AutoCloner

Multiple sequence alignment - TraesCS7B01G172400

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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	TraesCS7B01G172400	chr7B	100.000	2702	0	0	1	2702	244624064	244626765	0.000000e+00	4990
1	TraesCS7B01G172400	chr7B	88.423	1909	135	34	420	2260	244600422	244602312	0.000000e+00	2222
2	TraesCS7B01G172400	chr7B	91.007	1390	106	4	470	1841	244566050	244567438	0.000000e+00	1857
3	TraesCS7B01G172400	chr7B	80.969	1135	159	28	801	1903	244631498	244632607	0.000000e+00	846
4	TraesCS7B01G172400	chr7B	84.880	291	21	12	1	290	244597961	244598229	3.430000e-69	272
5	TraesCS7B01G172400	chr7D	95.789	2517	96	8	1	2511	264310972	264313484	0.000000e+00	4052
6	TraesCS7B01G172400	chr7D	91.218	1765	98	22	240	1964	264306132	264307879	0.000000e+00	2348
7	TraesCS7B01G172400	chr7D	81.299	1139	160	27	801	1903	264315198	264316319	0.000000e+00	874
8	TraesCS7B01G172400	chr7D	82.974	881	117	14	928	1789	264319948	264320814	0.000000e+00	765
9	TraesCS7B01G172400	chr7D	92.086	139	9	2	1	138	264303188	264303325	7.630000e-46	195
10	TraesCS7B01G172400	chr7A	94.830	2476	102	15	39	2511	287804302	287806754	0.000000e+00	3840
11	TraesCS7B01G172400	chr7A	80.785	968	148	21	899	1840	287552245	287553200	0.000000e+00	723
12	TraesCS7B01G172400	chr7A	92.268	194	13	2	2510	2702	333965077	333964885	9.530000e-70	274
13	TraesCS7B01G172400	chrUn	81.430	1007	142	23	795	1773	101991889	101990900	0.000000e+00	782
14	TraesCS7B01G172400	chrUn	80.853	1055	147	28	816	1842	101987516	101986489	0.000000e+00	778
15	TraesCS7B01G172400	chrUn	91.623	191	9	3	2513	2702	1899147	1899331	9.600000e-65	257
16	TraesCS7B01G172400	chr3D	80.486	1071	162	30	793	1842	583027008	583025964	0.000000e+00	776
17	TraesCS7B01G172400	chr3D	79.508	976	150	27	898	1840	583187403	583186445	0.000000e+00	649
18	TraesCS7B01G172400	chr6B	80.266	1054	149	30	816	1842	62634086	62633065	0.000000e+00	739
19	TraesCS7B01G172400	chr6B	80.000	1010	158	21	804	1792	62676316	62675330	0.000000e+00	706
20	TraesCS7B01G172400	chr6B	79.605	912	144	20	804	1694	62680863	62679973	1.370000e-172	616
21	TraesCS7B01G172400	chr6B	79.605	912	144	20	804	1694	62685482	62684592	1.370000e-172	616
22	TraesCS7B01G172400	chr6B	91.710	193	14	2	2511	2702	207922457	207922266	1.590000e-67	267
23	TraesCS7B01G172400	chr3B	78.934	1144	191	34	728	1842	780300029	780298907	0.000000e+00	732
24	TraesCS7B01G172400	chr3B	92.268	194	13	2	2510	2702	486824524	486824332	9.530000e-70	274
25	TraesCS7B01G172400	chr1D	93.782	193	10	2	2512	2702	489775426	489775234	3.400000e-74	289
26	TraesCS7B01G172400	chr2D	93.229	192	11	2	2512	2702	578884594	578884784	5.700000e-72	281
27	TraesCS7B01G172400	chr6D	93.229	192	9	4	2512	2702	38875372	38875184	2.050000e-71	279
28	TraesCS7B01G172400	chr4A	92.308	195	9	3	2508	2702	501478105	501478293	3.430000e-69	272
29	TraesCS7B01G172400	chr5A	92.105	190	9	3	2513	2702	546309498	546309681	2.060000e-66	263

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	TraesCS7B01G172400	chr7B	244624064	244626765	2701	False	4990.0	4990	100.000000	1	2702	1	chr7B.!!$F2	2701
1	TraesCS7B01G172400	chr7B	244566050	244567438	1388	False	1857.0	1857	91.007000	470	1841	1	chr7B.!!$F1	1371
2	TraesCS7B01G172400	chr7B	244597961	244602312	4351	False	1247.0	2222	86.651500	1	2260	2	chr7B.!!$F4	2259
3	TraesCS7B01G172400	chr7B	244631498	244632607	1109	False	846.0	846	80.969000	801	1903	1	chr7B.!!$F3	1102
4	TraesCS7B01G172400	chr7D	264303188	264320814	17626	False	1646.8	4052	88.673200	1	2511	5	chr7D.!!$F1	2510
5	TraesCS7B01G172400	chr7A	287804302	287806754	2452	False	3840.0	3840	94.830000	39	2511	1	chr7A.!!$F2	2472
6	TraesCS7B01G172400	chr7A	287552245	287553200	955	False	723.0	723	80.785000	899	1840	1	chr7A.!!$F1	941
7	TraesCS7B01G172400	chrUn	101986489	101991889	5400	True	780.0	782	81.141500	795	1842	2	chrUn.!!$R1	1047
8	TraesCS7B01G172400	chr3D	583025964	583027008	1044	True	776.0	776	80.486000	793	1842	1	chr3D.!!$R1	1049
9	TraesCS7B01G172400	chr3D	583186445	583187403	958	True	649.0	649	79.508000	898	1840	1	chr3D.!!$R2	942
10	TraesCS7B01G172400	chr6B	62633065	62634086	1021	True	739.0	739	80.266000	816	1842	1	chr6B.!!$R1	1026
11	TraesCS7B01G172400	chr6B	62675330	62685482	10152	True	646.0	706	79.736667	804	1792	3	chr6B.!!$R3	988
12	TraesCS7B01G172400	chr3B	780298907	780300029	1122	True	732.0	732	78.934000	728	1842	1	chr3B.!!$R2	1114

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
322	9716	2.350522	ACAGTTCATGTCTGCGATTCC	58.649	47.619	16.23	0.0	37.75	3.01	F
485	10357	2.399396	AACGTTGAACCAATCGCAAG	57.601	45.000	0.00	0.0	0.00	4.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1196	20097	1.033746	ATCCAACATCTTGCCAGCCG	61.034	55.000	0.0	0.0	0.00	5.52	R
1722	25209	1.750399	GCGGATGCCAATCACAGGT	60.750	57.895	0.0	0.0	34.17	4.00	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
42	44	6.873997	TCTATGAATCTACGTGATTGGTGTT	58.126	36.000	15.02	0.00	44.70	3.32
88	7874	6.866248	ACCCATTCAAACGAATTTCAATGTAC	59.134	34.615	0.00	0.00	30.47	2.90
92	7878	8.843733	CATTCAAACGAATTTCAATGTACAGAG	58.156	33.333	0.33	0.00	30.47	3.35
151	7937	7.510549	TTCCAACTTTAAGATCTCAGTTTGG	57.489	36.000	10.71	12.05	0.00	3.28
181	7967	4.660168	AGGATGCATGGGTGATATTCTTC	58.340	43.478	2.46	0.00	0.00	2.87
210	7996	4.157656	TCCCACTTTCGAGCAAATATTTGG	59.842	41.667	25.61	12.16	38.57	3.28
309	9703	6.374333	ACTTCAGCAAAAGTAAAGACAGTTCA	59.626	34.615	2.21	0.00	37.71	3.18
322	9716	2.350522	ACAGTTCATGTCTGCGATTCC	58.649	47.619	16.23	0.00	37.75	3.01
353	9747	9.262472	GTATGACTAAAAACAAGATTGCGTAAG	57.738	33.333	0.00	0.00	43.44	2.34
485	10357	2.399396	AACGTTGAACCAATCGCAAG	57.601	45.000	0.00	0.00	0.00	4.01
793	10676	3.575630	TGCACTAAACATCAGACGACTC	58.424	45.455	0.00	0.00	0.00	3.36
875	17647	9.897744	GATTCTTCATGTCTAACAATTGAACAA	57.102	29.630	13.59	0.00	27.94	2.83
882	17654	5.088739	GTCTAACAATTGAACAATCTGGCG	58.911	41.667	13.59	0.00	0.00	5.69
906	19779	7.570691	GCGTGTATGCCTCTTTGGTATAAATAC	60.571	40.741	0.00	0.00	43.40	1.89
943	19816	5.519722	GGTAGACACATCAAACCAAAAGTG	58.480	41.667	0.00	0.00	34.68	3.16
1406	20322	3.744660	AGAAACATTCCAAGAAGAGCGT	58.255	40.909	0.00	0.00	0.00	5.07
1514	24995	3.584406	TCCACAGTCCATCTCTTGTCAAT	59.416	43.478	0.00	0.00	0.00	2.57
1722	25209	8.053355	TCATAGATACTCCAAGTCACTCTACAA	58.947	37.037	0.00	0.00	0.00	2.41
1784	25277	8.192774	AGTCTTCATACAATTTTGCCATATGTG	58.807	33.333	1.24	0.00	0.00	3.21
1892	25397	3.612717	CGATGTCCTTGGATAGTGGATCG	60.613	52.174	0.00	0.00	35.12	3.69
2002	25516	0.036105	CATGGCTGTACAGTCTGGCA	60.036	55.000	26.75	18.56	43.19	4.92
2020	25534	6.308766	GTCTGGCAGTGCAATTAAAGTATTTG	59.691	38.462	18.61	0.00	39.63	2.32
2055	25569	7.972277	GGATGGATATATGCTACAAATTGCAAG	59.028	37.037	4.94	0.00	42.74	4.01
2058	25572	7.665145	TGGATATATGCTACAAATTGCAAGCTA	59.335	33.333	17.85	10.46	42.74	3.32
2402	25938	3.838271	GCTGGCGTCGATCCTGGA	61.838	66.667	0.00	0.00	0.00	3.86
2447	25983	0.178953	AGCATTTGGGTTGCCACTCT	60.179	50.000	0.00	0.00	41.06	3.24
2528	30569	7.216494	TGAGAAATCGAAATATGTATCTGGCA	58.784	34.615	0.00	0.00	0.00	4.92
2529	30570	7.171508	TGAGAAATCGAAATATGTATCTGGCAC	59.828	37.037	0.00	0.00	0.00	5.01
2530	30571	6.992123	AGAAATCGAAATATGTATCTGGCACA	59.008	34.615	0.00	0.00	0.00	4.57
2531	30572	6.545504	AATCGAAATATGTATCTGGCACAC	57.454	37.500	0.00	0.00	0.00	3.82
2532	30573	4.048504	TCGAAATATGTATCTGGCACACG	58.951	43.478	0.00	0.00	0.00	4.49
2538	30579	0.249398	GTATCTGGCACACGGGAGTT	59.751	55.000	0.00	0.00	44.67	3.01
2539	30580	0.981183	TATCTGGCACACGGGAGTTT	59.019	50.000	0.00	0.00	44.67	2.66
2541	30582	0.106918	TCTGGCACACGGGAGTTTTT	60.107	50.000	0.00	0.00	44.67	1.94
2543	30584	0.106918	TGGCACACGGGAGTTTTTCT	60.107	50.000	0.00	0.00	44.67	2.52
2546	30587	1.021202	CACACGGGAGTTTTTCTGCA	58.979	50.000	0.00	0.00	44.67	4.41
2547	30588	1.403679	CACACGGGAGTTTTTCTGCAA	59.596	47.619	0.00	0.00	44.67	4.08
2549	30590	2.494073	ACACGGGAGTTTTTCTGCAAAA	59.506	40.909	0.00	0.00	44.67	2.44
2559	30600	5.427036	TTTTTCTGCAAAACTACCTACCG	57.573	39.130	0.00	0.00	30.89	4.02
2560	30601	2.088950	TCTGCAAAACTACCTACCGC	57.911	50.000	0.00	0.00	0.00	5.68
2561	30602	1.345089	TCTGCAAAACTACCTACCGCA	59.655	47.619	0.00	0.00	0.00	5.69
2562	30603	2.027561	TCTGCAAAACTACCTACCGCAT	60.028	45.455	0.00	0.00	0.00	4.73
2563	30604	2.351726	CTGCAAAACTACCTACCGCATC	59.648	50.000	0.00	0.00	0.00	3.91
2564	30605	1.669265	GCAAAACTACCTACCGCATCC	59.331	52.381	0.00	0.00	0.00	3.51
2566	30607	2.936498	CAAAACTACCTACCGCATCCAG	59.064	50.000	0.00	0.00	0.00	3.86
2567	30608	0.464452	AACTACCTACCGCATCCAGC	59.536	55.000	0.00	0.00	40.87	4.85
2577	30618	1.299165	GCATCCAGCGTCGTACGAT	60.299	57.895	22.57	2.02	46.05	3.73
2578	30619	0.870307	GCATCCAGCGTCGTACGATT	60.870	55.000	22.57	7.64	46.05	3.34
2579	30620	1.556564	CATCCAGCGTCGTACGATTT	58.443	50.000	22.57	7.27	46.05	2.17
2580	30621	1.255342	CATCCAGCGTCGTACGATTTG	59.745	52.381	22.57	18.17	46.05	2.32
2584	30625	0.921347	AGCGTCGTACGATTTGCATC	59.079	50.000	29.15	13.91	46.05	3.91
2586	30627	1.059979	GCGTCGTACGATTTGCATCAA	59.940	47.619	22.57	0.00	46.05	2.57
2605	32061	3.449789	GCGGTCAACGGTTCTTTTC	57.550	52.632	0.00	0.00	44.51	2.29
2606	32062	0.040692	GCGGTCAACGGTTCTTTTCC	60.041	55.000	0.00	0.00	44.51	3.13
2613	32069	2.778372	CGGTTCTTTTCCGCAAACG	58.222	52.632	0.00	0.00	41.48	3.60
2616	32072	0.937699	GTTCTTTTCCGCAAACGCCC	60.938	55.000	0.00	0.00	38.22	6.13
2617	32073	2.395367	TTCTTTTCCGCAAACGCCCG	62.395	55.000	0.00	0.00	38.22	6.13
2618	32074	4.632458	TTTTCCGCAAACGCCCGC	62.632	61.111	0.00	0.00	38.22	6.13
2655	32111	3.052082	GCTGCTCCTTCTGCGCAA	61.052	61.111	13.05	0.00	32.66	4.85
2656	32112	3.036783	GCTGCTCCTTCTGCGCAAG	62.037	63.158	13.05	6.87	32.66	4.01
2657	32113	1.375140	CTGCTCCTTCTGCGCAAGA	60.375	57.895	13.05	8.60	43.02	3.02
2658	32114	1.633852	CTGCTCCTTCTGCGCAAGAC	61.634	60.000	13.05	2.68	43.02	3.01
2668	32124	3.470567	CGCAAGACGCTCGTGGAC	61.471	66.667	0.00	0.00	39.08	4.02
2669	32125	2.049063	GCAAGACGCTCGTGGACT	60.049	61.111	0.00	0.00	37.77	3.85
2671	32127	1.222115	GCAAGACGCTCGTGGACTTT	61.222	55.000	0.00	0.00	37.77	2.66
2673	32129	1.192534	CAAGACGCTCGTGGACTTTTC	59.807	52.381	0.00	0.00	0.00	2.29
2674	32130	0.674534	AGACGCTCGTGGACTTTTCT	59.325	50.000	0.00	0.00	0.00	2.52
2675	32131	0.784778	GACGCTCGTGGACTTTTCTG	59.215	55.000	0.00	0.00	0.00	3.02
2676	32132	1.222115	ACGCTCGTGGACTTTTCTGC	61.222	55.000	0.00	0.00	0.00	4.26
2678	32134	0.514691	GCTCGTGGACTTTTCTGCTG	59.485	55.000	0.00	0.00	0.00	4.41
2680	32136	0.106708	TCGTGGACTTTTCTGCTGCT	59.893	50.000	0.00	0.00	0.00	4.24
2683	32139	0.179009	TGGACTTTTCTGCTGCTGCT	60.179	50.000	17.00	0.00	40.48	4.24
2684	32140	0.520847	GGACTTTTCTGCTGCTGCTC	59.479	55.000	17.00	3.83	40.48	4.26
2686	32142	0.179009	ACTTTTCTGCTGCTGCTCCA	60.179	50.000	17.00	0.00	40.48	3.86
2687	32143	1.174783	CTTTTCTGCTGCTGCTCCAT	58.825	50.000	17.00	0.00	40.48	3.41
2688	32144	0.885879	TTTTCTGCTGCTGCTCCATG	59.114	50.000	17.00	2.59	40.48	3.66
2689	32145	0.251033	TTTCTGCTGCTGCTCCATGT	60.251	50.000	17.00	0.00	40.48	3.21
2690	32146	0.958876	TTCTGCTGCTGCTCCATGTG	60.959	55.000	17.00	0.00	40.48	3.21
2691	32147	3.052620	CTGCTGCTGCTCCATGTGC	62.053	63.158	17.00	0.00	40.48	4.57
2692	32148	3.060000	GCTGCTGCTCCATGTGCA	61.060	61.111	8.53	9.72	38.81	4.57
2697	32153	2.045634	TGCTCCATGTGCAGCTCC	60.046	61.111	6.54	0.00	36.53	4.70
2698	32154	2.271497	GCTCCATGTGCAGCTCCT	59.729	61.111	0.00	0.00	32.48	3.69
2700	32156	1.153208	CTCCATGTGCAGCTCCTCC	60.153	63.158	0.00	0.00	0.00	4.30
2701	32157	2.124403	CCATGTGCAGCTCCTCCC	60.124	66.667	0.00	0.00	0.00	4.30

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
8	9	8.781196	TCACGTAGATTCATAGAAGGTATGTAC	58.219	37.037	0.00	0.00	0.00	2.90
9	10	8.913487	TCACGTAGATTCATAGAAGGTATGTA	57.087	34.615	0.00	0.00	0.00	2.29
11	12	9.133627	CAATCACGTAGATTCATAGAAGGTATG	57.866	37.037	9.38	0.00	45.06	2.39
88	7874	5.350633	GTGATGGAGATCTTCACTTCTCTG	58.649	45.833	5.64	0.00	43.28	3.35
138	7924	2.248248	TGGACGTCCAAACTGAGATCT	58.752	47.619	34.60	0.00	44.35	2.75
151	7937	1.097547	CCCATGCATCCTTGGACGTC	61.098	60.000	7.13	7.13	38.26	4.34
181	7967	1.207089	TGCTCGAAAGTGGGACATAGG	59.793	52.381	0.00	0.00	44.52	2.57
303	9697	2.349590	TGGAATCGCAGACATGAACTG	58.650	47.619	16.07	16.07	42.51	3.16
309	9703	5.928839	GTCATACTAATGGAATCGCAGACAT	59.071	40.000	0.00	0.00	34.27	3.06
342	9736	7.798596	ATGATCATCTTTTCTTACGCAATCT	57.201	32.000	1.18	0.00	0.00	2.40
485	10357	1.561542	ACTGGACAAGGATCATGGGTC	59.438	52.381	0.00	0.00	0.00	4.46
756	10639	8.100791	TGTTTAGTGCATATTTTAGAGTGTCCT	58.899	33.333	0.00	0.00	0.00	3.85
793	10676	0.108472	TCGAGATCTGGCACAAGCAG	60.108	55.000	0.00	0.00	44.61	4.24
869	17641	1.737236	GCATACACGCCAGATTGTTCA	59.263	47.619	0.00	0.00	0.00	3.18
882	17654	7.570691	GCGTATTTATACCAAAGAGGCATACAC	60.571	40.741	4.69	0.00	43.14	2.90
906	19779	2.186076	GTCTACCGTTCTTCTGATGCG	58.814	52.381	0.00	0.00	0.00	4.73
943	19816	1.960689	AGAGAGGAGAATAGAAGCGCC	59.039	52.381	2.29	0.00	0.00	6.53
946	19819	5.105146	TGGTTGAAGAGAGGAGAATAGAAGC	60.105	44.000	0.00	0.00	0.00	3.86
1196	20097	1.033746	ATCCAACATCTTGCCAGCCG	61.034	55.000	0.00	0.00	0.00	5.52
1271	20187	5.590226	GATGGCCTTCATCTCGACGAAGT	62.590	52.174	13.60	0.00	46.69	3.01
1406	20322	3.008375	AGACACAGCATTAGCCTTCTTCA	59.992	43.478	0.00	0.00	43.56	3.02
1514	24995	2.630098	TGTTTTGGCATTCCGATTTCCA	59.370	40.909	0.00	0.00	34.14	3.53
1690	25174	7.561722	AGTGACTTGGAGTATCTATGAGCTAAA	59.438	37.037	0.00	0.00	33.73	1.85
1722	25209	1.750399	GCGGATGCCAATCACAGGT	60.750	57.895	0.00	0.00	34.17	4.00
1850	25353	7.429633	ACATCGAAAGGAAGTATGTAGAGATG	58.570	38.462	0.00	0.00	37.28	2.90
1892	25397	2.143925	GACCTAGCACACAAGGAACAC	58.856	52.381	0.00	0.00	36.66	3.32
1959	25464	6.127168	TGTGGTGATGGTGGTAATCTTAGTAG	60.127	42.308	0.00	0.00	0.00	2.57
2051	25565	8.883731	TCTATAAGTTTCAGTTCAATAGCTTGC	58.116	33.333	0.00	0.00	32.11	4.01
2055	25569	9.050601	AGCATCTATAAGTTTCAGTTCAATAGC	57.949	33.333	0.00	0.00	0.00	2.97
2058	25572	9.453572	TTGAGCATCTATAAGTTTCAGTTCAAT	57.546	29.630	0.00	0.00	34.92	2.57
2125	25661	7.196331	ACAAGCAGAAGTTGAGATGTTTTTAC	58.804	34.615	0.00	0.00	0.00	2.01
2270	25806	2.271800	CTGTCCCGATTGCTGTTCTAC	58.728	52.381	0.00	0.00	0.00	2.59
2511	26048	3.184379	CCGTGTGCCAGATACATATTTCG	59.816	47.826	0.00	0.00	0.00	3.46
2519	30560	0.249398	AACTCCCGTGTGCCAGATAC	59.751	55.000	0.00	0.00	0.00	2.24
2526	30567	0.317854	GCAGAAAAACTCCCGTGTGC	60.318	55.000	0.00	0.00	0.00	4.57
2528	30569	1.757682	TTGCAGAAAAACTCCCGTGT	58.242	45.000	0.00	0.00	0.00	4.49
2529	30570	2.861462	TTTGCAGAAAAACTCCCGTG	57.139	45.000	0.00	0.00	0.00	4.94
2538	30579	3.251487	GCGGTAGGTAGTTTTGCAGAAAA	59.749	43.478	0.00	0.00	0.00	2.29
2539	30580	2.809696	GCGGTAGGTAGTTTTGCAGAAA	59.190	45.455	0.00	0.00	0.00	2.52
2541	30582	1.345089	TGCGGTAGGTAGTTTTGCAGA	59.655	47.619	0.00	0.00	0.00	4.26
2543	30584	2.352388	GATGCGGTAGGTAGTTTTGCA	58.648	47.619	0.00	0.00	35.10	4.08
2546	30587	2.679930	GCTGGATGCGGTAGGTAGTTTT	60.680	50.000	0.00	0.00	0.00	2.43
2547	30588	1.134491	GCTGGATGCGGTAGGTAGTTT	60.134	52.381	0.00	0.00	0.00	2.66
2549	30590	2.125178	GCTGGATGCGGTAGGTAGT	58.875	57.895	0.00	0.00	0.00	2.73
2559	30600	0.870307	AATCGTACGACGCTGGATGC	60.870	55.000	22.14	0.00	42.21	3.91
2560	30601	1.255342	CAAATCGTACGACGCTGGATG	59.745	52.381	22.14	8.05	42.21	3.51
2561	30602	1.556564	CAAATCGTACGACGCTGGAT	58.443	50.000	22.14	0.00	42.21	3.41
2562	30603	1.074319	GCAAATCGTACGACGCTGGA	61.074	55.000	22.14	0.00	42.21	3.86
2563	30604	1.343821	GCAAATCGTACGACGCTGG	59.656	57.895	22.14	9.76	42.21	4.85
2564	30605	0.645355	ATGCAAATCGTACGACGCTG	59.355	50.000	26.62	21.22	42.21	5.18
2566	30607	0.643310	TGATGCAAATCGTACGACGC	59.357	50.000	22.14	22.33	42.21	5.19
2567	30608	2.842069	GCTTGATGCAAATCGTACGACG	60.842	50.000	22.14	13.18	41.67	5.12
2570	30611	1.592110	CCGCTTGATGCAAATCGTACG	60.592	52.381	9.53	9.53	43.06	3.67
2571	30612	1.396996	ACCGCTTGATGCAAATCGTAC	59.603	47.619	0.00	0.00	43.06	3.67
2573	30614	0.447801	GACCGCTTGATGCAAATCGT	59.552	50.000	0.00	0.00	43.06	3.73
2574	30615	0.447406	TGACCGCTTGATGCAAATCG	59.553	50.000	0.00	0.00	43.06	3.34
2577	30618	0.040514	CGTTGACCGCTTGATGCAAA	60.041	50.000	0.00	0.00	43.06	3.68
2578	30619	1.573932	CGTTGACCGCTTGATGCAA	59.426	52.632	0.00	0.00	43.06	4.08
2579	30620	2.324330	CCGTTGACCGCTTGATGCA	61.324	57.895	0.00	0.00	43.06	3.96
2580	30621	1.852067	AACCGTTGACCGCTTGATGC	61.852	55.000	0.00	0.00	38.57	3.91
2584	30625	0.661020	AAAGAACCGTTGACCGCTTG	59.339	50.000	0.00	0.00	34.38	4.01
2586	30627	0.942252	GAAAAGAACCGTTGACCGCT	59.058	50.000	0.00	0.00	34.38	5.52
2599	32055	2.899044	CGGGCGTTTGCGGAAAAGA	61.899	57.895	18.55	0.00	44.10	2.52
2641	32097	2.734673	CGTCTTGCGCAGAAGGAGC	61.735	63.158	11.31	0.46	43.33	4.70
2642	32098	3.468007	CGTCTTGCGCAGAAGGAG	58.532	61.111	11.31	4.68	31.28	3.69
2654	32110	1.068741	AGAAAAGTCCACGAGCGTCTT	59.931	47.619	0.00	0.00	0.00	3.01
2655	32111	0.674534	AGAAAAGTCCACGAGCGTCT	59.325	50.000	0.00	0.00	0.00	4.18
2656	32112	0.784778	CAGAAAAGTCCACGAGCGTC	59.215	55.000	0.00	0.00	0.00	5.19
2657	32113	1.222115	GCAGAAAAGTCCACGAGCGT	61.222	55.000	0.00	0.00	0.00	5.07
2658	32114	0.946221	AGCAGAAAAGTCCACGAGCG	60.946	55.000	0.00	0.00	0.00	5.03
2660	32116	0.514691	GCAGCAGAAAAGTCCACGAG	59.485	55.000	0.00	0.00	0.00	4.18
2662	32118	0.236711	CAGCAGCAGAAAAGTCCACG	59.763	55.000	0.00	0.00	0.00	4.94
2664	32120	0.179009	AGCAGCAGCAGAAAAGTCCA	60.179	50.000	3.17	0.00	45.49	4.02
2665	32121	0.520847	GAGCAGCAGCAGAAAAGTCC	59.479	55.000	3.17	0.00	45.49	3.85
2667	32123	0.179009	TGGAGCAGCAGCAGAAAAGT	60.179	50.000	3.17	0.00	45.49	2.66
2668	32124	1.135373	CATGGAGCAGCAGCAGAAAAG	60.135	52.381	3.17	0.00	45.49	2.27
2669	32125	0.885879	CATGGAGCAGCAGCAGAAAA	59.114	50.000	3.17	0.00	45.49	2.29
2671	32127	0.958876	CACATGGAGCAGCAGCAGAA	60.959	55.000	3.17	0.00	45.49	3.02
2673	32129	3.052620	GCACATGGAGCAGCAGCAG	62.053	63.158	3.17	0.00	45.49	4.24
2674	32130	3.060000	GCACATGGAGCAGCAGCA	61.060	61.111	3.17	0.00	45.49	4.41
2675	32131	3.060000	TGCACATGGAGCAGCAGC	61.060	61.111	10.58	0.00	37.02	5.25
2683	32139	2.673200	GGGAGGAGCTGCACATGGA	61.673	63.158	8.35	0.00	0.00	3.41
2684	32140	2.124403	GGGAGGAGCTGCACATGG	60.124	66.667	8.35	0.00	0.00	3.66

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.