AutoCloner

Multiple sequence alignment - TraesCS7D01G493700

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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	TraesCS7D01G493700	chr7D	100.000	3218	0	0	1	3218	601788040	601784823	0.000000e+00	5943.0
1	TraesCS7D01G493700	chr7D	86.669	3158	283	56	4	3113	601700752	601697685	0.000000e+00	3373.0
2	TraesCS7D01G493700	chr7D	78.184	1421	245	38	968	2355	601494398	601493010	0.000000e+00	846.0
3	TraesCS7D01G493700	chr7D	83.178	107	10	5	248	351	613623038	613622937	1.230000e-14	91.6
4	TraesCS7D01G493700	chr7A	93.269	2377	91	31	632	2987	693399323	693396995	0.000000e+00	3439.0
5	TraesCS7D01G493700	chr7A	84.220	564	44	17	51	582	693399882	693399332	1.030000e-139	507.0
6	TraesCS7D01G493700	chr7A	75.000	400	79	11	1443	1824	667937529	667937925	7.140000e-37	165.0
7	TraesCS7D01G493700	chr7B	86.920	2630	225	66	632	3218	680854823	680852270	0.000000e+00	2841.0
8	TraesCS7D01G493700	chr7B	78.068	1418	252	35	968	2355	680541717	680540329	0.000000e+00	841.0
9	TraesCS7D01G493700	chr7B	77.305	846	146	22	1414	2243	732713250	732712435	1.050000e-124	457.0
10	TraesCS7D01G493700	chr7B	87.197	289	24	11	1	280	680658818	680658534	1.860000e-82	316.0
11	TraesCS7D01G493700	chr7B	80.542	406	30	17	203	579	680855220	680854835	1.900000e-67	267.0
12	TraesCS7D01G493700	chr7B	91.525	59	1	1	319	373	680658252	680658194	9.570000e-11	78.7
13	TraesCS7D01G493700	chr1B	79.785	1301	226	22	959	2243	560020317	560019038	0.000000e+00	911.0
14	TraesCS7D01G493700	chr1D	79.396	1291	232	20	959	2235	414568437	414567167	0.000000e+00	880.0
15	TraesCS7D01G493700	chr2D	77.392	1557	277	49	970	2492	33340667	33342182	0.000000e+00	856.0
16	TraesCS7D01G493700	chr3A	76.521	1282	240	39	993	2242	731787401	731786149	0.000000e+00	643.0
17	TraesCS7D01G493700	chrUn	74.644	1475	310	48	985	2420	60949827	60948378	7.690000e-166	593.0
18	TraesCS7D01G493700	chr4A	74.611	1477	297	55	985	2420	601183335	601181896	2.150000e-161	579.0
19	TraesCS7D01G493700	chr6B	73.828	1280	275	42	995	2242	2809018	2807767	1.360000e-123	453.0
20	TraesCS7D01G493700	chr2B	73.666	862	188	28	991	1824	801177598	801178448	6.750000e-77	298.0

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	TraesCS7D01G493700	chr7D	601784823	601788040	3217	True	5943	5943	100.0000	1	3218	1	chr7D.!!$R3	3217
1	TraesCS7D01G493700	chr7D	601697685	601700752	3067	True	3373	3373	86.6690	4	3113	1	chr7D.!!$R2	3109
2	TraesCS7D01G493700	chr7D	601493010	601494398	1388	True	846	846	78.1840	968	2355	1	chr7D.!!$R1	1387
3	TraesCS7D01G493700	chr7A	693396995	693399882	2887	True	1973	3439	88.7445	51	2987	2	chr7A.!!$R1	2936
4	TraesCS7D01G493700	chr7B	680852270	680855220	2950	True	1554	2841	83.7310	203	3218	2	chr7B.!!$R4	3015
5	TraesCS7D01G493700	chr7B	680540329	680541717	1388	True	841	841	78.0680	968	2355	1	chr7B.!!$R1	1387
6	TraesCS7D01G493700	chr7B	732712435	732713250	815	True	457	457	77.3050	1414	2243	1	chr7B.!!$R2	829
7	TraesCS7D01G493700	chr1B	560019038	560020317	1279	True	911	911	79.7850	959	2243	1	chr1B.!!$R1	1284
8	TraesCS7D01G493700	chr1D	414567167	414568437	1270	True	880	880	79.3960	959	2235	1	chr1D.!!$R1	1276
9	TraesCS7D01G493700	chr2D	33340667	33342182	1515	False	856	856	77.3920	970	2492	1	chr2D.!!$F1	1522
10	TraesCS7D01G493700	chr3A	731786149	731787401	1252	True	643	643	76.5210	993	2242	1	chr3A.!!$R1	1249
11	TraesCS7D01G493700	chrUn	60948378	60949827	1449	True	593	593	74.6440	985	2420	1	chrUn.!!$R1	1435
12	TraesCS7D01G493700	chr4A	601181896	601183335	1439	True	579	579	74.6110	985	2420	1	chr4A.!!$R1	1435
13	TraesCS7D01G493700	chr6B	2807767	2809018	1251	True	453	453	73.8280	995	2242	1	chr6B.!!$R1	1247
14	TraesCS7D01G493700	chr2B	801177598	801178448	850	False	298	298	73.6660	991	1824	1	chr2B.!!$F1	833

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
422	460	0.033503	AATTCCCCACCCCATTCGAC	60.034	55.0	0.00	0.0	0.0	4.20	F
981	1048	0.110644	GCCGCGTCTTTTCAGTTCAG	60.111	55.0	4.92	0.0	0.0	3.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1389	1474	1.453155	CAACTTGAGGCTGCGGTAAT	58.547	50.0	0.0	0.0	0.00	1.89	R
2956	3155	0.332972	GGGGAAAGCTGAACCAGGAT	59.667	55.0	0.0	0.0	31.21	3.24	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
194	200	7.706607	ACAAAGGCAAAGTTATTTCTCTGTTTC	59.293	33.333	0.00	0.00	0.00	2.78
206	212	5.808366	TTCTCTGTTTCTACTGACATGGT	57.192	39.130	0.00	0.00	0.00	3.55
238	245	4.774124	TGATTTTTGCACAATGGACCAAA	58.226	34.783	0.00	0.00	0.00	3.28
240	247	5.238868	TGATTTTTGCACAATGGACCAAATG	59.761	36.000	0.00	3.47	0.00	2.32
298	307	8.428186	AATTATAGCATGGCATTTTTGTCAAG	57.572	30.769	0.00	0.00	0.00	3.02
307	316	4.559153	GCATTTTTGTCAAGTAGCATGGT	58.441	39.130	1.62	1.62	0.00	3.55
412	450	2.488153	CTCGAGGTGAAAAATTCCCCAC	59.512	50.000	3.91	0.00	28.55	4.61
416	454	1.723288	GTGAAAAATTCCCCACCCCA	58.277	50.000	0.00	0.00	0.00	4.96
417	455	2.265367	GTGAAAAATTCCCCACCCCAT	58.735	47.619	0.00	0.00	0.00	4.00
419	457	2.909662	TGAAAAATTCCCCACCCCATTC	59.090	45.455	0.00	0.00	0.00	2.67
420	458	1.567357	AAAATTCCCCACCCCATTCG	58.433	50.000	0.00	0.00	0.00	3.34
421	459	0.707616	AAATTCCCCACCCCATTCGA	59.292	50.000	0.00	0.00	0.00	3.71
422	460	0.033503	AATTCCCCACCCCATTCGAC	60.034	55.000	0.00	0.00	0.00	4.20
425	463	4.096003	CCCACCCCATTCGACGCT	62.096	66.667	0.00	0.00	0.00	5.07
426	464	2.511600	CCACCCCATTCGACGCTC	60.512	66.667	0.00	0.00	0.00	5.03
427	465	2.511600	CACCCCATTCGACGCTCC	60.512	66.667	0.00	0.00	0.00	4.70
430	468	4.547367	CCCATTCGACGCTCCCCC	62.547	72.222	0.00	0.00	0.00	5.40
477	515	1.962807	CATTCCTCTGGATCGAGCTCT	59.037	52.381	12.85	0.00	0.00	4.09
540	584	2.284921	CCTCCTCCCTGCAGTCCA	60.285	66.667	13.81	0.00	0.00	4.02
579	623	1.152567	AGATCGAGCTCCCCTCCTG	60.153	63.158	8.47	0.00	37.27	3.86
672	718	1.952266	CTTCCGCTTCACGCCGTAAC	61.952	60.000	0.00	0.00	41.76	2.50
677	723	0.947180	GCTTCACGCCGTAACTCCAA	60.947	55.000	0.00	0.00	0.00	3.53
689	735	3.819188	CTCCAAGGGAGCGCAATC	58.181	61.111	11.47	0.00	43.29	2.67
690	736	1.222936	CTCCAAGGGAGCGCAATCT	59.777	57.895	11.47	0.00	43.29	2.40
691	737	0.393537	CTCCAAGGGAGCGCAATCTT	60.394	55.000	11.47	6.75	43.29	2.40
692	738	0.392998	TCCAAGGGAGCGCAATCTTC	60.393	55.000	11.47	0.00	0.00	2.87
756	807	3.596214	TGTTTTTCTCTCCATCTACCGC	58.404	45.455	0.00	0.00	0.00	5.68
769	820	1.369091	CTACCGCTGGCGCTCAAATT	61.369	55.000	7.64	0.00	38.24	1.82
782	833	5.160641	GCGCTCAAATTTTTCCTGTATTCA	58.839	37.500	0.00	0.00	0.00	2.57
794	845	5.489792	TCCTGTATTCATGCCTAGAATCC	57.510	43.478	0.00	0.00	37.02	3.01
807	858	0.693049	AGAATCCAAGGAACACGCCT	59.307	50.000	0.00	0.00	40.93	5.52
896	955	2.352032	CCGTCTCACCTCACCTCCC	61.352	68.421	0.00	0.00	0.00	4.30
916	975	5.253330	TCCCTCCTGTATTTTACTTGCTTG	58.747	41.667	0.00	0.00	0.00	4.01
921	980	7.595130	CCTCCTGTATTTTACTTGCTTGTTTTC	59.405	37.037	0.00	0.00	0.00	2.29
981	1048	0.110644	GCCGCGTCTTTTCAGTTCAG	60.111	55.000	4.92	0.00	0.00	3.02
999	1070	2.282251	TGGACTCGACGGAGCACT	60.282	61.111	0.00	0.00	44.48	4.40
1088	1159	1.926511	CTGTTGGCATCCAAGGACGC	61.927	60.000	0.00	0.00	44.82	5.19
1215	1286	0.968405	GTGGAAAGCCTGCCAATCAA	59.032	50.000	0.00	0.00	35.63	2.57
2269	2442	5.321959	TGACTCAGATCATGTCTTCTGTC	57.678	43.478	16.84	13.66	40.22	3.51
2314	2502	3.370104	ACTAGCAGACCAGCAGTAGAAT	58.630	45.455	0.00	0.00	36.85	2.40
2553	2746	2.724977	TCAAGATGAGACGTTCGCTT	57.275	45.000	0.00	0.00	0.00	4.68
2555	2748	1.656095	CAAGATGAGACGTTCGCTTCC	59.344	52.381	0.00	0.00	0.00	3.46
2556	2749	0.888619	AGATGAGACGTTCGCTTCCA	59.111	50.000	0.00	0.00	0.00	3.53
2557	2750	1.478510	AGATGAGACGTTCGCTTCCAT	59.521	47.619	0.00	0.00	0.00	3.41
2560	2753	1.201343	GAGACGTTCGCTTCCATAGC	58.799	55.000	0.00	0.00	46.83	2.97
2592	2785	5.703876	CTCTTTGAGTGGAGGCATTTTTAC	58.296	41.667	0.00	0.00	0.00	2.01
2642	2835	5.759059	TCCATAGCCTGTCAATTTGATCTT	58.241	37.500	1.78	0.00	0.00	2.40
2660	2853	6.389091	TGATCTTTGTTGTCCATTATGCAAC	58.611	36.000	8.18	8.18	41.81	4.17
2688	2881	5.461526	GCATAACAAAGTTTCAGGAGGTTC	58.538	41.667	0.00	0.00	0.00	3.62
2699	2892	0.035630	AGGAGGTTCACAGATGCTGC	60.036	55.000	0.00	0.00	34.37	5.25
2717	2910	3.178267	CTGCGTGTGTCAACATGTTTTT	58.822	40.909	8.77	0.00	43.97	1.94
2815	3008	3.508845	AGAAAGAGCCTTGGTGCTTTA	57.491	42.857	8.19	0.00	42.95	1.85
2841	3034	3.895232	ATGTTGGGAGTACTGCTAGTG	57.105	47.619	14.52	0.00	0.00	2.74
2929	3127	1.191489	TTGTGGATGTGCTCTCCGGA	61.191	55.000	2.93	2.93	35.41	5.14
2930	3128	1.153549	GTGGATGTGCTCTCCGGAC	60.154	63.158	0.00	0.00	35.41	4.79
2931	3129	1.305297	TGGATGTGCTCTCCGGACT	60.305	57.895	0.00	0.00	35.41	3.85
2933	3131	1.439644	GATGTGCTCTCCGGACTCC	59.560	63.158	0.00	0.00	34.66	3.85
2951	3150	5.279809	GGACTCCGGGTGCAAGATAAATATA	60.280	44.000	0.00	0.00	36.25	0.86
2953	3152	5.307196	ACTCCGGGTGCAAGATAAATATACT	59.693	40.000	0.00	0.00	0.00	2.12
2956	3155	5.995282	CCGGGTGCAAGATAAATATACTTCA	59.005	40.000	0.00	0.00	0.00	3.02
2959	3158	7.148407	CGGGTGCAAGATAAATATACTTCATCC	60.148	40.741	0.00	0.00	0.00	3.51
2987	3186	3.023832	AGCTTTCCCCGGATAAAACATG	58.976	45.455	0.73	0.00	0.00	3.21
3129	3329	3.857052	CCGGACTGAACAATTAGCACTA	58.143	45.455	0.00	0.00	0.00	2.74
3130	3330	3.865745	CCGGACTGAACAATTAGCACTAG	59.134	47.826	0.00	0.00	0.00	2.57
3132	3332	5.168569	CGGACTGAACAATTAGCACTAGAA	58.831	41.667	0.00	0.00	0.00	2.10
3133	3333	5.062308	CGGACTGAACAATTAGCACTAGAAC	59.938	44.000	0.00	0.00	0.00	3.01
3134	3334	6.166982	GGACTGAACAATTAGCACTAGAACT	58.833	40.000	0.00	0.00	0.00	3.01
3135	3335	6.091441	GGACTGAACAATTAGCACTAGAACTG	59.909	42.308	0.00	0.00	0.00	3.16
3136	3336	6.759272	ACTGAACAATTAGCACTAGAACTGA	58.241	36.000	0.00	0.00	0.00	3.41
3137	3337	7.217200	ACTGAACAATTAGCACTAGAACTGAA	58.783	34.615	0.00	0.00	0.00	3.02
3140	3340	6.893958	ACAATTAGCACTAGAACTGAATCG	57.106	37.500	0.00	0.00	0.00	3.34
3145	3345	5.847670	AGCACTAGAACTGAATCGAAAAC	57.152	39.130	0.00	0.00	0.00	2.43
3156	3356	4.124238	TGAATCGAAAACAAGACGACCTT	58.876	39.130	0.00	0.00	38.79	3.50
3160	3360	3.933955	TCGAAAACAAGACGACCTTTTCA	59.066	39.130	0.00	0.00	33.88	2.69
3167	3367	4.703093	ACAAGACGACCTTTTCAGGAAAAA	59.297	37.500	8.39	0.00	44.19	1.94
3203	3403	4.104261	AGTGGGCCTAACCTTGGATTATAC	59.896	45.833	4.53	0.00	39.10	1.47
3204	3404	4.048600	TGGGCCTAACCTTGGATTATACA	58.951	43.478	4.53	0.00	39.10	2.29
3210	3410	6.651225	GCCTAACCTTGGATTATACAGATGAC	59.349	42.308	0.00	0.00	0.00	3.06

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
171	177	7.588497	AGAAACAGAGAAATAACTTTGCCTT	57.412	32.000	0.00	0.00	0.00	4.35
216	223	4.412796	TTGGTCCATTGTGCAAAAATCA	57.587	36.364	0.00	0.00	0.00	2.57
238	245	7.390996	TGCCATGAAAATATTGTTTTGCTTCAT	59.609	29.630	0.00	4.25	0.00	2.57
240	247	7.131498	TGCCATGAAAATATTGTTTTGCTTC	57.869	32.000	0.00	0.00	0.00	3.86
280	287	3.368843	GCTACTTGACAAAAATGCCATGC	59.631	43.478	0.00	0.00	0.00	4.06
412	450	4.547367	GGGGAGCGTCGAATGGGG	62.547	72.222	0.00	0.00	0.00	4.96
427	465	2.674380	GTCTTGCAGCACTGGGGG	60.674	66.667	0.00	0.00	0.00	5.40
430	468	2.119801	ATTAGGTCTTGCAGCACTGG	57.880	50.000	0.00	0.00	0.00	4.00
432	470	4.021981	GGAAAAATTAGGTCTTGCAGCACT	60.022	41.667	0.00	0.00	0.00	4.40
433	471	4.237724	GGAAAAATTAGGTCTTGCAGCAC	58.762	43.478	0.00	0.00	0.00	4.40
434	472	3.258123	GGGAAAAATTAGGTCTTGCAGCA	59.742	43.478	0.00	0.00	0.00	4.41
532	576	4.662961	CGCGAGGTGTGGACTGCA	62.663	66.667	0.00	0.00	0.00	4.41
629	673	1.371183	CTTGGTTGAGTGAGGCGGA	59.629	57.895	0.00	0.00	0.00	5.54
630	674	2.328099	GCTTGGTTGAGTGAGGCGG	61.328	63.158	0.00	0.00	0.00	6.13
677	723	1.997874	AGGGAAGATTGCGCTCCCT	60.998	57.895	24.55	24.55	45.48	4.20
684	730	2.093216	CTGCGTCAGGGAAGATTGC	58.907	57.895	0.00	0.00	0.00	3.56
756	807	2.288395	ACAGGAAAAATTTGAGCGCCAG	60.288	45.455	2.29	0.00	0.00	4.85
769	820	6.772716	GGATTCTAGGCATGAATACAGGAAAA	59.227	38.462	0.00	0.00	35.44	2.29
782	833	3.682718	CGTGTTCCTTGGATTCTAGGCAT	60.683	47.826	0.00	0.00	36.14	4.40
842	894	4.500116	GACGCGCCAGAGGAGGTC	62.500	72.222	5.73	0.00	0.00	3.85
847	906	4.821589	GAAGGGACGCGCCAGAGG	62.822	72.222	18.87	0.00	38.95	3.69
896	955	8.352942	AGAAAACAAGCAAGTAAAATACAGGAG	58.647	33.333	0.00	0.00	0.00	3.69
934	993	4.873010	ACTCCTTCAGACCAGCTTCTATA	58.127	43.478	0.00	0.00	0.00	1.31
981	1048	1.303799	TAGTGCTCCGTCGAGTCCAC	61.304	60.000	0.00	0.00	38.49	4.02
999	1070	2.134287	GCCTCTCCTGTCCGGCATA	61.134	63.158	0.00	0.00	42.06	3.14
1389	1474	1.453155	CAACTTGAGGCTGCGGTAAT	58.547	50.000	0.00	0.00	0.00	1.89
2269	2442	9.617523	AGTACTACTAAGTAAGAAGAGCTAAGG	57.382	37.037	0.00	0.00	39.90	2.69
2314	2502	2.836372	TGCAACCATCCAAAATGGCATA	59.164	40.909	0.00	0.00	42.82	3.14
2356	2547	4.119136	TCAGCACATCATAATACACACCG	58.881	43.478	0.00	0.00	0.00	4.94
2534	2727	2.596452	GAAGCGAACGTCTCATCTTGA	58.404	47.619	0.00	0.00	0.00	3.02
2560	2753	1.462283	CCACTCAAAGAGCATGACGTG	59.538	52.381	0.00	0.00	32.04	4.49
2561	2754	1.344438	TCCACTCAAAGAGCATGACGT	59.656	47.619	0.00	0.00	32.04	4.34
2642	2835	4.262377	CCCAAGTTGCATAATGGACAACAA	60.262	41.667	12.36	0.00	44.77	2.83
2660	2853	4.280677	TCCTGAAACTTTGTTATGCCCAAG	59.719	41.667	0.00	0.00	0.00	3.61
2674	2867	3.808618	GCATCTGTGAACCTCCTGAAACT	60.809	47.826	0.00	0.00	0.00	2.66
2688	2881	1.223417	TGACACACGCAGCATCTGTG	61.223	55.000	11.61	11.61	46.11	3.66
2773	2966	7.444629	TCTTCAATCATAGCAGCATTAATCC	57.555	36.000	0.00	0.00	0.00	3.01
2815	3008	2.165845	GCAGTACTCCCAACATACGACT	59.834	50.000	0.00	0.00	0.00	4.18
2841	3034	3.785486	ACAGAAAACAGCAGGAAAAAGC	58.215	40.909	0.00	0.00	0.00	3.51
2910	3108	1.191489	TCCGGAGAGCACATCCACAA	61.191	55.000	0.00	0.00	36.57	3.33
2911	3109	1.609210	TCCGGAGAGCACATCCACA	60.609	57.895	0.00	0.00	36.57	4.17
2912	3110	1.153549	GTCCGGAGAGCACATCCAC	60.154	63.158	3.06	0.00	36.57	4.02
2913	3111	1.305297	AGTCCGGAGAGCACATCCA	60.305	57.895	3.06	0.00	36.57	3.41
2914	3112	1.439644	GAGTCCGGAGAGCACATCC	59.560	63.158	3.06	0.00	0.00	3.51
2929	3127	4.706842	ATATTTATCTTGCACCCGGAGT	57.293	40.909	0.73	0.00	0.00	3.85
2930	3128	5.794894	AGTATATTTATCTTGCACCCGGAG	58.205	41.667	0.73	0.00	0.00	4.63
2931	3129	5.818678	AGTATATTTATCTTGCACCCGGA	57.181	39.130	0.73	0.00	0.00	5.14
2933	3131	7.148407	GGATGAAGTATATTTATCTTGCACCCG	60.148	40.741	0.00	0.00	0.00	5.28
2934	3132	7.885399	AGGATGAAGTATATTTATCTTGCACCC	59.115	37.037	0.00	0.00	0.00	4.61
2935	3133	8.725148	CAGGATGAAGTATATTTATCTTGCACC	58.275	37.037	0.00	0.00	39.69	5.01
2936	3134	8.725148	CCAGGATGAAGTATATTTATCTTGCAC	58.275	37.037	0.00	0.00	39.69	4.57
2937	3135	8.439971	ACCAGGATGAAGTATATTTATCTTGCA	58.560	33.333	0.00	0.00	39.69	4.08
2938	3136	8.854614	ACCAGGATGAAGTATATTTATCTTGC	57.145	34.615	0.00	0.00	39.69	4.01
2951	3150	3.416156	GAAAGCTGAACCAGGATGAAGT	58.584	45.455	0.00	0.00	39.69	3.01
2953	3152	2.555227	GGGAAAGCTGAACCAGGATGAA	60.555	50.000	0.00	0.00	39.69	2.57
2956	3155	0.332972	GGGGAAAGCTGAACCAGGAT	59.667	55.000	0.00	0.00	31.21	3.24
2959	3158	1.675641	CCGGGGAAAGCTGAACCAG	60.676	63.158	0.00	0.00	34.12	4.00
3042	3241	4.445718	ACATGCAATCGAGACGACATAATC	59.554	41.667	0.00	0.00	39.18	1.75
3129	3329	5.047847	TCGTCTTGTTTTCGATTCAGTTCT	58.952	37.500	0.00	0.00	0.00	3.01
3130	3330	5.131204	GTCGTCTTGTTTTCGATTCAGTTC	58.869	41.667	0.00	0.00	36.08	3.01
3132	3332	3.493503	GGTCGTCTTGTTTTCGATTCAGT	59.506	43.478	0.00	0.00	36.08	3.41
3133	3333	3.741344	AGGTCGTCTTGTTTTCGATTCAG	59.259	43.478	0.00	0.00	36.08	3.02
3134	3334	3.724374	AGGTCGTCTTGTTTTCGATTCA	58.276	40.909	0.00	0.00	36.08	2.57
3135	3335	4.727235	AAGGTCGTCTTGTTTTCGATTC	57.273	40.909	0.00	0.00	36.08	2.52
3136	3336	5.065474	TGAAAAGGTCGTCTTGTTTTCGATT	59.935	36.000	0.00	0.00	40.33	3.34
3137	3337	4.573201	TGAAAAGGTCGTCTTGTTTTCGAT	59.427	37.500	0.00	0.00	40.33	3.59
3140	3340	4.334481	TCCTGAAAAGGTCGTCTTGTTTTC	59.666	41.667	0.00	0.00	38.71	2.29
3145	3345	4.893424	TTTTCCTGAAAAGGTCGTCTTG	57.107	40.909	1.04	0.00	35.57	3.02
3168	3368	1.172812	GGCCCACTCAGCGAGTTTTT	61.173	55.000	8.23	0.00	41.37	1.94
3169	3369	1.600916	GGCCCACTCAGCGAGTTTT	60.601	57.895	8.23	0.00	41.37	2.43
3170	3370	1.192146	TAGGCCCACTCAGCGAGTTT	61.192	55.000	0.00	0.00	41.37	2.66
3171	3371	1.192146	TTAGGCCCACTCAGCGAGTT	61.192	55.000	0.00	0.00	41.37	3.01
3172	3372	1.609501	TTAGGCCCACTCAGCGAGT	60.610	57.895	0.00	5.54	44.44	4.18
3173	3373	1.153549	GTTAGGCCCACTCAGCGAG	60.154	63.158	0.00	4.36	35.52	5.03
3174	3374	2.656069	GGTTAGGCCCACTCAGCGA	61.656	63.158	0.00	0.00	0.00	4.93
3175	3375	2.125106	GGTTAGGCCCACTCAGCG	60.125	66.667	0.00	0.00	0.00	5.18
3183	3383	4.349930	TCTGTATAATCCAAGGTTAGGCCC	59.650	45.833	0.00	0.00	38.26	5.80

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.