AutoCloner

Multiple sequence alignment - TraesCS7B01G445500

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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	TraesCS7B01G445500	chr7B	100.000	2774	0	0	1	2774	709257543	709260316	0.000000e+00	5123.0
1	TraesCS7B01G445500	chr7B	84.457	1216	115	30	694	1856	709322868	709324062	0.000000e+00	1131.0
2	TraesCS7B01G445500	chr7B	79.070	989	144	38	785	1727	709377869	709378840	3.030000e-174	621.0
3	TraesCS7B01G445500	chr7B	87.945	506	58	2	993	1495	709354383	709354888	6.620000e-166	593.0
4	TraesCS7B01G445500	chr7B	80.574	592	87	15	2177	2745	709368906	709369492	5.490000e-117	431.0
5	TraesCS7B01G445500	chr7B	83.984	256	20	5	83	327	709353472	709353717	2.780000e-55	226.0
6	TraesCS7B01G445500	chr7B	87.432	183	16	4	81	258	709320478	709320658	1.300000e-48	204.0
7	TraesCS7B01G445500	chr7B	78.899	218	33	12	421	635	709377508	709377715	4.820000e-28	135.0
8	TraesCS7B01G445500	chr7B	85.507	69	9	1	260	327	709320741	709320809	1.380000e-08	71.3
9	TraesCS7B01G445500	chr7B	100.000	28	0	0	2747	2774	709369513	709369540	5.000000e-03	52.8
10	TraesCS7B01G445500	chr7A	85.381	1587	137	51	325	1856	708912491	708914037	0.000000e+00	1557.0
11	TraesCS7B01G445500	chr7A	87.166	935	79	18	804	1718	709028387	709029300	0.000000e+00	1024.0
12	TraesCS7B01G445500	chr7A	84.518	872	104	16	710	1554	709121523	709122390	0.000000e+00	833.0
13	TraesCS7B01G445500	chr7A	82.632	927	115	24	833	1727	709141781	709142693	0.000000e+00	778.0
14	TraesCS7B01G445500	chr7A	82.235	895	119	25	862	1727	709129342	709130225	0.000000e+00	736.0
15	TraesCS7B01G445500	chr7A	83.333	750	66	40	2003	2744	708965542	708966240	3.010000e-179	638.0
16	TraesCS7B01G445500	chr7A	79.372	955	117	48	1853	2745	709029390	709030326	1.420000e-167	599.0
17	TraesCS7B01G445500	chr7A	79.740	923	102	36	1877	2743	708920825	708921718	8.560000e-165	590.0
18	TraesCS7B01G445500	chr7A	82.421	694	66	36	2063	2744	709017284	709017933	3.120000e-154	555.0
19	TraesCS7B01G445500	chr7A	82.443	524	56	21	325	833	708918787	708919289	2.550000e-115	425.0
20	TraesCS7B01G445500	chr7A	89.437	284	26	3	43	324	709027470	709027751	3.400000e-94	355.0
21	TraesCS7B01G445500	chr7A	85.345	348	28	12	1	327	708911891	708912236	3.420000e-89	339.0
22	TraesCS7B01G445500	chr7A	88.716	257	25	4	1602	1857	708965154	708965407	7.460000e-81	311.0
23	TraesCS7B01G445500	chr7A	88.716	257	25	4	1602	1857	709016902	709017155	7.460000e-81	311.0
24	TraesCS7B01G445500	chr7A	81.752	411	40	22	333	737	709028009	709028390	7.460000e-81	311.0
25	TraesCS7B01G445500	chr7A	85.306	245	19	7	1534	1771	708919926	708920160	1.280000e-58	237.0
26	TraesCS7B01G445500	chr7A	84.921	126	13	5	495	616	709121359	709121482	3.750000e-24	122.0
27	TraesCS7B01G445500	chr7D	83.072	1530	180	45	333	1817	616054852	616056347	0.000000e+00	1317.0
28	TraesCS7B01G445500	chr7D	86.460	1130	88	26	676	1771	616067780	616068878	0.000000e+00	1179.0
29	TraesCS7B01G445500	chr7D	84.412	1097	84	36	643	1694	616102705	616103759	0.000000e+00	998.0
30	TraesCS7B01G445500	chr7D	85.949	669	66	21	1205	1857	616075982	616076638	0.000000e+00	689.0
31	TraesCS7B01G445500	chr7D	83.333	756	84	18	761	1498	616134092	616134823	0.000000e+00	660.0
32	TraesCS7B01G445500	chr7D	83.223	757	67	30	2003	2748	616076773	616077480	8.380000e-180	640.0
33	TraesCS7B01G445500	chr7D	80.066	908	97	37	1877	2727	616069595	616070475	5.110000e-167	597.0
34	TraesCS7B01G445500	chr7D	86.377	345	24	13	1	327	616066935	616067274	3.400000e-94	355.0
35	TraesCS7B01G445500	chr7D	85.263	190	14	9	436	620	616067585	616067765	1.700000e-42	183.0
36	TraesCS7B01G445500	chr7D	85.417	144	16	3	117	256	616100109	616100251	8.010000e-31	145.0
37	TraesCS7B01G445500	chr7D	94.118	68	2	2	551	616	616133958	616134025	4.890000e-18	102.0
38	TraesCS7B01G445500	chr7D	97.059	34	0	1	21	53	616054336	616054369	3.860000e-04	56.5
39	TraesCS7B01G445500	chr7D	100.000	28	0	0	2747	2774	616077505	616077532	5.000000e-03	52.8

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	TraesCS7B01G445500	chr7B	709257543	709260316	2773	False	5123.000000	5123	100.000000	1	2774	1	chr7B.!!$F1	2773
1	TraesCS7B01G445500	chr7B	709320478	709324062	3584	False	468.766667	1131	85.798667	81	1856	3	chr7B.!!$F2	1775
2	TraesCS7B01G445500	chr7B	709353472	709354888	1416	False	409.500000	593	85.964500	83	1495	2	chr7B.!!$F3	1412
3	TraesCS7B01G445500	chr7B	709377508	709378840	1332	False	378.000000	621	78.984500	421	1727	2	chr7B.!!$F5	1306
4	TraesCS7B01G445500	chr7B	709368906	709369540	634	False	241.900000	431	90.287000	2177	2774	2	chr7B.!!$F4	597
5	TraesCS7B01G445500	chr7A	708911891	708914037	2146	False	948.000000	1557	85.363000	1	1856	2	chr7A.!!$F3	1855
6	TraesCS7B01G445500	chr7A	709141781	709142693	912	False	778.000000	778	82.632000	833	1727	1	chr7A.!!$F2	894
7	TraesCS7B01G445500	chr7A	709129342	709130225	883	False	736.000000	736	82.235000	862	1727	1	chr7A.!!$F1	865
8	TraesCS7B01G445500	chr7A	709027470	709030326	2856	False	572.250000	1024	84.431750	43	2745	4	chr7A.!!$F7	2702
9	TraesCS7B01G445500	chr7A	709121359	709122390	1031	False	477.500000	833	84.719500	495	1554	2	chr7A.!!$F8	1059
10	TraesCS7B01G445500	chr7A	708965154	708966240	1086	False	474.500000	638	86.024500	1602	2744	2	chr7A.!!$F5	1142
11	TraesCS7B01G445500	chr7A	709016902	709017933	1031	False	433.000000	555	85.568500	1602	2744	2	chr7A.!!$F6	1142
12	TraesCS7B01G445500	chr7A	708918787	708921718	2931	False	417.333333	590	82.496333	325	2743	3	chr7A.!!$F4	2418
13	TraesCS7B01G445500	chr7D	616054336	616056347	2011	False	686.750000	1317	90.065500	21	1817	2	chr7D.!!$F1	1796
14	TraesCS7B01G445500	chr7D	616066935	616070475	3540	False	578.500000	1179	84.541500	1	2727	4	chr7D.!!$F2	2726
15	TraesCS7B01G445500	chr7D	616100109	616103759	3650	False	571.500000	998	84.914500	117	1694	2	chr7D.!!$F4	1577
16	TraesCS7B01G445500	chr7D	616075982	616077532	1550	False	460.600000	689	89.724000	1205	2774	3	chr7D.!!$F3	1569
17	TraesCS7B01G445500	chr7D	616133958	616134823	865	False	381.000000	660	88.725500	551	1498	2	chr7D.!!$F5	947

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
786	4646	0.481128	GTCCCTTTCCCCCTTGTTGA	59.519	55.0	0.00	0.00	0.00	3.18	F
1509	5491	0.392998	GGTAGGACGTACGACCTGGA	60.393	60.0	37.88	23.11	40.26	3.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1649	5890	1.001406	GCCTCTTGCTGTGTACAGAGT	59.999	52.381	20.1	0.0	46.59	3.24	R
2519	7503	1.254026	TCGTCTTCTCATTGGTCCGT	58.746	50.000	0.0	0.0	0.00	4.69	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
52	53	4.095483	CCAACATGATTTCTTCTTCTCCCG	59.905	45.833	0.00	0.00	0.00	5.14
61	62	1.342672	TTCTTCTCCCGGGCCATACC	61.343	60.000	18.49	0.00	37.93	2.73
125	152	8.113462	AGTTAATTCCACCACCTGTACAATATT	58.887	33.333	0.00	0.00	0.00	1.28
134	161	5.065988	CCACCTGTACAATATTTTTCTCCGG	59.934	44.000	0.00	0.00	0.00	5.14
268	1981	8.695456	ACAAAAACAGATACATCCAAAGACTTT	58.305	29.630	0.00	0.00	0.00	2.66
331	2054	2.153247	GCGTACGCAGCTATCACATAAC	59.847	50.000	33.90	0.00	41.49	1.89
349	3913	9.407380	TCACATAACCACAAATGCTAGAATAAT	57.593	29.630	0.00	0.00	0.00	1.28
406	3970	7.660617	AGAATAATATCACAATCTGTCAGCCTG	59.339	37.037	0.00	0.00	0.00	4.85
418	3982	2.443016	AGCCTGGCGAGACCTAGG	60.443	66.667	13.96	7.41	40.22	3.02
446	4017	7.041303	GGGAGAACAATAACGGAAAATCTATCC	60.041	40.741	0.00	0.00	0.00	2.59
522	4125	5.052693	AGCTGGCAATATTGAACCATAGA	57.947	39.130	19.73	0.00	0.00	1.98
535	4139	4.141937	TGAACCATAGAGTGACACCTATGC	60.142	45.833	24.42	17.07	40.33	3.14
544	4159	4.697514	AGTGACACCTATGCATGTATGAC	58.302	43.478	10.16	5.54	0.00	3.06
546	4162	3.383185	TGACACCTATGCATGTATGACGA	59.617	43.478	10.16	0.00	0.00	4.20
549	4165	4.202253	ACACCTATGCATGTATGACGACAT	60.202	41.667	10.16	5.56	40.78	3.06
619	4238	5.692613	AATAGTACTATCCACAGCTCGAC	57.307	43.478	15.72	0.00	0.00	4.20
644	4263	6.876257	CCTGTCATTTTGAGCTATACTATCCC	59.124	42.308	0.00	0.00	0.00	3.85
662	4487	7.168905	ACTATCCCCAGCTAAACTTTATATGC	58.831	38.462	0.00	0.00	0.00	3.14
674	4499	3.828451	ACTTTATATGCCATGTCATGCCC	59.172	43.478	7.35	1.44	0.00	5.36
675	4500	2.512692	TATATGCCATGTCATGCCCC	57.487	50.000	7.35	0.00	0.00	5.80
676	4501	0.483770	ATATGCCATGTCATGCCCCA	59.516	50.000	7.35	4.66	0.00	4.96
677	4502	0.483770	TATGCCATGTCATGCCCCAT	59.516	50.000	7.35	10.99	0.00	4.00
678	4503	1.118965	ATGCCATGTCATGCCCCATG	61.119	55.000	7.35	10.93	42.60	3.66
679	4504	3.134879	CCATGTCATGCCCCATGC	58.865	61.111	7.35	0.00	41.18	4.06
680	4505	2.504274	CCATGTCATGCCCCATGCC	61.504	63.158	7.35	0.00	41.18	4.40
681	4506	1.758906	CATGTCATGCCCCATGCCA	60.759	57.895	0.00	0.00	41.18	4.92
682	4507	1.118965	CATGTCATGCCCCATGCCAT	61.119	55.000	0.00	0.00	40.38	4.40
683	4508	1.118965	ATGTCATGCCCCATGCCATG	61.119	55.000	0.00	0.00	38.69	3.66
786	4646	0.481128	GTCCCTTTCCCCCTTGTTGA	59.519	55.000	0.00	0.00	0.00	3.18
854	4719	2.551270	GCCGACAAGCAACTCACG	59.449	61.111	0.00	0.00	0.00	4.35
855	4720	2.551270	CCGACAAGCAACTCACGC	59.449	61.111	0.00	0.00	0.00	5.34
898	4791	4.813697	GGAGCTCACACATAATCTTCTTCC	59.186	45.833	17.19	0.00	0.00	3.46
1509	5491	0.392998	GGTAGGACGTACGACCTGGA	60.393	60.000	37.88	23.11	40.26	3.86
1561	5736	4.530857	CCGCCCGGTTAGCTCAGG	62.531	72.222	0.00	0.00	0.00	3.86
1644	5885	0.904649	AGATTGGGTGATGCAGACGA	59.095	50.000	0.00	0.00	0.00	4.20
1649	5890	1.596934	GGTGATGCAGACGAGGGAA	59.403	57.895	0.00	0.00	0.00	3.97
1701	5944	0.315251	CTCTTGTGCGTCTGGTCAGA	59.685	55.000	0.00	0.00	34.56	3.27
1778	6096	7.627298	AGTACGTAGCTCTCTTTGATAAGAA	57.373	36.000	0.00	0.00	39.80	2.52
1782	6100	8.413899	ACGTAGCTCTCTTTGATAAGAAAATC	57.586	34.615	0.00	0.00	39.80	2.17
1811	6141	0.796312	CATGTCGGGTGTTTCTTCCG	59.204	55.000	0.00	0.00	44.59	4.30
1822	6153	2.420722	TGTTTCTTCCGCGAAAGTTGTT	59.579	40.909	8.23	0.00	33.88	2.83
1824	6155	4.094590	TGTTTCTTCCGCGAAAGTTGTTTA	59.905	37.500	8.23	0.00	33.88	2.01
1841	6172	6.636850	AGTTGTTTATTTGATTCTGCACGAAC	59.363	34.615	0.00	0.00	33.72	3.95
1861	6210	6.932400	ACGAACTTAATTACCACAGTCATTCA	59.068	34.615	0.00	0.00	0.00	2.57
1872	6756	5.934625	ACCACAGTCATTCATTAAGTCTGTC	59.065	40.000	0.00	0.00	33.35	3.51
1873	6757	5.934043	CCACAGTCATTCATTAAGTCTGTCA	59.066	40.000	0.00	0.00	33.35	3.58
1874	6758	6.596888	CCACAGTCATTCATTAAGTCTGTCAT	59.403	38.462	0.00	0.00	33.35	3.06
1875	6759	7.413767	CCACAGTCATTCATTAAGTCTGTCATG	60.414	40.741	0.00	0.00	33.35	3.07
1982	6868	4.065789	CAGGGGCGAAGTAAGGATAAATC	58.934	47.826	0.00	0.00	0.00	2.17
1983	6869	3.714798	AGGGGCGAAGTAAGGATAAATCA	59.285	43.478	0.00	0.00	0.00	2.57
2001	6889	3.236632	TCATCACTCATGTCAAGACGG	57.763	47.619	0.00	0.00	33.66	4.79
2016	6926	3.831715	AGACGGCTTCAATTTAACTGC	57.168	42.857	0.00	0.00	0.00	4.40
2142	7093	8.282592	TGTTTCGTTAGTCAAATTGAAGATCTG	58.717	33.333	0.00	0.00	0.00	2.90
2146	7097	9.219603	TCGTTAGTCAAATTGAAGATCTGAATT	57.780	29.630	0.00	1.47	0.00	2.17
2147	7098	9.831737	CGTTAGTCAAATTGAAGATCTGAATTT	57.168	29.630	15.35	15.35	31.03	1.82
2215	7172	5.236478	AGCTTCGACGTATTTCATTATTGGG	59.764	40.000	0.00	0.00	0.00	4.12
2218	7175	6.159299	TCGACGTATTTCATTATTGGGGTA	57.841	37.500	0.00	0.00	0.00	3.69
2220	7177	6.479660	TCGACGTATTTCATTATTGGGGTAAC	59.520	38.462	0.00	0.00	0.00	2.50
2233	7190	2.630580	TGGGGTAACTTTCATGTTTGGC	59.369	45.455	0.00	0.00	0.00	4.52
2265	7224	0.385029	TGTGTTTGCATGAGTGGCAC	59.615	50.000	10.29	10.29	41.75	5.01
2366	7344	2.615912	GCTAACATCATGGAGCCAGAAC	59.384	50.000	2.96	0.00	0.00	3.01
2384	7362	6.071051	GCCAGAACCCAAATTAGTTCCATTAA	60.071	38.462	10.64	0.00	42.73	1.40
2486	7468	8.644318	AAGTAGTTTGACTTAGTATAATGCCG	57.356	34.615	0.00	0.00	37.90	5.69
2493	7476	9.781834	TTTGACTTAGTATAATGCCGATTTTTG	57.218	29.630	0.00	0.00	0.00	2.44
2524	7508	7.270779	ACTAATTAATAGTTTCCTCCACGGAC	58.729	38.462	0.00	0.00	42.31	4.79
2529	7513	1.165270	GTTTCCTCCACGGACCAATG	58.835	55.000	0.00	0.00	42.97	2.82
2603	7591	1.835494	TCACTCCTCTTGTACCCTCG	58.165	55.000	0.00	0.00	0.00	4.63
2623	7611	1.407258	GGGCGGTTTATTTGCTATGCA	59.593	47.619	0.00	0.00	36.47	3.96

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
6	7	3.082548	CTGAGTTCTTGGACGTCTCCTA	58.917	50.000	16.46	0.00	37.48	2.94
18	19	6.566197	GAAATCATGTTGGTCTGAGTTCTT	57.434	37.500	5.72	0.00	41.08	2.52
19	20	5.874093	AGAAATCATGTTGGTCTGAGTTCT	58.126	37.500	8.85	8.85	46.27	3.01
52	53	0.846693	ATCAGGTTCAGGTATGGCCC	59.153	55.000	0.00	0.00	38.26	5.80
61	62	2.868583	CGGTGCTTATCATCAGGTTCAG	59.131	50.000	0.00	0.00	0.00	3.02
125	152	0.595567	CACGTCGTGTCCGGAGAAAA	60.596	55.000	17.30	0.00	33.95	2.29
134	161	0.454620	CTGGAGCTACACGTCGTGTC	60.455	60.000	32.70	20.03	43.92	3.67
151	189	4.837896	TGGTTCGAGATGCTAGTATCTG	57.162	45.455	25.77	17.45	37.53	2.90
331	2054	8.352942	GGGAACTTATTATTCTAGCATTTGTGG	58.647	37.037	0.00	0.00	0.00	4.17
349	3913	0.978907	GTGGACTTCCGGGGAACTTA	59.021	55.000	0.00	0.00	39.43	2.24
378	3942	9.494271	GGCTGACAGATTGTGATATTATTCTTA	57.506	33.333	6.65	0.00	0.00	2.10
386	3950	3.746751	GCCAGGCTGACAGATTGTGATAT	60.747	47.826	17.94	0.00	0.00	1.63
418	3982	2.793288	TTCCGTTATTGTTCTCCCCC	57.207	50.000	0.00	0.00	0.00	5.40
446	4017	4.100808	TGTTTTGATTCCCCCAACAAGAAG	59.899	41.667	0.00	0.00	0.00	2.85
502	4105	6.017605	GTCACTCTATGGTTCAATATTGCCAG	60.018	42.308	16.74	8.43	34.18	4.85
522	4125	4.697514	GTCATACATGCATAGGTGTCACT	58.302	43.478	0.00	0.00	0.00	3.41
535	4139	5.687285	TCAAATCTCGATGTCGTCATACATG	59.313	40.000	2.04	0.00	40.17	3.21
619	4238	6.876257	GGGATAGTATAGCTCAAAATGACAGG	59.124	42.308	0.00	0.00	0.00	4.00
644	4263	6.262944	TGACATGGCATATAAAGTTTAGCTGG	59.737	38.462	0.00	0.00	0.00	4.85
662	4487	3.134879	GCATGGGGCATGACATGG	58.865	61.111	17.03	0.49	43.81	3.66
675	4500	2.802724	CCACATGGGCCATGGCATG	61.803	63.158	41.04	31.36	45.16	4.06
676	4501	2.445085	CCACATGGGCCATGGCAT	60.445	61.111	41.04	23.94	45.16	4.40
677	4502	3.961225	GACCACATGGGCCATGGCA	62.961	63.158	41.04	19.35	45.16	4.92
678	4503	3.149648	GACCACATGGGCCATGGC	61.150	66.667	41.04	29.47	45.16	4.40
679	4504	1.305129	TTGACCACATGGGCCATGG	60.305	57.895	41.04	32.02	44.80	3.66
680	4505	0.612732	ACTTGACCACATGGGCCATG	60.613	55.000	38.37	38.37	44.80	3.66
681	4506	0.612732	CACTTGACCACATGGGCCAT	60.613	55.000	14.78	14.78	44.80	4.40
682	4507	1.228521	CACTTGACCACATGGGCCA	60.229	57.895	9.61	9.61	44.80	5.36
683	4508	1.978617	CCACTTGACCACATGGGCC	60.979	63.158	0.00	0.00	44.80	5.80
684	4509	1.074775	TCCACTTGACCACATGGGC	59.925	57.895	2.32	0.00	45.93	5.36
685	4510	0.401738	AGTCCACTTGACCACATGGG	59.598	55.000	2.32	0.00	45.68	4.00
764	4623	0.402861	ACAAGGGGGAAAGGGACTCA	60.403	55.000	0.00	0.00	38.49	3.41
786	4646	1.360393	TGGTGCCAACTTCCCTTCCT	61.360	55.000	0.00	0.00	0.00	3.36
792	4652	0.240945	CGATTGTGGTGCCAACTTCC	59.759	55.000	0.00	0.00	0.00	3.46
898	4791	3.348119	TCGATCTTATCTCCATCGAGGG	58.652	50.000	10.57	10.57	42.60	4.30
1139	5093	4.457496	CCACGCACCATCGAGGCT	62.457	66.667	0.00	0.00	43.14	4.58
1203	5168	2.034532	TCGTAGTGCGTCCTCCCA	59.965	61.111	0.00	0.00	42.13	4.37
1317	5282	3.735037	GATGAACCCCTCGTCGCCC	62.735	68.421	0.00	0.00	30.42	6.13
1554	5729	2.644212	CGTGCCTGAGTCCTGAGCT	61.644	63.158	0.00	0.00	0.00	4.09
1555	5730	2.125753	CGTGCCTGAGTCCTGAGC	60.126	66.667	0.00	0.00	0.00	4.26
1556	5731	2.575993	CCGTGCCTGAGTCCTGAG	59.424	66.667	0.00	0.00	0.00	3.35
1557	5732	3.695606	GCCGTGCCTGAGTCCTGA	61.696	66.667	0.00	0.00	0.00	3.86
1644	5885	1.717032	TGCTGTGTACAGAGTTCCCT	58.283	50.000	20.10	0.00	46.59	4.20
1649	5890	1.001406	GCCTCTTGCTGTGTACAGAGT	59.999	52.381	20.10	0.00	46.59	3.24
1730	5981	9.227777	ACTATATATTCCTTGGCCGTTAATTTC	57.772	33.333	0.00	0.00	0.00	2.17
1811	6141	6.143758	TGCAGAATCAAATAAACAACTTTCGC	59.856	34.615	0.00	0.00	0.00	4.70
1824	6155	7.968405	GGTAATTAAGTTCGTGCAGAATCAAAT	59.032	33.333	0.00	0.00	41.49	2.32
1861	6210	7.278135	ACTATGACATGCATGACAGACTTAAT	58.722	34.615	32.75	17.13	37.87	1.40
1867	6751	5.124297	CCAAAACTATGACATGCATGACAGA	59.876	40.000	32.75	26.65	37.87	3.41
1872	6756	9.537192	AAATTATCCAAAACTATGACATGCATG	57.463	29.630	25.09	25.09	37.87	4.06
1873	6757	9.754382	GAAATTATCCAAAACTATGACATGCAT	57.246	29.630	0.00	0.00	41.08	3.96
1874	6758	7.914871	CGAAATTATCCAAAACTATGACATGCA	59.085	33.333	0.00	0.00	0.00	3.96
1875	6759	7.915397	ACGAAATTATCCAAAACTATGACATGC	59.085	33.333	0.00	0.00	0.00	4.06
1908	6792	9.739276	TCCAACTTATCTGAAACTATGACATTT	57.261	29.630	0.00	0.00	0.00	2.32
1909	6793	9.739276	TTCCAACTTATCTGAAACTATGACATT	57.261	29.630	0.00	0.00	0.00	2.71
1939	6825	2.623889	GTGGCTATATGTCGTCAGTCCT	59.376	50.000	0.00	0.00	0.00	3.85
1940	6826	2.361119	TGTGGCTATATGTCGTCAGTCC	59.639	50.000	0.00	0.00	0.00	3.85
1942	6828	2.362397	CCTGTGGCTATATGTCGTCAGT	59.638	50.000	0.00	0.00	0.00	3.41
1943	6829	2.288457	CCCTGTGGCTATATGTCGTCAG	60.288	54.545	0.00	0.00	0.00	3.51
1947	6833	3.914984	CCCCTGTGGCTATATGTCG	57.085	57.895	0.00	0.00	0.00	4.35
1982	6868	1.662629	GCCGTCTTGACATGAGTGATG	59.337	52.381	0.00	0.00	38.15	3.07
1983	6869	1.552337	AGCCGTCTTGACATGAGTGAT	59.448	47.619	0.00	0.00	0.00	3.06
2001	6889	8.589629	CATATGTTTCAGCAGTTAAATTGAAGC	58.410	33.333	0.00	0.00	33.23	3.86
2121	7072	9.831737	AAATTCAGATCTTCAATTTGACTAACG	57.168	29.630	16.44	0.00	30.29	3.18
2142	7093	8.831550	GGGAATGTAAGTCAGTCATAGAAATTC	58.168	37.037	0.00	0.00	42.12	2.17
2146	7097	6.867519	TGGGAATGTAAGTCAGTCATAGAA	57.132	37.500	0.00	0.00	42.12	2.10
2147	7098	7.437713	AATGGGAATGTAAGTCAGTCATAGA	57.562	36.000	0.00	0.00	42.12	1.98
2148	7099	6.422100	CGAATGGGAATGTAAGTCAGTCATAG	59.578	42.308	0.00	0.00	42.12	2.23
2215	7172	5.453567	AGAAGCCAAACATGAAAGTTACC	57.546	39.130	0.00	0.00	0.00	2.85
2218	7175	5.385198	TCCTAGAAGCCAAACATGAAAGTT	58.615	37.500	0.00	0.00	0.00	2.66
2220	7177	7.630242	TTATCCTAGAAGCCAAACATGAAAG	57.370	36.000	0.00	0.00	0.00	2.62
2233	7190	7.988737	TCATGCAAACACATTTATCCTAGAAG	58.011	34.615	0.00	0.00	0.00	2.85
2265	7224	1.064463	ACAATGTATGGCTGGGGTCAG	60.064	52.381	0.00	0.00	43.64	3.51
2519	7503	1.254026	TCGTCTTCTCATTGGTCCGT	58.746	50.000	0.00	0.00	0.00	4.69
2521	7505	3.320673	ACTTCGTCTTCTCATTGGTCC	57.679	47.619	0.00	0.00	0.00	4.46
2524	7508	6.796426	TGACTATACTTCGTCTTCTCATTGG	58.204	40.000	0.00	0.00	0.00	3.16
2529	7513	8.838365	TCCTAATTGACTATACTTCGTCTTCTC	58.162	37.037	0.00	0.00	0.00	2.87
2561	7545	9.965824	GTGAAAAGAAGAATTATCTCCAAAACA	57.034	29.630	0.00	0.00	33.77	2.83
2581	7568	3.006537	CGAGGGTACAAGAGGAGTGAAAA	59.993	47.826	0.00	0.00	0.00	2.29
2603	7591	1.407258	TGCATAGCAAATAAACCGCCC	59.593	47.619	0.00	0.00	34.76	6.13
2623	7611	7.205297	GGCATGATTGTATTGCTTGTCTAATT	58.795	34.615	0.00	0.00	36.62	1.40
2677	7671	3.389329	AGCATTGATCTAGGACGTGGATT	59.611	43.478	0.00	0.00	0.00	3.01
2678	7672	2.968574	AGCATTGATCTAGGACGTGGAT	59.031	45.455	0.00	0.00	0.00	3.41
2679	7673	2.362397	GAGCATTGATCTAGGACGTGGA	59.638	50.000	0.00	0.00	0.00	4.02
2685	7679	6.450545	CGTAAATGAGAGCATTGATCTAGGA	58.549	40.000	4.06	0.00	43.71	2.94
2744	7739	5.072329	GGGGATGATTGAGGATGAAGAGTAA	59.928	44.000	0.00	0.00	0.00	2.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.