AutoCloner

Multiple sequence alignment - TraesCS6D01G242600

Loading Multiple Alignment...

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	TraesCS6D01G242600	chr6D	100.000	4445	0	0	1	4445	344369041	344364597	0.000000e+00	8209.0
1	TraesCS6D01G242600	chr6A	96.013	3562	88	24	899	4445	485108233	485104711	0.000000e+00	5742.0
2	TraesCS6D01G242600	chr6B	97.848	2835	52	2	936	3769	520240816	520237990	0.000000e+00	4889.0
3	TraesCS6D01G242600	chr6B	87.464	351	21	11	3974	4311	520230773	520230433	2.510000e-102	383.0
4	TraesCS6D01G242600	chr6B	91.597	119	9	1	4317	4434	520230353	520230235	3.560000e-36	163.0
5	TraesCS6D01G242600	chr6B	85.714	84	6	4	4343	4425	298338987	298338909	2.850000e-12	84.2
6	TraesCS6D01G242600	chrUn	92.795	916	45	15	1	901	103230806	103231715	0.000000e+00	1306.0
7	TraesCS6D01G242600	chr3A	92.070	908	50	12	16	906	722239549	722240451	0.000000e+00	1258.0
8	TraesCS6D01G242600	chr3A	91.898	901	48	15	19	900	263166828	263165934	0.000000e+00	1236.0
9	TraesCS6D01G242600	chr3A	91.787	901	51	15	19	900	728595209	728594313	0.000000e+00	1232.0
10	TraesCS6D01G242600	chr3A	91.435	899	55	13	19	899	728574779	728573885	0.000000e+00	1214.0
11	TraesCS6D01G242600	chr3A	91.416	897	54	13	23	900	728544315	728543423	0.000000e+00	1208.0
12	TraesCS6D01G242600	chr3A	89.668	813	55	15	94	900	747673767	747672978	0.000000e+00	1009.0
13	TraesCS6D01G242600	chr3A	76.923	286	30	25	641	902	7213015	7212742	3.610000e-26	130.0
14	TraesCS6D01G242600	chr3A	75.000	304	37	27	621	897	510656167	510655876	2.190000e-18	104.0
15	TraesCS6D01G242600	chr5A	91.593	904	50	17	16	900	481090817	481091713	0.000000e+00	1225.0
16	TraesCS6D01G242600	chr5A	82.828	99	16	1	4334	4431	16410162	16410064	2.200000e-13	87.9
17	TraesCS6D01G242600	chr7B	91.593	904	42	17	16	900	490897813	490898701	0.000000e+00	1218.0
18	TraesCS6D01G242600	chr2D	88.840	914	67	18	2	900	195706902	195706009	0.000000e+00	1090.0
19	TraesCS6D01G242600	chr1D	84.000	100	13	3	4334	4431	459872425	459872523	4.730000e-15	93.5
20	TraesCS6D01G242600	chr4A	83.696	92	14	1	4341	4431	77223511	77223420	7.920000e-13	86.1
21	TraesCS6D01G242600	chr2B	87.143	70	9	0	4362	4431	51765966	51766035	3.690000e-11	80.5

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	TraesCS6D01G242600	chr6D	344364597	344369041	4444	True	8209	8209	100.0000	1	4445	1	chr6D.!!$R1	4444
1	TraesCS6D01G242600	chr6A	485104711	485108233	3522	True	5742	5742	96.0130	899	4445	1	chr6A.!!$R1	3546
2	TraesCS6D01G242600	chr6B	520237990	520240816	2826	True	4889	4889	97.8480	936	3769	1	chr6B.!!$R2	2833
3	TraesCS6D01G242600	chr6B	520230235	520230773	538	True	273	383	89.5305	3974	4434	2	chr6B.!!$R3	460
4	TraesCS6D01G242600	chrUn	103230806	103231715	909	False	1306	1306	92.7950	1	901	1	chrUn.!!$F1	900
5	TraesCS6D01G242600	chr3A	722239549	722240451	902	False	1258	1258	92.0700	16	906	1	chr3A.!!$F1	890
6	TraesCS6D01G242600	chr3A	263165934	263166828	894	True	1236	1236	91.8980	19	900	1	chr3A.!!$R2	881
7	TraesCS6D01G242600	chr3A	728594313	728595209	896	True	1232	1232	91.7870	19	900	1	chr3A.!!$R6	881
8	TraesCS6D01G242600	chr3A	728573885	728574779	894	True	1214	1214	91.4350	19	899	1	chr3A.!!$R5	880
9	TraesCS6D01G242600	chr3A	728543423	728544315	892	True	1208	1208	91.4160	23	900	1	chr3A.!!$R4	877
10	TraesCS6D01G242600	chr3A	747672978	747673767	789	True	1009	1009	89.6680	94	900	1	chr3A.!!$R7	806
11	TraesCS6D01G242600	chr5A	481090817	481091713	896	False	1225	1225	91.5930	16	900	1	chr5A.!!$F1	884
12	TraesCS6D01G242600	chr7B	490897813	490898701	888	False	1218	1218	91.5930	16	900	1	chr7B.!!$F1	884
13	TraesCS6D01G242600	chr2D	195706009	195706902	893	True	1090	1090	88.8400	2	900	1	chr2D.!!$R1	898

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
926	959	1.009552	TCCTGCTCCCTATCCCTCAAA	59.990	52.381	0.00	0.00	0.00	2.69	F
1104	1138	0.691078	ACATACCGGATGCCTCCACT	60.691	55.000	9.46	0.00	42.19	4.00	F
1671	1705	1.068264	GCAGCTTCTAGTTTGGCCAAC	60.068	52.381	20.35	13.66	35.32	3.77	F
2146	2180	0.555769	TTTGCTGGTCCAGGGAAAGT	59.444	50.000	20.72	0.00	31.21	2.66	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1778	1812	0.803117	CACCTTCTGCATCAGCTGTG	59.197	55.000	14.67	12.33	42.74	3.66	R
2146	2180	3.509575	GTGGCCACAATAAAGTGATCCAA	59.490	43.478	31.23	0.00	42.05	3.53	R
3414	3448	0.037590	ACTGGTGCCGCCTGATTAAA	59.962	50.000	8.28	0.00	39.25	1.52	R
4103	4142	0.105453	ATCGGACTACCTCCAGGCAT	60.105	55.000	0.00	0.00	39.39	4.40	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
129	134	7.733969	TCAATTCCCAAACATTTTCTGAATCA	58.266	30.769	0.00	0.00	0.00	2.57
159	164	8.480643	AACAAATTTTGAAACGGTGAACAATA	57.519	26.923	15.81	0.00	0.00	1.90
280	285	6.610741	TGAAAAATTCCGAACAAATTTGGG	57.389	33.333	21.74	13.36	39.63	4.12
380	387	2.311463	TCCCGAACAAATTTGGAAGCA	58.689	42.857	21.74	0.00	41.55	3.91
381	388	2.896685	TCCCGAACAAATTTGGAAGCAT	59.103	40.909	21.74	0.00	41.55	3.79
384	391	4.497300	CCGAACAAATTTGGAAGCATGAT	58.503	39.130	21.74	0.00	41.55	2.45
926	959	1.009552	TCCTGCTCCCTATCCCTCAAA	59.990	52.381	0.00	0.00	0.00	2.69
1058	1092	0.957395	ATTTGCAGAGGCGTCACCAG	60.957	55.000	9.41	0.00	45.35	4.00
1061	1095	2.125753	CAGAGGCGTCACCAGAGC	60.126	66.667	9.41	0.00	43.14	4.09
1068	1102	4.394712	GTCACCAGAGCCACCCCG	62.395	72.222	0.00	0.00	0.00	5.73
1104	1138	0.691078	ACATACCGGATGCCTCCACT	60.691	55.000	9.46	0.00	42.19	4.00
1519	1553	2.410469	GCATTGCCGCACCTGATC	59.590	61.111	0.00	0.00	0.00	2.92
1557	1591	1.079819	GCTCAGCGGCTACACTGAA	60.080	57.895	0.26	0.00	42.12	3.02
1671	1705	1.068264	GCAGCTTCTAGTTTGGCCAAC	60.068	52.381	20.35	13.66	35.32	3.77
1806	1840	3.503363	TGATGCAGAAGGTGTTTGATGAC	59.497	43.478	0.00	0.00	0.00	3.06
2146	2180	0.555769	TTTGCTGGTCCAGGGAAAGT	59.444	50.000	20.72	0.00	31.21	2.66
2572	2606	2.397549	GAACCAATGCTTCTGTTGTGC	58.602	47.619	0.00	0.00	0.00	4.57
2764	2798	5.016831	GTGGGGTTCTTGATTATCCAACTT	58.983	41.667	0.00	0.00	0.00	2.66
3199	3233	5.185454	ACTCGCATATGATTGAGGTTTTGA	58.815	37.500	18.44	0.00	32.76	2.69
3278	3312	0.898320	TCTAGTGCTTCAGCCTGGAC	59.102	55.000	0.00	0.00	41.18	4.02
3414	3448	3.657610	TGTCATCCCCATCACTGACTAT	58.342	45.455	0.00	0.00	38.98	2.12
3458	3492	7.911205	GTGTAATGAGTGACAGAGTGAGTATAC	59.089	40.741	0.00	0.00	0.00	1.47
3459	3493	7.829706	TGTAATGAGTGACAGAGTGAGTATACT	59.170	37.037	4.68	4.68	0.00	2.12
3653	3687	5.630661	TCCGTTGTGTTATACCCAATTTG	57.369	39.130	0.00	0.00	0.00	2.32
3695	3729	7.675962	TGCGTGTTTCTGGTAAAAATATAGT	57.324	32.000	0.00	0.00	0.00	2.12
3728	3762	2.281517	CCGCGGTTACCAATCACAATA	58.718	47.619	19.50	0.00	0.00	1.90
3796	3830	1.002087	GTCAGTGATCAAACGGAGGGT	59.998	52.381	0.00	0.00	0.00	4.34
3919	3954	5.975344	TCCTTAAATAGTGCTTACATCGTCG	59.025	40.000	0.00	0.00	0.00	5.12
3938	3973	1.472904	CGACAAGAGCAGGATCAGCAT	60.473	52.381	11.35	0.00	0.00	3.79
3968	4003	6.361433	TCTCTAGCTAAGACAATGAGCTACT	58.639	40.000	0.00	0.00	44.65	2.57
3969	4004	6.262049	TCTCTAGCTAAGACAATGAGCTACTG	59.738	42.308	0.00	0.00	44.65	2.74
3970	4005	5.888724	TCTAGCTAAGACAATGAGCTACTGT	59.111	40.000	0.00	0.00	44.65	3.55
3972	4007	5.897050	AGCTAAGACAATGAGCTACTGTAC	58.103	41.667	0.00	0.00	44.65	2.90
3973	4008	5.419155	AGCTAAGACAATGAGCTACTGTACA	59.581	40.000	0.00	0.00	44.65	2.90
3974	4009	6.097554	AGCTAAGACAATGAGCTACTGTACAT	59.902	38.462	0.00	0.00	44.65	2.29
3975	4010	7.285629	AGCTAAGACAATGAGCTACTGTACATA	59.714	37.037	0.00	0.00	44.65	2.29
3976	4011	7.921214	GCTAAGACAATGAGCTACTGTACATAA	59.079	37.037	0.00	0.00	33.28	1.90
3977	4012	9.973450	CTAAGACAATGAGCTACTGTACATAAT	57.027	33.333	0.00	0.00	0.00	1.28
3979	4014	9.672673	AAGACAATGAGCTACTGTACATAATTT	57.327	29.630	0.00	0.00	0.00	1.82
3980	4015	9.102757	AGACAATGAGCTACTGTACATAATTTG	57.897	33.333	0.00	0.00	0.00	2.32
3983	4018	5.989477	TGAGCTACTGTACATAATTTGCCT	58.011	37.500	0.00	0.00	0.00	4.75
4018	4053	8.299990	AGAGCTATACATGACAGAACTAAAGT	57.700	34.615	0.00	0.00	0.00	2.66
4040	4077	4.458989	GTGGAGGCTTGAATACAAATGTCA	59.541	41.667	0.00	0.00	35.49	3.58
4052	4089	3.866651	ACAAATGTCATCGAAGAGAGGG	58.133	45.455	0.00	0.00	43.63	4.30
4087	4126	2.142357	GAAAAGCCACCCGCCTGAAC	62.142	60.000	0.00	0.00	38.78	3.18
4088	4127	4.660938	AAGCCACCCGCCTGAACC	62.661	66.667	0.00	0.00	38.78	3.62
4091	4130	3.636231	CCACCCGCCTGAACCTGA	61.636	66.667	0.00	0.00	0.00	3.86
4092	4131	2.429930	CACCCGCCTGAACCTGAA	59.570	61.111	0.00	0.00	0.00	3.02
4093	4132	1.672356	CACCCGCCTGAACCTGAAG	60.672	63.158	0.00	0.00	0.00	3.02
4095	4134	1.078848	CCCGCCTGAACCTGAAGAG	60.079	63.158	0.00	0.00	0.00	2.85
4096	4135	1.674057	CCGCCTGAACCTGAAGAGT	59.326	57.895	0.00	0.00	0.00	3.24
4097	4136	0.035458	CCGCCTGAACCTGAAGAGTT	59.965	55.000	0.00	0.00	0.00	3.01
4098	4137	1.433534	CGCCTGAACCTGAAGAGTTC	58.566	55.000	0.00	0.00	43.20	3.01
4099	4138	1.001406	CGCCTGAACCTGAAGAGTTCT	59.999	52.381	5.36	0.00	43.28	3.01
4100	4139	2.231478	CGCCTGAACCTGAAGAGTTCTA	59.769	50.000	5.36	0.00	43.28	2.10
4101	4140	3.306088	CGCCTGAACCTGAAGAGTTCTAA	60.306	47.826	5.36	0.00	43.28	2.10
4102	4141	3.997681	GCCTGAACCTGAAGAGTTCTAAC	59.002	47.826	5.36	0.00	43.28	2.34
4103	4142	4.503296	GCCTGAACCTGAAGAGTTCTAACA	60.503	45.833	5.36	0.00	43.28	2.41
4104	4143	5.799213	CCTGAACCTGAAGAGTTCTAACAT	58.201	41.667	5.36	0.00	43.28	2.71
4114	4153	2.237392	GAGTTCTAACATGCCTGGAGGT	59.763	50.000	0.00	0.00	37.57	3.85
4135	4174	2.843701	AGTCCGATTGAAGGATGATGC	58.156	47.619	0.00	0.00	40.30	3.91
4184	4233	1.400629	CGAATGGCAAGTGCTTCAGTG	60.401	52.381	2.85	0.00	41.70	3.66
4231	4280	3.842925	TTTCACTGCACCCGCCTCC	62.843	63.158	0.00	0.00	37.32	4.30
4248	4297	1.268079	CTCCGAATCTGCTATGCGAGA	59.732	52.381	1.98	0.00	0.00	4.04
4272	4321	2.118076	CCCAACACCACCTGGCAT	59.882	61.111	0.00	0.00	39.32	4.40
4275	4324	1.228521	CAACACCACCTGGCATGGA	60.229	57.895	13.91	0.00	39.87	3.41
4277	4326	0.114954	AACACCACCTGGCATGGAAT	59.885	50.000	13.91	0.00	39.87	3.01
4315	4448	6.453943	GGAAAACCTTCCGATATACTACTCC	58.546	44.000	0.00	0.00	41.89	3.85
4317	4450	4.363991	ACCTTCCGATATACTACTCCGT	57.636	45.455	0.00	0.00	0.00	4.69
4318	4451	5.489792	ACCTTCCGATATACTACTCCGTA	57.510	43.478	0.00	0.00	0.00	4.02
4319	4452	6.059787	ACCTTCCGATATACTACTCCGTAT	57.940	41.667	0.00	0.00	34.63	3.06
4321	4454	6.597280	ACCTTCCGATATACTACTCCGTATTC	59.403	42.308	0.00	0.00	32.63	1.75
4322	4455	6.596888	CCTTCCGATATACTACTCCGTATTCA	59.403	42.308	0.00	0.00	32.63	2.57
4323	4456	7.282675	CCTTCCGATATACTACTCCGTATTCAT	59.717	40.741	0.00	0.00	32.63	2.57
4324	4457	8.571461	TTCCGATATACTACTCCGTATTCATT	57.429	34.615	0.00	0.00	32.63	2.57
4325	4458	9.671279	TTCCGATATACTACTCCGTATTCATTA	57.329	33.333	0.00	0.00	32.63	1.90
4326	4459	9.322773	TCCGATATACTACTCCGTATTCATTAG	57.677	37.037	0.00	0.00	32.63	1.73
4327	4460	8.068977	CCGATATACTACTCCGTATTCATTAGC	58.931	40.741	0.00	0.00	32.63	3.09
4328	4461	8.068977	CGATATACTACTCCGTATTCATTAGCC	58.931	40.741	0.00	0.00	32.63	3.93
4329	4462	4.500603	ACTACTCCGTATTCATTAGCCG	57.499	45.455	0.00	0.00	0.00	5.52
4360	4493	6.292168	CGGTACAAAGAACACAGAAGTAACAG	60.292	42.308	0.00	0.00	0.00	3.16
4440	4573	2.639286	CGTGCCGCTTTCTTTGCT	59.361	55.556	0.00	0.00	0.00	3.91

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
70	74	7.288810	TCTAGCTTTCCAAATTTGTTCACAT	57.711	32.000	16.73	2.08	0.00	3.21
103	108	8.209584	TGATTCAGAAAATGTTTGGGAATTGAA	58.790	29.630	0.00	0.00	0.00	2.69
129	134	6.568869	TCACCGTTTCAAAATTTGTTCTCAT	58.431	32.000	5.56	0.00	0.00	2.90
220	225	8.853345	CCGTTTCAAAATATGTTCTCAAGATTG	58.147	33.333	0.00	0.00	0.00	2.67
342	349	7.984617	TGTTCGGGATTTTTCAAAATTTCTCTT	59.015	29.630	0.00	0.00	38.64	2.85
1058	1092	0.746923	GGATTTGTACGGGGTGGCTC	60.747	60.000	0.00	0.00	0.00	4.70
1061	1095	1.022451	CACGGATTTGTACGGGGTGG	61.022	60.000	0.00	0.00	0.00	4.61
1068	1102	5.633927	GGTATGTTTTCCACGGATTTGTAC	58.366	41.667	0.00	0.00	0.00	2.90
1557	1591	0.466189	CCTCGGTATGGCAGCCATTT	60.466	55.000	32.20	12.88	42.23	2.32
1671	1705	1.515521	GCTGGTGTCCCAAACTTCGG	61.516	60.000	0.00	0.00	41.27	4.30
1778	1812	0.803117	CACCTTCTGCATCAGCTGTG	59.197	55.000	14.67	12.33	42.74	3.66
1806	1840	3.880047	ACCAAATCCTTGTCATGCATG	57.120	42.857	21.07	21.07	0.00	4.06
2146	2180	3.509575	GTGGCCACAATAAAGTGATCCAA	59.490	43.478	31.23	0.00	42.05	3.53
2764	2798	7.665145	TCCACAAGAATTCAAGATGTGTAATGA	59.335	33.333	21.58	13.98	39.70	2.57
2932	2966	5.523369	TGCACTCTTGTCAGACATATATCG	58.477	41.667	3.45	0.00	0.00	2.92
3199	3233	5.762179	TCCTTGAACATACCAGAATGACT	57.238	39.130	0.00	0.00	39.69	3.41
3278	3312	3.988379	TGGCAGCAGAACAAAGTAAAG	57.012	42.857	0.00	0.00	0.00	1.85
3414	3448	0.037590	ACTGGTGCCGCCTGATTAAA	59.962	50.000	8.28	0.00	39.25	1.52
3458	3492	0.991920	TAAACCAGGAGGGGCAAGAG	59.008	55.000	0.00	0.00	42.91	2.85
3459	3493	1.564348	GATAAACCAGGAGGGGCAAGA	59.436	52.381	0.00	0.00	42.91	3.02
3529	3563	4.206477	TGTCCACTTCATATGTCACTGG	57.794	45.455	1.90	4.21	0.00	4.00
3653	3687	2.727916	CGCAAAGAACGGCATACCTTTC	60.728	50.000	0.00	0.00	43.03	2.62
3695	3729	1.376166	CCGCGGTACCATTCAACCA	60.376	57.895	19.50	0.00	35.35	3.67
3728	3762	9.762933	TTTCTTTAACTTGCATAGCAGAAAAAT	57.237	25.926	0.00	0.00	40.61	1.82
3762	3796	6.061441	TGATCACTGACAAAACCATTACAGT	58.939	36.000	0.00	0.00	38.79	3.55
3796	3830	5.766150	AAACCTCAAATGATTCGAACACA	57.234	34.783	0.00	4.53	0.00	3.72
3855	3889	7.580109	CATGATGGCATTCCTTTAGAAAAAGGT	60.580	37.037	14.77	0.00	45.84	3.50
3888	3923	8.662781	TGTAAGCACTATTTAAGGAGCAATAG	57.337	34.615	0.00	0.00	38.47	1.73
3919	3954	2.211806	GATGCTGATCCTGCTCTTGTC	58.788	52.381	8.84	0.00	0.00	3.18
3954	3989	9.102757	CAAATTATGTACAGTAGCTCATTGTCT	57.897	33.333	0.33	0.00	0.00	3.41
3968	4003	6.477253	TGTAACAGGAGGCAAATTATGTACA	58.523	36.000	0.00	0.00	0.00	2.90
3969	4004	6.995511	TGTAACAGGAGGCAAATTATGTAC	57.004	37.500	0.00	0.00	0.00	2.90
3970	4005	7.398829	TCTTGTAACAGGAGGCAAATTATGTA	58.601	34.615	0.00	0.00	0.00	2.29
3972	4007	6.678900	GCTCTTGTAACAGGAGGCAAATTATG	60.679	42.308	0.00	0.00	37.92	1.90
3973	4008	5.358160	GCTCTTGTAACAGGAGGCAAATTAT	59.642	40.000	0.00	0.00	37.92	1.28
3974	4009	4.700213	GCTCTTGTAACAGGAGGCAAATTA	59.300	41.667	0.00	0.00	37.92	1.40
3975	4010	3.507622	GCTCTTGTAACAGGAGGCAAATT	59.492	43.478	0.00	0.00	37.92	1.82
3976	4011	3.084786	GCTCTTGTAACAGGAGGCAAAT	58.915	45.455	0.00	0.00	37.92	2.32
3977	4012	2.106511	AGCTCTTGTAACAGGAGGCAAA	59.893	45.455	0.00	0.00	37.92	3.68
3978	4013	1.699634	AGCTCTTGTAACAGGAGGCAA	59.300	47.619	0.00	0.00	37.92	4.52
3979	4014	1.352083	AGCTCTTGTAACAGGAGGCA	58.648	50.000	0.00	0.00	37.92	4.75
3980	4015	3.828875	ATAGCTCTTGTAACAGGAGGC	57.171	47.619	0.00	0.00	37.92	4.70
3983	4018	6.379988	TGTCATGTATAGCTCTTGTAACAGGA	59.620	38.462	0.00	0.00	0.00	3.86
4018	4053	4.661222	TGACATTTGTATTCAAGCCTCCA	58.339	39.130	0.00	0.00	34.88	3.86
4040	4077	2.439104	GGCTGCCCCTCTCTTCGAT	61.439	63.158	7.66	0.00	0.00	3.59
4052	4089	2.645838	TTTCCTCATCTATGGCTGCC	57.354	50.000	12.87	12.87	0.00	4.85
4087	4126	3.937706	CAGGCATGTTAGAACTCTTCAGG	59.062	47.826	0.00	0.00	0.00	3.86
4088	4127	3.937706	CCAGGCATGTTAGAACTCTTCAG	59.062	47.826	0.00	0.00	0.00	3.02
4089	4128	3.582647	TCCAGGCATGTTAGAACTCTTCA	59.417	43.478	0.00	0.00	0.00	3.02
4090	4129	4.187694	CTCCAGGCATGTTAGAACTCTTC	58.812	47.826	0.00	0.00	0.00	2.87
4091	4130	3.054802	CCTCCAGGCATGTTAGAACTCTT	60.055	47.826	0.00	0.00	0.00	2.85
4092	4131	2.503356	CCTCCAGGCATGTTAGAACTCT	59.497	50.000	0.00	0.00	0.00	3.24
4093	4132	2.237392	ACCTCCAGGCATGTTAGAACTC	59.763	50.000	0.00	0.00	39.32	3.01
4095	4134	2.789409	ACCTCCAGGCATGTTAGAAC	57.211	50.000	0.00	0.00	39.32	3.01
4096	4135	3.450904	ACTACCTCCAGGCATGTTAGAA	58.549	45.455	0.00	0.00	39.32	2.10
4097	4136	3.031736	GACTACCTCCAGGCATGTTAGA	58.968	50.000	0.00	0.00	39.32	2.10
4098	4137	2.103263	GGACTACCTCCAGGCATGTTAG	59.897	54.545	0.00	0.00	39.21	2.34
4099	4138	2.116238	GGACTACCTCCAGGCATGTTA	58.884	52.381	0.00	0.00	39.21	2.41
4100	4139	0.912486	GGACTACCTCCAGGCATGTT	59.088	55.000	0.00	0.00	39.21	2.71
4101	4140	1.330655	CGGACTACCTCCAGGCATGT	61.331	60.000	0.00	0.00	39.39	3.21
4102	4141	1.043116	TCGGACTACCTCCAGGCATG	61.043	60.000	0.00	0.00	39.39	4.06
4103	4142	0.105453	ATCGGACTACCTCCAGGCAT	60.105	55.000	0.00	0.00	39.39	4.40
4104	4143	0.325296	AATCGGACTACCTCCAGGCA	60.325	55.000	0.00	0.00	39.39	4.75
4114	4153	3.552890	CGCATCATCCTTCAATCGGACTA	60.553	47.826	0.00	0.00	32.41	2.59
4119	4158	2.091744	CGATCGCATCATCCTTCAATCG	59.908	50.000	0.26	0.00	0.00	3.34
4135	4174	2.024176	AACCAACTGGGATTCGATCG	57.976	50.000	9.36	9.36	41.15	3.69
4231	4280	1.783711	GTGTCTCGCATAGCAGATTCG	59.216	52.381	0.00	0.00	0.00	3.34
4248	4297	2.277404	GTGGTGTTGGGGTGGTGT	59.723	61.111	0.00	0.00	0.00	4.16
4312	4445	3.309388	CTCACGGCTAATGAATACGGAG	58.691	50.000	0.00	0.00	0.00	4.63
4314	4447	2.404215	CCTCACGGCTAATGAATACGG	58.596	52.381	0.00	0.00	0.00	4.02
4328	4461	0.788391	GTTCTTTGTACCGCCTCACG	59.212	55.000	0.00	0.00	43.15	4.35
4329	4462	1.529865	GTGTTCTTTGTACCGCCTCAC	59.470	52.381	0.00	0.00	0.00	3.51
4336	4469	6.759827	TCTGTTACTTCTGTGTTCTTTGTACC	59.240	38.462	0.00	0.00	0.00	3.34
4360	4493	4.745620	GTCTACGGACCTAGATGCAATTTC	59.254	45.833	0.00	0.00	36.53	2.17
4386	4519	8.668353	GTTTCAATGCTTGTAGTCATCATTAGA	58.332	33.333	0.00	0.00	31.23	2.10
4390	4523	5.643348	TCGTTTCAATGCTTGTAGTCATCAT	59.357	36.000	0.00	0.00	0.00	2.45
4391	4524	4.994217	TCGTTTCAATGCTTGTAGTCATCA	59.006	37.500	0.00	0.00	0.00	3.07
4424	4557	1.081175	GGAGCAAAGAAAGCGGCAC	60.081	57.895	1.45	0.00	37.01	5.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.