AutoCloner

Multiple sequence alignment - TraesCS2D01G032500

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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	TraesCS2D01G032500	chr2D	100.000	3005	0	0	1	3005	12747107	12750111	0.000000e+00	5550.0
1	TraesCS2D01G032500	chr2D	84.746	59	5	1	2234	2292	41914173	41914119	4.180000e-04	56.5
2	TraesCS2D01G032500	chr2A	90.717	1605	89	29	682	2233	14896890	14898487	0.000000e+00	2084.0
3	TraesCS2D01G032500	chr2A	94.444	720	34	1	2292	3005	676270196	676269477	0.000000e+00	1103.0
4	TraesCS2D01G032500	chr2A	93.657	268	16	1	1	268	14896072	14896338	1.680000e-107	399.0
5	TraesCS2D01G032500	chr2A	92.188	256	9	3	440	685	14896598	14896852	4.770000e-93	351.0
6	TraesCS2D01G032500	chr2A	90.262	267	25	1	228	493	14896336	14896602	6.170000e-92	348.0
7	TraesCS2D01G032500	chr2A	93.220	59	4	0	2234	2292	80261157	80261099	1.480000e-13	87.9
8	TraesCS2D01G032500	chr2A	100.000	29	0	0	2263	2291	14898489	14898517	2.000000e-03	54.7
9	TraesCS2D01G032500	chrUn	92.180	1266	78	15	685	1932	18080384	18079122	0.000000e+00	1770.0
10	TraesCS2D01G032500	chrUn	91.311	679	49	2	17	685	18081107	18080429	0.000000e+00	918.0
11	TraesCS2D01G032500	chrUn	88.957	163	7	4	1939	2091	18078970	18078809	1.100000e-44	191.0
12	TraesCS2D01G032500	chr7D	94.215	726	35	2	2287	3005	46986011	46985286	0.000000e+00	1101.0
13	TraesCS2D01G032500	chr7D	88.235	51	6	0	209	259	33776716	33776766	8.990000e-06	62.1
14	TraesCS2D01G032500	chr7D	100.000	28	0	0	474	501	447904857	447904830	5.000000e-03	52.8
15	TraesCS2D01G032500	chr1D	94.313	721	34	2	2292	3005	62158998	62159718	0.000000e+00	1098.0
16	TraesCS2D01G032500	chr1D	94.306	720	34	4	2292	3005	66391696	66392414	0.000000e+00	1096.0
17	TraesCS2D01G032500	chr1D	94.175	721	32	5	2291	3005	328820111	328820827	0.000000e+00	1090.0
18	TraesCS2D01G032500	chr1D	93.620	721	38	3	2291	3005	262111636	262110918	0.000000e+00	1070.0
19	TraesCS2D01G032500	chr1D	79.231	260	41	5	1	259	342226362	342226115	5.150000e-38	169.0
20	TraesCS2D01G032500	chr1D	92.000	100	8	0	2132	2231	19976701	19976800	1.120000e-29	141.0
21	TraesCS2D01G032500	chr6D	94.306	720	34	2	2292	3005	432847674	432846956	0.000000e+00	1096.0
22	TraesCS2D01G032500	chr6D	92.233	103	8	0	2132	2234	69306793	69306691	2.410000e-31	147.0
23	TraesCS2D01G032500	chr6D	92.308	104	6	2	2132	2234	390794423	390794321	2.410000e-31	147.0
24	TraesCS2D01G032500	chr6D	90.291	103	10	0	2132	2234	372349955	372349853	5.230000e-28	135.0
25	TraesCS2D01G032500	chr6D	96.610	59	2	0	2234	2292	69306719	69306661	6.860000e-17	99.0
26	TraesCS2D01G032500	chr6D	88.889	72	6	2	2234	2303	390794349	390794278	1.480000e-13	87.9
27	TraesCS2D01G032500	chr2B	93.750	720	38	2	2292	3005	713943047	713942329	0.000000e+00	1074.0
28	TraesCS2D01G032500	chr6A	93.481	721	40	2	2292	3005	605145363	605144643	0.000000e+00	1064.0
29	TraesCS2D01G032500	chr6A	91.525	59	5	0	2234	2292	485327797	485327855	6.900000e-12	82.4
30	TraesCS2D01G032500	chr6A	85.965	57	7	1	191	247	297014638	297014583	3.240000e-05	60.2
31	TraesCS2D01G032500	chr6A	97.059	34	1	0	216	249	317506253	317506286	1.160000e-04	58.4
32	TraesCS2D01G032500	chr6A	97.059	34	1	0	216	249	317508279	317508312	1.160000e-04	58.4
33	TraesCS2D01G032500	chr6B	91.262	103	9	0	2132	2234	21447091	21446989	1.120000e-29	141.0
34	TraesCS2D01G032500	chr6B	98.305	59	1	0	2234	2292	21447017	21446959	1.470000e-18	104.0
35	TraesCS2D01G032500	chr6B	98.305	59	1	0	2234	2292	21478221	21478163	1.470000e-18	104.0
36	TraesCS2D01G032500	chr1B	91.919	99	8	0	2133	2231	32159395	32159493	4.040000e-29	139.0
37	TraesCS2D01G032500	chr1B	77.397	146	18	7	105	248	593494899	593494767	4.160000e-09	73.1
38	TraesCS2D01G032500	chr3D	91.089	101	9	0	2132	2232	21705473	21705573	1.450000e-28	137.0
39	TraesCS2D01G032500	chr3D	92.453	53	4	0	2240	2292	571997285	571997337	3.210000e-10	76.8
40	TraesCS2D01G032500	chr4A	87.179	117	13	2	2132	2248	671568247	671568133	6.760000e-27	132.0

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	TraesCS2D01G032500	chr2D	12747107	12750111	3004	False	5550.000000	5550	100.0000	1	3005	1	chr2D.!!$F1	3004
1	TraesCS2D01G032500	chr2A	676269477	676270196	719	True	1103.000000	1103	94.4440	2292	3005	1	chr2A.!!$R2	713
2	TraesCS2D01G032500	chr2A	14896072	14898517	2445	False	647.340000	2084	93.3648	1	2291	5	chr2A.!!$F1	2290
3	TraesCS2D01G032500	chrUn	18078809	18081107	2298	True	959.666667	1770	90.8160	17	2091	3	chrUn.!!$R1	2074
4	TraesCS2D01G032500	chr7D	46985286	46986011	725	True	1101.000000	1101	94.2150	2287	3005	1	chr7D.!!$R1	718
5	TraesCS2D01G032500	chr1D	62158998	62159718	720	False	1098.000000	1098	94.3130	2292	3005	1	chr1D.!!$F2	713
6	TraesCS2D01G032500	chr1D	66391696	66392414	718	False	1096.000000	1096	94.3060	2292	3005	1	chr1D.!!$F3	713
7	TraesCS2D01G032500	chr1D	328820111	328820827	716	False	1090.000000	1090	94.1750	2291	3005	1	chr1D.!!$F4	714
8	TraesCS2D01G032500	chr1D	262110918	262111636	718	True	1070.000000	1070	93.6200	2291	3005	1	chr1D.!!$R1	714
9	TraesCS2D01G032500	chr6D	432846956	432847674	718	True	1096.000000	1096	94.3060	2292	3005	1	chr6D.!!$R2	713
10	TraesCS2D01G032500	chr2B	713942329	713943047	718	True	1074.000000	1074	93.7500	2292	3005	1	chr2B.!!$R1	713
11	TraesCS2D01G032500	chr6A	605144643	605145363	720	True	1064.000000	1064	93.4810	2292	3005	1	chr6A.!!$R2	713

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
728	871	0.380733	TCGACTCGATTGGATGTCCG	59.619	55.0	0.0	0.0	39.43	4.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2298	2662	0.621082	GGGGTCCTCCTCCTTTTCTG	59.379	60.0	0.0	0.0	35.33	3.02	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
95	96	3.512724	GGGGCTACAGTTTATATAGCGGA	59.487	47.826	0.00	0.00	41.89	5.54
113	114	0.754472	GATGAATGGCAATGGTGGGG	59.246	55.000	0.00	0.00	0.00	4.96
164	165	1.005867	GTTCCCAGACAACCGCGTA	60.006	57.895	4.92	0.00	0.00	4.42
248	286	3.869272	GTGCATCGGGAAGCAGCG	61.869	66.667	0.00	0.00	42.14	5.18
273	311	3.485110	CGCACCGCTTCAATGCTA	58.515	55.556	0.00	0.00	37.20	3.49
276	314	1.372087	GCACCGCTTCAATGCTAGCT	61.372	55.000	17.23	0.00	36.40	3.32
296	334	3.390521	AATGAGAGGCCGCGTCCA	61.391	61.111	9.68	7.85	0.00	4.02
504	592	0.456221	AGGTCCGCGTTAGATGACAG	59.544	55.000	4.92	0.00	0.00	3.51
696	839	1.207329	CTAGTGCTGGGTGGGTAGAAC	59.793	57.143	0.00	0.00	0.00	3.01
728	871	0.380733	TCGACTCGATTGGATGTCCG	59.619	55.000	0.00	0.00	39.43	4.79
732	875	0.936764	CTCGATTGGATGTCCGCTCG	60.937	60.000	13.68	13.68	41.19	5.03
733	876	1.226974	CGATTGGATGTCCGCTCGT	60.227	57.895	12.33	0.00	37.59	4.18
734	877	1.482621	CGATTGGATGTCCGCTCGTG	61.483	60.000	12.33	0.00	37.59	4.35
846	992	5.408604	CACGTTCTGTGGAGCTTAAATAAGT	59.591	40.000	0.00	0.00	45.21	2.24
847	993	5.408604	ACGTTCTGTGGAGCTTAAATAAGTG	59.591	40.000	0.00	0.00	35.75	3.16
894	1046	3.749088	TCCGTTCAATTTACGCAAGATGT	59.251	39.130	4.70	0.00	43.62	3.06
895	1047	3.845775	CCGTTCAATTTACGCAAGATGTG	59.154	43.478	4.70	0.00	43.62	3.21
940	1092	5.860641	GCAATTGGCAGTGTTAATTCAATG	58.139	37.500	7.72	0.00	43.97	2.82
941	1093	5.409214	GCAATTGGCAGTGTTAATTCAATGT	59.591	36.000	7.72	0.00	43.97	2.71
943	1095	7.117523	GCAATTGGCAGTGTTAATTCAATGTAA	59.882	33.333	7.72	0.00	43.97	2.41
944	1096	9.153721	CAATTGGCAGTGTTAATTCAATGTAAT	57.846	29.630	0.00	0.00	36.09	1.89
945	1097	8.706492	ATTGGCAGTGTTAATTCAATGTAATG	57.294	30.769	0.00	0.00	36.09	1.90
946	1098	7.225784	TGGCAGTGTTAATTCAATGTAATGT	57.774	32.000	0.00	0.00	36.09	2.71
947	1099	8.341892	TGGCAGTGTTAATTCAATGTAATGTA	57.658	30.769	0.00	0.00	36.09	2.29
948	1100	8.240682	TGGCAGTGTTAATTCAATGTAATGTAC	58.759	33.333	0.00	0.00	36.09	2.90
950	1102	9.490663	GCAGTGTTAATTCAATGTAATGTACTC	57.509	33.333	0.00	0.00	36.09	2.59
963	1121	7.652300	TGTAATGTACTCACTCACAATGAAC	57.348	36.000	0.00	0.00	0.00	3.18
1019	1177	1.489649	CACCCATGATCTGAAGAGGCT	59.510	52.381	0.00	0.00	0.00	4.58
1022	1180	2.092538	CCCATGATCTGAAGAGGCTTGT	60.093	50.000	0.00	0.00	0.00	3.16
1103	1261	0.179134	ACCTCATCTTCTACACGCGC	60.179	55.000	5.73	0.00	0.00	6.86
1123	1281	2.598565	CCCACTGTATAGCTAGGCAGA	58.401	52.381	25.06	2.81	33.57	4.26
1148	1312	1.222113	GACCTGGGGAACAGCTAGC	59.778	63.158	6.62	6.62	46.14	3.42
1151	1315	1.204146	CCTGGGGAACAGCTAGCTAA	58.796	55.000	18.86	0.00	46.14	3.09
1152	1316	1.139853	CCTGGGGAACAGCTAGCTAAG	59.860	57.143	18.86	8.88	46.14	2.18
1197	1361	3.838565	AGGAGAAGAGAAGCATATCGGA	58.161	45.455	0.00	0.00	0.00	4.55
1198	1362	3.826157	AGGAGAAGAGAAGCATATCGGAG	59.174	47.826	0.00	0.00	0.00	4.63
1444	1616	4.189188	GCGCAGGGCATGAAGCTG	62.189	66.667	1.99	0.00	44.79	4.24
1510	1682	2.527951	AGCAGAAGCCGGTCATGACC	62.528	60.000	31.59	31.59	42.83	4.02
1867	2050	4.953579	TGCCTTTGTTTACAGTCTCCTTTT	59.046	37.500	0.00	0.00	0.00	2.27
1890	2073	2.233355	CACTTTTACAGTGCGCGATTG	58.767	47.619	12.10	6.86	46.70	2.67
1897	2080	5.761818	TTACAGTGCGCGATTGATATATG	57.238	39.130	12.10	0.00	0.00	1.78
2043	2378	9.887629	AGATCCATGAGATTATTAGTTATGCAG	57.112	33.333	0.00	0.00	34.42	4.41
2097	2435	3.440173	GCAGTTCCTTCCAAAATGATCGA	59.560	43.478	0.00	0.00	0.00	3.59
2168	2532	5.432645	TGCCCGTAACTCAAATAATCATGA	58.567	37.500	0.00	0.00	0.00	3.07
2170	2534	5.560953	GCCCGTAACTCAAATAATCATGAGC	60.561	44.000	0.09	0.00	45.50	4.26
2174	2538	6.907212	CGTAACTCAAATAATCATGAGCCAAC	59.093	38.462	0.09	0.00	45.50	3.77
2178	2542	7.092716	ACTCAAATAATCATGAGCCAACAAAC	58.907	34.615	0.09	0.00	45.50	2.93
2181	2545	3.947910	AATCATGAGCCAACAAACCAG	57.052	42.857	0.09	0.00	0.00	4.00
2222	2586	4.305539	TCAACATGACATCCCATCTTGT	57.694	40.909	0.00	0.00	36.36	3.16
2223	2587	4.665451	TCAACATGACATCCCATCTTGTT	58.335	39.130	0.00	0.00	42.17	2.83
2224	2588	4.740268	CAACATGACATCCCATCTTGTTG	58.260	43.478	15.13	15.13	46.66	3.33
2225	2589	2.756760	ACATGACATCCCATCTTGTTGC	59.243	45.455	0.00	0.00	32.22	4.17
2226	2590	1.838112	TGACATCCCATCTTGTTGCC	58.162	50.000	0.00	0.00	0.00	4.52
2227	2591	1.075212	TGACATCCCATCTTGTTGCCA	59.925	47.619	0.00	0.00	0.00	4.92
2228	2592	2.291735	TGACATCCCATCTTGTTGCCAT	60.292	45.455	0.00	0.00	0.00	4.40
2229	2593	2.762327	GACATCCCATCTTGTTGCCATT	59.238	45.455	0.00	0.00	0.00	3.16
2230	2594	3.175594	ACATCCCATCTTGTTGCCATTT	58.824	40.909	0.00	0.00	0.00	2.32
2231	2595	3.055675	ACATCCCATCTTGTTGCCATTTG	60.056	43.478	0.00	0.00	0.00	2.32
2232	2596	2.607499	TCCCATCTTGTTGCCATTTGT	58.393	42.857	0.00	0.00	0.00	2.83
2233	2597	2.562298	TCCCATCTTGTTGCCATTTGTC	59.438	45.455	0.00	0.00	0.00	3.18
2234	2598	2.299582	CCCATCTTGTTGCCATTTGTCA	59.700	45.455	0.00	0.00	0.00	3.58
2235	2599	3.055675	CCCATCTTGTTGCCATTTGTCAT	60.056	43.478	0.00	0.00	0.00	3.06
2236	2600	3.930229	CCATCTTGTTGCCATTTGTCATG	59.070	43.478	0.00	0.00	0.00	3.07
2237	2601	4.322123	CCATCTTGTTGCCATTTGTCATGA	60.322	41.667	0.00	0.00	0.00	3.07
2238	2602	4.241590	TCTTGTTGCCATTTGTCATGAC	57.758	40.909	19.27	19.27	0.00	3.06
2239	2603	3.635836	TCTTGTTGCCATTTGTCATGACA	59.364	39.130	24.56	24.56	39.98	3.58
2240	2604	4.281435	TCTTGTTGCCATTTGTCATGACAT	59.719	37.500	28.32	12.72	41.52	3.06
2241	2605	4.177165	TGTTGCCATTTGTCATGACATC	57.823	40.909	28.32	15.16	41.52	3.06
2242	2606	3.056678	TGTTGCCATTTGTCATGACATCC	60.057	43.478	28.32	14.92	41.52	3.51
2243	2607	2.101783	TGCCATTTGTCATGACATCCC	58.898	47.619	28.32	15.24	41.52	3.85
2244	2608	2.101783	GCCATTTGTCATGACATCCCA	58.898	47.619	28.32	11.57	41.52	4.37
2245	2609	2.696707	GCCATTTGTCATGACATCCCAT	59.303	45.455	28.32	15.13	41.52	4.00
2246	2610	3.243636	GCCATTTGTCATGACATCCCATC	60.244	47.826	28.32	12.77	41.52	3.51
2247	2611	4.212716	CCATTTGTCATGACATCCCATCT	58.787	43.478	28.32	6.44	41.52	2.90
2248	2612	4.647853	CCATTTGTCATGACATCCCATCTT	59.352	41.667	28.32	5.62	41.52	2.40
2249	2613	5.451381	CCATTTGTCATGACATCCCATCTTG	60.451	44.000	28.32	15.49	41.52	3.02
2261	2625	2.562298	TCCCATCTTGTTGCCATTTGTC	59.438	45.455	0.00	0.00	0.00	3.18
2393	2757	7.492352	AAGACCTTACAAAGTCATACAACAC	57.508	36.000	0.00	0.00	0.00	3.32
2443	2813	4.588951	TCGCTACTCCTATCCAATTGATGT	59.411	41.667	7.12	0.00	34.76	3.06

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	1.202806	ACCGCATCACTCCCATAATGG	60.203	52.381	0.00	0.00	37.25	3.16
95	96	0.691748	CCCCCACCATTGCCATTCAT	60.692	55.000	0.00	0.00	0.00	2.57
164	165	4.112634	CGTCTGTCGTCCACATTAATGAT	58.887	43.478	22.16	3.74	33.23	2.45
273	311	2.906458	CGGCCTCTCATTGGAGCT	59.094	61.111	0.00	0.00	41.13	4.09
276	314	3.371097	GACGCGGCCTCTCATTGGA	62.371	63.158	12.47	0.00	0.00	3.53
296	334	2.111384	ACATTCATGACCGGCTAGAGT	58.889	47.619	0.00	0.00	0.00	3.24
504	592	1.154073	GCGTGGTCTAGACGTGTCC	60.154	63.158	16.56	3.09	39.08	4.02
539	628	3.182173	TCTTCAACGTACTTTAAACCGCG	59.818	43.478	0.00	0.00	0.00	6.46
696	839	0.930742	GAGTCGAGTTGATAGCGGCG	60.931	60.000	0.51	0.51	34.41	6.46
747	891	1.591158	GGCGCAAACGATCGATTTAGA	59.409	47.619	24.34	0.00	43.93	2.10
790	934	1.315690	CTGGTGGGTGATCATCATGC	58.684	55.000	8.54	0.00	0.00	4.06
846	992	8.486942	AATGCCACTACACCTAGTATAATACA	57.513	34.615	0.00	0.00	31.46	2.29
847	993	9.420551	GAAATGCCACTACACCTAGTATAATAC	57.579	37.037	0.00	0.00	31.46	1.89
894	1046	1.275291	CCTCTACTTTTGAGGGTCGCA	59.725	52.381	2.09	0.00	45.39	5.10
895	1047	2.011540	CCTCTACTTTTGAGGGTCGC	57.988	55.000	2.09	0.00	45.39	5.19
914	1066	2.437200	TTAACACTGCCAATTGCTGC	57.563	45.000	0.00	0.00	42.24	5.25
933	1085	8.846943	TTGTGAGTGAGTACATTACATTGAAT	57.153	30.769	0.00	0.00	0.00	2.57
935	1087	8.093927	TCATTGTGAGTGAGTACATTACATTGA	58.906	33.333	0.00	0.00	31.98	2.57
936	1088	8.255394	TCATTGTGAGTGAGTACATTACATTG	57.745	34.615	0.00	0.00	0.00	2.82
937	1089	8.721478	GTTCATTGTGAGTGAGTACATTACATT	58.279	33.333	0.00	0.00	0.00	2.71
938	1090	8.097038	AGTTCATTGTGAGTGAGTACATTACAT	58.903	33.333	0.00	0.00	0.00	2.29
939	1091	7.441836	AGTTCATTGTGAGTGAGTACATTACA	58.558	34.615	0.00	0.00	0.00	2.41
940	1092	7.891183	AGTTCATTGTGAGTGAGTACATTAC	57.109	36.000	0.00	0.00	0.00	1.89
947	1099	9.809096	CAACTATATAGTTCATTGTGAGTGAGT	57.191	33.333	22.60	0.00	44.19	3.41
980	1138	5.308497	TGGGTGGTTCAACTACTCTGAATTA	59.692	40.000	5.40	0.00	35.36	1.40
1019	1177	1.069204	GTGAGTGAGTGAGCTGGACAA	59.931	52.381	0.00	0.00	0.00	3.18
1022	1180	1.252175	GAGTGAGTGAGTGAGCTGGA	58.748	55.000	0.00	0.00	0.00	3.86
1069	1227	2.997980	TGAGGTGAGAGAGACTAGCTG	58.002	52.381	0.00	0.00	0.00	4.24
1103	1261	2.598565	TCTGCCTAGCTATACAGTGGG	58.401	52.381	17.90	5.95	0.00	4.61
1123	1281	0.253160	TGTTCCCCAGGTCCTGCTAT	60.253	55.000	13.99	0.00	0.00	2.97
1148	1312	1.883084	CCGCCGGTGCTTAGCTTAG	60.883	63.158	10.27	0.00	34.43	2.18
1169	1333	0.898320	CTTCTCTTCTCCTTCCGGCA	59.102	55.000	0.00	0.00	0.00	5.69
1178	1342	3.823873	TCCTCCGATATGCTTCTCTTCTC	59.176	47.826	0.00	0.00	0.00	2.87
1180	1344	3.823873	TCTCCTCCGATATGCTTCTCTTC	59.176	47.826	0.00	0.00	0.00	2.87
1181	1345	3.838565	TCTCCTCCGATATGCTTCTCTT	58.161	45.455	0.00	0.00	0.00	2.85
1182	1346	3.517296	TCTCCTCCGATATGCTTCTCT	57.483	47.619	0.00	0.00	0.00	3.10
1183	1347	3.675775	GCATCTCCTCCGATATGCTTCTC	60.676	52.174	0.00	0.00	42.46	2.87
1188	1352	3.450028	GGCATCTCCTCCGATATGC	57.550	57.895	0.00	0.00	44.09	3.14
1197	1361	4.148825	GCACCGTCGGCATCTCCT	62.149	66.667	12.28	0.00	0.00	3.69
1510	1682	1.297967	CATCTCCTCGCAGTCGTCG	60.298	63.158	0.00	0.00	36.96	5.12
1897	2080	9.232473	ACACTAAGAGAAAATTAATCCCAGAAC	57.768	33.333	0.00	0.00	0.00	3.01
1977	2305	6.428159	TCTTCAAATGCACTCCTTACTTTCTC	59.572	38.462	0.00	0.00	0.00	2.87
2043	2378	2.813226	TTACACCCGATGCACCTGCC	62.813	60.000	0.00	0.00	41.18	4.85
2127	2465	4.142271	CGGGCATTTGGTATCTTTTTGCTA	60.142	41.667	0.00	0.00	0.00	3.49
2128	2466	3.368323	CGGGCATTTGGTATCTTTTTGCT	60.368	43.478	0.00	0.00	0.00	3.91
2129	2467	2.929398	CGGGCATTTGGTATCTTTTTGC	59.071	45.455	0.00	0.00	0.00	3.68
2130	2468	4.186856	ACGGGCATTTGGTATCTTTTTG	57.813	40.909	0.00	0.00	0.00	2.44
2178	2542	9.667107	TTGAAATAAAGAACATAGACCTACTGG	57.333	33.333	0.00	0.00	39.83	4.00
2222	2586	2.496871	GGGATGTCATGACAAATGGCAA	59.503	45.455	31.00	6.67	45.41	4.52
2223	2587	2.101783	GGGATGTCATGACAAATGGCA	58.898	47.619	31.00	7.52	45.41	4.92
2224	2588	2.101783	TGGGATGTCATGACAAATGGC	58.898	47.619	31.00	17.24	45.41	4.40
2225	2589	4.212716	AGATGGGATGTCATGACAAATGG	58.787	43.478	31.00	0.00	45.41	3.16
2226	2590	5.126545	ACAAGATGGGATGTCATGACAAATG	59.873	40.000	31.00	20.41	45.41	2.32
2227	2591	5.266788	ACAAGATGGGATGTCATGACAAAT	58.733	37.500	31.00	20.89	45.41	2.32
2228	2592	4.665451	ACAAGATGGGATGTCATGACAAA	58.335	39.130	31.00	17.44	45.41	2.83
2229	2593	4.305539	ACAAGATGGGATGTCATGACAA	57.694	40.909	31.00	16.05	45.41	3.18
2230	2594	4.011698	CAACAAGATGGGATGTCATGACA	58.988	43.478	29.67	29.67	46.44	3.58
2231	2595	3.181493	GCAACAAGATGGGATGTCATGAC	60.181	47.826	19.27	19.27	0.00	3.06
2232	2596	3.018856	GCAACAAGATGGGATGTCATGA	58.981	45.455	0.00	0.00	0.00	3.07
2233	2597	2.100252	GGCAACAAGATGGGATGTCATG	59.900	50.000	0.00	0.00	0.00	3.07
2234	2598	2.381911	GGCAACAAGATGGGATGTCAT	58.618	47.619	0.00	0.00	0.00	3.06
2235	2599	1.838112	GGCAACAAGATGGGATGTCA	58.162	50.000	0.00	0.00	0.00	3.58
2249	2613	1.398451	CGACGACAGACAAATGGCAAC	60.398	52.381	0.00	0.00	0.00	4.17
2261	2625	1.142185	ATGCGAGAATGCGACGACAG	61.142	55.000	0.00	0.00	37.81	3.51
2298	2662	0.621082	GGGGTCCTCCTCCTTTTCTG	59.379	60.000	0.00	0.00	35.33	3.02
2393	2757	5.808030	GCTTAGACAGTGGCTTTAGTCTTAG	59.192	44.000	2.31	0.00	41.27	2.18
2462	2832	4.442706	CGATGTCTGTTTGGTATTAGGCT	58.557	43.478	0.00	0.00	0.00	4.58
2929	3301	0.398318	AAGCTCCCAACTCCACTCAC	59.602	55.000	0.00	0.00	0.00	3.51

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.