AutoCloner

Multiple sequence alignment - TraesCS7A01G115100

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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	TraesCS7A01G115100	chr7A	100.000	2470	0	0	467	2936	71135242	71132773	0.000000e+00	4562
1	TraesCS7A01G115100	chr7A	99.623	530	2	0	2407	2936	71125302	71124773	0.000000e+00	968
2	TraesCS7A01G115100	chr7A	85.021	948	52	31	1521	2406	74601891	74602810	0.000000e+00	881
3	TraesCS7A01G115100	chr7A	90.196	612	34	17	959	1545	74601202	74601812	0.000000e+00	774
4	TraesCS7A01G115100	chr7A	100.000	262	0	0	1	262	71135708	71135447	4.400000e-133	484
5	TraesCS7A01G115100	chr7A	88.950	181	17	3	1972	2150	71120502	71120323	1.370000e-53	220
6	TraesCS7A01G115100	chr7A	81.048	248	36	8	994	1234	74856915	74857158	1.390000e-43	187
7	TraesCS7A01G115100	chr7A	88.889	99	10	1	777	875	74601049	74601146	1.430000e-23	121
8	TraesCS7A01G115100	chr7B	90.409	1126	57	19	467	1545	9810936	9812057	0.000000e+00	1434
9	TraesCS7A01G115100	chr7B	89.216	816	46	19	1612	2406	10102677	10103471	0.000000e+00	981
10	TraesCS7A01G115100	chr7B	88.214	823	36	15	739	1535	10208257	10209044	0.000000e+00	926
11	TraesCS7A01G115100	chr7B	83.074	963	82	37	566	1492	10101666	10102583	0.000000e+00	800
12	TraesCS7A01G115100	chr7B	90.985	599	25	13	1584	2180	9812151	9812722	0.000000e+00	780
13	TraesCS7A01G115100	chr7B	87.167	600	38	20	1581	2158	10209180	10209762	0.000000e+00	645
14	TraesCS7A01G115100	chr7B	85.474	475	25	13	1972	2405	9812737	9813208	3.450000e-124	455
15	TraesCS7A01G115100	chr7B	84.615	468	24	13	1958	2384	10209753	10210213	3.500000e-114	422
16	TraesCS7A01G115100	chr7B	80.442	317	46	9	923	1237	592418853	592418551	8.190000e-56	228
17	TraesCS7A01G115100	chr7D	87.441	844	47	24	1612	2406	66516499	66515666	0.000000e+00	917
18	TraesCS7A01G115100	chr7D	86.999	823	56	26	760	1550	66538884	66538081	0.000000e+00	880
19	TraesCS7A01G115100	chr7D	91.712	555	27	8	1612	2151	68802281	68802831	0.000000e+00	752
20	TraesCS7A01G115100	chr7D	90.942	552	29	6	962	1492	66517144	66516593	0.000000e+00	723
21	TraesCS7A01G115100	chr7D	93.265	490	19	7	1591	2079	68919464	68919940	0.000000e+00	710
22	TraesCS7A01G115100	chr7D	91.304	529	25	6	985	1492	68801659	68802187	0.000000e+00	702
23	TraesCS7A01G115100	chr7D	88.235	408	24	16	1106	1489	68918930	68919337	1.590000e-127	466
24	TraesCS7A01G115100	chr7D	88.827	358	11	7	2076	2406	68921189	68921544	2.110000e-111	412
25	TraesCS7A01G115100	chr7D	86.842	304	20	9	467	750	68801133	68801436	3.650000e-84	322
26	TraesCS7A01G115100	chr7D	91.667	240	9	4	714	948	68801425	68801658	3.650000e-84	322
27	TraesCS7A01G115100	chr7D	82.857	385	38	14	739	1115	68917389	68917753	1.310000e-83	320
28	TraesCS7A01G115100	chr7D	90.000	240	24	0	23	262	68800802	68801041	7.900000e-81	311
29	TraesCS7A01G115100	chr7D	78.873	355	38	12	569	915	66517488	66517163	3.840000e-49	206
30	TraesCS7A01G115100	chr7D	89.032	155	12	5	2254	2406	68802986	68803137	1.390000e-43	187
31	TraesCS7A01G115100	chr6A	97.552	531	12	1	2407	2936	372464533	372465063	0.000000e+00	907
32	TraesCS7A01G115100	chr6A	97.020	537	14	2	2401	2936	372473632	372474167	0.000000e+00	902
33	TraesCS7A01G115100	chr2A	97.175	531	13	2	2407	2936	730151133	730150604	0.000000e+00	896
34	TraesCS7A01G115100	chr1B	97.175	531	14	1	2407	2936	188014064	188014594	0.000000e+00	896
35	TraesCS7A01G115100	chr1B	97.175	531	14	1	2407	2936	188022126	188022656	0.000000e+00	896
36	TraesCS7A01G115100	chr1B	88.021	768	48	16	772	1499	678116450	678115687	0.000000e+00	869
37	TraesCS7A01G115100	chr1B	84.176	613	65	18	1584	2179	678115500	678114903	1.530000e-157	566
38	TraesCS7A01G115100	chr1B	79.184	245	23	8	2177	2405	678114878	678114646	8.480000e-31	145
39	TraesCS7A01G115100	chr1A	97.175	531	14	1	2407	2936	171687590	171687060	0.000000e+00	896
40	TraesCS7A01G115100	chr3A	96.488	541	15	4	2399	2936	210113905	210113366	0.000000e+00	891
41	TraesCS7A01G115100	chr5B	95.971	546	19	3	2392	2936	688917933	688917390	0.000000e+00	883
42	TraesCS7A01G115100	chr1D	89.510	715	40	12	816	1499	486926560	486925850	0.000000e+00	872
43	TraesCS7A01G115100	chr1D	84.078	873	82	18	1584	2405	486925639	486924773	0.000000e+00	789
44	TraesCS7A01G115100	chr5D	79.870	462	43	29	1842	2255	235711288	235710829	2.860000e-75	292
45	TraesCS7A01G115100	chr4B	78.995	438	51	14	1987	2397	258794756	258794333	8.070000e-66	261

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	TraesCS7A01G115100	chr7A	71132773	71135708	2935	True	2523.000000	4562	100.000000	1	2936	2	chr7A.!!$R3	2935
1	TraesCS7A01G115100	chr7A	71124773	71125302	529	True	968.000000	968	99.623000	2407	2936	1	chr7A.!!$R2	529
2	TraesCS7A01G115100	chr7A	74601049	74602810	1761	False	592.000000	881	88.035333	777	2406	3	chr7A.!!$F2	1629
3	TraesCS7A01G115100	chr7B	10101666	10103471	1805	False	890.500000	981	86.145000	566	2406	2	chr7B.!!$F2	1840
4	TraesCS7A01G115100	chr7B	9810936	9813208	2272	False	889.666667	1434	88.956000	467	2405	3	chr7B.!!$F1	1938
5	TraesCS7A01G115100	chr7B	10208257	10210213	1956	False	664.333333	926	86.665333	739	2384	3	chr7B.!!$F3	1645
6	TraesCS7A01G115100	chr7D	66538081	66538884	803	True	880.000000	880	86.999000	760	1550	1	chr7D.!!$R1	790
7	TraesCS7A01G115100	chr7D	66515666	66517488	1822	True	615.333333	917	85.752000	569	2406	3	chr7D.!!$R2	1837
8	TraesCS7A01G115100	chr7D	68917389	68921544	4155	False	477.000000	710	88.296000	739	2406	4	chr7D.!!$F2	1667
9	TraesCS7A01G115100	chr7D	68800802	68803137	2335	False	432.666667	752	90.092833	23	2406	6	chr7D.!!$F1	2383
10	TraesCS7A01G115100	chr6A	372464533	372465063	530	False	907.000000	907	97.552000	2407	2936	1	chr6A.!!$F1	529
11	TraesCS7A01G115100	chr6A	372473632	372474167	535	False	902.000000	902	97.020000	2401	2936	1	chr6A.!!$F2	535
12	TraesCS7A01G115100	chr2A	730150604	730151133	529	True	896.000000	896	97.175000	2407	2936	1	chr2A.!!$R1	529
13	TraesCS7A01G115100	chr1B	188014064	188014594	530	False	896.000000	896	97.175000	2407	2936	1	chr1B.!!$F1	529
14	TraesCS7A01G115100	chr1B	188022126	188022656	530	False	896.000000	896	97.175000	2407	2936	1	chr1B.!!$F2	529
15	TraesCS7A01G115100	chr1B	678114646	678116450	1804	True	526.666667	869	83.793667	772	2405	3	chr1B.!!$R1	1633
16	TraesCS7A01G115100	chr1A	171687060	171687590	530	True	896.000000	896	97.175000	2407	2936	1	chr1A.!!$R1	529
17	TraesCS7A01G115100	chr3A	210113366	210113905	539	True	891.000000	891	96.488000	2399	2936	1	chr3A.!!$R1	537
18	TraesCS7A01G115100	chr5B	688917390	688917933	543	True	883.000000	883	95.971000	2392	2936	1	chr5B.!!$R1	544
19	TraesCS7A01G115100	chr1D	486924773	486926560	1787	True	830.500000	872	86.794000	816	2405	2	chr1D.!!$R1	1589

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
540	541	0.252421	AGTCCTCATGCTCCACCTCA	60.252	55.0	0.0	0.0	0.0	3.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2396	5534	0.892755	TCGAGGGCGTCAACAATACT	59.107	50.0	8.06	0.0	38.98	2.12	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
43	44	7.653311	TGTTATTCATTAGAGGACACATCATCG	59.347	37.037	0.00	0.00	40.66	3.84
63	64	6.811253	ATCGGAGAGATGTGTACTAATCTC	57.189	41.667	21.42	21.42	46.12	2.75
72	73	9.677567	GAGATGTGTACTAATCTCTCATCTTTC	57.322	37.037	21.56	3.50	43.61	2.62
73	74	8.349245	AGATGTGTACTAATCTCTCATCTTTCG	58.651	37.037	5.37	0.00	38.43	3.46
82	83	4.793201	TCTCTCATCTTTCGAGGGATACA	58.207	43.478	2.64	0.00	35.02	2.29
83	84	4.824537	TCTCTCATCTTTCGAGGGATACAG	59.175	45.833	2.64	3.13	35.02	2.74
89	90	4.851843	TCTTTCGAGGGATACAGACTACA	58.148	43.478	0.00	0.00	39.74	2.74
93	94	4.597004	TCGAGGGATACAGACTACAGTTT	58.403	43.478	0.00	0.00	39.74	2.66
97	98	5.269991	AGGGATACAGACTACAGTTTGCTA	58.730	41.667	0.11	0.00	33.91	3.49
99	100	5.360144	GGGATACAGACTACAGTTTGCTAGA	59.640	44.000	0.00	0.00	33.91	2.43
102	103	7.148052	GGATACAGACTACAGTTTGCTAGAAGA	60.148	40.741	0.00	0.00	33.91	2.87
110	111	4.035675	ACAGTTTGCTAGAAGAGTTGCAAC	59.964	41.667	22.17	22.17	43.74	4.17
132	133	4.102210	ACTGAGGTTGCTCATATATGTGCT	59.898	41.667	29.81	16.49	44.90	4.40
184	185	9.877178	ATTCTATATTCGATGTAATCCTTGACC	57.123	33.333	0.00	0.00	41.39	4.02
187	188	1.202486	TCGATGTAATCCTTGACCCGC	60.202	52.381	0.00	0.00	41.39	6.13
199	200	3.521529	GACCCGCAGTGCACTCAGT	62.522	63.158	18.64	11.77	0.00	3.41
204	205	1.672737	CCGCAGTGCACTCAGTCATTA	60.673	52.381	18.64	0.00	0.00	1.90
237	238	2.173519	CATCTTTGCCATCAACACCCT	58.826	47.619	0.00	0.00	30.75	4.34
497	498	0.987294	CTGTCTCCCAGAACCACCAT	59.013	55.000	0.00	0.00	44.49	3.55
498	499	2.187958	CTGTCTCCCAGAACCACCATA	58.812	52.381	0.00	0.00	44.49	2.74
500	501	3.189606	TGTCTCCCAGAACCACCATAAT	58.810	45.455	0.00	0.00	0.00	1.28
540	541	0.252421	AGTCCTCATGCTCCACCTCA	60.252	55.000	0.00	0.00	0.00	3.86
563	564	5.907391	CACGCGAAGATTCTTAAAAACAAGT	59.093	36.000	15.93	0.00	0.00	3.16
567	586	6.133392	CGAAGATTCTTAAAAACAAGTGCGA	58.867	36.000	0.00	0.00	0.00	5.10
589	608	4.905429	ACACCATGCTCTTTGTACACATA	58.095	39.130	0.00	0.00	0.00	2.29
618	642	2.314647	CGACGACCGCACACCAATT	61.315	57.895	0.00	0.00	0.00	2.32
619	643	1.009903	CGACGACCGCACACCAATTA	61.010	55.000	0.00	0.00	0.00	1.40
647	675	6.028987	GTCCTCTCATACTTTACAACGACTC	58.971	44.000	0.00	0.00	0.00	3.36
652	680	6.206048	TCTCATACTTTACAACGACTCACTCA	59.794	38.462	0.00	0.00	0.00	3.41
706	734	3.141398	GCAAGTGTGTTGAGGAATCAGA	58.859	45.455	0.00	0.00	0.00	3.27
782	843	4.687215	TGCGCTCAGGAGTGTGGC	62.687	66.667	9.73	4.74	40.84	5.01
806	867	1.609239	CCCTCAAGCCCACTATGCA	59.391	57.895	0.00	0.00	0.00	3.96
873	935	1.081094	CAATCGTAACCGTCCCAACC	58.919	55.000	0.00	0.00	35.01	3.77
874	936	0.686224	AATCGTAACCGTCCCAACCA	59.314	50.000	0.00	0.00	35.01	3.67
875	937	0.686224	ATCGTAACCGTCCCAACCAA	59.314	50.000	0.00	0.00	35.01	3.67
951	1038	4.214327	CTCTCCTTCCCCGCTCGC	62.214	72.222	0.00	0.00	0.00	5.03
1074	1161	3.445687	TACCTGCACGCGGACGAT	61.446	61.111	12.47	0.00	43.93	3.73
1214	2487	4.143333	CTACCTCGGCACCACGGG	62.143	72.222	0.00	0.00	0.00	5.28
1245	2539	2.808315	CGAGGCCACAGCGACTAT	59.192	61.111	5.01	0.00	41.24	2.12
1320	2617	1.367471	CGATATCCTGCTCCGCCAA	59.633	57.895	0.00	0.00	0.00	4.52
1571	3008	4.605183	TGGGGATTTGTGTCCGATAAAAT	58.395	39.130	0.00	0.00	39.26	1.82
1744	3234	1.622607	CGTATTCAGGGGCAGGTCCA	61.623	60.000	0.00	0.00	36.21	4.02
1856	3346	4.840005	GCCTACCCCACTGCTCGC	62.840	72.222	0.00	0.00	0.00	5.03
1923	3413	3.311110	GGGACGCCAGGTGAGACA	61.311	66.667	7.13	0.00	0.00	3.41
1937	3428	0.727398	GAGACACGCCATTGCTAACC	59.273	55.000	0.00	0.00	34.43	2.85
1940	3431	0.036164	ACACGCCATTGCTAACCTCA	59.964	50.000	0.00	0.00	34.43	3.86
1941	3432	1.340017	ACACGCCATTGCTAACCTCAT	60.340	47.619	0.00	0.00	34.43	2.90
1942	3433	2.093181	ACACGCCATTGCTAACCTCATA	60.093	45.455	0.00	0.00	34.43	2.15
1943	3434	2.545526	CACGCCATTGCTAACCTCATAG	59.454	50.000	0.00	0.00	34.43	2.23
2042	3779	8.928448	ACTGCTGATAATCTTCAGTTAGGAATA	58.072	33.333	0.00	0.00	44.10	1.75
2096	5095	9.661954	AGATATAAGTAGAAGGAGTTGAATGGA	57.338	33.333	0.00	0.00	0.00	3.41
2264	5360	4.481368	TTGTCGCTTGTAGATACCCAAT	57.519	40.909	0.00	0.00	0.00	3.16
2265	5361	3.792401	TGTCGCTTGTAGATACCCAATG	58.208	45.455	0.00	0.00	0.00	2.82
2396	5534	5.586243	GCTATCTTTCAGGTTCTTGCACATA	59.414	40.000	0.00	0.00	0.00	2.29

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	8.065473	TGAATAACAGCACATGGTCATATTTT	57.935	30.769	0.00	0.00	0.00	1.82
2	3	7.828508	ATGAATAACAGCACATGGTCATATT	57.171	32.000	0.00	0.00	0.00	1.28
7	8	6.017605	CCTCTAATGAATAACAGCACATGGTC	60.018	42.308	0.00	0.00	0.00	4.02
8	9	5.824624	CCTCTAATGAATAACAGCACATGGT	59.175	40.000	0.00	0.00	0.00	3.55
9	10	6.017605	GTCCTCTAATGAATAACAGCACATGG	60.018	42.308	0.00	0.00	0.00	3.66
10	11	6.539826	TGTCCTCTAATGAATAACAGCACATG	59.460	38.462	0.00	0.00	0.00	3.21
11	12	6.540189	GTGTCCTCTAATGAATAACAGCACAT	59.460	38.462	0.00	0.00	0.00	3.21
12	13	5.874810	GTGTCCTCTAATGAATAACAGCACA	59.125	40.000	0.00	0.00	0.00	4.57
13	14	5.874810	TGTGTCCTCTAATGAATAACAGCAC	59.125	40.000	0.00	0.00	0.00	4.40
14	15	6.048732	TGTGTCCTCTAATGAATAACAGCA	57.951	37.500	0.00	0.00	0.00	4.41
15	16	6.763135	TGATGTGTCCTCTAATGAATAACAGC	59.237	38.462	0.00	0.00	0.00	4.40
16	17	8.899427	ATGATGTGTCCTCTAATGAATAACAG	57.101	34.615	0.00	0.00	0.00	3.16
17	18	7.653311	CGATGATGTGTCCTCTAATGAATAACA	59.347	37.037	0.00	0.00	0.00	2.41
18	19	7.116948	CCGATGATGTGTCCTCTAATGAATAAC	59.883	40.741	0.00	0.00	0.00	1.89
19	20	7.015195	TCCGATGATGTGTCCTCTAATGAATAA	59.985	37.037	0.00	0.00	0.00	1.40
20	21	6.493458	TCCGATGATGTGTCCTCTAATGAATA	59.507	38.462	0.00	0.00	0.00	1.75
21	22	5.305386	TCCGATGATGTGTCCTCTAATGAAT	59.695	40.000	0.00	0.00	0.00	2.57
52	53	6.263392	CCCTCGAAAGATGAGAGATTAGTACA	59.737	42.308	0.00	0.00	40.84	2.90
63	64	4.582656	AGTCTGTATCCCTCGAAAGATGAG	59.417	45.833	7.02	3.95	40.84	2.90
72	73	4.673441	CAAACTGTAGTCTGTATCCCTCG	58.327	47.826	0.00	0.00	0.00	4.63
73	74	4.160626	AGCAAACTGTAGTCTGTATCCCTC	59.839	45.833	0.00	0.00	0.00	4.30
80	81	5.536916	ACTCTTCTAGCAAACTGTAGTCTGT	59.463	40.000	0.00	0.00	0.00	3.41
82	83	6.451393	CAACTCTTCTAGCAAACTGTAGTCT	58.549	40.000	0.00	0.00	0.00	3.24
83	84	5.119434	GCAACTCTTCTAGCAAACTGTAGTC	59.881	44.000	0.00	0.00	0.00	2.59
93	94	3.555795	CCTCAGTTGCAACTCTTCTAGCA	60.556	47.826	28.97	6.70	37.08	3.49
97	98	3.209410	CAACCTCAGTTGCAACTCTTCT	58.791	45.455	28.97	10.16	46.43	2.85
132	133	4.576879	TCTCTACTGAAAGAGCACGTCTA	58.423	43.478	0.00	0.00	42.36	2.59
168	169	1.217882	GCGGGTCAAGGATTACATCG	58.782	55.000	0.00	0.00	0.00	3.84
184	185	0.952497	AATGACTGAGTGCACTGCGG	60.952	55.000	27.27	21.41	0.00	5.69
187	188	5.027206	CACTTTAATGACTGAGTGCACTG	57.973	43.478	27.27	13.81	33.87	3.66
199	200	7.118101	GCAAAGATGATTTTGGCACTTTAATGA	59.882	33.333	0.00	0.00	38.25	2.57
237	238	4.141756	TGGTGACGGTAACAACCTTAAGAA	60.142	41.667	3.36	0.00	35.71	2.52
479	480	2.335681	TATGGTGGTTCTGGGAGACA	57.664	50.000	0.00	0.00	0.00	3.41
497	498	1.150536	GCCTCCAATGGCCGGATTA	59.849	57.895	5.05	0.00	46.82	1.75
498	499	2.123726	GCCTCCAATGGCCGGATT	60.124	61.111	5.05	0.00	46.82	3.01
540	541	5.907391	CACTTGTTTTTAAGAATCTTCGCGT	59.093	36.000	5.77	0.00	0.00	6.01
563	564	0.534877	ACAAAGAGCATGGTGTCGCA	60.535	50.000	0.00	0.00	0.00	5.10
567	586	3.207265	TGTGTACAAAGAGCATGGTGT	57.793	42.857	0.00	0.00	0.00	4.16
589	608	1.837538	CGGTCGTCGCATGTTTGGTT	61.838	55.000	0.00	0.00	0.00	3.67
618	642	6.127814	CGTTGTAAAGTATGAGAGGACACCTA	60.128	42.308	0.00	0.00	31.76	3.08
619	643	5.336531	CGTTGTAAAGTATGAGAGGACACCT	60.337	44.000	0.00	0.00	36.03	4.00
652	680	2.159282	CCTATTCTACGTTCACCGCAGT	60.159	50.000	0.00	0.00	41.42	4.40
706	734	7.686438	AAAACTTGATTTGTTTCCTTTTGCT	57.314	28.000	0.00	0.00	36.72	3.91
820	882	1.737793	GGTATTTCAAGGTGGCTGACG	59.262	52.381	0.00	0.00	0.00	4.35
855	917	0.686224	TGGTTGGGACGGTTACGATT	59.314	50.000	0.00	0.00	44.60	3.34
873	935	2.421619	GAGGAGAGAAGGCTGTTGTTG	58.578	52.381	0.00	0.00	0.00	3.33
874	936	1.349357	GGAGGAGAGAAGGCTGTTGTT	59.651	52.381	0.00	0.00	0.00	2.83
875	937	0.980423	GGAGGAGAGAAGGCTGTTGT	59.020	55.000	0.00	0.00	0.00	3.32
915	977	1.774300	GTGGGGATGGTGGGTTCTT	59.226	57.895	0.00	0.00	0.00	2.52
951	1038	1.807573	GCGCGGTGGAGAGAGAAAG	60.808	63.158	8.83	0.00	0.00	2.62
1068	1155	2.511600	CCAAGCCCGTCATCGTCC	60.512	66.667	0.00	0.00	35.01	4.79
1245	2539	4.316823	ACCTCCTCCCACGGCTCA	62.317	66.667	0.00	0.00	0.00	4.26
1265	2559	4.100084	CGGCCTGCCACCTGATGA	62.100	66.667	9.17	0.00	35.37	2.92
1571	3008	5.864418	ATACGAAGCAGGGTACTCAATTA	57.136	39.130	0.00	0.00	0.00	1.40
1695	3185	2.975799	GCGAAGTTGGCGTTGGGA	60.976	61.111	0.00	0.00	0.00	4.37
1744	3234	2.290577	GCTTCTTCCTCAGGTGGAACAT	60.291	50.000	0.00	0.00	44.52	2.71
2042	3779	1.134098	CAACAGTCCACACAACTCCCT	60.134	52.381	0.00	0.00	0.00	4.20
2088	5087	5.988561	GCAAATACCAACTGTTTCCATTCAA	59.011	36.000	0.00	0.00	0.00	2.69
2089	5088	5.069648	TGCAAATACCAACTGTTTCCATTCA	59.930	36.000	0.00	0.00	0.00	2.57
2090	5089	5.537188	TGCAAATACCAACTGTTTCCATTC	58.463	37.500	0.00	0.00	0.00	2.67
2091	5090	5.543507	TGCAAATACCAACTGTTTCCATT	57.456	34.783	0.00	0.00	0.00	3.16
2092	5091	5.743636	ATGCAAATACCAACTGTTTCCAT	57.256	34.783	0.00	0.00	0.00	3.41
2093	5092	5.543507	AATGCAAATACCAACTGTTTCCA	57.456	34.783	0.00	0.00	0.00	3.53
2094	5093	5.576774	GCTAATGCAAATACCAACTGTTTCC	59.423	40.000	0.00	0.00	39.41	3.13
2095	5094	5.576774	GGCTAATGCAAATACCAACTGTTTC	59.423	40.000	0.00	0.00	41.91	2.78
2096	5095	5.245977	AGGCTAATGCAAATACCAACTGTTT	59.754	36.000	0.00	0.00	41.91	2.83
2097	5096	4.772100	AGGCTAATGCAAATACCAACTGTT	59.228	37.500	0.00	0.00	41.91	3.16
2192	5234	7.113658	ACTTGTATCAAGGACAGTACTATGG	57.886	40.000	12.95	0.00	0.00	2.74
2264	5360	8.439993	TTTACAGTACAAATAACTTGACTGCA	57.560	30.769	0.00	0.00	41.71	4.41
2265	5361	9.893305	AATTTACAGTACAAATAACTTGACTGC	57.107	29.630	0.00	0.00	41.71	4.40
2396	5534	0.892755	TCGAGGGCGTCAACAATACT	59.107	50.000	8.06	0.00	38.98	2.12
2900	6041	5.046950	TGCGTATGTTAGCCACCATATATGA	60.047	40.000	14.54	0.00	0.00	2.15

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.