AutoCloner

Multiple sequence alignment - TraesCS1B01G139000

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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	TraesCS1B01G139000	chr1B	100.000	3239	0	0	1	3239	181219367	181216129	0.000000e+00	5982
1	TraesCS1B01G139000	chr1B	91.304	92	5	2	416	507	613737546	613737458	4.390000e-24	122
2	TraesCS1B01G139000	chr1D	95.426	2689	68	20	578	3239	119011318	119008658	0.000000e+00	4233
3	TraesCS1B01G139000	chr1D	90.000	90	4	4	416	505	30366084	30366000	9.500000e-21	111
4	TraesCS1B01G139000	chr1A	96.173	2247	50	14	636	2865	131522053	131519826	0.000000e+00	3640
5	TraesCS1B01G139000	chr1A	94.161	274	11	2	2864	3135	131519570	131519300	2.330000e-111	412
6	TraesCS1B01G139000	chr1A	99.057	106	1	0	3134	3239	131519062	131518957	1.190000e-44	191
7	TraesCS1B01G139000	chr1A	78.539	219	27	9	328	533	565273150	565273361	3.390000e-25	126
8	TraesCS1B01G139000	chr3D	83.162	1069	156	20	1086	2141	75355756	75356813	0.000000e+00	955
9	TraesCS1B01G139000	chr3D	77.802	910	175	23	1101	1996	291765462	291766358	1.320000e-148	536
10	TraesCS1B01G139000	chr5B	97.944	535	9	1	1	535	94287803	94288335	0.000000e+00	926
11	TraesCS1B01G139000	chr3A	82.876	1057	156	20	1105	2146	88854729	88855775	0.000000e+00	926
12	TraesCS1B01G139000	chr3A	77.112	935	191	18	1138	2062	384319978	384320899	1.330000e-143	520
13	TraesCS1B01G139000	chr3B	97.948	536	6	3	1	535	660314932	660315463	0.000000e+00	924
14	TraesCS1B01G139000	chr3B	82.519	1064	172	13	1086	2141	121575918	121576975	0.000000e+00	922
15	TraesCS1B01G139000	chr3B	98.793	497	4	1	11	507	46485516	46486010	0.000000e+00	883
16	TraesCS1B01G139000	chr3B	77.238	927	184	21	1148	2062	384909917	384910828	4.790000e-143	518
17	TraesCS1B01G139000	chr3B	85.000	120	8	4	416	535	459780159	459780050	2.640000e-21	113
18	TraesCS1B01G139000	chr6D	78.991	971	167	33	1132	2085	60168256	60167306	2.120000e-176	628
19	TraesCS1B01G139000	chr5A	76.558	337	66	12	1149	1478	619098999	619098669	4.300000e-39	172
20	TraesCS1B01G139000	chr2B	86.441	118	6	4	418	535	599993436	599993543	1.580000e-23	121
21	TraesCS1B01G139000	chr7A	85.000	120	8	6	416	535	658988191	658988082	2.640000e-21	113
22	TraesCS1B01G139000	chr7A	79.532	171	18	10	71	225	247202153	247201984	4.420000e-19	106

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	TraesCS1B01G139000	chr1B	181216129	181219367	3238	True	5982.000000	5982	100.000000	1	3239	1	chr1B.!!$R1	3238
1	TraesCS1B01G139000	chr1D	119008658	119011318	2660	True	4233.000000	4233	95.426000	578	3239	1	chr1D.!!$R2	2661
2	TraesCS1B01G139000	chr1A	131518957	131522053	3096	True	1414.333333	3640	96.463667	636	3239	3	chr1A.!!$R1	2603
3	TraesCS1B01G139000	chr3D	75355756	75356813	1057	False	955.000000	955	83.162000	1086	2141	1	chr3D.!!$F1	1055
4	TraesCS1B01G139000	chr3D	291765462	291766358	896	False	536.000000	536	77.802000	1101	1996	1	chr3D.!!$F2	895
5	TraesCS1B01G139000	chr5B	94287803	94288335	532	False	926.000000	926	97.944000	1	535	1	chr5B.!!$F1	534
6	TraesCS1B01G139000	chr3A	88854729	88855775	1046	False	926.000000	926	82.876000	1105	2146	1	chr3A.!!$F1	1041
7	TraesCS1B01G139000	chr3A	384319978	384320899	921	False	520.000000	520	77.112000	1138	2062	1	chr3A.!!$F2	924
8	TraesCS1B01G139000	chr3B	660314932	660315463	531	False	924.000000	924	97.948000	1	535	1	chr3B.!!$F4	534
9	TraesCS1B01G139000	chr3B	121575918	121576975	1057	False	922.000000	922	82.519000	1086	2141	1	chr3B.!!$F2	1055
10	TraesCS1B01G139000	chr3B	384909917	384910828	911	False	518.000000	518	77.238000	1148	2062	1	chr3B.!!$F3	914
11	TraesCS1B01G139000	chr6D	60167306	60168256	950	True	628.000000	628	78.991000	1132	2085	1	chr6D.!!$R1	953

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
636	638	0.179	CTGGCCATGTCCAGTACTCC	59.821	60.0	14.81	0.0	46.59	3.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2538	2564	2.766345	TCAATCCAAGCCCAATTTGC	57.234	45.0	0.0	0.0	0.0	3.68	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
284	285	5.475719	CAAGTTCGAGATACAACAGGGTAA	58.524	41.667	0.00	0.00	0.00	2.85
552	553	9.607333	AGATATAGACTTGGATTATGGACTCAA	57.393	33.333	0.00	0.00	0.00	3.02
557	558	7.861629	AGACTTGGATTATGGACTCAATTACA	58.138	34.615	0.00	0.00	0.00	2.41
558	559	8.497745	AGACTTGGATTATGGACTCAATTACAT	58.502	33.333	0.00	0.00	0.00	2.29
559	560	9.125026	GACTTGGATTATGGACTCAATTACATT	57.875	33.333	0.00	0.00	0.00	2.71
560	561	9.125026	ACTTGGATTATGGACTCAATTACATTC	57.875	33.333	0.00	0.00	0.00	2.67
561	562	8.463930	TTGGATTATGGACTCAATTACATTCC	57.536	34.615	0.00	0.00	0.00	3.01
562	563	7.815383	TGGATTATGGACTCAATTACATTCCT	58.185	34.615	0.00	0.00	0.00	3.36
563	564	7.720957	TGGATTATGGACTCAATTACATTCCTG	59.279	37.037	0.00	0.00	0.00	3.86
564	565	7.721399	GGATTATGGACTCAATTACATTCCTGT	59.279	37.037	0.00	0.00	39.49	4.00
565	566	9.125026	GATTATGGACTCAATTACATTCCTGTT	57.875	33.333	0.00	0.00	36.79	3.16
566	567	8.877864	TTATGGACTCAATTACATTCCTGTTT	57.122	30.769	0.00	0.00	36.79	2.83
567	568	7.781324	ATGGACTCAATTACATTCCTGTTTT	57.219	32.000	0.00	0.00	36.79	2.43
568	569	6.980593	TGGACTCAATTACATTCCTGTTTTG	58.019	36.000	0.00	0.00	36.79	2.44
569	570	6.549364	TGGACTCAATTACATTCCTGTTTTGT	59.451	34.615	0.00	0.00	36.79	2.83
570	571	6.863126	GGACTCAATTACATTCCTGTTTTGTG	59.137	38.462	0.00	0.00	36.79	3.33
571	572	6.748132	ACTCAATTACATTCCTGTTTTGTGG	58.252	36.000	0.00	0.00	36.79	4.17
572	573	6.549364	ACTCAATTACATTCCTGTTTTGTGGA	59.451	34.615	0.00	0.00	36.79	4.02
573	574	7.233348	ACTCAATTACATTCCTGTTTTGTGGAT	59.767	33.333	0.00	0.00	36.79	3.41
574	575	7.961351	TCAATTACATTCCTGTTTTGTGGATT	58.039	30.769	0.00	0.00	36.79	3.01
575	576	7.871973	TCAATTACATTCCTGTTTTGTGGATTG	59.128	33.333	0.00	0.00	38.76	2.67
576	577	4.605640	ACATTCCTGTTTTGTGGATTGG	57.394	40.909	0.00	0.00	37.77	3.16
580	581	3.761897	TCCTGTTTTGTGGATTGGGTAG	58.238	45.455	0.00	0.00	0.00	3.18
585	586	5.310451	TGTTTTGTGGATTGGGTAGTACTC	58.690	41.667	0.00	0.00	0.00	2.59
608	609	0.740737	GCTTTGGATTATGCACGCCT	59.259	50.000	0.00	0.00	0.00	5.52
610	611	2.292267	CTTTGGATTATGCACGCCTCT	58.708	47.619	0.00	0.00	0.00	3.69
635	637	3.768633	CTGGCCATGTCCAGTACTC	57.231	57.895	14.81	0.00	46.59	2.59
636	638	0.179000	CTGGCCATGTCCAGTACTCC	59.821	60.000	14.81	0.00	46.59	3.85
637	639	0.546507	TGGCCATGTCCAGTACTCCA	60.547	55.000	0.00	0.00	0.00	3.86
638	640	0.179000	GGCCATGTCCAGTACTCCAG	59.821	60.000	0.00	0.00	0.00	3.86
639	641	0.905357	GCCATGTCCAGTACTCCAGT	59.095	55.000	0.00	0.00	0.00	4.00
640	642	2.108168	GCCATGTCCAGTACTCCAGTA	58.892	52.381	0.00	0.00	0.00	2.74
667	669	0.981183	TAATCCACTGAACCCACGCT	59.019	50.000	0.00	0.00	0.00	5.07
692	694	4.022935	TCACCGCCATAATTACCGTAGTAG	60.023	45.833	0.00	0.00	0.00	2.57
694	696	5.048782	CACCGCCATAATTACCGTAGTAGTA	60.049	44.000	0.00	0.00	0.00	1.82
695	697	5.048713	ACCGCCATAATTACCGTAGTAGTAC	60.049	44.000	0.00	0.00	0.00	2.73
696	698	5.182001	CCGCCATAATTACCGTAGTAGTACT	59.818	44.000	8.14	8.14	0.00	2.73
697	699	6.082338	CGCCATAATTACCGTAGTAGTACTG	58.918	44.000	13.29	2.12	0.00	2.74
698	700	6.293626	CGCCATAATTACCGTAGTAGTACTGT	60.294	42.308	13.29	9.41	32.05	3.55
699	701	7.095229	CGCCATAATTACCGTAGTAGTACTGTA	60.095	40.741	13.29	7.66	30.13	2.74
749	751	5.250313	CCCAAGCCTATCATAAATCCTCTCT	59.750	44.000	0.00	0.00	0.00	3.10
765	767	3.072184	CCTCTCTCCCCACCATAAATCTG	59.928	52.174	0.00	0.00	0.00	2.90
816	818	4.016706	CCCCGCGAAACTCCCACT	62.017	66.667	8.23	0.00	0.00	4.00
872	874	0.193574	TTCCTCTCCCCACTTCCACT	59.806	55.000	0.00	0.00	0.00	4.00
952	966	4.636435	CACCCACCGCCTCCGTTT	62.636	66.667	0.00	0.00	0.00	3.60
1033	1050	2.345244	CGGTGCTGTTCCTCTGCT	59.655	61.111	0.00	0.00	40.79	4.24
1182	1199	4.032987	TACGTCGCGCTGCAGACA	62.033	61.111	20.43	0.00	33.99	3.41
2518	2544	4.524802	AAGGATTGGAGCATGGTGATAA	57.475	40.909	0.00	0.00	0.00	1.75
2538	2564	6.437162	TGATAAGGAAATTTGAAAGGTGGGAG	59.563	38.462	0.00	0.00	0.00	4.30
2588	2617	5.652994	TGGGTTGTGAATAATAAACTGGC	57.347	39.130	0.00	0.00	0.00	4.85
2677	2709	8.880750	AGAATGATACTTTTAGTTCGGTAAAGC	58.119	33.333	0.00	0.00	33.29	3.51
2678	2710	8.788325	AATGATACTTTTAGTTCGGTAAAGCT	57.212	30.769	0.00	0.00	33.29	3.74
2679	2711	7.823149	TGATACTTTTAGTTCGGTAAAGCTC	57.177	36.000	0.00	0.00	33.29	4.09
2680	2712	7.609056	TGATACTTTTAGTTCGGTAAAGCTCT	58.391	34.615	0.00	0.00	33.29	4.09
2681	2713	8.742777	TGATACTTTTAGTTCGGTAAAGCTCTA	58.257	33.333	0.00	0.00	33.29	2.43
2682	2714	9.235537	GATACTTTTAGTTCGGTAAAGCTCTAG	57.764	37.037	0.00	0.00	33.29	2.43
2683	2715	6.990798	ACTTTTAGTTCGGTAAAGCTCTAGT	58.009	36.000	0.00	0.00	33.29	2.57
2684	2716	7.440198	ACTTTTAGTTCGGTAAAGCTCTAGTT	58.560	34.615	0.00	0.00	33.29	2.24
2685	2717	7.384387	ACTTTTAGTTCGGTAAAGCTCTAGTTG	59.616	37.037	0.00	0.00	33.29	3.16
2904	3200	5.775195	ACTGTTATCTCGATGTATCCCATGA	59.225	40.000	0.00	0.00	32.56	3.07
2963	3259	0.966875	TGCATCCCATGGTGTGCTTC	60.967	55.000	28.35	10.03	36.76	3.86
2988	3284	1.672854	TTACCCGAGCCTGGACGATG	61.673	60.000	13.56	7.95	0.00	3.84
2997	3293	1.683917	GCCTGGACGATGTGAGATAGT	59.316	52.381	0.00	0.00	0.00	2.12
2998	3294	2.885266	GCCTGGACGATGTGAGATAGTA	59.115	50.000	0.00	0.00	0.00	1.82
2999	3295	3.057876	GCCTGGACGATGTGAGATAGTAG	60.058	52.174	0.00	0.00	0.00	2.57
3040	3336	1.221021	GGCTAGCTAAACGGGTGCT	59.779	57.895	15.72	0.00	40.43	4.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
535	536	8.571336	GGAATGTAATTGAGTCCATAATCCAAG	58.429	37.037	1.96	0.00	36.07	3.61
536	537	8.281531	AGGAATGTAATTGAGTCCATAATCCAA	58.718	33.333	8.09	0.00	36.07	3.53
537	538	7.720957	CAGGAATGTAATTGAGTCCATAATCCA	59.279	37.037	8.09	0.00	36.07	3.41
538	539	7.721399	ACAGGAATGTAATTGAGTCCATAATCC	59.279	37.037	8.09	0.00	36.07	3.01
539	540	8.682936	ACAGGAATGTAATTGAGTCCATAATC	57.317	34.615	8.09	0.00	36.07	1.75
540	541	9.479549	AAACAGGAATGTAATTGAGTCCATAAT	57.520	29.630	8.09	0.00	36.07	1.28
541	542	8.877864	AAACAGGAATGTAATTGAGTCCATAA	57.122	30.769	8.09	0.00	36.07	1.90
542	543	8.739039	CAAAACAGGAATGTAATTGAGTCCATA	58.261	33.333	8.09	0.00	36.07	2.74
543	544	7.233348	ACAAAACAGGAATGTAATTGAGTCCAT	59.767	33.333	11.49	0.00	36.07	3.41
544	545	6.549364	ACAAAACAGGAATGTAATTGAGTCCA	59.451	34.615	11.49	0.00	36.07	4.02
545	546	6.863126	CACAAAACAGGAATGTAATTGAGTCC	59.137	38.462	11.49	0.00	36.07	3.85
546	547	6.863126	CCACAAAACAGGAATGTAATTGAGTC	59.137	38.462	11.49	0.00	36.07	3.36
547	548	6.549364	TCCACAAAACAGGAATGTAATTGAGT	59.451	34.615	11.49	0.00	36.07	3.41
548	549	6.980593	TCCACAAAACAGGAATGTAATTGAG	58.019	36.000	11.49	5.91	36.07	3.02
549	550	6.968263	TCCACAAAACAGGAATGTAATTGA	57.032	33.333	11.49	0.00	36.07	2.57
550	551	7.118101	CCAATCCACAAAACAGGAATGTAATTG	59.882	37.037	0.00	0.00	36.07	2.32
551	552	7.160726	CCAATCCACAAAACAGGAATGTAATT	58.839	34.615	0.00	0.00	40.93	1.40
552	553	6.295802	CCCAATCCACAAAACAGGAATGTAAT	60.296	38.462	0.00	0.00	37.48	1.89
553	554	5.011533	CCCAATCCACAAAACAGGAATGTAA	59.988	40.000	0.00	0.00	37.48	2.41
554	555	4.526262	CCCAATCCACAAAACAGGAATGTA	59.474	41.667	0.00	0.00	37.48	2.29
555	556	3.324556	CCCAATCCACAAAACAGGAATGT	59.675	43.478	0.00	0.00	37.48	2.71
556	557	3.324556	ACCCAATCCACAAAACAGGAATG	59.675	43.478	0.00	0.00	37.48	2.67
557	558	3.586429	ACCCAATCCACAAAACAGGAAT	58.414	40.909	0.00	0.00	37.48	3.01
558	559	3.039252	ACCCAATCCACAAAACAGGAA	57.961	42.857	0.00	0.00	37.48	3.36
559	560	2.765689	ACCCAATCCACAAAACAGGA	57.234	45.000	0.00	0.00	38.50	3.86
560	561	3.496331	ACTACCCAATCCACAAAACAGG	58.504	45.455	0.00	0.00	0.00	4.00
561	562	5.313712	AGTACTACCCAATCCACAAAACAG	58.686	41.667	0.00	0.00	0.00	3.16
562	563	5.310451	GAGTACTACCCAATCCACAAAACA	58.690	41.667	0.00	0.00	0.00	2.83
563	564	4.698780	GGAGTACTACCCAATCCACAAAAC	59.301	45.833	0.00	0.00	0.00	2.43
564	565	4.600111	AGGAGTACTACCCAATCCACAAAA	59.400	41.667	0.00	0.00	32.21	2.44
565	566	4.172807	AGGAGTACTACCCAATCCACAAA	58.827	43.478	0.00	0.00	32.21	2.83
566	567	3.798515	AGGAGTACTACCCAATCCACAA	58.201	45.455	0.00	0.00	32.21	3.33
567	568	3.484953	AGGAGTACTACCCAATCCACA	57.515	47.619	0.00	0.00	32.21	4.17
568	569	3.321396	GCTAGGAGTACTACCCAATCCAC	59.679	52.174	0.00	0.00	32.21	4.02
569	570	3.206866	AGCTAGGAGTACTACCCAATCCA	59.793	47.826	0.00	0.00	32.21	3.41
570	571	3.847081	AGCTAGGAGTACTACCCAATCC	58.153	50.000	0.00	0.00	0.00	3.01
571	572	5.453480	CCAAAGCTAGGAGTACTACCCAATC	60.453	48.000	0.00	0.00	0.00	2.67
572	573	4.409247	CCAAAGCTAGGAGTACTACCCAAT	59.591	45.833	0.00	0.00	0.00	3.16
573	574	3.773119	CCAAAGCTAGGAGTACTACCCAA	59.227	47.826	0.00	0.00	0.00	4.12
574	575	3.012047	TCCAAAGCTAGGAGTACTACCCA	59.988	47.826	0.00	0.00	0.00	4.51
575	576	3.639952	TCCAAAGCTAGGAGTACTACCC	58.360	50.000	0.00	0.00	0.00	3.69
576	577	5.873146	AATCCAAAGCTAGGAGTACTACC	57.127	43.478	12.76	2.33	38.83	3.18
580	581	5.467063	GTGCATAATCCAAAGCTAGGAGTAC	59.533	44.000	15.04	7.27	38.39	2.73
585	586	2.031682	GCGTGCATAATCCAAAGCTAGG	60.032	50.000	0.00	0.00	0.00	3.02
634	636	4.462834	CAGTGGATTAGTGACTGTACTGGA	59.537	45.833	0.00	0.00	33.77	3.86
635	637	4.462834	TCAGTGGATTAGTGACTGTACTGG	59.537	45.833	0.00	0.00	38.60	4.00
636	638	5.644977	TCAGTGGATTAGTGACTGTACTG	57.355	43.478	0.00	3.13	38.60	2.74
637	639	5.047235	GGTTCAGTGGATTAGTGACTGTACT	60.047	44.000	0.00	0.00	38.45	2.73
638	640	5.169295	GGTTCAGTGGATTAGTGACTGTAC	58.831	45.833	0.00	0.00	38.45	2.90
639	641	4.222145	GGGTTCAGTGGATTAGTGACTGTA	59.778	45.833	0.00	0.00	38.45	2.74
640	642	3.008049	GGGTTCAGTGGATTAGTGACTGT	59.992	47.826	0.00	0.00	38.45	3.55
641	643	3.007940	TGGGTTCAGTGGATTAGTGACTG	59.992	47.826	0.00	0.00	38.45	3.51
642	644	3.008049	GTGGGTTCAGTGGATTAGTGACT	59.992	47.826	0.00	0.00	38.45	3.41
643	645	3.335579	GTGGGTTCAGTGGATTAGTGAC	58.664	50.000	0.00	0.00	38.45	3.67
644	646	2.028476	CGTGGGTTCAGTGGATTAGTGA	60.028	50.000	0.00	0.00	36.96	3.41
645	647	2.346803	CGTGGGTTCAGTGGATTAGTG	58.653	52.381	0.00	0.00	0.00	2.74
646	648	1.338769	GCGTGGGTTCAGTGGATTAGT	60.339	52.381	0.00	0.00	0.00	2.24
647	649	1.066143	AGCGTGGGTTCAGTGGATTAG	60.066	52.381	0.00	0.00	0.00	1.73
648	650	0.981183	AGCGTGGGTTCAGTGGATTA	59.019	50.000	0.00	0.00	0.00	1.75
649	651	0.981183	TAGCGTGGGTTCAGTGGATT	59.019	50.000	0.00	0.00	0.00	3.01
650	652	1.139058	GATAGCGTGGGTTCAGTGGAT	59.861	52.381	0.00	0.00	0.00	3.41
667	669	4.523943	ACTACGGTAATTATGGCGGTGATA	59.476	41.667	0.00	0.00	0.00	2.15
692	694	5.824904	TTTGTCTCCGGAGTATACAGTAC	57.175	43.478	30.17	18.48	0.00	2.73
694	696	4.441634	GCATTTGTCTCCGGAGTATACAGT	60.442	45.833	30.17	16.17	0.00	3.55
695	697	4.051922	GCATTTGTCTCCGGAGTATACAG	58.948	47.826	30.17	17.89	0.00	2.74
696	698	3.490249	CGCATTTGTCTCCGGAGTATACA	60.490	47.826	30.17	23.62	0.00	2.29
697	699	3.050619	CGCATTTGTCTCCGGAGTATAC	58.949	50.000	30.17	21.32	0.00	1.47
698	700	2.035449	CCGCATTTGTCTCCGGAGTATA	59.965	50.000	30.17	15.94	43.20	1.47
699	701	1.202533	CCGCATTTGTCTCCGGAGTAT	60.203	52.381	30.17	16.33	43.20	2.12
749	751	0.555769	GGGCAGATTTATGGTGGGGA	59.444	55.000	0.00	0.00	0.00	4.81
805	807	1.446272	CGAGCGGAGTGGGAGTTTC	60.446	63.158	0.00	0.00	0.00	2.78
816	818	4.116585	AGAGGGAGAGCGAGCGGA	62.117	66.667	0.00	0.00	0.00	5.54
872	874	2.754658	GGAGCGAGGACGAGGGAA	60.755	66.667	0.00	0.00	42.66	3.97
952	966	3.744907	CGGAGAAGAATCCAGGGAACCA	61.745	54.545	0.00	0.00	44.44	3.67
1023	1037	1.239347	AGGCGAAAAAGCAGAGGAAC	58.761	50.000	0.00	0.00	39.27	3.62
1024	1038	1.880027	GAAGGCGAAAAAGCAGAGGAA	59.120	47.619	0.00	0.00	39.27	3.36
1182	1199	1.455217	GATGGCCTGCTGCTTCCAT	60.455	57.895	16.51	16.51	41.63	3.41
1780	1806	4.593864	GAGCATCCCGACCTCCGC	62.594	72.222	0.00	0.00	36.84	5.54
2518	2544	2.899900	GCTCCCACCTTTCAAATTTCCT	59.100	45.455	0.00	0.00	0.00	3.36
2538	2564	2.766345	TCAATCCAAGCCCAATTTGC	57.234	45.000	0.00	0.00	0.00	3.68
2588	2617	3.761218	TCAGCTTAACCTGTCTCTCTCAG	59.239	47.826	0.00	0.00	34.47	3.35
2676	2708	2.729194	TCTCTGACCCTCAACTAGAGC	58.271	52.381	0.00	0.00	43.31	4.09
2677	2709	6.126409	ACTTATCTCTGACCCTCAACTAGAG	58.874	44.000	0.00	0.00	44.31	2.43
2678	2710	6.080969	ACTTATCTCTGACCCTCAACTAGA	57.919	41.667	0.00	0.00	0.00	2.43
2679	2711	6.783708	AACTTATCTCTGACCCTCAACTAG	57.216	41.667	0.00	0.00	0.00	2.57
2680	2712	6.954684	AGAAACTTATCTCTGACCCTCAACTA	59.045	38.462	0.00	0.00	0.00	2.24
2681	2713	5.782845	AGAAACTTATCTCTGACCCTCAACT	59.217	40.000	0.00	0.00	0.00	3.16
2682	2714	6.043854	AGAAACTTATCTCTGACCCTCAAC	57.956	41.667	0.00	0.00	0.00	3.18
2683	2715	6.724441	TGTAGAAACTTATCTCTGACCCTCAA	59.276	38.462	0.00	0.00	0.00	3.02
2684	2716	6.253758	TGTAGAAACTTATCTCTGACCCTCA	58.746	40.000	0.00	0.00	0.00	3.86
2685	2717	6.777213	TGTAGAAACTTATCTCTGACCCTC	57.223	41.667	0.00	0.00	0.00	4.30
2782	2814	3.751518	TCTCCAAGAAGCCCAACTAAAC	58.248	45.455	0.00	0.00	0.00	2.01
2873	3167	8.614346	GGATACATCGAGATAACAGTATAGGAC	58.386	40.741	0.00	0.00	0.00	3.85
2904	3200	4.438744	GCTCGGCTAAATTAACAAGCACAT	60.439	41.667	7.57	0.00	38.01	3.21
2963	3259	3.203716	GTCCAGGCTCGGGTAAATTAAG	58.796	50.000	3.64	0.00	0.00	1.85
2988	3284	7.977789	TCTGAGATCATGTCTACTATCTCAC	57.022	40.000	15.07	0.00	45.75	3.51
2997	3293	6.870439	CGCCATATTTTCTGAGATCATGTCTA	59.130	38.462	0.00	0.00	37.29	2.59
2998	3294	5.699915	CGCCATATTTTCTGAGATCATGTCT	59.300	40.000	0.00	0.00	40.81	3.41
2999	3295	5.106791	CCGCCATATTTTCTGAGATCATGTC	60.107	44.000	0.00	0.00	0.00	3.06

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.