AutoCloner

Multiple sequence alignment - TraesCS4D01G013800

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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	TraesCS4D01G013800	chr4D	100.000	3065	0	0	1	3065	6463688	6460624	0.000000e+00	5661.0
1	TraesCS4D01G013800	chr4D	85.591	694	65	14	1	675	207364581	207363904	0.000000e+00	695.0
2	TraesCS4D01G013800	chr4B	95.115	2088	39	22	652	2700	26337096	26335033	0.000000e+00	3232.0
3	TraesCS4D01G013800	chr4B	86.705	692	57	12	6	675	495580892	495581570	0.000000e+00	736.0
4	TraesCS4D01G013800	chr4B	88.274	452	27	11	230	662	26337562	26337118	4.530000e-143	518.0
5	TraesCS4D01G013800	chr4B	96.516	287	8	2	2779	3065	26335034	26334750	9.950000e-130	473.0
6	TraesCS4D01G013800	chr4B	94.737	133	5	2	1	133	26337687	26337557	4.010000e-49	206.0
7	TraesCS4D01G013800	chr7A	90.981	1907	93	26	854	2720	663604930	663603063	0.000000e+00	2495.0
8	TraesCS4D01G013800	chr7A	87.191	687	56	12	7	675	352622907	352623579	0.000000e+00	752.0
9	TraesCS4D01G013800	chr7A	95.533	291	11	2	2764	3054	663603065	663602777	5.990000e-127	464.0
10	TraesCS4D01G013800	chr7A	82.960	446	49	16	239	675	88186210	88185783	8.020000e-101	377.0
11	TraesCS4D01G013800	chr7A	97.500	80	2	0	712	791	663605037	663604958	1.480000e-28	137.0
12	TraesCS4D01G013800	chr7D	92.261	1486	78	23	765	2235	574291045	574289582	0.000000e+00	2073.0
13	TraesCS4D01G013800	chr7D	88.994	845	51	18	2233	3065	574289501	574288687	0.000000e+00	1007.0
14	TraesCS4D01G013800	chr7D	98.571	70	1	0	712	781	574291130	574291061	1.150000e-24	124.0
15	TraesCS4D01G013800	chr7D	81.553	103	5	7	1009	1098	574284970	574285071	4.240000e-09	73.1
16	TraesCS4D01G013800	chrUn	90.714	1540	79	23	712	2202	289618732	289620256	0.000000e+00	1993.0
17	TraesCS4D01G013800	chrUn	90.714	1540	79	22	712	2202	299516546	299515022	0.000000e+00	1993.0
18	TraesCS4D01G013800	chrUn	88.023	693	52	12	1	675	354076617	354077296	0.000000e+00	791.0
19	TraesCS4D01G013800	chrUn	87.734	693	53	12	1	675	216512920	216512242	0.000000e+00	780.0
20	TraesCS4D01G013800	chrUn	87.734	693	53	12	1	675	286270463	286271141	0.000000e+00	780.0
21	TraesCS4D01G013800	chrUn	87.465	359	24	9	1	349	379970697	379970350	7.970000e-106	394.0
22	TraesCS4D01G013800	chrUn	93.814	194	9	2	2871	3064	86971737	86971547	3.870000e-74	289.0
23	TraesCS4D01G013800	chrUn	98.630	73	1	0	2156	2228	289620279	289620351	2.480000e-26	130.0
24	TraesCS4D01G013800	chrUn	98.630	73	1	0	2156	2228	299514999	299514927	2.480000e-26	130.0
25	TraesCS4D01G013800	chrUn	100.000	41	0	0	2831	2871	277181509	277181469	3.280000e-10	76.8
26	TraesCS4D01G013800	chrUn	100.000	41	0	0	2831	2871	337642410	337642370	3.280000e-10	76.8
27	TraesCS4D01G013800	chr7B	90.714	1540	79	22	712	2202	632966834	632965310	0.000000e+00	1993.0
28	TraesCS4D01G013800	chr7B	93.214	560	29	4	2511	3065	632711637	632712192	0.000000e+00	815.0
29	TraesCS4D01G013800	chr7B	92.679	560	32	5	2511	3065	632957653	632957098	0.000000e+00	798.0
30	TraesCS4D01G013800	chr7B	83.406	229	15	6	2233	2461	632711423	632711628	1.120000e-44	191.0
31	TraesCS4D01G013800	chr7B	82.533	229	15	7	2233	2461	632957865	632957662	8.730000e-41	178.0
32	TraesCS4D01G013800	chr7B	98.630	73	1	0	2156	2228	632965287	632965215	2.480000e-26	130.0
33	TraesCS4D01G013800	chr7B	100.000	41	0	0	2831	2871	632740402	632740442	3.280000e-10	76.8
34	TraesCS4D01G013800	chr1D	88.312	693	50	12	1	675	254392127	254391448	0.000000e+00	802.0
35	TraesCS4D01G013800	chr1D	88.184	694	52	15	1	675	254389403	254388721	0.000000e+00	800.0
36	TraesCS4D01G013800	chr1D	89.307	505	33	9	1	495	254390438	254390931	5.620000e-172	614.0
37	TraesCS4D01G013800	chr1D	88.538	506	37	8	181	668	254391439	254390937	7.320000e-166	593.0
38	TraesCS4D01G013800	chr1A	88.312	693	50	13	1	675	278528554	278527875	0.000000e+00	802.0
39	TraesCS4D01G013800	chr5D	88.261	690	51	12	1	672	503234219	503234896	0.000000e+00	798.0
40	TraesCS4D01G013800	chr5D	88.167	693	51	12	1	675	503223904	503224583	0.000000e+00	797.0
41	TraesCS4D01G013800	chr6D	88.023	693	51	12	1	675	458921001	458921679	0.000000e+00	791.0
42	TraesCS4D01G013800	chr6D	88.008	492	38	8	202	675	108492357	108491869	2.060000e-156	562.0
43	TraesCS4D01G013800	chr3B	87.879	693	55	12	1	675	201532713	201533394	0.000000e+00	787.0
44	TraesCS4D01G013800	chr3A	88.064	687	51	12	7	675	672904321	672903648	0.000000e+00	785.0
45	TraesCS4D01G013800	chr3D	87.734	693	52	12	1	675	48691509	48690832	0.000000e+00	778.0
46	TraesCS4D01G013800	chr1B	87.446	693	56	12	1	675	619187970	619188649	0.000000e+00	769.0
47	TraesCS4D01G013800	chr1B	86.352	403	41	7	282	675	396534256	396533859	7.850000e-116	427.0
48	TraesCS4D01G013800	chr5B	86.561	692	59	11	1	675	617034470	617033796	0.000000e+00	732.0
49	TraesCS4D01G013800	chr4A	86.291	693	63	12	1	675	310790786	310790108	0.000000e+00	725.0
50	TraesCS4D01G013800	chr4A	85.799	169	22	2	493	661	48693409	48693575	8.730000e-41	178.0
51	TraesCS4D01G013800	chr6B	88.515	505	37	8	1	495	625615384	625615877	2.630000e-165	592.0
52	TraesCS4D01G013800	chr2B	76.022	905	157	35	1184	2064	744856981	744856113	6.110000e-112	414.0
53	TraesCS4D01G013800	chr2A	89.441	161	10	5	81	240	724270523	724270677	2.410000e-46	196.0

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	TraesCS4D01G013800	chr4D	6460624	6463688	3064	True	5661.000000	5661	100.000000	1	3065	1	chr4D.!!$R1	3064
1	TraesCS4D01G013800	chr4D	207363904	207364581	677	True	695.000000	695	85.591000	1	675	1	chr4D.!!$R2	674
2	TraesCS4D01G013800	chr4B	26334750	26337687	2937	True	1107.250000	3232	93.660500	1	3065	4	chr4B.!!$R1	3064
3	TraesCS4D01G013800	chr4B	495580892	495581570	678	False	736.000000	736	86.705000	6	675	1	chr4B.!!$F1	669
4	TraesCS4D01G013800	chr7A	663602777	663605037	2260	True	1032.000000	2495	94.671333	712	3054	3	chr7A.!!$R2	2342
5	TraesCS4D01G013800	chr7A	352622907	352623579	672	False	752.000000	752	87.191000	7	675	1	chr7A.!!$F1	668
6	TraesCS4D01G013800	chr7D	574288687	574291130	2443	True	1068.000000	2073	93.275333	712	3065	3	chr7D.!!$R1	2353
7	TraesCS4D01G013800	chrUn	289618732	289620351	1619	False	1061.500000	1993	94.672000	712	2228	2	chrUn.!!$F3	1516
8	TraesCS4D01G013800	chrUn	299514927	299516546	1619	True	1061.500000	1993	94.672000	712	2228	2	chrUn.!!$R6	1516
9	TraesCS4D01G013800	chrUn	354076617	354077296	679	False	791.000000	791	88.023000	1	675	1	chrUn.!!$F2	674
10	TraesCS4D01G013800	chrUn	216512242	216512920	678	True	780.000000	780	87.734000	1	675	1	chrUn.!!$R2	674
11	TraesCS4D01G013800	chrUn	286270463	286271141	678	False	780.000000	780	87.734000	1	675	1	chrUn.!!$F1	674
12	TraesCS4D01G013800	chr7B	632965215	632966834	1619	True	1061.500000	1993	94.672000	712	2228	2	chr7B.!!$R2	1516
13	TraesCS4D01G013800	chr7B	632711423	632712192	769	False	503.000000	815	88.310000	2233	3065	2	chr7B.!!$F2	832
14	TraesCS4D01G013800	chr7B	632957098	632957865	767	True	488.000000	798	87.606000	2233	3065	2	chr7B.!!$R1	832
15	TraesCS4D01G013800	chr1D	254388721	254392127	3406	True	731.666667	802	88.344667	1	675	3	chr1D.!!$R1	674
16	TraesCS4D01G013800	chr1A	278527875	278528554	679	True	802.000000	802	88.312000	1	675	1	chr1A.!!$R1	674
17	TraesCS4D01G013800	chr5D	503234219	503234896	677	False	798.000000	798	88.261000	1	672	1	chr5D.!!$F2	671
18	TraesCS4D01G013800	chr5D	503223904	503224583	679	False	797.000000	797	88.167000	1	675	1	chr5D.!!$F1	674
19	TraesCS4D01G013800	chr6D	458921001	458921679	678	False	791.000000	791	88.023000	1	675	1	chr6D.!!$F1	674
20	TraesCS4D01G013800	chr3B	201532713	201533394	681	False	787.000000	787	87.879000	1	675	1	chr3B.!!$F1	674
21	TraesCS4D01G013800	chr3A	672903648	672904321	673	True	785.000000	785	88.064000	7	675	1	chr3A.!!$R1	668
22	TraesCS4D01G013800	chr3D	48690832	48691509	677	True	778.000000	778	87.734000	1	675	1	chr3D.!!$R1	674
23	TraesCS4D01G013800	chr1B	619187970	619188649	679	False	769.000000	769	87.446000	1	675	1	chr1B.!!$F1	674
24	TraesCS4D01G013800	chr5B	617033796	617034470	674	True	732.000000	732	86.561000	1	675	1	chr5B.!!$R1	674
25	TraesCS4D01G013800	chr4A	310790108	310790786	678	True	725.000000	725	86.291000	1	675	1	chr4A.!!$R1	674
26	TraesCS4D01G013800	chr2B	744856113	744856981	868	True	414.000000	414	76.022000	1184	2064	1	chr2B.!!$R1	880

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
175	179	0.544697	ACCACCCGGATGAACCATAC	59.455	55.0	0.73	0.0	38.90	2.39	F
797	3622	0.992695	GGGGGCAAGTCCTATATCCC	59.007	60.0	0.00	0.0	34.39	3.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1076	3967	0.452184	TGCGTAGAAGAGCTTCTCCG	59.548	55.0	17.42	17.42	46.13	4.63	R
2751	5851	0.107459	GATGGGACTTCAGGCTCCAC	60.107	60.0	0.00	0.00	0.00	4.02	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
104	105	7.898636	TGAAATTCCTGGGGAGTTATACATTTT	59.101	33.333	0.00	0.00	30.35	1.82
146	147	4.393062	TCACAATTTCTTGAAGCTCGATCC	59.607	41.667	0.00	0.00	36.20	3.36
175	179	0.544697	ACCACCCGGATGAACCATAC	59.455	55.000	0.73	0.00	38.90	2.39
177	181	1.065053	CCACCCGGATGAACCATACAA	60.065	52.381	0.73	0.00	38.90	2.41
187	191	5.888161	GGATGAACCATACAACCAAGAGAAT	59.112	40.000	0.00	0.00	38.79	2.40
223	233	2.036256	GAGCTTGCCCACCCATGT	59.964	61.111	0.00	0.00	0.00	3.21
229	239	1.967066	CTTGCCCACCCATGTGTAAAA	59.033	47.619	0.00	0.00	41.09	1.52
258	786	7.471041	TCATAGTAGCCTCATTAGACCATAGT	58.529	38.462	0.00	0.00	0.00	2.12
311	848	6.076981	ACTGAAACATTTTGGAGCTACAAG	57.923	37.500	12.08	2.98	0.00	3.16
376	914	5.809051	CCCTAGAGTGGTTGTTAATACGAAC	59.191	44.000	0.00	0.00	0.00	3.95
388	926	6.869473	TGTTAATACGAACAACAGAAACTCG	58.131	36.000	0.00	0.00	36.39	4.18
497	1044	8.143835	AGATTTCATTGAAATTGTTCGTTTCCT	58.856	29.630	22.14	10.23	41.56	3.36
503	1050	7.891183	TTGAAATTGTTCGTTTCCTGAAAAA	57.109	28.000	0.00	0.00	36.46	1.94
538	1085	3.056536	TCTTCTCTCCATCGGAACAACAG	60.057	47.826	0.00	0.00	0.00	3.16
630	1179	5.427806	AGAGGTTGAATCAATCATCTCTGGA	59.572	40.000	9.11	0.00	42.46	3.86
675	3465	5.221422	GGACACATTCTGGGAAAATGAAACA	60.221	40.000	3.06	0.00	37.51	2.83
676	3466	6.423776	ACACATTCTGGGAAAATGAAACAT	57.576	33.333	3.06	0.00	37.51	2.71
677	3467	7.309744	GGACACATTCTGGGAAAATGAAACATA	60.310	37.037	3.06	0.00	37.51	2.29
678	3468	7.605449	ACACATTCTGGGAAAATGAAACATAG	58.395	34.615	3.06	0.00	37.51	2.23
679	3469	7.233348	ACACATTCTGGGAAAATGAAACATAGT	59.767	33.333	3.06	0.00	37.51	2.12
681	3471	6.588719	TTCTGGGAAAATGAAACATAGTGG	57.411	37.500	0.00	0.00	0.00	4.00
686	3476	6.723515	TGGGAAAATGAAACATAGTGGAATCA	59.276	34.615	0.00	0.00	0.00	2.57
687	3477	7.399765	TGGGAAAATGAAACATAGTGGAATCAT	59.600	33.333	0.00	0.00	0.00	2.45
688	3478	7.922811	GGGAAAATGAAACATAGTGGAATCATC	59.077	37.037	0.00	0.00	0.00	2.92
689	3479	8.469200	GGAAAATGAAACATAGTGGAATCATCA	58.531	33.333	0.00	0.00	0.00	3.07
691	3481	9.811995	AAAATGAAACATAGTGGAATCATCATG	57.188	29.630	0.00	0.00	0.00	3.07
700	3490	5.327732	AGTGGAATCATCATGACTTGGTTT	58.672	37.500	0.00	0.00	0.00	3.27
787	3612	1.075601	TCAGATGAAAGGGGGCAAGT	58.924	50.000	0.00	0.00	0.00	3.16
792	3617	1.681229	TGAAAGGGGGCAAGTCCTAT	58.319	50.000	0.00	0.00	32.21	2.57
793	3618	2.853430	TGAAAGGGGGCAAGTCCTATA	58.147	47.619	0.00	0.00	32.21	1.31
794	3619	3.403322	TGAAAGGGGGCAAGTCCTATAT	58.597	45.455	0.00	0.00	32.21	0.86
795	3620	3.394606	TGAAAGGGGGCAAGTCCTATATC	59.605	47.826	0.00	0.00	32.21	1.63
796	3621	2.046280	AGGGGGCAAGTCCTATATCC	57.954	55.000	0.00	0.00	34.39	2.59
797	3622	0.992695	GGGGGCAAGTCCTATATCCC	59.007	60.000	0.00	0.00	34.39	3.85
917	3784	7.118245	GCTCCCAAAATTTAATCTTTCCTGTTG	59.882	37.037	0.00	0.00	0.00	3.33
1983	4905	0.251877	TCATGACCGGTGTGGAGGTA	60.252	55.000	14.63	0.00	41.51	3.08
2100	5022	4.576463	GGCTCCTACCATATGAGTTGTTTG	59.424	45.833	3.65	0.00	0.00	2.93
2440	5529	2.116125	GGAGTGGGGTTTGCAGCT	59.884	61.111	0.00	0.00	0.00	4.24
2509	5598	1.591863	GCATTCGAGGGACGCTACC	60.592	63.158	0.00	0.00	42.26	3.18
2588	5686	3.009805	ACATAAAGGGGTAGGGTCAACAC	59.990	47.826	0.00	0.00	0.00	3.32
2666	5764	4.082125	AGCTTTCTTTTGATGTCGGGATT	58.918	39.130	0.00	0.00	0.00	3.01
2669	5767	3.328382	TCTTTTGATGTCGGGATTCGT	57.672	42.857	0.00	0.00	40.32	3.85
2670	5768	3.670625	TCTTTTGATGTCGGGATTCGTT	58.329	40.909	0.00	0.00	40.32	3.85
2693	5791	7.489435	CGTTAGCTTTCTTCTCATCTGACATTA	59.511	37.037	0.00	0.00	0.00	1.90
2717	5817	3.181458	GGCATACCATCCTTCTTTACCGA	60.181	47.826	0.00	0.00	35.26	4.69
2740	5840	5.531122	TCGGTCCTTTCTTACTATCATGG	57.469	43.478	0.00	0.00	0.00	3.66
2751	5851	6.455647	TCTTACTATCATGGGCAAATACTCG	58.544	40.000	0.00	0.00	0.00	4.18
2772	5872	1.522580	GAGCCTGAAGTCCCATCGC	60.523	63.158	0.00	0.00	0.00	4.58
2806	5906	5.954757	TGTTAGGTCTTTAAATGGGGAACA	58.045	37.500	0.00	0.00	0.00	3.18
2826	5926	4.589908	ACATTCCTCCATCGTTAAAAGCT	58.410	39.130	0.00	0.00	0.00	3.74
3031	6133	3.963428	TTTGAAGAGTCCCTCTAGCAC	57.037	47.619	0.00	0.00	40.28	4.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
3	4	3.981071	TTTCGTCAATGGACTCCTGAT	57.019	42.857	0.00	0.00	42.05	2.90
104	105	6.353404	TGTGAGTGGTCTTATCAATACACA	57.647	37.500	0.00	0.00	33.30	3.72
121	122	4.380531	TCGAGCTTCAAGAAATTGTGAGT	58.619	39.130	0.00	0.00	0.00	3.41
150	151	1.276140	TTCATCCGGGTGGTTAGGGG	61.276	60.000	16.41	0.00	36.30	4.79
151	152	0.107361	GTTCATCCGGGTGGTTAGGG	60.107	60.000	16.41	0.00	36.30	3.53
152	153	0.107361	GGTTCATCCGGGTGGTTAGG	60.107	60.000	16.41	0.00	36.30	2.69
153	154	0.616371	TGGTTCATCCGGGTGGTTAG	59.384	55.000	16.41	0.00	39.52	2.34
154	155	1.291109	ATGGTTCATCCGGGTGGTTA	58.709	50.000	16.41	0.00	39.52	2.85
155	156	1.064979	GTATGGTTCATCCGGGTGGTT	60.065	52.381	16.41	0.00	39.52	3.67
156	157	0.544697	GTATGGTTCATCCGGGTGGT	59.455	55.000	16.41	0.00	39.52	4.16
159	161	1.064979	GGTTGTATGGTTCATCCGGGT	60.065	52.381	0.00	0.00	39.52	5.28
163	167	4.843728	TCTCTTGGTTGTATGGTTCATCC	58.156	43.478	0.00	0.00	0.00	3.51
175	179	4.081406	TGGTTCATGGATTCTCTTGGTTG	58.919	43.478	0.00	0.00	0.00	3.77
177	181	3.588842	TCTGGTTCATGGATTCTCTTGGT	59.411	43.478	0.00	0.00	0.00	3.67
187	191	4.718774	AGCTCTTCTATTCTGGTTCATGGA	59.281	41.667	0.00	0.00	0.00	3.41
229	239	8.034313	TGGTCTAATGAGGCTACTATGAAATT	57.966	34.615	0.00	0.00	0.00	1.82
280	817	7.986889	AGCTCCAAAATGTTTCAGTTTATGTTT	59.013	29.630	0.00	0.00	30.48	2.83
345	883	3.521727	ACAACCACTCTAGGGAGAATGT	58.478	45.455	0.00	0.00	41.86	2.71
376	914	4.250464	TGGCTATAACCGAGTTTCTGTTG	58.750	43.478	0.00	0.00	0.00	3.33
418	956	8.812972	ACTTTATGCATTCCTCTATCCGTATAA	58.187	33.333	3.54	0.00	0.00	0.98
503	1050	8.291032	CGATGGAGAGAAGAACGTATAATTAGT	58.709	37.037	0.00	0.00	0.00	2.24
513	1060	2.094700	TGTTCCGATGGAGAGAAGAACG	60.095	50.000	0.00	0.00	37.11	3.95
538	1085	7.108194	AGTTTAGTAGTAAGCATAACAACCCC	58.892	38.462	6.90	0.00	0.00	4.95
554	1101	8.818141	TGTCATCTCTTCAACAAGTTTAGTAG	57.182	34.615	0.00	0.00	0.00	2.57
675	3465	6.257994	ACCAAGTCATGATGATTCCACTAT	57.742	37.500	0.00	0.00	0.00	2.12
676	3466	5.698741	ACCAAGTCATGATGATTCCACTA	57.301	39.130	0.00	0.00	0.00	2.74
677	3467	4.581309	ACCAAGTCATGATGATTCCACT	57.419	40.909	0.00	0.00	0.00	4.00
678	3468	5.649782	AAACCAAGTCATGATGATTCCAC	57.350	39.130	0.00	0.00	0.00	4.02
679	3469	7.614974	TCATAAAACCAAGTCATGATGATTCCA	59.385	33.333	0.00	0.00	0.00	3.53
686	3476	9.357652	CGAAAATTCATAAAACCAAGTCATGAT	57.642	29.630	0.00	0.00	0.00	2.45
687	3477	8.356657	ACGAAAATTCATAAAACCAAGTCATGA	58.643	29.630	0.00	0.00	0.00	3.07
688	3478	8.427012	CACGAAAATTCATAAAACCAAGTCATG	58.573	33.333	0.00	0.00	0.00	3.07
689	3479	7.598493	CCACGAAAATTCATAAAACCAAGTCAT	59.402	33.333	0.00	0.00	0.00	3.06
690	3480	6.920758	CCACGAAAATTCATAAAACCAAGTCA	59.079	34.615	0.00	0.00	0.00	3.41
691	3481	6.921307	ACCACGAAAATTCATAAAACCAAGTC	59.079	34.615	0.00	0.00	0.00	3.01
700	3490	5.574082	CCGCATTACCACGAAAATTCATAA	58.426	37.500	0.00	0.00	0.00	1.90
787	3612	3.774766	CAACGATGGGATGGGATATAGGA	59.225	47.826	0.00	0.00	0.00	2.94
792	3617	3.201045	TGAAACAACGATGGGATGGGATA	59.799	43.478	0.00	0.00	0.00	2.59
793	3618	2.025416	TGAAACAACGATGGGATGGGAT	60.025	45.455	0.00	0.00	0.00	3.85
794	3619	1.352687	TGAAACAACGATGGGATGGGA	59.647	47.619	0.00	0.00	0.00	4.37
795	3620	1.832883	TGAAACAACGATGGGATGGG	58.167	50.000	0.00	0.00	0.00	4.00
796	3621	3.181487	GGAATGAAACAACGATGGGATGG	60.181	47.826	0.00	0.00	0.00	3.51
797	3622	3.443329	TGGAATGAAACAACGATGGGATG	59.557	43.478	0.00	0.00	0.00	3.51
984	3875	0.178068	TCATTTACCTGCCCTCTCGC	59.822	55.000	0.00	0.00	0.00	5.03
985	3876	1.202580	CCTCATTTACCTGCCCTCTCG	60.203	57.143	0.00	0.00	0.00	4.04
1076	3967	0.452184	TGCGTAGAAGAGCTTCTCCG	59.548	55.000	17.42	17.42	46.13	4.63
1130	4022	0.464554	CAGGGCCGGAATCTTCTTCC	60.465	60.000	5.05	0.00	35.27	3.46
1753	4663	3.305516	CAGGTTGTTGGGGCTGCC	61.306	66.667	11.05	11.05	0.00	4.85
1903	4822	4.502645	CCCAATGTCGAAAACTTTGTTGAC	59.497	41.667	0.00	0.00	39.96	3.18
1983	4905	3.144657	TGGTCTGTTTCATCATGCACT	57.855	42.857	0.00	0.00	0.00	4.40
2100	5022	5.948992	AGAACATGGTTAGACAAAGAAGC	57.051	39.130	0.00	0.00	0.00	3.86
2509	5598	8.076178	CACACATGTTTTTCCTTTTACTCCTAG	58.924	37.037	0.00	0.00	0.00	3.02
2588	5686	3.881688	CCATCATCTTCTTTGCTAGGGTG	59.118	47.826	0.00	0.00	0.00	4.61
2666	5764	5.048013	TGTCAGATGAGAAGAAAGCTAACGA	60.048	40.000	0.00	0.00	0.00	3.85
2669	5767	7.984050	CCTAATGTCAGATGAGAAGAAAGCTAA	59.016	37.037	0.00	0.00	0.00	3.09
2670	5768	7.418368	CCCTAATGTCAGATGAGAAGAAAGCTA	60.418	40.741	0.00	0.00	0.00	3.32
2693	5791	3.138468	GGTAAAGAAGGATGGTATGCCCT	59.862	47.826	0.00	0.00	0.00	5.19
2717	5817	5.012148	CCCATGATAGTAAGAAAGGACCGAT	59.988	44.000	0.00	0.00	0.00	4.18
2723	5823	6.966534	ATTTGCCCATGATAGTAAGAAAGG	57.033	37.500	0.00	0.00	0.00	3.11
2740	5840	0.107654	AGGCTCCACGAGTATTTGCC	60.108	55.000	0.00	0.00	39.19	4.52
2751	5851	0.107459	GATGGGACTTCAGGCTCCAC	60.107	60.000	0.00	0.00	0.00	4.02
2772	5872	4.853924	AAGACCTAACAAACATTGCTGG	57.146	40.909	0.00	0.00	0.00	4.85
2806	5906	5.990668	ACTAGCTTTTAACGATGGAGGAAT	58.009	37.500	0.00	0.00	0.00	3.01
2826	5926	8.620416	CATATACCACAGCAAGCAAAATAACTA	58.380	33.333	0.00	0.00	0.00	2.24
3031	6133	3.444742	TGAACATTGATAAAGCTGCCAGG	59.555	43.478	0.00	0.00	0.00	4.45

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.