AutoCloner

Multiple sequence alignment - TraesCS1A01G182300

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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	TraesCS1A01G182300	chr1A	100.000	3506	0	0	1	3506	329249641	329246136	0.000000e+00	6475
1	TraesCS1A01G182300	chr1A	91.867	750	49	3	1081	1830	549706931	549706194	0.000000e+00	1037
2	TraesCS1A01G182300	chr1A	93.182	88	1	1	2659	2741	329240619	329240532	1.320000e-24	124
3	TraesCS1A01G182300	chr1D	94.748	2456	74	22	309	2741	256282771	256280348	0.000000e+00	3770
4	TraesCS1A01G182300	chr1D	85.714	168	18	4	27	193	256283225	256283063	4.650000e-39	172
5	TraesCS1A01G182300	chr1D	83.766	154	6	12	140	293	256283078	256282944	1.020000e-25	128
6	TraesCS1A01G182300	chr1D	96.875	64	0	1	2659	2722	256278901	256278840	4.790000e-19	106
7	TraesCS1A01G182300	chr1B	94.233	2289	68	25	482	2741	356870592	356872845	0.000000e+00	3437
8	TraesCS1A01G182300	chr1B	86.992	369	21	7	60	426	356870233	356870576	1.180000e-104	390
9	TraesCS1A01G182300	chr5D	94.744	761	38	2	2739	3499	84806515	84805757	0.000000e+00	1182
10	TraesCS1A01G182300	chr5D	94.342	760	43	0	2740	3499	451851395	451850636	0.000000e+00	1166
11	TraesCS1A01G182300	chr5D	94.226	762	42	2	2739	3499	410312446	410313206	0.000000e+00	1162
12	TraesCS1A01G182300	chr5D	93.636	770	48	1	2737	3506	324199092	324199860	0.000000e+00	1149
13	TraesCS1A01G182300	chr5D	86.444	509	61	6	1421	1924	380189668	380189163	5.110000e-153	551
14	TraesCS1A01G182300	chr3D	94.488	762	40	2	2739	3499	489127626	489126866	0.000000e+00	1173
15	TraesCS1A01G182300	chr3D	94.018	769	45	1	2739	3506	487180284	487181052	0.000000e+00	1164
16	TraesCS1A01G182300	chr6D	94.148	769	44	1	2739	3506	411702057	411701289	0.000000e+00	1170
17	TraesCS1A01G182300	chr6D	93.888	769	46	1	2739	3506	320082708	320081940	0.000000e+00	1158
18	TraesCS1A01G182300	chr6D	91.733	750	62	0	1081	1830	78785316	78786065	0.000000e+00	1042
19	TraesCS1A01G182300	chr7D	93.880	768	47	0	2739	3506	152201413	152202180	0.000000e+00	1158
20	TraesCS1A01G182300	chr4B	78.057	1472	233	49	1035	2431	672309360	672307904	0.000000e+00	846
21	TraesCS1A01G182300	chr4B	78.749	1087	171	40	1381	2431	670113577	670114639	0.000000e+00	673
22	TraesCS1A01G182300	chrUn	80.033	1222	175	42	1061	2237	99863465	99864662	0.000000e+00	841
23	TraesCS1A01G182300	chr3B	92.718	412	27	3	1419	1828	47197606	47197196	3.010000e-165	592

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	TraesCS1A01G182300	chr1A	329246136	329249641	3505	True	6475.0	6475	100.00000	1	3506	1	chr1A.!!$R2	3505
1	TraesCS1A01G182300	chr1A	549706194	549706931	737	True	1037.0	1037	91.86700	1081	1830	1	chr1A.!!$R3	749
2	TraesCS1A01G182300	chr1D	256278840	256283225	4385	True	1044.0	3770	90.27575	27	2741	4	chr1D.!!$R1	2714
3	TraesCS1A01G182300	chr1B	356870233	356872845	2612	False	1913.5	3437	90.61250	60	2741	2	chr1B.!!$F1	2681
4	TraesCS1A01G182300	chr5D	84805757	84806515	758	True	1182.0	1182	94.74400	2739	3499	1	chr5D.!!$R1	760
5	TraesCS1A01G182300	chr5D	451850636	451851395	759	True	1166.0	1166	94.34200	2740	3499	1	chr5D.!!$R3	759
6	TraesCS1A01G182300	chr5D	410312446	410313206	760	False	1162.0	1162	94.22600	2739	3499	1	chr5D.!!$F2	760
7	TraesCS1A01G182300	chr5D	324199092	324199860	768	False	1149.0	1149	93.63600	2737	3506	1	chr5D.!!$F1	769
8	TraesCS1A01G182300	chr5D	380189163	380189668	505	True	551.0	551	86.44400	1421	1924	1	chr5D.!!$R2	503
9	TraesCS1A01G182300	chr3D	489126866	489127626	760	True	1173.0	1173	94.48800	2739	3499	1	chr3D.!!$R1	760
10	TraesCS1A01G182300	chr3D	487180284	487181052	768	False	1164.0	1164	94.01800	2739	3506	1	chr3D.!!$F1	767
11	TraesCS1A01G182300	chr6D	411701289	411702057	768	True	1170.0	1170	94.14800	2739	3506	1	chr6D.!!$R2	767
12	TraesCS1A01G182300	chr6D	320081940	320082708	768	True	1158.0	1158	93.88800	2739	3506	1	chr6D.!!$R1	767
13	TraesCS1A01G182300	chr6D	78785316	78786065	749	False	1042.0	1042	91.73300	1081	1830	1	chr6D.!!$F1	749
14	TraesCS1A01G182300	chr7D	152201413	152202180	767	False	1158.0	1158	93.88000	2739	3506	1	chr7D.!!$F1	767
15	TraesCS1A01G182300	chr4B	672307904	672309360	1456	True	846.0	846	78.05700	1035	2431	1	chr4B.!!$R1	1396
16	TraesCS1A01G182300	chr4B	670113577	670114639	1062	False	673.0	673	78.74900	1381	2431	1	chr4B.!!$F1	1050
17	TraesCS1A01G182300	chrUn	99863465	99864662	1197	False	841.0	841	80.03300	1061	2237	1	chrUn.!!$F1	1176

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
236	266	0.098376	GTACGCGTCCAGGTCAGTAG	59.902	60.0	18.63	0.0	0.0	2.57	F
271	301	0.251916	CATAGACGCCCTTCCAACCA	59.748	55.0	0.00	0.0	0.0	3.67	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1911	2197	1.153369	CGACAGCCCGTCCATGAAT	60.153	57.895	0.0	0.0	42.07	2.57	R
2534	2865	2.223249	TGTGAAGACGCAGAAAGCAAAC	60.223	45.455	0.0	0.0	46.13	2.93	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
25	26	2.634600	AGTACCAGTAGTGCTCTCTCG	58.365	52.381	0.00	0.00	36.60	4.04
31	32	4.202482	ACCAGTAGTGCTCTCTCGGTATAT	60.202	45.833	0.00	0.00	0.00	0.86
37	38	4.762765	AGTGCTCTCTCGGTATATGGTTAG	59.237	45.833	0.00	0.00	0.00	2.34
38	39	4.519730	GTGCTCTCTCGGTATATGGTTAGT	59.480	45.833	0.00	0.00	0.00	2.24
46	47	8.118976	TCTCGGTATATGGTTAGTTATCCAAG	57.881	38.462	0.00	0.00	37.27	3.61
54	55	6.921486	TGGTTAGTTATCCAAGACAGTACA	57.079	37.500	0.00	0.00	0.00	2.90
86	87	2.549754	GCCATCTGTTCATATCCAACGG	59.450	50.000	0.00	0.00	0.00	4.44
171	172	8.132362	ACAAGCTGTTTCGTTCAATAAATAACA	58.868	29.630	0.00	0.00	0.00	2.41
172	173	8.629986	CAAGCTGTTTCGTTCAATAAATAACAG	58.370	33.333	0.00	0.00	0.00	3.16
232	262	4.409218	GCGTACGCGTCCAGGTCA	62.409	66.667	26.17	0.00	40.81	4.02
233	263	2.202440	CGTACGCGTCCAGGTCAG	60.202	66.667	18.63	0.00	0.00	3.51
234	264	2.960170	GTACGCGTCCAGGTCAGT	59.040	61.111	18.63	0.00	0.00	3.41
235	265	1.638388	CGTACGCGTCCAGGTCAGTA	61.638	60.000	18.63	0.00	0.00	2.74
236	266	0.098376	GTACGCGTCCAGGTCAGTAG	59.902	60.000	18.63	0.00	0.00	2.57
237	267	1.651240	TACGCGTCCAGGTCAGTAGC	61.651	60.000	18.63	0.00	0.00	3.58
238	268	2.202623	GCGTCCAGGTCAGTAGCG	60.203	66.667	0.00	0.00	0.00	4.26
239	269	2.490217	CGTCCAGGTCAGTAGCGG	59.510	66.667	0.00	0.00	0.00	5.52
269	299	0.463833	CCCATAGACGCCCTTCCAAC	60.464	60.000	0.00	0.00	0.00	3.77
270	300	0.463833	CCATAGACGCCCTTCCAACC	60.464	60.000	0.00	0.00	0.00	3.77
271	301	0.251916	CATAGACGCCCTTCCAACCA	59.748	55.000	0.00	0.00	0.00	3.67
272	302	0.988832	ATAGACGCCCTTCCAACCAA	59.011	50.000	0.00	0.00	0.00	3.67
293	323	1.153269	GAGCTTCTGGGCCAGCTAC	60.153	63.158	29.02	18.60	46.72	3.58
305	335	1.941325	CCAGCTACGGAACATTCTCC	58.059	55.000	0.00	0.00	0.00	3.71
331	519	3.568007	TCTTCACTGGTTGTTGCCAATAC	59.432	43.478	0.00	0.00	38.18	1.89
332	520	2.937519	TCACTGGTTGTTGCCAATACA	58.062	42.857	0.00	0.00	38.18	2.29
333	521	2.621055	TCACTGGTTGTTGCCAATACAC	59.379	45.455	0.00	0.00	38.18	2.90
334	522	1.960689	ACTGGTTGTTGCCAATACACC	59.039	47.619	0.00	0.00	38.18	4.16
335	523	1.272212	CTGGTTGTTGCCAATACACCC	59.728	52.381	1.51	0.00	38.18	4.61
380	568	2.278401	GACCGTATCACCCGTCGC	60.278	66.667	0.00	0.00	0.00	5.19
440	628	8.934023	TTTGGGTATCTTGATCAGTACTTTTT	57.066	30.769	0.00	0.00	0.00	1.94
508	697	2.494471	TCCCGACGAAGAGCATTTAAGA	59.506	45.455	0.00	0.00	0.00	2.10
517	706	7.206687	ACGAAGAGCATTTAAGAAGGAGATAG	58.793	38.462	0.00	0.00	0.00	2.08
628	820	1.648467	GCACGCCAGAATTCTCACCC	61.648	60.000	4.57	0.00	0.00	4.61
744	945	4.771356	GACTCGTACGCAGCGGCA	62.771	66.667	21.15	3.08	41.24	5.69
745	946	4.778415	ACTCGTACGCAGCGGCAG	62.778	66.667	21.15	11.06	41.24	4.85
831	1032	3.561241	GAATCGCCCCTCCCTCCC	61.561	72.222	0.00	0.00	0.00	4.30
832	1033	4.109656	AATCGCCCCTCCCTCCCT	62.110	66.667	0.00	0.00	0.00	4.20
833	1034	4.565850	ATCGCCCCTCCCTCCCTC	62.566	72.222	0.00	0.00	0.00	4.30
913	1121	1.381327	CCTACCCTTCTCGCCCAGA	60.381	63.158	0.00	0.00	0.00	3.86
914	1122	1.677637	CCTACCCTTCTCGCCCAGAC	61.678	65.000	0.00	0.00	0.00	3.51
915	1123	2.005960	CTACCCTTCTCGCCCAGACG	62.006	65.000	0.00	0.00	0.00	4.18
916	1124	4.821589	CCCTTCTCGCCCAGACGC	62.822	72.222	0.00	0.00	0.00	5.19
917	1125	4.069232	CCTTCTCGCCCAGACGCA	62.069	66.667	0.00	0.00	0.00	5.24
986	1194	1.826487	GACTCCTCCTCCTCCTCGC	60.826	68.421	0.00	0.00	0.00	5.03
1695	1966	1.736365	GCTACCTGCTCTACGGACCC	61.736	65.000	0.00	0.00	38.95	4.46
2666	2999	1.085501	GGCAATTGCAAAGGATGGCG	61.086	55.000	30.32	0.00	44.36	5.69
2668	3001	1.153784	AATTGCAAAGGATGGCGCG	60.154	52.632	1.71	0.00	0.00	6.86
2780	3115	5.506317	GCATCATGCTTTACGGCTTAGAATT	60.506	40.000	1.02	0.00	40.96	2.17
2838	3301	5.505324	GCATATGAGATGTTCCAAGAGTTGC	60.505	44.000	6.97	0.00	0.00	4.17
2879	3342	2.026729	TGCCCATGTCGAAAGGTATGAA	60.027	45.455	0.00	0.00	0.00	2.57
2964	3427	6.238676	GCTCAGAATGTCCGAGTACTACAATA	60.239	42.308	0.00	0.00	37.40	1.90
2973	3436	7.758076	TGTCCGAGTACTACAATAACTTGAATG	59.242	37.037	0.00	0.00	36.20	2.67
3078	3542	7.830697	TGATGAACTATAATATGCAAGGGATGG	59.169	37.037	0.00	0.00	0.00	3.51
3091	3555	2.524306	AGGGATGGCGAAAACAATTCA	58.476	42.857	0.00	0.00	0.00	2.57
3175	3641	4.850680	TGGTTGACAAGACCACTAGTTTT	58.149	39.130	0.00	0.00	42.06	2.43
3192	3658	6.837048	ACTAGTTTTAAGAAAAGGGGCAAAGA	59.163	34.615	0.00	0.00	0.00	2.52
3202	3668	0.698818	GGGGCAAAGAGAAGAAGGGA	59.301	55.000	0.00	0.00	0.00	4.20
3307	3890	0.108585	GCAAAGGGACTGGTCACTGA	59.891	55.000	6.25	0.00	43.77	3.41
3310	3893	3.287222	CAAAGGGACTGGTCACTGAAAA	58.713	45.455	6.25	0.00	43.77	2.29
3438	4021	4.384868	CCCCTCGGTATTTGATACTGGTTT	60.385	45.833	6.98	0.00	41.43	3.27

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	3.264706	AGAGAGCACTACTGGTACTCTGA	59.735	47.826	0.13	0.00	45.70	3.27
2	3	3.616219	AGAGAGCACTACTGGTACTCTG	58.384	50.000	0.13	0.00	45.70	3.35
4	5	2.610374	CGAGAGAGCACTACTGGTACTC	59.390	54.545	0.00	0.00	38.33	2.59
5	6	2.634600	CGAGAGAGCACTACTGGTACT	58.365	52.381	0.00	0.00	0.00	2.73
6	7	1.671845	CCGAGAGAGCACTACTGGTAC	59.328	57.143	0.00	0.00	0.00	3.34
7	8	1.281287	ACCGAGAGAGCACTACTGGTA	59.719	52.381	0.00	0.00	0.00	3.25
8	9	0.038455	ACCGAGAGAGCACTACTGGT	59.962	55.000	0.00	0.00	0.00	4.00
9	10	2.039818	TACCGAGAGAGCACTACTGG	57.960	55.000	0.00	0.00	0.00	4.00
10	11	4.155099	CCATATACCGAGAGAGCACTACTG	59.845	50.000	0.00	0.00	0.00	2.74
11	12	4.202482	ACCATATACCGAGAGAGCACTACT	60.202	45.833	0.00	0.00	0.00	2.57
12	13	4.073549	ACCATATACCGAGAGAGCACTAC	58.926	47.826	0.00	0.00	0.00	2.73
13	14	4.368565	ACCATATACCGAGAGAGCACTA	57.631	45.455	0.00	0.00	0.00	2.74
14	15	3.231207	ACCATATACCGAGAGAGCACT	57.769	47.619	0.00	0.00	0.00	4.40
15	16	4.519730	ACTAACCATATACCGAGAGAGCAC	59.480	45.833	0.00	0.00	0.00	4.40
16	17	4.726583	ACTAACCATATACCGAGAGAGCA	58.273	43.478	0.00	0.00	0.00	4.26
17	18	5.708877	AACTAACCATATACCGAGAGAGC	57.291	43.478	0.00	0.00	0.00	4.09
18	19	7.610692	TGGATAACTAACCATATACCGAGAGAG	59.389	40.741	0.00	0.00	0.00	3.20
19	20	7.464273	TGGATAACTAACCATATACCGAGAGA	58.536	38.462	0.00	0.00	0.00	3.10
20	21	7.698506	TGGATAACTAACCATATACCGAGAG	57.301	40.000	0.00	0.00	0.00	3.20
21	22	7.946219	TCTTGGATAACTAACCATATACCGAGA	59.054	37.037	0.00	0.00	36.02	4.04
22	23	8.027771	GTCTTGGATAACTAACCATATACCGAG	58.972	40.741	0.00	0.00	36.02	4.63
23	24	7.506599	TGTCTTGGATAACTAACCATATACCGA	59.493	37.037	0.00	0.00	36.02	4.69
24	25	7.663827	TGTCTTGGATAACTAACCATATACCG	58.336	38.462	0.00	0.00	36.02	4.02
25	26	8.648693	ACTGTCTTGGATAACTAACCATATACC	58.351	37.037	0.00	0.00	36.02	2.73
31	32	6.070995	CCTGTACTGTCTTGGATAACTAACCA	60.071	42.308	0.00	0.00	0.00	3.67
37	38	6.979238	GTGATACCTGTACTGTCTTGGATAAC	59.021	42.308	0.00	0.00	0.00	1.89
38	39	6.895756	AGTGATACCTGTACTGTCTTGGATAA	59.104	38.462	0.00	0.00	0.00	1.75
46	47	2.159085	GGCCAGTGATACCTGTACTGTC	60.159	54.545	0.00	0.00	40.04	3.51
54	55	1.885049	ACAGATGGCCAGTGATACCT	58.115	50.000	21.83	0.00	0.00	3.08
102	103	2.160205	CCTGGCCTAGCATGATGATTG	58.840	52.381	3.32	0.00	0.00	2.67
171	172	7.174253	TCCGTAAACAGCTTGTTTCATTTATCT	59.826	33.333	14.76	0.00	46.61	1.98
172	173	7.302524	TCCGTAAACAGCTTGTTTCATTTATC	58.697	34.615	14.76	2.71	46.61	1.75
194	224	1.059369	CGCGTTTCATGAGCTTCCG	59.941	57.895	0.00	0.00	0.00	4.30
227	257	1.752683	CTACTGACCGCTACTGACCT	58.247	55.000	0.00	0.00	0.00	3.85
230	260	0.675837	ACGCTACTGACCGCTACTGA	60.676	55.000	0.00	0.00	0.00	3.41
231	261	0.248134	GACGCTACTGACCGCTACTG	60.248	60.000	0.00	0.00	0.00	2.74
232	262	1.375098	GGACGCTACTGACCGCTACT	61.375	60.000	0.00	0.00	0.00	2.57
233	263	1.063811	GGACGCTACTGACCGCTAC	59.936	63.158	0.00	0.00	0.00	3.58
234	264	2.117156	GGGACGCTACTGACCGCTA	61.117	63.158	0.00	0.00	0.00	4.26
235	265	3.450115	GGGACGCTACTGACCGCT	61.450	66.667	0.00	0.00	0.00	5.52
236	266	1.731433	TATGGGACGCTACTGACCGC	61.731	60.000	0.00	0.00	0.00	5.68
237	267	0.311165	CTATGGGACGCTACTGACCG	59.689	60.000	0.00	0.00	0.00	4.79
238	268	1.337387	GTCTATGGGACGCTACTGACC	59.663	57.143	0.00	0.00	35.07	4.02
239	269	2.778187	GTCTATGGGACGCTACTGAC	57.222	55.000	0.00	0.00	35.07	3.51
269	299	0.540365	TGGCCCAGAAGCTCTTTTGG	60.540	55.000	11.12	11.12	42.56	3.28
270	300	0.886563	CTGGCCCAGAAGCTCTTTTG	59.113	55.000	4.15	0.00	32.44	2.44
271	301	0.897401	GCTGGCCCAGAAGCTCTTTT	60.897	55.000	16.85	0.00	36.47	2.27
272	302	1.303970	GCTGGCCCAGAAGCTCTTT	60.304	57.895	16.85	0.00	36.47	2.52
293	323	3.868077	GTGAAGATGAGGAGAATGTTCCG	59.132	47.826	0.00	0.00	42.29	4.30
305	335	2.227388	GGCAACAACCAGTGAAGATGAG	59.773	50.000	0.00	0.00	0.00	2.90
331	519	1.520787	GATACGGTTGAGCGGGGTG	60.521	63.158	7.53	0.00	0.00	4.61
332	520	1.335132	ATGATACGGTTGAGCGGGGT	61.335	55.000	7.53	0.00	0.00	4.95
333	521	0.677288	TATGATACGGTTGAGCGGGG	59.323	55.000	7.53	0.00	0.00	5.73
334	522	2.607187	GATATGATACGGTTGAGCGGG	58.393	52.381	7.53	0.00	0.00	6.13
335	523	2.095415	TCGATATGATACGGTTGAGCGG	60.095	50.000	7.53	0.00	0.00	5.52
387	575	2.597510	GCCTGGACAAAACCGGCT	60.598	61.111	0.00	0.00	42.09	5.52
389	577	2.561037	GGTGCCTGGACAAAACCGG	61.561	63.158	0.00	0.00	36.18	5.28
457	645	3.559069	TGCCCAGATTCAATCAAGATCC	58.441	45.455	0.00	0.00	0.00	3.36
508	697	4.547671	TCTCATCCGTTTCCTATCTCCTT	58.452	43.478	0.00	0.00	0.00	3.36
582	774	1.751927	CTGAGGTGATTGGGGCAGC	60.752	63.158	0.00	0.00	0.00	5.25
628	820	2.752903	CCGGGTTTATCTTGTTTCCTGG	59.247	50.000	0.00	0.00	35.56	4.45
659	851	1.067060	GGTCTGGTGGTTTGAAACTGC	59.933	52.381	8.09	1.40	0.00	4.40
848	1049	1.001048	GTTGTCGTGGGGTTTTAAGGC	60.001	52.381	0.00	0.00	0.00	4.35
913	1121	3.196394	TTGGTTCGTGCGTTGCGT	61.196	55.556	0.00	0.00	0.00	5.24
914	1122	2.720750	GTTGGTTCGTGCGTTGCG	60.721	61.111	0.00	0.00	0.00	4.85
915	1123	2.353030	GGTTGGTTCGTGCGTTGC	60.353	61.111	0.00	0.00	0.00	4.17
916	1124	2.052590	CGGTTGGTTCGTGCGTTG	60.053	61.111	0.00	0.00	0.00	4.10
917	1125	3.273834	CCGGTTGGTTCGTGCGTT	61.274	61.111	0.00	0.00	0.00	4.84
1497	1751	2.125673	CCGGTGTTGGCGTAGAGG	60.126	66.667	0.00	0.00	0.00	3.69
1911	2197	1.153369	CGACAGCCCGTCCATGAAT	60.153	57.895	0.00	0.00	42.07	2.57
2534	2865	2.223249	TGTGAAGACGCAGAAAGCAAAC	60.223	45.455	0.00	0.00	46.13	2.93
2593	2926	6.037610	CCCCAAATTACAATCGAGAAGAGAAG	59.962	42.308	0.00	0.00	0.00	2.85
2598	2931	4.270008	ACCCCCAAATTACAATCGAGAAG	58.730	43.478	0.00	0.00	0.00	2.85
2666	2999	1.279840	GAGTGCACAACCAACTCGC	59.720	57.895	21.04	0.00	0.00	5.03
2668	3001	0.531974	TCGGAGTGCACAACCAACTC	60.532	55.000	25.12	11.49	0.00	3.01
2759	3094	4.335315	CCAATTCTAAGCCGTAAAGCATGA	59.665	41.667	0.00	0.00	34.23	3.07
2780	3115	0.106419	AAACCGTCTTTGAAGCCCCA	60.106	50.000	0.00	0.00	0.00	4.96
2838	3301	6.543465	TGGGCATGAGTCTGAAATACTAATTG	59.457	38.462	0.00	0.00	0.00	2.32
2879	3342	4.278310	AGGCAAAGTACTTGTCAAAGGTT	58.722	39.130	9.34	0.00	42.48	3.50
2964	3427	7.234355	AGATTAACTCCCACTTCATTCAAGTT	58.766	34.615	0.00	0.00	43.38	2.66
2973	3436	8.575649	TTATTTGGAAGATTAACTCCCACTTC	57.424	34.615	0.00	0.00	37.02	3.01
3010	3473	5.220970	GGTGATAGTGACTAGAGAACTCTGC	60.221	48.000	13.73	4.87	40.71	4.26
3078	3542	3.632189	AGAGCTTGTGAATTGTTTTCGC	58.368	40.909	0.00	0.00	0.00	4.70
3091	3555	0.173481	TAGCATCGCGAAGAGCTTGT	59.827	50.000	29.87	15.03	45.59	3.16
3175	3641	5.319043	TCTTCTCTTTGCCCCTTTTCTTA	57.681	39.130	0.00	0.00	0.00	2.10
3202	3668	3.769536	CTTGCCGTTCTTGTTGAAGTTT	58.230	40.909	0.00	0.00	35.01	2.66
3211	3677	1.480205	CAACTTGCTTGCCGTTCTTG	58.520	50.000	0.00	0.00	0.00	3.02
3307	3890	4.436113	TTACTTGGGGTAGTTCCGTTTT	57.564	40.909	0.00	0.00	37.00	2.43
3310	3893	3.946606	CAATTACTTGGGGTAGTTCCGT	58.053	45.455	0.00	0.00	37.00	4.69
3401	3984	2.355310	CCGAGGGGTTGCTATAAACACA	60.355	50.000	0.00	0.00	35.01	3.72
3438	4021	9.185192	GTTTCGAGTTACTACTTTTAGCAACTA	57.815	33.333	0.00	0.00	40.61	2.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.