AutoCloner

Multiple sequence alignment - TraesCS7D01G319200

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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	TraesCS7D01G319200	chr7D	100.000	6189	0	0	1	6189	407861290	407855102	0.000000e+00	11430.0
1	TraesCS7D01G319200	chr7D	100.000	2591	0	0	6657	9247	407854634	407852044	0.000000e+00	4785.0
2	TraesCS7D01G319200	chr7D	89.815	108	11	0	5307	5414	168580023	168579916	1.250000e-28	139.0
3	TraesCS7D01G319200	chr7D	96.429	84	3	0	1968	2051	407859259	407859176	1.250000e-28	139.0
4	TraesCS7D01G319200	chr7D	96.429	84	3	0	2032	2115	407859323	407859240	1.250000e-28	139.0
5	TraesCS7D01G319200	chr7A	96.187	5403	129	24	826	6189	466257578	466252214	0.000000e+00	8765.0
6	TraesCS7D01G319200	chr7A	98.199	2610	20	6	6657	9247	466252152	466249551	0.000000e+00	4534.0
7	TraesCS7D01G319200	chr7A	89.895	287	29	0	5705	5991	605840708	605840422	4.080000e-98	370.0
8	TraesCS7D01G319200	chr7A	96.479	142	4	1	1968	2109	466256337	466256197	5.580000e-57	233.0
9	TraesCS7D01G319200	chr7A	95.455	88	4	0	2028	2115	466256405	466256318	3.480000e-29	141.0
10	TraesCS7D01G319200	chr7A	89.091	110	12	0	5312	5421	406995310	406995419	4.500000e-28	137.0
11	TraesCS7D01G319200	chr7A	89.286	112	6	5	5302	5412	704896112	704896218	1.620000e-27	135.0
12	TraesCS7D01G319200	chr7A	94.872	78	3	1	1968	2045	466256273	466256197	4.540000e-23	121.0
13	TraesCS7D01G319200	chr7A	96.226	53	1	1	3818	3869	605840830	605840778	1.650000e-12	86.1
14	TraesCS7D01G319200	chr7B	95.352	3916	129	16	826	4708	419045952	419042057	0.000000e+00	6174.0
15	TraesCS7D01G319200	chr7B	94.262	1917	73	18	6657	8564	419040557	419038669	0.000000e+00	2896.0
16	TraesCS7D01G319200	chr7B	95.907	1466	44	4	4725	6189	419042069	419040619	0.000000e+00	2361.0
17	TraesCS7D01G319200	chr7B	94.010	818	45	4	1	814	632802169	632802986	0.000000e+00	1236.0
18	TraesCS7D01G319200	chr7B	91.964	336	10	7	8923	9247	419038203	419037874	1.090000e-123	455.0
19	TraesCS7D01G319200	chr7B	89.744	195	10	5	8671	8857	419038568	419038376	3.340000e-59	241.0
20	TraesCS7D01G319200	chr7B	95.181	83	4	0	2028	2110	419044791	419044709	2.100000e-26	132.0
21	TraesCS7D01G319200	chr7B	91.667	84	6	1	1968	2051	419044723	419044641	2.110000e-21	115.0
22	TraesCS7D01G319200	chr2A	94.614	817	41	3	1	814	765216370	765215554	0.000000e+00	1262.0
23	TraesCS7D01G319200	chr2A	94.240	816	44	3	1	813	765245199	765244384	0.000000e+00	1243.0
24	TraesCS7D01G319200	chr2A	94.118	816	45	3	1	813	765241780	765240965	0.000000e+00	1238.0
25	TraesCS7D01G319200	chr2D	94.485	816	42	3	1	814	590029294	590028480	0.000000e+00	1254.0
26	TraesCS7D01G319200	chr2D	94.342	813	44	2	1	811	600313782	600312970	0.000000e+00	1245.0
27	TraesCS7D01G319200	chr2D	93.988	815	43	4	1	812	571067974	571067163	0.000000e+00	1229.0
28	TraesCS7D01G319200	chr2D	92.233	103	7	1	5312	5413	367506500	367506398	2.690000e-30	145.0
29	TraesCS7D01G319200	chr4D	94.103	814	45	3	1	812	28487871	28488683	0.000000e+00	1234.0
30	TraesCS7D01G319200	chr5B	93.873	816	47	3	1	814	96905196	96906010	0.000000e+00	1227.0
31	TraesCS7D01G319200	chr5B	89.333	75	7	1	3820	3893	292339900	292339974	9.890000e-15	93.5
32	TraesCS7D01G319200	chr5B	83.529	85	10	2	4917	4997	399073281	399073197	9.960000e-10	76.8
33	TraesCS7D01G319200	chr5D	91.429	105	9	0	5308	5412	228446955	228447059	2.690000e-30	145.0
34	TraesCS7D01G319200	chr5D	89.908	109	9	2	5316	5423	384468960	384468853	1.250000e-28	139.0
35	TraesCS7D01G319200	chr3A	92.929	99	7	0	5313	5411	156231982	156232080	2.690000e-30	145.0
36	TraesCS7D01G319200	chr6D	94.000	50	1	2	4948	4995	400398703	400398654	3.580000e-09	75.0

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	TraesCS7D01G319200	chr7D	407852044	407861290	9246	True	4123.250000	11430	98.214500	1	9247	4	chr7D.!!$R2	9246
1	TraesCS7D01G319200	chr7A	466249551	466257578	8027	True	2758.800000	8765	96.238400	826	9247	5	chr7A.!!$R1	8421
2	TraesCS7D01G319200	chr7B	419037874	419045952	8078	True	1767.714286	6174	93.439571	826	9247	7	chr7B.!!$R1	8421
3	TraesCS7D01G319200	chr7B	632802169	632802986	817	False	1236.000000	1236	94.010000	1	814	1	chr7B.!!$F1	813
4	TraesCS7D01G319200	chr2A	765215554	765216370	816	True	1262.000000	1262	94.614000	1	814	1	chr2A.!!$R1	813
5	TraesCS7D01G319200	chr2A	765240965	765245199	4234	True	1240.500000	1243	94.179000	1	813	2	chr2A.!!$R2	812
6	TraesCS7D01G319200	chr2D	590028480	590029294	814	True	1254.000000	1254	94.485000	1	814	1	chr2D.!!$R3	813
7	TraesCS7D01G319200	chr2D	600312970	600313782	812	True	1245.000000	1245	94.342000	1	811	1	chr2D.!!$R4	810
8	TraesCS7D01G319200	chr2D	571067163	571067974	811	True	1229.000000	1229	93.988000	1	812	1	chr2D.!!$R2	811
9	TraesCS7D01G319200	chr4D	28487871	28488683	812	False	1234.000000	1234	94.103000	1	812	1	chr4D.!!$F1	811
10	TraesCS7D01G319200	chr5B	96905196	96906010	814	False	1227.000000	1227	93.873000	1	814	1	chr5B.!!$F1	813

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
644	4073	0.613777	GGGTGAGGAGGTGATTCGTT	59.386	55.000	0.00	0.00	0.00	3.85	F
670	4099	0.749818	TTTTTCGGTGGCTGCTGTGA	60.750	50.000	0.00	0.00	0.00	3.58	F
1612	5053	1.093159	GTCAATGCCTTCTGCTGGAG	58.907	55.000	0.00	0.00	42.00	3.86	F
2108	5637	0.175760	CCTAGGCACGCTTAAGCTCA	59.824	55.000	24.33	3.15	39.32	4.26	F
2115	5644	0.179134	ACGCTTAAGCTCACGCCTAG	60.179	55.000	24.33	8.57	39.32	3.02	F
2117	5646	0.460311	GCTTAAGCTCACGCCTAGGA	59.540	55.000	20.38	0.00	38.21	2.94	F
2124	5653	0.820871	CTCACGCCTAGGAGCTCTTT	59.179	55.000	14.75	5.09	0.00	2.52	F
2125	5654	1.205893	CTCACGCCTAGGAGCTCTTTT	59.794	52.381	14.75	2.43	0.00	2.27	F
2126	5655	1.623811	TCACGCCTAGGAGCTCTTTTT	59.376	47.619	14.75	0.00	0.00	1.94	F
4402	7938	0.521735	GTGATGTTGCCGTTCCCTTC	59.478	55.000	0.00	0.00	0.00	3.46	F
4786	8322	1.330655	TACAGAGCTGCTAGCCCACC	61.331	60.000	13.29	0.00	43.77	4.61	F
6717	10255	1.203137	TCTCAGGTTTTCCCCGAGAGA	60.203	52.381	0.00	0.00	41.29	3.10	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1963	5428	0.710567	CGTGCGCTTAAGAGTGTCTG	59.289	55.000	9.73	35.79	3.51	R
2106	5635	1.267121	AAAAGAGCTCCTAGGCGTGA	58.733	50.000	10.93	37.29	4.35	R
3485	7021	3.128242	CAGCAAAATGCCGAGATCTTCTT	59.872	43.478	0.00	46.52	2.52	R
3535	7071	6.497624	AGAAGATCCAGAAATATGCAGTCT	57.502	37.500	0.00	0.00	3.24	R
3850	7386	6.587273	ACCAGCTTCCTCTTCAAATACTATC	58.413	40.000	0.00	0.00	2.08	R
4024	7560	7.880160	TCCCCAATCAAACTATGTCATTTAG	57.120	36.000	0.00	0.00	1.85	R
4111	7647	8.664798	GCAAACATACAGATAAGACACAACATA	58.335	33.333	0.00	0.00	2.29	R
4365	7901	4.011966	TCACAGCAGAATCATCACTGTT	57.988	40.909	0.00	40.93	3.16	R
4531	8067	6.195244	GCAATTAATCTTATGCACAACAGTCG	59.805	38.462	5.21	38.63	4.18	R
5314	8850	0.328258	ATTTTGGGACGGAGGGAGTG	59.672	55.000	0.00	0.00	3.51	R
6882	10420	0.673644	CCACTTACCACAAGAGCCCG	60.674	60.000	0.00	0.00	6.13	R
8296	11837	1.234821	ACACGCACGATGAAACCAAT	58.765	45.000	0.00	0.00	3.16	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
28	30	2.125106	GGCCGATCTTCCAACGCT	60.125	61.111	0.00	0.00	0.00	5.07
38	40	4.069232	CCAACGCTGCTCTCCGGA	62.069	66.667	2.93	2.93	0.00	5.14
156	160	8.539674	GTTTTAGATTGTTCATCGTTTTGCTTT	58.460	29.630	0.00	0.00	36.93	3.51
201	205	7.012799	GCTGAATAAAGATTCTTCGGATCCTTT	59.987	37.037	10.75	3.46	41.87	3.11
204	208	3.847671	AGATTCTTCGGATCCTTTCCC	57.152	47.619	10.75	0.00	42.06	3.97
239	243	2.040412	GTCCTATGGTTGGGGATGGATC	59.960	54.545	0.00	0.00	0.00	3.36
263	267	3.130340	GGAAACCAGTCTGTTCAAGCAAA	59.870	43.478	0.00	0.00	0.00	3.68
569	3998	3.758425	GGTAAGGGCTTCACTTTTGGTA	58.242	45.455	0.00	0.00	0.00	3.25
644	4073	0.613777	GGGTGAGGAGGTGATTCGTT	59.386	55.000	0.00	0.00	0.00	3.85
648	4077	4.514401	GGTGAGGAGGTGATTCGTTATTT	58.486	43.478	0.00	0.00	0.00	1.40
670	4099	0.749818	TTTTTCGGTGGCTGCTGTGA	60.750	50.000	0.00	0.00	0.00	3.58
701	4130	2.918802	AGGTGACGGGCGTTGGTA	60.919	61.111	0.00	0.00	0.00	3.25
755	4184	4.273969	GGTTTTGTCATGTCGGTCTTTACA	59.726	41.667	0.00	0.00	0.00	2.41
833	4262	1.229428	CATGCACCGTGACAGTTCTT	58.771	50.000	1.65	0.00	0.00	2.52
838	4267	4.633175	TGCACCGTGACAGTTCTTAATAA	58.367	39.130	1.65	0.00	0.00	1.40
842	4271	6.097356	CACCGTGACAGTTCTTAATAAGCTA	58.903	40.000	0.00	0.00	0.00	3.32
1492	4932	9.702494	GATCCCATGGAAATTTCATTCTTAATC	57.298	33.333	15.22	9.74	34.34	1.75
1604	5045	4.207891	TCTCTAGTTGGTCAATGCCTTC	57.792	45.455	0.00	0.00	0.00	3.46
1612	5053	1.093159	GTCAATGCCTTCTGCTGGAG	58.907	55.000	0.00	0.00	42.00	3.86
1620	5061	2.682352	GCCTTCTGCTGGAGAATTCTTC	59.318	50.000	12.13	8.30	40.06	2.87
1963	5428	1.996292	TCTCACGTAAGCACATGAGC	58.004	50.000	7.07	7.07	45.62	4.26
2069	5598	2.393271	ATCAGTGCTTGAGGCTACAC	57.607	50.000	0.00	0.00	39.68	2.90
2106	5635	1.153349	GCCTAGGCACGCTTAAGCT	60.153	57.895	29.33	8.55	41.49	3.74
2107	5636	1.154814	GCCTAGGCACGCTTAAGCTC	61.155	60.000	29.33	13.10	41.49	4.09
2108	5637	0.175760	CCTAGGCACGCTTAAGCTCA	59.824	55.000	24.33	3.15	39.32	4.26
2109	5638	1.281899	CTAGGCACGCTTAAGCTCAC	58.718	55.000	24.33	12.91	39.32	3.51
2110	5639	0.457853	TAGGCACGCTTAAGCTCACG	60.458	55.000	24.33	11.74	39.32	4.35
2111	5640	2.096594	GCACGCTTAAGCTCACGC	59.903	61.111	24.33	16.51	39.32	5.34
2112	5641	2.778679	CACGCTTAAGCTCACGCC	59.221	61.111	24.33	0.00	39.32	5.68
2113	5642	1.738099	CACGCTTAAGCTCACGCCT	60.738	57.895	24.33	0.00	39.32	5.52
2114	5643	0.457853	CACGCTTAAGCTCACGCCTA	60.458	55.000	24.33	0.00	39.32	3.93
2115	5644	0.179134	ACGCTTAAGCTCACGCCTAG	60.179	55.000	24.33	8.57	39.32	3.02
2116	5645	0.872021	CGCTTAAGCTCACGCCTAGG	60.872	60.000	24.33	3.67	39.32	3.02
2117	5646	0.460311	GCTTAAGCTCACGCCTAGGA	59.540	55.000	20.38	0.00	38.21	2.94
2118	5647	1.537135	GCTTAAGCTCACGCCTAGGAG	60.537	57.143	20.38	12.99	38.21	3.69
2122	5651	4.251246	CTCACGCCTAGGAGCTCT	57.749	61.111	14.75	2.18	0.00	4.09
2123	5652	2.499214	CTCACGCCTAGGAGCTCTT	58.501	57.895	14.75	8.96	0.00	2.85
2124	5653	0.820871	CTCACGCCTAGGAGCTCTTT	59.179	55.000	14.75	5.09	0.00	2.52
2125	5654	1.205893	CTCACGCCTAGGAGCTCTTTT	59.794	52.381	14.75	2.43	0.00	2.27
2126	5655	1.623811	TCACGCCTAGGAGCTCTTTTT	59.376	47.619	14.75	0.00	0.00	1.94
2177	5706	5.428253	GAGACAAATGATACCAACTGGCTA	58.572	41.667	0.00	0.00	39.32	3.93
2263	5792	2.105477	TCATTAGCCTCTGAATCCTGGC	59.895	50.000	0.00	0.00	45.21	4.85
2537	6067	5.259832	ACGAGCTAAGGTACAAGTTATCC	57.740	43.478	0.00	0.00	0.00	2.59
2917	6447	5.573337	ATTTCTATTGCTTGCTTCTCCAC	57.427	39.130	0.00	0.00	0.00	4.02
3053	6583	8.291032	CCAATTTGCTGCTCAAAATATTTCAAA	58.709	29.630	0.10	6.33	46.60	2.69
3163	6698	3.601443	AGAAGTTGGACGAGATCTTGG	57.399	47.619	14.65	4.16	0.00	3.61
3188	6723	4.930696	TGACTAGTGATGGTTGAGTAGGA	58.069	43.478	0.00	0.00	0.00	2.94
3322	6857	4.940046	GCTTCTTGTTCAGATCATCTGGAA	59.060	41.667	14.96	8.65	44.39	3.53
3485	7021	9.753674	AGGGAGTTAAATGTTATTCTCATTTCA	57.246	29.630	7.07	0.00	42.21	2.69
3535	7071	3.592059	GGTAGGTTTCATGTGCTCGTAA	58.408	45.455	0.00	0.00	0.00	3.18
3850	7386	3.885484	AACGATGTTGAAACAGAGCAG	57.115	42.857	1.94	0.00	43.04	4.24
4053	7589	6.015918	TGACATAGTTTGATTGGGGAATGTT	58.984	36.000	0.00	0.00	0.00	2.71
4103	7639	6.541969	TGATCATTTGTTACAACTGCGTATG	58.458	36.000	10.05	5.01	0.00	2.39
4111	7647	7.197071	TGTTACAACTGCGTATGAGAAAAAT	57.803	32.000	0.00	0.00	0.00	1.82
4154	7690	2.645838	TGCCCAATCTCTTATCTGGC	57.354	50.000	0.00	0.00	37.90	4.85
4155	7691	2.130193	TGCCCAATCTCTTATCTGGCT	58.870	47.619	0.00	0.00	38.23	4.75
4264	7800	6.634805	TGAAGCAACCAAGTTACATTTTGAA	58.365	32.000	0.00	0.00	0.00	2.69
4365	7901	5.361427	TCTGAATGTTTCCGTCTGTTGTTA	58.639	37.500	0.00	0.00	0.00	2.41
4402	7938	0.521735	GTGATGTTGCCGTTCCCTTC	59.478	55.000	0.00	0.00	0.00	3.46
4472	8008	6.037830	ACGGTCATTATCCCAACGAATTTTAG	59.962	38.462	0.00	0.00	0.00	1.85
4531	8067	4.895961	ACCTCAAGTTTAGTAGCTCAACC	58.104	43.478	0.00	0.00	0.00	3.77
4584	8120	4.574599	ACAGCATCTTTGTGGTTCTTTC	57.425	40.909	0.00	0.00	0.00	2.62
4660	8196	8.325787	TGCCATTTGGAGTAAAATCTACTTCTA	58.674	33.333	0.00	0.00	37.39	2.10
4714	8250	9.096823	TCCAACTAGTTTCCTGAGTAGAATTTA	57.903	33.333	5.07	0.00	0.00	1.40
4715	8251	9.720769	CCAACTAGTTTCCTGAGTAGAATTTAA	57.279	33.333	5.07	0.00	0.00	1.52
4786	8322	1.330655	TACAGAGCTGCTAGCCCACC	61.331	60.000	13.29	0.00	43.77	4.61
4794	8330	2.760650	GCTGCTAGCCCACCTTTATTTT	59.239	45.455	13.29	0.00	34.48	1.82
4949	8485	7.257790	TCTTAATCAGAATGTCCCAGAAGAA	57.742	36.000	0.00	0.00	37.40	2.52
5029	8565	7.830739	ACTGATTCTTGAAAGTTCAAAACTGT	58.169	30.769	7.80	6.81	45.61	3.55
5039	8575	8.410141	TGAAAGTTCAAAACTGTATAAGTTGGG	58.590	33.333	0.00	0.00	41.91	4.12
5314	8850	3.817647	CCCTCTAAGATTGCCAAGCATAC	59.182	47.826	0.00	0.00	38.76	2.39
5338	8874	2.645797	TCCCTCCGTCCCAAAATAAGTT	59.354	45.455	0.00	0.00	0.00	2.66
5401	8937	6.635030	AGTTGAGACACTTATTTTGGAACC	57.365	37.500	0.00	0.00	0.00	3.62
5434	8970	5.944007	ACTTGACAAGTGGTAAACAAGAAGT	59.056	36.000	19.96	0.00	41.01	3.01
5512	9048	9.679661	AATTGAATTTGACCAAGGTTTAAAAGT	57.320	25.926	0.00	0.00	0.00	2.66
6124	9661	6.531594	TCTTCAGAGTTGATGTAGCAAATACG	59.468	38.462	0.00	0.00	37.17	3.06
6717	10255	1.203137	TCTCAGGTTTTCCCCGAGAGA	60.203	52.381	0.00	0.00	41.29	3.10
7058	10596	7.125811	AGCTACCATCTTAGGTAAACTGAATCA	59.874	37.037	0.00	0.00	43.24	2.57
7154	10692	7.651304	TGTAGTTTCCTGCAATAAAATGTGTTG	59.349	33.333	4.23	0.00	29.69	3.33
7447	10987	9.685276	ATTCATGATTCATGGTTGAACTTACTA	57.315	29.630	23.07	0.17	44.36	1.82
8296	11837	7.119116	ACAGATTGCTACAACATTCGTCAATTA	59.881	33.333	0.00	0.00	0.00	1.40
8383	11924	4.543590	TTTTTGTTGGGAGCAAACAGAA	57.456	36.364	0.00	0.00	38.67	3.02
8624	12173	7.041644	TCGTTGAGTTATTTGGTACTTCCTTTG	60.042	37.037	0.00	0.00	37.07	2.77
8795	12371	6.044682	GCTGTGCTAATCCTAATGCAAAAAT	58.955	36.000	0.00	0.00	37.17	1.82
9095	12808	1.280746	GTCCTTGTCGTCGTCGTCA	59.719	57.895	1.33	0.00	38.33	4.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
96	98	2.029290	AGAGTAAAAGCGATCCACACGT	60.029	45.455	0.00	0.00	0.00	4.49
156	160	0.943835	CATTATCATCGTCGCCGCCA	60.944	55.000	0.00	0.00	0.00	5.69
171	175	8.908786	ATCCGAAGAATCTTTATTCAGCATTA	57.091	30.769	0.00	0.00	43.44	1.90
326	335	4.927782	ACGCTGGAGCAAACGCCA	62.928	61.111	0.00	0.00	44.33	5.69
429	3858	1.292223	CCATCCACGAACCACGAGT	59.708	57.895	0.00	0.00	45.77	4.18
511	3940	2.194597	GGCAACACCCCAGACACA	59.805	61.111	0.00	0.00	0.00	3.72
814	4243	1.229428	AAGAACTGTCACGGTGCATG	58.771	50.000	2.51	0.00	0.00	4.06
815	4244	2.831685	TAAGAACTGTCACGGTGCAT	57.168	45.000	2.51	0.00	0.00	3.96
816	4245	2.605837	TTAAGAACTGTCACGGTGCA	57.394	45.000	2.51	4.28	0.00	4.57
817	4246	4.435651	GCTTATTAAGAACTGTCACGGTGC	60.436	45.833	7.63	0.00	0.00	5.01
818	4247	4.929808	AGCTTATTAAGAACTGTCACGGTG	59.070	41.667	7.63	0.56	0.00	4.94
819	4248	5.148651	AGCTTATTAAGAACTGTCACGGT	57.851	39.130	7.63	0.00	0.00	4.83
820	4249	6.757010	ACATAGCTTATTAAGAACTGTCACGG	59.243	38.462	7.63	0.00	0.00	4.94
821	4250	7.757097	ACATAGCTTATTAAGAACTGTCACG	57.243	36.000	7.63	0.00	0.00	4.35
822	4251	9.582431	TGTACATAGCTTATTAAGAACTGTCAC	57.418	33.333	7.63	6.53	0.00	3.67
838	4267	8.417884	GTCCTCTTCTCTAAAATGTACATAGCT	58.582	37.037	9.21	0.00	0.00	3.32
842	4271	6.043411	GCGTCCTCTTCTCTAAAATGTACAT	58.957	40.000	1.41	1.41	0.00	2.29
851	4280	2.492484	GTCAAGGCGTCCTCTTCTCTAA	59.508	50.000	0.00	0.00	30.89	2.10
852	4281	2.093106	GTCAAGGCGTCCTCTTCTCTA	58.907	52.381	0.00	0.00	30.89	2.43
1492	4932	7.463648	CGTCGGGCTTAATTATAATTCGTATGG	60.464	40.741	13.95	2.68	0.00	2.74
1604	5045	2.005451	CCACGAAGAATTCTCCAGCAG	58.995	52.381	8.78	0.00	44.75	4.24
1612	5053	4.441087	GCACAAAGAAACCACGAAGAATTC	59.559	41.667	0.00	0.00	43.09	2.17
1620	5061	1.021202	TCCAGCACAAAGAAACCACG	58.979	50.000	0.00	0.00	0.00	4.94
1939	5404	3.699538	TCATGTGCTTACGTGAGATAGGT	59.300	43.478	12.13	0.00	32.47	3.08
1963	5428	0.710567	CGTGCGCTTAAGAGTGTCTG	59.289	55.000	9.73	0.00	35.79	3.51
2069	5598	1.284657	CGCTAGGTGACAGCAGAATG	58.715	55.000	7.50	0.00	39.04	2.67
2106	5635	1.267121	AAAAGAGCTCCTAGGCGTGA	58.733	50.000	10.93	0.00	37.29	4.35
2107	5636	2.100605	AAAAAGAGCTCCTAGGCGTG	57.899	50.000	10.93	0.00	37.29	5.34
2143	5672	4.163441	TCATTTGTCTCCACAAGGAACA	57.837	40.909	0.00	0.00	45.19	3.18
2177	5706	1.338864	CCAGCTTCTGACTGTGCAGAT	60.339	52.381	6.17	0.00	43.84	2.90
2263	5792	9.643693	AGTCACCAAATTGCAAAAGAAATATAG	57.356	29.630	1.71	0.00	0.00	1.31
3163	6698	6.096987	TCCTACTCAACCATCACTAGTCATTC	59.903	42.308	0.00	0.00	0.00	2.67
3188	6723	9.668497	GGAATAAAGAGATGGTAACTACAAAGT	57.332	33.333	0.00	0.00	37.65	2.66
3485	7021	3.128242	CAGCAAAATGCCGAGATCTTCTT	59.872	43.478	0.00	0.00	46.52	2.52
3535	7071	6.497624	AGAAGATCCAGAAATATGCAGTCT	57.502	37.500	0.00	0.00	0.00	3.24
3850	7386	6.587273	ACCAGCTTCCTCTTCAAATACTATC	58.413	40.000	0.00	0.00	0.00	2.08
4024	7560	7.880160	TCCCCAATCAAACTATGTCATTTAG	57.120	36.000	0.00	0.00	0.00	1.85
4111	7647	8.664798	GCAAACATACAGATAAGACACAACATA	58.335	33.333	0.00	0.00	0.00	2.29
4365	7901	4.011966	TCACAGCAGAATCATCACTGTT	57.988	40.909	0.00	0.00	40.93	3.16
4531	8067	6.195244	GCAATTAATCTTATGCACAACAGTCG	59.805	38.462	5.21	0.00	38.63	4.18
4584	8120	2.100989	AGTAAGAGTACTTGGGAGCGG	58.899	52.381	0.00	0.00	37.25	5.52
4794	8330	2.745281	GGCGATGGTTAGCTGTACAAAA	59.255	45.455	0.00	0.00	0.00	2.44
4812	8348	3.941483	AGTCATATTGAGGACAAAAGGCG	59.059	43.478	0.00	0.00	38.88	5.52
4949	8485	5.251764	CAGTGGATGAATCTCAGTTTCCTT	58.748	41.667	0.00	0.00	0.00	3.36
5023	8559	5.578157	ACAGACCCCAACTTATACAGTTT	57.422	39.130	0.00	0.00	43.89	2.66
5029	8565	5.629133	GCAGATGAACAGACCCCAACTTATA	60.629	44.000	0.00	0.00	0.00	0.98
5039	8575	6.690194	AAATCATTAGCAGATGAACAGACC	57.310	37.500	6.17	0.00	39.33	3.85
5314	8850	0.328258	ATTTTGGGACGGAGGGAGTG	59.672	55.000	0.00	0.00	0.00	3.51
5401	8937	2.352814	CCACTTGTCAAGTACTCCCTCG	60.353	54.545	17.76	3.48	40.46	4.63
5484	9020	9.672673	TTTTAAACCTTGGTCAAATTCAATTGA	57.327	25.926	3.38	3.38	36.99	2.57
5512	9048	8.087750	GTGGTTCATGATTTTTCCATAAACAGA	58.912	33.333	0.00	0.00	0.00	3.41
6099	9636	6.531594	CGTATTTGCTACATCAACTCTGAAGA	59.468	38.462	0.00	0.00	34.49	2.87
6100	9637	6.311445	ACGTATTTGCTACATCAACTCTGAAG	59.689	38.462	0.00	0.00	34.49	3.02
6138	9676	6.323739	ACAACCAAATTAACACTCCATTGTCT	59.676	34.615	0.00	0.00	0.00	3.41
6717	10255	1.351350	GTAGCCTTCCACTTCCCTTGT	59.649	52.381	0.00	0.00	0.00	3.16
6882	10420	0.673644	CCACTTACCACAAGAGCCCG	60.674	60.000	0.00	0.00	0.00	6.13
7010	10548	1.140652	TCATCACCAGCTGTTGTCACA	59.859	47.619	13.81	0.00	0.00	3.58
7058	10596	8.325787	TGTCATAACCAACTGAAGTATAACCAT	58.674	33.333	0.00	0.00	0.00	3.55
7154	10692	7.122055	TGGGGAACTGTGAATTAACATGAATAC	59.878	37.037	0.00	0.00	0.00	1.89
7399	10937	1.334054	AAAGAACTACGTACGCTGCG	58.666	50.000	21.91	21.91	0.00	5.18
7447	10987	6.863126	GCAAGCTGTAAGTACAACATCAAAAT	59.137	34.615	0.00	0.00	35.50	1.82
8296	11837	1.234821	ACACGCACGATGAAACCAAT	58.765	45.000	0.00	0.00	0.00	3.16
8383	11924	3.011032	ACAAAGGCCTCCAAGAATGATCT	59.989	43.478	5.23	0.00	37.57	2.75
8624	12173	2.204237	CAAACAAACAAAGAGGCTGCC	58.796	47.619	11.65	11.65	0.00	4.85
8795	12371	6.708502	TGTTTATTCAACTGCTACTGCACTTA	59.291	34.615	0.00	0.00	44.46	2.24
8889	12472	6.978080	GCACTCCAACTTTTCATTCAGTTAAA	59.022	34.615	0.00	0.00	31.78	1.52
8890	12473	6.321181	AGCACTCCAACTTTTCATTCAGTTAA	59.679	34.615	0.00	0.00	31.78	2.01
8891	12474	5.827797	AGCACTCCAACTTTTCATTCAGTTA	59.172	36.000	0.00	0.00	31.78	2.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.