AutoCloner

Multiple sequence alignment - TraesCS2B01G339300

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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	TraesCS2B01G339300	chr2B	100.000	2309	0	0	1	2309	484607524	484609832	0.000000e+00	4265.0
1	TraesCS2B01G339300	chr2B	91.986	1173	83	7	882	2051	67539017	67540181	0.000000e+00	1635.0
2	TraesCS2B01G339300	chr2B	87.468	1173	115	20	910	2055	579567649	579566482	0.000000e+00	1323.0
3	TraesCS2B01G339300	chr2B	88.308	650	52	9	940	1579	104573293	104573928	0.000000e+00	758.0
4	TraesCS2B01G339300	chr2B	84.431	334	41	7	940	1267	99262221	99261893	3.700000e-83	318.0
5	TraesCS2B01G339300	chr2B	97.727	44	0	1	462	505	484607937	484607979	8.850000e-10	75.0
6	TraesCS2B01G339300	chr2B	97.727	44	0	1	414	456	484607985	484608028	8.850000e-10	75.0
7	TraesCS2B01G339300	chr6B	92.419	1174	74	8	881	2051	20089785	20088624	0.000000e+00	1661.0
8	TraesCS2B01G339300	chr6B	85.000	80	11	1	534	612	239309716	239309795	1.900000e-11	80.5
9	TraesCS2B01G339300	chr7B	91.801	1183	81	5	874	2051	4593101	4594272	0.000000e+00	1633.0
10	TraesCS2B01G339300	chr5B	90.735	1198	96	11	874	2067	534370106	534368920	0.000000e+00	1583.0
11	TraesCS2B01G339300	chr5B	86.047	86	8	4	530	612	596648837	596648753	3.160000e-14	89.8
12	TraesCS2B01G339300	chr3B	91.141	1174	67	12	894	2053	780521680	780522830	0.000000e+00	1557.0
13	TraesCS2B01G339300	chr2D	91.729	1064	83	1	978	2041	609575759	609574701	0.000000e+00	1472.0
14	TraesCS2B01G339300	chr2D	94.379	427	16	3	1	419	409602673	409603099	0.000000e+00	649.0
15	TraesCS2B01G339300	chr2D	92.347	392	15	3	451	840	409603172	409603550	5.610000e-151	544.0
16	TraesCS2B01G339300	chr2D	95.455	220	9	1	2086	2305	409603655	409603873	1.310000e-92	350.0
17	TraesCS2B01G339300	chr2D	100.000	40	0	0	536	575	22419443	22419404	8.850000e-10	75.0
18	TraesCS2B01G339300	chr2D	95.455	44	0	2	414	456	409603183	409603225	4.120000e-08	69.4
19	TraesCS2B01G339300	chr7D	90.062	1127	101	8	927	2052	565528652	565529768	0.000000e+00	1450.0
20	TraesCS2B01G339300	chr7D	91.045	67	6	0	536	602	478909810	478909876	8.790000e-15	91.6
21	TraesCS2B01G339300	chr7D	92.683	41	1	2	539	579	478909846	478909808	8.910000e-05	58.4
22	TraesCS2B01G339300	chr7D	100.000	30	0	0	543	572	514093965	514093936	3.200000e-04	56.5
23	TraesCS2B01G339300	chr3D	91.431	1027	75	4	1027	2052	90313047	90314061	0.000000e+00	1397.0
24	TraesCS2B01G339300	chr3D	89.610	77	8	0	535	611	69502107	69502031	5.250000e-17	99.0
25	TraesCS2B01G339300	chr5A	90.840	1048	83	9	953	1999	653184	652149	0.000000e+00	1391.0
26	TraesCS2B01G339300	chr5A	80.451	133	18	5	532	656	620406444	620406312	6.790000e-16	95.3
27	TraesCS2B01G339300	chr4A	90.610	1033	89	5	1021	2050	589903992	589902965	0.000000e+00	1363.0
28	TraesCS2B01G339300	chr4A	90.566	53	5	0	537	589	532407123	532407175	1.140000e-08	71.3
29	TraesCS2B01G339300	chr2A	92.941	425	24	1	1	419	578162694	578163118	4.220000e-172	614.0
30	TraesCS2B01G339300	chr2A	94.737	228	10	1	509	734	578163235	578163462	1.010000e-93	353.0
31	TraesCS2B01G339300	chr2A	87.059	255	11	12	2051	2305	578163897	578164129	3.780000e-68	268.0
32	TraesCS2B01G339300	chr2A	98.230	113	2	0	728	840	578163705	578163817	5.030000e-47	198.0
33	TraesCS2B01G339300	chr2A	84.404	109	13	2	535	639	81788841	81788733	1.130000e-18	104.0
34	TraesCS2B01G339300	chr2A	100.000	36	0	0	455	490	578163203	578163238	1.480000e-07	67.6
35	TraesCS2B01G339300	chr7A	81.988	161	28	1	648	807	105225872	105226032	4.000000e-28	135.0
36	TraesCS2B01G339300	chr5D	90.000	80	7	1	534	612	278311376	278311297	4.060000e-18	102.0
37	TraesCS2B01G339300	chr5D	87.500	72	9	0	537	608	71892804	71892733	1.470000e-12	84.2
38	TraesCS2B01G339300	chr6A	87.500	80	9	1	534	612	559170094	559170173	8.790000e-15	91.6
39	TraesCS2B01G339300	chr6A	100.000	31	0	0	810	840	523951651	523951681	8.910000e-05	58.4
40	TraesCS2B01G339300	chr4D	92.453	53	4	0	537	589	63955762	63955710	2.460000e-10	76.8
41	TraesCS2B01G339300	chr1D	87.692	65	8	0	544	608	488706515	488706579	2.460000e-10	76.8
42	TraesCS2B01G339300	chr6D	97.143	35	0	1	530	564	59720690	59720723	8.910000e-05	58.4

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	TraesCS2B01G339300	chr2B	484607524	484609832	2308	False	1471.666667	4265	98.484667	1	2309	3	chr2B.!!$F3	2308
1	TraesCS2B01G339300	chr2B	67539017	67540181	1164	False	1635.000000	1635	91.986000	882	2051	1	chr2B.!!$F1	1169
2	TraesCS2B01G339300	chr2B	579566482	579567649	1167	True	1323.000000	1323	87.468000	910	2055	1	chr2B.!!$R2	1145
3	TraesCS2B01G339300	chr2B	104573293	104573928	635	False	758.000000	758	88.308000	940	1579	1	chr2B.!!$F2	639
4	TraesCS2B01G339300	chr6B	20088624	20089785	1161	True	1661.000000	1661	92.419000	881	2051	1	chr6B.!!$R1	1170
5	TraesCS2B01G339300	chr7B	4593101	4594272	1171	False	1633.000000	1633	91.801000	874	2051	1	chr7B.!!$F1	1177
6	TraesCS2B01G339300	chr5B	534368920	534370106	1186	True	1583.000000	1583	90.735000	874	2067	1	chr5B.!!$R1	1193
7	TraesCS2B01G339300	chr3B	780521680	780522830	1150	False	1557.000000	1557	91.141000	894	2053	1	chr3B.!!$F1	1159
8	TraesCS2B01G339300	chr2D	609574701	609575759	1058	True	1472.000000	1472	91.729000	978	2041	1	chr2D.!!$R2	1063
9	TraesCS2B01G339300	chr2D	409602673	409603873	1200	False	403.100000	649	94.409000	1	2305	4	chr2D.!!$F1	2304
10	TraesCS2B01G339300	chr7D	565528652	565529768	1116	False	1450.000000	1450	90.062000	927	2052	1	chr7D.!!$F2	1125
11	TraesCS2B01G339300	chr3D	90313047	90314061	1014	False	1397.000000	1397	91.431000	1027	2052	1	chr3D.!!$F1	1025
12	TraesCS2B01G339300	chr5A	652149	653184	1035	True	1391.000000	1391	90.840000	953	1999	1	chr5A.!!$R1	1046
13	TraesCS2B01G339300	chr4A	589902965	589903992	1027	True	1363.000000	1363	90.610000	1021	2050	1	chr4A.!!$R1	1029
14	TraesCS2B01G339300	chr2A	578162694	578164129	1435	False	300.120000	614	94.593400	1	2305	5	chr2A.!!$F1	2304

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
451	460	0.035152	CCATGGCAAGCACTCCACTA	60.035	55.0	0.0	0.0	34.81	2.74	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2089	2483	0.174845	GCTACATGTGGTCGTGGCTA	59.825	55.0	9.11	0.0	36.75	3.93	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
180	183	5.362717	AGTTGCCTGGCTAATTATTTTACCC	59.637	40.000	21.03	0.00	0.00	3.69
279	282	7.848223	TCACATACTGATAACCACAAGAATG	57.152	36.000	0.00	0.00	0.00	2.67
280	283	6.316140	TCACATACTGATAACCACAAGAATGC	59.684	38.462	0.00	0.00	0.00	3.56
305	308	3.067684	ACTTTCAAGTTATCACCCGGG	57.932	47.619	22.25	22.25	35.21	5.73
353	356	8.853345	CACATTAGGAAAATTCATTTCGTCTTG	58.147	33.333	0.02	3.11	46.93	3.02
366	369	6.416455	TCATTTCGTCTTGGAAAATTTCAACG	59.584	34.615	8.09	10.83	39.19	4.10
419	428	1.479323	CATGCAATGCAAGCCTAGGTT	59.521	47.619	13.45	0.00	43.62	3.50
420	429	1.631405	TGCAATGCAAGCCTAGGTTT	58.369	45.000	5.01	8.04	34.76	3.27
422	431	3.161067	TGCAATGCAAGCCTAGGTTTTA	58.839	40.909	5.01	1.35	34.76	1.52
423	432	3.576118	TGCAATGCAAGCCTAGGTTTTAA	59.424	39.130	5.01	0.06	34.76	1.52
425	434	5.178061	GCAATGCAAGCCTAGGTTTTAATT	58.822	37.500	8.35	8.52	0.00	1.40
428	437	5.146010	TGCAAGCCTAGGTTTTAATTTGG	57.854	39.130	8.35	0.00	0.00	3.28
429	438	3.932710	GCAAGCCTAGGTTTTAATTTGGC	59.067	43.478	8.35	3.57	39.19	4.52
432	441	3.195610	AGCCTAGGTTTTAATTTGGCTGC	59.804	43.478	11.31	0.00	46.16	5.25
434	443	3.513515	CCTAGGTTTTAATTTGGCTGCCA	59.486	43.478	19.30	19.30	0.00	4.92
436	445	3.941573	AGGTTTTAATTTGGCTGCCATG	58.058	40.909	24.03	0.00	31.53	3.66
437	446	3.009026	GGTTTTAATTTGGCTGCCATGG	58.991	45.455	24.03	7.63	31.53	3.66
438	447	2.399916	TTTAATTTGGCTGCCATGGC	57.600	45.000	30.54	30.54	42.35	4.40
449	458	2.998279	GCCATGGCAAGCACTCCAC	61.998	63.158	32.08	0.00	41.49	4.02
451	460	0.035152	CCATGGCAAGCACTCCACTA	60.035	55.000	0.00	0.00	34.81	2.74
452	461	1.376543	CATGGCAAGCACTCCACTAG	58.623	55.000	0.00	0.00	34.81	2.57
453	462	1.065926	CATGGCAAGCACTCCACTAGA	60.066	52.381	0.00	0.00	34.81	2.43
454	463	1.279496	TGGCAAGCACTCCACTAGAT	58.721	50.000	0.00	0.00	0.00	1.98
499	557	1.303888	CCATGGCAAGCACTCCACT	60.304	57.895	0.00	0.00	34.81	4.00
527	585	5.214417	TCTCGCAAAACTGACAAAATGATG	58.786	37.500	0.00	0.00	0.00	3.07
628	686	0.909623	AAATCCCCACGAATCTCCGT	59.090	50.000	0.00	0.00	44.43	4.69
655	715	0.758734	CAAGGTGTGGGAGTCAGTGA	59.241	55.000	0.00	0.00	0.00	3.41
670	730	2.202743	TGACGGCGCTATGTGCTC	60.203	61.111	6.90	0.00	39.23	4.26
714	774	4.445385	CACAAAAGTTGGATTAGCAGCAAC	59.555	41.667	0.00	0.00	34.12	4.17
724	1033	4.035675	GGATTAGCAGCAACAATACACCTC	59.964	45.833	0.00	0.00	0.00	3.85
725	1034	2.867109	AGCAGCAACAATACACCTCT	57.133	45.000	0.00	0.00	0.00	3.69
726	1035	2.430465	AGCAGCAACAATACACCTCTG	58.570	47.619	0.00	0.00	0.00	3.35
806	1115	4.082523	TCCTAGCACCGCCACTGC	62.083	66.667	0.00	0.00	34.63	4.40
845	1154	6.305693	ACTTTGTTAAGTCTCATCAAGCAC	57.694	37.500	0.00	0.00	40.60	4.40
846	1155	4.990543	TTGTTAAGTCTCATCAAGCACG	57.009	40.909	0.00	0.00	0.00	5.34
847	1156	2.736721	TGTTAAGTCTCATCAAGCACGC	59.263	45.455	0.00	0.00	0.00	5.34
848	1157	2.996621	GTTAAGTCTCATCAAGCACGCT	59.003	45.455	0.00	0.00	0.00	5.07
849	1158	1.436600	AAGTCTCATCAAGCACGCTG	58.563	50.000	0.00	0.00	0.00	5.18
850	1159	1.018226	AGTCTCATCAAGCACGCTGC	61.018	55.000	0.00	2.28	45.46	5.25
860	1169	2.428569	CACGCTGCAGCTTGCTTG	60.429	61.111	34.22	20.69	45.31	4.01
861	1170	2.903855	ACGCTGCAGCTTGCTTGT	60.904	55.556	34.22	21.36	45.31	3.16
862	1171	2.333938	CGCTGCAGCTTGCTTGTT	59.666	55.556	34.22	0.00	45.31	2.83
863	1172	1.728426	CGCTGCAGCTTGCTTGTTC	60.728	57.895	34.22	3.85	45.31	3.18
864	1173	1.658673	GCTGCAGCTTGCTTGTTCT	59.341	52.632	31.33	0.00	45.31	3.01
865	1174	0.386985	GCTGCAGCTTGCTTGTTCTC	60.387	55.000	31.33	0.00	45.31	2.87
866	1175	0.240411	CTGCAGCTTGCTTGTTCTCC	59.760	55.000	0.00	0.00	45.31	3.71
867	1176	0.179009	TGCAGCTTGCTTGTTCTCCT	60.179	50.000	9.12	0.00	45.31	3.69
868	1177	0.520847	GCAGCTTGCTTGTTCTCCTC	59.479	55.000	0.00	0.00	40.96	3.71
869	1178	1.163554	CAGCTTGCTTGTTCTCCTCC	58.836	55.000	0.00	0.00	0.00	4.30
870	1179	0.037447	AGCTTGCTTGTTCTCCTCCC	59.963	55.000	0.00	0.00	0.00	4.30
871	1180	0.037447	GCTTGCTTGTTCTCCTCCCT	59.963	55.000	0.00	0.00	0.00	4.20
872	1181	1.279271	GCTTGCTTGTTCTCCTCCCTA	59.721	52.381	0.00	0.00	0.00	3.53
873	1182	2.679349	GCTTGCTTGTTCTCCTCCCTAG	60.679	54.545	0.00	0.00	0.00	3.02
874	1183	0.905357	TGCTTGTTCTCCTCCCTAGC	59.095	55.000	0.00	0.00	0.00	3.42
875	1184	0.179234	GCTTGTTCTCCTCCCTAGCC	59.821	60.000	0.00	0.00	0.00	3.93
876	1185	0.461961	CTTGTTCTCCTCCCTAGCCG	59.538	60.000	0.00	0.00	0.00	5.52
877	1186	1.614241	TTGTTCTCCTCCCTAGCCGC	61.614	60.000	0.00	0.00	0.00	6.53
878	1187	2.444140	TTCTCCTCCCTAGCCGCC	60.444	66.667	0.00	0.00	0.00	6.13
879	1188	3.010226	TTCTCCTCCCTAGCCGCCT	62.010	63.158	0.00	0.00	0.00	5.52
896	1206	1.306997	CTCCTCCCAACCCTAGCCA	60.307	63.158	0.00	0.00	0.00	4.75
956	1272	1.866997	TTCCCTCCTCCCTCCCTCA	60.867	63.158	0.00	0.00	0.00	3.86
1228	1580	2.528127	TTCCTCCCCTGTTCGGCA	60.528	61.111	0.00	0.00	0.00	5.69
1333	1685	4.440829	GAAATCCCTGGCCGGCCA	62.441	66.667	44.03	44.03	45.02	5.36
1334	1686	3.738745	GAAATCCCTGGCCGGCCAT	62.739	63.158	46.65	32.12	46.15	4.40
1335	1687	4.528039	AATCCCTGGCCGGCCATG	62.528	66.667	46.65	40.94	46.15	3.66
1388	1747	1.767692	GTTTCCCTCCTTGGAGGCA	59.232	57.895	26.16	12.60	40.95	4.75
1434	1793	0.501468	ACCTTCCCCTAGGTTTCCCT	59.499	55.000	8.29	0.00	46.39	4.20
1598	1961	0.390124	TTACGTCCGTTGCTTGGAGT	59.610	50.000	0.00	0.00	35.82	3.85
1608	1971	1.301716	GCTTGGAGTTGGAGTCGCA	60.302	57.895	0.00	0.00	0.00	5.10
1687	2050	2.968206	GCGTAGGTGGAGGTCGTT	59.032	61.111	0.00	0.00	0.00	3.85
1774	2160	0.460284	GAAGATGGTGGCGACGACAT	60.460	55.000	6.69	0.14	32.78	3.06
1777	2163	2.235891	AGATGGTGGCGACGACATATA	58.764	47.619	6.69	0.00	30.63	0.86
2008	2395	6.000840	TCAATAAAATGGCCGTATGCATCTA	58.999	36.000	0.19	0.00	43.89	1.98
2082	2476	6.039616	CAGAGAAAATAGACTGTGACCTAGC	58.960	44.000	0.00	0.00	30.58	3.42
2083	2477	5.955355	AGAGAAAATAGACTGTGACCTAGCT	59.045	40.000	0.00	0.00	0.00	3.32
2084	2478	5.971763	AGAAAATAGACTGTGACCTAGCTG	58.028	41.667	0.00	0.00	0.00	4.24
2085	2479	4.744795	AAATAGACTGTGACCTAGCTGG	57.255	45.455	0.00	0.00	42.93	4.85
2086	2480	3.671740	ATAGACTGTGACCTAGCTGGA	57.328	47.619	0.00	0.00	39.71	3.86
2087	2481	1.551452	AGACTGTGACCTAGCTGGAC	58.449	55.000	0.00	0.00	39.71	4.02
2088	2482	0.533032	GACTGTGACCTAGCTGGACC	59.467	60.000	0.00	0.00	39.71	4.46
2089	2483	0.115349	ACTGTGACCTAGCTGGACCT	59.885	55.000	0.00	0.00	39.71	3.85
2090	2484	1.358103	ACTGTGACCTAGCTGGACCTA	59.642	52.381	0.00	0.00	39.71	3.08
2091	2485	2.028130	CTGTGACCTAGCTGGACCTAG	58.972	57.143	0.00	0.00	39.71	3.02
2234	2628	8.413899	TGAATCACATATTTGTCATTTGCATG	57.586	30.769	0.00	0.00	32.34	4.06
2255	2649	6.528072	GCATGACTGAAATAACTTTAAGGCAC	59.472	38.462	0.00	0.00	42.62	5.01
2305	2699	0.523968	CGCACAATCGCAAATCCAGG	60.524	55.000	0.00	0.00	0.00	4.45
2306	2700	0.803380	GCACAATCGCAAATCCAGGC	60.803	55.000	0.00	0.00	0.00	4.85
2307	2701	0.813184	CACAATCGCAAATCCAGGCT	59.187	50.000	0.00	0.00	0.00	4.58
2308	2702	2.016318	CACAATCGCAAATCCAGGCTA	58.984	47.619	0.00	0.00	0.00	3.93

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
203	206	8.994170	GTTTATAAGCCATAGAATGAAGTCTCC	58.006	37.037	0.00	0.00	0.00	3.71
265	268	5.179452	AGTACCAGCATTCTTGTGGTTAT	57.821	39.130	0.00	0.00	42.10	1.89
279	282	4.395231	GGGTGATAACTTGAAAGTACCAGC	59.605	45.833	12.62	11.48	38.57	4.85
280	283	4.630069	CGGGTGATAACTTGAAAGTACCAG	59.370	45.833	12.62	6.82	38.57	4.00
305	308	1.875514	TGATTGGCTGATTGCTATCGC	59.124	47.619	13.34	13.34	42.39	4.58
419	428	2.399916	GCCATGGCAGCCAAATTAAA	57.600	45.000	32.08	0.00	36.95	1.52
431	440	2.677524	TGGAGTGCTTGCCATGGC	60.678	61.111	30.54	30.54	42.35	4.40
432	441	0.035152	TAGTGGAGTGCTTGCCATGG	60.035	55.000	7.63	7.63	36.41	3.66
434	443	1.279496	TCTAGTGGAGTGCTTGCCAT	58.721	50.000	0.00	0.00	36.41	4.40
436	445	2.409948	AATCTAGTGGAGTGCTTGCC	57.590	50.000	0.00	0.00	0.00	4.52
437	446	4.061596	GGATAATCTAGTGGAGTGCTTGC	58.938	47.826	0.00	0.00	0.00	4.01
438	447	5.053145	GTGGATAATCTAGTGGAGTGCTTG	58.947	45.833	0.00	0.00	0.00	4.01
440	449	4.551671	AGTGGATAATCTAGTGGAGTGCT	58.448	43.478	0.00	0.00	0.00	4.40
441	450	4.946478	AGTGGATAATCTAGTGGAGTGC	57.054	45.455	0.00	0.00	0.00	4.40
444	453	7.546250	AACCATAGTGGATAATCTAGTGGAG	57.454	40.000	2.45	0.00	40.96	3.86
445	454	7.931015	AAACCATAGTGGATAATCTAGTGGA	57.069	36.000	2.45	0.00	40.96	4.02
452	461	9.476202	GCCAAATTAAAACCATAGTGGATAATC	57.524	33.333	2.45	0.00	40.96	1.75
453	462	9.212593	AGCCAAATTAAAACCATAGTGGATAAT	57.787	29.630	2.45	2.67	40.96	1.28
454	463	8.474025	CAGCCAAATTAAAACCATAGTGGATAA	58.526	33.333	2.45	0.54	40.96	1.75
499	557	6.612247	TTTTGTCAGTTTTGCGAGAATCTA	57.388	33.333	0.00	0.00	0.00	1.98
527	585	5.758296	TGAGAATTAGCAAATCCGTATGACC	59.242	40.000	0.00	0.00	0.00	4.02
628	686	4.141367	TGACTCCCACACCTTGATTTTACA	60.141	41.667	0.00	0.00	0.00	2.41
714	774	8.603242	AACTACAGTAAAACAGAGGTGTATTG	57.397	34.615	0.00	0.00	35.08	1.90
806	1115	4.899502	ACAAAGTCACATCTAACTCCCAG	58.100	43.478	0.00	0.00	0.00	4.45
849	1158	0.520847	GAGGAGAACAAGCAAGCTGC	59.479	55.000	0.00	0.00	45.46	5.25
850	1159	1.163554	GGAGGAGAACAAGCAAGCTG	58.836	55.000	0.00	0.00	0.00	4.24
851	1160	0.037447	GGGAGGAGAACAAGCAAGCT	59.963	55.000	0.00	0.00	0.00	3.74
852	1161	0.037447	AGGGAGGAGAACAAGCAAGC	59.963	55.000	0.00	0.00	0.00	4.01
853	1162	2.679349	GCTAGGGAGGAGAACAAGCAAG	60.679	54.545	0.00	0.00	0.00	4.01
854	1163	1.279271	GCTAGGGAGGAGAACAAGCAA	59.721	52.381	0.00	0.00	0.00	3.91
855	1164	0.905357	GCTAGGGAGGAGAACAAGCA	59.095	55.000	0.00	0.00	0.00	3.91
856	1165	0.179234	GGCTAGGGAGGAGAACAAGC	59.821	60.000	0.00	0.00	0.00	4.01
857	1166	0.461961	CGGCTAGGGAGGAGAACAAG	59.538	60.000	0.00	0.00	0.00	3.16
858	1167	1.614241	GCGGCTAGGGAGGAGAACAA	61.614	60.000	0.00	0.00	0.00	2.83
859	1168	2.058595	GCGGCTAGGGAGGAGAACA	61.059	63.158	0.00	0.00	0.00	3.18
860	1169	2.798364	GGCGGCTAGGGAGGAGAAC	61.798	68.421	0.00	0.00	0.00	3.01
861	1170	2.444140	GGCGGCTAGGGAGGAGAA	60.444	66.667	0.00	0.00	0.00	2.87
862	1171	3.430497	AGGCGGCTAGGGAGGAGA	61.430	66.667	11.03	0.00	0.00	3.71
863	1172	2.915137	GAGGCGGCTAGGGAGGAG	60.915	72.222	13.24	0.00	0.00	3.69
864	1173	4.541648	GGAGGCGGCTAGGGAGGA	62.542	72.222	13.24	0.00	0.00	3.71
865	1174	4.548513	AGGAGGCGGCTAGGGAGG	62.549	72.222	13.24	0.00	0.00	4.30
866	1175	2.915137	GAGGAGGCGGCTAGGGAG	60.915	72.222	13.24	0.00	0.00	4.30
867	1176	4.541648	GGAGGAGGCGGCTAGGGA	62.542	72.222	13.24	0.00	0.00	4.20
869	1178	4.860881	TGGGAGGAGGCGGCTAGG	62.861	72.222	13.24	0.00	0.00	3.02
870	1179	2.764128	TTGGGAGGAGGCGGCTAG	60.764	66.667	13.24	0.00	0.00	3.42
871	1180	3.081409	GTTGGGAGGAGGCGGCTA	61.081	66.667	13.24	0.00	0.00	3.93
874	1183	3.995809	TAGGGTTGGGAGGAGGCGG	62.996	68.421	0.00	0.00	0.00	6.13
875	1184	2.365105	TAGGGTTGGGAGGAGGCG	60.365	66.667	0.00	0.00	0.00	5.52
876	1185	2.747443	GCTAGGGTTGGGAGGAGGC	61.747	68.421	0.00	0.00	0.00	4.70
877	1186	2.073101	GGCTAGGGTTGGGAGGAGG	61.073	68.421	0.00	0.00	0.00	4.30
878	1187	1.306997	TGGCTAGGGTTGGGAGGAG	60.307	63.158	0.00	0.00	0.00	3.69
879	1188	1.615424	GTGGCTAGGGTTGGGAGGA	60.615	63.158	0.00	0.00	0.00	3.71
896	1206	1.160289	TAGGGTTGGGAGGAGGAGGT	61.160	60.000	0.00	0.00	0.00	3.85
1019	1338	2.433446	CACAGGAGCAGGGCAACT	59.567	61.111	0.00	0.00	0.00	3.16
1261	1613	1.735559	GTACAGAACCGGCGACCAC	60.736	63.158	9.30	0.00	0.00	4.16
1388	1747	3.181428	TGAGGAGATCAGTCCATACCGAT	60.181	47.826	3.98	0.00	39.34	4.18
1598	1961	0.824109	CTCCACCTATGCGACTCCAA	59.176	55.000	0.00	0.00	0.00	3.53
1608	1971	2.125961	GCCGACGACCTCCACCTAT	61.126	63.158	0.00	0.00	0.00	2.57
1687	2050	3.418913	CGCCATCGACGCCAAACA	61.419	61.111	0.00	0.00	38.10	2.83
1774	2160	1.607148	CCGGTCTGACGCACTCATATA	59.393	52.381	1.07	0.00	0.00	0.86
1777	2163	1.816863	AACCGGTCTGACGCACTCAT	61.817	55.000	8.04	0.00	0.00	2.90
2008	2395	3.790437	CCGGCCTCTGCATCTGGT	61.790	66.667	0.00	0.00	40.13	4.00
2072	2466	1.960471	GCTAGGTCCAGCTAGGTCACA	60.960	57.143	13.40	0.00	38.57	3.58
2082	2476	1.982395	TGGTCGTGGCTAGGTCCAG	60.982	63.158	4.74	0.00	36.67	3.86
2083	2477	2.118732	TGGTCGTGGCTAGGTCCA	59.881	61.111	4.74	4.74	0.00	4.02
2084	2478	1.614241	ATGTGGTCGTGGCTAGGTCC	61.614	60.000	0.00	0.00	0.00	4.46
2085	2479	0.460284	CATGTGGTCGTGGCTAGGTC	60.460	60.000	0.00	0.00	0.00	3.85
2086	2480	1.192146	ACATGTGGTCGTGGCTAGGT	61.192	55.000	0.00	0.00	35.12	3.08
2087	2481	0.821517	TACATGTGGTCGTGGCTAGG	59.178	55.000	9.11	0.00	35.12	3.02
2088	2482	1.802880	GCTACATGTGGTCGTGGCTAG	60.803	57.143	9.11	0.00	36.75	3.42
2089	2483	0.174845	GCTACATGTGGTCGTGGCTA	59.825	55.000	9.11	0.00	36.75	3.93
2090	2484	1.079127	GCTACATGTGGTCGTGGCT	60.079	57.895	9.11	0.00	36.75	4.75
2091	2485	0.953471	TTGCTACATGTGGTCGTGGC	60.953	55.000	9.11	0.00	39.79	5.01
2132	2526	0.810648	GAATTTGCGGAGTCATGCCA	59.189	50.000	4.38	0.00	0.00	4.92
2234	2628	6.569179	TGGTGCCTTAAAGTTATTTCAGTC	57.431	37.500	0.00	0.00	0.00	3.51
2238	2632	7.754625	TCGTAATGGTGCCTTAAAGTTATTTC	58.245	34.615	0.00	0.00	0.00	2.17
2255	2649	2.613026	TGCACCCATACTCGTAATGG	57.387	50.000	6.49	6.49	35.31	3.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.