AutoCloner

Multiple sequence alignment - TraesCS1D01G133900

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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	TraesCS1D01G133900	chr1D	100.000	2531	0	0	1	2531	165173833	165176363	0.000000e+00	4674
1	TraesCS1D01G133900	chr1D	92.466	584	37	5	1952	2531	164438081	164438661	0.000000e+00	828
2	TraesCS1D01G133900	chr1D	87.587	572	33	16	1	540	165164636	165165201	1.650000e-176	628
3	TraesCS1D01G133900	chr1D	81.793	357	45	15	1	349	153600199	153600543	5.330000e-72	281
4	TraesCS1D01G133900	chr1D	90.608	181	14	3	529	707	165165229	165165408	1.170000e-58	237
5	TraesCS1D01G133900	chr1D	75.179	560	85	37	12	543	315565611	315566144	5.480000e-52	215
6	TraesCS1D01G133900	chr1D	86.822	129	16	1	416	543	315558537	315558665	2.620000e-30	143
7	TraesCS1D01G133900	chr1A	95.918	1372	35	12	741	2099	216456923	216455560	0.000000e+00	2204
8	TraesCS1D01G133900	chr1A	93.310	583	31	7	1955	2531	27263529	27262949	0.000000e+00	854
9	TraesCS1D01G133900	chr1B	96.770	712	8	6	862	1573	246800329	246799633	0.000000e+00	1173
10	TraesCS1D01G133900	chr1B	92.063	252	11	6	1716	1963	246798502	246798256	1.860000e-91	346
11	TraesCS1D01G133900	chr1B	92.857	168	3	4	1559	1723	246799604	246799443	4.210000e-58	235
12	TraesCS1D01G133900	chr1B	88.372	172	14	2	540	705	308931653	308931824	4.270000e-48	202
13	TraesCS1D01G133900	chr1B	80.000	220	29	10	332	543	275471177	275471389	5.640000e-32	148
14	TraesCS1D01G133900	chr1B	84.962	133	19	1	412	543	275373976	275374108	1.580000e-27	134
15	TraesCS1D01G133900	chr5B	94.128	579	31	2	1955	2531	215880516	215879939	0.000000e+00	878
16	TraesCS1D01G133900	chr5B	91.924	582	36	9	1955	2531	252319800	252319225	0.000000e+00	804
17	TraesCS1D01G133900	chr3D	94.097	576	28	2	1958	2531	448422662	448422091	0.000000e+00	870
18	TraesCS1D01G133900	chr3D	91.595	583	44	4	1953	2531	279925676	279926257	0.000000e+00	800
19	TraesCS1D01G133900	chr3D	87.500	128	15	1	417	543	186386324	186386451	2.030000e-31	147
20	TraesCS1D01G133900	chr3D	85.385	130	18	1	415	543	186378511	186378640	1.580000e-27	134
21	TraesCS1D01G133900	chr2A	92.414	580	36	6	1959	2531	457930305	457929727	0.000000e+00	821
22	TraesCS1D01G133900	chr2A	87.151	179	17	4	532	705	356708784	356708961	5.520000e-47	198
23	TraesCS1D01G133900	chr2A	86.264	182	20	3	532	708	356699863	356700044	2.570000e-45	193
24	TraesCS1D01G133900	chr3B	92.401	579	35	4	1955	2531	345695520	345696091	0.000000e+00	817
25	TraesCS1D01G133900	chr4B	91.869	578	41	5	1955	2531	349574586	349574014	0.000000e+00	802
26	TraesCS1D01G133900	chr4B	76.066	422	60	26	16	425	172297156	172296764	5.560000e-42	182
27	TraesCS1D01G133900	chr7D	88.630	387	25	9	1	371	388210963	388211346	1.070000e-123	453
28	TraesCS1D01G133900	chr7D	78.208	413	70	18	7	407	347424166	347423762	1.940000e-61	246
29	TraesCS1D01G133900	chr7D	91.477	176	11	2	536	707	388137362	388137537	3.250000e-59	239
30	TraesCS1D01G133900	chr7D	89.655	174	14	2	536	705	388245743	388245916	4.240000e-53	219
31	TraesCS1D01G133900	chr7D	84.286	210	23	5	332	540	388137127	388137327	1.990000e-46	196
32	TraesCS1D01G133900	chr4D	88.393	224	20	5	1	222	186329773	186329992	5.370000e-67	265
33	TraesCS1D01G133900	chr6D	80.675	326	56	7	28	348	190471980	190471657	1.940000e-61	246
34	TraesCS1D01G133900	chr6D	81.695	295	44	9	14	303	193591461	193591172	1.170000e-58	237
35	TraesCS1D01G133900	chr6D	87.222	180	18	3	532	706	310017564	310017385	1.540000e-47	200
36	TraesCS1D01G133900	chr7B	80.734	327	50	13	28	347	322647937	322647617	2.520000e-60	243
37	TraesCS1D01G133900	chr5A	80.323	310	54	7	1	306	185168752	185169058	7.040000e-56	228
38	TraesCS1D01G133900	chr2D	90.000	170	14	1	540	706	216371922	216372091	1.520000e-52	217
39	TraesCS1D01G133900	chr6B	87.293	181	16	5	532	706	549081250	549081429	1.540000e-47	200

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	TraesCS1D01G133900	chr1D	165173833	165176363	2530	False	4674.000000	4674	100.000000	1	2531	1	chr1D.!!$F3	2530
1	TraesCS1D01G133900	chr1D	164438081	164438661	580	False	828.000000	828	92.466000	1952	2531	1	chr1D.!!$F2	579
2	TraesCS1D01G133900	chr1D	165164636	165165408	772	False	432.500000	628	89.097500	1	707	2	chr1D.!!$F6	706
3	TraesCS1D01G133900	chr1D	315565611	315566144	533	False	215.000000	215	75.179000	12	543	1	chr1D.!!$F5	531
4	TraesCS1D01G133900	chr1A	216455560	216456923	1363	True	2204.000000	2204	95.918000	741	2099	1	chr1A.!!$R2	1358
5	TraesCS1D01G133900	chr1A	27262949	27263529	580	True	854.000000	854	93.310000	1955	2531	1	chr1A.!!$R1	576
6	TraesCS1D01G133900	chr1B	246798256	246800329	2073	True	584.666667	1173	93.896667	862	1963	3	chr1B.!!$R1	1101
7	TraesCS1D01G133900	chr5B	215879939	215880516	577	True	878.000000	878	94.128000	1955	2531	1	chr5B.!!$R1	576
8	TraesCS1D01G133900	chr5B	252319225	252319800	575	True	804.000000	804	91.924000	1955	2531	1	chr5B.!!$R2	576
9	TraesCS1D01G133900	chr3D	448422091	448422662	571	True	870.000000	870	94.097000	1958	2531	1	chr3D.!!$R1	573
10	TraesCS1D01G133900	chr3D	279925676	279926257	581	False	800.000000	800	91.595000	1953	2531	1	chr3D.!!$F3	578
11	TraesCS1D01G133900	chr2A	457929727	457930305	578	True	821.000000	821	92.414000	1959	2531	1	chr2A.!!$R1	572
12	TraesCS1D01G133900	chr3B	345695520	345696091	571	False	817.000000	817	92.401000	1955	2531	1	chr3B.!!$F1	576
13	TraesCS1D01G133900	chr4B	349574014	349574586	572	True	802.000000	802	91.869000	1955	2531	1	chr4B.!!$R2	576

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
471	590	0.040499	GGAGTGTCCAGAGTCTCCCT	59.96	60.0	0.0	0.0	40.14	4.20	F
707	867	0.479815	TGGAATGCTCCCCATCATCC	59.52	55.0	0.0	0.0	41.64	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1334	1494	2.267961	CGTAGACAAGCCACCCCC	59.732	66.667	0.0	0.0	0.00	5.40	R
2488	3672	1.360194	CTGCAGCTTGCTCTCGAAGG	61.360	60.000	0.0	0.0	45.31	3.46	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
75	77	5.306419	GGTGGGGGTACTTATAGTTTAGAGG	59.694	48.000	0.00	0.00	0.00	3.69
90	93	2.176247	AGAGGCGAAATAAGAGGGGA	57.824	50.000	0.00	0.00	0.00	4.81
111	114	4.226620	GGAAGAGGGATACAAGGGTAAACA	59.773	45.833	0.00	0.00	39.74	2.83
297	301	3.017581	GGGGCTCCATGTCCAGGT	61.018	66.667	0.00	0.00	43.75	4.00
302	306	1.823295	CTCCATGTCCAGGTACCCG	59.177	63.158	8.74	0.00	0.00	5.28
303	307	1.686325	CTCCATGTCCAGGTACCCGG	61.686	65.000	7.98	7.98	0.00	5.73
304	308	2.742116	CCATGTCCAGGTACCCGGG	61.742	68.421	22.25	22.25	40.26	5.73
305	309	2.366435	ATGTCCAGGTACCCGGGG	60.366	66.667	27.92	12.73	39.36	5.73
306	310	4.726254	TGTCCAGGTACCCGGGGG	62.726	72.222	27.92	16.46	39.36	5.40
441	560	4.278513	CACCCGGGGGCAAAGTGA	62.279	66.667	27.92	0.00	39.32	3.41
465	584	1.908793	CACCCGGAGTGTCCAGAGT	60.909	63.158	0.73	0.00	41.93	3.24
471	590	0.040499	GGAGTGTCCAGAGTCTCCCT	59.960	60.000	0.00	0.00	40.14	4.20
516	635	2.358015	CTCCTTCTTCTCGTCCGTAGT	58.642	52.381	0.00	0.00	0.00	2.73
536	655	2.707849	GCTCGGGTCCTCGTGCTAA	61.708	63.158	15.26	0.00	43.50	3.09
547	707	2.353011	CCTCGTGCTAACCTTCCGTTTA	60.353	50.000	0.00	0.00	35.79	2.01
561	721	2.302733	TCCGTTTAAGGTAGGACCCAAC	59.697	50.000	0.00	0.00	39.75	3.77
565	725	4.620097	CGTTTAAGGTAGGACCCAACTCTC	60.620	50.000	0.00	0.00	39.75	3.20
573	733	1.002087	GGACCCAACTCTCGTGTGAAT	59.998	52.381	0.00	0.00	0.00	2.57
605	765	2.558795	CTCGAAGAAGGAGTTCACCTCA	59.441	50.000	0.00	0.00	37.91	3.86
623	783	3.974835	ATTCTGGATGGCGCGTGCA	62.975	57.895	24.18	9.45	45.35	4.57
638	798	0.588252	GTGCACGTGCTCTTGTCATT	59.412	50.000	37.59	0.00	42.66	2.57
656	816	2.435059	GGTCCTCTCGGTGCTTGC	60.435	66.667	0.00	0.00	0.00	4.01
667	827	1.965930	GTGCTTGCGGTGGTGATGA	60.966	57.895	0.00	0.00	0.00	2.92
677	837	2.608506	CGGTGGTGATGAAGTGTCGTTA	60.609	50.000	0.00	0.00	0.00	3.18
688	848	4.038763	TGAAGTGTCGTTACAGATGGACTT	59.961	41.667	0.00	0.00	35.91	3.01
691	851	2.894765	TGTCGTTACAGATGGACTTGGA	59.105	45.455	0.00	0.00	0.00	3.53
699	859	1.213926	AGATGGACTTGGAATGCTCCC	59.786	52.381	0.00	0.00	41.64	4.30
707	867	0.479815	TGGAATGCTCCCCATCATCC	59.520	55.000	0.00	0.00	41.64	3.51
708	868	0.776176	GGAATGCTCCCCATCATCCT	59.224	55.000	0.00	0.00	35.42	3.24
709	869	1.988107	GGAATGCTCCCCATCATCCTA	59.012	52.381	0.00	0.00	35.42	2.94
710	870	2.376518	GGAATGCTCCCCATCATCCTAA	59.623	50.000	0.00	0.00	35.42	2.69
711	871	3.181429	GGAATGCTCCCCATCATCCTAAA	60.181	47.826	0.00	0.00	35.42	1.85
712	872	4.509843	GGAATGCTCCCCATCATCCTAAAT	60.510	45.833	0.00	0.00	35.42	1.40
713	873	3.513909	TGCTCCCCATCATCCTAAATG	57.486	47.619	0.00	0.00	0.00	2.32
714	874	2.165998	GCTCCCCATCATCCTAAATGC	58.834	52.381	0.00	0.00	0.00	3.56
715	875	2.800250	CTCCCCATCATCCTAAATGCC	58.200	52.381	0.00	0.00	0.00	4.40
716	876	2.108776	CTCCCCATCATCCTAAATGCCA	59.891	50.000	0.00	0.00	0.00	4.92
717	877	2.723563	TCCCCATCATCCTAAATGCCAT	59.276	45.455	0.00	0.00	0.00	4.40
718	878	3.922131	TCCCCATCATCCTAAATGCCATA	59.078	43.478	0.00	0.00	0.00	2.74
719	879	4.019174	CCCCATCATCCTAAATGCCATAC	58.981	47.826	0.00	0.00	0.00	2.39
720	880	3.691118	CCCATCATCCTAAATGCCATACG	59.309	47.826	0.00	0.00	0.00	3.06
721	881	4.326826	CCATCATCCTAAATGCCATACGT	58.673	43.478	0.00	0.00	0.00	3.57
722	882	4.154737	CCATCATCCTAAATGCCATACGTG	59.845	45.833	0.00	0.00	0.00	4.49
723	883	4.415881	TCATCCTAAATGCCATACGTGT	57.584	40.909	0.00	0.00	0.00	4.49
724	884	5.538849	TCATCCTAAATGCCATACGTGTA	57.461	39.130	0.00	0.00	0.00	2.90
725	885	5.538118	TCATCCTAAATGCCATACGTGTAG	58.462	41.667	0.00	0.00	0.00	2.74
726	886	5.069914	TCATCCTAAATGCCATACGTGTAGT	59.930	40.000	0.00	0.00	0.00	2.73
727	887	4.689071	TCCTAAATGCCATACGTGTAGTG	58.311	43.478	0.00	0.00	0.00	2.74
728	888	3.807622	CCTAAATGCCATACGTGTAGTGG	59.192	47.826	0.00	2.36	36.09	4.00
729	889	3.620427	AAATGCCATACGTGTAGTGGA	57.380	42.857	13.17	0.00	34.94	4.02
730	890	3.838244	AATGCCATACGTGTAGTGGAT	57.162	42.857	13.17	0.00	34.94	3.41
731	891	4.948341	AATGCCATACGTGTAGTGGATA	57.052	40.909	13.17	4.10	34.94	2.59
732	892	5.483685	AATGCCATACGTGTAGTGGATAT	57.516	39.130	13.17	5.76	34.94	1.63
733	893	4.514781	TGCCATACGTGTAGTGGATATC	57.485	45.455	13.17	0.00	34.94	1.63
734	894	3.057806	TGCCATACGTGTAGTGGATATCG	60.058	47.826	13.17	0.00	34.94	2.92
735	895	3.672511	GCCATACGTGTAGTGGATATCGG	60.673	52.174	13.17	0.00	34.94	4.18
736	896	3.504906	CCATACGTGTAGTGGATATCGGT	59.495	47.826	0.00	0.00	34.94	4.69
737	897	4.473199	CATACGTGTAGTGGATATCGGTG	58.527	47.826	0.00	0.00	0.00	4.94
738	898	2.372264	ACGTGTAGTGGATATCGGTGT	58.628	47.619	0.00	0.00	0.00	4.16
739	899	2.357009	ACGTGTAGTGGATATCGGTGTC	59.643	50.000	0.00	0.00	0.00	3.67
834	994	1.011968	TTCGGACGCCAAATGAGACG	61.012	55.000	0.00	0.00	0.00	4.18
838	998	3.508840	CGCCAAATGAGACGGCCC	61.509	66.667	0.00	0.00	43.17	5.80
1334	1494	0.673644	ACTCCGCGTTCCCTGATTTG	60.674	55.000	4.92	0.00	0.00	2.32
1459	1619	8.711457	CAAAGGTTGGTCTTTATGCTAATTTTG	58.289	33.333	0.00	0.00	35.44	2.44
1788	2944	6.920569	TTTTTGGTTTTATTTGCCGCTTAA	57.079	29.167	0.00	0.00	0.00	1.85
1794	2950	5.464057	GGTTTTATTTGCCGCTTAACTTGTT	59.536	36.000	0.00	0.00	0.00	2.83
1795	2951	6.346279	GGTTTTATTTGCCGCTTAACTTGTTC	60.346	38.462	0.00	0.00	0.00	3.18
1806	2962	7.391016	CCGCTTAACTTGTTCTTTTTCTTTTG	58.609	34.615	0.00	0.00	0.00	2.44
1898	3054	3.821033	AGTTTCTTGGACTGTATGCAACC	59.179	43.478	0.00	0.91	32.99	3.77
1909	3065	2.677836	TGTATGCAACCGAGAGCAATTC	59.322	45.455	0.00	0.00	44.88	2.17
1964	3120	6.010850	TCGCTTAGGTAGTATGATGAGGAAT	58.989	40.000	0.00	0.00	0.00	3.01
2013	3180	6.995686	TGTCAGATTTGTTTGGCTACTTCTAA	59.004	34.615	0.00	0.00	0.00	2.10
2032	3199	5.724328	TCTAAATGCTTCCACTCTAGTGTG	58.276	41.667	16.35	16.35	44.21	3.82
2057	3238	9.020731	TGGTGTTTCTTTTCTTTTCTTTCTACT	57.979	29.630	0.00	0.00	0.00	2.57
2068	3250	4.457834	TTCTTTCTACTCTACCTGCTGC	57.542	45.455	0.00	0.00	0.00	5.25
2304	3488	4.718774	TGCTCTAGGAGTTCTGGATTGAAT	59.281	41.667	0.00	0.00	32.40	2.57
2408	3592	4.556501	GCTGTACACATTGTAGCAGCAAAA	60.557	41.667	22.96	0.00	45.80	2.44
2488	3672	3.451178	TCCATACTAGTTCTTGCTGTCCC	59.549	47.826	0.00	0.00	0.00	4.46

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
4	5	9.512588	AAAGATTTAGATGAGACATTTGTGAGT	57.487	29.630	0.00	0.00	0.00	3.41
75	77	2.485657	CCCTCTTCCCCTCTTATTTCGC	60.486	54.545	0.00	0.00	0.00	4.70
85	88	1.345526	CCCTTGTATCCCTCTTCCCCT	60.346	57.143	0.00	0.00	0.00	4.79
90	93	4.018688	GGTGTTTACCCTTGTATCCCTCTT	60.019	45.833	0.00	0.00	41.36	2.85
111	114	2.498056	CCTGCGTGCCTTTTTGGGT	61.498	57.895	0.00	0.00	36.00	4.51
343	369	3.260100	CTGCTCCCAACCACCCCT	61.260	66.667	0.00	0.00	0.00	4.79
433	552	2.258726	GGGTGTCCGGTCACTTTGC	61.259	63.158	27.07	13.13	38.28	3.68
465	584	3.379452	GAGAAGGATGAAGGAAGGGAGA	58.621	50.000	0.00	0.00	0.00	3.71
471	590	1.482593	GGAGCGAGAAGGATGAAGGAA	59.517	52.381	0.00	0.00	0.00	3.36
516	635	4.373116	GCACGAGGACCCGAGCAA	62.373	66.667	15.89	0.00	43.67	3.91
547	707	1.203149	ACGAGAGTTGGGTCCTACCTT	60.203	52.381	0.00	0.00	46.40	3.50
561	721	3.653344	TCCACTCAAATTCACACGAGAG	58.347	45.455	0.00	0.00	0.00	3.20
565	725	2.146342	AGCTCCACTCAAATTCACACG	58.854	47.619	0.00	0.00	0.00	4.49
573	733	2.289072	CCTTCTTCGAGCTCCACTCAAA	60.289	50.000	8.47	0.00	46.63	2.69
605	765	3.204827	GCACGCGCCATCCAGAAT	61.205	61.111	5.73	0.00	0.00	2.40
623	783	1.512926	GACCAATGACAAGAGCACGT	58.487	50.000	0.00	0.00	0.00	4.49
656	816	0.319555	ACGACACTTCATCACCACCG	60.320	55.000	0.00	0.00	0.00	4.94
667	827	4.307432	CAAGTCCATCTGTAACGACACTT	58.693	43.478	0.00	0.00	0.00	3.16
677	837	2.356535	GGAGCATTCCAAGTCCATCTGT	60.357	50.000	0.00	0.00	43.45	3.41
688	848	0.479815	GGATGATGGGGAGCATTCCA	59.520	55.000	0.00	0.00	45.98	3.53
691	851	4.413760	CATTTAGGATGATGGGGAGCATT	58.586	43.478	0.00	0.00	0.00	3.56
699	859	4.154737	CACGTATGGCATTTAGGATGATGG	59.845	45.833	4.78	0.00	0.00	3.51
707	867	4.689071	TCCACTACACGTATGGCATTTAG	58.311	43.478	4.78	0.00	33.20	1.85
708	868	4.739587	TCCACTACACGTATGGCATTTA	57.260	40.909	4.78	0.00	33.20	1.40
709	869	3.620427	TCCACTACACGTATGGCATTT	57.380	42.857	4.78	0.00	33.20	2.32
710	870	3.838244	ATCCACTACACGTATGGCATT	57.162	42.857	4.78	0.00	33.20	3.56
711	871	4.380550	CGATATCCACTACACGTATGGCAT	60.381	45.833	4.88	4.88	33.20	4.40
712	872	3.057806	CGATATCCACTACACGTATGGCA	60.058	47.826	0.00	0.00	33.20	4.92
713	873	3.499048	CGATATCCACTACACGTATGGC	58.501	50.000	0.00	0.00	33.20	4.40
714	874	3.504906	ACCGATATCCACTACACGTATGG	59.495	47.826	0.00	0.00	34.58	2.74
715	875	4.023450	ACACCGATATCCACTACACGTATG	60.023	45.833	0.00	0.00	0.00	2.39
716	876	4.139786	ACACCGATATCCACTACACGTAT	58.860	43.478	0.00	0.00	0.00	3.06
717	877	3.544684	ACACCGATATCCACTACACGTA	58.455	45.455	0.00	0.00	0.00	3.57
718	878	2.357009	GACACCGATATCCACTACACGT	59.643	50.000	0.00	0.00	0.00	4.49
719	879	2.356695	TGACACCGATATCCACTACACG	59.643	50.000	0.00	0.00	0.00	4.49
720	880	4.380841	TTGACACCGATATCCACTACAC	57.619	45.455	0.00	0.00	0.00	2.90
721	881	5.408880	TTTTGACACCGATATCCACTACA	57.591	39.130	0.00	0.00	0.00	2.74
752	912	2.750350	CGGGCCTCTCAAACCAGT	59.250	61.111	0.84	0.00	0.00	4.00
824	984	2.753966	CGCTGGGCCGTCTCATTTG	61.754	63.158	0.00	0.00	0.00	2.32
988	1148	3.338250	GTCCATGGTGGCCTCCCA	61.338	66.667	21.06	18.30	37.47	4.37
1083	1243	3.064324	GGGATGCTGTGGTGGTGC	61.064	66.667	0.00	0.00	0.00	5.01
1334	1494	2.267961	CGTAGACAAGCCACCCCC	59.732	66.667	0.00	0.00	0.00	5.40
1459	1619	3.246619	GCGAGTCTAATTCGATCCCATC	58.753	50.000	0.00	0.00	40.36	3.51
1780	2936	4.607955	AGAAAAAGAACAAGTTAAGCGGC	58.392	39.130	0.00	0.00	0.00	6.53
1806	2962	6.143919	GGCAACAACAAGCTAAACAGTAAATC	59.856	38.462	0.00	0.00	0.00	2.17
1909	3065	6.429078	TCAACAATTTCTCTCACTGGATCAAG	59.571	38.462	0.00	0.00	0.00	3.02
1984	3151	3.149196	AGCCAAACAAATCTGACACGAT	58.851	40.909	0.00	0.00	0.00	3.73
1985	3152	2.571212	AGCCAAACAAATCTGACACGA	58.429	42.857	0.00	0.00	0.00	4.35
2032	3199	9.504710	GAGTAGAAAGAAAAGAAAAGAAACACC	57.495	33.333	0.00	0.00	0.00	4.16
2057	3238	3.374042	ACTCTAGAAGCAGCAGGTAGA	57.626	47.619	0.00	0.00	0.00	2.59
2204	3388	5.310068	TGGGTACATAGTCTGGGTTACAAAA	59.690	40.000	0.00	0.00	0.00	2.44
2243	3427	7.361286	CCAAGATCTTAGGTAAGAACAACAAGC	60.361	40.741	7.86	0.00	44.63	4.01
2330	3514	2.616842	GCTAGATATCGCTCTAGAGGCC	59.383	54.545	21.23	0.00	45.04	5.19
2488	3672	1.360194	CTGCAGCTTGCTCTCGAAGG	61.360	60.000	0.00	0.00	45.31	3.46

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.