AutoCloner

Multiple sequence alignment - TraesCS2B01G173300

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	TraesCS2B01G173300	chr2B	100.000	3473	0	0	1	3473	146998330	146994858	0.000000e+00	6414.0
1	TraesCS2B01G173300	chr2B	88.188	999	97	10	1525	2517	147480790	147481773	0.000000e+00	1171.0
2	TraesCS2B01G173300	chr2B	82.018	773	131	7	1706	2474	147285843	147285075	0.000000e+00	651.0
3	TraesCS2B01G173300	chr2B	92.784	97	6	1	3337	3432	744873178	744873082	4.670000e-29	139.0
4	TraesCS2B01G173300	chr2B	90.476	63	6	0	381	443	118601694	118601632	2.220000e-12	84.2
5	TraesCS2B01G173300	chr2A	91.948	1925	108	22	1461	3353	94162398	94160489	0.000000e+00	2652.0
6	TraesCS2B01G173300	chr2A	91.852	1485	89	18	1	1463	94164866	94163392	0.000000e+00	2043.0
7	TraesCS2B01G173300	chr2A	81.605	810	138	9	1706	2509	94204752	94203948	0.000000e+00	660.0
8	TraesCS2B01G173300	chr2A	86.427	501	31	8	983	1462	94282036	94282520	6.650000e-142	514.0
9	TraesCS2B01G173300	chr2A	81.983	605	103	6	1706	2307	94275992	94276593	3.090000e-140	508.0
10	TraesCS2B01G173300	chr2A	90.526	285	25	1	2207	2491	94160235	94159953	3.270000e-100	375.0
11	TraesCS2B01G173300	chr2A	92.632	95	6	1	3337	3430	384337724	384337818	6.050000e-28	135.0
12	TraesCS2B01G173300	chr2D	92.283	1840	67	26	1081	2850	95649723	95647889	0.000000e+00	2542.0
13	TraesCS2B01G173300	chr2D	82.675	785	106	18	1	769	95650897	95650127	0.000000e+00	669.0
14	TraesCS2B01G173300	chr2D	81.922	791	137	6	1706	2493	95654887	95654100	0.000000e+00	664.0
15	TraesCS2B01G173300	chr2D	90.291	515	33	6	2841	3345	95647660	95647153	0.000000e+00	658.0
16	TraesCS2B01G173300	chr2D	86.723	595	67	7	2063	2650	95748546	95749135	0.000000e+00	651.0
17	TraesCS2B01G173300	chr2D	87.633	566	53	13	1520	2073	95728590	95729150	2.920000e-180	641.0
18	TraesCS2B01G173300	chr2D	81.771	768	132	8	1706	2469	95667600	95668363	1.360000e-178	636.0
19	TraesCS2B01G173300	chr2D	90.291	412	26	4	769	1168	95650099	95649690	8.540000e-146	527.0
20	TraesCS2B01G173300	chr2D	83.862	347	24	18	1122	1457	95728133	95728458	5.630000e-78	302.0
21	TraesCS2B01G173300	chr2D	89.630	135	11	1	983	1114	95728045	95728179	5.960000e-38	169.0
22	TraesCS2B01G173300	chr2D	94.737	38	2	0	390	427	22949889	22949926	3.740000e-05	60.2
23	TraesCS2B01G173300	chr4D	94.624	93	3	2	3332	3423	147455478	147455387	3.610000e-30	143.0
24	TraesCS2B01G173300	chrUn	93.684	95	5	1	3334	3427	31618550	31618456	1.300000e-29	141.0
25	TraesCS2B01G173300	chrUn	91.489	47	4	0	381	427	416282735	416282781	8.050000e-07	65.8
26	TraesCS2B01G173300	chr3B	93.684	95	5	1	3340	3433	525634109	525634203	1.300000e-29	141.0
27	TraesCS2B01G173300	chr3B	100.000	28	0	0	1403	1430	807582019	807582046	6.000000e-03	52.8
28	TraesCS2B01G173300	chr6B	94.505	91	4	1	3337	3426	24799120	24799210	4.670000e-29	139.0
29	TraesCS2B01G173300	chr6D	91.919	99	6	2	3340	3437	235208726	235208629	1.680000e-28	137.0
30	TraesCS2B01G173300	chr5A	90.385	104	8	2	3325	3426	705822076	705821973	6.050000e-28	135.0
31	TraesCS2B01G173300	chr5A	81.081	74	10	1	237	306	554637122	554637195	4.840000e-04	56.5
32	TraesCS2B01G173300	chr3A	91.919	99	5	3	3327	3424	574287978	574288074	6.050000e-28	135.0
33	TraesCS2B01G173300	chr3A	77.209	215	38	5	231	436	552303506	552303294	7.880000e-22	115.0
34	TraesCS2B01G173300	chr5B	77.876	113	19	5	3060	3170	466564668	466564560	8.050000e-07	65.8
35	TraesCS2B01G173300	chr7A	89.362	47	1	4	3145	3188	3021479	3021524	4.840000e-04	56.5
36	TraesCS2B01G173300	chr3D	100.000	28	0	0	1403	1430	600424363	600424336	6.000000e-03	52.8

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	TraesCS2B01G173300	chr2B	146994858	146998330	3472	True	6414.000000	6414	100.000000	1	3473	1	chr2B.!!$R2	3472
1	TraesCS2B01G173300	chr2B	147480790	147481773	983	False	1171.000000	1171	88.188000	1525	2517	1	chr2B.!!$F1	992
2	TraesCS2B01G173300	chr2B	147285075	147285843	768	True	651.000000	651	82.018000	1706	2474	1	chr2B.!!$R3	768
3	TraesCS2B01G173300	chr2A	94159953	94164866	4913	True	1690.000000	2652	91.442000	1	3353	3	chr2A.!!$R2	3352
4	TraesCS2B01G173300	chr2A	94203948	94204752	804	True	660.000000	660	81.605000	1706	2509	1	chr2A.!!$R1	803
5	TraesCS2B01G173300	chr2A	94275992	94276593	601	False	508.000000	508	81.983000	1706	2307	1	chr2A.!!$F1	601
6	TraesCS2B01G173300	chr2D	95647153	95654887	7734	True	1012.000000	2542	87.492400	1	3345	5	chr2D.!!$R1	3344
7	TraesCS2B01G173300	chr2D	95748546	95749135	589	False	651.000000	651	86.723000	2063	2650	1	chr2D.!!$F3	587
8	TraesCS2B01G173300	chr2D	95667600	95668363	763	False	636.000000	636	81.771000	1706	2469	1	chr2D.!!$F2	763
9	TraesCS2B01G173300	chr2D	95728045	95729150	1105	False	370.666667	641	87.041667	983	2073	3	chr2D.!!$F4	1090

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
997	5048	0.749818	TTCAAGCACCGAACCTGCAA	60.750	50.0	0.0	0.0	37.08	4.08	F
1789	7025	0.113190	CCCTCCCAACTTTCCAAGCT	59.887	55.0	0.0	0.0	0.00	3.74	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1884	7120	0.526662	GGAAGAAGGAAGCGTCTCGA	59.473	55.000	0.00	0.0	0.0	4.04	R
2737	8006	1.811965	TGGAGTGAAATTCGCATGGTG	59.188	47.619	9.35	0.0	0.0	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
90	4082	6.626199	AAAAACGTCTTGCACTTTGTTTAG	57.374	33.333	6.71	0.00	0.00	1.85
260	4252	4.655762	ACGCACATACACTGACTCATAT	57.344	40.909	0.00	0.00	0.00	1.78
261	4253	4.363138	ACGCACATACACTGACTCATATG	58.637	43.478	0.00	0.00	0.00	1.78
262	4254	3.737774	CGCACATACACTGACTCATATGG	59.262	47.826	2.13	0.00	30.71	2.74
265	4257	5.407691	GCACATACACTGACTCATATGGATG	59.592	44.000	11.64	11.64	39.01	3.51
273	4271	3.143728	GACTCATATGGATGCATGCACA	58.856	45.455	25.37	18.26	32.62	4.57
274	4272	3.756963	GACTCATATGGATGCATGCACAT	59.243	43.478	25.37	23.74	32.62	3.21
284	4283	3.893326	TGCATGCACATACACTCTACT	57.107	42.857	18.46	0.00	0.00	2.57
298	4297	3.511934	CACTCTACTCCTACAAGCACCTT	59.488	47.826	0.00	0.00	0.00	3.50
304	4303	1.819288	TCCTACAAGCACCTTCGAGAG	59.181	52.381	0.00	0.00	0.00	3.20
306	4305	2.428890	CCTACAAGCACCTTCGAGAGAT	59.571	50.000	0.00	0.00	41.60	2.75
326	4325	5.933617	AGATTAAGCCAGCACATCATCTTA	58.066	37.500	0.00	0.00	0.00	2.10
365	4364	2.691526	ACTCACACCTTTGTAGTCGACA	59.308	45.455	19.50	0.48	33.30	4.35
388	4387	2.029828	AGACGTTTTCTCTCACATCGCT	60.030	45.455	0.00	0.00	0.00	4.93
389	4388	3.190744	AGACGTTTTCTCTCACATCGCTA	59.809	43.478	0.00	0.00	0.00	4.26
391	4390	4.304110	ACGTTTTCTCTCACATCGCTAAA	58.696	39.130	0.00	0.00	0.00	1.85
393	4392	5.107453	ACGTTTTCTCTCACATCGCTAAAAG	60.107	40.000	0.00	0.00	0.00	2.27
394	4393	5.622378	GTTTTCTCTCACATCGCTAAAAGG	58.378	41.667	0.00	0.00	0.00	3.11
407	4415	5.890334	TCGCTAAAAGGGCTGAAATAAATG	58.110	37.500	0.00	0.00	0.00	2.32
417	4425	6.596497	AGGGCTGAAATAAATGCAGAAAAATG	59.404	34.615	0.00	0.00	0.00	2.32
439	4447	3.126858	GCGAGCACCATTGTCAAATCTAA	59.873	43.478	0.00	0.00	0.00	2.10
443	4451	5.316167	AGCACCATTGTCAAATCTAAGACA	58.684	37.500	0.00	0.00	42.55	3.41
511	4519	2.871021	AACCGGTTGTTGTCCGTTT	58.129	47.368	21.56	0.00	45.63	3.60
519	4527	3.283684	TTGTCCGTTTGCCCGCTG	61.284	61.111	0.00	0.00	0.00	5.18
628	4638	1.890876	TGGAATCCTGGTTGAACACG	58.109	50.000	0.00	0.00	0.00	4.49
740	4754	1.971149	ACCCTCCCATGAATCACTCA	58.029	50.000	0.00	0.00	38.81	3.41
804	4846	5.535783	TGAGTTGTTCATGTTCATCCATGTT	59.464	36.000	0.00	0.00	42.29	2.71
997	5048	0.749818	TTCAAGCACCGAACCTGCAA	60.750	50.000	0.00	0.00	37.08	4.08
1099	5207	1.064758	CAATGCCAGCCTACCAAGGTA	60.065	52.381	0.00	0.00	45.64	3.08
1268	5388	2.683933	GAGCCCGACCCCTTCTCA	60.684	66.667	0.00	0.00	0.00	3.27
1433	5557	0.601558	TGCTTCGTCCAGGTACAGTC	59.398	55.000	0.00	0.00	0.00	3.51
1477	6694	4.880886	GCATGTGCATGTGATTAGTACA	57.119	40.909	12.96	0.00	40.80	2.90
1556	6774	9.862371	CTAAAATCGTACTGCTGGATAGAATAT	57.138	33.333	0.00	0.00	0.00	1.28
1558	6776	9.640963	AAAATCGTACTGCTGGATAGAATATAC	57.359	33.333	0.00	0.00	0.00	1.47
1559	6777	8.582657	AATCGTACTGCTGGATAGAATATACT	57.417	34.615	0.00	0.00	0.00	2.12
1560	6778	7.379098	TCGTACTGCTGGATAGAATATACTG	57.621	40.000	0.00	0.00	0.00	2.74
1561	6779	6.030849	CGTACTGCTGGATAGAATATACTGC	58.969	44.000	4.43	4.43	0.00	4.40
1562	6780	6.127869	CGTACTGCTGGATAGAATATACTGCT	60.128	42.308	10.90	0.00	0.00	4.24
1563	6781	7.065923	CGTACTGCTGGATAGAATATACTGCTA	59.934	40.741	10.90	0.00	0.00	3.49
1564	6782	7.403312	ACTGCTGGATAGAATATACTGCTAG	57.597	40.000	10.90	9.19	0.00	3.42
1565	6783	6.951198	ACTGCTGGATAGAATATACTGCTAGT	59.049	38.462	10.90	9.63	0.00	2.57
1566	6784	7.093988	ACTGCTGGATAGAATATACTGCTAGTG	60.094	40.741	10.90	3.79	0.00	2.74
1582	6805	0.469917	AGTGGGTAAGCATGATCCGG	59.530	55.000	0.00	0.00	0.00	5.14
1593	6816	4.780815	AGCATGATCCGGTTAATTCAGAA	58.219	39.130	0.00	0.00	0.00	3.02
1773	7009	3.080121	CCGGAGAAGCTCAGCCCT	61.080	66.667	0.00	0.00	31.08	5.19
1789	7025	0.113190	CCCTCCCAACTTTCCAAGCT	59.887	55.000	0.00	0.00	0.00	3.74
1884	7120	2.124570	ATCATCGCCTTTGCCGCT	60.125	55.556	0.00	0.00	0.00	5.52
1986	7229	0.883833	CCAGTGAGGCGCTTGATTTT	59.116	50.000	7.64	0.00	0.00	1.82
2034	7277	2.328473	CAGCTCGTCGACAATTTCAGA	58.672	47.619	17.16	1.53	0.00	3.27
2121	7364	1.945354	GCTCATCCTTCACCGACCGA	61.945	60.000	0.00	0.00	0.00	4.69
2367	7619	1.568504	ACGCACTTATCCCAAGGAGA	58.431	50.000	0.00	0.00	34.05	3.71
2424	7676	1.219124	GGCCATCGAGCTCAAGACA	59.781	57.895	15.40	0.00	0.00	3.41
2766	8035	0.537188	ATTTCACTCCACGCCGAGAT	59.463	50.000	6.36	0.00	33.83	2.75
2779	8048	3.068307	ACGCCGAGATCTATACTGCTTTT	59.932	43.478	0.00	0.00	0.00	2.27
2835	8106	1.714794	ACGCTCTACACTCAATGCAC	58.285	50.000	0.00	0.00	0.00	4.57
2844	8353	1.315257	ACTCAATGCACAATCCGGCC	61.315	55.000	0.00	0.00	0.00	6.13
2858	8367	1.556484	CGGCCGTAAACTATTCGCG	59.444	57.895	19.50	0.00	0.00	5.87
2935	8444	2.004017	TGCGACGTCTTGAAAGTTGTT	58.996	42.857	14.70	0.00	0.00	2.83
3005	8514	8.624776	GGACTTATCAGGGTCATTTCTTTATTG	58.375	37.037	0.00	0.00	34.49	1.90
3055	8565	2.006888	CGGCAATACACGGTGATCTTT	58.993	47.619	16.29	0.00	0.00	2.52
3056	8566	2.418628	CGGCAATACACGGTGATCTTTT	59.581	45.455	16.29	0.00	0.00	2.27
3057	8567	3.485216	CGGCAATACACGGTGATCTTTTC	60.485	47.826	16.29	0.00	0.00	2.29
3058	8568	3.689649	GGCAATACACGGTGATCTTTTCT	59.310	43.478	16.29	0.00	0.00	2.52
3130	8640	2.995466	ATGCGGTGAACATGTTTGAG	57.005	45.000	13.36	6.27	0.00	3.02
3136	8646	3.064682	CGGTGAACATGTTTGAGACACAA	59.935	43.478	21.83	0.00	42.04	3.33
3348	8875	7.813331	AGGGTTTTAAAATATCTACTCCCTCC	58.187	38.462	13.19	2.44	37.15	4.30
3349	8876	7.632164	AGGGTTTTAAAATATCTACTCCCTCCT	59.368	37.037	13.19	0.00	37.15	3.69
3350	8877	8.942033	GGGTTTTAAAATATCTACTCCCTCCTA	58.058	37.037	3.52	0.00	0.00	2.94
3366	8893	9.369672	ACTCCCTCCTAAACTAATATAAGAGTG	57.630	37.037	0.00	0.00	0.00	3.51
3367	8894	9.369672	CTCCCTCCTAAACTAATATAAGAGTGT	57.630	37.037	0.00	0.00	0.00	3.55
3368	8895	9.725206	TCCCTCCTAAACTAATATAAGAGTGTT	57.275	33.333	0.00	0.00	0.00	3.32
3434	8961	5.828871	ACAGAGGTAGTAGCTCCTAAAAGA	58.171	41.667	22.67	0.00	43.38	2.52
3435	8962	6.254522	ACAGAGGTAGTAGCTCCTAAAAGAA	58.745	40.000	22.67	0.00	43.38	2.52
3439	8966	7.234988	AGAGGTAGTAGCTCCTAAAAGAAAACA	59.765	37.037	22.67	0.00	43.38	2.83
3440	8967	7.742767	AGGTAGTAGCTCCTAAAAGAAAACAA	58.257	34.615	0.00	0.00	31.66	2.83
3443	8970	6.602278	AGTAGCTCCTAAAAGAAAACAACCT	58.398	36.000	0.00	0.00	0.00	3.50
3445	8972	6.149129	AGCTCCTAAAAGAAAACAACCTTG	57.851	37.500	0.00	0.00	0.00	3.61
3460	8987	3.885724	ACCTTGTTTGGTGAAAACCTG	57.114	42.857	0.00	0.00	46.47	4.00

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
78	4070	2.287977	ACTCCCCCTAAACAAAGTGC	57.712	50.000	0.00	0.00	0.00	4.40
81	4073	4.918588	ACACATACTCCCCCTAAACAAAG	58.081	43.478	0.00	0.00	0.00	2.77
90	4082	4.820173	GCATAAACTAACACATACTCCCCC	59.180	45.833	0.00	0.00	0.00	5.40
140	4132	8.314751	AGTGATTAATAGGCATATAGGACACAC	58.685	37.037	15.39	10.74	0.00	3.82
216	4208	2.931969	TGTACGAGCATCTGCATCTTTG	59.068	45.455	4.79	0.00	45.16	2.77
233	4225	4.669318	AGTCAGTGTATGTGCGTATGTAC	58.331	43.478	0.00	0.00	0.00	2.90
260	4252	2.092807	AGAGTGTATGTGCATGCATCCA	60.093	45.455	25.64	18.55	35.92	3.41
261	4253	2.569059	AGAGTGTATGTGCATGCATCC	58.431	47.619	25.64	12.77	35.92	3.51
262	4254	4.375272	AGTAGAGTGTATGTGCATGCATC	58.625	43.478	25.64	15.21	35.92	3.91
265	4257	3.126831	GGAGTAGAGTGTATGTGCATGC	58.873	50.000	11.82	11.82	0.00	4.06
273	4271	4.645588	GGTGCTTGTAGGAGTAGAGTGTAT	59.354	45.833	0.00	0.00	0.00	2.29
274	4272	4.015084	GGTGCTTGTAGGAGTAGAGTGTA	58.985	47.826	0.00	0.00	0.00	2.90
284	4283	1.819288	CTCTCGAAGGTGCTTGTAGGA	59.181	52.381	0.00	0.00	0.00	2.94
298	4297	1.824852	TGTGCTGGCTTAATCTCTCGA	59.175	47.619	0.00	0.00	0.00	4.04
304	4303	6.484643	TCTTAAGATGATGTGCTGGCTTAATC	59.515	38.462	0.00	0.00	30.34	1.75
306	4305	5.744171	TCTTAAGATGATGTGCTGGCTTAA	58.256	37.500	0.00	0.00	0.00	1.85
326	4325	1.279271	AGTGCCGGCTTAGTCAATCTT	59.721	47.619	29.70	0.00	0.00	2.40
382	4381	5.499139	TTATTTCAGCCCTTTTAGCGATG	57.501	39.130	0.00	0.00	34.64	3.84
383	4382	6.507023	CATTTATTTCAGCCCTTTTAGCGAT	58.493	36.000	0.00	0.00	34.64	4.58
384	4383	5.678616	GCATTTATTTCAGCCCTTTTAGCGA	60.679	40.000	0.00	0.00	34.64	4.93
385	4384	4.504097	GCATTTATTTCAGCCCTTTTAGCG	59.496	41.667	0.00	0.00	34.64	4.26
386	4385	5.418676	TGCATTTATTTCAGCCCTTTTAGC	58.581	37.500	0.00	0.00	0.00	3.09
388	4387	6.849085	TCTGCATTTATTTCAGCCCTTTTA	57.151	33.333	0.00	0.00	0.00	1.52
389	4388	5.743636	TCTGCATTTATTTCAGCCCTTTT	57.256	34.783	0.00	0.00	0.00	2.27
391	4390	5.743636	TTTCTGCATTTATTTCAGCCCTT	57.256	34.783	0.00	0.00	0.00	3.95
393	4392	6.676213	GCATTTTTCTGCATTTATTTCAGCCC	60.676	38.462	0.00	0.00	41.87	5.19
394	4393	6.253013	GCATTTTTCTGCATTTATTTCAGCC	58.747	36.000	0.00	0.00	41.87	4.85
407	4415	0.039256	TGGTGCTCGCATTTTTCTGC	60.039	50.000	0.00	0.00	38.81	4.26
417	4425	1.470098	AGATTTGACAATGGTGCTCGC	59.530	47.619	0.00	0.00	0.00	5.03
439	4447	8.715088	GTCCGTTAATAGTTTTACATGTTGTCT	58.285	33.333	2.30	0.81	0.00	3.41
443	4451	9.059260	ACAAGTCCGTTAATAGTTTTACATGTT	57.941	29.630	2.30	0.00	0.00	2.71
450	4458	6.797454	TGCAAACAAGTCCGTTAATAGTTTT	58.203	32.000	0.00	0.00	0.00	2.43
652	4662	1.118965	TCCAGTGGAAGGCGAAGACA	61.119	55.000	10.20	0.00	39.87	3.41
804	4846	5.221823	TGTTGTAGATCAATGTCAACTGGGA	60.222	40.000	14.43	0.00	39.03	4.37
853	4897	0.319555	TGCTTCGGCCGCTATACATC	60.320	55.000	23.51	3.69	40.91	3.06
974	5018	1.403679	CAGGTTCGGTGCTTGAAACAA	59.596	47.619	4.47	0.00	35.47	2.83
1465	5683	7.094549	GGTTTTATGCCTTGTGTACTAATCACA	60.095	37.037	0.00	0.00	42.84	3.58
1474	6691	4.010667	ACGAGGTTTTATGCCTTGTGTA	57.989	40.909	3.63	0.00	46.15	2.90
1475	6692	2.858745	ACGAGGTTTTATGCCTTGTGT	58.141	42.857	3.63	0.00	46.15	3.72
1560	6778	2.772287	GGATCATGCTTACCCACTAGC	58.228	52.381	0.00	0.00	37.89	3.42
1561	6779	2.289072	CCGGATCATGCTTACCCACTAG	60.289	54.545	0.00	0.00	0.00	2.57
1562	6780	1.691976	CCGGATCATGCTTACCCACTA	59.308	52.381	0.00	0.00	0.00	2.74
1563	6781	0.469917	CCGGATCATGCTTACCCACT	59.530	55.000	0.00	0.00	0.00	4.00
1564	6782	0.180406	ACCGGATCATGCTTACCCAC	59.820	55.000	9.46	0.00	0.00	4.61
1565	6783	0.916086	AACCGGATCATGCTTACCCA	59.084	50.000	9.46	0.00	0.00	4.51
1566	6784	2.922740	TAACCGGATCATGCTTACCC	57.077	50.000	9.46	0.00	0.00	3.69
1789	7025	0.602638	ATCACTTCGAAGCCACGCAA	60.603	50.000	24.86	3.41	0.00	4.85
1884	7120	0.526662	GGAAGAAGGAAGCGTCTCGA	59.473	55.000	0.00	0.00	0.00	4.04
1953	7189	4.135153	CTGGAGAGGGACACGCGG	62.135	72.222	12.47	1.27	0.00	6.46
1986	7229	3.927163	GAAGAACGGCGGCGGAAGA	62.927	63.158	35.05	0.00	0.00	2.87
2034	7277	1.587054	CTCGTCGAGGTTCTTGGCT	59.413	57.895	14.68	0.00	0.00	4.75
2121	7364	3.647771	GAGGGGTTTGGCGGGAGT	61.648	66.667	0.00	0.00	0.00	3.85
2367	7619	1.078143	GGCGAACTTGCTCTCCCAT	60.078	57.895	0.00	0.00	34.52	4.00
2424	7676	0.920763	TGATCTCCCCATTGGTGGCT	60.921	55.000	1.20	0.00	44.62	4.75
2737	8006	1.811965	TGGAGTGAAATTCGCATGGTG	59.188	47.619	9.35	0.00	0.00	4.17
2766	8035	7.615403	AGAGATTGTGTGAAAAGCAGTATAGA	58.385	34.615	0.00	0.00	0.00	1.98
2779	8048	3.259374	GGGAGACAAGAGAGATTGTGTGA	59.741	47.826	0.00	0.00	43.32	3.58
2835	8106	2.220133	CGAATAGTTTACGGCCGGATTG	59.780	50.000	31.76	4.37	0.00	2.67
2844	8353	4.913345	TGATACATCCGCGAATAGTTTACG	59.087	41.667	8.23	0.00	0.00	3.18
2858	8367	2.802816	GTCGCATCAAGGTGATACATCC	59.197	50.000	0.00	0.00	34.28	3.51
2966	8475	6.096846	CCCTGATAAGTCCCAAATTTTCGAAT	59.903	38.462	0.00	0.00	0.00	3.34
2973	8482	4.946160	TGACCCTGATAAGTCCCAAATT	57.054	40.909	0.00	0.00	31.76	1.82
2974	8483	5.472301	AATGACCCTGATAAGTCCCAAAT	57.528	39.130	0.00	0.00	31.76	2.32
3021	8530	8.336806	CCGTGTATTGCCGAACTATTAAAAATA	58.663	33.333	0.00	0.00	0.00	1.40
3036	8546	3.689649	AGAAAAGATCACCGTGTATTGCC	59.310	43.478	0.00	0.00	0.00	4.52
3341	8868	9.369672	ACACTCTTATATTAGTTTAGGAGGGAG	57.630	37.037	4.60	0.00	0.00	4.30
3342	8869	9.725206	AACACTCTTATATTAGTTTAGGAGGGA	57.275	33.333	4.60	0.00	0.00	4.20
3401	8928	9.299465	GGAGCTACTACCTCTGTAAACTAATAT	57.701	37.037	0.00	0.00	0.00	1.28
3402	8929	8.501070	AGGAGCTACTACCTCTGTAAACTAATA	58.499	37.037	0.00	0.00	0.00	0.98
3403	8930	7.355890	AGGAGCTACTACCTCTGTAAACTAAT	58.644	38.462	0.00	0.00	0.00	1.73
3404	8931	6.729428	AGGAGCTACTACCTCTGTAAACTAA	58.271	40.000	0.00	0.00	0.00	2.24
3405	8932	6.324601	AGGAGCTACTACCTCTGTAAACTA	57.675	41.667	0.00	0.00	0.00	2.24
3406	8933	5.195848	AGGAGCTACTACCTCTGTAAACT	57.804	43.478	0.00	0.00	0.00	2.66
3407	8934	7.401955	TTTAGGAGCTACTACCTCTGTAAAC	57.598	40.000	4.73	0.00	37.68	2.01
3408	8935	7.892241	TCTTTTAGGAGCTACTACCTCTGTAAA	59.108	37.037	4.73	0.88	37.68	2.01
3409	8936	7.408543	TCTTTTAGGAGCTACTACCTCTGTAA	58.591	38.462	4.73	0.00	37.68	2.41
3410	8937	6.966751	TCTTTTAGGAGCTACTACCTCTGTA	58.033	40.000	4.73	0.00	37.68	2.74
3411	8938	5.828871	TCTTTTAGGAGCTACTACCTCTGT	58.171	41.667	4.73	0.00	37.68	3.41
3412	8939	6.777213	TTCTTTTAGGAGCTACTACCTCTG	57.223	41.667	4.73	0.00	37.68	3.35
3413	8940	7.234988	TGTTTTCTTTTAGGAGCTACTACCTCT	59.765	37.037	4.73	0.00	37.68	3.69
3414	8941	7.384477	TGTTTTCTTTTAGGAGCTACTACCTC	58.616	38.462	4.73	0.00	37.68	3.85
3415	8942	7.312415	TGTTTTCTTTTAGGAGCTACTACCT	57.688	36.000	4.73	0.20	39.95	3.08
3416	8943	7.094890	GGTTGTTTTCTTTTAGGAGCTACTACC	60.095	40.741	4.73	0.00	0.00	3.18
3417	8944	7.660617	AGGTTGTTTTCTTTTAGGAGCTACTAC	59.339	37.037	4.73	0.00	0.00	2.73
3418	8945	7.742767	AGGTTGTTTTCTTTTAGGAGCTACTA	58.257	34.615	0.00	0.00	0.00	1.82
3419	8946	6.602278	AGGTTGTTTTCTTTTAGGAGCTACT	58.398	36.000	2.64	2.64	0.00	2.57
3420	8947	6.879276	AGGTTGTTTTCTTTTAGGAGCTAC	57.121	37.500	0.00	0.00	0.00	3.58
3421	8948	6.831868	ACAAGGTTGTTTTCTTTTAGGAGCTA	59.168	34.615	0.00	0.00	38.47	3.32
3422	8949	5.656859	ACAAGGTTGTTTTCTTTTAGGAGCT	59.343	36.000	0.00	0.00	38.47	4.09
3423	8950	5.902681	ACAAGGTTGTTTTCTTTTAGGAGC	58.097	37.500	0.00	0.00	38.47	4.70

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.