AutoCloner

Multiple sequence alignment - TraesCS7A01G216500

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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	TraesCS7A01G216500	chr7A	100.000	3608	0	0	1	3608	183307979	183304372	0.000000e+00	6663.0
1	TraesCS7A01G216500	chr7A	95.069	1440	71	0	609	2048	183654469	183653030	0.000000e+00	2266.0
2	TraesCS7A01G216500	chr7A	94.701	1321	70	0	728	2048	183481789	183480469	0.000000e+00	2052.0
3	TraesCS7A01G216500	chr7A	94.810	1079	54	2	2072	3149	183480493	183479416	0.000000e+00	1681.0
4	TraesCS7A01G216500	chr7A	91.771	802	57	4	2072	2873	183653054	183652262	0.000000e+00	1107.0
5	TraesCS7A01G216500	chr7A	88.017	459	42	8	1	448	183482270	183481814	6.860000e-147	531.0
6	TraesCS7A01G216500	chr7A	95.753	259	11	0	975	1233	182855638	182855380	5.570000e-113	418.0
7	TraesCS7A01G216500	chr7A	85.388	219	18	6	3391	3608	183405386	183405181	7.850000e-52	215.0
8	TraesCS7A01G216500	chr7A	88.372	172	13	6	3227	3394	183652058	183651890	2.200000e-47	200.0
9	TraesCS7A01G216500	chr7B	93.772	2810	157	6	1	2804	144735684	144732887	0.000000e+00	4204.0
10	TraesCS7A01G216500	chr7B	92.723	1443	96	3	609	2048	145053676	145052240	0.000000e+00	2074.0
11	TraesCS7A01G216500	chr7B	94.777	1321	69	0	728	2048	144811936	144810616	0.000000e+00	2058.0
12	TraesCS7A01G216500	chr7B	92.579	1078	70	6	2072	3148	144810640	144809572	0.000000e+00	1539.0
13	TraesCS7A01G216500	chr7B	93.142	802	45	5	2073	2873	145052263	145051471	0.000000e+00	1168.0
14	TraesCS7A01G216500	chr7B	88.453	459	40	8	1	448	144812417	144811961	3.170000e-150	542.0
15	TraesCS7A01G216500	chr7B	84.574	551	71	7	1	541	145054221	145053675	5.300000e-148	534.0
16	TraesCS7A01G216500	chr7B	77.197	956	187	25	979	1920	145028609	145027671	2.470000e-146	529.0
17	TraesCS7A01G216500	chr7B	91.515	165	11	3	3230	3394	144809570	144809409	1.300000e-54	224.0
18	TraesCS7A01G216500	chr7B	85.388	219	21	6	3391	3608	144809350	144809142	2.180000e-52	217.0
19	TraesCS7A01G216500	chr7B	90.476	168	9	6	3230	3394	144732540	144732377	7.850000e-52	215.0
20	TraesCS7A01G216500	chr7B	90.152	132	8	2	3015	3146	145051390	145051264	2.230000e-37	167.0
21	TraesCS7A01G216500	chr7B	86.184	152	10	7	3233	3374	145051261	145051111	1.730000e-33	154.0
22	TraesCS7A01G216500	chr7B	100.000	37	0	0	2837	2873	144732874	144732838	6.460000e-08	69.4
23	TraesCS7A01G216500	chr7D	97.426	2020	39	3	785	2804	178860205	178858199	0.000000e+00	3430.0
24	TraesCS7A01G216500	chr7D	94.701	1321	70	0	728	2048	178939232	178937912	0.000000e+00	2052.0
25	TraesCS7A01G216500	chr7D	93.548	1085	52	9	2072	3146	178937936	178936860	0.000000e+00	1600.0
26	TraesCS7A01G216500	chr7D	97.316	708	16	2	1	705	178860908	178860201	0.000000e+00	1199.0
27	TraesCS7A01G216500	chr7D	88.403	457	44	5	1	448	178939713	178939257	3.170000e-150	542.0
28	TraesCS7A01G216500	chr7D	84.268	553	70	11	1	541	179122588	179122041	1.150000e-144	523.0
29	TraesCS7A01G216500	chr7D	76.761	951	200	19	979	1920	178990013	178989075	2.480000e-141	512.0
30	TraesCS7A01G216500	chr7D	91.319	288	19	1	609	896	179122042	179121761	4.370000e-104	388.0
31	TraesCS7A01G216500	chr7D	86.111	216	19	5	3394	3608	178936689	178936484	4.690000e-54	222.0
32	TraesCS7A01G216500	chr7D	95.402	87	2	1	3308	3394	178936819	178936735	1.750000e-28	137.0
33	TraesCS7A01G216500	chr7D	92.632	95	6	1	3136	3230	22964249	22964342	6.280000e-28	135.0
34	TraesCS7A01G216500	chr4D	93.617	94	6	0	3137	3230	119051131	119051224	1.350000e-29	141.0
35	TraesCS7A01G216500	chr4D	95.349	86	4	0	3144	3229	453135397	453135312	1.750000e-28	137.0
36	TraesCS7A01G216500	chr6A	93.548	93	6	0	3137	3229	473367498	473367590	4.860000e-29	139.0
37	TraesCS7A01G216500	chr5D	91.089	101	9	0	3137	3237	278275104	278275204	1.750000e-28	137.0
38	TraesCS7A01G216500	chr2D	95.349	86	4	0	3145	3230	164992768	164992683	1.750000e-28	137.0
39	TraesCS7A01G216500	chr3D	92.553	94	7	0	3137	3230	164808400	164808307	6.280000e-28	135.0
40	TraesCS7A01G216500	chr3D	92.553	94	7	0	3137	3230	392282169	392282076	6.280000e-28	135.0
41	TraesCS7A01G216500	chr2A	91.667	96	6	2	3135	3229	156525673	156525767	8.130000e-27	132.0

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	TraesCS7A01G216500	chr7A	183304372	183307979	3607	True	6663.000000	6663	100.000000	1	3608	1	chr7A.!!$R2	3607
1	TraesCS7A01G216500	chr7A	183479416	183482270	2854	True	1421.333333	2052	92.509333	1	3149	3	chr7A.!!$R4	3148
2	TraesCS7A01G216500	chr7A	183651890	183654469	2579	True	1191.000000	2266	91.737333	609	3394	3	chr7A.!!$R5	2785
3	TraesCS7A01G216500	chr7B	144732377	144735684	3307	True	1496.133333	4204	94.749333	1	3394	3	chr7B.!!$R2	3393
4	TraesCS7A01G216500	chr7B	144809142	144812417	3275	True	916.000000	2058	90.542400	1	3608	5	chr7B.!!$R3	3607
5	TraesCS7A01G216500	chr7B	145051111	145054221	3110	True	819.400000	2074	89.355000	1	3374	5	chr7B.!!$R4	3373
6	TraesCS7A01G216500	chr7B	145027671	145028609	938	True	529.000000	529	77.197000	979	1920	1	chr7B.!!$R1	941
7	TraesCS7A01G216500	chr7D	178858199	178860908	2709	True	2314.500000	3430	97.371000	1	2804	2	chr7D.!!$R2	2803
8	TraesCS7A01G216500	chr7D	178936484	178939713	3229	True	910.600000	2052	91.633000	1	3608	5	chr7D.!!$R3	3607
9	TraesCS7A01G216500	chr7D	178989075	178990013	938	True	512.000000	512	76.761000	979	1920	1	chr7D.!!$R1	941
10	TraesCS7A01G216500	chr7D	179121761	179122588	827	True	455.500000	523	87.793500	1	896	2	chr7D.!!$R4	895

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 end TH	Hairpin	End Stability	Orientation
433	440	0.612229	CACAGAGTGCCAGTCTCCAT	59.388	55.0	0.00	32.93	3.41	F
811	821	1.032014	GCTTTCTGCACCTGTGGAAA	58.968	50.0	1.31	42.31	3.13	F
1730	1746	0.248743	GTGTCGTCTGTGGTCGTCAA	60.249	55.0	0.00	0.00	3.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	End Stability	Orientation
1618	1634	0.955919	GGAGTTCCCGTGGCTTTCTG	60.956	60.0	3.02	R
2530	2549	0.987294	CTTCCCTCTCTTGGCTTCCA	59.013	55.0	3.53	R
3213	3287	0.324738	CAGCTACTCCCTCTGTCCCA	60.325	60.0	4.37	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
201	202	3.547613	GCAATCATCAATCTTCAGTCCGC	60.548	47.826	0.00	0.00	0.00	5.54
207	208	1.734465	CAATCTTCAGTCCGCTCAACC	59.266	52.381	0.00	0.00	0.00	3.77
244	245	6.595716	AGAAGATAATACTGCTGAACCACAAC	59.404	38.462	0.00	0.00	0.00	3.32
433	440	0.612229	CACAGAGTGCCAGTCTCCAT	59.388	55.000	0.00	0.00	32.93	3.41
714	724	2.957474	TCACCTGATGATCCCGACATA	58.043	47.619	0.00	0.00	29.99	2.29
791	801	3.457380	AGTCATGGCATAGTGGATGAAGT	59.543	43.478	0.00	0.00	37.82	3.01
811	821	1.032014	GCTTTCTGCACCTGTGGAAA	58.968	50.000	0.00	1.31	42.31	3.13
871	881	6.326583	TCTGGTTGGAGATAATAACCCTAGTG	59.673	42.308	0.00	0.00	42.44	2.74
964	977	5.878116	CCCAATCAAAATGCTGATGACATTT	59.122	36.000	0.00	0.00	46.85	2.32
1317	1330	1.527433	GGAACTGCAGGGAGGCAAAC	61.527	60.000	19.93	0.00	44.40	2.93
1324	1337	1.242076	CAGGGAGGCAAACAAGACTG	58.758	55.000	0.00	0.00	0.00	3.51
1432	1445	4.101448	GGCAGGTGGCGGAGATGT	62.101	66.667	0.00	0.00	46.16	3.06
1730	1746	0.248743	GTGTCGTCTGTGGTCGTCAA	60.249	55.000	0.00	0.00	0.00	3.18
1923	1939	3.439476	CCCTTCTGATTCAAGTTCTGCTG	59.561	47.826	0.00	0.00	0.00	4.41
2105	2121	4.509600	AGCTTCAGTTGTCGAAGAAGAAAG	59.490	41.667	13.55	4.86	42.05	2.62
2163	2179	1.939974	TTTTAGCAGCATCGATCGCT	58.060	45.000	11.09	15.55	41.47	4.93
2221	2237	4.018960	GGTCTGATGATAAGGGCCATGTAT	60.019	45.833	6.18	0.00	0.00	2.29
2319	2335	3.181456	TGGCATCCATTGTCGTGATCATA	60.181	43.478	0.00	0.00	30.28	2.15
2337	2353	4.363138	TCATACTGCTGCTGAGTAAATCG	58.637	43.478	13.69	0.00	29.82	3.34
2599	2618	3.996150	CTGTTTCAGGAGCAAACACAT	57.004	42.857	0.00	0.00	38.53	3.21
2725	2744	7.597369	TCAGCATTTTTCTTCATGTTCAGATTG	59.403	33.333	0.00	0.00	0.00	2.67
2807	2827	4.393062	TGAAATTTGAGCTCGAGCCTAAAG	59.607	41.667	32.94	0.00	43.38	1.85
2824	2844	2.240493	AAGCTGCATATCGGGTACAC	57.760	50.000	1.02	0.00	0.00	2.90
3061	3121	7.806690	TGCACTTTATGTTCTTCTAACATCAC	58.193	34.615	6.64	0.00	40.87	3.06
3133	3207	9.651718	CTCATCTAAAACAAGTTTGACTAACAC	57.348	33.333	0.00	0.00	39.30	3.32
3149	3223	6.366877	TGACTAACACGCTTATTTTGTACTCC	59.633	38.462	0.00	0.00	0.00	3.85
3150	3224	5.640783	ACTAACACGCTTATTTTGTACTCCC	59.359	40.000	0.00	0.00	0.00	4.30
3151	3225	4.281898	ACACGCTTATTTTGTACTCCCT	57.718	40.909	0.00	0.00	0.00	4.20
3152	3226	4.251268	ACACGCTTATTTTGTACTCCCTC	58.749	43.478	0.00	0.00	0.00	4.30
3153	3227	3.621715	CACGCTTATTTTGTACTCCCTCC	59.378	47.826	0.00	0.00	0.00	4.30
3154	3228	2.864343	CGCTTATTTTGTACTCCCTCCG	59.136	50.000	0.00	0.00	0.00	4.63
3155	3229	3.677976	CGCTTATTTTGTACTCCCTCCGT	60.678	47.826	0.00	0.00	0.00	4.69
3156	3230	3.869832	GCTTATTTTGTACTCCCTCCGTC	59.130	47.826	0.00	0.00	0.00	4.79
3157	3231	4.439968	CTTATTTTGTACTCCCTCCGTCC	58.560	47.826	0.00	0.00	0.00	4.79
3158	3232	0.978907	TTTTGTACTCCCTCCGTCCC	59.021	55.000	0.00	0.00	0.00	4.46
3159	3233	0.178926	TTTGTACTCCCTCCGTCCCA	60.179	55.000	0.00	0.00	0.00	4.37
3160	3234	0.042131	TTGTACTCCCTCCGTCCCAT	59.958	55.000	0.00	0.00	0.00	4.00
3161	3235	0.928505	TGTACTCCCTCCGTCCCATA	59.071	55.000	0.00	0.00	0.00	2.74
3162	3236	1.288633	TGTACTCCCTCCGTCCCATAA	59.711	52.381	0.00	0.00	0.00	1.90
3163	3237	2.090943	TGTACTCCCTCCGTCCCATAAT	60.091	50.000	0.00	0.00	0.00	1.28
3164	3238	3.140707	TGTACTCCCTCCGTCCCATAATA	59.859	47.826	0.00	0.00	0.00	0.98
3165	3239	3.562108	ACTCCCTCCGTCCCATAATAT	57.438	47.619	0.00	0.00	0.00	1.28
3166	3240	4.687262	ACTCCCTCCGTCCCATAATATA	57.313	45.455	0.00	0.00	0.00	0.86
3167	3241	5.019657	ACTCCCTCCGTCCCATAATATAA	57.980	43.478	0.00	0.00	0.00	0.98
3168	3242	5.024118	ACTCCCTCCGTCCCATAATATAAG	58.976	45.833	0.00	0.00	0.00	1.73
3169	3243	5.222484	ACTCCCTCCGTCCCATAATATAAGA	60.222	44.000	0.00	0.00	0.00	2.10
3170	3244	5.269991	TCCCTCCGTCCCATAATATAAGAG	58.730	45.833	0.00	0.00	0.00	2.85
3171	3245	4.141914	CCCTCCGTCCCATAATATAAGAGC	60.142	50.000	0.00	0.00	0.00	4.09
3172	3246	4.440250	CCTCCGTCCCATAATATAAGAGCG	60.440	50.000	0.00	0.00	0.00	5.03
3173	3247	4.084287	TCCGTCCCATAATATAAGAGCGT	58.916	43.478	0.00	0.00	0.00	5.07
3174	3248	4.525487	TCCGTCCCATAATATAAGAGCGTT	59.475	41.667	0.00	0.00	0.00	4.84
3175	3249	5.011329	TCCGTCCCATAATATAAGAGCGTTT	59.989	40.000	0.00	0.00	0.00	3.60
3176	3250	5.699458	CCGTCCCATAATATAAGAGCGTTTT	59.301	40.000	0.00	0.00	0.00	2.43
3177	3251	6.128634	CCGTCCCATAATATAAGAGCGTTTTC	60.129	42.308	0.00	0.00	0.00	2.29
3178	3252	6.645415	CGTCCCATAATATAAGAGCGTTTTCT	59.355	38.462	0.00	0.00	0.00	2.52
3179	3253	7.811236	CGTCCCATAATATAAGAGCGTTTTCTA	59.189	37.037	0.00	0.00	0.00	2.10
3180	3254	8.923683	GTCCCATAATATAAGAGCGTTTTCTAC	58.076	37.037	0.00	0.00	0.00	2.59
3181	3255	8.644216	TCCCATAATATAAGAGCGTTTTCTACA	58.356	33.333	0.00	0.00	0.00	2.74
3182	3256	9.436957	CCCATAATATAAGAGCGTTTTCTACAT	57.563	33.333	0.00	0.00	0.00	2.29
3204	3278	7.479070	CATTAATGTAGTGTGAAAAACGCTC	57.521	36.000	7.32	0.00	46.98	5.03
3205	3279	6.854496	TTAATGTAGTGTGAAAAACGCTCT	57.146	33.333	0.00	0.00	46.98	4.09
3206	3280	5.751243	AATGTAGTGTGAAAAACGCTCTT	57.249	34.783	0.00	0.00	46.98	2.85
3207	3281	6.854496	AATGTAGTGTGAAAAACGCTCTTA	57.146	33.333	0.00	0.00	46.98	2.10
3208	3282	7.435068	AATGTAGTGTGAAAAACGCTCTTAT	57.565	32.000	0.00	0.00	46.98	1.73
3209	3283	8.542497	AATGTAGTGTGAAAAACGCTCTTATA	57.458	30.769	0.00	0.00	46.98	0.98
3210	3284	8.718102	ATGTAGTGTGAAAAACGCTCTTATAT	57.282	30.769	0.00	0.00	46.98	0.86
3211	3285	8.542497	TGTAGTGTGAAAAACGCTCTTATATT	57.458	30.769	0.00	0.00	46.98	1.28
3212	3286	9.642327	TGTAGTGTGAAAAACGCTCTTATATTA	57.358	29.630	0.00	0.00	46.98	0.98
3215	3289	8.612619	AGTGTGAAAAACGCTCTTATATTATGG	58.387	33.333	0.00	0.00	46.98	2.74
3216	3290	7.855904	GTGTGAAAAACGCTCTTATATTATGGG	59.144	37.037	0.00	0.00	36.31	4.00
3217	3291	7.771361	TGTGAAAAACGCTCTTATATTATGGGA	59.229	33.333	0.00	0.00	0.00	4.37
3218	3292	8.068380	GTGAAAAACGCTCTTATATTATGGGAC	58.932	37.037	0.00	0.00	0.00	4.46
3242	3316	0.610687	GGAGTAGCTGTCAGCCAGTT	59.389	55.000	21.32	5.37	43.77	3.16
3243	3317	1.002544	GGAGTAGCTGTCAGCCAGTTT	59.997	52.381	21.32	4.97	43.77	2.66
3299	3386	4.387598	AGGAGTAGTAGTACATACTGGCG	58.612	47.826	10.33	0.00	44.69	5.69
3433	3623	7.827819	TCTTTTGATTGAGTTACATACCTCG	57.172	36.000	0.00	0.00	0.00	4.63
3434	3624	6.312918	TCTTTTGATTGAGTTACATACCTCGC	59.687	38.462	0.00	0.00	0.00	5.03
3467	3658	7.467811	GCATGTTATTAGTTCACTTCATCCTGG	60.468	40.741	0.00	0.00	0.00	4.45
3469	3660	3.350219	TTAGTTCACTTCATCCTGGGC	57.650	47.619	0.00	0.00	0.00	5.36
3482	3673	2.251818	TCCTGGGCTGATATCTACTGC	58.748	52.381	3.98	3.55	0.00	4.40
3483	3674	1.973515	CCTGGGCTGATATCTACTGCA	59.026	52.381	3.98	0.00	34.70	4.41
3515	3706	5.544176	ACATTCCCTATATGAAGACGTGGAT	59.456	40.000	0.00	0.00	0.00	3.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
201	202	3.181367	GCAGGTGCATCGGTTGAG	58.819	61.111	0.00	0.00	41.59	3.02
244	245	0.683973	AGTTCCTCTGCAGTCTGGTG	59.316	55.000	14.67	0.00	0.00	4.17
360	367	2.437281	CTGGCTGTTCCCTGATAGATGT	59.563	50.000	0.00	0.00	0.00	3.06
366	373	0.333993	ATTGCTGGCTGTTCCCTGAT	59.666	50.000	0.00	0.00	0.00	2.90
433	440	2.028839	CCATTTCTGCAACATGCTGGAA	60.029	45.455	5.56	5.56	45.31	3.53
776	786	3.944015	AGAAAGCACTTCATCCACTATGC	59.056	43.478	1.90	0.00	36.40	3.14
871	881	2.105006	TCACTGCCAAGAATCTCAGC	57.895	50.000	0.00	0.00	0.00	4.26
964	977	4.879197	TCTTCAGATGCTTCTCAGTTCA	57.121	40.909	0.00	0.00	0.00	3.18
1119	1132	3.004354	AACCGGCGATGGTGGGTA	61.004	61.111	9.30	0.00	42.89	3.69
1317	1330	6.492007	AGCACTGATATGAAAACAGTCTTG	57.508	37.500	0.00	0.00	41.93	3.02
1324	1337	6.589830	ACATACGAGCACTGATATGAAAAC	57.410	37.500	0.00	0.00	0.00	2.43
1432	1445	7.307989	GCAAAAATGACTAACTGAGTGCTCTAA	60.308	37.037	0.68	0.00	39.06	2.10
1618	1634	0.955919	GGAGTTCCCGTGGCTTTCTG	60.956	60.000	0.00	0.00	0.00	3.02
1923	1939	4.920340	CCTAGTGTATCATGCATCGAAGAC	59.080	45.833	0.00	2.51	42.51	3.01
2105	2121	3.477210	ACTTGTGTCTCTTTCTCACCC	57.523	47.619	0.00	0.00	0.00	4.61
2221	2237	1.602237	GAAGGACGGGATTGCCTGA	59.398	57.895	0.00	0.00	43.76	3.86
2319	2335	3.118992	TGATCGATTTACTCAGCAGCAGT	60.119	43.478	0.00	0.00	0.00	4.40
2337	2353	1.377536	GCACAGCCTTCTTCCTGATC	58.622	55.000	0.00	0.00	33.40	2.92
2431	2450	3.825328	ACACTGAAGTCCTCAATTTGCT	58.175	40.909	0.00	0.00	32.17	3.91
2530	2549	0.987294	CTTCCCTCTCTTGGCTTCCA	59.013	55.000	0.00	0.00	0.00	3.53
2564	2583	1.410004	AACAGGTTCAGGACGTCTCA	58.590	50.000	16.46	0.00	0.00	3.27
2599	2618	1.071542	TCAAACTTCAGGTCATGCCGA	59.928	47.619	0.00	0.00	43.70	5.54
2671	2690	3.631144	ACACACAAATTGTTCGCAGATG	58.369	40.909	0.00	0.00	35.67	2.90
2725	2744	4.870190	ACACCGGTGTTCAAGTCC	57.130	55.556	34.41	0.00	41.83	3.85
2807	2827	2.914379	GGTGTACCCGATATGCAGC	58.086	57.895	0.00	0.00	0.00	5.25
2824	2844	0.525668	GTAGCTCCATCACACGACGG	60.526	60.000	0.00	0.00	0.00	4.79
3027	3087	9.944376	AGAAGAACATAAAGTGCAAGAATACTA	57.056	29.630	0.00	0.00	0.00	1.82
3061	3121	3.921119	TGCACATAAAACAGCTCAAGG	57.079	42.857	0.00	0.00	0.00	3.61
3130	3204	4.251268	GAGGGAGTACAAAATAAGCGTGT	58.749	43.478	0.00	0.00	0.00	4.49
3133	3207	2.864343	CGGAGGGAGTACAAAATAAGCG	59.136	50.000	0.00	0.00	0.00	4.68
3149	3223	4.440250	CGCTCTTATATTATGGGACGGAGG	60.440	50.000	0.00	0.00	0.00	4.30
3150	3224	4.158025	ACGCTCTTATATTATGGGACGGAG	59.842	45.833	0.00	0.00	0.00	4.63
3151	3225	4.084287	ACGCTCTTATATTATGGGACGGA	58.916	43.478	0.00	0.00	0.00	4.69
3152	3226	4.451629	ACGCTCTTATATTATGGGACGG	57.548	45.455	0.00	0.00	0.00	4.79
3153	3227	6.645415	AGAAAACGCTCTTATATTATGGGACG	59.355	38.462	0.00	0.00	0.00	4.79
3154	3228	7.964604	AGAAAACGCTCTTATATTATGGGAC	57.035	36.000	0.00	0.00	0.00	4.46
3155	3229	8.644216	TGTAGAAAACGCTCTTATATTATGGGA	58.356	33.333	0.00	0.00	0.00	4.37
3156	3230	8.827177	TGTAGAAAACGCTCTTATATTATGGG	57.173	34.615	0.00	0.00	0.00	4.00
3178	3252	8.090250	AGCGTTTTTCACACTACATTAATGTA	57.910	30.769	23.51	23.51	41.97	2.29
3179	3253	6.966021	AGCGTTTTTCACACTACATTAATGT	58.034	32.000	23.80	23.80	44.48	2.71
3180	3254	7.298122	AGAGCGTTTTTCACACTACATTAATG	58.702	34.615	14.01	14.01	0.00	1.90
3181	3255	7.435068	AGAGCGTTTTTCACACTACATTAAT	57.565	32.000	0.00	0.00	0.00	1.40
3182	3256	6.854496	AGAGCGTTTTTCACACTACATTAA	57.146	33.333	0.00	0.00	0.00	1.40
3183	3257	6.854496	AAGAGCGTTTTTCACACTACATTA	57.146	33.333	0.00	0.00	0.00	1.90
3184	3258	5.751243	AAGAGCGTTTTTCACACTACATT	57.249	34.783	0.00	0.00	0.00	2.71
3185	3259	8.718102	ATATAAGAGCGTTTTTCACACTACAT	57.282	30.769	0.00	0.00	0.00	2.29
3186	3260	8.542497	AATATAAGAGCGTTTTTCACACTACA	57.458	30.769	0.00	0.00	0.00	2.74
3189	3263	8.612619	CCATAATATAAGAGCGTTTTTCACACT	58.387	33.333	0.00	0.00	0.00	3.55
3190	3264	7.855904	CCCATAATATAAGAGCGTTTTTCACAC	59.144	37.037	0.00	0.00	0.00	3.82
3191	3265	7.771361	TCCCATAATATAAGAGCGTTTTTCACA	59.229	33.333	0.00	0.00	0.00	3.58
3192	3266	8.068380	GTCCCATAATATAAGAGCGTTTTTCAC	58.932	37.037	0.00	0.00	0.00	3.18
3193	3267	7.771361	TGTCCCATAATATAAGAGCGTTTTTCA	59.229	33.333	0.00	0.00	0.00	2.69
3194	3268	8.149973	TGTCCCATAATATAAGAGCGTTTTTC	57.850	34.615	0.00	0.00	0.00	2.29
3195	3269	7.990886	TCTGTCCCATAATATAAGAGCGTTTTT	59.009	33.333	0.00	0.00	0.00	1.94
3196	3270	7.506114	TCTGTCCCATAATATAAGAGCGTTTT	58.494	34.615	0.00	0.00	0.00	2.43
3197	3271	7.062749	TCTGTCCCATAATATAAGAGCGTTT	57.937	36.000	0.00	0.00	0.00	3.60
3198	3272	6.295349	CCTCTGTCCCATAATATAAGAGCGTT	60.295	42.308	0.00	0.00	0.00	4.84
3199	3273	5.186021	CCTCTGTCCCATAATATAAGAGCGT	59.814	44.000	0.00	0.00	0.00	5.07
3200	3274	5.394663	CCCTCTGTCCCATAATATAAGAGCG	60.395	48.000	0.00	0.00	0.00	5.03
3201	3275	5.721960	TCCCTCTGTCCCATAATATAAGAGC	59.278	44.000	0.00	0.00	0.00	4.09
3202	3276	6.957020	ACTCCCTCTGTCCCATAATATAAGAG	59.043	42.308	0.00	0.00	0.00	2.85
3203	3277	6.875469	ACTCCCTCTGTCCCATAATATAAGA	58.125	40.000	0.00	0.00	0.00	2.10
3204	3278	7.147811	GCTACTCCCTCTGTCCCATAATATAAG	60.148	44.444	0.00	0.00	0.00	1.73
3205	3279	6.668283	GCTACTCCCTCTGTCCCATAATATAA	59.332	42.308	0.00	0.00	0.00	0.98
3206	3280	6.010650	AGCTACTCCCTCTGTCCCATAATATA	60.011	42.308	0.00	0.00	0.00	0.86
3207	3281	5.026790	GCTACTCCCTCTGTCCCATAATAT	58.973	45.833	0.00	0.00	0.00	1.28
3208	3282	4.108124	AGCTACTCCCTCTGTCCCATAATA	59.892	45.833	0.00	0.00	0.00	0.98
3209	3283	3.116551	AGCTACTCCCTCTGTCCCATAAT	60.117	47.826	0.00	0.00	0.00	1.28
3210	3284	2.247635	AGCTACTCCCTCTGTCCCATAA	59.752	50.000	0.00	0.00	0.00	1.90
3211	3285	1.860240	AGCTACTCCCTCTGTCCCATA	59.140	52.381	0.00	0.00	0.00	2.74
3212	3286	0.639392	AGCTACTCCCTCTGTCCCAT	59.361	55.000	0.00	0.00	0.00	4.00
3213	3287	0.324738	CAGCTACTCCCTCTGTCCCA	60.325	60.000	0.00	0.00	0.00	4.37
3214	3288	0.324830	ACAGCTACTCCCTCTGTCCC	60.325	60.000	0.00	0.00	36.42	4.46
3215	3289	1.107945	GACAGCTACTCCCTCTGTCC	58.892	60.000	9.70	0.00	46.56	4.02
3217	3291	1.846007	CTGACAGCTACTCCCTCTGT	58.154	55.000	0.00	0.00	43.06	3.41
3218	3292	0.459489	GCTGACAGCTACTCCCTCTG	59.541	60.000	20.41	0.00	38.45	3.35
3219	3293	0.686112	GGCTGACAGCTACTCCCTCT	60.686	60.000	25.92	0.00	41.99	3.69
3220	3294	0.972983	TGGCTGACAGCTACTCCCTC	60.973	60.000	25.92	8.13	41.99	4.30
3221	3295	0.975040	CTGGCTGACAGCTACTCCCT	60.975	60.000	25.92	0.00	41.99	4.20
3222	3296	1.519719	CTGGCTGACAGCTACTCCC	59.480	63.158	25.92	9.56	41.99	4.30
3277	3354	4.387598	CGCCAGTATGTACTACTACTCCT	58.612	47.826	0.00	0.00	38.68	3.69
3299	3386	0.598419	GAACTGCAAAGCCTTGGTGC	60.598	55.000	0.00	0.00	38.78	5.01
3433	3623	7.707104	AGTGAACTAATAACATGCATAAAGGC	58.293	34.615	0.00	0.00	0.00	4.35
3434	3624	9.722056	GAAGTGAACTAATAACATGCATAAAGG	57.278	33.333	0.00	0.00	0.00	3.11
3467	3658	5.126067	TCCTTTTTGCAGTAGATATCAGCC	58.874	41.667	5.32	0.00	0.00	4.85
3469	3660	7.615582	TGTTCCTTTTTGCAGTAGATATCAG	57.384	36.000	5.32	0.00	0.00	2.90
3482	3673	9.189156	TCTTCATATAGGGAATGTTCCTTTTTG	57.811	33.333	11.32	3.73	46.72	2.44
3483	3674	9.190317	GTCTTCATATAGGGAATGTTCCTTTTT	57.810	33.333	11.32	0.00	46.72	1.94
3501	3692	9.878667	TGTTCTAAATAAATCCACGTCTTCATA	57.121	29.630	0.00	0.00	0.00	2.15
3502	3693	8.665685	GTGTTCTAAATAAATCCACGTCTTCAT	58.334	33.333	0.00	0.00	0.00	2.57
3503	3694	7.658167	TGTGTTCTAAATAAATCCACGTCTTCA	59.342	33.333	0.00	0.00	0.00	3.02
3504	3695	8.025243	TGTGTTCTAAATAAATCCACGTCTTC	57.975	34.615	0.00	0.00	0.00	2.87
3505	3696	7.972832	TGTGTTCTAAATAAATCCACGTCTT	57.027	32.000	0.00	0.00	0.00	3.01
3506	3697	7.065803	CCATGTGTTCTAAATAAATCCACGTCT	59.934	37.037	0.00	0.00	0.00	4.18
3540	3731	9.762933	ACATCAATGTTAGCAAAAATTAGTGTT	57.237	25.926	0.00	0.00	37.90	3.32
3573	3764	4.285003	TGTTCTGCCTAGGTTGCTAACTAA	59.715	41.667	11.31	0.00	0.00	2.24
3574	3765	3.835978	TGTTCTGCCTAGGTTGCTAACTA	59.164	43.478	11.31	0.00	0.00	2.24
3575	3766	2.637872	TGTTCTGCCTAGGTTGCTAACT	59.362	45.455	11.31	0.00	0.00	2.24
3576	3767	3.053831	TGTTCTGCCTAGGTTGCTAAC	57.946	47.619	11.31	8.79	0.00	2.34
3587	3778	0.403271	AGCCAGACAATGTTCTGCCT	59.597	50.000	7.13	0.63	41.61	4.75

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.