AutoCloner

Multiple sequence alignment - TraesCS2A01G171600

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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	TraesCS2A01G171600	chr2A	100.000	2816	0	0	1	2816	127196834	127194019	0.000000e+00	5201
1	TraesCS2A01G171600	chr2A	89.810	579	49	9	2246	2816	515485762	515486338	0.000000e+00	734
2	TraesCS2A01G171600	chr2A	89.328	506	43	8	2321	2816	206112511	206112007	2.380000e-175	625
3	TraesCS2A01G171600	chr2B	92.051	1711	71	21	505	2182	175628307	175626629	0.000000e+00	2346
4	TraesCS2A01G171600	chr2B	89.735	565	48	9	2255	2816	675957494	675958051	0.000000e+00	713
5	TraesCS2A01G171600	chr2B	89.172	471	25	11	1	466	175628757	175628308	5.270000e-157	564
6	TraesCS2A01G171600	chr2D	95.395	1216	35	7	580	1789	122862103	122860903	0.000000e+00	1916
7	TraesCS2A01G171600	chr2D	88.862	413	27	9	1842	2243	122860735	122860331	9.060000e-135	490
8	TraesCS2A01G171600	chr2D	86.200	471	20	16	1	453	122862659	122862216	4.250000e-128	468
9	TraesCS2A01G171600	chr7D	89.717	671	64	4	1149	1818	630720476	630721142	0.000000e+00	852
10	TraesCS2A01G171600	chr7D	87.631	477	53	5	1332	1807	638647483	638647012	1.470000e-152	549
11	TraesCS2A01G171600	chr7D	76.109	586	103	30	2249	2813	556978457	556979026	3.570000e-69	272
12	TraesCS2A01G171600	chr5A	92.995	571	36	3	2250	2816	66120147	66119577	0.000000e+00	830
13	TraesCS2A01G171600	chr5A	91.243	571	41	6	2255	2816	482722027	482722597	0.000000e+00	769
14	TraesCS2A01G171600	chr4A	92.746	579	34	2	2246	2816	516643760	516644338	0.000000e+00	830
15	TraesCS2A01G171600	chr4A	92.457	411	23	2	2248	2650	468659705	468659295	5.230000e-162	580
16	TraesCS2A01G171600	chr7A	91.434	572	43	6	2248	2816	699075722	699076290	0.000000e+00	780
17	TraesCS2A01G171600	chr7A	89.157	581	48	7	2250	2816	595128172	595127593	0.000000e+00	710
18	TraesCS2A01G171600	chr6A	90.484	578	44	10	2248	2816	54945155	54945730	0.000000e+00	752
19	TraesCS2A01G171600	chr5B	90.493	568	46	8	2255	2816	181577470	181578035	0.000000e+00	743
20	TraesCS2A01G171600	chr5B	88.070	570	43	9	2255	2812	658929162	658929718	0.000000e+00	652
21	TraesCS2A01G171600	chr1B	86.477	562	49	13	2260	2815	547530941	547531481	2.420000e-165	592
22	TraesCS2A01G171600	chr1A	94.034	352	20	1	2250	2600	91105569	91105920	1.490000e-147	532
23	TraesCS2A01G171600	chr3B	89.941	338	17	5	2480	2813	543852125	543852449	1.210000e-113	420
24	TraesCS2A01G171600	chr3B	90.210	143	8	3	49	191	368867798	368867662	6.200000e-42	182
25	TraesCS2A01G171600	chrUn	88.811	143	10	2	49	191	251407666	251407530	1.340000e-38	171
26	TraesCS2A01G171600	chrUn	88.811	143	10	2	49	191	345806988	345807124	1.340000e-38	171
27	TraesCS2A01G171600	chr3A	88.811	143	10	2	49	191	51832294	51832430	1.340000e-38	171
28	TraesCS2A01G171600	chr6B	89.130	138	9	4	54	191	613164451	613164320	1.740000e-37	167

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	TraesCS2A01G171600	chr2A	127194019	127196834	2815	True	5201	5201	100.000000	1	2816	1	chr2A.!!$R1	2815
1	TraesCS2A01G171600	chr2A	515485762	515486338	576	False	734	734	89.810000	2246	2816	1	chr2A.!!$F1	570
2	TraesCS2A01G171600	chr2A	206112007	206112511	504	True	625	625	89.328000	2321	2816	1	chr2A.!!$R2	495
3	TraesCS2A01G171600	chr2B	175626629	175628757	2128	True	1455	2346	90.611500	1	2182	2	chr2B.!!$R1	2181
4	TraesCS2A01G171600	chr2B	675957494	675958051	557	False	713	713	89.735000	2255	2816	1	chr2B.!!$F1	561
5	TraesCS2A01G171600	chr2D	122860331	122862659	2328	True	958	1916	90.152333	1	2243	3	chr2D.!!$R1	2242
6	TraesCS2A01G171600	chr7D	630720476	630721142	666	False	852	852	89.717000	1149	1818	1	chr7D.!!$F2	669
7	TraesCS2A01G171600	chr7D	556978457	556979026	569	False	272	272	76.109000	2249	2813	1	chr7D.!!$F1	564
8	TraesCS2A01G171600	chr5A	66119577	66120147	570	True	830	830	92.995000	2250	2816	1	chr5A.!!$R1	566
9	TraesCS2A01G171600	chr5A	482722027	482722597	570	False	769	769	91.243000	2255	2816	1	chr5A.!!$F1	561
10	TraesCS2A01G171600	chr4A	516643760	516644338	578	False	830	830	92.746000	2246	2816	1	chr4A.!!$F1	570
11	TraesCS2A01G171600	chr7A	699075722	699076290	568	False	780	780	91.434000	2248	2816	1	chr7A.!!$F1	568
12	TraesCS2A01G171600	chr7A	595127593	595128172	579	True	710	710	89.157000	2250	2816	1	chr7A.!!$R1	566
13	TraesCS2A01G171600	chr6A	54945155	54945730	575	False	752	752	90.484000	2248	2816	1	chr6A.!!$F1	568
14	TraesCS2A01G171600	chr5B	181577470	181578035	565	False	743	743	90.493000	2255	2816	1	chr5B.!!$F1	561
15	TraesCS2A01G171600	chr5B	658929162	658929718	556	False	652	652	88.070000	2255	2812	1	chr5B.!!$F2	557
16	TraesCS2A01G171600	chr1B	547530941	547531481	540	False	592	592	86.477000	2260	2815	1	chr1B.!!$F1	555

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
443	463	0.471617	AGTTGAGCAGTGGCACTCTT	59.528	50.0	19.13	8.78	44.61	2.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2244	2464	1.062148	GCAGTTATCGGCGTCCTTTTC	59.938	52.381	6.85	0.0	0.0	2.29	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
31	32	7.114754	TCATTCAGATTTCTAGCAGACCATTT	58.885	34.615	0.00	0.00	0.00	2.32
32	33	8.267183	TCATTCAGATTTCTAGCAGACCATTTA	58.733	33.333	0.00	0.00	0.00	1.40
33	34	8.557864	CATTCAGATTTCTAGCAGACCATTTAG	58.442	37.037	0.00	0.00	0.00	1.85
34	35	6.051717	TCAGATTTCTAGCAGACCATTTAGC	58.948	40.000	0.00	0.00	0.00	3.09
36	37	6.317140	CAGATTTCTAGCAGACCATTTAGCAA	59.683	38.462	0.00	0.00	0.00	3.91
39	40	2.134789	AGCAGACCATTTAGCAAGGG	57.865	50.000	0.00	0.00	39.95	3.95
65	69	7.888250	TCATATCATTCATATCCTCTAGCGT	57.112	36.000	0.00	0.00	0.00	5.07
93	97	9.468532	GATCCAATCAGATTTTATAAAGCCAAC	57.531	33.333	0.00	0.00	0.00	3.77
111	115	0.677731	ACGCCTGACATCCATTGTGG	60.678	55.000	0.00	0.00	39.18	4.17
132	136	3.307762	GGGGGATCATCTTTTATCGGGAG	60.308	52.174	0.00	0.00	0.00	4.30
133	137	3.583086	GGGGATCATCTTTTATCGGGAGA	59.417	47.826	0.00	0.00	46.90	3.71
134	138	4.563786	GGGGATCATCTTTTATCGGGAGAC	60.564	50.000	0.00	0.00	44.82	3.36
135	139	4.040461	GGGATCATCTTTTATCGGGAGACA	59.960	45.833	0.00	0.00	44.82	3.41
136	140	5.280215	GGGATCATCTTTTATCGGGAGACAT	60.280	44.000	0.00	0.00	44.82	3.06
218	222	1.139498	TCCATGCCTTCCCCAAGACA	61.139	55.000	0.00	0.00	0.00	3.41
277	282	5.049129	GGAAGACCAGTTGATGAAGTTGAAG	60.049	44.000	0.00	0.00	35.97	3.02
278	283	5.296151	AGACCAGTTGATGAAGTTGAAGA	57.704	39.130	0.00	0.00	0.00	2.87
353	358	7.924103	AAACAAAAGATAAGTTTTAGTGCGG	57.076	32.000	0.00	0.00	31.95	5.69
365	381	6.694447	AGTTTTAGTGCGGACAGATAAGTTA	58.306	36.000	10.52	0.00	0.00	2.24
409	429	9.927081	ATTTTGTAGGGTAGAAGAATGAATGAT	57.073	29.630	0.00	0.00	0.00	2.45
439	459	3.348236	CCAGTTGAGCAGTGGCAC	58.652	61.111	10.29	10.29	44.61	5.01
440	460	1.228063	CCAGTTGAGCAGTGGCACT	60.228	57.895	15.88	15.88	44.61	4.40
443	463	0.471617	AGTTGAGCAGTGGCACTCTT	59.528	50.000	19.13	8.78	44.61	2.85
444	464	1.133976	AGTTGAGCAGTGGCACTCTTT	60.134	47.619	19.13	5.94	44.61	2.52
466	486	4.854361	TTTTGTTTTCTGTACGTACGCA	57.146	36.364	20.18	5.21	0.00	5.24
467	487	3.839823	TTGTTTTCTGTACGTACGCAC	57.160	42.857	20.18	14.06	0.00	5.34
476	496	2.468532	CGTACGCACGCCTGTTTC	59.531	61.111	0.52	0.00	42.05	2.78
477	497	2.858158	GTACGCACGCCTGTTTCC	59.142	61.111	0.00	0.00	0.00	3.13
478	498	2.735478	TACGCACGCCTGTTTCCG	60.735	61.111	0.00	0.00	0.00	4.30
481	501	3.723348	GCACGCCTGTTTCCGGTC	61.723	66.667	0.00	0.00	0.00	4.79
482	502	3.411351	CACGCCTGTTTCCGGTCG	61.411	66.667	0.00	0.00	0.00	4.79
485	505	2.746277	GCCTGTTTCCGGTCGCAT	60.746	61.111	0.00	0.00	0.00	4.73
486	506	2.750888	GCCTGTTTCCGGTCGCATC	61.751	63.158	0.00	0.00	0.00	3.91
510	531	1.211212	TGCTGATCTGCTTGCCTGTAT	59.789	47.619	23.02	0.00	0.00	2.29
532	553	3.657239	TCCCATATGTATTCCTGCCACAT	59.343	43.478	1.24	0.00	36.82	3.21
533	554	3.760151	CCCATATGTATTCCTGCCACATG	59.240	47.826	1.24	0.00	34.78	3.21
540	561	0.890542	TTCCTGCCACATGTCTGCAC	60.891	55.000	14.05	0.00	0.00	4.57
571	592	8.649841	CATTTCGACCAGTAAATTTACGTAAGA	58.350	33.333	19.92	14.48	43.62	2.10
659	712	5.605534	GACTGTACATGCTGATATTGACCT	58.394	41.667	0.00	0.00	0.00	3.85
704	757	2.505982	GCTGATAGCTTCCCGGCA	59.494	61.111	0.00	0.00	38.45	5.69
951	1009	2.711922	GCCGATCCGTCACTGTCCT	61.712	63.158	0.00	0.00	0.00	3.85
1560	1631	4.803426	GAGGTCGGGCAGCTCGTG	62.803	72.222	15.94	0.00	39.82	4.35
1856	2042	0.671251	GGATCCTAGAGTGCTGTCGG	59.329	60.000	3.84	0.00	0.00	4.79
1877	2063	4.155280	CGGTTTGGGAATAATGAACTCGTT	59.845	41.667	0.00	0.00	0.00	3.85
1878	2064	5.335348	CGGTTTGGGAATAATGAACTCGTTT	60.335	40.000	0.00	0.00	0.00	3.60
1879	2065	5.861787	GGTTTGGGAATAATGAACTCGTTTG	59.138	40.000	0.00	0.00	0.00	2.93
1880	2066	4.695217	TGGGAATAATGAACTCGTTTGC	57.305	40.909	0.00	0.00	0.00	3.68
1979	2172	3.009723	CCGATGCATTCAGTTGGTACTT	58.990	45.455	0.00	0.00	30.26	2.24
2013	2206	0.678048	AGGAATCAGGAACCAAGCGC	60.678	55.000	0.00	0.00	0.00	5.92
2016	2209	0.036732	AATCAGGAACCAAGCGCTGA	59.963	50.000	12.58	1.51	0.00	4.26
2060	2270	8.887036	TCATCGCTAAACATGTGATATTAAGT	57.113	30.769	0.00	0.00	33.88	2.24
2064	2274	8.708742	TCGCTAAACATGTGATATTAAGTATGC	58.291	33.333	0.00	0.00	0.00	3.14
2175	2395	7.871853	AGTTATGTGCGTTTTTCATTCTACTT	58.128	30.769	0.00	0.00	0.00	2.24
2176	2396	8.349983	AGTTATGTGCGTTTTTCATTCTACTTT	58.650	29.630	0.00	0.00	0.00	2.66
2183	2403	6.399986	GCGTTTTTCATTCTACTTTGGATTGC	60.400	38.462	0.00	0.00	0.00	3.56
2186	2406	5.545658	TTCATTCTACTTTGGATTGCGTC	57.454	39.130	0.00	0.00	0.00	5.19
2205	2425	3.555956	CGTCCGGGAGATTCTTTGTAATG	59.444	47.826	0.00	0.00	0.00	1.90
2210	2430	5.878116	CCGGGAGATTCTTTGTAATGTTGTA	59.122	40.000	0.00	0.00	0.00	2.41
2211	2431	6.542370	CCGGGAGATTCTTTGTAATGTTGTAT	59.458	38.462	0.00	0.00	0.00	2.29
2214	2434	9.573133	GGGAGATTCTTTGTAATGTTGTATTTG	57.427	33.333	0.00	0.00	0.00	2.32
2243	2463	7.878477	ATAAAGTGTCGACGTTATTTCAAGA	57.122	32.000	11.62	0.00	34.29	3.02
2244	2464	5.824243	AAGTGTCGACGTTATTTCAAGAG	57.176	39.130	11.62	0.00	0.00	2.85
2498	2730	3.717294	CCACCTCCCGAACCCCTG	61.717	72.222	0.00	0.00	0.00	4.45
2506	2738	2.677228	CGAACCCCTGCCTCCATT	59.323	61.111	0.00	0.00	0.00	3.16
2693	2980	2.269023	TCTCATCCTTCTTCTGGGCAA	58.731	47.619	0.00	0.00	0.00	4.52

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
31	32	8.435187	GGATATGAATGATATGATCCCTTGCTA	58.565	37.037	0.00	0.00	0.00	3.49
32	33	7.129038	AGGATATGAATGATATGATCCCTTGCT	59.871	37.037	0.00	0.00	34.57	3.91
33	34	7.288560	AGGATATGAATGATATGATCCCTTGC	58.711	38.462	0.00	0.00	34.57	4.01
34	35	8.715842	AGAGGATATGAATGATATGATCCCTTG	58.284	37.037	0.00	0.00	34.57	3.61
36	37	9.604569	CTAGAGGATATGAATGATATGATCCCT	57.395	37.037	0.00	0.00	34.57	4.20
39	40	8.575589	ACGCTAGAGGATATGAATGATATGATC	58.424	37.037	0.00	0.00	0.00	2.92
65	69	7.784073	TGGCTTTATAAAATCTGATTGGATCCA	59.216	33.333	11.44	11.44	0.00	3.41
93	97	1.378882	CCCACAATGGATGTCAGGCG	61.379	60.000	0.00	0.00	41.46	5.52
111	115	3.583086	TCTCCCGATAAAAGATGATCCCC	59.417	47.826	0.00	0.00	0.00	4.81
132	136	1.315690	CCATCAGGCCATGTCATGTC	58.684	55.000	5.01	0.00	0.00	3.06
133	137	0.627451	ACCATCAGGCCATGTCATGT	59.373	50.000	5.01	0.00	39.06	3.21
134	138	1.771565	AACCATCAGGCCATGTCATG	58.228	50.000	5.01	5.79	39.06	3.07
135	139	2.024655	AGAAACCATCAGGCCATGTCAT	60.025	45.455	5.01	0.00	39.06	3.06
136	140	1.355381	AGAAACCATCAGGCCATGTCA	59.645	47.619	5.01	0.00	39.06	3.58
250	255	4.990526	ACTTCATCAACTGGTCTTCCATT	58.009	39.130	0.00	0.00	43.43	3.16
264	269	4.058124	CCGACTGTTCTTCAACTTCATCA	58.942	43.478	0.00	0.00	33.17	3.07
353	358	7.667043	TGTGTCCAACATTAACTTATCTGTC	57.333	36.000	0.00	0.00	32.36	3.51
365	381	6.405538	ACAAAATTCACTTGTGTCCAACATT	58.594	32.000	0.46	0.00	38.99	2.71
409	429	4.962362	TGCTCAACTGGTCTATGATCCTAA	59.038	41.667	0.00	0.00	0.00	2.69
444	464	5.020758	GTGCGTACGTACAGAAAACAAAAA	58.979	37.500	28.14	0.00	0.00	1.94
468	488	2.746277	ATGCGACCGGAAACAGGC	60.746	61.111	9.46	2.07	0.00	4.85
469	489	0.673644	AAGATGCGACCGGAAACAGG	60.674	55.000	9.46	0.00	0.00	4.00
470	490	1.156736	AAAGATGCGACCGGAAACAG	58.843	50.000	9.46	0.00	0.00	3.16
471	491	1.265635	CAAAAGATGCGACCGGAAACA	59.734	47.619	9.46	2.34	0.00	2.83
472	492	1.963747	CAAAAGATGCGACCGGAAAC	58.036	50.000	9.46	0.00	0.00	2.78
473	493	0.239879	GCAAAAGATGCGACCGGAAA	59.760	50.000	9.46	0.00	46.87	3.13
474	494	1.873165	GCAAAAGATGCGACCGGAA	59.127	52.632	9.46	0.00	46.87	4.30
475	495	3.573558	GCAAAAGATGCGACCGGA	58.426	55.556	9.46	0.00	46.87	5.14
483	503	3.179830	GCAAGCAGATCAGCAAAAGATG	58.820	45.455	13.03	2.94	36.85	2.90
484	504	2.165845	GGCAAGCAGATCAGCAAAAGAT	59.834	45.455	13.03	0.00	36.85	2.40
485	505	1.542915	GGCAAGCAGATCAGCAAAAGA	59.457	47.619	13.03	0.00	36.85	2.52
486	506	1.544691	AGGCAAGCAGATCAGCAAAAG	59.455	47.619	13.03	0.32	36.85	2.27
494	514	1.141657	TGGGATACAGGCAAGCAGATC	59.858	52.381	0.00	0.00	39.74	2.75
498	518	2.442878	ACATATGGGATACAGGCAAGCA	59.557	45.455	7.80	0.00	39.74	3.91
499	519	3.146104	ACATATGGGATACAGGCAAGC	57.854	47.619	7.80	0.00	39.74	4.01
510	531	3.052329	TGTGGCAGGAATACATATGGGA	58.948	45.455	7.80	0.00	0.00	4.37
532	553	2.543848	GTCGAAATGTTCAGTGCAGACA	59.456	45.455	0.00	0.00	0.00	3.41
533	554	2.096218	GGTCGAAATGTTCAGTGCAGAC	60.096	50.000	0.00	0.00	0.00	3.51
540	561	7.477422	CGTAAATTTACTGGTCGAAATGTTCAG	59.523	37.037	22.57	1.32	0.00	3.02
571	592	7.394359	TCCAGTTAAGAAAATGAAGCAGCTAAT	59.606	33.333	0.00	0.00	32.43	1.73
659	712	2.511545	CTGGCATCCAGCACTGACGA	62.512	60.000	0.00	0.00	45.13	4.20
704	757	2.654079	CCTTCGGGAGCTGCAGACT	61.654	63.158	20.43	14.36	37.25	3.24
833	886	4.430765	AACGGACTAGCACGGCGG	62.431	66.667	13.24	0.66	0.00	6.13
834	887	2.879462	GAACGGACTAGCACGGCG	60.879	66.667	4.80	4.80	0.00	6.46
835	888	2.879462	CGAACGGACTAGCACGGC	60.879	66.667	10.81	2.71	0.00	5.68
951	1009	4.514594	ATCGGGATGGGGCTGGGA	62.515	66.667	0.00	0.00	0.00	4.37
1606	1677	2.592993	CCCCGAAGCTGACCTTGGA	61.593	63.158	0.00	0.00	32.78	3.53
1823	1894	5.471424	TCTAGGATCCAGATCAACCTGAAT	58.529	41.667	15.82	0.00	39.54	2.57
1835	1906	1.336440	CGACAGCACTCTAGGATCCAG	59.664	57.143	15.82	9.58	0.00	3.86
1856	2042	5.344933	GCAAACGAGTTCATTATTCCCAAAC	59.655	40.000	0.00	0.00	0.00	2.93
1877	2063	7.692460	AGATTGATACAGATTTCACAAGCAA	57.308	32.000	0.00	0.00	0.00	3.91
1878	2064	7.391275	TCAAGATTGATACAGATTTCACAAGCA	59.609	33.333	0.00	0.00	31.01	3.91
1879	2065	7.755591	TCAAGATTGATACAGATTTCACAAGC	58.244	34.615	0.00	0.00	31.01	4.01
1880	2066	9.159364	TCTCAAGATTGATACAGATTTCACAAG	57.841	33.333	0.00	0.00	36.46	3.16
1920	2110	2.333938	CACAGCAGGCACAGCAAC	59.666	61.111	0.00	0.00	45.86	4.17
1979	2172	5.163343	CCTGATTCCTGGTATTAGAAACGGA	60.163	44.000	6.66	0.00	0.00	4.69
2013	2206	5.067674	TGAGAAGGGTTGTGAACAAATTCAG	59.932	40.000	14.44	0.00	45.58	3.02
2016	2209	5.278463	CGATGAGAAGGGTTGTGAACAAATT	60.278	40.000	0.00	0.00	37.63	1.82
2060	2270	3.452755	ACCAAAGATGTCGATCGCATA	57.547	42.857	19.99	6.62	33.34	3.14
2064	2274	5.557136	GCTTGAATACCAAAGATGTCGATCG	60.557	44.000	9.36	9.36	33.76	3.69
2067	2277	4.574892	TGCTTGAATACCAAAGATGTCGA	58.425	39.130	0.00	0.00	33.76	4.20
2115	2333	5.620738	ACATGACTGGCTAATACATGAGT	57.379	39.130	0.00	0.00	40.13	3.41
2147	2367	9.769093	GTAGAATGAAAAACGCACATAACTAAT	57.231	29.630	0.00	0.00	0.00	1.73
2154	2374	5.920273	CCAAAGTAGAATGAAAAACGCACAT	59.080	36.000	0.00	0.00	0.00	3.21
2159	2379	6.183359	CGCAATCCAAAGTAGAATGAAAAACG	60.183	38.462	0.00	0.00	0.00	3.60
2183	2403	2.953466	TACAAAGAATCTCCCGGACG	57.047	50.000	0.73	0.00	0.00	4.79
2186	2406	4.700213	ACAACATTACAAAGAATCTCCCGG	59.300	41.667	0.00	0.00	0.00	5.73
2210	2430	9.745880	ATAACGTCGACACTTTATAGATCAAAT	57.254	29.630	17.16	0.00	27.81	2.32
2211	2431	9.577110	AATAACGTCGACACTTTATAGATCAAA	57.423	29.630	17.16	0.00	29.15	2.69
2214	2434	9.229784	TGAAATAACGTCGACACTTTATAGATC	57.770	33.333	17.16	12.85	29.15	2.75
2215	2435	9.577110	TTGAAATAACGTCGACACTTTATAGAT	57.423	29.630	17.16	5.54	29.15	1.98
2216	2436	8.969121	TTGAAATAACGTCGACACTTTATAGA	57.031	30.769	17.16	1.05	29.15	1.98
2217	2437	9.069078	TCTTGAAATAACGTCGACACTTTATAG	57.931	33.333	17.16	8.87	29.15	1.31
2218	2438	8.969121	TCTTGAAATAACGTCGACACTTTATA	57.031	30.769	17.16	0.00	29.15	0.98
2219	2439	7.811236	TCTCTTGAAATAACGTCGACACTTTAT	59.189	33.333	17.16	11.57	30.18	1.40
2220	2440	7.140705	TCTCTTGAAATAACGTCGACACTTTA	58.859	34.615	17.16	9.76	0.00	1.85
2221	2441	5.981315	TCTCTTGAAATAACGTCGACACTTT	59.019	36.000	17.16	8.65	0.00	2.66
2243	2463	2.618053	CAGTTATCGGCGTCCTTTTCT	58.382	47.619	6.85	0.00	0.00	2.52
2244	2464	1.062148	GCAGTTATCGGCGTCCTTTTC	59.938	52.381	6.85	0.00	0.00	2.29
2371	2591	2.282110	CGGGGTTGCCACACATCA	60.282	61.111	0.00	0.00	0.00	3.07
2506	2738	3.249189	AACCAGAGAAGGCCGGCA	61.249	61.111	30.85	0.00	0.00	5.69
2693	2980	8.136800	ACCTTCGTCGGTAATTTTGTAATTTTT	58.863	29.630	0.00	0.00	35.61	1.94
2700	2987	2.809696	CCACCTTCGTCGGTAATTTTGT	59.190	45.455	0.00	0.00	34.94	2.83

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.