AutoCloner

Multiple sequence alignment - TraesCS3B01G434700

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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	TraesCS3B01G434700	chr3B	100.000	3423	0	0	1	3423	672959970	672963392	0.000000e+00	6322.0
1	TraesCS3B01G434700	chr3B	98.575	1895	15	1	1541	3423	673061358	673063252	0.000000e+00	3339.0
2	TraesCS3B01G434700	chr3B	99.261	677	4	1	864	1539	673060514	673061190	0.000000e+00	1221.0
3	TraesCS3B01G434700	chr3B	83.129	1061	136	27	1223	2263	674280694	674279657	0.000000e+00	928.0
4	TraesCS3B01G434700	chr3B	92.308	195	12	3	944	1138	673011558	673011749	1.210000e-69	274.0
5	TraesCS3B01G434700	chr3B	92.308	195	12	3	944	1138	673057422	673057613	1.210000e-69	274.0
6	TraesCS3B01G434700	chr3B	97.436	39	1	0	834	872	673059074	673059112	2.200000e-07	67.6
7	TraesCS3B01G434700	chr3A	95.581	2082	77	4	1129	3199	647490696	647492773	0.000000e+00	3321.0
8	TraesCS3B01G434700	chr3A	80.592	979	131	33	1694	2634	647803014	647802057	0.000000e+00	701.0
9	TraesCS3B01G434700	chr3A	83.544	316	19	15	838	1127	647485422	647485730	7.280000e-67	265.0
10	TraesCS3B01G434700	chr3A	90.805	87	7	1	3337	3423	647493325	647493410	7.760000e-22	115.0
11	TraesCS3B01G434700	chr3D	96.639	952	32	0	1161	2112	511395904	511396855	0.000000e+00	1581.0
12	TraesCS3B01G434700	chr3D	82.852	1522	183	49	1223	2706	511941715	511940234	0.000000e+00	1293.0
13	TraesCS3B01G434700	chr3D	90.535	729	66	2	1	729	527521500	527520775	0.000000e+00	961.0
14	TraesCS3B01G434700	chr3D	96.339	437	12	2	2363	2798	511405579	511406012	0.000000e+00	715.0
15	TraesCS3B01G434700	chr3D	93.657	268	12	1	2797	3059	511406050	511406317	2.480000e-106	396.0
16	TraesCS3B01G434700	chr3D	92.627	217	6	1	2108	2324	511405373	511405579	1.540000e-78	303.0
17	TraesCS3B01G434700	chr3D	91.758	182	7	5	957	1138	511394351	511394524	2.640000e-61	246.0
18	TraesCS3B01G434700	chr3D	94.253	87	4	1	3337	3423	511421647	511421732	7.710000e-27	132.0
19	TraesCS3B01G434700	chr3D	100.000	44	0	0	1129	1172	511395759	511395802	7.870000e-12	82.4
20	TraesCS3B01G434700	chrUn	99.261	677	4	1	864	1539	386104297	386103621	0.000000e+00	1221.0
21	TraesCS3B01G434700	chrUn	91.245	731	61	2	1	730	94298025	94297297	0.000000e+00	992.0
22	TraesCS3B01G434700	chrUn	90.698	731	65	2	1	730	94262244	94261516	0.000000e+00	970.0
23	TraesCS3B01G434700	chr1D	92.170	728	52	4	4	729	426866273	426865549	0.000000e+00	1024.0
24	TraesCS3B01G434700	chr6D	91.495	729	59	2	1	728	386908596	386909322	0.000000e+00	1000.0
25	TraesCS3B01G434700	chr5D	90.822	730	64	2	1	729	66771666	66772393	0.000000e+00	974.0
26	TraesCS3B01G434700	chr4D	90.809	729	63	3	1	729	359114502	359113778	0.000000e+00	972.0
27	TraesCS3B01G434700	chr4D	90.535	729	66	2	1	729	13341634	13342359	0.000000e+00	961.0
28	TraesCS3B01G434700	chr2D	90.809	729	62	4	1	729	152877159	152877882	0.000000e+00	970.0

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	TraesCS3B01G434700	chr3B	672959970	672963392	3422	False	6322.000000	6322	100.000000	1	3423	1	chr3B.!!$F1	3422
1	TraesCS3B01G434700	chr3B	673057422	673063252	5830	False	1225.400000	3339	96.895000	834	3423	4	chr3B.!!$F3	2589
2	TraesCS3B01G434700	chr3B	674279657	674280694	1037	True	928.000000	928	83.129000	1223	2263	1	chr3B.!!$R1	1040
3	TraesCS3B01G434700	chr3A	647490696	647493410	2714	False	1718.000000	3321	93.193000	1129	3423	2	chr3A.!!$F2	2294
4	TraesCS3B01G434700	chr3A	647802057	647803014	957	True	701.000000	701	80.592000	1694	2634	1	chr3A.!!$R1	940
5	TraesCS3B01G434700	chr3D	511940234	511941715	1481	True	1293.000000	1293	82.852000	1223	2706	1	chr3D.!!$R1	1483
6	TraesCS3B01G434700	chr3D	527520775	527521500	725	True	961.000000	961	90.535000	1	729	1	chr3D.!!$R2	728
7	TraesCS3B01G434700	chr3D	511394351	511396855	2504	False	636.466667	1581	96.132333	957	2112	3	chr3D.!!$F2	1155
8	TraesCS3B01G434700	chr3D	511405373	511406317	944	False	471.333333	715	94.207667	2108	3059	3	chr3D.!!$F3	951
9	TraesCS3B01G434700	chrUn	386103621	386104297	676	True	1221.000000	1221	99.261000	864	1539	1	chrUn.!!$R3	675
10	TraesCS3B01G434700	chrUn	94297297	94298025	728	True	992.000000	992	91.245000	1	730	1	chrUn.!!$R2	729
11	TraesCS3B01G434700	chrUn	94261516	94262244	728	True	970.000000	970	90.698000	1	730	1	chrUn.!!$R1	729
12	TraesCS3B01G434700	chr1D	426865549	426866273	724	True	1024.000000	1024	92.170000	4	729	1	chr1D.!!$R1	725
13	TraesCS3B01G434700	chr6D	386908596	386909322	726	False	1000.000000	1000	91.495000	1	728	1	chr6D.!!$F1	727
14	TraesCS3B01G434700	chr5D	66771666	66772393	727	False	974.000000	974	90.822000	1	729	1	chr5D.!!$F1	728
15	TraesCS3B01G434700	chr4D	359113778	359114502	724	True	972.000000	972	90.809000	1	729	1	chr4D.!!$R1	728
16	TraesCS3B01G434700	chr4D	13341634	13342359	725	False	961.000000	961	90.535000	1	729	1	chr4D.!!$F1	728
17	TraesCS3B01G434700	chr2D	152877159	152877882	723	False	970.000000	970	90.809000	1	729	1	chr2D.!!$F1	728

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
660	665	0.033504	CCCCGGACACGATCCTATTG	59.966	60.0	0.73	0.0	46.69	1.9	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2961	6854	8.718656	GGATATACCTAATTATGAATCAGGCCT	58.281	37.037	0.0	0.0	35.41	5.19	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
42	43	3.073062	CCCCAAGGTGAGAAGAGAAAGAA	59.927	47.826	0.00	0.00	0.00	2.52
166	168	4.799715	TGAAGGAAAACTTTGGGAGGTA	57.200	40.909	0.00	0.00	40.21	3.08
284	286	1.228124	CCCTTGCACCAAGAACCGA	60.228	57.895	6.54	0.00	43.42	4.69
296	299	3.541711	CAAGAACCGATCACGTTTGAAC	58.458	45.455	0.00	0.00	34.61	3.18
322	325	6.211184	AGTTTGCCCAATTTCATCATGAACTA	59.789	34.615	0.00	0.00	35.89	2.24
431	435	9.722056	GGTTCATTATATGTTCATTCAAGACAC	57.278	33.333	0.00	0.00	0.00	3.67
618	623	3.037249	GTCCGCGCGTTGGTTACA	61.037	61.111	29.95	0.00	0.00	2.41
621	626	4.418470	CGCGCGTTGGTTACACGG	62.418	66.667	24.19	0.00	33.06	4.94
622	627	4.729798	GCGCGTTGGTTACACGGC	62.730	66.667	8.43	0.00	33.06	5.68
624	629	2.973600	GCGTTGGTTACACGGCCA	60.974	61.111	2.24	0.00	0.00	5.36
625	630	2.940561	CGTTGGTTACACGGCCAC	59.059	61.111	2.24	0.00	34.02	5.01
638	643	2.512515	GCCACCGCATCTCAGGAC	60.513	66.667	0.00	0.00	34.03	3.85
639	644	2.981302	CCACCGCATCTCAGGACA	59.019	61.111	0.00	0.00	0.00	4.02
640	645	1.296392	CCACCGCATCTCAGGACAA	59.704	57.895	0.00	0.00	0.00	3.18
641	646	1.021390	CCACCGCATCTCAGGACAAC	61.021	60.000	0.00	0.00	0.00	3.32
642	647	1.021390	CACCGCATCTCAGGACAACC	61.021	60.000	0.00	0.00	0.00	3.77
643	648	1.450312	CCGCATCTCAGGACAACCC	60.450	63.158	0.00	0.00	36.73	4.11
644	649	1.450312	CGCATCTCAGGACAACCCC	60.450	63.158	0.00	0.00	36.73	4.95
645	650	1.450312	GCATCTCAGGACAACCCCG	60.450	63.158	0.00	0.00	36.73	5.73
646	651	1.221840	CATCTCAGGACAACCCCGG	59.778	63.158	0.00	0.00	36.73	5.73
647	652	1.080354	ATCTCAGGACAACCCCGGA	59.920	57.895	0.73	0.00	36.73	5.14
649	654	2.122769	TCAGGACAACCCCGGACA	60.123	61.111	0.73	0.00	36.73	4.02
650	655	2.032071	CAGGACAACCCCGGACAC	59.968	66.667	0.73	0.00	36.73	3.67
651	656	3.622826	AGGACAACCCCGGACACG	61.623	66.667	0.73	0.00	40.55	4.49
652	657	3.618750	GGACAACCCCGGACACGA	61.619	66.667	0.73	0.00	44.60	4.35
653	658	2.660802	GACAACCCCGGACACGAT	59.339	61.111	0.73	0.00	44.60	3.73
654	659	1.447314	GACAACCCCGGACACGATC	60.447	63.158	0.73	0.00	44.60	3.69
656	661	2.284405	AACCCCGGACACGATCCT	60.284	61.111	0.73	0.00	46.69	3.24
658	663	0.398098	AACCCCGGACACGATCCTAT	60.398	55.000	0.73	0.00	46.69	2.57
659	664	0.398098	ACCCCGGACACGATCCTATT	60.398	55.000	0.73	0.00	46.69	1.73
660	665	0.033504	CCCCGGACACGATCCTATTG	59.966	60.000	0.73	0.00	46.69	1.90
661	666	0.600255	CCCGGACACGATCCTATTGC	60.600	60.000	0.73	0.00	46.69	3.56
663	668	0.600255	CGGACACGATCCTATTGCCC	60.600	60.000	8.50	0.00	46.69	5.36
664	669	0.759346	GGACACGATCCTATTGCCCT	59.241	55.000	0.00	0.00	45.22	5.19
665	670	1.968493	GGACACGATCCTATTGCCCTA	59.032	52.381	0.00	0.00	45.22	3.53
668	673	4.246458	GACACGATCCTATTGCCCTATTC	58.754	47.826	0.00	0.00	0.00	1.75
669	674	3.646162	ACACGATCCTATTGCCCTATTCA	59.354	43.478	0.00	0.00	0.00	2.57
671	676	5.063204	CACGATCCTATTGCCCTATTCAAA	58.937	41.667	0.00	0.00	0.00	2.69
672	677	5.707298	CACGATCCTATTGCCCTATTCAAAT	59.293	40.000	0.00	0.00	0.00	2.32
673	678	5.707298	ACGATCCTATTGCCCTATTCAAATG	59.293	40.000	0.00	0.00	0.00	2.32
674	679	5.124457	CGATCCTATTGCCCTATTCAAATGG	59.876	44.000	0.00	0.00	0.00	3.16
676	681	5.385198	TCCTATTGCCCTATTCAAATGGAC	58.615	41.667	0.00	0.00	30.05	4.02
677	682	5.103728	TCCTATTGCCCTATTCAAATGGACA	60.104	40.000	0.00	0.00	30.05	4.02
678	683	5.242393	CCTATTGCCCTATTCAAATGGACAG	59.758	44.000	0.00	0.00	0.00	3.51
679	684	4.314522	TTGCCCTATTCAAATGGACAGA	57.685	40.909	0.00	0.00	0.00	3.41
681	686	4.870636	TGCCCTATTCAAATGGACAGAAT	58.129	39.130	0.00	0.00	36.14	2.40
712	717	1.701704	GGACGTCCGTTTGTAATCGT	58.298	50.000	20.85	0.00	0.00	3.73
713	718	1.387756	GGACGTCCGTTTGTAATCGTG	59.612	52.381	20.85	0.00	0.00	4.35
714	719	0.785979	ACGTCCGTTTGTAATCGTGC	59.214	50.000	0.00	0.00	0.00	5.34
716	721	0.517742	GTCCGTTTGTAATCGTGCGC	60.518	55.000	0.00	0.00	0.00	6.09
717	722	0.668096	TCCGTTTGTAATCGTGCGCT	60.668	50.000	9.73	0.00	0.00	5.92
719	724	0.518355	CGTTTGTAATCGTGCGCTGG	60.518	55.000	9.73	0.00	0.00	4.85
720	725	0.793861	GTTTGTAATCGTGCGCTGGA	59.206	50.000	9.73	6.14	0.00	3.86
721	726	1.075542	TTTGTAATCGTGCGCTGGAG	58.924	50.000	9.73	0.00	0.00	3.86
722	727	0.037697	TTGTAATCGTGCGCTGGAGT	60.038	50.000	9.73	7.74	0.00	3.85
723	728	0.037697	TGTAATCGTGCGCTGGAGTT	60.038	50.000	9.73	5.31	0.00	3.01
724	729	0.370273	GTAATCGTGCGCTGGAGTTG	59.630	55.000	9.73	0.00	0.00	3.16
732	737	4.666253	GCTGGAGTTGGCCTGGCA	62.666	66.667	22.05	1.21	0.00	4.92
733	738	2.115910	CTGGAGTTGGCCTGGCAA	59.884	61.111	22.05	6.26	0.00	4.52
734	739	1.531365	CTGGAGTTGGCCTGGCAAA	60.531	57.895	22.05	13.65	0.00	3.68
738	743	3.854856	GTTGGCCTGGCAAACTGA	58.145	55.556	27.87	0.00	39.21	3.41
739	744	1.662044	GTTGGCCTGGCAAACTGAG	59.338	57.895	27.87	0.00	39.21	3.35
740	745	2.202395	TTGGCCTGGCAAACTGAGC	61.202	57.895	22.05	0.25	0.00	4.26
746	751	4.500265	GGCAAACTGAGCCCAAGA	57.500	55.556	0.00	0.00	46.50	3.02
747	752	2.967270	GGCAAACTGAGCCCAAGAT	58.033	52.632	0.00	0.00	46.50	2.40
748	753	0.529378	GGCAAACTGAGCCCAAGATG	59.471	55.000	0.00	0.00	46.50	2.90
786	791	0.839946	GCCCAAGATGGCCTAAGAGA	59.160	55.000	3.32	0.00	46.11	3.10
799	804	2.223525	CCTAAGAGAGGCTTCGTTACCG	60.224	54.545	0.00	0.00	38.96	4.02
801	806	1.518792	GAGAGGCTTCGTTACCGGC	60.519	63.158	0.00	0.00	33.95	6.13
802	807	2.884207	GAGGCTTCGTTACCGGCG	60.884	66.667	0.00	0.00	33.95	6.46
819	824	4.483243	GGGCCGGGATCGAAGCAA	62.483	66.667	2.18	0.00	39.00	3.91
820	825	2.437716	GGCCGGGATCGAAGCAAA	60.438	61.111	2.18	0.00	39.00	3.68
823	828	1.982073	GCCGGGATCGAAGCAAACAG	61.982	60.000	2.18	0.00	39.00	3.16
824	829	0.673644	CCGGGATCGAAGCAAACAGT	60.674	55.000	0.00	0.00	39.00	3.55
827	832	2.003301	GGGATCGAAGCAAACAGTCTC	58.997	52.381	0.00	0.00	0.00	3.36
829	834	2.612972	GGATCGAAGCAAACAGTCTCCA	60.613	50.000	0.00	0.00	0.00	3.86
830	835	2.613026	TCGAAGCAAACAGTCTCCAA	57.387	45.000	0.00	0.00	0.00	3.53
831	836	2.912771	TCGAAGCAAACAGTCTCCAAA	58.087	42.857	0.00	0.00	0.00	3.28
832	837	3.476552	TCGAAGCAAACAGTCTCCAAAT	58.523	40.909	0.00	0.00	0.00	2.32
833	838	3.498397	TCGAAGCAAACAGTCTCCAAATC	59.502	43.478	0.00	0.00	0.00	2.17
836	841	2.151202	GCAAACAGTCTCCAAATCCGA	58.849	47.619	0.00	0.00	0.00	4.55
916	3148	4.899239	CCTCTCATCCGCCGTGCC	62.899	72.222	0.00	0.00	0.00	5.01
1539	5153	2.833957	GGTCCTCCGGTTGGTGTT	59.166	61.111	14.11	0.00	36.30	3.32
2961	6854	5.384063	TTGGCGATTTAATTTGCTTCTGA	57.616	34.783	8.98	0.00	0.00	3.27
3018	6916	1.336440	TGTGTTCAGTTCAATTGCCGG	59.664	47.619	0.00	0.00	0.00	6.13
3374	7686	9.569167	GTTCCTTGTAGCTCAAAATAATAAACC	57.431	33.333	0.00	0.00	35.48	3.27

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
42	43	3.647590	ACTCCCTTGCATTTGGACAAATT	59.352	39.130	7.51	0.00	38.84	1.82
92	93	1.679944	CCATCGGGATTGAAGCACACT	60.680	52.381	0.00	0.00	35.59	3.55
166	168	3.119602	GCATGATCACACAAGCAGTCATT	60.120	43.478	0.00	0.00	0.00	2.57
284	286	2.223711	GGGCAAACTGTTCAAACGTGAT	60.224	45.455	0.00	0.00	32.48	3.06
296	299	4.823157	TCATGATGAAATTGGGCAAACTG	58.177	39.130	0.00	0.00	0.00	3.16
343	346	7.177216	TGCTCAACCAAGTCATTTTGAATATCT	59.823	33.333	0.00	0.00	0.00	1.98
347	350	5.163426	TGTGCTCAACCAAGTCATTTTGAAT	60.163	36.000	0.00	0.00	0.00	2.57
412	416	8.996024	TCGAAAGTGTCTTGAATGAACATATA	57.004	30.769	0.00	0.00	0.00	0.86
607	612	2.973600	TGGCCGTGTAACCAACGC	60.974	61.111	0.00	0.00	39.69	4.84
608	613	2.609759	GGTGGCCGTGTAACCAACG	61.610	63.158	4.33	0.00	37.79	4.10
621	626	2.512515	GTCCTGAGATGCGGTGGC	60.513	66.667	0.00	0.00	40.52	5.01
622	627	1.021390	GTTGTCCTGAGATGCGGTGG	61.021	60.000	0.00	0.00	0.00	4.61
624	629	1.296715	GGTTGTCCTGAGATGCGGT	59.703	57.895	0.00	0.00	0.00	5.68
625	630	1.450312	GGGTTGTCCTGAGATGCGG	60.450	63.158	0.00	0.00	0.00	5.69
627	632	1.450312	CGGGGTTGTCCTGAGATGC	60.450	63.158	0.00	0.00	44.90	3.91
628	633	1.221840	CCGGGGTTGTCCTGAGATG	59.778	63.158	0.00	0.00	44.90	2.90
629	634	1.080354	TCCGGGGTTGTCCTGAGAT	59.920	57.895	0.00	0.00	44.90	2.75
630	635	1.911766	GTCCGGGGTTGTCCTGAGA	60.912	63.158	0.00	0.00	44.90	3.27
632	637	2.122769	TGTCCGGGGTTGTCCTGA	60.123	61.111	0.00	0.00	44.90	3.86
638	643	2.125269	GGATCGTGTCCGGGGTTG	60.125	66.667	0.00	0.00	37.23	3.77
646	651	3.963428	ATAGGGCAATAGGATCGTGTC	57.037	47.619	0.00	0.00	0.00	3.67
647	652	3.646162	TGAATAGGGCAATAGGATCGTGT	59.354	43.478	0.00	0.00	0.00	4.49
649	654	4.974645	TTGAATAGGGCAATAGGATCGT	57.025	40.909	0.00	0.00	0.00	3.73
650	655	5.124457	CCATTTGAATAGGGCAATAGGATCG	59.876	44.000	0.00	0.00	0.00	3.69
651	656	6.151817	GTCCATTTGAATAGGGCAATAGGATC	59.848	42.308	0.00	0.00	33.82	3.36
652	657	6.012745	GTCCATTTGAATAGGGCAATAGGAT	58.987	40.000	0.00	0.00	33.82	3.24
653	658	5.103728	TGTCCATTTGAATAGGGCAATAGGA	60.104	40.000	0.00	0.00	33.39	2.94
654	659	5.139727	TGTCCATTTGAATAGGGCAATAGG	58.860	41.667	0.00	0.00	33.39	2.57
656	661	6.012337	TCTGTCCATTTGAATAGGGCAATA	57.988	37.500	0.00	0.00	36.46	1.90
658	663	4.314522	TCTGTCCATTTGAATAGGGCAA	57.685	40.909	0.00	0.00	36.46	4.52
659	664	4.314522	TTCTGTCCATTTGAATAGGGCA	57.685	40.909	0.00	0.00	35.41	5.36
660	665	4.279420	GGATTCTGTCCATTTGAATAGGGC	59.721	45.833	0.00	0.00	46.96	5.19
673	678	1.463444	CGTTTTGTCCGGATTCTGTCC	59.537	52.381	7.81	0.00	44.10	4.02
674	679	2.875080	CGTTTTGTCCGGATTCTGTC	57.125	50.000	7.81	0.00	0.00	3.51
683	688	3.237290	GGACGTCCGTTTTGTCCG	58.763	61.111	20.85	0.00	42.42	4.79
694	699	1.201736	GCACGATTACAAACGGACGTC	60.202	52.381	7.13	7.13	31.82	4.34
695	700	0.785979	GCACGATTACAAACGGACGT	59.214	50.000	0.00	0.00	34.40	4.34
697	702	0.517742	GCGCACGATTACAAACGGAC	60.518	55.000	0.30	0.00	0.00	4.79
698	703	0.668096	AGCGCACGATTACAAACGGA	60.668	50.000	11.47	0.00	0.00	4.69
699	704	0.518355	CAGCGCACGATTACAAACGG	60.518	55.000	11.47	0.00	0.00	4.44
701	706	0.793861	TCCAGCGCACGATTACAAAC	59.206	50.000	11.47	0.00	0.00	2.93
702	707	1.075542	CTCCAGCGCACGATTACAAA	58.924	50.000	11.47	0.00	0.00	2.83
703	708	0.037697	ACTCCAGCGCACGATTACAA	60.038	50.000	11.47	0.00	0.00	2.41
704	709	0.037697	AACTCCAGCGCACGATTACA	60.038	50.000	11.47	0.00	0.00	2.41
705	710	0.370273	CAACTCCAGCGCACGATTAC	59.630	55.000	11.47	0.00	0.00	1.89
706	711	0.739462	CCAACTCCAGCGCACGATTA	60.739	55.000	11.47	0.00	0.00	1.75
707	712	2.034879	CCAACTCCAGCGCACGATT	61.035	57.895	11.47	0.00	0.00	3.34
708	713	2.434884	CCAACTCCAGCGCACGAT	60.435	61.111	11.47	0.00	0.00	3.73
716	721	1.531365	TTTGCCAGGCCAACTCCAG	60.531	57.895	9.64	0.00	0.00	3.86
717	722	1.832167	GTTTGCCAGGCCAACTCCA	60.832	57.895	19.17	0.00	32.52	3.86
719	724	0.823356	TCAGTTTGCCAGGCCAACTC	60.823	55.000	24.91	3.04	41.49	3.01
720	725	0.825010	CTCAGTTTGCCAGGCCAACT	60.825	55.000	22.61	22.61	43.63	3.16
721	726	1.662044	CTCAGTTTGCCAGGCCAAC	59.338	57.895	18.88	18.88	34.94	3.77
722	727	2.202395	GCTCAGTTTGCCAGGCCAA	61.202	57.895	9.64	0.00	0.00	4.52
723	728	2.598394	GCTCAGTTTGCCAGGCCA	60.598	61.111	9.64	0.00	0.00	5.36
730	735	0.529378	CCATCTTGGGCTCAGTTTGC	59.471	55.000	0.00	0.00	32.67	3.68
768	773	1.419387	CCTCTCTTAGGCCATCTTGGG	59.581	57.143	5.01	0.00	38.97	4.12
769	774	2.926778	CCTCTCTTAGGCCATCTTGG	57.073	55.000	5.01	0.00	38.97	3.61
802	807	3.987954	TTTGCTTCGATCCCGGCCC	62.988	63.158	0.00	0.00	36.24	5.80
804	809	1.982073	CTGTTTGCTTCGATCCCGGC	61.982	60.000	0.00	0.00	36.24	6.13
805	810	0.673644	ACTGTTTGCTTCGATCCCGG	60.674	55.000	0.00	0.00	36.24	5.73
807	812	2.003301	GAGACTGTTTGCTTCGATCCC	58.997	52.381	0.00	0.00	0.00	3.85
808	813	2.003301	GGAGACTGTTTGCTTCGATCC	58.997	52.381	0.00	0.00	0.00	3.36
810	815	2.839486	TGGAGACTGTTTGCTTCGAT	57.161	45.000	0.00	0.00	0.00	3.59
811	816	2.613026	TTGGAGACTGTTTGCTTCGA	57.387	45.000	0.00	0.00	0.00	3.71
812	817	3.365364	GGATTTGGAGACTGTTTGCTTCG	60.365	47.826	0.00	0.00	0.00	3.79
814	819	2.554032	CGGATTTGGAGACTGTTTGCTT	59.446	45.455	0.00	0.00	0.00	3.91
815	820	2.154462	CGGATTTGGAGACTGTTTGCT	58.846	47.619	0.00	0.00	0.00	3.91
817	822	2.157668	CGTCGGATTTGGAGACTGTTTG	59.842	50.000	0.00	0.00	33.10	2.93
818	823	2.413837	CGTCGGATTTGGAGACTGTTT	58.586	47.619	0.00	0.00	33.10	2.83
819	824	1.337823	CCGTCGGATTTGGAGACTGTT	60.338	52.381	4.91	0.00	33.10	3.16
820	825	0.246635	CCGTCGGATTTGGAGACTGT	59.753	55.000	4.91	0.00	33.10	3.55
823	828	1.814169	GCCCGTCGGATTTGGAGAC	60.814	63.158	14.39	0.00	0.00	3.36
824	829	2.582436	GCCCGTCGGATTTGGAGA	59.418	61.111	14.39	0.00	0.00	3.71
836	841	3.879180	AATTTCTTGGCGGGCCCGT	62.879	57.895	42.53	20.21	42.09	5.28
884	3116	6.048509	GGATGAGAGGACAAAGAAGAGAATC	58.951	44.000	0.00	0.00	0.00	2.52
895	3127	1.982395	ACGGCGGATGAGAGGACAA	60.982	57.895	13.24	0.00	0.00	3.18
2961	6854	8.718656	GGATATACCTAATTATGAATCAGGCCT	58.281	37.037	0.00	0.00	35.41	5.19
3018	6916	5.476945	TGATGCTTTAGACTTTCCCCTTTTC	59.523	40.000	0.00	0.00	0.00	2.29
3156	7054	0.820871	TTGAGGCCAACACAACCAAC	59.179	50.000	5.01	0.00	0.00	3.77

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.