AutoCloner

Multiple sequence alignment - TraesCS2B01G516200

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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	TraesCS2B01G516200	chr2B	100.000	3140	0	0	1	3140	711160427	711163566	0.000000e+00	5799.0
1	TraesCS2B01G516200	chr2B	84.404	1167	167	6	994	2145	89499950	89501116	0.000000e+00	1133.0
2	TraesCS2B01G516200	chr2B	92.038	628	39	4	31	656	195926219	195925601	0.000000e+00	872.0
3	TraesCS2B01G516200	chr2B	90.909	638	41	4	31	668	790893916	790893296	0.000000e+00	841.0
4	TraesCS2B01G516200	chr2B	90.826	218	19	1	442	659	711140153	711139937	1.100000e-74	291.0
5	TraesCS2B01G516200	chr2D	94.050	2185	92	18	660	2837	588161974	588164127	0.000000e+00	3280.0
6	TraesCS2B01G516200	chr2D	96.689	302	9	1	2835	3136	588164208	588164508	4.680000e-138	501.0
7	TraesCS2B01G516200	chr6D	86.237	1257	160	6	901	2145	8579017	8577762	0.000000e+00	1351.0
8	TraesCS2B01G516200	chr6D	83.142	1133	180	9	994	2119	33895046	33896174	0.000000e+00	1024.0
9	TraesCS2B01G516200	chr6D	82.877	146	17	6	660	805	411195986	411195849	1.180000e-24	124.0
10	TraesCS2B01G516200	chr6A	86.605	1187	144	4	962	2145	9350205	9351379	0.000000e+00	1297.0
11	TraesCS2B01G516200	chr6A	83.755	1145	168	14	998	2124	30560567	30559423	0.000000e+00	1068.0
12	TraesCS2B01G516200	chr6A	77.049	366	51	16	2761	3112	8194401	8194055	2.490000e-41	180.0
13	TraesCS2B01G516200	chr6A	80.745	161	15	6	659	819	555935375	555935231	9.210000e-21	111.0
14	TraesCS2B01G516200	chr6B	88.186	1075	108	6	921	1986	15715279	15714215	0.000000e+00	1264.0
15	TraesCS2B01G516200	chr6B	82.788	1162	188	10	994	2145	15249505	15248346	0.000000e+00	1027.0
16	TraesCS2B01G516200	chr6B	81.415	1173	197	12	994	2145	53077148	53075976	0.000000e+00	939.0
17	TraesCS2B01G516200	chr6B	77.228	1111	220	29	1054	2145	14323598	14324694	1.240000e-173	619.0
18	TraesCS2B01G516200	chr6B	79.605	760	130	19	1400	2145	52573770	52573022	3.590000e-144	521.0
19	TraesCS2B01G516200	chr6B	87.324	71	4	3	749	819	617984395	617984330	3.360000e-10	76.8
20	TraesCS2B01G516200	chr7A	92.846	629	42	3	31	659	368538681	368539306	0.000000e+00	909.0
21	TraesCS2B01G516200	chr7A	85.714	273	21	2	31	300	90455973	90456230	3.990000e-69	272.0
22	TraesCS2B01G516200	chr7D	88.087	277	24	5	32	300	89276271	89276546	1.410000e-83	320.0
23	TraesCS2B01G516200	chr7B	91.080	213	18	1	88	300	40183236	40183447	1.430000e-73	287.0
24	TraesCS2B01G516200	chr2A	89.083	229	21	4	442	668	659739873	659740099	6.630000e-72	281.0
25	TraesCS2B01G516200	chr2A	90.476	210	19	1	450	659	659737030	659736822	3.080000e-70	276.0
26	TraesCS2B01G516200	chr1D	89.908	218	21	1	442	659	32535923	32535707	2.380000e-71	279.0
27	TraesCS2B01G516200	chrUn	86.100	259	29	3	45	300	30438295	30438041	3.990000e-69	272.0
28	TraesCS2B01G516200	chr4B	89.100	211	21	2	449	659	603048780	603048988	8.640000e-66	261.0
29	TraesCS2B01G516200	chr3D	86.878	221	25	3	442	660	525753349	525753131	8.700000e-61	244.0

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	TraesCS2B01G516200	chr2B	711160427	711163566	3139	False	5799.0	5799	100.0000	1	3140	1	chr2B.!!$F2	3139
1	TraesCS2B01G516200	chr2B	89499950	89501116	1166	False	1133.0	1133	84.4040	994	2145	1	chr2B.!!$F1	1151
2	TraesCS2B01G516200	chr2B	195925601	195926219	618	True	872.0	872	92.0380	31	656	1	chr2B.!!$R1	625
3	TraesCS2B01G516200	chr2B	790893296	790893916	620	True	841.0	841	90.9090	31	668	1	chr2B.!!$R3	637
4	TraesCS2B01G516200	chr2D	588161974	588164508	2534	False	1890.5	3280	95.3695	660	3136	2	chr2D.!!$F1	2476
5	TraesCS2B01G516200	chr6D	8577762	8579017	1255	True	1351.0	1351	86.2370	901	2145	1	chr6D.!!$R1	1244
6	TraesCS2B01G516200	chr6D	33895046	33896174	1128	False	1024.0	1024	83.1420	994	2119	1	chr6D.!!$F1	1125
7	TraesCS2B01G516200	chr6A	9350205	9351379	1174	False	1297.0	1297	86.6050	962	2145	1	chr6A.!!$F1	1183
8	TraesCS2B01G516200	chr6A	30559423	30560567	1144	True	1068.0	1068	83.7550	998	2124	1	chr6A.!!$R2	1126
9	TraesCS2B01G516200	chr6B	15714215	15715279	1064	True	1264.0	1264	88.1860	921	1986	1	chr6B.!!$R2	1065
10	TraesCS2B01G516200	chr6B	15248346	15249505	1159	True	1027.0	1027	82.7880	994	2145	1	chr6B.!!$R1	1151
11	TraesCS2B01G516200	chr6B	53075976	53077148	1172	True	939.0	939	81.4150	994	2145	1	chr6B.!!$R4	1151
12	TraesCS2B01G516200	chr6B	14323598	14324694	1096	False	619.0	619	77.2280	1054	2145	1	chr6B.!!$F1	1091
13	TraesCS2B01G516200	chr6B	52573022	52573770	748	True	521.0	521	79.6050	1400	2145	1	chr6B.!!$R3	745
14	TraesCS2B01G516200	chr7A	368538681	368539306	625	False	909.0	909	92.8460	31	659	1	chr7A.!!$F2	628

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
789	794	0.178068	ATCGTTGGATGGAGAACGGG	59.822	55.0	0.0	0.0	44.01	5.28	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2485	2551	0.040425	CGTACACCCAACTTTGCAGC	60.04	55.0	0.0	0.0	0.0	5.25	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
128	131	3.501828	CCTTCGTTTCACAATCCACATGA	59.498	43.478	0.00	0.00	0.00	3.07
263	266	1.701847	AGCTGTGATCTGAACTGGGTT	59.298	47.619	0.00	0.00	0.00	4.11
324	327	2.876079	GCAAGAACACCCTACCCTCTTG	60.876	54.545	5.89	5.89	43.74	3.02
340	343	3.616821	CCTCTTGTTTCGACGCATTCATA	59.383	43.478	0.00	0.00	0.00	2.15
426	429	5.749462	ACAGATGATTAAGAGAAGGTTGGG	58.251	41.667	0.00	0.00	0.00	4.12
430	433	4.526970	TGATTAAGAGAAGGTTGGGCATC	58.473	43.478	0.00	0.00	0.00	3.91
440	443	3.649843	AGGTTGGGCATCATCATTGATT	58.350	40.909	0.00	0.00	40.70	2.57
447	450	1.264826	CATCATCATTGATTGCGCGGA	59.735	47.619	8.83	0.00	40.70	5.54
465	468	4.988540	CGCGGATTAATTAGACAAGATGGA	59.011	41.667	0.00	0.00	0.00	3.41
521	524	2.937689	ACCCATCTGGCTGCCACT	60.938	61.111	19.30	5.11	37.83	4.00
553	556	1.929494	TGATAGGCCCAGGACCAAATT	59.071	47.619	0.00	0.00	0.00	1.82
554	557	3.117663	GTGATAGGCCCAGGACCAAATTA	60.118	47.826	0.00	0.00	0.00	1.40
561	564	4.469657	GCCCAGGACCAAATTATCACATA	58.530	43.478	0.00	0.00	0.00	2.29
574	577	9.142515	CAAATTATCACATACAATGCAAGTTGT	57.857	29.630	10.37	10.37	44.09	3.32
609	612	5.815222	AGTTGCATTTTACAAGTTTGGAACC	59.185	36.000	4.37	0.00	38.80	3.62
625	628	4.414677	TGGAACCAAATCATCACATTCCA	58.585	39.130	0.00	0.00	41.31	3.53
696	699	4.946160	ACCCATCCAATCCAAAGACTTA	57.054	40.909	0.00	0.00	0.00	2.24
697	700	5.269554	ACCCATCCAATCCAAAGACTTAA	57.730	39.130	0.00	0.00	0.00	1.85
698	701	5.264395	ACCCATCCAATCCAAAGACTTAAG	58.736	41.667	0.00	0.00	0.00	1.85
770	775	5.045869	ACGTGGGGAAGAAGATTTAATCTGA	60.046	40.000	8.34	0.00	40.13	3.27
786	791	3.526931	TCTGATCGTTGGATGGAGAAC	57.473	47.619	0.00	0.00	31.51	3.01
789	794	0.178068	ATCGTTGGATGGAGAACGGG	59.822	55.000	0.00	0.00	44.01	5.28
792	797	3.969250	TTGGATGGAGAACGGGCGC	62.969	63.158	0.00	0.00	0.00	6.53
794	799	2.435938	GATGGAGAACGGGCGCAA	60.436	61.111	10.83	0.00	0.00	4.85
827	832	0.464452	GGACTAGCATTGCCTACGGT	59.536	55.000	4.70	0.00	0.00	4.83
828	833	1.538419	GGACTAGCATTGCCTACGGTC	60.538	57.143	4.70	6.74	0.00	4.79
829	834	1.409427	GACTAGCATTGCCTACGGTCT	59.591	52.381	4.70	0.00	0.00	3.85
831	836	2.361438	ACTAGCATTGCCTACGGTCTAC	59.639	50.000	4.70	0.00	0.00	2.59
841	846	4.554363	CGGTCTACGGAGCAGGCG	62.554	72.222	0.00	0.00	39.68	5.52
842	847	3.450115	GGTCTACGGAGCAGGCGT	61.450	66.667	0.00	0.00	39.51	5.68
844	849	3.138798	TCTACGGAGCAGGCGTCC	61.139	66.667	0.00	0.00	0.00	4.79
845	850	3.449227	CTACGGAGCAGGCGTCCA	61.449	66.667	9.39	0.00	33.14	4.02
846	851	3.701604	CTACGGAGCAGGCGTCCAC	62.702	68.421	9.39	0.00	33.14	4.02
865	870	2.362120	GGCCAAGCAGCAGGTGAT	60.362	61.111	3.02	0.00	0.00	3.06
885	890	3.252284	ACACTGGACTGGGCTGGG	61.252	66.667	0.00	0.00	0.00	4.45
886	891	3.252284	CACTGGACTGGGCTGGGT	61.252	66.667	0.00	0.00	0.00	4.51
887	892	2.450502	ACTGGACTGGGCTGGGTT	60.451	61.111	0.00	0.00	0.00	4.11
888	893	2.034687	CTGGACTGGGCTGGGTTG	59.965	66.667	0.00	0.00	0.00	3.77
890	895	4.366684	GGACTGGGCTGGGTTGGG	62.367	72.222	0.00	0.00	0.00	4.12
927	932	1.152963	CCACGACATTGGATCCCCC	60.153	63.158	9.90	0.00	39.24	5.40
948	959	1.904990	TTCCCGCATCGTTCCATCCA	61.905	55.000	0.00	0.00	0.00	3.41
957	968	0.905357	CGTTCCATCCACTCTCCCTT	59.095	55.000	0.00	0.00	0.00	3.95
1590	1649	1.227999	TTGCCAAGCTCTACGCACAC	61.228	55.000	0.00	0.00	42.61	3.82
1817	1882	3.932710	TCTTACGCTCCAACATTGCTAAG	59.067	43.478	0.00	0.00	0.00	2.18
1951	2016	0.677731	CGTCAGACCCCGGTACTACA	60.678	60.000	0.00	0.00	0.00	2.74
2098	2163	4.020218	ACCTTGCTGAAGACTATGCAACTA	60.020	41.667	0.00	0.00	39.98	2.24
2115	2180	1.677637	CTACCTGCGGAGGGGAAGTC	61.678	65.000	27.88	0.00	44.84	3.01
2177	2242	7.014711	TGACTTCTATGTAGAATCCAGATCACC	59.985	40.741	3.15	0.00	41.12	4.02
2179	2244	7.512058	ACTTCTATGTAGAATCCAGATCACCAT	59.488	37.037	3.15	0.00	41.12	3.55
2246	2311	8.570488	TGCTATGTAATTCTGAAGCCAATTATG	58.430	33.333	0.00	0.00	29.42	1.90
2254	2319	6.455360	TCTGAAGCCAATTATGATTTGGTC	57.545	37.500	4.53	0.00	0.00	4.02
2257	2322	7.124599	TCTGAAGCCAATTATGATTTGGTCATT	59.875	33.333	4.53	0.00	45.25	2.57
2325	2390	5.988310	TTGATGATGCATTTGTTTCTCCT	57.012	34.783	0.00	0.00	0.00	3.69
2342	2407	7.881232	TGTTTCTCCTTTTTACCGTTCTATCAT	59.119	33.333	0.00	0.00	0.00	2.45
2485	2551	4.580167	TGTTTTGACTTTCTGGATCACTGG	59.420	41.667	0.00	0.00	0.00	4.00
2502	2568	0.106469	TGGCTGCAAAGTTGGGTGTA	60.106	50.000	0.50	0.00	0.00	2.90
2509	2575	3.884091	TGCAAAGTTGGGTGTACGTAAAT	59.116	39.130	0.00	0.00	0.00	1.40
2677	2743	9.885743	CGTTCTTACAAAAATCAAAGAAGTTTG	57.114	29.630	0.00	0.00	43.96	2.93
2679	2745	9.651913	TTCTTACAAAAATCAAAGAAGTTTGCT	57.348	25.926	0.00	0.00	42.55	3.91
2700	2766	6.845302	TGCTGAATATGAAGCAAGTTAGTTG	58.155	36.000	9.54	0.00	46.06	3.16
2720	2786	6.582636	AGTTGCAATGATTACCGAGATCTTA	58.417	36.000	0.59	0.00	0.00	2.10
2729	2795	8.239038	TGATTACCGAGATCTTATTCAGTTCT	57.761	34.615	0.00	0.00	34.67	3.01
2733	2799	9.720769	TTACCGAGATCTTATTCAGTTCTTTTT	57.279	29.630	0.00	0.00	32.46	1.94
2771	2841	7.826260	TTTTCTAGAAAAACCTTGCTTTGTG	57.174	32.000	24.89	0.00	37.35	3.33
2803	2873	5.363562	AGAGGATATTGTCTGTGCAATGA	57.636	39.130	0.00	0.00	39.20	2.57
2837	2907	5.396884	GCCTAAGGAAACTCATGTCAGGTAT	60.397	44.000	0.00	0.00	42.68	2.73
2869	3022	8.673456	ATCTAGAGACCTTTAGTTTCTCCTTT	57.327	34.615	0.00	0.00	39.13	3.11
2910	3063	8.296000	CCATAAACACATGTACATTCTCACAAA	58.704	33.333	5.37	0.00	0.00	2.83
3007	3160	4.161333	GCCTCACTTCATTTCGTGAATTG	58.839	43.478	2.78	2.78	45.36	2.32
3021	3174	2.225019	GTGAATTGTGCAGTCTGGTGAG	59.775	50.000	1.14	0.00	0.00	3.51
3023	3176	1.888215	ATTGTGCAGTCTGGTGAGTG	58.112	50.000	1.14	0.00	44.32	3.51
3109	3262	7.787725	ATCCGAAATAACTTACTCCAATGTC	57.212	36.000	0.00	0.00	0.00	3.06
3124	3277	7.121382	ACTCCAATGTCATAAATGAGGTGAAT	58.879	34.615	0.00	0.00	37.51	2.57
3136	3289	6.461110	AATGAGGTGAATTTTGATAGCTGG	57.539	37.500	0.00	0.00	0.00	4.85
3137	3290	4.272489	TGAGGTGAATTTTGATAGCTGGG	58.728	43.478	0.00	0.00	0.00	4.45
3138	3291	3.026694	AGGTGAATTTTGATAGCTGGGC	58.973	45.455	0.00	0.00	0.00	5.36
3139	3292	2.760092	GGTGAATTTTGATAGCTGGGCA	59.240	45.455	0.00	0.00	0.00	5.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
20	21	4.819761	TGCAGATCAGGCGGTCGC	62.820	66.667	6.83	6.83	41.06	5.19
21	22	1.091771	AATTGCAGATCAGGCGGTCG	61.092	55.000	0.00	0.00	0.00	4.79
22	23	1.953559	TAATTGCAGATCAGGCGGTC	58.046	50.000	0.00	0.00	0.00	4.79
23	24	2.105477	AGATAATTGCAGATCAGGCGGT	59.895	45.455	0.00	0.00	0.00	5.68
24	25	2.483106	CAGATAATTGCAGATCAGGCGG	59.517	50.000	0.00	0.00	0.00	6.13
25	26	2.095869	GCAGATAATTGCAGATCAGGCG	60.096	50.000	0.00	0.00	43.53	5.52
26	27	3.555917	GCAGATAATTGCAGATCAGGC	57.444	47.619	0.00	0.00	43.53	4.85
128	131	6.426328	TGCAACATTTCACACAAAAGAAGTTT	59.574	30.769	0.00	0.00	0.00	2.66
199	202	8.946085	AGATTAGAATGCGTCTCAACATTTTTA	58.054	29.630	0.00	0.00	36.65	1.52
263	266	4.394300	CCAGAACATTGCCAAACAAAACAA	59.606	37.500	0.00	0.00	42.86	2.83
324	327	3.311322	TCCCAATATGAATGCGTCGAAAC	59.689	43.478	0.00	0.00	0.00	2.78
426	429	1.050009	CGCGCAATCAATGATGATGC	58.950	50.000	8.75	9.26	45.60	3.91
430	433	2.410785	AATCCGCGCAATCAATGATG	57.589	45.000	8.75	0.00	0.00	3.07
440	443	3.787785	TCTTGTCTAATTAATCCGCGCA	58.212	40.909	8.75	0.00	0.00	6.09
447	450	7.643123	ACACCCTTCCATCTTGTCTAATTAAT	58.357	34.615	0.00	0.00	0.00	1.40
488	491	2.671963	GTGGACCGGTCTTTGCCC	60.672	66.667	32.52	17.26	0.00	5.36
521	524	1.358725	GCCTATCACAGCGCGACAAA	61.359	55.000	12.10	0.00	0.00	2.83
553	556	5.709631	ACCACAACTTGCATTGTATGTGATA	59.290	36.000	21.85	0.00	40.89	2.15
554	557	4.523943	ACCACAACTTGCATTGTATGTGAT	59.476	37.500	21.85	12.40	40.89	3.06
561	564	3.005684	CACCATACCACAACTTGCATTGT	59.994	43.478	0.00	0.00	43.67	2.71
574	577	2.897271	AATGCAACTCCACCATACCA	57.103	45.000	0.00	0.00	0.00	3.25
625	628	2.443255	CCCCAGGTATCCTAACTTGCAT	59.557	50.000	0.00	0.00	29.64	3.96
696	699	2.167662	CCAAATGCCCCGTACTTTCTT	58.832	47.619	0.00	0.00	0.00	2.52
697	700	1.074889	ACCAAATGCCCCGTACTTTCT	59.925	47.619	0.00	0.00	0.00	2.52
698	701	1.201414	CACCAAATGCCCCGTACTTTC	59.799	52.381	0.00	0.00	0.00	2.62
740	745	3.570912	TCTTCTTCCCCACGTCTTTTT	57.429	42.857	0.00	0.00	0.00	1.94
741	746	3.790089	ATCTTCTTCCCCACGTCTTTT	57.210	42.857	0.00	0.00	0.00	2.27
742	747	3.790089	AATCTTCTTCCCCACGTCTTT	57.210	42.857	0.00	0.00	0.00	2.52
743	748	3.790089	AAATCTTCTTCCCCACGTCTT	57.210	42.857	0.00	0.00	0.00	3.01
744	749	4.903045	TTAAATCTTCTTCCCCACGTCT	57.097	40.909	0.00	0.00	0.00	4.18
745	750	5.294552	CAGATTAAATCTTCTTCCCCACGTC	59.705	44.000	0.00	0.00	37.58	4.34
746	751	5.045869	TCAGATTAAATCTTCTTCCCCACGT	60.046	40.000	0.00	0.00	37.58	4.49
747	752	5.428253	TCAGATTAAATCTTCTTCCCCACG	58.572	41.667	0.00	0.00	37.58	4.94
748	753	6.203723	CGATCAGATTAAATCTTCTTCCCCAC	59.796	42.308	0.00	0.00	37.58	4.61
749	754	6.126768	ACGATCAGATTAAATCTTCTTCCCCA	60.127	38.462	0.00	0.00	37.58	4.96
750	755	6.292150	ACGATCAGATTAAATCTTCTTCCCC	58.708	40.000	0.00	0.00	37.58	4.81
751	756	7.254932	CCAACGATCAGATTAAATCTTCTTCCC	60.255	40.741	0.00	0.00	37.58	3.97
752	757	7.495934	TCCAACGATCAGATTAAATCTTCTTCC	59.504	37.037	0.00	0.00	37.58	3.46
753	758	8.425577	TCCAACGATCAGATTAAATCTTCTTC	57.574	34.615	0.00	0.00	37.58	2.87
754	759	8.834465	CATCCAACGATCAGATTAAATCTTCTT	58.166	33.333	0.00	0.00	37.58	2.52
755	760	7.443575	CCATCCAACGATCAGATTAAATCTTCT	59.556	37.037	0.00	0.00	37.58	2.85
756	761	7.442364	TCCATCCAACGATCAGATTAAATCTTC	59.558	37.037	0.00	0.00	37.58	2.87
757	762	7.282585	TCCATCCAACGATCAGATTAAATCTT	58.717	34.615	0.00	0.00	37.58	2.40
758	763	6.830912	TCCATCCAACGATCAGATTAAATCT	58.169	36.000	0.00	0.00	41.15	2.40
770	775	0.178068	CCCGTTCTCCATCCAACGAT	59.822	55.000	5.80	0.00	46.70	3.73
798	803	2.044806	ATGCTAGTCCCATCCGTGCC	62.045	60.000	0.00	0.00	0.00	5.01
802	807	0.886490	GGCAATGCTAGTCCCATCCG	60.886	60.000	4.82	0.00	0.00	4.18
827	832	3.138798	GGACGCCTGCTCCGTAGA	61.139	66.667	0.00	0.00	39.30	2.59
828	833	3.449227	TGGACGCCTGCTCCGTAG	61.449	66.667	0.00	0.00	39.30	3.51
829	834	3.755628	GTGGACGCCTGCTCCGTA	61.756	66.667	0.00	0.00	39.30	4.02
847	852	3.951769	ATCACCTGCTGCTTGGCCC	62.952	63.158	0.00	0.00	0.00	5.80
865	870	3.170672	AGCCCAGTCCAGTGTGCA	61.171	61.111	0.00	0.00	0.00	4.57
885	890	0.536724	GATTTCCATGGTGGCCCAAC	59.463	55.000	12.58	0.00	46.04	3.77
886	891	0.413037	AGATTTCCATGGTGGCCCAA	59.587	50.000	12.58	0.00	46.04	4.12
888	893	1.114627	GAAGATTTCCATGGTGGCCC	58.885	55.000	12.58	0.00	37.47	5.80
890	895	2.027385	GGAGAAGATTTCCATGGTGGC	58.973	52.381	12.58	0.02	37.47	5.01
927	932	0.588252	GATGGAACGATGCGGGAATG	59.412	55.000	0.00	0.00	0.00	2.67
1257	1307	2.261361	CGGATGACAGTGGCGACA	59.739	61.111	0.45	0.00	38.70	4.35
1590	1649	2.513204	CTGAGCAGGGATGGCGTG	60.513	66.667	0.00	0.00	36.08	5.34
1674	1739	1.349627	CGCATGTCTGAACATCCGC	59.650	57.895	0.00	0.00	44.41	5.54
1817	1882	2.205911	GCAGCGATTCTTTACTCCTCC	58.794	52.381	0.00	0.00	0.00	4.30
1882	1947	3.721035	CTGGACGATGAGCAATGTATGA	58.279	45.455	0.00	0.00	0.00	2.15
1951	2016	8.923270	TCCATTTTCCTTGAGAAACTTTACAAT	58.077	29.630	0.00	0.00	44.20	2.71
2115	2180	1.032014	CAAATATGAACCTGGCGGGG	58.968	55.000	18.49	6.00	40.03	5.73
2215	2280	8.158169	TGGCTTCAGAATTACATAGCAATTAG	57.842	34.615	0.00	0.00	0.00	1.73
2314	2379	6.762702	AGAACGGTAAAAAGGAGAAACAAA	57.237	33.333	0.00	0.00	0.00	2.83
2439	2505	4.728772	ACTGTGATGGGAACTGAAATTCA	58.271	39.130	0.00	0.00	0.00	2.57
2485	2551	0.040425	CGTACACCCAACTTTGCAGC	60.040	55.000	0.00	0.00	0.00	5.25
2695	2761	6.161855	AGATCTCGGTAATCATTGCAACTA	57.838	37.500	0.00	0.00	0.00	2.24
2696	2762	5.028549	AGATCTCGGTAATCATTGCAACT	57.971	39.130	0.00	0.00	0.00	3.16
2697	2763	5.741388	AAGATCTCGGTAATCATTGCAAC	57.259	39.130	0.00	0.00	0.00	4.17
2699	2765	7.216494	TGAATAAGATCTCGGTAATCATTGCA	58.784	34.615	0.00	0.00	0.00	4.08
2700	2766	7.386299	ACTGAATAAGATCTCGGTAATCATTGC	59.614	37.037	0.00	0.00	29.19	3.56
2701	2767	8.824159	ACTGAATAAGATCTCGGTAATCATTG	57.176	34.615	0.00	0.00	29.19	2.82
2702	2768	9.482627	GAACTGAATAAGATCTCGGTAATCATT	57.517	33.333	0.00	0.00	30.83	2.57
2720	2786	8.189119	TGGGCATAGTTTAAAAAGAACTGAAT	57.811	30.769	0.00	0.00	37.84	2.57
2771	2841	4.061596	GACAATATCCTCTACCTGCAAGC	58.938	47.826	0.00	0.00	0.00	4.01
2803	2873	5.369699	TGAGTTTCCTTAGGCAAGCCTATAT	59.630	40.000	20.63	0.00	46.84	0.86
2931	3084	2.491298	TGCAGCTCACAGTTTGTTTTGA	59.509	40.909	0.00	0.00	0.00	2.69
3007	3160	0.390860	ACTCACTCACCAGACTGCAC	59.609	55.000	0.00	0.00	0.00	4.57
3109	3262	9.459640	CAGCTATCAAAATTCACCTCATTTATG	57.540	33.333	0.00	0.00	0.00	1.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.