AutoCloner

Multiple sequence alignment - TraesCS5D01G286800

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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	TraesCS5D01G286800	chr5D	100.000	3413	0	0	394	3806	386948157	386944745	0.000000e+00	6303.0
1	TraesCS5D01G286800	chr5D	100.000	201	0	0	1	201	386948550	386948350	4.640000e-99	372.0
2	TraesCS5D01G286800	chr6A	96.415	2371	42	2	1319	3689	610229813	610227486	0.000000e+00	3868.0
3	TraesCS5D01G286800	chr6A	97.690	303	7	0	394	696	610230110	610229808	4.360000e-144	521.0
4	TraesCS5D01G286800	chr6A	97.015	201	6	0	1	201	610230408	610230208	4.710000e-89	339.0
5	TraesCS5D01G286800	chr6A	92.308	65	4	1	3212	3275	610228031	610227967	1.460000e-14	91.6
6	TraesCS5D01G286800	chr2A	92.690	2093	133	14	832	2908	748173805	748175893	0.000000e+00	3000.0
7	TraesCS5D01G286800	chr2A	92.857	448	29	3	394	838	748173282	748173729	0.000000e+00	647.0
8	TraesCS5D01G286800	chr2A	93.467	199	13	0	1	199	748172984	748173182	2.870000e-76	296.0
9	TraesCS5D01G286800	chr3B	92.400	2079	148	5	833	2908	819196549	819194478	0.000000e+00	2955.0
10	TraesCS5D01G286800	chr3B	93.072	433	29	1	394	825	819197077	819196645	1.930000e-177	632.0
11	TraesCS5D01G286800	chr3B	94.030	201	12	0	1	201	819197375	819197175	4.780000e-79	305.0
12	TraesCS5D01G286800	chr5B	91.275	2086	121	15	833	2917	327189652	327191677	0.000000e+00	2787.0
13	TraesCS5D01G286800	chr5B	93.981	432	26	0	394	825	327189147	327189578	0.000000e+00	654.0
14	TraesCS5D01G286800	chr5B	91.045	201	14	2	1	201	327188848	327189044	6.270000e-68	268.0
15	TraesCS5D01G286800	chr5B	92.800	125	5	1	3684	3804	465021506	465021382	1.090000e-40	178.0
16	TraesCS5D01G286800	chr6B	85.450	2433	259	44	833	3207	317701351	317703746	0.000000e+00	2444.0
17	TraesCS5D01G286800	chr6B	85.136	2126	248	36	833	2926	317691737	317693826	0.000000e+00	2113.0
18	TraesCS5D01G286800	chr6B	83.847	1331	168	28	1618	2926	317696384	317697689	0.000000e+00	1223.0
19	TraesCS5D01G286800	chr6B	89.607	433	43	2	394	825	317700827	317701258	2.000000e-152	549.0
20	TraesCS5D01G286800	chr6B	87.064	487	46	10	3212	3689	317703682	317704160	5.600000e-148	534.0
21	TraesCS5D01G286800	chr6B	88.915	433	46	2	394	825	317691213	317691644	2.010000e-147	532.0
22	TraesCS5D01G286800	chr6B	89.259	270	26	3	3423	3689	317694191	317693922	6.090000e-88	335.0
23	TraesCS5D01G286800	chr6B	88.561	271	27	4	3423	3689	317688442	317688172	3.670000e-85	326.0
24	TraesCS5D01G286800	chr6B	88.519	270	28	3	3423	3689	317698054	317697785	1.320000e-84	324.0
25	TraesCS5D01G286800	chr6B	89.055	201	22	0	1	201	317690915	317691115	2.270000e-62	250.0
26	TraesCS5D01G286800	chr6B	89.055	201	22	0	1	201	317700529	317700729	2.270000e-62	250.0
27	TraesCS5D01G286800	chr3D	97.089	1443	32	1	2247	3689	547777733	547776301	0.000000e+00	2423.0
28	TraesCS5D01G286800	chr6D	93.200	1500	101	1	1409	2908	365442939	365444437	0.000000e+00	2204.0
29	TraesCS5D01G286800	chr7A	92.837	1410	52	11	2289	3689	367014684	367013315	0.000000e+00	1999.0
30	TraesCS5D01G286800	chr1B	83.605	1781	232	46	394	2136	658179371	658181129	0.000000e+00	1616.0
31	TraesCS5D01G286800	chr1A	83.249	1779	240	36	394	2136	581678314	581680070	0.000000e+00	1581.0
32	TraesCS5D01G286800	chr2D	82.606	1673	227	49	833	2476	618650220	618651857	0.000000e+00	1419.0
33	TraesCS5D01G286800	chr2D	84.111	1328	172	28	394	1716	600052044	600050751	0.000000e+00	1247.0
34	TraesCS5D01G286800	chr7B	87.748	1110	110	10	840	1939	97861647	97860554	0.000000e+00	1273.0
35	TraesCS5D01G286800	chr7B	82.291	1327	159	38	1928	3205	97860054	97858755	0.000000e+00	1079.0
36	TraesCS5D01G286800	chr7B	86.831	486	44	13	3212	3686	97858222	97857746	3.370000e-145	525.0
37	TraesCS5D01G286800	chr7B	86.133	512	42	10	2720	3205	97858668	97858160	3.370000e-145	525.0
38	TraesCS5D01G286800	chr7B	85.978	271	35	3	3410	3677	97866146	97866416	1.730000e-73	287.0
39	TraesCS5D01G286800	chr7B	87.562	201	25	0	1	201	97863689	97863489	2.290000e-57	233.0

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	TraesCS5D01G286800	chr5D	386944745	386948550	3805	True	3337.500000	6303	100.000000	1	3806	2	chr5D.!!$R1	3805
1	TraesCS5D01G286800	chr6A	610227486	610230408	2922	True	1204.900000	3868	95.857000	1	3689	4	chr6A.!!$R1	3688
2	TraesCS5D01G286800	chr2A	748172984	748175893	2909	False	1314.333333	3000	93.004667	1	2908	3	chr2A.!!$F1	2907
3	TraesCS5D01G286800	chr3B	819194478	819197375	2897	True	1297.333333	2955	93.167333	1	2908	3	chr3B.!!$R1	2907
4	TraesCS5D01G286800	chr5B	327188848	327191677	2829	False	1236.333333	2787	92.100333	1	2917	3	chr5B.!!$F1	2916
5	TraesCS5D01G286800	chr6B	317690915	317704160	13245	False	986.875000	2444	87.266125	1	3689	8	chr6B.!!$F1	3688
6	TraesCS5D01G286800	chr6B	317693922	317698054	4132	True	329.500000	335	88.889000	3423	3689	2	chr6B.!!$R2	266
7	TraesCS5D01G286800	chr3D	547776301	547777733	1432	True	2423.000000	2423	97.089000	2247	3689	1	chr3D.!!$R1	1442
8	TraesCS5D01G286800	chr6D	365442939	365444437	1498	False	2204.000000	2204	93.200000	1409	2908	1	chr6D.!!$F1	1499
9	TraesCS5D01G286800	chr7A	367013315	367014684	1369	True	1999.000000	1999	92.837000	2289	3689	1	chr7A.!!$R1	1400
10	TraesCS5D01G286800	chr1B	658179371	658181129	1758	False	1616.000000	1616	83.605000	394	2136	1	chr1B.!!$F1	1742
11	TraesCS5D01G286800	chr1A	581678314	581680070	1756	False	1581.000000	1581	83.249000	394	2136	1	chr1A.!!$F1	1742
12	TraesCS5D01G286800	chr2D	618650220	618651857	1637	False	1419.000000	1419	82.606000	833	2476	1	chr2D.!!$F1	1643
13	TraesCS5D01G286800	chr2D	600050751	600052044	1293	True	1247.000000	1247	84.111000	394	1716	1	chr2D.!!$R1	1322
14	TraesCS5D01G286800	chr7B	97857746	97863689	5943	True	727.000000	1273	86.113000	1	3686	5	chr7B.!!$R1	3685

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	End Stability	Orientation
504	10119	0.961857	TGGTCACTGGATGCATGCAC	60.962	55.000	25.37	16.53	4.57	F
681	11509	1.142870	CAGTTGGGAGTGGTTTCTGGA	59.857	52.381	0.00	0.00	3.86	F
1007	11951	2.573462	ACAACCCTGCATACATGAGAGT	59.427	45.455	0.00	0.00	3.24	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1755	12710	5.704978	GTCAAGCTTCTCTTCTGGATCTTTT	59.295	40.000	0.00	0.00	31.27	2.27	R
2681	14248	6.043012	TCCAAACATCAAGTTCCAAAATCCAT	59.957	34.615	0.00	0.00	40.26	3.41	R
2945	15118	2.180017	GAAAGTGCCGCATGCCAG	59.820	61.111	13.15	4.92	40.16	4.85	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
101	102	1.040646	TGACAGCTCCGTTTCTCACT	58.959	50.000	0.00	0.00	0.00	3.41
141	142	4.288105	AGTTCAGGGACAATGAGAAGATGT	59.712	41.667	0.00	0.00	0.00	3.06
143	144	3.118992	TCAGGGACAATGAGAAGATGTCG	60.119	47.826	0.00	0.00	43.38	4.35
157	158	8.405531	TGAGAAGATGTCGTTGAAGAAATTTTT	58.594	29.630	0.00	0.00	0.00	1.94
481	10096	7.624549	AGATAAAAGAGCACTTCTCCACATTA	58.375	34.615	0.00	0.00	42.90	1.90
504	10119	0.961857	TGGTCACTGGATGCATGCAC	60.962	55.000	25.37	16.53	0.00	4.57
681	11509	1.142870	CAGTTGGGAGTGGTTTCTGGA	59.857	52.381	0.00	0.00	0.00	3.86
736	11564	5.468072	CACCTCTCCATACACAATTATGAGC	59.532	44.000	0.00	0.00	31.96	4.26
805	11635	7.094420	CCACCATGACTTGTTGTATGTGAATTA	60.094	37.037	0.00	0.00	0.00	1.40
885	11828	3.587797	GGCAAAGATATGGCATGATGG	57.412	47.619	10.98	0.00	44.66	3.51
1007	11951	2.573462	ACAACCCTGCATACATGAGAGT	59.427	45.455	0.00	0.00	0.00	3.24
1058	12002	4.637091	TGATGCATACAAATGGTGTGAGAG	59.363	41.667	0.00	0.00	40.75	3.20
1095	12039	8.377799	AGAACCTGGATTAAAGCATTTTTCAAT	58.622	29.630	0.00	0.00	40.09	2.57
1755	12710	6.718294	GGGTAGACCAAGGAGAAATAGAAAA	58.282	40.000	0.21	0.00	39.85	2.29
2346	13843	4.100498	GGGGTGTTACTGAAGATATTCCGA	59.900	45.833	0.00	0.00	0.00	4.55
2493	14042	4.385310	GGGGAAATGCTACAAGAGGTGTAT	60.385	45.833	0.00	0.00	41.93	2.29
2681	14248	1.229529	GAAGGACTGGACCAGGGGA	60.230	63.158	25.34	0.00	35.51	4.81
2945	15118	3.924686	ACACGTACTGCACTTAAGTATGC	59.075	43.478	8.04	9.41	39.67	3.14
3233	15494	4.730657	CAGTTCTGATGCTGTCAAATTCC	58.269	43.478	0.00	0.00	36.14	3.01
3351	15614	2.180276	CTAGTAGCCAGTGGGACAGTT	58.820	52.381	12.15	0.00	40.27	3.16
3698	19829	8.732746	ACCACCAGTGATATTATAGAAACAAC	57.267	34.615	0.00	0.00	0.00	3.32
3699	19830	7.773690	ACCACCAGTGATATTATAGAAACAACC	59.226	37.037	0.00	0.00	0.00	3.77
3700	19831	7.773224	CCACCAGTGATATTATAGAAACAACCA	59.227	37.037	0.00	0.00	0.00	3.67
3701	19832	8.612619	CACCAGTGATATTATAGAAACAACCAC	58.387	37.037	0.00	0.00	0.00	4.16
3702	19833	7.773690	ACCAGTGATATTATAGAAACAACCACC	59.226	37.037	0.00	0.00	0.00	4.61
3703	19834	7.773224	CCAGTGATATTATAGAAACAACCACCA	59.227	37.037	0.00	0.00	0.00	4.17
3704	19835	8.612619	CAGTGATATTATAGAAACAACCACCAC	58.387	37.037	0.00	0.00	0.00	4.16
3705	19836	8.325787	AGTGATATTATAGAAACAACCACCACA	58.674	33.333	0.00	0.00	0.00	4.17
3706	19837	8.395633	GTGATATTATAGAAACAACCACCACAC	58.604	37.037	0.00	0.00	0.00	3.82
3707	19838	7.554835	TGATATTATAGAAACAACCACCACACC	59.445	37.037	0.00	0.00	0.00	4.16
3708	19839	3.586470	ATAGAAACAACCACCACACCA	57.414	42.857	0.00	0.00	0.00	4.17
3709	19840	2.223803	AGAAACAACCACCACACCAA	57.776	45.000	0.00	0.00	0.00	3.67
3710	19841	2.099405	AGAAACAACCACCACACCAAG	58.901	47.619	0.00	0.00	0.00	3.61
3711	19842	2.096248	GAAACAACCACCACACCAAGA	58.904	47.619	0.00	0.00	0.00	3.02
3712	19843	1.762708	AACAACCACCACACCAAGAG	58.237	50.000	0.00	0.00	0.00	2.85
3713	19844	0.623723	ACAACCACCACACCAAGAGT	59.376	50.000	0.00	0.00	0.00	3.24
3714	19845	1.841277	ACAACCACCACACCAAGAGTA	59.159	47.619	0.00	0.00	0.00	2.59
3715	19846	2.218603	CAACCACCACACCAAGAGTAC	58.781	52.381	0.00	0.00	0.00	2.73
3716	19847	1.502690	ACCACCACACCAAGAGTACA	58.497	50.000	0.00	0.00	0.00	2.90
3717	19848	2.054799	ACCACCACACCAAGAGTACAT	58.945	47.619	0.00	0.00	0.00	2.29
3718	19849	3.244582	ACCACCACACCAAGAGTACATA	58.755	45.455	0.00	0.00	0.00	2.29
3719	19850	3.260884	ACCACCACACCAAGAGTACATAG	59.739	47.826	0.00	0.00	0.00	2.23
3720	19851	3.260884	CCACCACACCAAGAGTACATAGT	59.739	47.826	0.00	0.00	0.00	2.12
3721	19852	4.262894	CCACCACACCAAGAGTACATAGTT	60.263	45.833	0.00	0.00	0.00	2.24
3722	19853	5.305585	CACCACACCAAGAGTACATAGTTT	58.694	41.667	0.00	0.00	0.00	2.66
3723	19854	6.460781	CACCACACCAAGAGTACATAGTTTA	58.539	40.000	0.00	0.00	0.00	2.01
3724	19855	6.590292	CACCACACCAAGAGTACATAGTTTAG	59.410	42.308	0.00	0.00	0.00	1.85
3725	19856	6.495872	ACCACACCAAGAGTACATAGTTTAGA	59.504	38.462	0.00	0.00	0.00	2.10
3726	19857	7.036220	CCACACCAAGAGTACATAGTTTAGAG	58.964	42.308	0.00	0.00	0.00	2.43
3727	19858	7.036220	CACACCAAGAGTACATAGTTTAGAGG	58.964	42.308	0.00	0.00	0.00	3.69
3728	19859	6.952358	ACACCAAGAGTACATAGTTTAGAGGA	59.048	38.462	0.00	0.00	0.00	3.71
3729	19860	7.620094	ACACCAAGAGTACATAGTTTAGAGGAT	59.380	37.037	0.00	0.00	0.00	3.24
3730	19861	9.132923	CACCAAGAGTACATAGTTTAGAGGATA	57.867	37.037	0.00	0.00	0.00	2.59
3731	19862	9.134055	ACCAAGAGTACATAGTTTAGAGGATAC	57.866	37.037	0.00	0.00	0.00	2.24
3732	19863	9.132923	CCAAGAGTACATAGTTTAGAGGATACA	57.867	37.037	0.00	0.00	41.41	2.29
3769	19900	8.561932	AGAAAAACGAAAAAGATACAAGAAGC	57.438	30.769	0.00	0.00	0.00	3.86
3770	19901	8.406297	AGAAAAACGAAAAAGATACAAGAAGCT	58.594	29.630	0.00	0.00	0.00	3.74
3771	19902	9.659830	GAAAAACGAAAAAGATACAAGAAGCTA	57.340	29.630	0.00	0.00	0.00	3.32
3772	19903	9.447040	AAAAACGAAAAAGATACAAGAAGCTAC	57.553	29.630	0.00	0.00	0.00	3.58
3773	19904	7.724305	AACGAAAAAGATACAAGAAGCTACA	57.276	32.000	0.00	0.00	0.00	2.74
3774	19905	7.352719	ACGAAAAAGATACAAGAAGCTACAG	57.647	36.000	0.00	0.00	0.00	2.74
3775	19906	7.152645	ACGAAAAAGATACAAGAAGCTACAGA	58.847	34.615	0.00	0.00	0.00	3.41
3776	19907	7.656137	ACGAAAAAGATACAAGAAGCTACAGAA	59.344	33.333	0.00	0.00	0.00	3.02
3777	19908	7.952637	CGAAAAAGATACAAGAAGCTACAGAAC	59.047	37.037	0.00	0.00	0.00	3.01
3778	19909	6.952935	AAAGATACAAGAAGCTACAGAACG	57.047	37.500	0.00	0.00	0.00	3.95
3779	19910	5.000012	AGATACAAGAAGCTACAGAACGG	58.000	43.478	0.00	0.00	0.00	4.44
3780	19911	1.797025	ACAAGAAGCTACAGAACGGC	58.203	50.000	0.00	0.00	0.00	5.68
3781	19912	1.344763	ACAAGAAGCTACAGAACGGCT	59.655	47.619	0.00	0.00	37.99	5.52
3782	19913	2.561419	ACAAGAAGCTACAGAACGGCTA	59.439	45.455	0.00	0.00	35.06	3.93
3783	19914	3.195825	ACAAGAAGCTACAGAACGGCTAT	59.804	43.478	0.00	0.00	35.06	2.97
3784	19915	3.719173	AGAAGCTACAGAACGGCTATC	57.281	47.619	0.00	0.00	35.06	2.08
3785	19916	2.362717	AGAAGCTACAGAACGGCTATCC	59.637	50.000	0.00	0.00	35.06	2.59
3786	19917	1.776662	AGCTACAGAACGGCTATCCA	58.223	50.000	0.00	0.00	34.31	3.41
3787	19918	1.409427	AGCTACAGAACGGCTATCCAC	59.591	52.381	0.00	0.00	34.31	4.02
3788	19919	1.136305	GCTACAGAACGGCTATCCACA	59.864	52.381	0.00	0.00	0.00	4.17
3789	19920	2.418197	GCTACAGAACGGCTATCCACAA	60.418	50.000	0.00	0.00	0.00	3.33
3790	19921	2.094762	ACAGAACGGCTATCCACAAC	57.905	50.000	0.00	0.00	0.00	3.32
3791	19922	0.999406	CAGAACGGCTATCCACAACG	59.001	55.000	0.00	0.00	0.00	4.10
3792	19923	0.892755	AGAACGGCTATCCACAACGA	59.107	50.000	0.00	0.00	0.00	3.85
3793	19924	1.274167	AGAACGGCTATCCACAACGAA	59.726	47.619	0.00	0.00	0.00	3.85
3794	19925	1.392510	GAACGGCTATCCACAACGAAC	59.607	52.381	0.00	0.00	0.00	3.95
3795	19926	0.390735	ACGGCTATCCACAACGAACC	60.391	55.000	0.00	0.00	0.00	3.62
3796	19927	1.087771	CGGCTATCCACAACGAACCC	61.088	60.000	0.00	0.00	0.00	4.11
3797	19928	0.035820	GGCTATCCACAACGAACCCA	60.036	55.000	0.00	0.00	0.00	4.51
3798	19929	1.612199	GGCTATCCACAACGAACCCAA	60.612	52.381	0.00	0.00	0.00	4.12
3799	19930	1.737793	GCTATCCACAACGAACCCAAG	59.262	52.381	0.00	0.00	0.00	3.61
3800	19931	1.737793	CTATCCACAACGAACCCAAGC	59.262	52.381	0.00	0.00	0.00	4.01
3801	19932	0.893727	ATCCACAACGAACCCAAGCC	60.894	55.000	0.00	0.00	0.00	4.35
3802	19933	2.561037	CCACAACGAACCCAAGCCC	61.561	63.158	0.00	0.00	0.00	5.19
3803	19934	1.528309	CACAACGAACCCAAGCCCT	60.528	57.895	0.00	0.00	0.00	5.19
3804	19935	1.528309	ACAACGAACCCAAGCCCTG	60.528	57.895	0.00	0.00	0.00	4.45
3805	19936	2.597510	AACGAACCCAAGCCCTGC	60.598	61.111	0.00	0.00	0.00	4.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
101	102	7.777910	TCCCTGAACTTGTCTTTGAATTTTCTA	59.222	33.333	0.00	0.00	0.00	2.10
117	118	4.982241	TCTTCTCATTGTCCCTGAACTT	57.018	40.909	0.00	0.00	0.00	2.66
141	142	8.342634	CACCTTCTCTAAAAATTTCTTCAACGA	58.657	33.333	0.00	0.00	0.00	3.85
143	144	7.920682	TGCACCTTCTCTAAAAATTTCTTCAAC	59.079	33.333	0.00	0.00	0.00	3.18
157	158	4.587262	TGTACTCTGTTTGCACCTTCTCTA	59.413	41.667	0.00	0.00	0.00	2.43
481	10096	2.889045	GCATGCATCCAGTGACCAATAT	59.111	45.455	14.21	0.00	0.00	1.28
504	10119	2.874701	CAACCATTAAGCCATCCTCTCG	59.125	50.000	0.00	0.00	0.00	4.04
681	11509	4.202567	TGTTGAGGTCATCCTTTAGGCTTT	60.203	41.667	0.00	0.00	45.24	3.51
736	11564	4.226761	GACCAAATACCTTTTGCTTGTCG	58.773	43.478	0.00	0.00	0.00	4.35
825	11655	5.336610	CCCTGCAATTTCACATAATGTCACA	60.337	40.000	0.00	0.00	0.00	3.58
826	11656	5.104374	CCCTGCAATTTCACATAATGTCAC	58.896	41.667	0.00	0.00	0.00	3.67
828	11658	5.126061	AGACCCTGCAATTTCACATAATGTC	59.874	40.000	0.00	0.00	0.00	3.06
829	11659	5.018809	AGACCCTGCAATTTCACATAATGT	58.981	37.500	0.00	0.00	0.00	2.71
830	11660	5.125900	TGAGACCCTGCAATTTCACATAATG	59.874	40.000	0.00	0.00	0.00	1.90
1007	11951	6.647334	TGTCTTGTTCCATCTTTTGCATTA	57.353	33.333	0.00	0.00	0.00	1.90
1058	12002	0.967380	CCAGGTTCTTGGTGGCCATC	60.967	60.000	9.72	9.78	31.53	3.51
1095	12039	5.139727	AGAATGTCACACTTTGGAAATGGA	58.860	37.500	0.00	0.00	0.00	3.41
1140	12084	8.432805	CCTATCCTCACAACTTACCTATTGAAT	58.567	37.037	0.00	0.00	0.00	2.57
1191	12135	7.088272	CACACATGAGAATGAACACAAATGAT	58.912	34.615	0.00	0.00	0.00	2.45
1755	12710	5.704978	GTCAAGCTTCTCTTCTGGATCTTTT	59.295	40.000	0.00	0.00	31.27	2.27
2681	14248	6.043012	TCCAAACATCAAGTTCCAAAATCCAT	59.957	34.615	0.00	0.00	40.26	3.41
2848	15010	5.627499	TCATTGGTGAACTTAGTTGCATC	57.373	39.130	0.93	1.89	0.00	3.91
2945	15118	2.180017	GAAAGTGCCGCATGCCAG	59.820	61.111	13.15	4.92	40.16	4.85
3072	15262	8.094548	ACTAATCATCAGTAACAAGTTGCACTA	58.905	33.333	1.81	0.00	0.00	2.74
3351	15614	4.410228	AGGCTAAATCATCAGTTGCCTCTA	59.590	41.667	0.00	0.00	44.99	2.43
3393	15656	5.135508	ACCGCACTGGATACTGAATATAC	57.864	43.478	0.00	0.00	42.00	1.47
3689	19820	3.054287	TCTTGGTGTGGTGGTTGTTTCTA	60.054	43.478	0.00	0.00	0.00	2.10
3690	19821	2.099405	CTTGGTGTGGTGGTTGTTTCT	58.901	47.619	0.00	0.00	0.00	2.52
3691	19822	2.096248	TCTTGGTGTGGTGGTTGTTTC	58.904	47.619	0.00	0.00	0.00	2.78
3692	19823	2.099405	CTCTTGGTGTGGTGGTTGTTT	58.901	47.619	0.00	0.00	0.00	2.83
3693	19824	1.005450	ACTCTTGGTGTGGTGGTTGTT	59.995	47.619	0.00	0.00	0.00	2.83
3694	19825	0.623723	ACTCTTGGTGTGGTGGTTGT	59.376	50.000	0.00	0.00	0.00	3.32
3695	19826	2.218603	GTACTCTTGGTGTGGTGGTTG	58.781	52.381	0.00	0.00	0.00	3.77
3696	19827	1.841277	TGTACTCTTGGTGTGGTGGTT	59.159	47.619	0.00	0.00	0.00	3.67
3697	19828	1.502690	TGTACTCTTGGTGTGGTGGT	58.497	50.000	0.00	0.00	0.00	4.16
3698	19829	2.859165	ATGTACTCTTGGTGTGGTGG	57.141	50.000	0.00	0.00	0.00	4.61
3699	19830	4.537135	ACTATGTACTCTTGGTGTGGTG	57.463	45.455	0.00	0.00	0.00	4.17
3700	19831	5.562298	AAACTATGTACTCTTGGTGTGGT	57.438	39.130	0.00	0.00	0.00	4.16
3701	19832	6.931838	TCTAAACTATGTACTCTTGGTGTGG	58.068	40.000	0.00	0.00	0.00	4.17
3702	19833	7.036220	CCTCTAAACTATGTACTCTTGGTGTG	58.964	42.308	0.00	0.00	0.00	3.82
3703	19834	6.952358	TCCTCTAAACTATGTACTCTTGGTGT	59.048	38.462	0.00	0.00	0.00	4.16
3704	19835	7.406031	TCCTCTAAACTATGTACTCTTGGTG	57.594	40.000	0.00	0.00	0.00	4.17
3705	19836	9.134055	GTATCCTCTAAACTATGTACTCTTGGT	57.866	37.037	0.00	0.00	0.00	3.67
3706	19837	9.132923	TGTATCCTCTAAACTATGTACTCTTGG	57.867	37.037	0.00	0.00	0.00	3.61
3743	19874	9.020813	GCTTCTTGTATCTTTTTCGTTTTTCTT	57.979	29.630	0.00	0.00	0.00	2.52
3744	19875	8.406297	AGCTTCTTGTATCTTTTTCGTTTTTCT	58.594	29.630	0.00	0.00	0.00	2.52
3745	19876	8.561932	AGCTTCTTGTATCTTTTTCGTTTTTC	57.438	30.769	0.00	0.00	0.00	2.29
3746	19877	9.447040	GTAGCTTCTTGTATCTTTTTCGTTTTT	57.553	29.630	0.00	0.00	0.00	1.94
3747	19878	8.617809	TGTAGCTTCTTGTATCTTTTTCGTTTT	58.382	29.630	0.00	0.00	0.00	2.43
3748	19879	8.149973	TGTAGCTTCTTGTATCTTTTTCGTTT	57.850	30.769	0.00	0.00	0.00	3.60
3749	19880	7.656137	TCTGTAGCTTCTTGTATCTTTTTCGTT	59.344	33.333	0.00	0.00	0.00	3.85
3750	19881	7.152645	TCTGTAGCTTCTTGTATCTTTTTCGT	58.847	34.615	0.00	0.00	0.00	3.85
3751	19882	7.582435	TCTGTAGCTTCTTGTATCTTTTTCG	57.418	36.000	0.00	0.00	0.00	3.46
3752	19883	7.952637	CGTTCTGTAGCTTCTTGTATCTTTTTC	59.047	37.037	0.00	0.00	0.00	2.29
3753	19884	7.095187	CCGTTCTGTAGCTTCTTGTATCTTTTT	60.095	37.037	0.00	0.00	0.00	1.94
3754	19885	6.369065	CCGTTCTGTAGCTTCTTGTATCTTTT	59.631	38.462	0.00	0.00	0.00	2.27
3755	19886	5.869888	CCGTTCTGTAGCTTCTTGTATCTTT	59.130	40.000	0.00	0.00	0.00	2.52
3756	19887	5.411781	CCGTTCTGTAGCTTCTTGTATCTT	58.588	41.667	0.00	0.00	0.00	2.40
3757	19888	4.678309	GCCGTTCTGTAGCTTCTTGTATCT	60.678	45.833	0.00	0.00	0.00	1.98
3758	19889	3.552294	GCCGTTCTGTAGCTTCTTGTATC	59.448	47.826	0.00	0.00	0.00	2.24
3759	19890	3.195825	AGCCGTTCTGTAGCTTCTTGTAT	59.804	43.478	0.00	0.00	31.27	2.29
3760	19891	2.561419	AGCCGTTCTGTAGCTTCTTGTA	59.439	45.455	0.00	0.00	31.27	2.41
3761	19892	1.344763	AGCCGTTCTGTAGCTTCTTGT	59.655	47.619	0.00	0.00	31.27	3.16
3762	19893	2.086054	AGCCGTTCTGTAGCTTCTTG	57.914	50.000	0.00	0.00	31.27	3.02
3763	19894	3.181474	GGATAGCCGTTCTGTAGCTTCTT	60.181	47.826	0.00	0.00	38.06	2.52
3764	19895	2.362717	GGATAGCCGTTCTGTAGCTTCT	59.637	50.000	0.00	0.00	38.06	2.85
3765	19896	2.100916	TGGATAGCCGTTCTGTAGCTTC	59.899	50.000	0.00	0.00	38.06	3.86
3766	19897	2.108168	TGGATAGCCGTTCTGTAGCTT	58.892	47.619	0.00	0.00	38.06	3.74
3767	19898	1.409427	GTGGATAGCCGTTCTGTAGCT	59.591	52.381	0.00	0.00	40.66	3.32
3768	19899	1.136305	TGTGGATAGCCGTTCTGTAGC	59.864	52.381	0.00	0.00	36.79	3.58
3769	19900	3.187700	GTTGTGGATAGCCGTTCTGTAG	58.812	50.000	0.00	0.00	36.79	2.74
3770	19901	2.416296	CGTTGTGGATAGCCGTTCTGTA	60.416	50.000	0.00	0.00	36.79	2.74
3771	19902	1.671850	CGTTGTGGATAGCCGTTCTGT	60.672	52.381	0.00	0.00	36.79	3.41
3772	19903	0.999406	CGTTGTGGATAGCCGTTCTG	59.001	55.000	0.00	0.00	36.79	3.02
3773	19904	0.892755	TCGTTGTGGATAGCCGTTCT	59.107	50.000	0.00	0.00	36.79	3.01
3774	19905	1.392510	GTTCGTTGTGGATAGCCGTTC	59.607	52.381	0.00	0.00	36.79	3.95
3775	19906	1.435577	GTTCGTTGTGGATAGCCGTT	58.564	50.000	0.00	0.00	36.79	4.44
3776	19907	0.390735	GGTTCGTTGTGGATAGCCGT	60.391	55.000	0.00	0.00	36.79	5.68
3777	19908	1.087771	GGGTTCGTTGTGGATAGCCG	61.088	60.000	0.00	0.00	36.79	5.52
3778	19909	0.035820	TGGGTTCGTTGTGGATAGCC	60.036	55.000	0.00	0.00	0.00	3.93
3779	19910	1.737793	CTTGGGTTCGTTGTGGATAGC	59.262	52.381	0.00	0.00	0.00	2.97
3780	19911	1.737793	GCTTGGGTTCGTTGTGGATAG	59.262	52.381	0.00	0.00	0.00	2.08
3781	19912	1.612199	GGCTTGGGTTCGTTGTGGATA	60.612	52.381	0.00	0.00	0.00	2.59
3782	19913	0.893727	GGCTTGGGTTCGTTGTGGAT	60.894	55.000	0.00	0.00	0.00	3.41
3783	19914	1.527380	GGCTTGGGTTCGTTGTGGA	60.527	57.895	0.00	0.00	0.00	4.02
3784	19915	2.561037	GGGCTTGGGTTCGTTGTGG	61.561	63.158	0.00	0.00	0.00	4.17
3785	19916	1.528309	AGGGCTTGGGTTCGTTGTG	60.528	57.895	0.00	0.00	0.00	3.33
3786	19917	1.528309	CAGGGCTTGGGTTCGTTGT	60.528	57.895	0.00	0.00	0.00	3.32
3787	19918	2.919494	GCAGGGCTTGGGTTCGTTG	61.919	63.158	0.00	0.00	0.00	4.10
3788	19919	2.597510	GCAGGGCTTGGGTTCGTT	60.598	61.111	0.00	0.00	0.00	3.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.