AutoCloner

Multiple sequence alignment - TraesCS7B01G418700

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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	TraesCS7B01G418700	chr7B	100.000	2264	0	0	1	2264	687040622	687042885	0.000000e+00	4181
1	TraesCS7B01G418700	chr7B	92.873	2273	116	23	1	2264	235458094	235455859	0.000000e+00	3258
2	TraesCS7B01G418700	chr7B	95.312	64	3	0	1880	1943	27328506	27328569	3.980000e-18	102
3	TraesCS7B01G418700	chr1B	97.130	2265	51	2	1	2264	38183391	38185642	0.000000e+00	3810
4	TraesCS7B01G418700	chr1B	88.319	351	41	0	1914	2264	357900217	357899867	2.690000e-114	422
5	TraesCS7B01G418700	chr4B	96.440	2107	48	10	1	2083	402787203	402785100	0.000000e+00	3450
6	TraesCS7B01G418700	chr5B	97.153	1967	32	9	1	1943	464634106	464636072	0.000000e+00	3301
7	TraesCS7B01G418700	chr5B	94.459	1967	76	24	1	1947	530940831	530938878	0.000000e+00	2998
8	TraesCS7B01G418700	chr5B	87.697	1650	113	24	651	2264	433001845	433000250	0.000000e+00	1840
9	TraesCS7B01G418700	chr5B	87.470	1652	113	27	651	2264	351468948	351467353	0.000000e+00	1818
10	TraesCS7B01G418700	chr2B	96.943	1963	39	6	1	1943	563917140	563915179	0.000000e+00	3273
11	TraesCS7B01G418700	chr2B	94.186	2150	104	13	1	2143	42193403	42195538	0.000000e+00	3258
12	TraesCS7B01G418700	chr2B	91.373	1333	66	19	551	1871	154584994	154583699	0.000000e+00	1779
13	TraesCS7B01G418700	chr2B	90.044	1145	51	21	736	1871	364337339	364336249	0.000000e+00	1424
14	TraesCS7B01G418700	chr2B	91.483	317	26	1	1948	2264	563915210	563914895	3.450000e-118	435
15	TraesCS7B01G418700	chr3B	96.645	1967	41	10	1	1943	16124436	16122471	0.000000e+00	3243
16	TraesCS7B01G418700	chr4A	96.546	1882	49	10	1	1871	712877478	712879354	0.000000e+00	3101
17	TraesCS7B01G418700	chr2A	87.576	1650	115	24	651	2264	728934339	728935934	0.000000e+00	1829
18	TraesCS7B01G418700	chr2A	89.888	89	6	2	1692	1780	372744517	372744602	6.610000e-21	111
19	TraesCS7B01G418700	chr5A	90.407	1230	55	19	651	1871	591474393	591475568	0.000000e+00	1559
20	TraesCS7B01G418700	chrUn	83.547	857	79	21	1438	2264	416567694	416566870	0.000000e+00	745

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	TraesCS7B01G418700	chr7B	687040622	687042885	2263	False	4181	4181	100.000	1	2264	1	chr7B.!!$F2	2263
1	TraesCS7B01G418700	chr7B	235455859	235458094	2235	True	3258	3258	92.873	1	2264	1	chr7B.!!$R1	2263
2	TraesCS7B01G418700	chr1B	38183391	38185642	2251	False	3810	3810	97.130	1	2264	1	chr1B.!!$F1	2263
3	TraesCS7B01G418700	chr4B	402785100	402787203	2103	True	3450	3450	96.440	1	2083	1	chr4B.!!$R1	2082
4	TraesCS7B01G418700	chr5B	464634106	464636072	1966	False	3301	3301	97.153	1	1943	1	chr5B.!!$F1	1942
5	TraesCS7B01G418700	chr5B	530938878	530940831	1953	True	2998	2998	94.459	1	1947	1	chr5B.!!$R3	1946
6	TraesCS7B01G418700	chr5B	433000250	433001845	1595	True	1840	1840	87.697	651	2264	1	chr5B.!!$R2	1613
7	TraesCS7B01G418700	chr5B	351467353	351468948	1595	True	1818	1818	87.470	651	2264	1	chr5B.!!$R1	1613
8	TraesCS7B01G418700	chr2B	42193403	42195538	2135	False	3258	3258	94.186	1	2143	1	chr2B.!!$F1	2142
9	TraesCS7B01G418700	chr2B	563914895	563917140	2245	True	1854	3273	94.213	1	2264	2	chr2B.!!$R3	2263
10	TraesCS7B01G418700	chr2B	154583699	154584994	1295	True	1779	1779	91.373	551	1871	1	chr2B.!!$R1	1320
11	TraesCS7B01G418700	chr2B	364336249	364337339	1090	True	1424	1424	90.044	736	1871	1	chr2B.!!$R2	1135
12	TraesCS7B01G418700	chr3B	16122471	16124436	1965	True	3243	3243	96.645	1	1943	1	chr3B.!!$R1	1942
13	TraesCS7B01G418700	chr4A	712877478	712879354	1876	False	3101	3101	96.546	1	1871	1	chr4A.!!$F1	1870
14	TraesCS7B01G418700	chr2A	728934339	728935934	1595	False	1829	1829	87.576	651	2264	1	chr2A.!!$F2	1613
15	TraesCS7B01G418700	chr5A	591474393	591475568	1175	False	1559	1559	90.407	651	1871	1	chr5A.!!$F1	1220
16	TraesCS7B01G418700	chrUn	416566870	416567694	824	True	745	745	83.547	1438	2264	1	chrUn.!!$R1	826

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
515	516	0.037232	GGTGAACGAGGTGGAAGAGG	60.037	60.0	0.0	0.0	0.0	3.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2158	2340	1.074775	GACACCATGGACCTTGGCA	59.925	57.895	21.47	0.0	37.81	4.92	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
435	436	1.005924	GGTGAAGGGGGACACAATGAT	59.994	52.381	0.00	0.00	38.57	2.45
511	512	0.037697	CGATGGTGAACGAGGTGGAA	60.038	55.000	0.00	0.00	0.00	3.53
512	513	1.726853	GATGGTGAACGAGGTGGAAG	58.273	55.000	0.00	0.00	0.00	3.46
513	514	1.275291	GATGGTGAACGAGGTGGAAGA	59.725	52.381	0.00	0.00	0.00	2.87
514	515	0.679505	TGGTGAACGAGGTGGAAGAG	59.320	55.000	0.00	0.00	0.00	2.85
515	516	0.037232	GGTGAACGAGGTGGAAGAGG	60.037	60.000	0.00	0.00	0.00	3.69
516	517	0.680061	GTGAACGAGGTGGAAGAGGT	59.320	55.000	0.00	0.00	0.00	3.85
517	518	0.679505	TGAACGAGGTGGAAGAGGTG	59.320	55.000	0.00	0.00	0.00	4.00
518	519	0.966920	GAACGAGGTGGAAGAGGTGA	59.033	55.000	0.00	0.00	0.00	4.02
519	520	0.680061	AACGAGGTGGAAGAGGTGAC	59.320	55.000	0.00	0.00	0.00	3.67
520	521	1.213013	CGAGGTGGAAGAGGTGACG	59.787	63.158	0.00	0.00	0.00	4.35
521	522	1.592223	GAGGTGGAAGAGGTGACGG	59.408	63.158	0.00	0.00	0.00	4.79
522	523	1.152312	AGGTGGAAGAGGTGACGGT	60.152	57.895	0.00	0.00	0.00	4.83
523	524	1.186267	AGGTGGAAGAGGTGACGGTC	61.186	60.000	0.00	0.00	0.00	4.79
524	525	1.080705	GTGGAAGAGGTGACGGTCG	60.081	63.158	3.34	0.00	0.00	4.79
525	526	1.529948	TGGAAGAGGTGACGGTCGT	60.530	57.895	3.34	0.00	0.00	4.34
526	527	1.080705	GGAAGAGGTGACGGTCGTG	60.081	63.158	0.00	0.00	0.00	4.35
527	528	1.080705	GAAGAGGTGACGGTCGTGG	60.081	63.158	0.00	0.00	0.00	4.94
528	529	1.803366	GAAGAGGTGACGGTCGTGGT	61.803	60.000	0.00	0.00	0.00	4.16
529	530	2.049433	GAGGTGACGGTCGTGGTG	60.049	66.667	0.00	0.00	0.00	4.17
530	531	3.569049	GAGGTGACGGTCGTGGTGG	62.569	68.421	0.00	0.00	0.00	4.61
531	532	3.920196	GGTGACGGTCGTGGTGGT	61.920	66.667	0.00	0.00	0.00	4.16
532	533	2.355481	GTGACGGTCGTGGTGGTC	60.355	66.667	0.00	0.00	0.00	4.02
533	534	3.968568	TGACGGTCGTGGTGGTCG	61.969	66.667	0.00	0.00	32.17	4.79
534	535	3.663176	GACGGTCGTGGTGGTCGA	61.663	66.667	0.00	0.00	34.91	4.20
535	536	3.606065	GACGGTCGTGGTGGTCGAG	62.606	68.421	0.00	0.00	37.99	4.04
536	537	4.415332	CGGTCGTGGTGGTCGAGG	62.415	72.222	0.00	0.00	37.99	4.63
537	538	2.987547	GGTCGTGGTGGTCGAGGA	60.988	66.667	0.00	0.00	37.99	3.71
538	539	2.567497	GGTCGTGGTGGTCGAGGAA	61.567	63.158	0.00	0.00	37.99	3.36
539	540	1.080705	GTCGTGGTGGTCGAGGAAG	60.081	63.158	0.00	0.00	37.99	3.46
540	541	2.432628	CGTGGTGGTCGAGGAAGC	60.433	66.667	0.00	0.00	0.00	3.86
541	542	2.741092	GTGGTGGTCGAGGAAGCA	59.259	61.111	0.00	0.00	0.00	3.91
542	543	1.668151	GTGGTGGTCGAGGAAGCAC	60.668	63.158	8.07	8.07	44.83	4.40
543	544	2.137528	TGGTGGTCGAGGAAGCACA	61.138	57.895	8.29	0.00	46.81	4.57
544	545	1.070786	GGTGGTCGAGGAAGCACAA	59.929	57.895	8.29	0.00	46.81	3.33
545	546	0.951040	GGTGGTCGAGGAAGCACAAG	60.951	60.000	8.29	0.00	46.81	3.16
546	547	0.249911	GTGGTCGAGGAAGCACAAGT	60.250	55.000	1.66	0.00	44.90	3.16
547	548	0.249868	TGGTCGAGGAAGCACAAGTG	60.250	55.000	0.00	0.00	0.00	3.16
548	549	0.249911	GGTCGAGGAAGCACAAGTGT	60.250	55.000	1.79	0.00	0.00	3.55
549	550	1.140816	GTCGAGGAAGCACAAGTGTC	58.859	55.000	1.79	0.00	0.00	3.67
557	558	0.107456	AGCACAAGTGTCAGAGGTGG	59.893	55.000	1.79	0.00	0.00	4.61
558	559	0.179045	GCACAAGTGTCAGAGGTGGT	60.179	55.000	1.79	0.00	0.00	4.16
559	560	1.070134	GCACAAGTGTCAGAGGTGGTA	59.930	52.381	1.79	0.00	0.00	3.25
568	569	0.608640	CAGAGGTGGTAGTGGTGGTC	59.391	60.000	0.00	0.00	0.00	4.02
569	570	0.190069	AGAGGTGGTAGTGGTGGTCA	59.810	55.000	0.00	0.00	0.00	4.02
571	572	2.043939	AGAGGTGGTAGTGGTGGTCATA	59.956	50.000	0.00	0.00	0.00	2.15
576	577	2.040178	GGTAGTGGTGGTCATAGAGGG	58.960	57.143	0.00	0.00	0.00	4.30
602	603	3.259374	ACAAGTGCTAGATGTGCTAGTGT	59.741	43.478	0.00	0.00	46.81	3.55
604	605	4.116747	AGTGCTAGATGTGCTAGTGTTC	57.883	45.455	0.00	0.00	46.81	3.18
607	608	3.692593	TGCTAGATGTGCTAGTGTTCGTA	59.307	43.478	0.00	0.00	46.81	3.43
609	610	4.035324	GCTAGATGTGCTAGTGTTCGTAGA	59.965	45.833	0.00	0.00	46.81	2.59
610	611	4.624336	AGATGTGCTAGTGTTCGTAGAG	57.376	45.455	0.00	0.00	38.43	2.43
612	613	1.816835	TGTGCTAGTGTTCGTAGAGGG	59.183	52.381	0.00	0.00	38.43	4.30
613	614	2.089980	GTGCTAGTGTTCGTAGAGGGA	58.910	52.381	0.00	0.00	38.43	4.20
615	616	2.290768	TGCTAGTGTTCGTAGAGGGAGT	60.291	50.000	0.00	0.00	38.43	3.85
617	618	3.312146	GCTAGTGTTCGTAGAGGGAGTAC	59.688	52.174	0.00	0.00	38.43	2.73
618	619	3.430042	AGTGTTCGTAGAGGGAGTACA	57.570	47.619	0.00	0.00	38.43	2.90
620	621	3.757493	AGTGTTCGTAGAGGGAGTACAAG	59.243	47.826	0.00	0.00	38.43	3.16
621	622	3.505293	GTGTTCGTAGAGGGAGTACAAGT	59.495	47.826	0.00	0.00	38.43	3.16
622	623	3.504906	TGTTCGTAGAGGGAGTACAAGTG	59.495	47.826	0.00	0.00	38.43	3.16
623	624	2.089980	TCGTAGAGGGAGTACAAGTGC	58.910	52.381	0.00	0.00	0.00	4.40
625	626	3.054875	TCGTAGAGGGAGTACAAGTGCTA	60.055	47.826	0.00	0.00	0.00	3.49
626	627	3.312973	CGTAGAGGGAGTACAAGTGCTAG	59.687	52.174	0.00	0.00	0.00	3.42
627	628	3.741245	AGAGGGAGTACAAGTGCTAGA	57.259	47.619	0.00	0.00	0.00	2.43
628	629	3.626930	AGAGGGAGTACAAGTGCTAGAG	58.373	50.000	0.00	0.00	0.00	2.43
630	631	2.043252	AGGGAGTACAAGTGCTAGAGGT	59.957	50.000	0.00	0.00	0.00	3.85
635	636	0.687354	ACAAGTGCTAGAGGTGGTGG	59.313	55.000	0.00	0.00	0.00	4.61
636	637	0.674895	CAAGTGCTAGAGGTGGTGGC	60.675	60.000	0.00	0.00	0.00	5.01
637	638	1.842381	AAGTGCTAGAGGTGGTGGCC	61.842	60.000	0.00	0.00	0.00	5.36
639	640	3.075005	GCTAGAGGTGGTGGCCGA	61.075	66.667	0.00	0.00	0.00	5.54
641	642	3.075005	TAGAGGTGGTGGCCGAGC	61.075	66.667	0.00	0.00	0.00	5.03
643	644	2.219449	TAGAGGTGGTGGCCGAGCTA	62.219	60.000	0.00	0.00	0.00	3.32
645	646	4.840005	GGTGGTGGCCGAGCTAGC	62.840	72.222	6.62	6.62	38.00	3.42
647	648	4.082523	TGGTGGCCGAGCTAGCAC	62.083	66.667	18.83	10.18	42.08	4.40
649	650	2.047274	GTGGCCGAGCTAGCACAA	60.047	61.111	18.83	0.00	0.00	3.33
651	652	2.266055	GGCCGAGCTAGCACAAGT	59.734	61.111	18.83	0.00	0.00	3.16
652	653	2.103042	GGCCGAGCTAGCACAAGTG	61.103	63.158	18.83	0.72	0.00	3.16
975	1021	8.033038	ACGCATTTACTCTCTTTATGTCTTGTA	58.967	33.333	0.00	0.00	0.00	2.41
1008	1054	2.487762	TCTTTTTGTAGGCATGGCTTCG	59.512	45.455	28.30	9.07	0.00	3.79
1012	1058	1.220749	GTAGGCATGGCTTCGTCCA	59.779	57.895	28.30	4.91	40.97	4.02
1554	1600	0.892063	GCTCGTCAAGAAGAGAGGGT	59.108	55.000	15.59	0.00	38.88	4.34
1651	1697	7.811236	CGTACTACTCAGTAGACAAATGGAAAA	59.189	37.037	19.25	0.00	38.29	2.29
1660	1706	0.033228	CAAATGGAAAAGCACCGGCA	59.967	50.000	0.00	0.00	44.61	5.69
1717	1763	8.525316	TGTATCAACTTGTTATTCGAGACCTTA	58.475	33.333	0.00	0.00	0.00	2.69
2051	2233	4.760047	CCCAGACGCCAAGGTCCG	62.760	72.222	0.00	0.00	37.66	4.79
2077	2259	4.269523	GCCTGCCACACCCAGACA	62.270	66.667	0.00	0.00	32.03	3.41
2149	2331	2.419713	CCTGTCTGATGTGTCTGATGGG	60.420	54.545	0.00	0.00	35.22	4.00
2173	2355	0.033796	CAGATGCCAAGGTCCATGGT	60.034	55.000	14.57	0.00	40.23	3.55
2221	2403	1.070445	CCCTGGCGTCTGGATCATC	59.930	63.158	15.35	0.00	34.32	2.92

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
435	436	5.106317	GGTTTTCTTATTCTTGCATGTCCGA	60.106	40.000	0.00	0.00	0.00	4.55
511	512	2.203451	ACCACGACCGTCACCTCT	60.203	61.111	0.00	0.00	0.00	3.69
512	513	2.049433	CACCACGACCGTCACCTC	60.049	66.667	0.00	0.00	0.00	3.85
513	514	3.612681	CCACCACGACCGTCACCT	61.613	66.667	0.00	0.00	0.00	4.00
514	515	3.853597	GACCACCACGACCGTCACC	62.854	68.421	0.00	0.00	0.00	4.02
515	516	2.355481	GACCACCACGACCGTCAC	60.355	66.667	0.00	0.00	0.00	3.67
516	517	3.968568	CGACCACCACGACCGTCA	61.969	66.667	0.00	0.00	0.00	4.35
517	518	3.606065	CTCGACCACCACGACCGTC	62.606	68.421	0.00	0.00	35.88	4.79
518	519	3.667282	CTCGACCACCACGACCGT	61.667	66.667	0.00	0.00	35.88	4.83
519	520	4.415332	CCTCGACCACCACGACCG	62.415	72.222	0.00	0.00	35.88	4.79
520	521	2.488087	CTTCCTCGACCACCACGACC	62.488	65.000	0.00	0.00	35.88	4.79
521	522	1.080705	CTTCCTCGACCACCACGAC	60.081	63.158	0.00	0.00	35.88	4.34
522	523	2.927580	GCTTCCTCGACCACCACGA	61.928	63.158	0.00	0.00	38.11	4.35
523	524	2.432628	GCTTCCTCGACCACCACG	60.433	66.667	0.00	0.00	0.00	4.94
524	525	1.668151	GTGCTTCCTCGACCACCAC	60.668	63.158	0.00	0.00	0.00	4.16
525	526	1.691195	TTGTGCTTCCTCGACCACCA	61.691	55.000	0.00	0.00	0.00	4.17
526	527	0.951040	CTTGTGCTTCCTCGACCACC	60.951	60.000	0.00	0.00	0.00	4.61
527	528	0.249911	ACTTGTGCTTCCTCGACCAC	60.250	55.000	0.00	0.00	0.00	4.16
528	529	0.249868	CACTTGTGCTTCCTCGACCA	60.250	55.000	0.00	0.00	0.00	4.02
529	530	0.249911	ACACTTGTGCTTCCTCGACC	60.250	55.000	0.10	0.00	0.00	4.79
530	531	1.140816	GACACTTGTGCTTCCTCGAC	58.859	55.000	0.10	0.00	0.00	4.20
531	532	0.750249	TGACACTTGTGCTTCCTCGA	59.250	50.000	0.10	0.00	0.00	4.04
532	533	1.143305	CTGACACTTGTGCTTCCTCG	58.857	55.000	0.10	0.00	0.00	4.63
533	534	2.411904	CTCTGACACTTGTGCTTCCTC	58.588	52.381	0.10	0.00	0.00	3.71
534	535	1.071385	CCTCTGACACTTGTGCTTCCT	59.929	52.381	0.10	0.00	0.00	3.36
535	536	1.202698	ACCTCTGACACTTGTGCTTCC	60.203	52.381	0.10	0.00	0.00	3.46
536	537	1.869767	CACCTCTGACACTTGTGCTTC	59.130	52.381	0.10	0.00	0.00	3.86
537	538	1.475751	CCACCTCTGACACTTGTGCTT	60.476	52.381	0.10	0.00	0.00	3.91
538	539	0.107456	CCACCTCTGACACTTGTGCT	59.893	55.000	0.10	0.00	0.00	4.40
539	540	0.179045	ACCACCTCTGACACTTGTGC	60.179	55.000	0.10	0.00	0.00	4.57
540	541	2.365617	ACTACCACCTCTGACACTTGTG	59.634	50.000	0.00	0.00	0.00	3.33
541	542	2.365617	CACTACCACCTCTGACACTTGT	59.634	50.000	0.00	0.00	0.00	3.16
542	543	2.289072	CCACTACCACCTCTGACACTTG	60.289	54.545	0.00	0.00	0.00	3.16
543	544	1.971357	CCACTACCACCTCTGACACTT	59.029	52.381	0.00	0.00	0.00	3.16
544	545	1.133136	ACCACTACCACCTCTGACACT	60.133	52.381	0.00	0.00	0.00	3.55
545	546	1.000955	CACCACTACCACCTCTGACAC	59.999	57.143	0.00	0.00	0.00	3.67
546	547	1.338107	CACCACTACCACCTCTGACA	58.662	55.000	0.00	0.00	0.00	3.58
547	548	0.608640	CCACCACTACCACCTCTGAC	59.391	60.000	0.00	0.00	0.00	3.51
548	549	0.190069	ACCACCACTACCACCTCTGA	59.810	55.000	0.00	0.00	0.00	3.27
549	550	0.608640	GACCACCACTACCACCTCTG	59.391	60.000	0.00	0.00	0.00	3.35
557	558	2.959707	CTCCCTCTATGACCACCACTAC	59.040	54.545	0.00	0.00	0.00	2.73
558	559	2.690026	GCTCCCTCTATGACCACCACTA	60.690	54.545	0.00	0.00	0.00	2.74
559	560	1.967274	GCTCCCTCTATGACCACCACT	60.967	57.143	0.00	0.00	0.00	4.00
568	569	1.209019	AGCACTTGTGCTCCCTCTATG	59.791	52.381	20.95	0.00	42.12	2.23
569	570	1.577736	AGCACTTGTGCTCCCTCTAT	58.422	50.000	20.95	0.00	42.12	1.98
571	572	0.901124	CTAGCACTTGTGCTCCCTCT	59.099	55.000	28.34	9.45	45.00	3.69
588	589	4.575236	CCTCTACGAACACTAGCACATCTA	59.425	45.833	0.00	0.00	0.00	1.98
592	593	1.816835	CCCTCTACGAACACTAGCACA	59.183	52.381	0.00	0.00	0.00	4.57
596	597	4.511527	TGTACTCCCTCTACGAACACTAG	58.488	47.826	0.00	0.00	0.00	2.57
602	603	2.490903	GCACTTGTACTCCCTCTACGAA	59.509	50.000	0.00	0.00	0.00	3.85
604	605	2.093106	AGCACTTGTACTCCCTCTACG	58.907	52.381	0.00	0.00	0.00	3.51
607	608	3.626222	CCTCTAGCACTTGTACTCCCTCT	60.626	52.174	0.00	0.00	0.00	3.69
609	610	2.043252	ACCTCTAGCACTTGTACTCCCT	59.957	50.000	0.00	0.00	0.00	4.20
610	611	2.166664	CACCTCTAGCACTTGTACTCCC	59.833	54.545	0.00	0.00	0.00	4.30
612	613	2.826725	ACCACCTCTAGCACTTGTACTC	59.173	50.000	0.00	0.00	0.00	2.59
613	614	2.563179	CACCACCTCTAGCACTTGTACT	59.437	50.000	0.00	0.00	0.00	2.73
615	616	1.899814	CCACCACCTCTAGCACTTGTA	59.100	52.381	0.00	0.00	0.00	2.41
617	618	0.674895	GCCACCACCTCTAGCACTTG	60.675	60.000	0.00	0.00	0.00	3.16
618	619	1.679898	GCCACCACCTCTAGCACTT	59.320	57.895	0.00	0.00	0.00	3.16
620	621	2.269241	GGCCACCACCTCTAGCAC	59.731	66.667	0.00	0.00	0.00	4.40
621	622	3.390521	CGGCCACCACCTCTAGCA	61.391	66.667	2.24	0.00	0.00	3.49
622	623	3.075005	TCGGCCACCACCTCTAGC	61.075	66.667	2.24	0.00	0.00	3.42
623	624	3.082579	GCTCGGCCACCACCTCTAG	62.083	68.421	2.24	0.00	0.00	2.43
625	626	3.602075	TAGCTCGGCCACCACCTCT	62.602	63.158	2.24	0.00	0.00	3.69
626	627	3.075005	TAGCTCGGCCACCACCTC	61.075	66.667	2.24	0.00	0.00	3.85
627	628	3.077556	CTAGCTCGGCCACCACCT	61.078	66.667	2.24	0.00	0.00	4.00
628	629	4.840005	GCTAGCTCGGCCACCACC	62.840	72.222	7.70	0.00	0.00	4.61
630	631	4.082523	GTGCTAGCTCGGCCACCA	62.083	66.667	17.23	0.00	0.00	4.17
635	636	2.744768	GCACTTGTGCTAGCTCGGC	61.745	63.158	17.23	10.90	0.00	5.54
636	637	0.173481	TAGCACTTGTGCTAGCTCGG	59.827	55.000	25.81	11.50	44.28	4.63
637	638	3.721625	TAGCACTTGTGCTAGCTCG	57.278	52.632	25.81	3.24	44.28	5.03
645	646	1.609061	CCACCACCTCTAGCACTTGTG	60.609	57.143	0.00	0.00	0.00	3.33
647	648	0.687354	ACCACCACCTCTAGCACTTG	59.313	55.000	0.00	0.00	0.00	3.16
649	650	1.251527	CGACCACCACCTCTAGCACT	61.252	60.000	0.00	0.00	0.00	4.40
651	652	0.965866	CTCGACCACCACCTCTAGCA	60.966	60.000	0.00	0.00	0.00	3.49
652	653	1.810532	CTCGACCACCACCTCTAGC	59.189	63.158	0.00	0.00	0.00	3.42
653	654	0.965866	TGCTCGACCACCACCTCTAG	60.966	60.000	0.00	0.00	0.00	2.43
975	1021	9.777297	ATGCCTACAAAAAGAACAATTGTTAAT	57.223	25.926	23.33	12.62	38.56	1.40
1012	1058	3.382832	CGGCCTCGTCCTGGAACT	61.383	66.667	0.00	0.00	0.00	3.01
1554	1600	2.552315	CGAGCCCTTGCAAGTTTTCTTA	59.448	45.455	24.35	0.00	41.13	2.10
1651	1697	1.596203	CATCATCGATGCCGGTGCT	60.596	57.895	20.81	0.00	45.94	4.40
1717	1763	6.946340	TGACATAAGTAGTTCATGACCACAT	58.054	36.000	0.00	0.00	37.19	3.21
2057	2239	2.987547	CTGGGTGTGGCAGGCAAG	60.988	66.667	0.00	0.00	0.00	4.01
2058	2240	3.497115	TCTGGGTGTGGCAGGCAA	61.497	61.111	0.00	0.00	0.00	4.52
2149	2331	2.036256	ACCTTGGCATCTGGGTGC	59.964	61.111	0.00	0.00	44.31	5.01
2158	2340	1.074775	GACACCATGGACCTTGGCA	59.925	57.895	21.47	0.00	37.81	4.92
2173	2355	4.269523	GGGTGTGGCAGGCAGACA	62.270	66.667	23.68	4.90	0.00	3.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.