AutoCloner

Multiple sequence alignment - TraesCS3D01G110800

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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	TraesCS3D01G110800	chr3D	100.000	3248	0	0	1	3248	64422087	64418840	0.000000e+00	5999
1	TraesCS3D01G110800	chr3D	85.119	672	80	11	25	679	459518979	459518311	0.000000e+00	669
2	TraesCS3D01G110800	chr3D	84.320	676	82	11	25	679	268953079	268952407	9.830000e-180	640
3	TraesCS3D01G110800	chr3D	83.828	674	88	8	25	679	114815863	114816534	3.560000e-174	621
4	TraesCS3D01G110800	chr3A	93.245	3242	153	30	25	3248	75019788	75016595	0.000000e+00	4713
5	TraesCS3D01G110800	chr3A	79.911	672	108	22	25	679	573543420	573544081	4.910000e-128	468
6	TraesCS3D01G110800	chr5D	84.267	750	98	19	2506	3248	421140135	421139399	0.000000e+00	713
7	TraesCS3D01G110800	chr5D	84.524	672	85	11	25	679	315127509	315128178	0.000000e+00	647
8	TraesCS3D01G110800	chr5D	83.655	673	84	20	25	679	214215379	214216043	7.700000e-171	610
9	TraesCS3D01G110800	chr5D	83.556	675	84	13	25	679	116144556	116143889	9.970000e-170	606
10	TraesCS3D01G110800	chr5D	84.509	581	67	12	25	584	285612890	285613468	1.320000e-153	553
11	TraesCS3D01G110800	chr5B	83.398	771	114	9	2481	3248	487340623	487339864	0.000000e+00	702
12	TraesCS3D01G110800	chr5B	82.315	769	124	10	2481	3248	584186750	584185993	0.000000e+00	656
13	TraesCS3D01G110800	chr1B	82.124	772	125	8	2479	3248	405707891	405708651	0.000000e+00	649
14	TraesCS3D01G110800	chr1B	81.971	771	125	9	2481	3248	593247100	593246341	2.730000e-180	641
15	TraesCS3D01G110800	chr1B	80.243	577	95	11	25	590	395784934	395785502	1.800000e-112	416
16	TraesCS3D01G110800	chr3B	82.101	771	124	12	2481	3248	536831965	536832724	0.000000e+00	647
17	TraesCS3D01G110800	chrUn	82.143	756	112	13	2481	3234	15545282	15544548	7.650000e-176	627
18	TraesCS3D01G110800	chr7D	84.148	675	67	15	25	679	254123254	254122600	4.600000e-173	617
19	TraesCS3D01G110800	chr7D	74.663	667	127	29	1405	2059	533635694	533635058	1.160000e-64	257
20	TraesCS3D01G110800	chr1D	81.944	720	113	15	2533	3247	398230994	398230287	7.760000e-166	593
21	TraesCS3D01G110800	chr7A	79.556	675	107	25	25	679	274175842	274176505	1.370000e-123	453
22	TraesCS3D01G110800	chr7A	72.449	980	182	52	1156	2079	613025895	613024948	1.950000e-57	233
23	TraesCS3D01G110800	chr2B	79.351	678	111	23	25	679	333122472	333121801	1.780000e-122	449
24	TraesCS3D01G110800	chr4D	84.355	473	50	16	25	477	85251848	85252316	2.970000e-120	442
25	TraesCS3D01G110800	chr1A	78.783	674	115	21	25	679	406987054	406987718	8.330000e-116	427
26	TraesCS3D01G110800	chr2D	86.514	393	39	5	299	679	110113071	110112681	1.390000e-113	420

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	TraesCS3D01G110800	chr3D	64418840	64422087	3247	True	5999	5999	100.000	1	3248	1	chr3D.!!$R1	3247
1	TraesCS3D01G110800	chr3D	459518311	459518979	668	True	669	669	85.119	25	679	1	chr3D.!!$R3	654
2	TraesCS3D01G110800	chr3D	268952407	268953079	672	True	640	640	84.320	25	679	1	chr3D.!!$R2	654
3	TraesCS3D01G110800	chr3D	114815863	114816534	671	False	621	621	83.828	25	679	1	chr3D.!!$F1	654
4	TraesCS3D01G110800	chr3A	75016595	75019788	3193	True	4713	4713	93.245	25	3248	1	chr3A.!!$R1	3223
5	TraesCS3D01G110800	chr3A	573543420	573544081	661	False	468	468	79.911	25	679	1	chr3A.!!$F1	654
6	TraesCS3D01G110800	chr5D	421139399	421140135	736	True	713	713	84.267	2506	3248	1	chr5D.!!$R2	742
7	TraesCS3D01G110800	chr5D	315127509	315128178	669	False	647	647	84.524	25	679	1	chr5D.!!$F3	654
8	TraesCS3D01G110800	chr5D	214215379	214216043	664	False	610	610	83.655	25	679	1	chr5D.!!$F1	654
9	TraesCS3D01G110800	chr5D	116143889	116144556	667	True	606	606	83.556	25	679	1	chr5D.!!$R1	654
10	TraesCS3D01G110800	chr5D	285612890	285613468	578	False	553	553	84.509	25	584	1	chr5D.!!$F2	559
11	TraesCS3D01G110800	chr5B	487339864	487340623	759	True	702	702	83.398	2481	3248	1	chr5B.!!$R1	767
12	TraesCS3D01G110800	chr5B	584185993	584186750	757	True	656	656	82.315	2481	3248	1	chr5B.!!$R2	767
13	TraesCS3D01G110800	chr1B	405707891	405708651	760	False	649	649	82.124	2479	3248	1	chr1B.!!$F2	769
14	TraesCS3D01G110800	chr1B	593246341	593247100	759	True	641	641	81.971	2481	3248	1	chr1B.!!$R1	767
15	TraesCS3D01G110800	chr1B	395784934	395785502	568	False	416	416	80.243	25	590	1	chr1B.!!$F1	565
16	TraesCS3D01G110800	chr3B	536831965	536832724	759	False	647	647	82.101	2481	3248	1	chr3B.!!$F1	767
17	TraesCS3D01G110800	chrUn	15544548	15545282	734	True	627	627	82.143	2481	3234	1	chrUn.!!$R1	753
18	TraesCS3D01G110800	chr7D	254122600	254123254	654	True	617	617	84.148	25	679	1	chr7D.!!$R1	654
19	TraesCS3D01G110800	chr7D	533635058	533635694	636	True	257	257	74.663	1405	2059	1	chr7D.!!$R2	654
20	TraesCS3D01G110800	chr1D	398230287	398230994	707	True	593	593	81.944	2533	3247	1	chr1D.!!$R1	714
21	TraesCS3D01G110800	chr7A	274175842	274176505	663	False	453	453	79.556	25	679	1	chr7A.!!$F1	654
22	TraesCS3D01G110800	chr7A	613024948	613025895	947	True	233	233	72.449	1156	2079	1	chr7A.!!$R1	923
23	TraesCS3D01G110800	chr2B	333121801	333122472	671	True	449	449	79.351	25	679	1	chr2B.!!$R1	654
24	TraesCS3D01G110800	chr1A	406987054	406987718	664	False	427	427	78.783	25	679	1	chr1A.!!$F1	654

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
19	20	0.521735	GATCCGCTGGTTTTGACACC	59.478	55.0	0.0	0.0	37.34	4.16	F
728	792	0.532862	CGATACCTGCACACATCCCC	60.533	60.0	0.0	0.0	0.00	4.81	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1310	1389	0.946221	CGAACAGAGCGCAAAGGAGT	60.946	55.0	11.47	0.0	0.0	3.85	R
2700	2818	0.031449	CAATTGTTGGCGTCGGGTTT	59.969	50.0	0.00	0.0	0.0	3.27	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
19	20	0.521735	GATCCGCTGGTTTTGACACC	59.478	55.000	0.00	0.00	37.34	4.16
20	21	1.234615	ATCCGCTGGTTTTGACACCG	61.235	55.000	0.00	0.00	40.09	4.94
21	22	1.890041	CCGCTGGTTTTGACACCGA	60.890	57.895	0.00	0.00	40.09	4.69
22	23	1.278637	CGCTGGTTTTGACACCGAC	59.721	57.895	0.00	0.00	40.09	4.79
23	24	1.157870	CGCTGGTTTTGACACCGACT	61.158	55.000	0.00	0.00	40.09	4.18
39	40	2.471818	CGACTCTCGTCCTCGAATAGA	58.528	52.381	0.00	0.00	45.61	1.98
113	126	6.362551	CGTCATGTAATCTCTTTACGGTATGG	59.637	42.308	0.00	0.00	42.68	2.74
243	265	8.747538	ATAAAGAACGCTATCCCTACAAAATT	57.252	30.769	0.00	0.00	0.00	1.82
275	301	8.540492	GTCTTATCAAGGTATTCATAACACACG	58.460	37.037	0.00	0.00	0.00	4.49
508	568	6.038985	CGATTGATATCAATGCGAGGAGTAT	58.961	40.000	30.86	7.49	45.72	2.12
510	570	5.728637	TGATATCAATGCGAGGAGTATGT	57.271	39.130	1.98	0.00	0.00	2.29
514	574	8.966868	TGATATCAATGCGAGGAGTATGTATTA	58.033	33.333	1.98	0.00	0.00	0.98
515	575	9.973450	GATATCAATGCGAGGAGTATGTATTAT	57.027	33.333	0.00	0.00	0.00	1.28
519	579	8.314021	TCAATGCGAGGAGTATGTATTATCATT	58.686	33.333	0.00	0.00	0.00	2.57
620	682	3.762407	TGAAGACCTCGGACATTTGAA	57.238	42.857	0.00	0.00	0.00	2.69
692	756	9.639601	TTCTCACTAATATCACACAAAGTGTAG	57.360	33.333	2.07	0.00	45.65	2.74
706	770	9.109393	ACACAAAGTGTAGTATTGCCATAATAG	57.891	33.333	0.15	0.00	45.56	1.73
710	774	8.589335	AAGTGTAGTATTGCCATAATAGAACG	57.411	34.615	0.00	0.00	0.00	3.95
716	780	8.135382	AGTATTGCCATAATAGAACGATACCT	57.865	34.615	0.00	0.00	30.90	3.08
728	792	0.532862	CGATACCTGCACACATCCCC	60.533	60.000	0.00	0.00	0.00	4.81
729	793	0.546122	GATACCTGCACACATCCCCA	59.454	55.000	0.00	0.00	0.00	4.96
736	800	3.260380	CCTGCACACATCCCCATTTAAAA	59.740	43.478	0.00	0.00	0.00	1.52
745	809	6.037391	CACATCCCCATTTAAAATGAATGTGC	59.963	38.462	15.15	0.00	33.65	4.57
752	816	4.717233	TTAAAATGAATGTGCGGCATCT	57.283	36.364	5.72	0.00	36.67	2.90
772	836	2.358939	AACTACGCTGTAGAAACCGG	57.641	50.000	18.36	0.00	0.00	5.28
793	857	1.076332	CGCTAGAAAAACCACCCTCG	58.924	55.000	0.00	0.00	0.00	4.63
798	862	0.822121	GAAAAACCACCCTCGCCAGT	60.822	55.000	0.00	0.00	0.00	4.00
799	863	0.822121	AAAAACCACCCTCGCCAGTC	60.822	55.000	0.00	0.00	0.00	3.51
800	864	1.990160	AAAACCACCCTCGCCAGTCA	61.990	55.000	0.00	0.00	0.00	3.41
801	865	2.676163	AAACCACCCTCGCCAGTCAC	62.676	60.000	0.00	0.00	0.00	3.67
802	866	4.394712	CCACCCTCGCCAGTCACC	62.395	72.222	0.00	0.00	0.00	4.02
803	867	3.625897	CACCCTCGCCAGTCACCA	61.626	66.667	0.00	0.00	0.00	4.17
804	868	2.847234	ACCCTCGCCAGTCACCAA	60.847	61.111	0.00	0.00	0.00	3.67
805	869	2.224159	ACCCTCGCCAGTCACCAAT	61.224	57.895	0.00	0.00	0.00	3.16
806	870	1.450312	CCCTCGCCAGTCACCAATC	60.450	63.158	0.00	0.00	0.00	2.67
807	871	1.599047	CCTCGCCAGTCACCAATCT	59.401	57.895	0.00	0.00	0.00	2.40
808	872	0.824109	CCTCGCCAGTCACCAATCTA	59.176	55.000	0.00	0.00	0.00	1.98
809	873	1.471676	CCTCGCCAGTCACCAATCTAC	60.472	57.143	0.00	0.00	0.00	2.59
810	874	1.478510	CTCGCCAGTCACCAATCTACT	59.521	52.381	0.00	0.00	0.00	2.57
811	875	1.204704	TCGCCAGTCACCAATCTACTG	59.795	52.381	0.00	0.00	40.24	2.74
853	917	4.181578	GCGGTAGAAACTGAGAAGCATTA	58.818	43.478	0.00	0.00	33.42	1.90
858	922	7.653713	CGGTAGAAACTGAGAAGCATTATACAT	59.346	37.037	0.00	0.00	33.42	2.29
940	1004	2.288886	GGTAGACACGGCAGAGTTTTCT	60.289	50.000	0.00	0.00	0.00	2.52
949	1013	3.509740	GGCAGAGTTTTCTACCGTAGAC	58.490	50.000	7.81	0.00	33.84	2.59
1093	1157	1.153349	GGCAACTTCCCTCGGCTAG	60.153	63.158	0.00	0.00	0.00	3.42
1271	1335	3.507009	GGAGACGGACCTCGACGG	61.507	72.222	0.00	0.00	42.43	4.79
1586	1689	4.711949	CTTGCTGCAGCCGTCCCT	62.712	66.667	34.64	0.00	41.18	4.20
1802	1905	4.735132	GTACCTCGCTGGCGTGCA	62.735	66.667	14.55	0.00	40.22	4.57
1890	1993	3.735029	GACTCGTCGGCGTGGAGT	61.735	66.667	26.51	26.51	43.32	3.85
2107	2219	2.519441	CCATGGGCAGGGAGATGG	59.481	66.667	2.85	0.00	33.27	3.51
2330	2442	4.327680	AGGACCTTTTGTGATGAGCTTAC	58.672	43.478	0.00	0.00	0.00	2.34
2344	2456	2.504367	AGCTTACGCTTCAATGGTTGT	58.496	42.857	0.00	0.00	46.47	3.32
2413	2526	8.896744	TGATTCCTTGATTTGACAGTATGAATC	58.103	33.333	0.00	0.00	39.69	2.52
2491	2605	9.685828	TGTGCAACCTGTTTATTTATTTTAGAC	57.314	29.630	0.00	0.00	34.36	2.59
2588	2702	4.112634	GGCAAAGACTTGACCAAAAACTC	58.887	43.478	2.56	0.00	34.08	3.01
2589	2704	3.791353	GCAAAGACTTGACCAAAAACTCG	59.209	43.478	0.00	0.00	34.14	4.18
2619	2736	1.338769	GCCCAAATCACTACGACCAGT	60.339	52.381	0.00	0.00	0.00	4.00
2686	2804	3.056678	CAGAGATATCGCTCAGCCAGAAT	60.057	47.826	5.94	0.00	37.37	2.40
2720	2838	1.104577	AACCCGACGCCAACAATTGT	61.105	50.000	4.92	4.92	0.00	2.71
2999	3121	0.321210	CACGCACCAGGACCATAACA	60.321	55.000	0.00	0.00	0.00	2.41
3052	3174	2.664851	CCAAGACGCCAGAACGCA	60.665	61.111	0.00	0.00	36.19	5.24
3056	3178	2.125512	GACGCCAGAACGCATCCT	60.126	61.111	0.00	0.00	36.19	3.24
3084	3207	2.514803	GCCAAAAGGCCTAGACTTTCA	58.485	47.619	5.16	0.00	40.35	2.69
3110	3234	0.266152	GAAGGATGGAGGAGGAGGGA	59.734	60.000	0.00	0.00	0.00	4.20
3111	3235	0.725133	AAGGATGGAGGAGGAGGGAA	59.275	55.000	0.00	0.00	0.00	3.97
3130	3255	0.035247	ACGGACCTAGAAGCTCGACT	60.035	55.000	0.00	0.00	0.00	4.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	0.521735	GGTGTCAAAACCAGCGGATC	59.478	55.000	1.50	0.00	40.22	3.36
3	4	2.637025	CGGTGTCAAAACCAGCGG	59.363	61.111	4.26	0.00	46.71	5.52
5	6	0.586802	GAGTCGGTGTCAAAACCAGC	59.413	55.000	0.00	0.00	40.53	4.85
6	7	2.135933	GAGAGTCGGTGTCAAAACCAG	58.864	52.381	0.00	0.00	40.53	4.00
7	8	1.537348	CGAGAGTCGGTGTCAAAACCA	60.537	52.381	0.00	0.00	40.53	3.67
8	9	1.137513	CGAGAGTCGGTGTCAAAACC	58.862	55.000	0.00	0.00	36.00	3.27
9	10	1.849097	ACGAGAGTCGGTGTCAAAAC	58.151	50.000	0.86	0.00	45.59	2.43
185	202	7.465353	TTCTGAAAGGCATGATTGTTTATGA	57.535	32.000	0.00	0.00	0.00	2.15
275	301	6.699895	TCGGCGTTGTACATGATTAATATC	57.300	37.500	6.85	0.00	0.00	1.63
508	568	6.054941	AGTGCATCCGTTGAATGATAATACA	58.945	36.000	0.00	0.00	0.00	2.29
510	570	8.147704	TCTTAGTGCATCCGTTGAATGATAATA	58.852	33.333	0.00	0.00	0.00	0.98
514	574	4.769688	TCTTAGTGCATCCGTTGAATGAT	58.230	39.130	0.00	0.00	0.00	2.45
515	575	4.081697	TCTCTTAGTGCATCCGTTGAATGA	60.082	41.667	0.00	0.00	0.00	2.57
519	579	5.791336	ATATCTCTTAGTGCATCCGTTGA	57.209	39.130	0.00	0.00	0.00	3.18
620	682	6.479972	TGTATATTTCGGTGATGGACTTCT	57.520	37.500	0.00	0.00	0.00	2.85
679	743	5.627499	ATGGCAATACTACACTTTGTGTG	57.373	39.130	12.89	1.23	46.84	3.82
685	749	8.418662	TCGTTCTATTATGGCAATACTACACTT	58.581	33.333	0.00	0.00	0.00	3.16
692	756	7.201530	GCAGGTATCGTTCTATTATGGCAATAC	60.202	40.741	0.00	0.00	0.00	1.89
697	761	4.389077	GTGCAGGTATCGTTCTATTATGGC	59.611	45.833	0.00	0.00	0.00	4.40
706	770	1.933853	GGATGTGTGCAGGTATCGTTC	59.066	52.381	0.00	0.00	0.00	3.95
710	774	0.546122	TGGGGATGTGTGCAGGTATC	59.454	55.000	0.00	0.00	0.00	2.24
716	780	4.529769	TCATTTTAAATGGGGATGTGTGCA	59.470	37.500	16.42	0.00	0.00	4.57
728	792	5.521010	AGATGCCGCACATTCATTTTAAATG	59.479	36.000	11.12	11.12	39.84	2.32
729	793	5.663456	AGATGCCGCACATTCATTTTAAAT	58.337	33.333	0.00	0.00	39.84	1.40
736	800	2.923121	AGTTAGATGCCGCACATTCAT	58.077	42.857	0.00	0.00	39.84	2.57
745	809	2.289820	TCTACAGCGTAGTTAGATGCCG	59.710	50.000	13.06	0.00	31.23	5.69
752	816	3.081061	TCCGGTTTCTACAGCGTAGTTA	58.919	45.455	0.00	3.70	35.88	2.24
772	836	2.074576	GAGGGTGGTTTTTCTAGCGTC	58.925	52.381	0.00	0.00	34.18	5.19
801	865	6.347725	CGACTTTCAGAAAACCAGTAGATTGG	60.348	42.308	0.00	0.00	44.09	3.16
802	866	6.202954	ACGACTTTCAGAAAACCAGTAGATTG	59.797	38.462	0.00	0.00	0.00	2.67
803	867	6.289064	ACGACTTTCAGAAAACCAGTAGATT	58.711	36.000	0.00	0.00	0.00	2.40
804	868	5.855045	ACGACTTTCAGAAAACCAGTAGAT	58.145	37.500	0.00	0.00	0.00	1.98
805	869	5.272283	ACGACTTTCAGAAAACCAGTAGA	57.728	39.130	0.00	0.00	0.00	2.59
806	870	4.148348	CGACGACTTTCAGAAAACCAGTAG	59.852	45.833	0.00	0.00	0.00	2.57
807	871	4.046462	CGACGACTTTCAGAAAACCAGTA	58.954	43.478	0.00	0.00	0.00	2.74
808	872	2.864343	CGACGACTTTCAGAAAACCAGT	59.136	45.455	0.00	0.00	0.00	4.00
809	873	2.348591	GCGACGACTTTCAGAAAACCAG	60.349	50.000	0.00	0.00	0.00	4.00
810	874	1.595794	GCGACGACTTTCAGAAAACCA	59.404	47.619	0.00	0.00	0.00	3.67
811	875	1.396815	CGCGACGACTTTCAGAAAACC	60.397	52.381	0.00	0.00	0.00	3.27
812	876	1.920553	CGCGACGACTTTCAGAAAAC	58.079	50.000	0.00	0.00	0.00	2.43
853	917	5.472478	GGCATGATGACAGTGATTGATGTAT	59.528	40.000	0.00	0.00	0.00	2.29
858	922	3.353370	TGGCATGATGACAGTGATTGA	57.647	42.857	0.00	0.00	28.05	2.57
940	1004	3.181471	CGGAGTAGGAGAAGTCTACGGTA	60.181	52.174	0.00	0.00	41.26	4.02
949	1013	1.433879	CCACGCGGAGTAGGAGAAG	59.566	63.158	12.47	0.00	0.00	2.85
1125	1189	4.200283	GTCAGGAGGAGCCGCTCG	62.200	72.222	14.21	0.19	43.43	5.03
1271	1335	1.593006	CATCGTTATCGTCCTTGGCAC	59.407	52.381	0.00	0.00	38.33	5.01
1310	1389	0.946221	CGAACAGAGCGCAAAGGAGT	60.946	55.000	11.47	0.00	0.00	3.85
1794	1897	3.848301	AAGGATGCTGTGCACGCCA	62.848	57.895	24.00	18.19	43.04	5.69
2070	2182	3.083997	GCCATCCTCGGGTGGTCT	61.084	66.667	16.30	0.00	37.81	3.85
2190	2302	0.449388	GCCATGCTTTCACGAGAAGG	59.551	55.000	0.29	0.29	34.71	3.46
2330	2442	2.820330	ACCAAAACAACCATTGAAGCG	58.180	42.857	0.00	0.00	0.00	4.68
2413	2526	9.121658	GGGATTTAGTAGAATAAACCTCTTTGG	57.878	37.037	0.00	0.00	42.93	3.28
2442	2555	6.772716	ACACCCCAGAAATTAACTATAGCATG	59.227	38.462	0.00	0.00	0.00	4.06
2491	2605	0.948678	TCGGGCCTTCGTTCTTTTTG	59.051	50.000	0.84	0.00	0.00	2.44
2496	2610	0.971386	TAAAGTCGGGCCTTCGTTCT	59.029	50.000	0.84	0.00	0.00	3.01
2588	2702	5.567138	AGTGATTTGGGCTTCTATTTTCG	57.433	39.130	0.00	0.00	0.00	3.46
2589	2704	6.315393	TCGTAGTGATTTGGGCTTCTATTTTC	59.685	38.462	0.00	0.00	0.00	2.29
2619	2736	2.979676	CTTTGTCCGCTGCTGCCA	60.980	61.111	10.24	0.00	35.36	4.92
2700	2818	0.031449	CAATTGTTGGCGTCGGGTTT	59.969	50.000	0.00	0.00	0.00	3.27
2701	2819	1.104577	ACAATTGTTGGCGTCGGGTT	61.105	50.000	4.92	0.00	34.12	4.11
2720	2838	2.166459	GTCTGGATCTTCATGTCCACGA	59.834	50.000	0.00	0.05	39.51	4.35
2781	2899	4.641645	TTCAGCAGTGGCCCGTGG	62.642	66.667	0.00	0.00	42.56	4.94
2803	2921	0.613853	TGAAGGGGAGGTAGTGGTCG	60.614	60.000	0.00	0.00	0.00	4.79
2901	3019	1.961277	GTGTGTGGGTCCTTCGCAG	60.961	63.158	0.00	0.00	39.61	5.18
2940	3061	4.101448	CTCGGCTCCCCTGGTTGG	62.101	72.222	0.00	0.00	0.00	3.77
2999	3121	0.178935	CATTCAAGGGGTGGTTGGGT	60.179	55.000	0.00	0.00	0.00	4.51
3052	3174	0.035056	CTTTTGGCCGGACAGAGGAT	60.035	55.000	11.51	0.00	0.00	3.24
3084	3207	2.324541	CTCCTCCATCCTTCTCCGAAT	58.675	52.381	0.00	0.00	0.00	3.34
3110	3234	0.810016	GTCGAGCTTCTAGGTCCGTT	59.190	55.000	0.00	0.00	39.44	4.44
3111	3235	0.035247	AGTCGAGCTTCTAGGTCCGT	60.035	55.000	0.00	0.00	39.44	4.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.