AutoCloner

Multiple sequence alignment - TraesCS4A01G261300

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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	TraesCS4A01G261300	chr4A	100.000	3202	0	0	1	3202	573669487	573672688	0.000000e+00	5914
1	TraesCS4A01G261300	chr4A	97.465	2604	50	6	611	3202	608866351	608863752	0.000000e+00	4429
2	TraesCS4A01G261300	chr4A	90.836	622	25	20	1	610	597841428	597840827	0.000000e+00	804
3	TraesCS4A01G261300	chr4A	92.537	335	5	5	611	942	573683392	573683075	2.250000e-126	462
4	TraesCS4A01G261300	chr4A	96.047	253	9	1	616	868	608840830	608841081	8.270000e-111	411
5	TraesCS4A01G261300	chr3A	97.049	2609	48	9	611	3202	714630150	714632746	0.000000e+00	4364
6	TraesCS4A01G261300	chr3A	91.343	335	9	7	611	942	714638903	714638586	1.050000e-119	440
7	TraesCS4A01G261300	chr4D	96.446	2617	64	11	611	3202	477884446	477881834	0.000000e+00	4290
8	TraesCS4A01G261300	chr4D	95.784	2633	67	15	611	3202	433387019	433384390	0.000000e+00	4207
9	TraesCS4A01G261300	chr4D	97.767	627	11	3	1	627	29405907	29405284	0.000000e+00	1077
10	TraesCS4A01G261300	chr4D	92.295	623	28	8	1	610	5679854	5680469	0.000000e+00	867
11	TraesCS4A01G261300	chr4D	89.676	339	13	6	609	942	433378509	433378830	2.300000e-111	412
12	TraesCS4A01G261300	chr4D	89.851	335	14	5	611	942	477875823	477876140	2.300000e-111	412
13	TraesCS4A01G261300	chr5D	96.237	2551	66	12	678	3202	375442802	375445348	0.000000e+00	4152
14	TraesCS4A01G261300	chr5D	93.336	2611	115	23	612	3202	449913470	449916041	0.000000e+00	3803
15	TraesCS4A01G261300	chr5D	90.828	338	20	4	611	938	526623019	526622683	2.930000e-120	442
16	TraesCS4A01G261300	chr5D	89.851	335	14	7	611	942	375448969	375448652	2.300000e-111	412
17	TraesCS4A01G261300	chr5D	91.791	268	12	3	756	1013	375442805	375442538	6.530000e-97	364
18	TraesCS4A01G261300	chr5A	92.627	2604	128	28	611	3192	396679715	396677154	0.000000e+00	3687
19	TraesCS4A01G261300	chr3D	91.447	2619	145	43	611	3202	149758703	149761269	0.000000e+00	3522
20	TraesCS4A01G261300	chr2B	94.688	1600	69	6	1500	3099	685368725	685367142	0.000000e+00	2470
21	TraesCS4A01G261300	chr2B	91.214	774	44	9	611	1360	685372760	685371987	0.000000e+00	1031
22	TraesCS4A01G261300	chr4B	92.999	1514	82	14	810	2302	14640307	14638797	0.000000e+00	2187
23	TraesCS4A01G261300	chr4B	95.824	910	35	2	2294	3202	14630829	14629922	0.000000e+00	1467
24	TraesCS4A01G261300	chr4B	97.596	208	5	0	14	221	41836830	41836623	1.090000e-94	357
25	TraesCS4A01G261300	chr6B	83.551	383	21	25	1	375	625891248	625891596	1.430000e-83	320

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	TraesCS4A01G261300	chr4A	573669487	573672688	3201	False	5914.0	5914	100.000	1	3202	1	chr4A.!!$F1	3201
1	TraesCS4A01G261300	chr4A	608863752	608866351	2599	True	4429.0	4429	97.465	611	3202	1	chr4A.!!$R3	2591
2	TraesCS4A01G261300	chr4A	597840827	597841428	601	True	804.0	804	90.836	1	610	1	chr4A.!!$R2	609
3	TraesCS4A01G261300	chr3A	714630150	714632746	2596	False	4364.0	4364	97.049	611	3202	1	chr3A.!!$F1	2591
4	TraesCS4A01G261300	chr4D	477881834	477884446	2612	True	4290.0	4290	96.446	611	3202	1	chr4D.!!$R3	2591
5	TraesCS4A01G261300	chr4D	433384390	433387019	2629	True	4207.0	4207	95.784	611	3202	1	chr4D.!!$R2	2591
6	TraesCS4A01G261300	chr4D	29405284	29405907	623	True	1077.0	1077	97.767	1	627	1	chr4D.!!$R1	626
7	TraesCS4A01G261300	chr4D	5679854	5680469	615	False	867.0	867	92.295	1	610	1	chr4D.!!$F1	609
8	TraesCS4A01G261300	chr5D	375442802	375445348	2546	False	4152.0	4152	96.237	678	3202	1	chr5D.!!$F1	2524
9	TraesCS4A01G261300	chr5D	449913470	449916041	2571	False	3803.0	3803	93.336	612	3202	1	chr5D.!!$F2	2590
10	TraesCS4A01G261300	chr5A	396677154	396679715	2561	True	3687.0	3687	92.627	611	3192	1	chr5A.!!$R1	2581
11	TraesCS4A01G261300	chr3D	149758703	149761269	2566	False	3522.0	3522	91.447	611	3202	1	chr3D.!!$F1	2591
12	TraesCS4A01G261300	chr2B	685367142	685372760	5618	True	1750.5	2470	92.951	611	3099	2	chr2B.!!$R1	2488
13	TraesCS4A01G261300	chr4B	14638797	14640307	1510	True	2187.0	2187	92.999	810	2302	1	chr4B.!!$R2	1492
14	TraesCS4A01G261300	chr4B	14629922	14630829	907	True	1467.0	1467	95.824	2294	3202	1	chr4B.!!$R1	908

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
577	591	0.392998	ACCGCTAGTTGGCATGAAGG	60.393	55.0	0.0	0.0	0.0	3.46	F
580	594	0.394899	GCTAGTTGGCATGAAGGGCT	60.395	55.0	0.0	0.0	0.0	5.19	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2137	5383	1.586154	GCACCCATGACCAACCTTCG	61.586	60.000	0.0	0.0	0.0	3.79	R
2658	5935	7.709947	TCAGTATCGTCGGTTATGTTTATCTT	58.290	34.615	0.0	0.0	0.0	2.40	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
372	379	9.070179	GGGTTAAAGTTGTGGAGTTTTAAGATA	57.930	33.333	0.00	0.00	33.11	1.98
504	518	6.327386	ACTTAATGGATGGTGATAAGTGGT	57.673	37.500	0.00	0.00	35.94	4.16
505	519	7.446106	ACTTAATGGATGGTGATAAGTGGTA	57.554	36.000	0.00	0.00	35.94	3.25
506	520	8.045720	ACTTAATGGATGGTGATAAGTGGTAT	57.954	34.615	0.00	0.00	35.94	2.73
507	521	8.502738	ACTTAATGGATGGTGATAAGTGGTATT	58.497	33.333	0.00	0.00	35.94	1.89
511	525	7.872061	TGGATGGTGATAAGTGGTATTATCT	57.128	36.000	7.70	0.00	41.03	1.98
512	526	7.679783	TGGATGGTGATAAGTGGTATTATCTG	58.320	38.462	7.70	0.00	41.03	2.90
513	527	6.595716	GGATGGTGATAAGTGGTATTATCTGC	59.404	42.308	7.70	2.31	41.03	4.26
514	528	5.865085	TGGTGATAAGTGGTATTATCTGCC	58.135	41.667	7.70	9.42	41.03	4.85
515	529	5.606749	TGGTGATAAGTGGTATTATCTGCCT	59.393	40.000	15.03	0.00	41.03	4.75
516	530	6.785466	TGGTGATAAGTGGTATTATCTGCCTA	59.215	38.462	15.03	5.98	41.03	3.93
517	531	7.291416	TGGTGATAAGTGGTATTATCTGCCTAA	59.709	37.037	15.03	0.00	41.03	2.69
518	532	8.322091	GGTGATAAGTGGTATTATCTGCCTAAT	58.678	37.037	7.70	0.00	41.03	1.73
519	533	9.372369	GTGATAAGTGGTATTATCTGCCTAATC	57.628	37.037	7.70	0.00	41.03	1.75
520	534	9.100197	TGATAAGTGGTATTATCTGCCTAATCA	57.900	33.333	7.70	0.00	41.03	2.57
523	537	6.951971	AGTGGTATTATCTGCCTAATCATCC	58.048	40.000	0.00	0.00	0.00	3.51
524	538	6.501805	AGTGGTATTATCTGCCTAATCATCCA	59.498	38.462	0.00	0.00	0.00	3.41
525	539	7.017551	AGTGGTATTATCTGCCTAATCATCCAA	59.982	37.037	0.00	0.00	0.00	3.53
526	540	7.119846	GTGGTATTATCTGCCTAATCATCCAAC	59.880	40.741	0.00	0.00	0.00	3.77
527	541	7.017551	TGGTATTATCTGCCTAATCATCCAACT	59.982	37.037	0.00	0.00	0.00	3.16
528	542	8.540388	GGTATTATCTGCCTAATCATCCAACTA	58.460	37.037	0.00	0.00	0.00	2.24
529	543	9.372369	GTATTATCTGCCTAATCATCCAACTAC	57.628	37.037	0.00	0.00	0.00	2.73
530	544	7.618019	TTATCTGCCTAATCATCCAACTACT	57.382	36.000	0.00	0.00	0.00	2.57
531	545	5.282055	TCTGCCTAATCATCCAACTACTG	57.718	43.478	0.00	0.00	0.00	2.74
533	547	3.780294	TGCCTAATCATCCAACTACTGGT	59.220	43.478	0.00	0.00	46.51	4.00
534	548	4.227300	TGCCTAATCATCCAACTACTGGTT	59.773	41.667	0.00	0.00	46.51	3.67
547	561	5.945144	ACTACTGGTTGGTTAATATCGGT	57.055	39.130	0.00	0.00	0.00	4.69
548	562	6.303903	ACTACTGGTTGGTTAATATCGGTT	57.696	37.500	0.00	0.00	0.00	4.44
549	563	6.714278	ACTACTGGTTGGTTAATATCGGTTT	58.286	36.000	0.00	0.00	0.00	3.27
550	564	5.890424	ACTGGTTGGTTAATATCGGTTTG	57.110	39.130	0.00	0.00	0.00	2.93
551	565	5.562635	ACTGGTTGGTTAATATCGGTTTGA	58.437	37.500	0.00	0.00	0.00	2.69
552	566	6.005198	ACTGGTTGGTTAATATCGGTTTGAA	58.995	36.000	0.00	0.00	0.00	2.69
553	567	6.150474	ACTGGTTGGTTAATATCGGTTTGAAG	59.850	38.462	0.00	0.00	0.00	3.02
554	568	6.005198	TGGTTGGTTAATATCGGTTTGAAGT	58.995	36.000	0.00	0.00	0.00	3.01
555	569	7.166851	TGGTTGGTTAATATCGGTTTGAAGTA	58.833	34.615	0.00	0.00	0.00	2.24
556	570	7.334921	TGGTTGGTTAATATCGGTTTGAAGTAG	59.665	37.037	0.00	0.00	0.00	2.57
557	571	7.335171	GGTTGGTTAATATCGGTTTGAAGTAGT	59.665	37.037	0.00	0.00	0.00	2.73
558	572	9.369904	GTTGGTTAATATCGGTTTGAAGTAGTA	57.630	33.333	0.00	0.00	0.00	1.82
559	573	8.931385	TGGTTAATATCGGTTTGAAGTAGTAC	57.069	34.615	0.00	0.00	0.00	2.73
560	574	7.981225	TGGTTAATATCGGTTTGAAGTAGTACC	59.019	37.037	0.00	0.00	0.00	3.34
563	577	2.358939	CGGTTTGAAGTAGTACCGCT	57.641	50.000	0.00	0.00	45.75	5.52
564	578	3.492421	CGGTTTGAAGTAGTACCGCTA	57.508	47.619	0.00	0.00	45.75	4.26
565	579	3.432782	CGGTTTGAAGTAGTACCGCTAG	58.567	50.000	0.00	0.00	45.75	3.42
566	580	3.119708	CGGTTTGAAGTAGTACCGCTAGT	60.120	47.826	0.00	0.00	45.75	2.57
567	581	4.616835	CGGTTTGAAGTAGTACCGCTAGTT	60.617	45.833	0.00	0.00	45.75	2.24
568	582	4.624452	GGTTTGAAGTAGTACCGCTAGTTG	59.376	45.833	0.00	0.00	41.90	3.16
569	583	4.445452	TTGAAGTAGTACCGCTAGTTGG	57.555	45.455	0.00	2.01	41.90	3.77
570	584	2.165030	TGAAGTAGTACCGCTAGTTGGC	59.835	50.000	0.00	0.00	41.90	4.52
571	585	1.843368	AGTAGTACCGCTAGTTGGCA	58.157	50.000	0.00	0.00	29.31	4.92
572	586	2.385803	AGTAGTACCGCTAGTTGGCAT	58.614	47.619	0.00	0.00	29.31	4.40
573	587	2.100916	AGTAGTACCGCTAGTTGGCATG	59.899	50.000	0.00	0.00	29.31	4.06
574	588	1.191535	AGTACCGCTAGTTGGCATGA	58.808	50.000	0.00	0.00	0.00	3.07
575	589	1.553248	AGTACCGCTAGTTGGCATGAA	59.447	47.619	0.00	0.00	0.00	2.57
576	590	1.933853	GTACCGCTAGTTGGCATGAAG	59.066	52.381	0.00	0.00	0.00	3.02
577	591	0.392998	ACCGCTAGTTGGCATGAAGG	60.393	55.000	0.00	0.00	0.00	3.46
578	592	1.097547	CCGCTAGTTGGCATGAAGGG	61.098	60.000	0.00	0.00	0.00	3.95
579	593	1.718757	CGCTAGTTGGCATGAAGGGC	61.719	60.000	0.00	0.00	0.00	5.19
580	594	0.394899	GCTAGTTGGCATGAAGGGCT	60.395	55.000	0.00	0.00	0.00	5.19
581	595	1.134098	GCTAGTTGGCATGAAGGGCTA	60.134	52.381	0.00	0.00	0.00	3.93
582	596	2.487986	GCTAGTTGGCATGAAGGGCTAT	60.488	50.000	0.00	0.00	0.00	2.97
583	597	2.062971	AGTTGGCATGAAGGGCTATG	57.937	50.000	0.00	0.00	0.00	2.23
584	598	1.285962	AGTTGGCATGAAGGGCTATGT	59.714	47.619	0.00	0.00	0.00	2.29
585	599	2.509548	AGTTGGCATGAAGGGCTATGTA	59.490	45.455	0.00	0.00	0.00	2.29
586	600	3.053693	AGTTGGCATGAAGGGCTATGTAA	60.054	43.478	0.00	0.00	0.00	2.41
587	601	3.660970	TGGCATGAAGGGCTATGTAAA	57.339	42.857	0.00	0.00	0.00	2.01
588	602	3.974719	TGGCATGAAGGGCTATGTAAAA	58.025	40.909	0.00	0.00	0.00	1.52
589	603	3.699038	TGGCATGAAGGGCTATGTAAAAC	59.301	43.478	0.00	0.00	0.00	2.43
590	604	3.954258	GGCATGAAGGGCTATGTAAAACT	59.046	43.478	0.00	0.00	0.00	2.66
591	605	4.402474	GGCATGAAGGGCTATGTAAAACTT	59.598	41.667	0.00	0.00	0.00	2.66
592	606	5.105351	GGCATGAAGGGCTATGTAAAACTTT	60.105	40.000	0.00	0.00	0.00	2.66
593	607	6.398095	GCATGAAGGGCTATGTAAAACTTTT	58.602	36.000	0.00	0.00	0.00	2.27
594	608	6.311200	GCATGAAGGGCTATGTAAAACTTTTG	59.689	38.462	0.00	0.00	0.00	2.44
595	609	5.778862	TGAAGGGCTATGTAAAACTTTTGC	58.221	37.500	0.00	0.00	0.00	3.68
596	610	4.801330	AGGGCTATGTAAAACTTTTGCC	57.199	40.909	4.62	4.62	38.49	4.52
598	612	4.529109	GGCTATGTAAAACTTTTGCCCA	57.471	40.909	0.00	0.00	33.66	5.36
599	613	4.242475	GGCTATGTAAAACTTTTGCCCAC	58.758	43.478	0.00	0.00	33.66	4.61
600	614	3.917985	GCTATGTAAAACTTTTGCCCACG	59.082	43.478	0.00	0.00	0.00	4.94
601	615	2.211353	TGTAAAACTTTTGCCCACGC	57.789	45.000	0.00	0.00	0.00	5.34
602	616	1.476891	TGTAAAACTTTTGCCCACGCA	59.523	42.857	0.00	0.00	45.49	5.24
1075	1132	3.881089	CAGCATGCAGATGGAGTATTTCA	59.119	43.478	21.98	0.00	0.00	2.69
1109	1167	3.529734	ACTGTATCCTCTCCTCTCCTTCA	59.470	47.826	0.00	0.00	0.00	3.02
1325	1386	3.795877	CAAGTTTGTGGCATTTGAAGGT	58.204	40.909	0.00	0.00	0.00	3.50
1629	4874	3.738982	TGTTATCTGTGGTGTTCACTGG	58.261	45.455	2.98	0.00	46.20	4.00
2137	5383	1.674962	GAATGTCATTGCTGAGCTCCC	59.325	52.381	12.15	2.65	30.18	4.30
2658	5935	5.639757	GCACATACATGCACATCAAGTTTA	58.360	37.500	0.00	0.00	45.39	2.01
3064	6345	4.655921	AGGACTCTGCCTCTCTCG	57.344	61.111	0.00	0.00	30.76	4.04

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
215	216	2.047560	GAGTTTGGGGACGACGGG	60.048	66.667	0.00	0.00	0.00	5.28
372	379	3.589988	GTCTGTGATGATGGTTTCGTCT	58.410	45.455	0.00	0.00	40.48	4.18
453	467	2.442212	TCATAAAGTTGACGCCGTGA	57.558	45.000	0.00	0.00	0.00	4.35
479	493	8.045720	ACCACTTATCACCATCCATTAAGTAT	57.954	34.615	0.00	0.00	32.78	2.12
480	494	7.446106	ACCACTTATCACCATCCATTAAGTA	57.554	36.000	0.00	0.00	32.78	2.24
481	495	6.327386	ACCACTTATCACCATCCATTAAGT	57.673	37.500	0.00	0.00	34.35	2.24
482	496	8.924511	AATACCACTTATCACCATCCATTAAG	57.075	34.615	0.00	0.00	0.00	1.85
485	499	8.894592	AGATAATACCACTTATCACCATCCATT	58.105	33.333	6.60	0.00	39.53	3.16
486	500	8.324306	CAGATAATACCACTTATCACCATCCAT	58.676	37.037	6.60	0.00	39.53	3.41
487	501	7.679783	CAGATAATACCACTTATCACCATCCA	58.320	38.462	6.60	0.00	39.53	3.41
488	502	6.595716	GCAGATAATACCACTTATCACCATCC	59.404	42.308	6.60	0.00	39.53	3.51
489	503	6.595716	GGCAGATAATACCACTTATCACCATC	59.404	42.308	6.60	0.00	39.53	3.51
490	504	6.273260	AGGCAGATAATACCACTTATCACCAT	59.727	38.462	13.68	0.20	39.53	3.55
491	505	5.606749	AGGCAGATAATACCACTTATCACCA	59.393	40.000	13.68	0.00	39.53	4.17
492	506	6.115448	AGGCAGATAATACCACTTATCACC	57.885	41.667	6.60	7.02	39.53	4.02
493	507	9.372369	GATTAGGCAGATAATACCACTTATCAC	57.628	37.037	6.60	0.00	39.53	3.06
494	508	9.100197	TGATTAGGCAGATAATACCACTTATCA	57.900	33.333	6.60	0.00	39.53	2.15
497	511	8.540388	GGATGATTAGGCAGATAATACCACTTA	58.460	37.037	0.00	0.00	0.00	2.24
498	512	7.017551	TGGATGATTAGGCAGATAATACCACTT	59.982	37.037	0.00	0.00	0.00	3.16
499	513	6.501805	TGGATGATTAGGCAGATAATACCACT	59.498	38.462	0.00	0.00	0.00	4.00
500	514	6.711277	TGGATGATTAGGCAGATAATACCAC	58.289	40.000	0.00	0.00	0.00	4.16
501	515	6.950860	TGGATGATTAGGCAGATAATACCA	57.049	37.500	0.00	0.00	0.00	3.25
502	516	7.398024	AGTTGGATGATTAGGCAGATAATACC	58.602	38.462	0.00	0.00	0.00	2.73
503	517	9.372369	GTAGTTGGATGATTAGGCAGATAATAC	57.628	37.037	0.00	0.00	0.00	1.89
504	518	9.326489	AGTAGTTGGATGATTAGGCAGATAATA	57.674	33.333	0.00	0.00	0.00	0.98
505	519	8.099537	CAGTAGTTGGATGATTAGGCAGATAAT	58.900	37.037	0.00	0.00	0.00	1.28
506	520	7.445121	CAGTAGTTGGATGATTAGGCAGATAA	58.555	38.462	0.00	0.00	0.00	1.75
507	521	6.997655	CAGTAGTTGGATGATTAGGCAGATA	58.002	40.000	0.00	0.00	0.00	1.98
508	522	5.862845	CAGTAGTTGGATGATTAGGCAGAT	58.137	41.667	0.00	0.00	0.00	2.90
509	523	5.282055	CAGTAGTTGGATGATTAGGCAGA	57.718	43.478	0.00	0.00	0.00	4.26
524	538	6.303903	ACCGATATTAACCAACCAGTAGTT	57.696	37.500	0.00	0.00	40.16	2.24
525	539	5.945144	ACCGATATTAACCAACCAGTAGT	57.055	39.130	0.00	0.00	0.00	2.73
526	540	6.819649	TCAAACCGATATTAACCAACCAGTAG	59.180	38.462	0.00	0.00	0.00	2.57
527	541	6.709281	TCAAACCGATATTAACCAACCAGTA	58.291	36.000	0.00	0.00	0.00	2.74
528	542	5.562635	TCAAACCGATATTAACCAACCAGT	58.437	37.500	0.00	0.00	0.00	4.00
529	543	6.150474	ACTTCAAACCGATATTAACCAACCAG	59.850	38.462	0.00	0.00	0.00	4.00
530	544	6.005198	ACTTCAAACCGATATTAACCAACCA	58.995	36.000	0.00	0.00	0.00	3.67
531	545	6.505044	ACTTCAAACCGATATTAACCAACC	57.495	37.500	0.00	0.00	0.00	3.77
532	546	8.260270	ACTACTTCAAACCGATATTAACCAAC	57.740	34.615	0.00	0.00	0.00	3.77
533	547	9.369904	GTACTACTTCAAACCGATATTAACCAA	57.630	33.333	0.00	0.00	0.00	3.67
534	548	7.981225	GGTACTACTTCAAACCGATATTAACCA	59.019	37.037	0.00	0.00	0.00	3.67
535	549	8.357796	GGTACTACTTCAAACCGATATTAACC	57.642	38.462	0.00	0.00	0.00	2.85
545	559	4.446994	ACTAGCGGTACTACTTCAAACC	57.553	45.455	0.00	0.00	0.00	3.27
546	560	4.624452	CCAACTAGCGGTACTACTTCAAAC	59.376	45.833	0.00	0.00	0.00	2.93
547	561	4.813027	CCAACTAGCGGTACTACTTCAAA	58.187	43.478	0.00	0.00	0.00	2.69
548	562	3.367703	GCCAACTAGCGGTACTACTTCAA	60.368	47.826	0.00	0.00	0.00	2.69
549	563	2.165030	GCCAACTAGCGGTACTACTTCA	59.835	50.000	0.00	0.00	0.00	3.02
550	564	2.165030	TGCCAACTAGCGGTACTACTTC	59.835	50.000	0.00	0.00	34.65	3.01
551	565	2.173519	TGCCAACTAGCGGTACTACTT	58.826	47.619	0.00	0.00	34.65	2.24
552	566	1.843368	TGCCAACTAGCGGTACTACT	58.157	50.000	0.00	0.00	34.65	2.57
553	567	2.100252	TCATGCCAACTAGCGGTACTAC	59.900	50.000	0.00	0.00	34.65	2.73
554	568	2.380941	TCATGCCAACTAGCGGTACTA	58.619	47.619	0.00	0.00	34.65	1.82
555	569	1.191535	TCATGCCAACTAGCGGTACT	58.808	50.000	0.00	0.00	34.65	2.73
556	570	1.933853	CTTCATGCCAACTAGCGGTAC	59.066	52.381	0.00	0.00	34.65	3.34
557	571	1.134521	CCTTCATGCCAACTAGCGGTA	60.135	52.381	0.00	0.00	34.65	4.02
558	572	0.392998	CCTTCATGCCAACTAGCGGT	60.393	55.000	0.00	0.00	34.65	5.68
559	573	1.097547	CCCTTCATGCCAACTAGCGG	61.098	60.000	0.00	0.00	34.65	5.52
560	574	1.718757	GCCCTTCATGCCAACTAGCG	61.719	60.000	0.00	0.00	34.65	4.26
561	575	0.394899	AGCCCTTCATGCCAACTAGC	60.395	55.000	0.00	0.00	0.00	3.42
562	576	3.144506	CATAGCCCTTCATGCCAACTAG	58.855	50.000	0.00	0.00	0.00	2.57
563	577	2.509548	ACATAGCCCTTCATGCCAACTA	59.490	45.455	0.00	0.00	0.00	2.24
564	578	1.285962	ACATAGCCCTTCATGCCAACT	59.714	47.619	0.00	0.00	0.00	3.16
565	579	1.767759	ACATAGCCCTTCATGCCAAC	58.232	50.000	0.00	0.00	0.00	3.77
566	580	3.660970	TTACATAGCCCTTCATGCCAA	57.339	42.857	0.00	0.00	0.00	4.52
567	581	3.660970	TTTACATAGCCCTTCATGCCA	57.339	42.857	0.00	0.00	0.00	4.92
568	582	3.954258	AGTTTTACATAGCCCTTCATGCC	59.046	43.478	0.00	0.00	0.00	4.40
569	583	5.582689	AAGTTTTACATAGCCCTTCATGC	57.417	39.130	0.00	0.00	0.00	4.06
570	584	6.311200	GCAAAAGTTTTACATAGCCCTTCATG	59.689	38.462	0.00	0.00	0.00	3.07
571	585	6.398095	GCAAAAGTTTTACATAGCCCTTCAT	58.602	36.000	0.00	0.00	0.00	2.57
572	586	5.279256	GGCAAAAGTTTTACATAGCCCTTCA	60.279	40.000	13.21	0.00	34.94	3.02
573	587	5.168569	GGCAAAAGTTTTACATAGCCCTTC	58.831	41.667	13.21	0.00	34.94	3.46
574	588	5.147330	GGCAAAAGTTTTACATAGCCCTT	57.853	39.130	13.21	0.00	34.94	3.95
575	589	4.801330	GGCAAAAGTTTTACATAGCCCT	57.199	40.909	13.21	0.00	34.94	5.19
577	591	4.242475	GTGGGCAAAAGTTTTACATAGCC	58.758	43.478	15.06	15.06	40.08	3.93
578	592	3.917985	CGTGGGCAAAAGTTTTACATAGC	59.082	43.478	0.00	0.00	0.00	2.97
579	593	3.917985	GCGTGGGCAAAAGTTTTACATAG	59.082	43.478	0.00	2.04	39.62	2.23
580	594	3.903360	GCGTGGGCAAAAGTTTTACATA	58.097	40.909	0.00	0.00	39.62	2.29
581	595	2.749776	GCGTGGGCAAAAGTTTTACAT	58.250	42.857	0.00	0.00	39.62	2.29
582	596	2.211353	GCGTGGGCAAAAGTTTTACA	57.789	45.000	0.00	0.00	39.62	2.41
594	608	0.598065	ACTCAGATTTTTGCGTGGGC	59.402	50.000	0.00	0.00	40.52	5.36
595	609	1.608590	ACACTCAGATTTTTGCGTGGG	59.391	47.619	1.87	0.00	37.93	4.61
596	610	3.354089	AACACTCAGATTTTTGCGTGG	57.646	42.857	1.87	0.00	37.93	4.94
597	611	4.204978	GTCAAACACTCAGATTTTTGCGTG	59.795	41.667	0.00	0.00	39.16	5.34
598	612	4.142491	TGTCAAACACTCAGATTTTTGCGT	60.142	37.500	0.00	0.00	0.00	5.24
599	613	4.350346	TGTCAAACACTCAGATTTTTGCG	58.650	39.130	0.00	0.00	0.00	4.85
600	614	6.645700	TTTGTCAAACACTCAGATTTTTGC	57.354	33.333	0.00	0.00	0.00	3.68
632	647	0.035439	GGGACGGAAGCCTCAATTCA	60.035	55.000	0.00	0.00	0.00	2.57
706	723	6.036300	CGTCAACTTGGTAGTTTTTAGTCACA	59.964	38.462	0.00	0.00	41.85	3.58
1038	1083	0.318120	TGCTGCTGAACTCGTCATCA	59.682	50.000	0.00	0.00	35.07	3.07
1075	1132	6.492087	GGAGAGGATACAGTTAGCTGACTTAT	59.508	42.308	14.09	10.05	45.28	1.73
1109	1167	4.720273	CCTAACCCTAACCCTAGAACACAT	59.280	45.833	0.00	0.00	0.00	3.21
1325	1386	2.238084	ATCTCCTGCCAGTGTCAGTA	57.762	50.000	0.00	0.00	0.00	2.74
2137	5383	1.586154	GCACCCATGACCAACCTTCG	61.586	60.000	0.00	0.00	0.00	3.79
2658	5935	7.709947	TCAGTATCGTCGGTTATGTTTATCTT	58.290	34.615	0.00	0.00	0.00	2.40
2672	5949	3.978855	TGTTCACAAGTTCAGTATCGTCG	59.021	43.478	0.00	0.00	0.00	5.12
3064	6345	2.426024	TCGACACTCTACTATGGGCAAC	59.574	50.000	0.00	0.00	0.00	4.17

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.