00	2.59
785	859	9.917129	GCATGAATTTCCAATCAATACATATGA	57.083	29.630	10.38	0.00	0.00	2.15
826	900	2.906389	TGATGCCTCCAACTAACAGAGT	59.094	45.455	0.00	0.00	41.56	3.24
847	1112	5.012239	AGTGCACACATGAATTTCCTACAT	58.988	37.500	21.04	0.00	0.00	2.29
872	1137	7.620880	AGTAACACAAGGAACTAGATAATGCA	58.379	34.615	0.00	0.00	38.49	3.96
1072	1337	3.334691	TCGAAATTGACTCCGAAGCATT	58.665	40.909	0.00	0.00	0.00	3.56
1269	1534	5.708948	TCAATGATTCCACGGACAATTTTC	58.291	37.500	0.00	0.00	0.00	2.29
1432	1697	2.912956	TCAGGGCTTCAGTGTATTCCTT	59.087	45.455	0.00	0.00	0.00	3.36
1437	1702	2.763448	GAGAGTCAGGGCTTCAGTGTAT	59.237	50.000	0.00	0.00	0.00	2.29
1575	1840	0.601046	TCCTTGCAGCAGTCAACGAG	60.601	55.000	0.00	0.00	0.00	4.18
1824	2089	6.238953	CGACATACTTTAGGCTAGCCTTAGAA	60.239	42.308	40.02	27.84	45.70	2.10
1848	2113	0.104120	TAGCATCAACATCCGGACCG	59.896	55.000	6.12	6.99	0.00	4.79
2282	2547	3.118112	AGCCTATCACATGCTTAGCAACT	60.118	43.478	12.08	0.00	43.62	3.16
2341	2610	9.851686	ATATGCAGGATTACATGTCTTAAAGAA	57.148	29.630	0.00	0.00	0.00	2.52
2437	2712	7.331026	TCCACCACATAAAAACAACAAATTGA	58.669	30.769	0.00	0.00	39.30	2.57
2658	2971	5.491982	ACCATAAAAGAACAGAGTAGCCAG	58.508	41.667	0.00	0.00	0.00	4.85
2837	3150	1.299541	ACTGGCTTCGTTGTGACTTG	58.700	50.000	0.00	0.00	0.00	3.16
2840	3153	1.270147	ACCTACTGGCTTCGTTGTGAC	60.270	52.381	0.00	0.00	36.63	3.67
2881	3194	7.166167	TCTACTGTCTGCGACATATATAAGGA	58.834	38.462	10.93	0.00	41.94	3.36
2882	3195	7.379098	TCTACTGTCTGCGACATATATAAGG	57.621	40.000	10.93	1.81	41.94	2.69
2883	3196	9.923786	GTATCTACTGTCTGCGACATATATAAG	57.076	37.037	10.93	2.38	41.94	1.73
2884	3197	9.444600	TGTATCTACTGTCTGCGACATATATAA	57.555	33.333	10.93	2.11	41.94	0.98
3000	3346	6.970043	GCGCAATTGTTGGATAATAACACTTA	59.030	34.615	0.30	0.00	37.73	2.24
3079	3425	6.709846	GTGCTTATAATTGAGAAGAGATGCCT	59.290	38.462	0.00	0.00	0.00	4.75
3181	3528	2.150837	GTACGTCTCGGCGTTGCTC	61.151	63.158	6.85	0.00	43.04	4.26

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.