AutoCloner

Multiple sequence alignment - TraesCS2A01G025500

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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	TraesCS2A01G025500	chr2A	100.000	3282	0	0	1	3282	12049592	12046311	0.000000e+00	6061.0
1	TraesCS2A01G025500	chr2A	93.516	1388	64	13	955	2335	12073525	12072157	0.000000e+00	2041.0
2	TraesCS2A01G025500	chr2A	88.239	1658	128	34	723	2335	12103609	12101974	0.000000e+00	1919.0
3	TraesCS2A01G025500	chr2A	91.057	1353	110	6	991	2336	15394869	15396217	0.000000e+00	1818.0
4	TraesCS2A01G025500	chr2A	82.812	512	56	10	443	931	12080319	12079817	2.340000e-116	429.0
5	TraesCS2A01G025500	chr2A	87.625	299	29	3	3	293	12094987	12094689	1.130000e-89	340.0
6	TraesCS2A01G025500	chr2A	89.888	89	9	0	2247	2335	15398761	15398849	7.440000e-22	115.0
7	TraesCS2A01G025500	chr2A	78.400	125	10	10	2271	2379	15399326	15399449	7.600000e-07	65.8
8	TraesCS2A01G025500	chr2A	95.000	40	0	1	745	784	15394603	15394640	9.830000e-06	62.1
9	TraesCS2A01G025500	chr2D	91.341	2044	141	16	1263	3282	11477739	11475708	0.000000e+00	2761.0
10	TraesCS2A01G025500	chr2D	92.683	1517	97	9	975	2490	11509927	11508424	0.000000e+00	2174.0
11	TraesCS2A01G025500	chr2D	90.525	1372	110	11	995	2349	13421438	13422806	0.000000e+00	1796.0
12	TraesCS2A01G025500	chr2D	84.588	850	72	27	443	1251	11478633	11477802	0.000000e+00	789.0
13	TraesCS2A01G025500	chr2D	81.096	529	57	30	754	1251	11496815	11496299	1.850000e-102	383.0
14	TraesCS2A01G025500	chr2D	87.667	300	28	5	3	293	11479196	11478897	1.130000e-89	340.0
15	TraesCS2A01G025500	chr2D	88.841	233	19	4	964	1192	617051327	617051556	2.490000e-71	279.0
16	TraesCS2A01G025500	chr2D	83.636	110	17	1	2493	2601	634409636	634409745	5.790000e-18	102.0
17	TraesCS2A01G025500	chr2D	83.486	109	16	2	2492	2598	575241076	575241184	2.080000e-17	100.0
18	TraesCS2A01G025500	chr2D	79.839	124	9	10	2271	2379	13423225	13423347	3.510000e-10	76.8
19	TraesCS2A01G025500	chr2B	90.649	1540	106	17	985	2490	17874044	17872509	0.000000e+00	2012.0
20	TraesCS2A01G025500	chr2B	87.393	1642	147	35	745	2349	24089284	24090902	0.000000e+00	1831.0
21	TraesCS2A01G025500	chr2B	92.955	1022	72	0	1263	2284	17882923	17881902	0.000000e+00	1489.0
22	TraesCS2A01G025500	chr2B	92.427	515	32	4	403	917	17874553	17874046	0.000000e+00	728.0
23	TraesCS2A01G025500	chr2B	84.346	428	52	10	2666	3084	17872516	17872095	3.940000e-109	405.0
24	TraesCS2A01G025500	chr2B	91.051	257	20	2	995	1251	17883303	17883050	8.720000e-91	344.0
25	TraesCS2A01G025500	chr2B	88.148	270	25	6	2665	2929	474908662	474908395	6.840000e-82	315.0
26	TraesCS2A01G025500	chr2B	85.574	305	30	3	3	293	17874967	17874663	1.140000e-79	307.0
27	TraesCS2A01G025500	chrUn	87.407	270	27	6	2665	2929	93409422	93409689	1.480000e-78	303.0
28	TraesCS2A01G025500	chrUn	87.407	270	27	6	2665	2929	216521781	216522048	1.480000e-78	303.0
29	TraesCS2A01G025500	chrUn	87.407	270	27	6	2665	2929	389445245	389444978	1.480000e-78	303.0
30	TraesCS2A01G025500	chr6D	87.407	270	27	6	2665	2929	168255135	168254868	1.480000e-78	303.0
31	TraesCS2A01G025500	chr6D	81.395	129	17	6	2490	2616	84091491	84091614	7.490000e-17	99.0
32	TraesCS2A01G025500	chr5D	87.407	270	27	6	2665	2929	503218427	503218160	1.480000e-78	303.0
33	TraesCS2A01G025500	chr4A	87.407	270	27	6	2665	2929	73812299	73812566	1.480000e-78	303.0
34	TraesCS2A01G025500	chr4A	83.810	105	9	5	2524	2628	621660836	621660740	3.490000e-15	93.5
35	TraesCS2A01G025500	chr3A	83.396	265	32	7	33	293	569717794	569717538	5.470000e-58	235.0
36	TraesCS2A01G025500	chr4B	81.944	144	20	6	2524	2662	55032342	55032200	2.070000e-22	117.0
37	TraesCS2A01G025500	chr7B	84.956	113	13	3	2518	2628	5054355	5054465	9.630000e-21	111.0
38	TraesCS2A01G025500	chr7B	77.005	187	33	10	2490	2670	588059800	588059982	7.490000e-17	99.0
39	TraesCS2A01G025500	chr7D	78.771	179	25	8	2490	2664	429707941	429707772	1.250000e-19	108.0
40	TraesCS2A01G025500	chr1D	79.577	142	24	5	2527	2666	433292189	433292327	2.700000e-16	97.1
41	TraesCS2A01G025500	chr5B	76.571	175	23	13	2490	2663	347989644	347989801	2.710000e-11	80.5

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	TraesCS2A01G025500	chr2A	12046311	12049592	3281	True	6061.000000	6061	100.000000	1	3282	1	chr2A.!!$R1	3281
1	TraesCS2A01G025500	chr2A	12072157	12073525	1368	True	2041.000000	2041	93.516000	955	2335	1	chr2A.!!$R2	1380
2	TraesCS2A01G025500	chr2A	12101974	12103609	1635	True	1919.000000	1919	88.239000	723	2335	1	chr2A.!!$R5	1612
3	TraesCS2A01G025500	chr2A	15394603	15399449	4846	False	515.225000	1818	88.586250	745	2379	4	chr2A.!!$F1	1634
4	TraesCS2A01G025500	chr2A	12079817	12080319	502	True	429.000000	429	82.812000	443	931	1	chr2A.!!$R3	488
5	TraesCS2A01G025500	chr2D	11508424	11509927	1503	True	2174.000000	2174	92.683000	975	2490	1	chr2D.!!$R2	1515
6	TraesCS2A01G025500	chr2D	11475708	11479196	3488	True	1296.666667	2761	87.865333	3	3282	3	chr2D.!!$R3	3279
7	TraesCS2A01G025500	chr2D	13421438	13423347	1909	False	936.400000	1796	85.182000	995	2379	2	chr2D.!!$F4	1384
8	TraesCS2A01G025500	chr2D	11496299	11496815	516	True	383.000000	383	81.096000	754	1251	1	chr2D.!!$R1	497
9	TraesCS2A01G025500	chr2B	24089284	24090902	1618	False	1831.000000	1831	87.393000	745	2349	1	chr2B.!!$F1	1604
10	TraesCS2A01G025500	chr2B	17881902	17883303	1401	True	916.500000	1489	92.003000	995	2284	2	chr2B.!!$R3	1289
11	TraesCS2A01G025500	chr2B	17872095	17874967	2872	True	863.000000	2012	88.249000	3	3084	4	chr2B.!!$R2	3081

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
689	844	0.460284	ATAGCTGACCGGTTCAAGCG	60.460	55.0	23.84	0.85	39.06	4.68	F
1116	1394	0.314302	GCGTGTATCAGGCCGACTAT	59.686	55.0	0.00	0.00	39.02	2.12	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1564	1990	0.745845	ACATCATGAGGCGCTTCACC	60.746	55.0	25.51	0.0	0.00	4.02	R
2862	6442	0.396556	AACAAGGGGCACTTTCGGTT	60.397	50.0	0.00	0.0	37.29	4.44	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
60	67	8.020819	TGTTTGTTCATGCAATAGTAGTTAAGC	58.979	33.333	0.00	0.00	0.00	3.09
114	121	9.687210	AGTCATTTGTCTTTATATATACGCGAA	57.313	29.630	15.93	0.00	0.00	4.70
353	398	9.887629	AAAATAATAAATGATGTGGCATTGTGA	57.112	25.926	0.00	0.00	38.42	3.58
378	423	3.691118	TCTTGCTTAATGTGGTGCTCATC	59.309	43.478	0.00	0.00	0.00	2.92
379	424	2.368439	TGCTTAATGTGGTGCTCATCC	58.632	47.619	0.00	0.00	0.00	3.51
380	425	2.290832	TGCTTAATGTGGTGCTCATCCA	60.291	45.455	0.00	0.00	0.00	3.41
388	433	2.549754	GTGGTGCTCATCCATTATTCCG	59.450	50.000	0.00	0.00	37.30	4.30
397	442	7.882791	TGCTCATCCATTATTCCGTTACATTAT	59.117	33.333	0.00	0.00	0.00	1.28
398	443	8.730680	GCTCATCCATTATTCCGTTACATTATT	58.269	33.333	0.00	0.00	0.00	1.40
461	594	6.554334	TGTCCTAACTGTGCAAAAGATTAC	57.446	37.500	4.72	0.00	0.00	1.89
467	600	9.256477	CCTAACTGTGCAAAAGATTACGATATA	57.744	33.333	4.72	0.00	0.00	0.86
482	615	2.288213	CGATATATATGGCCCGTGCGAT	60.288	50.000	0.00	0.00	39.45	4.58
495	628	3.187058	GCGATTGCACGGGTTCAT	58.813	55.556	0.00	0.00	42.15	2.57
519	652	9.838975	CATAACTAGTGATGCTCTAACTCATAG	57.161	37.037	7.31	0.00	0.00	2.23
520	653	7.889873	AACTAGTGATGCTCTAACTCATAGT	57.110	36.000	0.00	0.00	33.08	2.12
523	670	6.142818	AGTGATGCTCTAACTCATAGTGAC	57.857	41.667	0.00	0.00	33.08	3.67
528	675	2.029623	TCTAACTCATAGTGACGCCCC	58.970	52.381	0.00	0.00	33.08	5.80
558	705	6.473455	GCGCTAGAGCAAATATTGAACAATTT	59.527	34.615	14.09	0.00	42.21	1.82
601	748	1.549170	GACCACATCTTCCACCTACGT	59.451	52.381	0.00	0.00	0.00	3.57
617	767	4.141482	ACCTACGTACTCCCCGAACTATTA	60.141	45.833	0.00	0.00	0.00	0.98
623	773	4.181799	ACTCCCCGAACTATTAGCTAGT	57.818	45.455	0.00	0.00	42.69	2.57
669	824	6.349300	AGGTAGTTATTAGCTTGATGTGGTG	58.651	40.000	0.00	0.00	36.75	4.17
689	844	0.460284	ATAGCTGACCGGTTCAAGCG	60.460	55.000	23.84	0.85	39.06	4.68
945	1164	4.338795	TTCATCTACCTCCTCCTGTTCT	57.661	45.455	0.00	0.00	0.00	3.01
1008	1286	2.829914	TGCAGATCAATGGCGGCC	60.830	61.111	13.32	13.32	0.00	6.13
1104	1382	2.686816	GCCGGCAAACTGCGTGTAT	61.687	57.895	24.80	0.00	46.21	2.29
1116	1394	0.314302	GCGTGTATCAGGCCGACTAT	59.686	55.000	0.00	0.00	39.02	2.12
1181	1459	4.501571	CGACCTCAAGGAGAAGTTCAAGAA	60.502	45.833	5.50	0.00	38.94	2.52
1203	1486	6.438425	AGAAGATGTGTAAGCCCAATGAATTT	59.562	34.615	0.00	0.00	0.00	1.82
1235	1533	3.153919	TGCCGTCTCTTAATTTTGCCTT	58.846	40.909	0.00	0.00	0.00	4.35
1242	1543	7.363431	CGTCTCTTAATTTTGCCTTTTTCTCT	58.637	34.615	0.00	0.00	0.00	3.10
1247	1548	7.599998	TCTTAATTTTGCCTTTTTCTCTGATGC	59.400	33.333	0.00	0.00	0.00	3.91
1399	1825	3.737172	GCGCGCCAGGACATTGTT	61.737	61.111	23.24	0.00	0.00	2.83
1492	1918	6.415573	GTCTAAGATCACCCACCTTGTATTT	58.584	40.000	0.00	0.00	0.00	1.40
1564	1990	4.831307	CTCGGTCTTCGCCCGTCG	62.831	72.222	0.00	0.00	45.63	5.12
1805	2231	1.595993	CCCTGACATGTCCGTCGAGT	61.596	60.000	22.85	0.00	38.84	4.18
2191	2617	4.887190	GGCCACACCACAACCGGT	62.887	66.667	0.00	0.00	41.07	5.28
2328	3252	5.878116	TCCATTTATCTTCGTCGTGGAAAAT	59.122	36.000	0.00	0.30	31.81	1.82
2350	3302	2.367241	TCTACTGTTGTTGCAGCTACCA	59.633	45.455	12.07	0.75	39.96	3.25
2389	5830	2.412937	GTTGGCGTGCTTTGCTGT	59.587	55.556	0.00	0.00	0.00	4.40
2392	5833	1.098129	TTGGCGTGCTTTGCTGTACA	61.098	50.000	0.00	0.00	0.00	2.90
2406	5953	1.559682	CTGTACAACCTGGGCCATAGT	59.440	52.381	6.72	4.85	0.00	2.12
2418	5965	2.508300	GGGCCATAGTGTTTCCTTCCTA	59.492	50.000	4.39	0.00	0.00	2.94
2440	5991	7.015195	TCCTATGTGCTATGCATACTCTGTTTA	59.985	37.037	1.16	0.00	41.91	2.01
2494	6052	8.312896	TGATTTGCGTAATTGAAAGTACAGTA	57.687	30.769	0.00	0.00	30.42	2.74
2535	6093	9.817809	TCACTATAACTTGGTTATGTCTCAATC	57.182	33.333	11.69	0.00	38.86	2.67
2536	6094	9.599866	CACTATAACTTGGTTATGTCTCAATCA	57.400	33.333	11.69	0.00	38.86	2.57
2563	6121	8.748380	TGCTATATTCGTGAGATCTTACATTG	57.252	34.615	16.95	5.82	41.60	2.82
2578	6136	7.692460	TCTTACATTGAGATCAGTGCAAAAT	57.308	32.000	5.35	0.00	37.12	1.82
2579	6137	8.114331	TCTTACATTGAGATCAGTGCAAAATT	57.886	30.769	5.35	0.00	37.12	1.82
2580	6138	8.579006	TCTTACATTGAGATCAGTGCAAAATTT	58.421	29.630	5.35	0.00	37.12	1.82
2582	6140	7.647907	ACATTGAGATCAGTGCAAAATTTTC	57.352	32.000	0.00	0.00	37.12	2.29
2583	6141	7.439381	ACATTGAGATCAGTGCAAAATTTTCT	58.561	30.769	0.00	0.00	37.12	2.52
2585	6143	8.770828	CATTGAGATCAGTGCAAAATTTTCTTT	58.229	29.630	0.00	0.00	0.00	2.52
2587	6145	8.356533	TGAGATCAGTGCAAAATTTTCTTTTC	57.643	30.769	0.00	0.00	0.00	2.29
2588	6146	7.167968	TGAGATCAGTGCAAAATTTTCTTTTCG	59.832	33.333	0.00	0.00	0.00	3.46
2589	6147	5.964887	TCAGTGCAAAATTTTCTTTTCGG	57.035	34.783	0.00	0.00	0.00	4.30
2590	6148	5.415221	TCAGTGCAAAATTTTCTTTTCGGT	58.585	33.333	0.00	0.00	0.00	4.69
2591	6149	5.872070	TCAGTGCAAAATTTTCTTTTCGGTT	59.128	32.000	0.00	0.00	0.00	4.44
2592	6150	6.370166	TCAGTGCAAAATTTTCTTTTCGGTTT	59.630	30.769	0.00	0.00	0.00	3.27
2593	6151	7.020602	CAGTGCAAAATTTTCTTTTCGGTTTT	58.979	30.769	0.00	0.00	0.00	2.43
2652	6222	5.585445	TGATAAGTCTCAGTCGACTAAGACC	59.415	44.000	35.12	23.90	41.23	3.85
2859	6439	4.855531	ACAAAAATTGTCCGAAGCACTAC	58.144	39.130	0.00	0.00	40.56	2.73
2860	6440	4.336993	ACAAAAATTGTCCGAAGCACTACA	59.663	37.500	0.00	0.00	40.56	2.74
2861	6441	4.749245	AAAATTGTCCGAAGCACTACAG	57.251	40.909	0.00	0.00	0.00	2.74
2862	6442	3.678056	AATTGTCCGAAGCACTACAGA	57.322	42.857	0.00	0.00	0.00	3.41
2910	6491	2.235402	GAGGAGGACGGGTTATTCACAA	59.765	50.000	0.00	0.00	0.00	3.33
2931	6512	7.615365	TCACAATTAATTTAATGGCCAGAGACT	59.385	33.333	13.05	0.00	0.00	3.24
2966	6547	2.996631	AGGCATTCACTGGAAGACATC	58.003	47.619	0.00	0.00	36.25	3.06
2969	6550	3.341823	GCATTCACTGGAAGACATCTGT	58.658	45.455	0.00	0.00	36.25	3.41
3247	6838	9.604626	CATTCTCATGAACTAAAAACTCTCAAC	57.395	33.333	0.00	0.00	34.71	3.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
35	38	8.020819	TGCTTAACTACTATTGCATGAACAAAC	58.979	33.333	0.00	0.00	32.27	2.93
147	154	9.678941	GCTGGCAAGAAACCTATATTTAAATAC	57.321	33.333	10.07	0.00	0.00	1.89
154	161	5.203528	ACATGCTGGCAAGAAACCTATATT	58.796	37.500	4.81	0.00	0.00	1.28
155	162	4.796606	ACATGCTGGCAAGAAACCTATAT	58.203	39.130	4.81	0.00	0.00	0.86
264	281	3.242870	CCGGCAGAATTTTGTCTCTATGC	60.243	47.826	0.00	0.00	0.00	3.14
353	398	5.439721	TGAGCACCACATTAAGCAAGATAT	58.560	37.500	0.00	0.00	0.00	1.63
420	465	8.821894	GTTAGGACAATGATGACTTAGATTGAC	58.178	37.037	0.00	0.00	31.53	3.18
422	467	8.824781	CAGTTAGGACAATGATGACTTAGATTG	58.175	37.037	0.00	0.00	32.99	2.67
461	594	1.066454	TCGCACGGGCCATATATATCG	59.934	52.381	2.82	0.00	36.38	2.92
467	600	2.260869	GCAATCGCACGGGCCATAT	61.261	57.895	2.82	0.00	38.36	1.78
482	615	3.007074	TCACTAGTTATGAACCCGTGCAA	59.993	43.478	0.00	0.00	34.20	4.08
495	628	8.841300	CACTATGAGTTAGAGCATCACTAGTTA	58.159	37.037	0.00	0.00	37.82	2.24
528	675	4.025730	TCAATATTTGCTCTAGCGCTTTCG	60.026	41.667	18.68	4.77	45.83	3.46
558	705	2.480416	GCCACATCACCAACAAAACGAA	60.480	45.455	0.00	0.00	0.00	3.85
601	748	5.316158	ACTAGCTAATAGTTCGGGGAGTA	57.684	43.478	0.00	0.00	42.30	2.59
640	790	9.817809	CACATCAAGCTAATAACTACCTCTAAA	57.182	33.333	0.00	0.00	0.00	1.85
641	791	8.421784	CCACATCAAGCTAATAACTACCTCTAA	58.578	37.037	0.00	0.00	0.00	2.10
642	792	7.563924	ACCACATCAAGCTAATAACTACCTCTA	59.436	37.037	0.00	0.00	0.00	2.43
651	806	6.707608	CAGCTATCACCACATCAAGCTAATAA	59.292	38.462	0.00	0.00	38.20	1.40
669	824	1.291132	GCTTGAACCGGTCAGCTATC	58.709	55.000	20.77	9.89	37.61	2.08
689	844	5.049129	GCTTAATCTGTCCATCCAGTTATGC	60.049	44.000	0.00	0.00	34.02	3.14
945	1164	5.774179	AGGTAGCTAGTAGTTTGTGGGATA	58.226	41.667	0.00	0.00	0.00	2.59
1008	1286	0.249784	CCTCCTCCAGCGTCATCATG	60.250	60.000	0.00	0.00	0.00	3.07
1010	1288	1.305297	ACCTCCTCCAGCGTCATCA	60.305	57.895	0.00	0.00	0.00	3.07
1018	1296	2.365586	CCTGCCTCACCTCCTCCAG	61.366	68.421	0.00	0.00	0.00	3.86
1116	1394	4.639310	GTGATCTTGAAGTAGTAGTCCGGA	59.361	45.833	0.00	0.00	0.00	5.14
1181	1459	5.716228	TGAAATTCATTGGGCTTACACATCT	59.284	36.000	0.00	0.00	0.00	2.90
1203	1486	3.685139	AGAGACGGCAAAGAAGAATGA	57.315	42.857	0.00	0.00	0.00	2.57
1235	1533	2.143122	GTCGGTGTGCATCAGAGAAAA	58.857	47.619	0.00	0.00	0.00	2.29
1242	1543	0.682292	TGTTAGGTCGGTGTGCATCA	59.318	50.000	0.00	0.00	0.00	3.07
1247	1548	3.127203	TGTTTGTTTGTTAGGTCGGTGTG	59.873	43.478	0.00	0.00	0.00	3.82
1324	1750	3.628769	GGTTGTCCTGTAGGATCTCCTCT	60.629	52.174	1.00	0.00	44.77	3.69
1564	1990	0.745845	ACATCATGAGGCGCTTCACC	60.746	55.000	25.51	0.00	0.00	4.02
2123	2549	2.101415	CCATGATGAAGAGTACGCAGGA	59.899	50.000	0.00	0.00	0.00	3.86
2191	2617	1.163309	ACCCCAGTCCATTCCCTCA	59.837	57.895	0.00	0.00	0.00	3.86
2233	2659	1.516365	CGACCGTCTCCACAGTGAGT	61.516	60.000	0.62	0.00	33.93	3.41
2328	3252	3.181459	TGGTAGCTGCAACAACAGTAGAA	60.181	43.478	3.61	0.00	39.96	2.10
2350	3302	7.606456	CCAACACTTCTAGTACAAACCACATAT	59.394	37.037	0.00	0.00	0.00	1.78
2389	5830	1.663911	ACACTATGGCCCAGGTTGTA	58.336	50.000	0.00	0.00	0.00	2.41
2392	5833	1.272480	GGAAACACTATGGCCCAGGTT	60.272	52.381	0.00	1.67	0.00	3.50
2406	5953	4.199310	GCATAGCACATAGGAAGGAAACA	58.801	43.478	0.00	0.00	0.00	2.83
2418	5965	9.730705	ATAATAAACAGAGTATGCATAGCACAT	57.269	29.630	6.67	0.00	43.04	3.21
2440	5991	7.671398	AGTTCAAACCACCTTGATCTCAATAAT	59.329	33.333	0.00	0.00	35.31	1.28
2443	5994	5.388654	AGTTCAAACCACCTTGATCTCAAT	58.611	37.500	0.00	0.00	35.31	2.57
2452	6003	6.223120	GCAAATCAATAGTTCAAACCACCTT	58.777	36.000	0.00	0.00	0.00	3.50
2502	6060	8.812972	ACATAACCAAGTTATAGTGACTGAGAA	58.187	33.333	0.00	0.00	36.70	2.87
2503	6061	8.362464	ACATAACCAAGTTATAGTGACTGAGA	57.638	34.615	0.00	0.00	36.70	3.27
2516	6074	6.435277	AGCATTGATTGAGACATAACCAAGTT	59.565	34.615	0.00	0.00	0.00	2.66
2535	6093	8.748380	TGTAAGATCTCACGAATATAGCATTG	57.252	34.615	0.00	0.00	0.00	2.82
2536	6094	9.935241	AATGTAAGATCTCACGAATATAGCATT	57.065	29.630	0.00	0.00	0.00	3.56
2538	6096	8.576442	TCAATGTAAGATCTCACGAATATAGCA	58.424	33.333	0.00	0.00	0.00	3.49
2563	6121	7.358683	CCGAAAAGAAAATTTTGCACTGATCTC	60.359	37.037	8.47	0.00	0.00	2.75
2566	6124	6.048509	ACCGAAAAGAAAATTTTGCACTGAT	58.951	32.000	8.47	0.00	0.00	2.90
2569	6127	6.735678	AAACCGAAAAGAAAATTTTGCACT	57.264	29.167	8.47	0.00	0.00	4.40
2640	6210	3.366781	GGTGTGGTTAGGTCTTAGTCGAC	60.367	52.174	7.70	7.70	0.00	4.20
2652	6222	4.517832	GGTTACTTTCAAGGGTGTGGTTAG	59.482	45.833	0.00	0.00	0.00	2.34
2766	6341	7.660208	GGAACTACTAAACTCAATCACTTTGGA	59.340	37.037	0.00	0.00	35.92	3.53
2843	6423	3.326747	GTTCTGTAGTGCTTCGGACAAT	58.673	45.455	0.00	0.00	0.00	2.71
2858	6438	1.228154	GGGGCACTTTCGGTTCTGT	60.228	57.895	0.00	0.00	0.00	3.41
2859	6439	0.537371	AAGGGGCACTTTCGGTTCTG	60.537	55.000	0.00	0.00	35.35	3.02
2860	6440	0.537371	CAAGGGGCACTTTCGGTTCT	60.537	55.000	0.00	0.00	37.29	3.01
2861	6441	0.822121	ACAAGGGGCACTTTCGGTTC	60.822	55.000	0.00	0.00	37.29	3.62
2862	6442	0.396556	AACAAGGGGCACTTTCGGTT	60.397	50.000	0.00	0.00	37.29	4.44
2910	6491	6.322201	CCACAGTCTCTGGCCATTAAATTAAT	59.678	38.462	5.51	0.00	35.51	1.40
2931	6512	2.797837	GCCTAATGCATCAGCCACA	58.202	52.632	0.00	0.00	41.13	4.17
2950	6531	4.202398	ACACACAGATGTCTTCCAGTGAAT	60.202	41.667	12.86	2.23	36.72	2.57
2955	6536	2.804527	CACACACACAGATGTCTTCCAG	59.195	50.000	0.00	0.00	36.72	3.86
2959	6540	1.490490	ACCCACACACACAGATGTCTT	59.510	47.619	0.00	0.00	36.72	3.01
2966	6547	1.686587	TGACTAGACCCACACACACAG	59.313	52.381	0.00	0.00	0.00	3.66
2969	6550	4.349365	TCATATGACTAGACCCACACACA	58.651	43.478	0.00	0.00	0.00	3.72
3057	6639	8.127327	CCATCAAATATCTCACTGTTTTAGCAG	58.873	37.037	0.00	0.00	41.92	4.24
3087	6669	7.412455	GCTCGCAAGCTATATCTTATTCTTTCC	60.412	40.741	0.00	0.00	45.55	3.13
3138	6725	3.936372	TTGTACTCACTAGTGGACTGC	57.064	47.619	22.48	9.26	36.36	4.40
3247	6838	4.482386	CTCTGTTTGCAACATTCCAGATG	58.518	43.478	0.00	0.00	41.26	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.