AutoCloner

Multiple sequence alignment - TraesCS6A01G295600

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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	TraesCS6A01G295600	chr6A	100.000	3658	0	0	1	3658	529286158	529289815	0.000000e+00	6756
1	TraesCS6A01G295600	chr6A	86.803	3228	291	64	1	3174	529484260	529487406	0.000000e+00	3476
2	TraesCS6A01G295600	chr6A	86.512	3240	271	74	1	3174	529558363	529561502	0.000000e+00	3410
3	TraesCS6A01G295600	chr6A	80.682	880	104	34	2308	3172	529374998	529375826	1.120000e-174	623
4	TraesCS6A01G295600	chr6A	90.541	222	19	2	1	222	529374781	529375000	3.570000e-75	292
5	TraesCS6A01G295600	chr6A	75.241	622	91	27	1995	2585	536023764	536023175	1.700000e-58	237
6	TraesCS6A01G295600	chr6D	90.907	3651	219	33	50	3655	385164302	385167884	0.000000e+00	4798
7	TraesCS6A01G295600	chr6D	87.403	3231	270	54	1	3174	385221669	385224819	0.000000e+00	3585
8	TraesCS6A01G295600	chr6D	91.692	325	24	3	1	324	385163884	385164206	7.210000e-122	448
9	TraesCS6A01G295600	chr6D	75.708	848	127	40	1784	2593	389652372	389651566	5.810000e-93	351
10	TraesCS6A01G295600	chr6B	91.779	1922	128	13	1749	3658	575315387	575317290	0.000000e+00	2647
11	TraesCS6A01G295600	chr6B	91.255	1761	101	21	35	1751	575313666	575315417	0.000000e+00	2350
12	TraesCS6A01G295600	chr6B	83.681	1440	153	37	1764	3174	575321916	575323302	0.000000e+00	1282
13	TraesCS6A01G295600	chr6B	88.523	1063	85	10	670	1701	575320828	575321884	0.000000e+00	1253
14	TraesCS6A01G295600	chr6B	91.795	390	28	3	1	387	575320439	575320827	1.160000e-149	540
15	TraesCS6A01G295600	chr6B	76.694	841	117	42	1776	2589	583335393	583334605	9.520000e-106	394
16	TraesCS6A01G295600	chr6B	87.264	212	26	1	3448	3658	575324153	575324364	1.310000e-59	241
17	TraesCS6A01G295600	chr6B	86.755	151	18	2	3201	3351	575323297	575323445	2.260000e-37	167
18	TraesCS6A01G295600	chr6B	97.674	43	1	0	275	317	575320785	575320827	1.410000e-09	75
19	TraesCS6A01G295600	chr4A	81.152	191	36	0	3468	3658	729136927	729136737	1.760000e-33	154
20	TraesCS6A01G295600	chr3D	80.000	195	33	3	3467	3658	613605121	613604930	4.930000e-29	139

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	TraesCS6A01G295600	chr6A	529286158	529289815	3657	False	6756.000	6756	100.00000	1	3658	1	chr6A.!!$F1	3657
1	TraesCS6A01G295600	chr6A	529484260	529487406	3146	False	3476.000	3476	86.80300	1	3174	1	chr6A.!!$F2	3173
2	TraesCS6A01G295600	chr6A	529558363	529561502	3139	False	3410.000	3410	86.51200	1	3174	1	chr6A.!!$F3	3173
3	TraesCS6A01G295600	chr6A	529374781	529375826	1045	False	457.500	623	85.61150	1	3172	2	chr6A.!!$F4	3171
4	TraesCS6A01G295600	chr6A	536023175	536023764	589	True	237.000	237	75.24100	1995	2585	1	chr6A.!!$R1	590
5	TraesCS6A01G295600	chr6D	385221669	385224819	3150	False	3585.000	3585	87.40300	1	3174	1	chr6D.!!$F1	3173
6	TraesCS6A01G295600	chr6D	385163884	385167884	4000	False	2623.000	4798	91.29950	1	3655	2	chr6D.!!$F2	3654
7	TraesCS6A01G295600	chr6D	389651566	389652372	806	True	351.000	351	75.70800	1784	2593	1	chr6D.!!$R1	809
8	TraesCS6A01G295600	chr6B	575313666	575324364	10698	False	1069.375	2647	89.84075	1	3658	8	chr6B.!!$F1	3657
9	TraesCS6A01G295600	chr6B	583334605	583335393	788	True	394.000	394	76.69400	1776	2589	1	chr6B.!!$R1	813

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
133	134	0.042013	CGTACTCTAGCTCGAAGCCG	60.042	60.0	0.0	0.0	43.77	5.52	F
1002	1416	0.413434	CCAAAACCCCTCTCCCCAAT	59.587	55.0	0.0	0.0	0.00	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1431	1855	0.854062	CCACGCTACGACGAACAAAA	59.146	50.0	0.0	0.0	36.7	2.44	R
2951	10000	0.314935	CAGGGCACACAATCCACAAC	59.685	55.0	0.0	0.0	0.0	3.32	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
41	42	9.289303	GCACATAATTTTGACTTTCGATGTAAT	57.711	29.630	2.69	0.00	0.00	1.89
78	79	4.900635	AACCTTGTTTATCGCCATGATC	57.099	40.909	0.00	0.00	38.57	2.92
133	134	0.042013	CGTACTCTAGCTCGAAGCCG	60.042	60.000	0.00	0.00	43.77	5.52
160	161	1.271379	TGACGTGTCGGATAAGTGCTT	59.729	47.619	0.00	0.00	0.00	3.91
170	171	4.451096	TCGGATAAGTGCTTCAGTGAAAAC	59.549	41.667	7.06	8.44	0.00	2.43
226	227	8.231709	AGCCACATTACACCCCTATATTAAAAT	58.768	33.333	0.00	0.00	0.00	1.82
338	711	5.195940	CCCACATATCTGTCAAAAGTCCAT	58.804	41.667	0.00	0.00	31.62	3.41
343	716	8.729756	CACATATCTGTCAAAAGTCCATTGTTA	58.270	33.333	0.00	0.00	31.62	2.41
453	826	2.570581	CGCGCATTGACGGTTTCG	60.571	61.111	8.75	0.00	43.02	3.46
960	1374	1.411644	CCCTCCTCTTTTTATGCCCCC	60.412	57.143	0.00	0.00	0.00	5.40
1001	1415	1.735455	CCCAAAACCCCTCTCCCCAA	61.735	60.000	0.00	0.00	0.00	4.12
1002	1416	0.413434	CCAAAACCCCTCTCCCCAAT	59.587	55.000	0.00	0.00	0.00	3.16
1063	1483	7.872993	CCACCGTACTGAAATATAGATTGACAT	59.127	37.037	0.00	0.00	0.00	3.06
1068	1488	9.929180	GTACTGAAATATAGATTGACATAGGCA	57.071	33.333	0.00	0.00	0.00	4.75
1075	1495	1.344953	ATTGACATAGGCAGGGCGGA	61.345	55.000	0.00	0.00	0.00	5.54
1097	1521	3.959975	AGCGAGCGAGCGAGATCC	61.960	66.667	1.41	0.00	43.00	3.36
1233	1657	2.828095	ACAACAAGCAGGCACGCA	60.828	55.556	1.66	0.00	0.00	5.24
1431	1855	2.306847	AGCGTCACTGTTTTCCCATTT	58.693	42.857	0.00	0.00	0.00	2.32
1474	1899	3.564027	CCGGCGGAATTCTCGTGC	61.564	66.667	24.41	9.88	0.00	5.34
1641	2085	4.814234	GCATCCTACGATTTTGTGATGGTA	59.186	41.667	0.00	0.00	32.30	3.25
1654	2098	0.834612	GATGGTATCGTGGTTCCCCA	59.165	55.000	0.00	0.00	38.87	4.96
1664	2111	1.654159	TGGTTCCCCACGGTTATGTA	58.346	50.000	0.00	0.00	35.17	2.29
1667	2114	2.011947	GTTCCCCACGGTTATGTAAGC	58.988	52.381	0.00	0.00	0.00	3.09
1719	2166	7.416154	TGAAAATTTAGTGACAAGTACTCCG	57.584	36.000	0.00	0.00	0.00	4.63
1720	2167	6.987992	TGAAAATTTAGTGACAAGTACTCCGT	59.012	34.615	0.00	0.00	0.00	4.69
1721	2168	8.143193	TGAAAATTTAGTGACAAGTACTCCGTA	58.857	33.333	0.00	0.00	0.00	4.02
1722	2169	8.891671	AAAATTTAGTGACAAGTACTCCGTAA	57.108	30.769	0.00	0.00	0.00	3.18
1723	2170	9.498176	AAAATTTAGTGACAAGTACTCCGTAAT	57.502	29.630	0.00	0.00	0.00	1.89
1729	2176	8.475331	AGTGACAAGTACTCCGTAATAATTTG	57.525	34.615	0.00	0.00	0.00	2.32
1730	2177	8.308931	AGTGACAAGTACTCCGTAATAATTTGA	58.691	33.333	0.00	0.00	0.00	2.69
1731	2178	8.378421	GTGACAAGTACTCCGTAATAATTTGAC	58.622	37.037	0.00	0.00	0.00	3.18
1732	2179	8.089597	TGACAAGTACTCCGTAATAATTTGACA	58.910	33.333	0.00	0.00	0.00	3.58
1733	2180	8.836268	ACAAGTACTCCGTAATAATTTGACAA	57.164	30.769	0.00	0.00	0.00	3.18
1734	2181	8.932791	ACAAGTACTCCGTAATAATTTGACAAG	58.067	33.333	0.00	0.00	0.00	3.16
1735	2182	8.932791	CAAGTACTCCGTAATAATTTGACAAGT	58.067	33.333	0.00	0.00	0.00	3.16
1737	2184	9.578439	AGTACTCCGTAATAATTTGACAAGTAC	57.422	33.333	0.00	0.00	34.90	2.73
1738	2185	9.578439	GTACTCCGTAATAATTTGACAAGTACT	57.422	33.333	0.00	0.00	33.47	2.73
1739	2186	8.699283	ACTCCGTAATAATTTGACAAGTACTC	57.301	34.615	0.00	0.00	0.00	2.59
1740	2187	7.763071	ACTCCGTAATAATTTGACAAGTACTCC	59.237	37.037	0.00	0.00	0.00	3.85
1741	2188	6.753279	TCCGTAATAATTTGACAAGTACTCCG	59.247	38.462	0.00	0.00	0.00	4.63
1742	2189	6.532657	CCGTAATAATTTGACAAGTACTCCGT	59.467	38.462	0.00	0.00	0.00	4.69
1743	2190	7.701924	CCGTAATAATTTGACAAGTACTCCGTA	59.298	37.037	0.00	0.00	0.00	4.02
1744	2191	9.075519	CGTAATAATTTGACAAGTACTCCGTAA	57.924	33.333	0.00	0.00	0.00	3.18
1888	2343	5.353678	GCATGAATCTTATGCTCTCCCATAC	59.646	44.000	0.00	0.00	45.64	2.39
1890	2345	7.580302	GCATGAATCTTATGCTCTCCCATACTA	60.580	40.741	0.00	0.00	45.64	1.82
1932	2392	6.279882	CAAACCTTTTTCCTCAGCATGTTAA	58.720	36.000	0.00	0.00	37.40	2.01
1936	2396	5.349543	CCTTTTTCCTCAGCATGTTAATTGC	59.650	40.000	5.47	5.47	40.45	3.56
1957	2417	3.612423	GCTGCCGATACATTTTTGGTTTC	59.388	43.478	0.00	0.00	0.00	2.78
2042	2513	3.016997	CATGGGTGCTCATAGCCTG	57.983	57.895	0.00	0.00	41.51	4.85
2053	2524	6.264067	GGTGCTCATAGCCTGATAATTTTTCT	59.736	38.462	0.00	0.00	41.51	2.52
2092	2572	2.288666	TGAATTATGCTCGAACTGCCC	58.711	47.619	0.00	0.00	0.00	5.36
2318	9326	6.092092	TCGTATTTCTTTGATTGCCACAATG	58.908	36.000	0.00	0.00	0.00	2.82
2439	9470	3.196254	ACATGATGGTCCAATTCCTTTGC	59.804	43.478	0.00	0.00	33.73	3.68
2440	9471	2.886913	TGATGGTCCAATTCCTTTGCA	58.113	42.857	0.00	0.00	33.73	4.08
2447	9480	4.462483	GGTCCAATTCCTTTGCATGTCTTA	59.538	41.667	0.00	0.00	33.73	2.10
2498	9531	2.237392	GGAGTGCAGGGAGAAGTACATT	59.763	50.000	0.00	0.00	0.00	2.71
2511	9544	8.041323	GGGAGAAGTACATTGAGAAAGACATAA	58.959	37.037	0.00	0.00	0.00	1.90
2536	9570	0.663153	GAAAATAAGCGCCGCCTCAT	59.337	50.000	4.98	0.00	0.00	2.90
2558	9592	2.285368	ATCAGGAAGGCCCCGTCA	60.285	61.111	0.00	0.00	34.66	4.35
2689	9723	1.349688	TCCACCATGTTTAAGCCGTCT	59.650	47.619	0.00	0.00	0.00	4.18
2690	9724	2.568062	TCCACCATGTTTAAGCCGTCTA	59.432	45.455	0.00	0.00	0.00	2.59
2755	9790	3.782656	ATAATGGTCGGTTACATCCCC	57.217	47.619	0.00	0.00	0.00	4.81
2766	9801	2.325583	TACATCCCCGTTTCATGAGC	57.674	50.000	0.00	0.00	0.00	4.26
2772	9807	0.804989	CCCGTTTCATGAGCCAGTTC	59.195	55.000	0.00	0.00	0.00	3.01
2951	10000	0.936764	CGTCGATCATTGCTCCCTCG	60.937	60.000	0.00	0.00	0.00	4.63
2992	10045	1.427368	TCTAGCCACCCCACATGTTTT	59.573	47.619	0.00	0.00	0.00	2.43
2993	10046	1.818674	CTAGCCACCCCACATGTTTTC	59.181	52.381	0.00	0.00	0.00	2.29
2994	10047	0.831711	AGCCACCCCACATGTTTTCC	60.832	55.000	0.00	0.00	0.00	3.13
3047	10100	3.746045	TCCTCGAGTTAGTTGTTGCTT	57.254	42.857	12.31	0.00	0.00	3.91
3144	10205	1.705256	CAAAGTTGGAGTACGCGCTA	58.295	50.000	5.73	0.00	0.00	4.26
3236	10297	3.378399	GAGGCCCCTCTCGCTTGAC	62.378	68.421	0.00	0.00	39.80	3.18
3282	10343	3.971468	AGATGGCTTATTTGGGGCTAA	57.029	42.857	0.00	0.00	0.00	3.09
3287	10348	2.091830	GGCTTATTTGGGGCTAACCTCT	60.092	50.000	0.00	0.00	37.32	3.69
3351	10412	2.933834	GCACAGGGGGTAGGGTGT	60.934	66.667	0.00	0.00	33.88	4.16
3378	10988	9.392259	AGGGACACTATAACTATGCTTTTTAAC	57.608	33.333	0.00	0.00	0.00	2.01
3394	11004	8.453320	TGCTTTTTAACATCTATGTGTCTCATG	58.547	33.333	0.00	0.00	41.61	3.07
3414	11025	7.992608	TCTCATGGTAAGCAGAAAAAGCATATA	59.007	33.333	0.00	0.00	0.00	0.86
3491	11170	5.179555	GTGTTTGGACCTTGATACTTGAGAC	59.820	44.000	0.00	0.00	0.00	3.36
3514	11193	1.421382	CAATTGCTGCGGAAACCAAG	58.579	50.000	0.00	0.00	0.00	3.61
3544	11223	2.013563	GCAATGTCCGATGCAAGAGGA	61.014	52.381	4.32	4.32	42.12	3.71
3560	11239	0.914644	AGGATGGCTAGCTTTGCTCA	59.085	50.000	15.72	2.85	40.44	4.26
3571	11250	6.197981	GCTAGCTTTGCTCAGATATTTTGAC	58.802	40.000	7.70	0.00	40.44	3.18
3595	11274	3.881688	GCATGCACTGGAGATGTAAGAAT	59.118	43.478	14.21	0.00	0.00	2.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
78	79	6.132056	GTCTTTTGCATGCGTTATGATAGAG	58.868	40.000	14.09	0.00	39.21	2.43
133	134	2.795175	ATCCGACACGTCATACATCC	57.205	50.000	0.00	0.00	0.00	3.51
160	161	3.239587	TGTGTCTCACGTTTTCACTGA	57.760	42.857	9.95	0.00	37.14	3.41
170	171	1.517276	GACGTCAACTTGTGTCTCACG	59.483	52.381	11.55	4.15	37.14	4.35
226	227	4.094294	CACTCGAATATTTTTCGGGAGCAA	59.906	41.667	14.76	0.00	44.60	3.91
338	711	6.073447	TGGCCTAGATCAAGGAAATAACAA	57.927	37.500	3.32	0.00	39.15	2.83
343	716	3.686691	GCACTGGCCTAGATCAAGGAAAT	60.687	47.826	3.32	0.00	39.15	2.17
453	826	0.533032	GGACTATCGATAGGGCTGCC	59.467	60.000	30.71	20.34	34.69	4.85
1001	1415	7.065120	CAAGATTTGGAGAGAGACTGGATAT	57.935	40.000	0.00	0.00	0.00	1.63
1002	1416	6.477053	CAAGATTTGGAGAGAGACTGGATA	57.523	41.667	0.00	0.00	0.00	2.59
1063	1483	2.931105	TGGTTTCCGCCCTGCCTA	60.931	61.111	0.00	0.00	0.00	3.93
1068	1488	4.394712	CTCGCTGGTTTCCGCCCT	62.395	66.667	0.00	0.00	0.00	5.19
1075	1495	4.357947	TCGCTCGCTCGCTGGTTT	62.358	61.111	0.00	0.00	0.00	3.27
1111	1535	1.982612	CTTGTTGAGCATCTCGTCGA	58.017	50.000	0.00	0.00	34.92	4.20
1218	1642	3.952675	CGTGCGTGCCTGCTTGTT	61.953	61.111	0.00	0.00	35.36	2.83
1394	1818	7.387122	CAGTGACGCTAGTACCTGTAGATATAA	59.613	40.741	0.00	0.00	0.00	0.98
1431	1855	0.854062	CCACGCTACGACGAACAAAA	59.146	50.000	0.00	0.00	36.70	2.44
1474	1899	1.308998	ACTGAAACACAAGGCCGAAG	58.691	50.000	0.00	0.00	0.00	3.79
1654	2098	3.825143	ATAACCCGCTTACATAACCGT	57.175	42.857	0.00	0.00	0.00	4.83
1664	2111	1.202651	CGGATCCTGAATAACCCGCTT	60.203	52.381	10.75	0.00	0.00	4.68
1667	2114	2.614829	AACGGATCCTGAATAACCCG	57.385	50.000	10.75	0.00	42.30	5.28
1709	2156	8.932791	ACTTGTCAAATTATTACGGAGTACTTG	58.067	33.333	0.00	0.00	45.76	3.16
1712	2159	9.578439	AGTACTTGTCAAATTATTACGGAGTAC	57.422	33.333	14.91	14.91	45.76	2.73
1715	2162	7.043590	CGGAGTACTTGTCAAATTATTACGGAG	60.044	40.741	0.00	0.00	0.00	4.63
1718	2165	7.515957	ACGGAGTACTTGTCAAATTATTACG	57.484	36.000	0.00	0.00	41.94	3.18
1800	2247	2.138320	AGCATCGAATCAGCATTACCG	58.862	47.619	0.00	0.00	0.00	4.02
1888	2343	6.073548	GGTTTGCATCGAACATTCCTCTATAG	60.074	42.308	2.40	0.00	29.89	1.31
1890	2345	4.576463	GGTTTGCATCGAACATTCCTCTAT	59.424	41.667	2.40	0.00	29.89	1.98
1932	2392	3.195396	ACCAAAAATGTATCGGCAGCAAT	59.805	39.130	0.00	0.00	0.00	3.56
1936	2396	4.804108	TGAAACCAAAAATGTATCGGCAG	58.196	39.130	0.00	0.00	0.00	4.85
2053	2524	9.921637	ATAATTCAGCGACCAAAATTAAAAGAA	57.078	25.926	0.00	0.00	30.01	2.52
2261	2746	5.106475	TGGTAACGAGTGACAATTTTATGGC	60.106	40.000	0.00	0.00	42.51	4.40
2318	9326	7.672983	TTTATTTCTCTCTGGTTGATGACAC	57.327	36.000	0.00	0.00	0.00	3.67
2353	9364	6.215121	TGCAGTGAAGAAACCATGTATTTTG	58.785	36.000	0.00	0.00	0.00	2.44
2359	9370	5.301551	TGTTATTGCAGTGAAGAAACCATGT	59.698	36.000	0.00	0.00	0.00	3.21
2439	9470	4.134379	ACTCACTCCTGCATAAGACATG	57.866	45.455	2.72	0.00	0.00	3.21
2440	9471	4.833478	AACTCACTCCTGCATAAGACAT	57.167	40.909	2.72	0.00	0.00	3.06
2447	9480	3.731716	TGCAAACTCACTCCTGCAT	57.268	47.368	0.00	0.00	39.77	3.96
2476	9509	1.267121	GTACTTCTCCCTGCACTCCA	58.733	55.000	0.00	0.00	0.00	3.86
2511	9544	1.065551	GCGGCGCTTATTTTCCATCTT	59.934	47.619	26.86	0.00	0.00	2.40
2526	9560	0.738762	CTGATGGATATGAGGCGGCG	60.739	60.000	0.51	0.51	0.00	6.46
2536	9570	1.127567	CGGGGCCTTCCTGATGGATA	61.128	60.000	0.84	0.00	44.90	2.59
2689	9723	9.650714	ACTACCTTGTACTTGTATACATGGATA	57.349	33.333	19.59	9.45	46.25	2.59
2690	9724	8.548880	ACTACCTTGTACTTGTATACATGGAT	57.451	34.615	19.59	0.00	46.25	3.41
2755	9790	0.443869	CGGAACTGGCTCATGAAACG	59.556	55.000	0.00	0.00	0.00	3.60
2951	10000	0.314935	CAGGGCACACAATCCACAAC	59.685	55.000	0.00	0.00	0.00	3.32
2992	10045	0.951558	GCCAGAAACGCTCAAAAGGA	59.048	50.000	0.00	0.00	0.00	3.36
2993	10046	0.667993	TGCCAGAAACGCTCAAAAGG	59.332	50.000	0.00	0.00	0.00	3.11
2994	10047	2.712057	ATGCCAGAAACGCTCAAAAG	57.288	45.000	0.00	0.00	0.00	2.27
3047	10100	1.338136	GGCTCCTCGGAATCCCAAGA	61.338	60.000	0.00	0.00	0.00	3.02
3136	10197	3.187842	AGATATTGTCGATGTAGCGCGTA	59.812	43.478	8.43	0.00	0.00	4.42
3144	10205	5.596361	AGGTGAAGAGAGATATTGTCGATGT	59.404	40.000	0.00	0.00	0.00	3.06
3250	10311	1.609208	AGCCATCTTCAGTTTGCGTT	58.391	45.000	0.00	0.00	0.00	4.84
3251	10312	1.609208	AAGCCATCTTCAGTTTGCGT	58.391	45.000	0.00	0.00	0.00	5.24
3287	10348	0.031314	GAGCGATGGAATGCTCGAGA	59.969	55.000	18.75	1.31	47.00	4.04
3376	10986	6.051717	GCTTACCATGAGACACATAGATGTT	58.948	40.000	0.00	0.00	39.39	2.71
3378	10988	5.604565	TGCTTACCATGAGACACATAGATG	58.395	41.667	0.00	0.00	37.46	2.90
3414	11025	5.466819	TCGTCACTGACACGAATCTTAAAT	58.533	37.500	9.84	0.00	43.13	1.40
3465	11144	3.434940	AGTATCAAGGTCCAAACACCC	57.565	47.619	0.00	0.00	37.09	4.61
3491	11170	1.139163	GTTTCCGCAGCAATTGGTTG	58.861	50.000	7.57	3.54	38.39	3.77
3514	11193	1.372087	CGGACATTGCCAAGAGCCTC	61.372	60.000	0.00	0.00	42.71	4.70
3544	11223	4.637387	ATATCTGAGCAAAGCTAGCCAT	57.363	40.909	12.13	0.00	39.88	4.40
3560	11239	4.097437	CCAGTGCATGCAGTCAAAATATCT	59.903	41.667	25.16	9.59	0.00	1.98
3571	11250	2.320745	TACATCTCCAGTGCATGCAG	57.679	50.000	23.41	10.61	0.00	4.41
3595	11274	1.331214	CTTCCAGAGCTTTTGGGCAA	58.669	50.000	15.76	5.60	36.34	4.52

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.