AutoCloner

Multiple sequence alignment - TraesCS2B01G453000

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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	TraesCS2B01G453000	chr2B	100.000	4165	0	0	1	4165	646956199	646960363	0.000000e+00	7692.0
1	TraesCS2B01G453000	chr2B	86.621	1465	160	25	552	1988	646973091	646974547	0.000000e+00	1587.0
2	TraesCS2B01G453000	chr2B	84.817	1258	125	38	2058	3309	646974715	646975912	0.000000e+00	1205.0
3	TraesCS2B01G453000	chr2D	93.317	3965	160	49	1	3939	541471875	541475760	0.000000e+00	5757.0
4	TraesCS2B01G453000	chr2D	86.533	1448	163	22	552	1973	541545199	541546640	0.000000e+00	1565.0
5	TraesCS2B01G453000	chr2D	90.289	484	42	2	2058	2536	541546806	541547289	2.730000e-176	628.0
6	TraesCS2B01G453000	chr2D	91.574	451	33	3	155	602	624268904	624269352	5.920000e-173	617.0
7	TraesCS2B01G453000	chr2D	92.049	327	25	1	2538	2863	541547543	541547869	3.790000e-125	459.0
8	TraesCS2B01G453000	chr2D	80.306	589	74	23	2924	3509	541547877	541548426	1.390000e-109	407.0
9	TraesCS2B01G453000	chr2D	92.593	162	6	2	1	156	624268584	624268745	1.160000e-55	228.0
10	TraesCS2B01G453000	chr2D	97.561	82	2	0	4071	4152	541475776	541475857	1.560000e-29	141.0
11	TraesCS2B01G453000	chr2A	95.401	3631	132	20	1	3604	684887624	684891246	0.000000e+00	5747.0
12	TraesCS2B01G453000	chr2A	85.899	1468	167	23	552	1988	684907591	684909049	0.000000e+00	1528.0
13	TraesCS2B01G453000	chr2A	86.749	1132	116	19	2058	3173	684909216	684910329	0.000000e+00	1229.0
14	TraesCS2B01G453000	chr2A	90.345	725	38	15	3183	3899	108550540	108551240	0.000000e+00	922.0
15	TraesCS2B01G453000	chr2A	89.484	504	35	3	3655	4152	684891261	684891752	4.570000e-174	621.0
16	TraesCS2B01G453000	chr2A	96.429	56	2	0	3070	3125	108550494	108550549	4.430000e-15	93.5
17	TraesCS2B01G453000	chr3A	90.634	726	36	12	3183	3899	670995746	670996448	0.000000e+00	935.0
18	TraesCS2B01G453000	chr3A	90.193	724	38	13	3183	3899	189428189	189427492	0.000000e+00	913.0
19	TraesCS2B01G453000	chr3A	89.931	725	42	12	3183	3899	190073627	190074328	0.000000e+00	905.0
20	TraesCS2B01G453000	chr3A	89.554	718	44	14	3183	3892	18720499	18721193	0.000000e+00	881.0
21	TraesCS2B01G453000	chr3A	96.429	56	2	0	3070	3125	189428235	189428180	4.430000e-15	93.5
22	TraesCS2B01G453000	chr3A	96.429	56	2	0	3070	3125	670995700	670995755	4.430000e-15	93.5
23	TraesCS2B01G453000	chr5B	90.621	725	37	12	3183	3899	343343315	343344016	0.000000e+00	933.0
24	TraesCS2B01G453000	chr7B	90.608	724	37	12	3183	3899	677490515	677489816	0.000000e+00	931.0
25	TraesCS2B01G453000	chr6A	90.616	714	38	10	3193	3899	192012426	192011735	0.000000e+00	920.0
26	TraesCS2B01G453000	chr6B	89.655	725	44	12	3183	3899	67071718	67072419	0.000000e+00	894.0
27	TraesCS2B01G453000	chr6B	88.870	575	47	2	1	575	297544963	297545520	0.000000e+00	691.0
28	TraesCS2B01G453000	chr6B	88.014	292	24	5	3615	3899	269174929	269175216	6.670000e-88	335.0
29	TraesCS2B01G453000	chr6B	96.429	56	2	0	3070	3125	67071672	67071727	4.430000e-15	93.5
30	TraesCS2B01G453000	chr4B	92.727	605	39	3	1	602	193972332	193971730	0.000000e+00	869.0
31	TraesCS2B01G453000	chr1D	79.839	248	34	12	3896	4138	483524428	483524192	2.580000e-37	167.0
32	TraesCS2B01G453000	chr1A	86.441	59	6	2	4096	4152	580437472	580437414	3.480000e-06	63.9

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	TraesCS2B01G453000	chr2B	646956199	646960363	4164	False	7692.00	7692	100.00000	1	4165	1	chr2B.!!$F1	4164
1	TraesCS2B01G453000	chr2B	646973091	646975912	2821	False	1396.00	1587	85.71900	552	3309	2	chr2B.!!$F2	2757
2	TraesCS2B01G453000	chr2D	541471875	541475857	3982	False	2949.00	5757	95.43900	1	4152	2	chr2D.!!$F1	4151
3	TraesCS2B01G453000	chr2D	541545199	541548426	3227	False	764.75	1565	87.29425	552	3509	4	chr2D.!!$F2	2957
4	TraesCS2B01G453000	chr2D	624268584	624269352	768	False	422.50	617	92.08350	1	602	2	chr2D.!!$F3	601
5	TraesCS2B01G453000	chr2A	684887624	684891752	4128	False	3184.00	5747	92.44250	1	4152	2	chr2A.!!$F2	4151
6	TraesCS2B01G453000	chr2A	684907591	684910329	2738	False	1378.50	1528	86.32400	552	3173	2	chr2A.!!$F3	2621
7	TraesCS2B01G453000	chr2A	108550494	108551240	746	False	507.75	922	93.38700	3070	3899	2	chr2A.!!$F1	829
8	TraesCS2B01G453000	chr3A	190073627	190074328	701	False	905.00	905	89.93100	3183	3899	1	chr3A.!!$F2	716
9	TraesCS2B01G453000	chr3A	18720499	18721193	694	False	881.00	881	89.55400	3183	3892	1	chr3A.!!$F1	709
10	TraesCS2B01G453000	chr3A	670995700	670996448	748	False	514.25	935	93.53150	3070	3899	2	chr3A.!!$F3	829
11	TraesCS2B01G453000	chr3A	189427492	189428235	743	True	503.25	913	93.31100	3070	3899	2	chr3A.!!$R1	829
12	TraesCS2B01G453000	chr5B	343343315	343344016	701	False	933.00	933	90.62100	3183	3899	1	chr5B.!!$F1	716
13	TraesCS2B01G453000	chr7B	677489816	677490515	699	True	931.00	931	90.60800	3183	3899	1	chr7B.!!$R1	716
14	TraesCS2B01G453000	chr6A	192011735	192012426	691	True	920.00	920	90.61600	3193	3899	1	chr6A.!!$R1	706
15	TraesCS2B01G453000	chr6B	297544963	297545520	557	False	691.00	691	88.87000	1	575	1	chr6B.!!$F2	574
16	TraesCS2B01G453000	chr6B	67071672	67072419	747	False	493.75	894	93.04200	3070	3899	2	chr6B.!!$F3	829
17	TraesCS2B01G453000	chr4B	193971730	193972332	602	True	869.00	869	92.72700	1	602	1	chr4B.!!$R1	601

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
216	383	0.732571	AATAATTGGCGTGCGTCTGG	59.267	50.0	0.0	0.0	0.0	3.86	F
1284	1495	0.735287	GCGGTCGGTCAAACTACTCC	60.735	60.0	0.0	0.0	0.0	3.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1542	1753	0.034476	TCATCGATGCAGCAGGATCC	59.966	55.0	20.81	2.48	39.21	3.36	R
3234	3838	0.037734	ATCAAACCCAACCCGAGGTC	59.962	55.0	0.00	0.00	33.12	3.85	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
34	41	9.168451	TGAAAATCTTAAGGCATTTCGTATGTA	57.832	29.630	16.54	3.80	33.74	2.29
78	85	4.298332	CCCACACAGTAATGAAACAAAGC	58.702	43.478	0.00	0.00	0.00	3.51
183	350	2.624636	TGCATGTGTGTGATAGCTGAG	58.375	47.619	0.00	0.00	0.00	3.35
216	383	0.732571	AATAATTGGCGTGCGTCTGG	59.267	50.000	0.00	0.00	0.00	3.86
278	445	4.953781	TCTTTCTCCCCCAATCAATTCT	57.046	40.909	0.00	0.00	0.00	2.40
325	492	2.543067	CTTAGTGCCTGCCCCTCACC	62.543	65.000	0.00	0.00	0.00	4.02
473	645	4.884458	TCATGACGTGCAAGTTTTTACA	57.116	36.364	6.76	0.00	0.00	2.41
705	890	3.679389	ACCCACTCTGATGTAAAAGCTG	58.321	45.455	0.00	0.00	0.00	4.24
1284	1495	0.735287	GCGGTCGGTCAAACTACTCC	60.735	60.000	0.00	0.00	0.00	3.85
1341	1552	6.127793	AGGATCAGCAAGAGCAAAATCTAAT	58.872	36.000	0.00	0.00	45.49	1.73
1509	1720	1.275291	TCTGGACCACTGAATTCGTCC	59.725	52.381	18.30	18.30	44.24	4.79
1536	1747	3.372025	CCCCAAGAAGGAAAGTATCTGGG	60.372	52.174	0.00	0.00	41.22	4.45
1542	1753	4.714308	AGAAGGAAAGTATCTGGGTCTCTG	59.286	45.833	0.00	0.00	0.00	3.35
1722	1933	7.187824	AGGTCTCTTCATTCTTATTGCTGTA	57.812	36.000	0.00	0.00	0.00	2.74
1723	1934	7.624549	AGGTCTCTTCATTCTTATTGCTGTAA	58.375	34.615	0.00	0.00	0.00	2.41
1897	2111	4.427637	TGTGAAGGTTACAGGGGTATGTA	58.572	43.478	0.00	0.00	34.56	2.29
1932	2146	4.424842	TCCTGTTGGATTTATTGCCCTTT	58.575	39.130	0.00	0.00	37.46	3.11
1958	2172	7.587629	TCTTCACTCTGATAAATTGCTGTTTG	58.412	34.615	0.00	0.00	0.00	2.93
1959	2173	7.445096	TCTTCACTCTGATAAATTGCTGTTTGA	59.555	33.333	0.00	0.00	0.00	2.69
1989	2222	4.890158	TTCATCCTGTTCTACTGAGCAA	57.110	40.909	0.00	0.00	33.15	3.91
1990	2223	5.426689	TTCATCCTGTTCTACTGAGCAAT	57.573	39.130	0.00	0.00	33.15	3.56
1991	2224	6.544928	TTCATCCTGTTCTACTGAGCAATA	57.455	37.500	0.00	0.00	33.15	1.90
1992	2225	6.544928	TCATCCTGTTCTACTGAGCAATAA	57.455	37.500	0.00	0.00	33.15	1.40
1994	2227	5.086104	TCCTGTTCTACTGAGCAATAACC	57.914	43.478	0.00	0.00	33.15	2.85
1995	2228	4.777896	TCCTGTTCTACTGAGCAATAACCT	59.222	41.667	0.00	0.00	33.15	3.50
1997	2230	6.096987	TCCTGTTCTACTGAGCAATAACCTAG	59.903	42.308	0.00	0.00	33.15	3.02
1998	2231	6.096987	CCTGTTCTACTGAGCAATAACCTAGA	59.903	42.308	0.00	0.00	33.15	2.43
1999	2232	6.864342	TGTTCTACTGAGCAATAACCTAGAC	58.136	40.000	0.00	0.00	30.53	2.59
2000	2233	6.436218	TGTTCTACTGAGCAATAACCTAGACA	59.564	38.462	0.00	0.00	30.53	3.41
2001	2234	6.452494	TCTACTGAGCAATAACCTAGACAC	57.548	41.667	0.00	0.00	0.00	3.67
2003	2236	7.344134	TCTACTGAGCAATAACCTAGACACTA	58.656	38.462	0.00	0.00	0.00	2.74
2004	2237	6.852420	ACTGAGCAATAACCTAGACACTAA	57.148	37.500	0.00	0.00	0.00	2.24
2008	2241	9.632807	CTGAGCAATAACCTAGACACTAATATC	57.367	37.037	0.00	0.00	0.00	1.63
2010	2243	7.908453	AGCAATAACCTAGACACTAATATCCC	58.092	38.462	0.00	0.00	0.00	3.85
2011	2244	7.735321	AGCAATAACCTAGACACTAATATCCCT	59.265	37.037	0.00	0.00	0.00	4.20
2012	2245	9.032624	GCAATAACCTAGACACTAATATCCCTA	57.967	37.037	0.00	0.00	0.00	3.53
2164	2496	8.928270	AATTCTTATAGTCACTTAGTTCCACG	57.072	34.615	0.00	0.00	0.00	4.94
2180	2512	2.093869	TCCACGTGTAGCATAAACTCCC	60.094	50.000	15.65	0.00	0.00	4.30
2200	2533	3.891366	CCCTGTCAGTTTTTGGAGATTGT	59.109	43.478	0.00	0.00	0.00	2.71
2298	2641	6.883756	TCAGTAATGATCAGTATGCCAAACAA	59.116	34.615	6.11	0.00	34.76	2.83
2536	3133	8.096621	TGATACAATGAGTTATTCCCCAGTAA	57.903	34.615	0.00	0.00	0.00	2.24
2549	3147	4.148838	TCCCCAGTAAAAAGATGTGTTGG	58.851	43.478	0.00	0.00	0.00	3.77
2593	3192	9.362539	GTTATATTACTTTCTTCCGAACTGACA	57.637	33.333	0.00	0.00	0.00	3.58
2600	3199	3.390135	TCTTCCGAACTGACATTGACAC	58.610	45.455	0.00	0.00	0.00	3.67
2612	3213	5.432645	TGACATTGACACTTCACCTGTAAA	58.567	37.500	0.00	0.00	31.13	2.01
2666	3267	4.908601	TCAGATTTTCAGTCTGGGCTTA	57.091	40.909	0.00	0.00	42.58	3.09
2756	3357	3.306364	CGTCAATCCTGAGAACAAGGACT	60.306	47.826	0.00	0.00	34.19	3.85
2871	3472	1.705186	TGCTTTCCACCTAGAAGGCTT	59.295	47.619	0.00	0.00	46.04	4.35
2934	3538	6.639632	AGATGTGCGCCAAAAAGATATAAT	57.360	33.333	4.18	0.00	0.00	1.28
2981	3585	6.048732	TCTTGTACCTGCAGATACATCAAA	57.951	37.500	21.72	5.98	31.55	2.69
3008	3612	1.004560	CACTGTGAGCGTGATGGGT	60.005	57.895	0.32	0.00	34.35	4.51
3152	3756	6.257411	GTGAAGATACTTCAGACATGGATGTG	59.743	42.308	13.37	0.00	41.95	3.21
3229	3833	0.442699	GAACGTTGGCCTGTCGAATC	59.557	55.000	5.00	12.65	0.00	2.52
3230	3834	0.034896	AACGTTGGCCTGTCGAATCT	59.965	50.000	18.13	0.00	0.00	2.40
3231	3835	0.034896	ACGTTGGCCTGTCGAATCTT	59.965	50.000	18.13	0.00	0.00	2.40
3232	3836	1.156736	CGTTGGCCTGTCGAATCTTT	58.843	50.000	3.32	0.00	0.00	2.52
3233	3837	1.535462	CGTTGGCCTGTCGAATCTTTT	59.465	47.619	3.32	0.00	0.00	2.27
3234	3838	2.665519	CGTTGGCCTGTCGAATCTTTTG	60.666	50.000	3.32	0.00	0.00	2.44
3235	3839	2.552315	GTTGGCCTGTCGAATCTTTTGA	59.448	45.455	3.32	0.00	0.00	2.69
3236	3840	2.151202	TGGCCTGTCGAATCTTTTGAC	58.849	47.619	3.32	1.43	43.09	3.18
3237	3841	1.468914	GGCCTGTCGAATCTTTTGACC	59.531	52.381	0.00	0.00	42.30	4.02
3238	3842	2.427506	GCCTGTCGAATCTTTTGACCT	58.572	47.619	5.41	0.00	42.30	3.85
3365	3986	5.475564	TGTTTGGCTGTATAGTCCTTTTTCC	59.524	40.000	0.00	0.00	0.00	3.13
3498	4122	8.462016	GTGTTATTTAGGATGAACTTCTTGCAT	58.538	33.333	0.00	0.00	0.00	3.96
3551	4175	7.915397	GCTGTTACTTTTATGTATCCATGTTGG	59.085	37.037	0.00	0.00	39.43	3.77
3552	4176	7.767261	TGTTACTTTTATGTATCCATGTTGGC	58.233	34.615	0.00	0.00	37.47	4.52
3618	4242	5.881443	TCGGTCGAATTGGGTTTATATGTTT	59.119	36.000	0.00	0.00	0.00	2.83
3642	4266	6.509418	TGTAGGTTGAATATTTCTTGCACC	57.491	37.500	0.00	0.00	0.00	5.01
3663	4287	3.181510	CCGCTGTTAAAGATGTTACCTGC	60.182	47.826	0.00	0.00	0.00	4.85
3721	4351	9.777297	AATTAAAAATGTCAAATACACTGGCTT	57.223	25.926	0.00	0.00	42.09	4.35
3828	4463	4.083271	GGCATCACCTTCTCTGTGTAAAAC	60.083	45.833	0.00	0.00	35.25	2.43
3829	4464	4.757149	GCATCACCTTCTCTGTGTAAAACT	59.243	41.667	0.00	0.00	35.25	2.66
3856	4491	6.015603	TGTCTGAACATTGTTTATGCCATTGA	60.016	34.615	3.08	0.00	37.81	2.57
3878	4513	5.877012	TGAGAGAGAAATTTACAGGATGCAC	59.123	40.000	0.00	0.00	42.53	4.57
3881	4516	4.946157	AGAGAAATTTACAGGATGCACAGG	59.054	41.667	0.00	0.00	42.53	4.00
3893	4528	5.705441	CAGGATGCACAGGTTTCTTTACTTA	59.295	40.000	0.00	0.00	0.00	2.24
3949	4584	4.810345	ACCCAGAAAATAAGGTGGTGAAA	58.190	39.130	0.00	0.00	0.00	2.69
3959	4594	3.637911	AGGTGGTGAAAACACACTGTA	57.362	42.857	0.00	0.00	40.54	2.74
3962	4597	3.064820	GGTGGTGAAAACACACTGTACTG	59.935	47.826	0.00	0.00	40.54	2.74
3974	4609	5.071250	ACACACTGTACTGGGAAATGTAGAA	59.929	40.000	9.23	0.00	0.00	2.10
3976	4611	5.178797	CACTGTACTGGGAAATGTAGAAGG	58.821	45.833	4.66	0.00	0.00	3.46
3999	4634	1.354337	CCGATCTGCACGTGTCTTGG	61.354	60.000	18.38	8.23	0.00	3.61
4027	4662	6.439636	AATATGGCCAAACTCTAGCTGATA	57.560	37.500	10.96	0.00	0.00	2.15
4040	4675	9.771534	AACTCTAGCTGATAATCCATTTTAGAC	57.228	33.333	0.00	0.00	0.00	2.59
4144	4779	5.471456	GGCTCAGCTGCAATATTGTATAGTT	59.529	40.000	16.61	8.27	34.04	2.24
4152	4787	9.166173	GCTGCAATATTGTATAGTTGATATGGA	57.834	33.333	16.61	0.00	0.00	3.41
4161	4796	8.721133	TGTATAGTTGATATGGACTATGGTGT	57.279	34.615	13.88	0.00	38.96	4.16
4162	4797	9.816787	TGTATAGTTGATATGGACTATGGTGTA	57.183	33.333	13.88	0.00	38.96	2.90
4164	4799	6.102897	AGTTGATATGGACTATGGTGTAGC	57.897	41.667	0.00	0.00	0.00	3.58

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
59	66	5.789643	ATGGCTTTGTTTCATTACTGTGT	57.210	34.783	0.00	0.00	0.00	3.72
78	85	2.632512	ACCTGGCACTTACCAAAAATGG	59.367	45.455	0.00	0.00	39.86	3.16
183	350	3.192466	CAATTATTGGCCAGCTTGCTTC	58.808	45.455	5.11	0.00	0.00	3.86
216	383	8.622948	TTTAGGAGAGAGGAAATTTCACTTTC	57.377	34.615	19.49	18.66	34.95	2.62
231	398	5.014755	TGGCTTGGGTTAATTTTAGGAGAGA	59.985	40.000	0.00	0.00	0.00	3.10
278	445	1.300971	GCGAGGTGAAGAATGCTGCA	61.301	55.000	4.13	4.13	0.00	4.41
674	855	4.100189	ACATCAGAGTGGGTTGACTATAGC	59.900	45.833	0.00	0.00	0.00	2.97
705	890	6.202516	TCATCCACGGGATTTTAAATGAAC	57.797	37.500	0.00	0.00	39.79	3.18
1284	1495	4.390297	GGAACTGAAGATGAAAGAGAACCG	59.610	45.833	0.00	0.00	0.00	4.44
1341	1552	1.626321	TGCTTATTGAGTGGTCCGGAA	59.374	47.619	5.23	0.00	0.00	4.30
1536	1747	0.469070	ATGCAGCAGGATCCAGAGAC	59.531	55.000	15.82	0.53	0.00	3.36
1542	1753	0.034476	TCATCGATGCAGCAGGATCC	59.966	55.000	20.81	2.48	39.21	3.36
1619	1830	4.263905	TGCTTCCCATAACTGAGAAACCAT	60.264	41.667	0.00	0.00	0.00	3.55
1897	2111	4.410099	TCCAACAGGATCAGAAGCATTTT	58.590	39.130	0.00	0.00	0.00	1.82
1932	2146	7.750229	AACAGCAATTTATCAGAGTGAAGAA	57.250	32.000	0.00	0.00	0.00	2.52
1958	2172	7.651304	CAGTAGAACAGGATGAATACTGACATC	59.349	40.741	9.56	4.95	44.53	3.06
1959	2173	7.343057	TCAGTAGAACAGGATGAATACTGACAT	59.657	37.037	9.56	0.00	44.91	3.06
1989	2222	9.978336	GTCTAGGGATATTAGTGTCTAGGTTAT	57.022	37.037	0.00	0.00	0.00	1.89
1990	2223	8.952602	TGTCTAGGGATATTAGTGTCTAGGTTA	58.047	37.037	0.00	0.00	0.00	2.85
1991	2224	7.724951	GTGTCTAGGGATATTAGTGTCTAGGTT	59.275	40.741	0.00	0.00	0.00	3.50
1992	2225	7.073981	AGTGTCTAGGGATATTAGTGTCTAGGT	59.926	40.741	0.00	0.00	0.00	3.08
1995	2228	9.790344	GTTAGTGTCTAGGGATATTAGTGTCTA	57.210	37.037	0.00	0.00	0.00	2.59
1997	2230	7.724951	AGGTTAGTGTCTAGGGATATTAGTGTC	59.275	40.741	0.00	0.00	0.00	3.67
1998	2231	7.593653	AGGTTAGTGTCTAGGGATATTAGTGT	58.406	38.462	0.00	0.00	0.00	3.55
1999	2232	8.480133	AAGGTTAGTGTCTAGGGATATTAGTG	57.520	38.462	0.00	0.00	0.00	2.74
2003	2236	8.849543	TGTTAAGGTTAGTGTCTAGGGATATT	57.150	34.615	0.00	0.00	0.00	1.28
2008	2241	7.657023	ACTATGTTAAGGTTAGTGTCTAGGG	57.343	40.000	0.00	0.00	0.00	3.53
2010	2243	9.790389	CTCAACTATGTTAAGGTTAGTGTCTAG	57.210	37.037	0.00	0.00	0.00	2.43
2011	2244	9.305555	ACTCAACTATGTTAAGGTTAGTGTCTA	57.694	33.333	0.00	0.00	0.00	2.59
2012	2245	8.191534	ACTCAACTATGTTAAGGTTAGTGTCT	57.808	34.615	0.00	0.00	0.00	3.41
2164	2496	4.184629	CTGACAGGGAGTTTATGCTACAC	58.815	47.826	0.00	0.00	0.00	2.90
2180	2512	5.505173	ACACAATCTCCAAAAACTGACAG	57.495	39.130	0.00	0.00	0.00	3.51
2200	2533	9.549078	TGTTGTCAACTTGTAGATTAATGTACA	57.451	29.630	18.70	18.70	35.12	2.90
2247	2580	4.260497	GGTAACTGACAACGGAACAAGTTC	60.260	45.833	4.39	4.39	38.80	3.01
2261	2594	7.766278	ACTGATCATTACTGAATGGTAACTGAC	59.234	37.037	0.00	0.00	42.45	3.51
2298	2641	1.207570	TCCACACGTAACAACCTGTGT	59.792	47.619	0.00	0.00	45.79	3.72
2522	2867	7.462571	ACACATCTTTTTACTGGGGAATAAC	57.537	36.000	0.00	0.00	0.00	1.89
2536	3133	7.404671	AGTACAGTTTTCCAACACATCTTTT	57.595	32.000	0.00	0.00	35.05	2.27
2593	3192	7.176515	TGCAATATTTACAGGTGAAGTGTCAAT	59.823	33.333	0.00	0.00	34.87	2.57
2600	3199	4.332543	TCGCTGCAATATTTACAGGTGAAG	59.667	41.667	14.25	0.00	31.94	3.02
2612	3213	0.815213	ACCGCATGTCGCTGCAATAT	60.815	50.000	0.00	0.00	42.40	1.28
2666	3267	1.980765	TCCTGTTCTCACCAATGCTCT	59.019	47.619	0.00	0.00	0.00	4.09
2756	3357	5.882557	GCCATCTTAGAAATTCAGGAGACAA	59.117	40.000	0.00	0.00	0.00	3.18
2956	3560	6.976934	TGATGTATCTGCAGGTACAAGATA	57.023	37.500	36.51	22.27	34.77	1.98
2981	3585	1.302351	GCTCACAGTGCTGCCTTCT	60.302	57.895	0.00	0.00	0.00	2.85
3008	3612	3.184379	CGCTCTCATTCTTTTGAACGACA	59.816	43.478	0.00	0.00	41.77	4.35
3152	3756	6.030548	TCATCAGCTTGCTATACTGGTATC	57.969	41.667	0.00	0.00	32.19	2.24
3180	3784	0.692476	AGCAGCTATTCCACACCACA	59.308	50.000	0.00	0.00	0.00	4.17
3229	3833	0.179001	ACCCAACCCGAGGTCAAAAG	60.179	55.000	0.00	0.00	33.12	2.27
3230	3834	0.259356	AACCCAACCCGAGGTCAAAA	59.741	50.000	0.00	0.00	33.12	2.44
3231	3835	0.259356	AAACCCAACCCGAGGTCAAA	59.741	50.000	0.00	0.00	33.12	2.69
3232	3836	0.466555	CAAACCCAACCCGAGGTCAA	60.467	55.000	0.00	0.00	33.12	3.18
3233	3837	1.149627	CAAACCCAACCCGAGGTCA	59.850	57.895	0.00	0.00	33.12	4.02
3234	3838	0.037734	ATCAAACCCAACCCGAGGTC	59.962	55.000	0.00	0.00	33.12	3.85
3235	3839	0.481128	AATCAAACCCAACCCGAGGT	59.519	50.000	0.00	0.00	37.65	3.85
3236	3840	0.887933	CAATCAAACCCAACCCGAGG	59.112	55.000	0.00	0.00	0.00	4.63
3237	3841	0.887933	CCAATCAAACCCAACCCGAG	59.112	55.000	0.00	0.00	0.00	4.63
3238	3842	0.186386	ACCAATCAAACCCAACCCGA	59.814	50.000	0.00	0.00	0.00	5.14
3365	3986	2.350772	GCGAAGGAGGACAAAACACATG	60.351	50.000	0.00	0.00	0.00	3.21
3551	4175	3.067180	ACATCATGAATGAAATGGACCGC	59.933	43.478	0.00	0.00	40.69	5.68
3552	4176	4.577693	AGACATCATGAATGAAATGGACCG	59.422	41.667	0.00	0.00	40.69	4.79
3618	4242	6.348950	CGGTGCAAGAAATATTCAACCTACAA	60.349	38.462	0.00	0.00	0.00	2.41
3642	4266	3.181510	GGCAGGTAACATCTTTAACAGCG	60.182	47.826	0.00	0.00	41.41	5.18
3663	4287	1.259609	ATGTGGGCACAGAAATGTGG	58.740	50.000	10.15	0.00	45.48	4.17
3828	4463	7.087409	TGGCATAAACAATGTTCAGACATAG	57.913	36.000	0.00	0.00	45.58	2.23
3829	4464	7.643569	ATGGCATAAACAATGTTCAGACATA	57.356	32.000	10.61	0.00	45.58	2.29
3856	4491	5.809001	TGTGCATCCTGTAAATTTCTCTCT	58.191	37.500	0.00	0.00	0.00	3.10
3878	4513	9.831737	CAATCTCAACATAAGTAAAGAAACCTG	57.168	33.333	0.00	0.00	0.00	4.00
3893	4528	7.995488	CCCCTAACTAAATCTCAATCTCAACAT	59.005	37.037	0.00	0.00	0.00	2.71
3949	4584	4.164843	ACATTTCCCAGTACAGTGTGTT	57.835	40.909	5.88	0.00	0.00	3.32
3959	4594	2.619074	GCTGCCTTCTACATTTCCCAGT	60.619	50.000	0.00	0.00	0.00	4.00
3962	4597	1.393603	GGCTGCCTTCTACATTTCCC	58.606	55.000	12.43	0.00	0.00	3.97
4008	4643	4.444876	GGATTATCAGCTAGAGTTTGGCCA	60.445	45.833	0.00	0.00	0.00	5.36
4018	4653	8.997323	CCAAGTCTAAAATGGATTATCAGCTAG	58.003	37.037	0.00	0.00	36.27	3.42
4021	4656	7.573968	ACCAAGTCTAAAATGGATTATCAGC	57.426	36.000	0.00	0.00	37.66	4.26
4022	4657	8.960591	ACAACCAAGTCTAAAATGGATTATCAG	58.039	33.333	0.00	0.00	37.66	2.90
4027	4662	8.383175	TCTCTACAACCAAGTCTAAAATGGATT	58.617	33.333	0.00	0.00	37.66	3.01
4040	4675	4.702131	CCCCTTTTCATCTCTACAACCAAG	59.298	45.833	0.00	0.00	0.00	3.61

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.