AutoCloner

Multiple sequence alignment - TraesCS6A01G149200

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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	TraesCS6A01G149200	chr6A	100.000	3950	0	0	1	3950	131227679	131231628	0.000000e+00	7295
1	TraesCS6A01G149200	chr6A	84.366	1823	255	21	1137	2950	129940059	129938258	0.000000e+00	1760
2	TraesCS6A01G149200	chr6B	95.767	3095	108	8	809	3884	194859581	194862671	0.000000e+00	4968
3	TraesCS6A01G149200	chr6B	85.704	1343	168	20	1617	2950	194425500	194424173	0.000000e+00	1395
4	TraesCS6A01G149200	chr6B	89.474	342	33	1	1136	1474	194425990	194425649	2.820000e-116	429
5	TraesCS6A01G149200	chr6D	94.367	3089	106	20	827	3884	107385521	107388572	0.000000e+00	4678
6	TraesCS6A01G149200	chr6D	85.598	1354	179	12	1606	2954	106704626	106703284	0.000000e+00	1406
7	TraesCS6A01G149200	chr6D	89.181	342	34	1	1136	1474	106705075	106704734	1.310000e-114	424
8	TraesCS6A01G149200	chr2D	94.078	743	43	1	1	742	567379688	567378946	0.000000e+00	1127
9	TraesCS6A01G149200	chr1D	91.304	782	37	11	1	782	482339244	482339994	0.000000e+00	1038
10	TraesCS6A01G149200	chr3D	90.446	785	68	7	1	782	575825309	575824529	0.000000e+00	1027
11	TraesCS6A01G149200	chr7D	89.313	786	66	10	1	782	529395185	529394414	0.000000e+00	970
12	TraesCS6A01G149200	chr7D	88.791	794	77	6	1	782	555139816	555139023	0.000000e+00	963
13	TraesCS6A01G149200	chr7D	77.970	1271	238	33	1696	2953	600449119	600450360	0.000000e+00	758
14	TraesCS6A01G149200	chr7D	77.815	1208	222	34	1760	2953	599809598	599808423	0.000000e+00	704
15	TraesCS6A01G149200	chr7D	76.339	1158	232	32	1719	2864	599798273	599797146	2.050000e-162	582
16	TraesCS6A01G149200	chr7D	81.681	595	99	10	3221	3810	599722559	599721970	1.650000e-133	486
17	TraesCS6A01G149200	chr4B	88.959	797	71	8	1	782	37874922	37874128	0.000000e+00	968
18	TraesCS6A01G149200	chr2A	86.466	798	79	13	1	782	100198609	100199393	0.000000e+00	848
19	TraesCS6A01G149200	chr1A	86.324	797	82	13	1	782	575607486	575606702	0.000000e+00	843
20	TraesCS6A01G149200	chr7B	77.427	1205	228	32	1760	2951	679672633	679671460	0.000000e+00	678
21	TraesCS6A01G149200	chr7B	76.365	1117	222	31	1760	2864	679634752	679633666	2.670000e-156	562
22	TraesCS6A01G149200	chr7B	72.814	835	193	28	1855	2678	538052862	538052051	1.820000e-63	254
23	TraesCS6A01G149200	chr7A	87.413	572	65	7	213	781	5274383	5274950	0.000000e+00	651
24	TraesCS6A01G149200	chr7A	87.260	573	66	7	213	782	5247801	5248369	0.000000e+00	647
25	TraesCS6A01G149200	chr7A	86.911	573	68	7	213	782	5260602	5261170	1.550000e-178	636
26	TraesCS6A01G149200	chr7A	86.736	573	69	7	213	782	5244016	5244584	7.200000e-177	630
27	TraesCS6A01G149200	chr7A	86.736	573	69	7	213	782	5303779	5304347	7.200000e-177	630
28	TraesCS6A01G149200	chr7A	78.615	650	131	7	2307	2952	692045804	692045159	1.310000e-114	424
29	TraesCS6A01G149200	chr1B	93.976	415	25	0	1	415	90308557	90308971	2.590000e-176	628
30	TraesCS6A01G149200	chr5D	71.836	1122	244	54	1855	2934	406416452	406417543	5.070000e-64	255

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	TraesCS6A01G149200	chr6A	131227679	131231628	3949	False	7295.0	7295	100.0000	1	3950	1	chr6A.!!$F1	3949
1	TraesCS6A01G149200	chr6A	129938258	129940059	1801	True	1760.0	1760	84.3660	1137	2950	1	chr6A.!!$R1	1813
2	TraesCS6A01G149200	chr6B	194859581	194862671	3090	False	4968.0	4968	95.7670	809	3884	1	chr6B.!!$F1	3075
3	TraesCS6A01G149200	chr6B	194424173	194425990	1817	True	912.0	1395	87.5890	1136	2950	2	chr6B.!!$R1	1814
4	TraesCS6A01G149200	chr6D	107385521	107388572	3051	False	4678.0	4678	94.3670	827	3884	1	chr6D.!!$F1	3057
5	TraesCS6A01G149200	chr6D	106703284	106705075	1791	True	915.0	1406	87.3895	1136	2954	2	chr6D.!!$R1	1818
6	TraesCS6A01G149200	chr2D	567378946	567379688	742	True	1127.0	1127	94.0780	1	742	1	chr2D.!!$R1	741
7	TraesCS6A01G149200	chr1D	482339244	482339994	750	False	1038.0	1038	91.3040	1	782	1	chr1D.!!$F1	781
8	TraesCS6A01G149200	chr3D	575824529	575825309	780	True	1027.0	1027	90.4460	1	782	1	chr3D.!!$R1	781
9	TraesCS6A01G149200	chr7D	529394414	529395185	771	True	970.0	970	89.3130	1	782	1	chr7D.!!$R1	781
10	TraesCS6A01G149200	chr7D	555139023	555139816	793	True	963.0	963	88.7910	1	782	1	chr7D.!!$R2	781
11	TraesCS6A01G149200	chr7D	600449119	600450360	1241	False	758.0	758	77.9700	1696	2953	1	chr7D.!!$F1	1257
12	TraesCS6A01G149200	chr7D	599808423	599809598	1175	True	704.0	704	77.8150	1760	2953	1	chr7D.!!$R5	1193
13	TraesCS6A01G149200	chr7D	599797146	599798273	1127	True	582.0	582	76.3390	1719	2864	1	chr7D.!!$R4	1145
14	TraesCS6A01G149200	chr7D	599721970	599722559	589	True	486.0	486	81.6810	3221	3810	1	chr7D.!!$R3	589
15	TraesCS6A01G149200	chr4B	37874128	37874922	794	True	968.0	968	88.9590	1	782	1	chr4B.!!$R1	781
16	TraesCS6A01G149200	chr2A	100198609	100199393	784	False	848.0	848	86.4660	1	782	1	chr2A.!!$F1	781
17	TraesCS6A01G149200	chr1A	575606702	575607486	784	True	843.0	843	86.3240	1	782	1	chr1A.!!$R1	781
18	TraesCS6A01G149200	chr7B	679671460	679672633	1173	True	678.0	678	77.4270	1760	2951	1	chr7B.!!$R3	1191
19	TraesCS6A01G149200	chr7B	679633666	679634752	1086	True	562.0	562	76.3650	1760	2864	1	chr7B.!!$R2	1104
20	TraesCS6A01G149200	chr7B	538052051	538052862	811	True	254.0	254	72.8140	1855	2678	1	chr7B.!!$R1	823
21	TraesCS6A01G149200	chr7A	5274383	5274950	567	False	651.0	651	87.4130	213	781	1	chr7A.!!$F2	568
22	TraesCS6A01G149200	chr7A	5244016	5248369	4353	False	638.5	647	86.9980	213	782	2	chr7A.!!$F4	569
23	TraesCS6A01G149200	chr7A	5260602	5261170	568	False	636.0	636	86.9110	213	782	1	chr7A.!!$F1	569
24	TraesCS6A01G149200	chr7A	5303779	5304347	568	False	630.0	630	86.7360	213	782	1	chr7A.!!$F3	569
25	TraesCS6A01G149200	chr7A	692045159	692045804	645	True	424.0	424	78.6150	2307	2952	1	chr7A.!!$R1	645
26	TraesCS6A01G149200	chr5D	406416452	406417543	1091	False	255.0	255	71.8360	1855	2934	1	chr5D.!!$F1	1079

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
807	4622	0.107643	TCCTTGATCCACACAACGCA	59.892	50.0	0.00	0.0	0.00	5.24	F
1003	4819	0.038744	AACTGTCCTGGCCTTGATGG	59.961	55.0	3.32	0.0	39.35	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2643	6514	0.320771	ACTCCATGTCGCTGAACACC	60.321	55.0	0.00	0.00	30.55	4.16	R
3425	7331	2.141011	CTGGATCAACTGGGGCCACA	62.141	60.0	7.89	7.89	0.00	4.17	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
127	128	1.168407	CGGCATCGGATTCCAGCATT	61.168	55.000	7.44	0.00	0.00	3.56
128	129	0.313043	GGCATCGGATTCCAGCATTG	59.687	55.000	3.09	0.00	0.00	2.82
220	223	1.963338	GCCTGAGTGCTGTCGCTTT	60.963	57.895	0.00	0.00	36.97	3.51
238	241	0.901827	TTGGCTGGAGCAATAGACGA	59.098	50.000	0.20	0.00	44.36	4.20
303	306	8.371053	CGTAGCAATCAGTACTACAAAGTTTAC	58.629	37.037	0.00	0.00	36.84	2.01
341	4129	2.744202	AGATCATCGAAACTTGTGGCAC	59.256	45.455	11.55	11.55	0.00	5.01
604	4419	2.665185	GCGAGAACCGTTGTGCCT	60.665	61.111	0.00	0.00	41.15	4.75
716	4531	2.073776	AGTGAGGGGGTCCTTTTTGAT	58.926	47.619	0.00	0.00	45.05	2.57
752	4567	7.174946	TGCATATAGTCCTTTTTAGCAATAGCC	59.825	37.037	0.00	0.00	43.56	3.93
802	4617	6.669125	AAAATCATTTCCTTGATCCACACA	57.331	33.333	0.00	0.00	35.29	3.72
803	4618	6.669125	AAATCATTTCCTTGATCCACACAA	57.331	33.333	0.00	0.00	35.29	3.33
804	4619	5.649782	ATCATTTCCTTGATCCACACAAC	57.350	39.130	0.00	0.00	30.45	3.32
805	4620	3.501828	TCATTTCCTTGATCCACACAACG	59.498	43.478	0.00	0.00	0.00	4.10
806	4621	1.234821	TTCCTTGATCCACACAACGC	58.765	50.000	0.00	0.00	0.00	4.84
807	4622	0.107643	TCCTTGATCCACACAACGCA	59.892	50.000	0.00	0.00	0.00	5.24
808	4623	0.950836	CCTTGATCCACACAACGCAA	59.049	50.000	0.00	0.00	0.00	4.85
809	4624	1.334960	CCTTGATCCACACAACGCAAC	60.335	52.381	0.00	0.00	0.00	4.17
810	4625	0.306228	TTGATCCACACAACGCAACG	59.694	50.000	0.00	0.00	0.00	4.10
811	4626	1.206578	GATCCACACAACGCAACGG	59.793	57.895	0.00	0.00	0.00	4.44
812	4627	1.225376	GATCCACACAACGCAACGGA	61.225	55.000	0.00	0.00	0.00	4.69
813	4628	0.605319	ATCCACACAACGCAACGGAT	60.605	50.000	0.00	0.00	0.00	4.18
814	4629	0.816018	TCCACACAACGCAACGGATT	60.816	50.000	0.00	0.00	0.00	3.01
815	4630	0.385473	CCACACAACGCAACGGATTC	60.385	55.000	0.00	0.00	0.00	2.52
816	4631	0.385473	CACACAACGCAACGGATTCC	60.385	55.000	0.00	0.00	0.00	3.01
817	4632	0.534203	ACACAACGCAACGGATTCCT	60.534	50.000	0.30	0.00	0.00	3.36
820	4635	2.388232	AACGCAACGGATTCCTCGC	61.388	57.895	0.30	0.00	0.00	5.03
824	4639	1.982073	GCAACGGATTCCTCGCCTTG	61.982	60.000	0.30	0.00	0.00	3.61
991	4807	1.607148	CCTTTCCGGTTCAAACTGTCC	59.393	52.381	0.00	0.00	33.38	4.02
992	4808	2.572290	CTTTCCGGTTCAAACTGTCCT	58.428	47.619	0.00	0.00	33.38	3.85
994	4810	0.107831	TCCGGTTCAAACTGTCCTGG	59.892	55.000	0.00	0.00	33.38	4.45
996	4812	1.515521	CGGTTCAAACTGTCCTGGCC	61.516	60.000	0.00	0.00	0.00	5.36
997	4813	0.178990	GGTTCAAACTGTCCTGGCCT	60.179	55.000	3.32	0.00	0.00	5.19
998	4814	1.692411	GTTCAAACTGTCCTGGCCTT	58.308	50.000	3.32	0.00	0.00	4.35
999	4815	1.338020	GTTCAAACTGTCCTGGCCTTG	59.662	52.381	3.32	0.00	0.00	3.61
1000	4816	0.843309	TCAAACTGTCCTGGCCTTGA	59.157	50.000	3.32	0.00	0.00	3.02
1001	4817	1.425066	TCAAACTGTCCTGGCCTTGAT	59.575	47.619	3.32	0.00	0.00	2.57
1002	4818	1.542915	CAAACTGTCCTGGCCTTGATG	59.457	52.381	3.32	0.80	0.00	3.07
1003	4819	0.038744	AACTGTCCTGGCCTTGATGG	59.961	55.000	3.32	0.00	39.35	3.51
1012	4836	0.618458	GGCCTTGATGGTGGACTACA	59.382	55.000	0.00	0.00	38.35	2.74
1086	4910	2.974489	GACCGACGAGGCGTTCTCA	61.974	63.158	0.00	0.00	46.52	3.27
1087	4911	2.267681	GACCGACGAGGCGTTCTCAT	62.268	60.000	0.00	0.00	46.52	2.90
1088	4912	1.028330	ACCGACGAGGCGTTCTCATA	61.028	55.000	0.00	0.00	46.52	2.15
1096	4920	1.004595	GGCGTTCTCATACCCGAAAC	58.995	55.000	0.00	0.00	0.00	2.78
1103	4927	3.680490	TCTCATACCCGAAACATTGCAA	58.320	40.909	0.00	0.00	0.00	4.08
1112	4936	3.358775	CGAAACATTGCAACGTGAAGAA	58.641	40.909	0.00	0.00	0.00	2.52
1121	4945	2.408050	CAACGTGAAGAAGGAGAGTGG	58.592	52.381	0.00	0.00	0.00	4.00
1344	5171	1.663702	CAAGTCCGACCGCGAAAGT	60.664	57.895	8.23	0.00	40.82	2.66
1745	5611	2.202837	GGCGATTCGGCGGTACTT	60.203	61.111	17.13	0.00	43.33	2.24
1976	5845	1.327303	GAGCTGACCGATGATCTCCT	58.673	55.000	0.00	0.00	0.00	3.69
1982	5851	1.109920	ACCGATGATCTCCTGGACGG	61.110	60.000	16.78	16.78	43.61	4.79
2064	5933	2.359967	GCTACAGCTCCCCGAGGTT	61.360	63.158	0.00	0.00	38.40	3.50
2430	6301	3.379445	GGCCTCCTCGTGTCCGAA	61.379	66.667	0.00	0.00	43.69	4.30
2559	6430	2.040544	GGAGTGGGGCATGAACACG	61.041	63.158	0.00	0.00	39.95	4.49
2577	6448	1.308998	CGAACTTCCAGGCAGTGTTT	58.691	50.000	0.00	0.00	0.00	2.83
3440	7346	2.440599	GGTGTGGCCCCAGTTGAT	59.559	61.111	0.00	0.00	0.00	2.57
3886	7801	3.503216	GCGCGCGCTAATCATTTG	58.497	55.556	44.38	11.16	38.26	2.32
3887	7802	1.011242	GCGCGCGCTAATCATTTGA	60.011	52.632	44.38	0.00	38.26	2.69
3888	7803	0.588730	GCGCGCGCTAATCATTTGAA	60.589	50.000	44.38	0.00	38.26	2.69
3889	7804	1.104579	CGCGCGCTAATCATTTGAAC	58.895	50.000	30.48	0.00	0.00	3.18
3890	7805	1.528807	CGCGCGCTAATCATTTGAACA	60.529	47.619	30.48	0.00	0.00	3.18
3891	7806	2.104144	GCGCGCTAATCATTTGAACAG	58.896	47.619	26.67	0.00	0.00	3.16
3892	7807	2.223021	GCGCGCTAATCATTTGAACAGA	60.223	45.455	26.67	0.00	0.00	3.41
3893	7808	3.727673	GCGCGCTAATCATTTGAACAGAA	60.728	43.478	26.67	0.00	0.00	3.02
3894	7809	4.402583	CGCGCTAATCATTTGAACAGAAA	58.597	39.130	5.56	0.00	0.00	2.52
3895	7810	4.851014	CGCGCTAATCATTTGAACAGAAAA	59.149	37.500	5.56	0.00	0.00	2.29
3896	7811	5.341993	CGCGCTAATCATTTGAACAGAAAAA	59.658	36.000	5.56	0.00	0.00	1.94
3897	7812	6.033831	CGCGCTAATCATTTGAACAGAAAAAT	59.966	34.615	5.56	0.00	0.00	1.82
3898	7813	7.386414	GCGCTAATCATTTGAACAGAAAAATC	58.614	34.615	0.00	0.00	0.00	2.17
3899	7814	7.274250	GCGCTAATCATTTGAACAGAAAAATCT	59.726	33.333	0.00	0.00	0.00	2.40
3900	7815	8.792538	CGCTAATCATTTGAACAGAAAAATCTC	58.207	33.333	0.00	0.00	0.00	2.75
3901	7816	9.630098	GCTAATCATTTGAACAGAAAAATCTCA	57.370	29.630	0.00	0.00	0.00	3.27
3904	7819	9.688592	AATCATTTGAACAGAAAAATCTCAGTC	57.311	29.630	0.00	0.00	0.00	3.51
3905	7820	8.455903	TCATTTGAACAGAAAAATCTCAGTCT	57.544	30.769	0.00	0.00	0.00	3.24
3906	7821	9.559732	TCATTTGAACAGAAAAATCTCAGTCTA	57.440	29.630	0.00	0.00	0.00	2.59
3907	7822	9.823098	CATTTGAACAGAAAAATCTCAGTCTAG	57.177	33.333	0.00	0.00	0.00	2.43
3908	7823	7.426929	TTGAACAGAAAAATCTCAGTCTAGC	57.573	36.000	0.00	0.00	0.00	3.42
3909	7824	6.524734	TGAACAGAAAAATCTCAGTCTAGCA	58.475	36.000	0.00	0.00	0.00	3.49
3910	7825	7.164122	TGAACAGAAAAATCTCAGTCTAGCAT	58.836	34.615	0.00	0.00	0.00	3.79
3911	7826	7.332926	TGAACAGAAAAATCTCAGTCTAGCATC	59.667	37.037	0.00	0.00	0.00	3.91
3912	7827	6.945218	ACAGAAAAATCTCAGTCTAGCATCT	58.055	36.000	0.00	0.00	0.00	2.90
3913	7828	8.072321	ACAGAAAAATCTCAGTCTAGCATCTA	57.928	34.615	0.00	0.00	0.00	1.98
3914	7829	8.535335	ACAGAAAAATCTCAGTCTAGCATCTAA	58.465	33.333	0.00	0.00	0.00	2.10
3915	7830	9.376075	CAGAAAAATCTCAGTCTAGCATCTAAA	57.624	33.333	0.00	0.00	0.00	1.85
3916	7831	9.950496	AGAAAAATCTCAGTCTAGCATCTAAAA	57.050	29.630	0.00	0.00	0.00	1.52
3922	7837	9.757227	ATCTCAGTCTAGCATCTAAAATTACAC	57.243	33.333	0.00	0.00	0.00	2.90
3923	7838	8.972127	TCTCAGTCTAGCATCTAAAATTACACT	58.028	33.333	0.00	0.00	0.00	3.55
3942	7857	8.712285	TTACACTACTACTATCACATTTTGGC	57.288	34.615	0.00	0.00	0.00	4.52
3943	7858	5.810587	ACACTACTACTATCACATTTTGGCG	59.189	40.000	0.00	0.00	0.00	5.69
3944	7859	6.040247	CACTACTACTATCACATTTTGGCGA	58.960	40.000	0.00	0.00	0.00	5.54
3945	7860	6.199154	CACTACTACTATCACATTTTGGCGAG	59.801	42.308	0.00	0.00	0.00	5.03
3946	7861	5.339008	ACTACTATCACATTTTGGCGAGA	57.661	39.130	0.00	0.00	0.00	4.04
3947	7862	5.352284	ACTACTATCACATTTTGGCGAGAG	58.648	41.667	0.00	0.00	0.00	3.20
3948	7863	4.471904	ACTATCACATTTTGGCGAGAGA	57.528	40.909	0.00	0.00	0.00	3.10
3949	7864	4.832248	ACTATCACATTTTGGCGAGAGAA	58.168	39.130	0.00	0.00	0.00	2.87

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
127	128	0.599991	GTGTGTGATGAGACACCGCA	60.600	55.000	0.85	0.00	44.83	5.69
128	129	0.599991	TGTGTGTGATGAGACACCGC	60.600	55.000	10.01	0.00	44.06	5.68
172	175	2.115911	AACGCGTGTTTTCCTGCCA	61.116	52.632	14.98	0.00	33.53	4.92
220	223	0.901827	TTCGTCTATTGCTCCAGCCA	59.098	50.000	0.00	0.00	41.18	4.75
341	4129	2.602660	CACGGTTCCTTGTTTTGCTTTG	59.397	45.455	0.00	0.00	0.00	2.77
752	4567	0.539669	AAAAGGACCCCTTGCCGAAG	60.540	55.000	0.00	0.00	43.92	3.79
782	4597	4.156556	CGTTGTGTGGATCAAGGAAATGAT	59.843	41.667	0.00	0.00	42.62	2.45
783	4598	3.501828	CGTTGTGTGGATCAAGGAAATGA	59.498	43.478	0.00	0.00	34.09	2.57
784	4599	3.825308	CGTTGTGTGGATCAAGGAAATG	58.175	45.455	0.00	0.00	34.09	2.32
785	4600	2.228822	GCGTTGTGTGGATCAAGGAAAT	59.771	45.455	0.00	0.00	34.09	2.17
786	4601	1.606668	GCGTTGTGTGGATCAAGGAAA	59.393	47.619	0.00	0.00	34.09	3.13
787	4602	1.234821	GCGTTGTGTGGATCAAGGAA	58.765	50.000	0.00	0.00	34.09	3.36
788	4603	0.107643	TGCGTTGTGTGGATCAAGGA	59.892	50.000	0.00	0.00	34.09	3.36
789	4604	0.950836	TTGCGTTGTGTGGATCAAGG	59.049	50.000	0.00	0.00	34.94	3.61
790	4605	1.660052	CGTTGCGTTGTGTGGATCAAG	60.660	52.381	0.00	0.00	0.00	3.02
791	4606	0.306228	CGTTGCGTTGTGTGGATCAA	59.694	50.000	0.00	0.00	0.00	2.57
792	4607	1.502990	CCGTTGCGTTGTGTGGATCA	61.503	55.000	0.00	0.00	0.00	2.92
793	4608	1.206578	CCGTTGCGTTGTGTGGATC	59.793	57.895	0.00	0.00	0.00	3.36
794	4609	0.605319	ATCCGTTGCGTTGTGTGGAT	60.605	50.000	0.00	0.00	0.00	3.41
795	4610	0.816018	AATCCGTTGCGTTGTGTGGA	60.816	50.000	0.00	0.00	0.00	4.02
796	4611	0.385473	GAATCCGTTGCGTTGTGTGG	60.385	55.000	0.00	0.00	0.00	4.17
797	4612	0.385473	GGAATCCGTTGCGTTGTGTG	60.385	55.000	0.00	0.00	0.00	3.82
798	4613	0.534203	AGGAATCCGTTGCGTTGTGT	60.534	50.000	0.00	0.00	0.00	3.72
799	4614	0.165944	GAGGAATCCGTTGCGTTGTG	59.834	55.000	0.00	0.00	0.00	3.33
800	4615	1.289109	CGAGGAATCCGTTGCGTTGT	61.289	55.000	0.00	0.00	0.00	3.32
801	4616	1.419922	CGAGGAATCCGTTGCGTTG	59.580	57.895	0.00	0.00	0.00	4.10
802	4617	2.388232	GCGAGGAATCCGTTGCGTT	61.388	57.895	0.00	0.00	0.00	4.84
803	4618	2.813908	GCGAGGAATCCGTTGCGT	60.814	61.111	0.00	0.00	0.00	5.24
804	4619	3.564027	GGCGAGGAATCCGTTGCG	61.564	66.667	7.20	5.28	38.20	4.85
805	4620	1.745489	AAGGCGAGGAATCCGTTGC	60.745	57.895	5.14	5.14	36.96	4.17
806	4621	1.369091	CCAAGGCGAGGAATCCGTTG	61.369	60.000	0.00	0.00	0.00	4.10
807	4622	1.078426	CCAAGGCGAGGAATCCGTT	60.078	57.895	0.00	0.00	0.00	4.44
808	4623	2.240162	GACCAAGGCGAGGAATCCGT	62.240	60.000	5.26	0.00	0.00	4.69
809	4624	1.521681	GACCAAGGCGAGGAATCCG	60.522	63.158	5.26	0.00	0.00	4.18
810	4625	1.153147	GGACCAAGGCGAGGAATCC	60.153	63.158	5.26	0.00	0.00	3.01
811	4626	0.035439	TTGGACCAAGGCGAGGAATC	60.035	55.000	1.69	0.00	0.00	2.52
812	4627	0.404040	TTTGGACCAAGGCGAGGAAT	59.596	50.000	7.07	0.00	0.00	3.01
813	4628	0.250727	CTTTGGACCAAGGCGAGGAA	60.251	55.000	7.07	0.00	0.00	3.36
814	4629	1.374947	CTTTGGACCAAGGCGAGGA	59.625	57.895	7.07	0.00	0.00	3.71
815	4630	1.675641	CCTTTGGACCAAGGCGAGG	60.676	63.158	10.81	9.33	0.00	4.63
816	4631	0.035056	ATCCTTTGGACCAAGGCGAG	60.035	55.000	10.81	3.88	32.98	5.03
817	4632	1.209504	CTATCCTTTGGACCAAGGCGA	59.790	52.381	10.81	9.79	32.98	5.54
820	4635	4.265073	CAGTTCTATCCTTTGGACCAAGG	58.735	47.826	9.36	9.36	32.98	3.61
824	4639	2.644676	GCCAGTTCTATCCTTTGGACC	58.355	52.381	0.00	0.00	32.98	4.46
838	4653	0.539051	CTCCTTGGAGATCGCCAGTT	59.461	55.000	18.10	0.00	39.52	3.16
840	4655	0.103937	GACTCCTTGGAGATCGCCAG	59.896	60.000	22.10	12.10	39.52	4.85
841	4656	1.330655	GGACTCCTTGGAGATCGCCA	61.331	60.000	22.10	14.91	35.78	5.69
842	4657	1.045911	AGGACTCCTTGGAGATCGCC	61.046	60.000	22.10	8.81	0.00	5.54
991	4807	0.911769	TAGTCCACCATCAAGGCCAG	59.088	55.000	5.01	0.00	43.14	4.85
992	4808	0.618458	GTAGTCCACCATCAAGGCCA	59.382	55.000	5.01	0.00	43.14	5.36
994	4810	1.555075	TCTGTAGTCCACCATCAAGGC	59.445	52.381	0.00	0.00	43.14	4.35
996	4812	4.707448	AGTAGTCTGTAGTCCACCATCAAG	59.293	45.833	0.00	0.00	0.00	3.02
997	4813	4.673968	AGTAGTCTGTAGTCCACCATCAA	58.326	43.478	0.00	0.00	0.00	2.57
998	4814	4.270834	GAGTAGTCTGTAGTCCACCATCA	58.729	47.826	0.00	0.00	0.00	3.07
999	4815	3.312973	CGAGTAGTCTGTAGTCCACCATC	59.687	52.174	0.00	0.00	0.00	3.51
1000	4816	3.280295	CGAGTAGTCTGTAGTCCACCAT	58.720	50.000	0.00	0.00	0.00	3.55
1001	4817	2.617276	CCGAGTAGTCTGTAGTCCACCA	60.617	54.545	0.00	0.00	0.00	4.17
1002	4818	2.015587	CCGAGTAGTCTGTAGTCCACC	58.984	57.143	0.00	0.00	0.00	4.61
1003	4819	1.401199	GCCGAGTAGTCTGTAGTCCAC	59.599	57.143	0.00	0.00	0.00	4.02
1082	4906	3.342377	TGCAATGTTTCGGGTATGAGA	57.658	42.857	0.00	0.00	0.00	3.27
1086	4910	2.095466	CACGTTGCAATGTTTCGGGTAT	60.095	45.455	21.60	0.00	0.00	2.73
1087	4911	1.264557	CACGTTGCAATGTTTCGGGTA	59.735	47.619	21.60	0.00	0.00	3.69
1088	4912	0.030101	CACGTTGCAATGTTTCGGGT	59.970	50.000	21.60	0.00	0.00	5.28
1096	4920	2.807967	TCTCCTTCTTCACGTTGCAATG	59.192	45.455	17.16	17.16	0.00	2.82
1103	4927	0.318762	GCCACTCTCCTTCTTCACGT	59.681	55.000	0.00	0.00	0.00	4.49
1417	5244	0.252103	TCCTTGAGGTAGCCGAAGGT	60.252	55.000	15.64	0.00	43.60	3.50
1474	5301	3.214328	TCCTTTCTGCTTTGTTGGAGAC	58.786	45.455	0.00	0.00	34.22	3.36
1745	5611	3.376078	GGTACGTGGGGTCGCAGA	61.376	66.667	0.00	0.00	0.00	4.26
1976	5845	2.778299	GATAAGCATAATGCCCGTCCA	58.222	47.619	0.00	0.00	46.52	4.02
1982	5851	0.519175	CGCGCGATAAGCATAATGCC	60.519	55.000	28.94	0.00	46.52	4.40
2386	6257	2.359850	GCAGACGTCCATGGGCAA	60.360	61.111	18.31	0.00	0.00	4.52
2559	6430	2.033424	GTCAAACACTGCCTGGAAGTTC	59.967	50.000	4.00	0.00	0.00	3.01
2577	6448	0.608130	CCACGTCCAGGATCTTGTCA	59.392	55.000	3.93	0.00	0.00	3.58
2610	6481	4.841617	ATCCTCTCCGGCGGCAGA	62.842	66.667	23.83	22.19	0.00	4.26
2643	6514	0.320771	ACTCCATGTCGCTGAACACC	60.321	55.000	0.00	0.00	30.55	4.16
3425	7331	2.141011	CTGGATCAACTGGGGCCACA	62.141	60.000	7.89	7.89	0.00	4.17
3875	7790	9.630098	TGAGATTTTTCTGTTCAAATGATTAGC	57.370	29.630	0.00	0.00	0.00	3.09
3884	7799	6.992123	TGCTAGACTGAGATTTTTCTGTTCAA	59.008	34.615	0.00	0.00	30.60	2.69
3885	7800	6.524734	TGCTAGACTGAGATTTTTCTGTTCA	58.475	36.000	0.00	0.00	30.60	3.18
3886	7801	7.548780	AGATGCTAGACTGAGATTTTTCTGTTC	59.451	37.037	0.00	0.00	30.60	3.18
3887	7802	7.393216	AGATGCTAGACTGAGATTTTTCTGTT	58.607	34.615	0.00	0.00	30.60	3.16
3888	7803	6.945218	AGATGCTAGACTGAGATTTTTCTGT	58.055	36.000	0.00	0.00	32.75	3.41
3889	7804	8.939201	TTAGATGCTAGACTGAGATTTTTCTG	57.061	34.615	0.00	0.00	0.00	3.02
3890	7805	9.950496	TTTTAGATGCTAGACTGAGATTTTTCT	57.050	29.630	0.00	0.00	0.00	2.52
3896	7811	9.757227	GTGTAATTTTAGATGCTAGACTGAGAT	57.243	33.333	0.00	0.00	0.00	2.75
3897	7812	8.972127	AGTGTAATTTTAGATGCTAGACTGAGA	58.028	33.333	0.00	0.00	0.00	3.27
3916	7831	9.326413	GCCAAAATGTGATAGTAGTAGTGTAAT	57.674	33.333	0.00	0.00	0.00	1.89
3917	7832	7.490079	CGCCAAAATGTGATAGTAGTAGTGTAA	59.510	37.037	0.00	0.00	0.00	2.41
3918	7833	6.976349	CGCCAAAATGTGATAGTAGTAGTGTA	59.024	38.462	0.00	0.00	0.00	2.90
3919	7834	5.810587	CGCCAAAATGTGATAGTAGTAGTGT	59.189	40.000	0.00	0.00	0.00	3.55
3920	7835	6.040247	TCGCCAAAATGTGATAGTAGTAGTG	58.960	40.000	0.00	0.00	0.00	2.74
3921	7836	6.096423	TCTCGCCAAAATGTGATAGTAGTAGT	59.904	38.462	0.00	0.00	0.00	2.73
3922	7837	6.504398	TCTCGCCAAAATGTGATAGTAGTAG	58.496	40.000	0.00	0.00	0.00	2.57
3923	7838	6.320418	TCTCTCGCCAAAATGTGATAGTAGTA	59.680	38.462	0.00	0.00	0.00	1.82
3924	7839	5.127194	TCTCTCGCCAAAATGTGATAGTAGT	59.873	40.000	0.00	0.00	0.00	2.73
3925	7840	5.592054	TCTCTCGCCAAAATGTGATAGTAG	58.408	41.667	0.00	0.00	0.00	2.57
3926	7841	5.592104	TCTCTCGCCAAAATGTGATAGTA	57.408	39.130	0.00	0.00	0.00	1.82
3927	7842	4.471904	TCTCTCGCCAAAATGTGATAGT	57.528	40.909	0.00	0.00	0.00	2.12

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.