AutoCloner

Multiple sequence alignment - TraesCS3A01G145100

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	TraesCS3A01G145100	chr3A	100.000	4370	0	0	1	4370	127859831	127855462	0.000000e+00	8070.0
1	TraesCS3A01G145100	chr3D	90.158	4369	303	57	4	4322	121342869	121338578	0.000000e+00	5568.0
2	TraesCS3A01G145100	chr3D	93.216	2609	150	20	862	3459	121268860	121266268	0.000000e+00	3812.0
3	TraesCS3A01G145100	chr3D	92.564	2609	167	20	862	3459	121334815	121332223	0.000000e+00	3718.0
4	TraesCS3A01G145100	chr1D	90.185	4218	296	57	133	4322	465903896	465899769	0.000000e+00	5387.0
5	TraesCS3A01G145100	chr1D	78.713	404	38	17	3386	3784	341027305	341026945	4.400000e-55	226.0
6	TraesCS3A01G145100	chr1B	89.434	4221	302	64	133	4322	642702215	642698108	0.000000e+00	5192.0
7	TraesCS3A01G145100	chr1B	83.333	210	18	8	3395	3600	456711583	456711387	1.250000e-40	178.0
8	TraesCS3A01G145100	chr3B	91.902	3606	232	29	132	3709	173008610	173005037	0.000000e+00	4987.0
9	TraesCS3A01G145100	chr3B	93.244	2605	160	12	844	3438	172170449	172173047	0.000000e+00	3821.0
10	TraesCS3A01G145100	chr3B	93.235	2587	160	11	862	3438	172052107	172054688	0.000000e+00	3794.0
11	TraesCS3A01G145100	chr3B	96.028	579	16	4	3336	3909	172173314	172173890	0.000000e+00	935.0
12	TraesCS3A01G145100	chr3B	95.855	579	17	4	3336	3909	172054955	172055531	0.000000e+00	929.0
13	TraesCS3A01G145100	chr3B	97.695	347	8	0	3976	4322	172055525	172055871	8.090000e-167	597.0
14	TraesCS3A01G145100	chr3B	97.118	347	10	0	3976	4322	172173884	172174230	1.750000e-163	586.0
15	TraesCS3A01G145100	chr3B	83.148	629	53	22	3727	4322	173004936	173004328	3.870000e-145	525.0
16	TraesCS3A01G145100	chr6D	91.673	2678	186	18	844	3500	452128075	452125414	0.000000e+00	3675.0
17	TraesCS3A01G145100	chr1A	81.818	220	23	8	3386	3601	440712105	440711899	7.520000e-38	169.0
18	TraesCS3A01G145100	chr1A	98.000	50	1	0	4318	4367	586041153	586041202	2.170000e-13	87.9
19	TraesCS3A01G145100	chr6A	98.077	52	1	0	4319	4370	457319575	457319626	1.670000e-14	91.6
20	TraesCS3A01G145100	chr7A	98.039	51	1	0	4320	4370	79550717	79550667	6.020000e-14	89.8
21	TraesCS3A01G145100	chr7A	98.039	51	1	0	4320	4370	730787714	730787664	6.020000e-14	89.8
22	TraesCS3A01G145100	chr7A	98.000	50	1	0	4318	4367	37972133	37972182	2.170000e-13	87.9
23	TraesCS3A01G145100	chr7A	96.226	53	2	0	4318	4370	439623654	439623602	2.170000e-13	87.9
24	TraesCS3A01G145100	chr5D	98.000	50	1	0	4321	4370	465016888	465016839	2.170000e-13	87.9
25	TraesCS3A01G145100	chr5D	98.000	50	1	0	4318	4367	484638850	484638899	2.170000e-13	87.9
26	TraesCS3A01G145100	chr2B	94.643	56	3	0	4312	4367	62214905	62214960	2.170000e-13	87.9

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	TraesCS3A01G145100	chr3A	127855462	127859831	4369	True	8070.000000	8070	100.000000	1	4370	1	chr3A.!!$R1	4369
1	TraesCS3A01G145100	chr3D	121332223	121342869	10646	True	4643.000000	5568	91.361000	4	4322	2	chr3D.!!$R2	4318
2	TraesCS3A01G145100	chr3D	121266268	121268860	2592	True	3812.000000	3812	93.216000	862	3459	1	chr3D.!!$R1	2597
3	TraesCS3A01G145100	chr1D	465899769	465903896	4127	True	5387.000000	5387	90.185000	133	4322	1	chr1D.!!$R2	4189
4	TraesCS3A01G145100	chr1B	642698108	642702215	4107	True	5192.000000	5192	89.434000	133	4322	1	chr1B.!!$R2	4189
5	TraesCS3A01G145100	chr3B	173004328	173008610	4282	True	2756.000000	4987	87.525000	132	4322	2	chr3B.!!$R1	4190
6	TraesCS3A01G145100	chr3B	172170449	172174230	3781	False	1780.666667	3821	95.463333	844	4322	3	chr3B.!!$F2	3478
7	TraesCS3A01G145100	chr3B	172052107	172055871	3764	False	1773.333333	3794	95.595000	862	4322	3	chr3B.!!$F1	3460
8	TraesCS3A01G145100	chr6D	452125414	452128075	2661	True	3675.000000	3675	91.673000	844	3500	1	chr6D.!!$R1	2656

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
648	656	0.248539	GTGCTGTCCGTCTCGTATCC	60.249	60.0	0.0	0.0	0.0	2.59	F
2146	2193	0.247460	CATGAAGCTGGACGAGGACA	59.753	55.0	0.0	0.0	0.0	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2158	2205	0.034574	TGCGTATCCTTGGCAACCAT	60.035	50.0	0.00	0.00	33.01	3.55	R
3968	4498	0.032416	TAGGGGACAGGCTGAGTACC	60.032	60.0	23.66	16.57	39.39	3.34	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
32	33	8.729805	ATTTGAATTTAGCTCGATCTCTTTCT	57.270	30.769	0.00	0.00	0.00	2.52
48	49	9.928236	GATCTCTTTCTAATGCAAAATAGACAC	57.072	33.333	6.72	0.00	0.00	3.67
121	122	1.517694	GCGCCATGGCAATGTCAAG	60.518	57.895	34.93	17.62	42.06	3.02
122	123	1.936436	GCGCCATGGCAATGTCAAGA	61.936	55.000	34.93	0.00	42.06	3.02
126	127	3.401182	GCCATGGCAATGTCAAGAAAAA	58.599	40.909	32.08	0.00	41.49	1.94
127	128	3.187022	GCCATGGCAATGTCAAGAAAAAC	59.813	43.478	32.08	0.00	41.49	2.43
128	129	4.634199	CCATGGCAATGTCAAGAAAAACT	58.366	39.130	0.00	0.00	31.27	2.66
129	130	5.782047	CCATGGCAATGTCAAGAAAAACTA	58.218	37.500	0.00	0.00	31.27	2.24
130	131	6.400568	CCATGGCAATGTCAAGAAAAACTAT	58.599	36.000	0.00	0.00	31.27	2.12
177	181	1.009829	GCAAGCTGGACGAATCGATT	58.990	50.000	11.20	11.20	0.00	3.34
179	183	2.219674	GCAAGCTGGACGAATCGATTAG	59.780	50.000	11.38	13.81	0.00	1.73
181	185	2.307768	AGCTGGACGAATCGATTAGGA	58.692	47.619	20.30	5.28	0.00	2.94
224	228	0.823356	AGCATCTCCTCCTCGAGCTC	60.823	60.000	6.99	2.73	0.00	4.09
230	234	1.152567	CCTCCTCGAGCTCCCTGAT	60.153	63.158	6.99	0.00	0.00	2.90
339	347	3.491619	CCATCACGTAGCACTAGCATCTT	60.492	47.826	0.00	0.00	45.49	2.40
648	656	0.248539	GTGCTGTCCGTCTCGTATCC	60.249	60.000	0.00	0.00	0.00	2.59
692	706	1.652012	CACGGACACGCCATTGTTT	59.348	52.632	0.00	0.00	46.04	2.83
721	735	3.443681	CCAGGTGCAATTATTCCGAGTTT	59.556	43.478	0.00	0.00	0.00	2.66
830	844	3.957671	AAGAGTACGAATATGACGCGA	57.042	42.857	15.93	0.00	0.00	5.87
831	845	3.957671	AGAGTACGAATATGACGCGAA	57.042	42.857	15.93	0.00	0.00	4.70
832	846	3.615614	AGAGTACGAATATGACGCGAAC	58.384	45.455	15.93	7.16	0.00	3.95
833	847	2.718027	GAGTACGAATATGACGCGAACC	59.282	50.000	15.93	1.42	0.00	3.62
949	986	1.667724	GCTCCACAACATCCATCGAAG	59.332	52.381	0.00	0.00	0.00	3.79
1154	1201	1.455402	TGCTGCTCAAGGGCAAACA	60.455	52.632	0.00	0.00	41.94	2.83
1200	1247	4.796231	GCCGACGACACCTGCGAT	62.796	66.667	0.00	0.00	0.00	4.58
1281	1328	2.203015	GTGTCCGTGCACCTGTGT	60.203	61.111	12.15	0.00	33.53	3.72
1333	1380	1.606601	CTCCCTCTGGACGACACCA	60.607	63.158	0.00	0.00	35.03	4.17
1377	1424	2.711922	CGACGCCTACCTCAAGCCT	61.712	63.158	0.00	0.00	0.00	4.58
1378	1425	1.142097	GACGCCTACCTCAAGCCTC	59.858	63.158	0.00	0.00	0.00	4.70
1389	1436	0.976641	TCAAGCCTCACTTCGTGGAT	59.023	50.000	0.00	0.00	36.04	3.41
1495	1542	2.959372	CGGTGGACTACTGCGTCA	59.041	61.111	0.00	0.00	35.63	4.35
1659	1706	1.925255	AGGCATCCCCAGATCTTCAAA	59.075	47.619	0.00	0.00	35.39	2.69
1703	1750	2.435693	GCATCCTCCTGTACGGCCT	61.436	63.158	0.00	0.00	0.00	5.19
2146	2193	0.247460	CATGAAGCTGGACGAGGACA	59.753	55.000	0.00	0.00	0.00	4.02
2158	2205	2.231478	GACGAGGACATCAACCTTGAGA	59.769	50.000	0.00	0.00	41.08	3.27
2268	2315	2.879646	GGACGTCATCGACTTAGAGGAT	59.120	50.000	18.91	0.00	40.62	3.24
2496	2543	0.892755	AGAAGTTCGGTATGTCGCCA	59.107	50.000	0.00	0.00	0.00	5.69
2595	2642	2.231964	GGCCAACTTCATCAGCATCAAA	59.768	45.455	0.00	0.00	0.00	2.69
2862	2909	2.905075	CCTGACATTATTGACTCGGCA	58.095	47.619	0.00	0.00	0.00	5.69
2865	2912	5.056480	CCTGACATTATTGACTCGGCATTA	58.944	41.667	0.00	0.00	0.00	1.90
2880	2927	1.684734	ATTACTCCGTCCTGGCCGT	60.685	57.895	0.00	0.00	37.80	5.68
2889	2936	3.636231	CCTGGCCGTCTGGACCAA	61.636	66.667	0.00	0.00	46.01	3.67
2937	2985	0.734889	CCTCGCGGCATCAAATCTTT	59.265	50.000	6.13	0.00	0.00	2.52
2988	3036	2.338984	GACGTTGACCTCGGTGCT	59.661	61.111	0.00	0.00	0.00	4.40
3004	3052	1.301716	GCTCTCGCAAGGTTCACCA	60.302	57.895	0.00	0.00	35.59	4.17
3101	3149	2.244117	GACATGGAGCGGCAGAGGAA	62.244	60.000	1.45	0.00	0.00	3.36
3178	3230	2.100879	AAAGGCGGCTCACTTCGAGT	62.101	55.000	13.70	0.00	44.33	4.18
3179	3231	2.048127	GGCGGCTCACTTCGAGTT	60.048	61.111	0.00	0.00	44.33	3.01
3378	3436	6.071560	ACGATCTGTACAAGTGATCCAGTAAA	60.072	38.462	14.61	0.00	34.70	2.01
3445	3878	8.801715	TGTTTTTGTTATGCTTTCTCTTCATC	57.198	30.769	0.00	0.00	0.00	2.92
3574	4012	1.603802	CCTCTTGTCGCAAAGAAAGCA	59.396	47.619	1.98	0.00	35.79	3.91
3743	4272	6.709018	TTTACTTAATTGAATAGGGGCAGC	57.291	37.500	0.00	0.00	0.00	5.25
3773	4302	4.633565	CAGATTAGTCAAGGAAAGAGTGGC	59.366	45.833	0.00	0.00	0.00	5.01
3794	4323	5.908831	TGGCCTTCTTAATTGGGAGTATCTA	59.091	40.000	3.32	0.00	33.73	1.98
3897	4427	4.422073	TTTCAGTCAATGGTCAGTCTGT	57.578	40.909	0.00	0.00	0.00	3.41
3965	4495	4.698304	CCGTCTTGGACCTTTAAGCAAATA	59.302	41.667	0.00	0.00	42.00	1.40
3968	4498	6.747280	CGTCTTGGACCTTTAAGCAAATATTG	59.253	38.462	0.00	0.00	0.00	1.90
3970	4500	6.723977	TCTTGGACCTTTAAGCAAATATTGGT	59.276	34.615	0.00	0.00	44.43	3.67
4077	4623	4.937620	TCATATTCAGTTCACTCAACCTGC	59.062	41.667	0.00	0.00	35.28	4.85
4079	4625	0.836606	TCAGTTCACTCAACCTGCCA	59.163	50.000	0.00	0.00	35.28	4.92
4173	4739	6.122964	TCTAGCTCACTGACTGATAGCTTAA	58.877	40.000	14.61	5.30	33.54	1.85
4306	4875	7.907389	TGTGTCTTCCATAGAATAACTGAACT	58.093	34.615	0.00	0.00	33.81	3.01
4322	4891	1.070289	GAACTCCGAGGGACAAACTGT	59.930	52.381	0.00	0.00	0.00	3.55
4323	4892	1.129058	ACTCCGAGGGACAAACTGTT	58.871	50.000	0.00	0.00	0.00	3.16
4324	4893	1.202651	ACTCCGAGGGACAAACTGTTG	60.203	52.381	0.00	0.00	40.84	3.33
4325	4894	0.107831	TCCGAGGGACAAACTGTTGG	59.892	55.000	0.00	0.00	39.22	3.77
4326	4895	0.107831	CCGAGGGACAAACTGTTGGA	59.892	55.000	1.05	0.00	39.22	3.53
4327	4896	1.271379	CCGAGGGACAAACTGTTGGAT	60.271	52.381	1.05	0.00	39.22	3.41
4328	4897	2.504367	CGAGGGACAAACTGTTGGATT	58.496	47.619	1.05	0.00	39.22	3.01
4329	4898	3.558321	CCGAGGGACAAACTGTTGGATTA	60.558	47.826	1.05	0.00	39.22	1.75
4333	4902	4.044065	AGGGACAAACTGTTGGATTATGGA	59.956	41.667	1.05	0.00	39.22	3.41
4334	4903	4.956075	GGGACAAACTGTTGGATTATGGAT	59.044	41.667	1.05	0.00	39.22	3.41
4335	4904	5.163519	GGGACAAACTGTTGGATTATGGATG	60.164	44.000	1.05	0.00	39.22	3.51
4336	4905	5.163519	GGACAAACTGTTGGATTATGGATGG	60.164	44.000	1.05	0.00	39.22	3.51
4337	4906	4.711355	ACAAACTGTTGGATTATGGATGGG	59.289	41.667	1.05	0.00	39.22	4.00
4338	4907	2.949447	ACTGTTGGATTATGGATGGGC	58.051	47.619	0.00	0.00	0.00	5.36
4339	4908	2.515429	ACTGTTGGATTATGGATGGGCT	59.485	45.455	0.00	0.00	0.00	5.19
4340	4909	3.052642	ACTGTTGGATTATGGATGGGCTT	60.053	43.478	0.00	0.00	0.00	4.35
4342	4911	4.728772	TGTTGGATTATGGATGGGCTTAG	58.271	43.478	0.00	0.00	0.00	2.18
4343	4912	4.082125	GTTGGATTATGGATGGGCTTAGG	58.918	47.826	0.00	0.00	0.00	2.69
4344	4913	2.041620	TGGATTATGGATGGGCTTAGGC	59.958	50.000	0.00	0.00	37.82	3.93
4361	4930	7.761038	GCTTAGGCCCATATAAAACACTAAT	57.239	36.000	0.00	0.00	0.00	1.73
4362	4931	7.817641	GCTTAGGCCCATATAAAACACTAATC	58.182	38.462	0.00	0.00	0.00	1.75
4363	4932	7.094334	GCTTAGGCCCATATAAAACACTAATCC	60.094	40.741	0.00	0.00	0.00	3.01
4364	4933	5.641155	AGGCCCATATAAAACACTAATCCC	58.359	41.667	0.00	0.00	0.00	3.85
4366	4935	5.476945	GGCCCATATAAAACACTAATCCCTG	59.523	44.000	0.00	0.00	0.00	4.45
4368	4937	6.948309	GCCCATATAAAACACTAATCCCTGAT	59.052	38.462	0.00	0.00	0.00	2.90
4369	4938	7.451566	GCCCATATAAAACACTAATCCCTGATT	59.548	37.037	0.00	0.00	36.20	2.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	9.994432	AGATCGAGCTAAATTCAAATTTTACAG	57.006	29.630	0.00	0.31	39.24	2.74
1	2	9.988350	GAGATCGAGCTAAATTCAAATTTTACA	57.012	29.630	1.61	0.00	39.24	2.41
15	16	6.149129	TGCATTAGAAAGAGATCGAGCTAA	57.851	37.500	1.61	0.00	0.00	3.09
16	17	5.774498	TGCATTAGAAAGAGATCGAGCTA	57.226	39.130	1.61	0.00	0.00	3.32
22	23	9.928236	GTGTCTATTTTGCATTAGAAAGAGATC	57.072	33.333	8.67	4.85	36.06	2.75
29	30	4.953579	GGGGGTGTCTATTTTGCATTAGAA	59.046	41.667	0.00	0.00	0.00	2.10
83	84	4.149046	GCGCACTAAGATTCTTCGGAATAG	59.851	45.833	0.30	0.00	43.87	1.73
89	90	1.640428	TGGCGCACTAAGATTCTTCG	58.360	50.000	10.83	1.68	0.00	3.79
97	98	0.248743	CATTGCCATGGCGCACTAAG	60.249	55.000	30.87	12.73	45.51	2.18
121	122	9.393249	TCGACATGTTTCAATTCATAGTTTTTC	57.607	29.630	0.00	0.00	0.00	2.29
122	123	9.912634	ATCGACATGTTTCAATTCATAGTTTTT	57.087	25.926	0.00	0.00	0.00	1.94
126	127	6.458751	GGCATCGACATGTTTCAATTCATAGT	60.459	38.462	0.00	0.00	31.86	2.12
127	128	5.911280	GGCATCGACATGTTTCAATTCATAG	59.089	40.000	0.00	0.00	31.86	2.23
128	129	5.503846	CGGCATCGACATGTTTCAATTCATA	60.504	40.000	0.00	0.00	39.00	2.15
129	130	4.675510	GGCATCGACATGTTTCAATTCAT	58.324	39.130	0.00	0.00	31.86	2.57
130	131	3.426025	CGGCATCGACATGTTTCAATTCA	60.426	43.478	0.00	0.00	39.00	2.57
177	181	1.207488	AGCAATGGGTGGCAGTCCTA	61.207	55.000	8.09	0.00	0.00	2.94
179	183	2.036256	AGCAATGGGTGGCAGTCC	59.964	61.111	0.00	0.00	0.00	3.85
181	185	2.360350	CGAGCAATGGGTGGCAGT	60.360	61.111	0.00	0.00	0.00	4.40
339	347	0.467106	CATCAGGGAGCTCGAGAGGA	60.467	60.000	18.75	3.66	0.00	3.71
377	385	1.513622	GGGAGAAGACGGAGCAGAC	59.486	63.158	0.00	0.00	0.00	3.51
648	656	3.538841	GACTGCTGTCGTTCGTGG	58.461	61.111	8.06	0.00	33.15	4.94
709	723	5.237236	AGAACCCTTCAAACTCGGAATAA	57.763	39.130	0.00	0.00	0.00	1.40
830	844	0.953960	GAAGGCCGTGATCGTTGGTT	60.954	55.000	0.00	0.00	35.01	3.67
831	845	1.375523	GAAGGCCGTGATCGTTGGT	60.376	57.895	0.00	0.00	35.01	3.67
832	846	2.106683	GGAAGGCCGTGATCGTTGG	61.107	63.158	0.00	0.00	35.01	3.77
833	847	0.953471	TTGGAAGGCCGTGATCGTTG	60.953	55.000	0.00	0.00	36.79	4.10
892	919	2.048127	GTGGTGAGGTGGAGACGC	60.048	66.667	0.00	0.00	41.20	5.19
949	986	2.793933	GCGTGGTCTCTCGTGTATTACC	60.794	54.545	0.00	0.00	33.06	2.85
1014	1061	2.737376	GCCGCCTTCTTCGACGTT	60.737	61.111	0.00	0.00	0.00	3.99
1105	1152	3.393941	CCCTGGAATATGGAGAGCTTCTT	59.606	47.826	0.00	0.00	0.00	2.52
1200	1247	1.300963	GATCCTGAGCTTGTGCCCA	59.699	57.895	0.00	0.00	40.80	5.36
1255	1302	2.257371	CACGGACACGACATCGGT	59.743	61.111	6.21	0.84	44.60	4.69
1281	1328	2.355363	CCGAACTTGGCGTCGTGA	60.355	61.111	0.00	0.00	0.00	4.35
1333	1380	3.550431	CCCCGTGATGCCCTCGAT	61.550	66.667	0.00	0.00	33.99	3.59
1584	1631	3.068064	GGTTTCCCCATGCCACCG	61.068	66.667	0.00	0.00	0.00	4.94
1647	1694	3.518590	GCCAATGCTTTTGAAGATCTGG	58.481	45.455	0.00	0.00	33.53	3.86
1703	1750	2.528127	TCTTGCCGGACCCTGGAA	60.528	61.111	5.05	0.00	0.00	3.53
2158	2205	0.034574	TGCGTATCCTTGGCAACCAT	60.035	50.000	0.00	0.00	33.01	3.55
2268	2315	1.374125	CTCGGCGTTGATGGTGTCA	60.374	57.895	6.85	0.00	34.25	3.58
2278	2325	1.404315	GGAGTTCAAGATCTCGGCGTT	60.404	52.381	6.85	0.00	0.00	4.84
2496	2543	1.201429	AGAACAGGACGCCCTTGGAT	61.201	55.000	0.00	0.00	42.02	3.41
2595	2642	3.715097	GTGAGCAGCTCTGGCCCT	61.715	66.667	23.15	0.00	39.73	5.19
2880	2927	3.706594	GGATGTAGATGAGTTGGTCCAGA	59.293	47.826	0.00	0.00	0.00	3.86
2889	2936	1.771255	GGCAAGGGGATGTAGATGAGT	59.229	52.381	0.00	0.00	0.00	3.41
2928	2976	3.456380	AGGCAGGCCTTAAAGATTTGA	57.544	42.857	0.00	0.00	45.70	2.69
2988	3036	0.249868	CAGTGGTGAACCTTGCGAGA	60.250	55.000	1.22	0.00	36.82	4.04
3101	3149	0.995024	CTCCATGGTGTCTTTCCCCT	59.005	55.000	12.58	0.00	0.00	4.79
3178	3230	2.809446	CCTCGCATACTTCATCGACAA	58.191	47.619	0.00	0.00	0.00	3.18
3179	3231	1.536072	GCCTCGCATACTTCATCGACA	60.536	52.381	0.00	0.00	0.00	4.35
3433	3494	4.914540	TGATCGACTCGATGAAGAGAAAG	58.085	43.478	18.61	0.00	47.00	2.62
3445	3878	8.286996	ACAATATAAAGTGAATGATCGACTCG	57.713	34.615	0.00	0.00	0.00	4.18
3737	4266	2.159085	ACTAATCTGTTCTACGCTGCCC	60.159	50.000	0.00	0.00	0.00	5.36
3743	4272	7.313646	TCTTTCCTTGACTAATCTGTTCTACG	58.686	38.462	0.00	0.00	0.00	3.51
3773	4302	8.035448	ACCTTAGATACTCCCAATTAAGAAGG	57.965	38.462	0.00	0.00	35.70	3.46
3794	4323	6.068010	TGGAAAAACACATGACTGATACCTT	58.932	36.000	0.00	0.00	0.00	3.50
3897	4427	5.134661	ACCGGATGGAAAACAGACTTTTTA	58.865	37.500	9.46	0.00	39.21	1.52
3965	4495	0.912486	GGGACAGGCTGAGTACCAAT	59.088	55.000	23.66	0.00	39.90	3.16
3968	4498	0.032416	TAGGGGACAGGCTGAGTACC	60.032	60.000	23.66	16.57	39.39	3.34
3970	4500	1.361543	AGTTAGGGGACAGGCTGAGTA	59.638	52.381	23.66	1.87	0.00	2.59
4077	4623	2.332654	GGTTGGCGCAGTTAGGTGG	61.333	63.158	10.83	0.00	0.00	4.61
4079	4625	2.033602	GGGTTGGCGCAGTTAGGT	59.966	61.111	10.83	0.00	0.00	3.08
4306	4875	0.107831	CCAACAGTTTGTCCCTCGGA	59.892	55.000	0.00	0.00	0.00	4.55
4322	4891	3.500289	GCCTAAGCCCATCCATAATCCAA	60.500	47.826	0.00	0.00	0.00	3.53
4323	4892	2.041620	GCCTAAGCCCATCCATAATCCA	59.958	50.000	0.00	0.00	0.00	3.41
4324	4893	2.728007	GCCTAAGCCCATCCATAATCC	58.272	52.381	0.00	0.00	0.00	3.01
4337	4906	7.094334	GGATTAGTGTTTTATATGGGCCTAAGC	60.094	40.741	4.53	0.00	38.76	3.09
4338	4907	7.393515	GGGATTAGTGTTTTATATGGGCCTAAG	59.606	40.741	4.53	0.00	0.00	2.18
4339	4908	7.074494	AGGGATTAGTGTTTTATATGGGCCTAA	59.926	37.037	4.53	0.00	0.00	2.69
4340	4909	6.564927	AGGGATTAGTGTTTTATATGGGCCTA	59.435	38.462	4.53	0.00	0.00	3.93
4342	4911	5.476945	CAGGGATTAGTGTTTTATATGGGCC	59.523	44.000	0.00	0.00	0.00	5.80
4343	4912	6.303839	TCAGGGATTAGTGTTTTATATGGGC	58.696	40.000	0.00	0.00	0.00	5.36
4344	4913	8.940397	AATCAGGGATTAGTGTTTTATATGGG	57.060	34.615	0.00	0.00	29.72	4.00

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.