AutoCloner

Multiple sequence alignment - TraesCS3D01G407700

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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	TraesCS3D01G407700	chr3D	100.000	3128	0	0	1	3128	520861751	520864878	0.000000e+00	5777.0
1	TraesCS3D01G407700	chr3D	83.791	1820	158	74	629	2372	520823825	520825583	0.000000e+00	1600.0
2	TraesCS3D01G407700	chr3D	81.391	532	79	14	2607	3128	373840188	373839667	1.740000e-112	416.0
3	TraesCS3D01G407700	chr3D	75.758	693	140	21	1397	2081	454219617	454220289	1.080000e-84	324.0
4	TraesCS3D01G407700	chr3B	92.646	2230	80	33	264	2441	686523715	686525912	0.000000e+00	3133.0
5	TraesCS3D01G407700	chr3B	83.316	1966	180	87	482	2363	686491597	686493498	0.000000e+00	1677.0
6	TraesCS3D01G407700	chr3B	88.245	621	44	13	2512	3128	686526082	686526677	0.000000e+00	715.0
7	TraesCS3D01G407700	chr3B	79.297	512	81	16	2565	3067	405432754	405433249	5.000000e-88	335.0
8	TraesCS3D01G407700	chr3B	94.737	209	9	2	1	208	686523416	686523623	1.080000e-84	324.0
9	TraesCS3D01G407700	chr3A	94.229	1473	51	18	967	2435	656423893	656425335	0.000000e+00	2218.0
10	TraesCS3D01G407700	chr3A	92.375	1377	58	28	967	2334	656254243	656255581	0.000000e+00	1917.0
11	TraesCS3D01G407700	chr3A	84.558	1755	153	63	640	2318	656134429	656136141	0.000000e+00	1631.0
12	TraesCS3D01G407700	chr3A	92.756	704	23	11	245	924	656253546	656254245	0.000000e+00	992.0
13	TraesCS3D01G407700	chr3A	89.773	792	49	20	1552	2334	656339249	656340017	0.000000e+00	985.0
14	TraesCS3D01G407700	chr3A	92.436	661	23	10	288	924	656423238	656423895	0.000000e+00	918.0
15	TraesCS3D01G407700	chr3A	91.404	349	12	3	288	620	656338905	656339251	2.200000e-126	462.0
16	TraesCS3D01G407700	chr3A	78.876	516	88	14	2565	3068	117295369	117295875	2.330000e-86	329.0
17	TraesCS3D01G407700	chr3A	75.072	690	145	20	1397	2079	596357498	596358167	2.360000e-76	296.0
18	TraesCS3D01G407700	chr3A	93.289	149	9	1	1	148	656251851	656251999	5.250000e-53	219.0
19	TraesCS3D01G407700	chr3A	95.690	116	5	0	144	259	656253370	656253485	1.480000e-43	187.0
20	TraesCS3D01G407700	chr3A	90.323	62	6	0	3047	3108	117295892	117295953	7.190000e-12	82.4
21	TraesCS3D01G407700	chr7A	83.478	575	78	12	2560	3128	730735826	730735263	1.290000e-143	520.0
22	TraesCS3D01G407700	chrUn	91.404	349	12	3	288	620	478590686	478591032	2.200000e-126	462.0
23	TraesCS3D01G407700	chr2A	80.785	484	72	14	2581	3053	739497677	739498150	2.970000e-95	359.0
24	TraesCS3D01G407700	chr2D	80.457	481	74	13	2598	3068	608012472	608012942	1.790000e-92	350.0
25	TraesCS3D01G407700	chr2B	79.757	494	77	16	2585	3068	741257491	741257971	1.390000e-88	337.0
26	TraesCS3D01G407700	chr5D	78.125	512	93	13	2567	3067	395694796	395695299	1.090000e-79	307.0
27	TraesCS3D01G407700	chr5D	74.124	599	112	34	1470	2056	75997828	75997261	1.140000e-49	207.0
28	TraesCS3D01G407700	chr5A	72.325	542	114	28	1472	2004	71453624	71453110	1.510000e-28	137.0

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	TraesCS3D01G407700	chr3D	520861751	520864878	3127	False	5777.000000	5777	100.0000	1	3128	1	chr3D.!!$F3	3127
1	TraesCS3D01G407700	chr3D	520823825	520825583	1758	False	1600.000000	1600	83.7910	629	2372	1	chr3D.!!$F2	1743
2	TraesCS3D01G407700	chr3D	373839667	373840188	521	True	416.000000	416	81.3910	2607	3128	1	chr3D.!!$R1	521
3	TraesCS3D01G407700	chr3D	454219617	454220289	672	False	324.000000	324	75.7580	1397	2081	1	chr3D.!!$F1	684
4	TraesCS3D01G407700	chr3B	686491597	686493498	1901	False	1677.000000	1677	83.3160	482	2363	1	chr3B.!!$F2	1881
5	TraesCS3D01G407700	chr3B	686523416	686526677	3261	False	1390.666667	3133	91.8760	1	3128	3	chr3B.!!$F3	3127
6	TraesCS3D01G407700	chr3A	656134429	656136141	1712	False	1631.000000	1631	84.5580	640	2318	1	chr3A.!!$F2	1678
7	TraesCS3D01G407700	chr3A	656423238	656425335	2097	False	1568.000000	2218	93.3325	288	2435	2	chr3A.!!$F6	2147
8	TraesCS3D01G407700	chr3A	656251851	656255581	3730	False	828.750000	1917	93.5275	1	2334	4	chr3A.!!$F4	2333
9	TraesCS3D01G407700	chr3A	656338905	656340017	1112	False	723.500000	985	90.5885	288	2334	2	chr3A.!!$F5	2046
10	TraesCS3D01G407700	chr3A	596357498	596358167	669	False	296.000000	296	75.0720	1397	2079	1	chr3A.!!$F1	682
11	TraesCS3D01G407700	chr3A	117295369	117295953	584	False	205.700000	329	84.5995	2565	3108	2	chr3A.!!$F3	543
12	TraesCS3D01G407700	chr7A	730735263	730735826	563	True	520.000000	520	83.4780	2560	3128	1	chr7A.!!$R1	568
13	TraesCS3D01G407700	chr5D	395694796	395695299	503	False	307.000000	307	78.1250	2567	3067	1	chr5D.!!$F1	500
14	TraesCS3D01G407700	chr5D	75997261	75997828	567	True	207.000000	207	74.1240	1470	2056	1	chr5D.!!$R1	586

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
253	1787	0.396001	TGGACGATGGATCCACGGTA	60.396	55.0	28.35	17.17	41.47	4.02	F
801	2441	0.520847	GGTCTGCTTCTGCTTGCTTC	59.479	55.0	0.00	0.00	40.48	3.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1360	3059	0.034896	GCGTACATGAATCCGGGGAT	59.965	55.0	0.00	0.0	36.23	3.85	R
2786	4652	0.318360	TATTGCTACCGCGTCCATCG	60.318	55.0	4.92	0.0	39.65	3.84	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
77	79	5.106442	GGTGTTTCCTTGTGTACCAAAAAG	58.894	41.667	0.00	0.00	31.20	2.27
78	80	4.565166	GTGTTTCCTTGTGTACCAAAAAGC	59.435	41.667	0.00	0.00	31.20	3.51
117	119	2.582202	ATCGAATTTGCTGGTGCGCG	62.582	55.000	0.00	0.00	43.34	6.86
247	1781	1.656652	CAACAGTGGACGATGGATCC	58.343	55.000	4.20	4.20	36.70	3.36
248	1782	1.066215	CAACAGTGGACGATGGATCCA	60.066	52.381	18.88	18.88	44.20	3.41
251	1785	3.216237	TGGACGATGGATCCACGG	58.784	61.111	28.35	21.14	41.47	4.94
252	1786	1.684391	TGGACGATGGATCCACGGT	60.684	57.895	28.35	23.56	41.47	4.83
253	1787	0.396001	TGGACGATGGATCCACGGTA	60.396	55.000	28.35	17.17	41.47	4.02
254	1788	0.966920	GGACGATGGATCCACGGTAT	59.033	55.000	28.35	12.06	36.15	2.73
255	1789	2.165167	GGACGATGGATCCACGGTATA	58.835	52.381	28.35	5.14	36.15	1.47
256	1790	2.758979	GGACGATGGATCCACGGTATAT	59.241	50.000	28.35	14.99	36.15	0.86
257	1791	3.181489	GGACGATGGATCCACGGTATATC	60.181	52.174	28.35	19.96	36.15	1.63
258	1792	2.758979	ACGATGGATCCACGGTATATCC	59.241	50.000	28.35	11.96	39.76	2.59
323	1860	2.171840	TGACACTTGAGAGAGGTAGGC	58.828	52.381	0.00	0.00	0.00	3.93
474	2051	1.007387	TCGTCATCCGCCATGATCG	60.007	57.895	0.00	0.00	43.72	3.69
475	2052	1.007387	CGTCATCCGCCATGATCGA	60.007	57.895	8.56	0.00	43.72	3.59
565	2144	0.867753	CAGCAGACTATCACGGCGAC	60.868	60.000	16.62	0.00	34.06	5.19
712	2317	0.534412	CCCGAGCAGAATCTGACACT	59.466	55.000	15.38	1.14	32.44	3.55
783	2408	1.433064	CCGCAAACCAATCCATCGG	59.567	57.895	0.00	0.00	0.00	4.18
801	2441	0.520847	GGTCTGCTTCTGCTTGCTTC	59.479	55.000	0.00	0.00	40.48	3.86
828	2475	1.026718	TCTCAGTGCTGCTCGATCGA	61.027	55.000	18.32	18.32	0.00	3.59
829	2476	0.591994	CTCAGTGCTGCTCGATCGAG	60.592	60.000	35.25	35.25	44.56	4.04
905	2568	1.016130	CACACTCCAAGCTAGCCACG	61.016	60.000	12.13	0.00	0.00	4.94
979	2654	3.638160	TCGTGGTACTGAACTAGTTTGGT	59.362	43.478	10.02	13.38	40.89	3.67
1031	2706	1.583477	GCAAGAAGCTTCTGGTGGC	59.417	57.895	29.09	23.65	41.15	5.01
1032	2707	1.871772	CAAGAAGCTTCTGGTGGCG	59.128	57.895	29.09	10.20	37.65	5.69
1033	2708	0.886490	CAAGAAGCTTCTGGTGGCGT	60.886	55.000	29.09	9.25	37.65	5.68
1034	2709	0.603975	AAGAAGCTTCTGGTGGCGTC	60.604	55.000	29.09	0.00	37.65	5.19
1035	2710	2.032681	AAGCTTCTGGTGGCGTCC	59.967	61.111	0.00	0.00	0.00	4.79
1036	2711	2.731691	GAAGCTTCTGGTGGCGTCCA	62.732	60.000	19.44	1.54	36.00	4.02
1650	3349	4.015406	AACGGCGGGCTCATCACA	62.015	61.111	13.24	0.00	0.00	3.58
1956	3664	4.510038	GTACTGGACGGTAAAGAACTCA	57.490	45.455	0.00	0.00	0.00	3.41
2149	3868	0.387202	ACTGATCGATCCTTCTGCGG	59.613	55.000	22.31	4.21	0.00	5.69
2353	4082	6.594159	ACACTGCCAGTAATAGTGTATGAAAC	59.406	38.462	7.41	0.00	41.24	2.78
2391	4120	5.481824	TGTGTATTCTGTTCAGAGATGGAGT	59.518	40.000	2.77	0.00	0.00	3.85
2441	4172	2.279935	TTTGCGGGTAAGGTCACATT	57.720	45.000	0.00	0.00	0.00	2.71
2442	4173	2.279935	TTGCGGGTAAGGTCACATTT	57.720	45.000	0.00	0.00	0.00	2.32
2444	4175	2.588620	TGCGGGTAAGGTCACATTTTT	58.411	42.857	0.00	0.00	0.00	1.94
2465	4196	5.777526	TTTTAAGGGATTACGGGTAAGGT	57.222	39.130	0.00	0.00	0.00	3.50
2466	4197	5.357742	TTTAAGGGATTACGGGTAAGGTC	57.642	43.478	0.00	0.00	0.00	3.85
2467	4198	2.555732	AGGGATTACGGGTAAGGTCA	57.444	50.000	0.00	0.00	0.00	4.02
2468	4199	2.113807	AGGGATTACGGGTAAGGTCAC	58.886	52.381	0.00	0.00	0.00	3.67
2469	4200	1.832998	GGGATTACGGGTAAGGTCACA	59.167	52.381	0.00	0.00	0.00	3.58
2478	4209	2.224917	GGGTAAGGTCACATGGTTTGGA	60.225	50.000	0.00	0.00	0.00	3.53
2497	4228	3.017442	GGACTGAAAAGATAGTTGGGCC	58.983	50.000	0.00	0.00	0.00	5.80
2549	4405	0.257039	CCTTTCAGGCCCACTAGCAT	59.743	55.000	0.00	0.00	0.00	3.79
2551	4407	0.991146	TTTCAGGCCCACTAGCATCA	59.009	50.000	0.00	0.00	0.00	3.07
2558	4414	2.619074	GGCCCACTAGCATCAAAGAAGT	60.619	50.000	0.00	0.00	0.00	3.01
2563	4419	2.028112	ACTAGCATCAAAGAAGTGCGGA	60.028	45.455	0.00	0.00	43.37	5.54
2589	4445	2.989909	TGACCGTCTCCGTCTGTATTA	58.010	47.619	0.00	0.00	0.00	0.98
2600	4457	8.969267	GTCTCCGTCTGTATTATGTCAAAATAG	58.031	37.037	0.00	0.00	0.00	1.73
2640	4499	9.931210	GTGTATTACGGGAGAAAATAAAATGAG	57.069	33.333	0.00	0.00	0.00	2.90
2653	4512	9.631452	GAAAATAAAATGAGAAGGAGAACAAGG	57.369	33.333	0.00	0.00	0.00	3.61
2661	4520	8.789767	ATGAGAAGGAGAACAAGGATTCTATA	57.210	34.615	0.00	0.00	39.08	1.31
2679	4543	7.941053	TTCTATATTTACCCCATGTGTAGGT	57.059	36.000	0.00	0.00	37.69	3.08
2742	4606	7.891498	AAACCGACTGGCCTATTAATATTTT	57.109	32.000	3.32	0.00	39.70	1.82
2769	4634	6.672593	TCATAAGCACATATTTTCCCCTTCT	58.327	36.000	0.00	0.00	0.00	2.85
2831	4697	9.818270	ATGTATTTGGATTCATTCTCATATGGT	57.182	29.630	2.13	0.00	0.00	3.55
2852	4718	5.221702	TGGTCTGATTGATCAACAGTGAGAA	60.222	40.000	24.59	11.82	37.14	2.87
2914	4786	3.733443	ACATTTCTTGTCCAGTTTGCC	57.267	42.857	0.00	0.00	30.89	4.52
3053	4928	5.130809	CCCCAAATCCATCATGGTGTAAAAT	59.869	40.000	2.79	0.00	39.03	1.82

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
77	79	5.006165	CGATCAGAAATTAGTCCACTCTTGC	59.994	44.000	0.00	0.00	0.00	4.01
78	80	6.333416	TCGATCAGAAATTAGTCCACTCTTG	58.667	40.000	0.00	0.00	0.00	3.02
117	119	6.977213	ACATAATTTGTTGTTGTCTACCACC	58.023	36.000	0.00	0.00	33.74	4.61
250	1784	6.378582	CATTTTTACCATGCACGGATATACC	58.621	40.000	5.45	0.00	0.00	2.73
251	1785	5.856455	GCATTTTTACCATGCACGGATATAC	59.144	40.000	5.45	0.00	45.50	1.47
252	1786	6.007936	GCATTTTTACCATGCACGGATATA	57.992	37.500	5.45	0.00	45.50	0.86
253	1787	4.870363	GCATTTTTACCATGCACGGATAT	58.130	39.130	5.45	0.00	45.50	1.63
254	1788	4.300189	GCATTTTTACCATGCACGGATA	57.700	40.909	5.45	0.00	45.50	2.59
255	1789	3.163630	GCATTTTTACCATGCACGGAT	57.836	42.857	5.45	0.00	45.50	4.18
256	1790	2.645730	GCATTTTTACCATGCACGGA	57.354	45.000	5.45	0.00	45.50	4.69
261	1795	4.571984	GGAGAATTGGCATTTTTACCATGC	59.428	41.667	0.00	0.00	45.47	4.06
262	1796	5.981174	AGGAGAATTGGCATTTTTACCATG	58.019	37.500	0.00	0.00	35.42	3.66
263	1797	7.732222	TTAGGAGAATTGGCATTTTTACCAT	57.268	32.000	0.00	0.00	35.42	3.55
264	1798	7.732222	ATTAGGAGAATTGGCATTTTTACCA	57.268	32.000	0.00	0.00	0.00	3.25
265	1799	9.529325	GTAATTAGGAGAATTGGCATTTTTACC	57.471	33.333	0.00	0.00	0.00	2.85
268	1802	8.815912	ACTGTAATTAGGAGAATTGGCATTTTT	58.184	29.630	0.00	0.00	0.00	1.94
323	1860	2.871427	GCGGTATTGCTCGCCTTCG	61.871	63.158	0.00	0.00	45.42	3.79
474	2051	4.720649	TGCAGTTACTGGTGATACTCTC	57.279	45.455	14.63	0.00	31.21	3.20
475	2052	4.959210	AGATGCAGTTACTGGTGATACTCT	59.041	41.667	14.63	0.00	31.21	3.24
565	2144	1.065273	CCTACGTCGTTGGATCGGG	59.935	63.158	19.47	0.48	30.33	5.14
712	2317	1.260538	ACAGAATGCTGAGCGGAGGA	61.261	55.000	8.02	0.00	45.17	3.71
783	2408	0.520847	GGAAGCAAGCAGAAGCAGAC	59.479	55.000	0.00	0.00	45.49	3.51
801	2441	0.240411	GCAGCACTGAGAAGCTTTGG	59.760	55.000	0.00	0.00	39.50	3.28
828	2475	0.182061	TATAGGTCGGGTCGTCAGCT	59.818	55.000	0.00	0.00	0.00	4.24
829	2476	1.027357	TTATAGGTCGGGTCGTCAGC	58.973	55.000	0.00	0.00	0.00	4.26
924	2587	2.029288	CGTGGTAGTGCACTGCTGG	61.029	63.158	30.10	17.47	0.00	4.85
979	2654	1.596260	CGTGCTAGCTGCTACGTACTA	59.404	52.381	17.23	0.00	43.37	1.82
1025	2700	4.343323	CCACCATGGACGCCACCA	62.343	66.667	21.47	0.00	40.96	4.17
1360	3059	0.034896	GCGTACATGAATCCGGGGAT	59.965	55.000	0.00	0.00	36.23	3.85
1650	3349	4.802051	TACGGGTACGCGGCCTCT	62.802	66.667	31.94	15.91	46.04	3.69
1699	3398	4.475135	GGAGTTCTGGGCCGCTCC	62.475	72.222	16.59	16.59	40.39	4.70
1947	3655	1.000896	CGGCCCCCATGAGTTCTTT	60.001	57.895	0.00	0.00	0.00	2.52
2207	3928	5.003804	ACGCAGAACCACTTAATTCAATCT	58.996	37.500	0.00	0.00	0.00	2.40
2264	3986	1.130749	GATATCGATCGACCTGGTCCG	59.869	57.143	22.06	17.60	0.00	4.79
2329	4058	6.037172	GGTTTCATACACTATTACTGGCAGTG	59.963	42.308	29.65	15.33	44.20	3.66
2372	4101	6.351711	CCACTTACTCCATCTCTGAACAGAAT	60.352	42.308	6.01	1.12	36.94	2.40
2373	4102	5.047021	CCACTTACTCCATCTCTGAACAGAA	60.047	44.000	6.01	0.00	36.94	3.02
2442	4173	6.138391	ACCTTACCCGTAATCCCTTAAAAA	57.862	37.500	0.00	0.00	0.00	1.94
2444	4175	4.782156	TGACCTTACCCGTAATCCCTTAAA	59.218	41.667	0.00	0.00	0.00	1.52
2445	4176	4.162131	GTGACCTTACCCGTAATCCCTTAA	59.838	45.833	0.00	0.00	0.00	1.85
2446	4177	3.706086	GTGACCTTACCCGTAATCCCTTA	59.294	47.826	0.00	0.00	0.00	2.69
2447	4178	2.502947	GTGACCTTACCCGTAATCCCTT	59.497	50.000	0.00	0.00	0.00	3.95
2448	4179	2.113807	GTGACCTTACCCGTAATCCCT	58.886	52.381	0.00	0.00	0.00	4.20
2449	4180	1.832998	TGTGACCTTACCCGTAATCCC	59.167	52.381	0.00	0.00	0.00	3.85
2450	4181	3.463944	CATGTGACCTTACCCGTAATCC	58.536	50.000	0.00	0.00	0.00	3.01
2451	4182	3.118519	ACCATGTGACCTTACCCGTAATC	60.119	47.826	0.00	0.00	0.00	1.75
2452	4183	2.841881	ACCATGTGACCTTACCCGTAAT	59.158	45.455	0.00	0.00	0.00	1.89
2453	4184	2.259012	ACCATGTGACCTTACCCGTAA	58.741	47.619	0.00	0.00	0.00	3.18
2454	4185	1.941377	ACCATGTGACCTTACCCGTA	58.059	50.000	0.00	0.00	0.00	4.02
2455	4186	1.061546	AACCATGTGACCTTACCCGT	58.938	50.000	0.00	0.00	0.00	5.28
2456	4187	1.810151	CAAACCATGTGACCTTACCCG	59.190	52.381	0.00	0.00	0.00	5.28
2457	4188	2.167662	CCAAACCATGTGACCTTACCC	58.832	52.381	0.00	0.00	0.00	3.69
2458	4189	2.817844	GTCCAAACCATGTGACCTTACC	59.182	50.000	0.00	0.00	0.00	2.85
2459	4190	3.502211	CAGTCCAAACCATGTGACCTTAC	59.498	47.826	0.00	0.00	32.69	2.34
2460	4191	3.392947	TCAGTCCAAACCATGTGACCTTA	59.607	43.478	0.00	0.00	32.69	2.69
2461	4192	2.174639	TCAGTCCAAACCATGTGACCTT	59.825	45.455	0.00	0.00	32.69	3.50
2462	4193	1.774254	TCAGTCCAAACCATGTGACCT	59.226	47.619	0.00	0.00	32.69	3.85
2463	4194	2.270352	TCAGTCCAAACCATGTGACC	57.730	50.000	0.00	0.00	32.69	4.02
2464	4195	4.338118	TCTTTTCAGTCCAAACCATGTGAC	59.662	41.667	0.00	0.00	32.53	3.67
2465	4196	4.531854	TCTTTTCAGTCCAAACCATGTGA	58.468	39.130	0.00	0.00	0.00	3.58
2466	4197	4.916983	TCTTTTCAGTCCAAACCATGTG	57.083	40.909	0.00	0.00	0.00	3.21
2467	4198	6.306987	ACTATCTTTTCAGTCCAAACCATGT	58.693	36.000	0.00	0.00	0.00	3.21
2468	4199	6.824305	ACTATCTTTTCAGTCCAAACCATG	57.176	37.500	0.00	0.00	0.00	3.66
2469	4200	6.209391	CCAACTATCTTTTCAGTCCAAACCAT	59.791	38.462	0.00	0.00	0.00	3.55
2478	4209	2.039879	ACGGCCCAACTATCTTTTCAGT	59.960	45.455	0.00	0.00	0.00	3.41
2497	4228	3.628487	TCCCAAGTAAAGGACAAAACACG	59.372	43.478	0.00	0.00	0.00	4.49
2549	4405	1.302511	GGGCTCCGCACTTCTTTGA	60.303	57.895	0.00	0.00	0.00	2.69
2551	4407	0.962356	CATGGGCTCCGCACTTCTTT	60.962	55.000	0.00	0.00	30.56	2.52
2575	4431	8.141909	CCTATTTTGACATAATACAGACGGAGA	58.858	37.037	0.00	0.00	0.00	3.71
2576	4432	7.095607	GCCTATTTTGACATAATACAGACGGAG	60.096	40.741	5.57	0.00	0.00	4.63
2589	4445	7.933033	ACATTGTTTTCTTGCCTATTTTGACAT	59.067	29.630	0.00	0.00	0.00	3.06
2600	4457	5.571357	CCGTAATACACATTGTTTTCTTGCC	59.429	40.000	0.00	0.00	0.00	4.52
2653	4512	8.603304	ACCTACACATGGGGTAAATATAGAATC	58.397	37.037	0.00	0.00	0.00	2.52
2661	4520	5.987019	ACATACCTACACATGGGGTAAAT	57.013	39.130	0.00	0.00	38.80	1.40
2712	4576	5.425196	AATAGGCCAGTCGGTTTACTTAA	57.575	39.130	5.01	0.00	33.28	1.85
2713	4577	6.543430	TTAATAGGCCAGTCGGTTTACTTA	57.457	37.500	5.01	0.00	33.28	2.24
2714	4578	3.994931	AATAGGCCAGTCGGTTTACTT	57.005	42.857	5.01	0.00	33.28	2.24
2742	4606	7.732222	AGGGGAAAATATGTGCTTATGAAAA	57.268	32.000	0.00	0.00	0.00	2.29
2786	4652	0.318360	TATTGCTACCGCGTCCATCG	60.318	55.000	4.92	0.00	39.65	3.84
2831	4697	5.857268	TGTTCTCACTGTTGATCAATCAGA	58.143	37.500	29.00	17.65	38.19	3.27
2895	4764	2.364970	TGGGCAAACTGGACAAGAAATG	59.635	45.455	0.00	0.00	0.00	2.32

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.