AutoCloner

Multiple sequence alignment - TraesCS2A01G465200

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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	TraesCS2A01G465200	chr2A	100.000	3940	0	0	1	3940	710204549	710208488	0.000000e+00	7276.0
1	TraesCS2A01G465200	chr2A	93.190	3950	223	18	4	3938	710186400	710190318	0.000000e+00	5762.0
2	TraesCS2A01G465200	chr2A	82.921	1698	282	7	1788	3483	710036420	710038111	0.000000e+00	1522.0
3	TraesCS2A01G465200	chr2A	82.006	1795	302	13	1760	3550	709850449	709852226	0.000000e+00	1506.0
4	TraesCS2A01G465200	chr2A	80.686	554	85	16	795	1342	710092597	710093134	1.020000e-110	411.0
5	TraesCS2A01G465200	chr2A	80.505	554	86	16	795	1342	709849836	709850373	4.740000e-109	405.0
6	TraesCS2A01G465200	chr2B	88.719	2163	217	14	1786	3940	794694186	794692043	0.000000e+00	2617.0
7	TraesCS2A01G465200	chr2B	88.673	2163	218	14	1786	3940	794803087	794800944	0.000000e+00	2612.0
8	TraesCS2A01G465200	chr2B	87.739	2194	255	4	1760	3940	683054274	683056466	0.000000e+00	2549.0
9	TraesCS2A01G465200	chr2B	87.551	2209	262	9	1740	3940	683128368	683130571	0.000000e+00	2543.0
10	TraesCS2A01G465200	chr2B	85.986	2155	274	13	1785	3934	683159767	683161898	0.000000e+00	2281.0
11	TraesCS2A01G465200	chr2B	81.093	2195	360	34	1760	3940	683043161	683045314	0.000000e+00	1703.0
12	TraesCS2A01G465200	chr2B	86.966	1381	130	24	38	1387	683126899	683128260	0.000000e+00	1507.0
13	TraesCS2A01G465200	chr2B	88.821	492	39	6	866	1354	794696869	794696391	1.220000e-164	590.0
14	TraesCS2A01G465200	chr2B	81.706	727	97	16	642	1342	683067038	683067754	1.230000e-159	573.0
15	TraesCS2A01G465200	chr2B	82.353	595	60	22	21	609	683066487	683067042	3.560000e-130	475.0
16	TraesCS2A01G465200	chr2B	80.998	521	77	14	795	1309	683042510	683043014	1.030000e-105	394.0
17	TraesCS2A01G465200	chr2B	84.788	401	50	7	947	1342	683053771	683054165	3.690000e-105	392.0
18	TraesCS2A01G465200	chr2B	95.588	68	3	0	699	766	794697000	794696933	4.160000e-20	110.0
19	TraesCS2A01G465200	chr2B	97.561	41	1	0	636	676	794697044	794697004	1.960000e-08	71.3
20	TraesCS2A01G465200	chr2D	87.158	2157	245	16	1785	3934	571443451	571445582	0.000000e+00	2420.0
21	TraesCS2A01G465200	chr2D	83.039	1698	280	7	1788	3483	571209206	571210897	0.000000e+00	1533.0
22	TraesCS2A01G465200	chr2D	83.627	397	56	6	997	1387	571526661	571527054	8.050000e-97	364.0
23	TraesCS2A01G465200	chr6A	85.777	907	110	14	3047	3940	617078166	617079066	0.000000e+00	942.0
24	TraesCS2A01G465200	chrUn	89.095	486	37	6	866	1348	332504345	332504817	1.220000e-164	590.0
25	TraesCS2A01G465200	chrUn	87.755	343	38	1	3602	3940	307300431	307300773	7.930000e-107	398.0
26	TraesCS2A01G465200	chrUn	87.755	343	38	2	3602	3940	316028473	316028815	7.930000e-107	398.0
27	TraesCS2A01G465200	chrUn	87.755	343	38	2	3602	3940	347760529	347760871	7.930000e-107	398.0
28	TraesCS2A01G465200	chrUn	95.588	68	3	0	699	766	332504214	332504281	4.160000e-20	110.0
29	TraesCS2A01G465200	chrUn	97.561	41	1	0	636	676	332504170	332504210	1.960000e-08	71.3

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	TraesCS2A01G465200	chr2A	710204549	710208488	3939	False	7276.000	7276	100.000000	1	3940	1	chr2A.!!$F4	3939
1	TraesCS2A01G465200	chr2A	710186400	710190318	3918	False	5762.000	5762	93.190000	4	3938	1	chr2A.!!$F3	3934
2	TraesCS2A01G465200	chr2A	710036420	710038111	1691	False	1522.000	1522	82.921000	1788	3483	1	chr2A.!!$F1	1695
3	TraesCS2A01G465200	chr2A	709849836	709852226	2390	False	955.500	1506	81.255500	795	3550	2	chr2A.!!$F5	2755
4	TraesCS2A01G465200	chr2A	710092597	710093134	537	False	411.000	411	80.686000	795	1342	1	chr2A.!!$F2	547
5	TraesCS2A01G465200	chr2B	794800944	794803087	2143	True	2612.000	2612	88.673000	1786	3940	1	chr2B.!!$R1	2154
6	TraesCS2A01G465200	chr2B	683159767	683161898	2131	False	2281.000	2281	85.986000	1785	3934	1	chr2B.!!$F1	2149
7	TraesCS2A01G465200	chr2B	683126899	683130571	3672	False	2025.000	2543	87.258500	38	3940	2	chr2B.!!$F5	3902
8	TraesCS2A01G465200	chr2B	683053771	683056466	2695	False	1470.500	2549	86.263500	947	3940	2	chr2B.!!$F3	2993
9	TraesCS2A01G465200	chr2B	683042510	683045314	2804	False	1048.500	1703	81.045500	795	3940	2	chr2B.!!$F2	3145
10	TraesCS2A01G465200	chr2B	794692043	794697044	5001	True	847.075	2617	92.672250	636	3940	4	chr2B.!!$R2	3304
11	TraesCS2A01G465200	chr2B	683066487	683067754	1267	False	524.000	573	82.029500	21	1342	2	chr2B.!!$F4	1321
12	TraesCS2A01G465200	chr2D	571443451	571445582	2131	False	2420.000	2420	87.158000	1785	3934	1	chr2D.!!$F2	2149
13	TraesCS2A01G465200	chr2D	571209206	571210897	1691	False	1533.000	1533	83.039000	1788	3483	1	chr2D.!!$F1	1695
14	TraesCS2A01G465200	chr6A	617078166	617079066	900	False	942.000	942	85.777000	3047	3940	1	chr6A.!!$F1	893
15	TraesCS2A01G465200	chrUn	332504170	332504817	647	False	257.100	590	94.081333	636	1348	3	chrUn.!!$F4	712

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	End Stability	Orientation
417	426	0.822164	ACTCGCGGCTACCATAGTTT	59.178	50.000	6.13	2.66	F
834	857	1.210155	GCTAGCTGGTTTTGGTGCG	59.790	57.895	7.70	5.34	F
2338	4233	1.318576	GGTGGTGTTGGGAAGACAAG	58.681	55.000	0.00	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	End Stability	Orientation
1284	1348	1.674221	GCACCTTCTTCGATCTGCTGT	60.674	52.381	4.40	R
2573	4468	1.065854	CATCCACTCCTGTCCTTGTCC	60.066	57.143	4.02	R
3405	5301	1.252175	TTATGCTGCTTCGCCCAAAA	58.748	45.000	2.44	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
74	79	6.976925	GCTACAAGGTTGTACATACTTATCGT	59.023	38.462	10.98	8.58	42.35	3.73
75	80	7.490402	GCTACAAGGTTGTACATACTTATCGTT	59.510	37.037	10.98	0.29	42.35	3.85
78	83	9.525409	ACAAGGTTGTACATACTTATCGTTATC	57.475	33.333	10.98	0.00	40.16	1.75
79	84	8.688184	CAAGGTTGTACATACTTATCGTTATCG	58.312	37.037	10.98	0.00	38.55	2.92
80	85	7.365741	AGGTTGTACATACTTATCGTTATCGG	58.634	38.462	0.00	0.00	37.69	4.18
81	86	7.229306	AGGTTGTACATACTTATCGTTATCGGA	59.771	37.037	0.00	0.00	37.69	4.55
185	193	2.954318	ACCATTTCTCCTGTATGCATGC	59.046	45.455	11.82	11.82	0.00	4.06
186	194	2.953648	CCATTTCTCCTGTATGCATGCA	59.046	45.455	25.04	25.04	0.00	3.96
246	254	7.112779	CCTATTGTTATTTCTGTTCTCTGGGT	58.887	38.462	0.00	0.00	0.00	4.51
270	278	1.202348	GTTACCATGAAAGTGCCCAGC	59.798	52.381	0.00	0.00	0.00	4.85
364	373	2.347322	GCCGCCCAGCCAAATACAA	61.347	57.895	0.00	0.00	0.00	2.41
402	411	1.376037	GGGGCCAAGACTTGACTCG	60.376	63.158	16.99	0.87	0.00	4.18
417	426	0.822164	ACTCGCGGCTACCATAGTTT	59.178	50.000	6.13	0.00	0.00	2.66
446	458	2.838286	CAGACCTGCTTCAGACTGC	58.162	57.895	0.00	0.00	32.82	4.40
482	494	4.329256	GTGCGTCAGTTAAAGGGATTCTAC	59.671	45.833	0.00	0.00	0.00	2.59
497	509	5.247862	GGATTCTACCGTTAGTTGGGAAAA	58.752	41.667	0.00	0.00	0.00	2.29
500	512	6.563222	TTCTACCGTTAGTTGGGAAAATTG	57.437	37.500	0.00	0.00	0.00	2.32
502	514	3.568443	ACCGTTAGTTGGGAAAATTGGT	58.432	40.909	0.00	0.00	0.00	3.67
514	526	4.702612	GGGAAAATTGGTTGTTTTTGGTGT	59.297	37.500	0.00	0.00	0.00	4.16
518	530	9.110502	GGAAAATTGGTTGTTTTTGGTGTATAA	57.889	29.630	0.00	0.00	0.00	0.98
532	544	8.827177	TTTGGTGTATAATTCGACTCATATCC	57.173	34.615	0.00	0.00	0.00	2.59
546	558	4.349048	ACTCATATCCTATTTGCTGCCTGA	59.651	41.667	0.00	0.00	0.00	3.86
555	567	3.540314	TTTGCTGCCTGACATGTTTTT	57.460	38.095	0.00	0.00	0.00	1.94
583	595	4.439563	GGTGAAGTTAGCTCTAGACTCAGC	60.440	50.000	0.00	0.00	35.73	4.26
592	604	5.469763	AGCTCTAGACTCAGCTTCCATGAG	61.470	50.000	0.00	1.53	43.80	2.90
717	739	9.168451	CATACAAGTATACAACCAAATACACCA	57.832	33.333	5.50	0.00	32.14	4.17
834	857	1.210155	GCTAGCTGGTTTTGGTGCG	59.790	57.895	7.70	0.00	0.00	5.34
938	991	4.508405	CCATCTGTTTTGGTTTCTCCCCTA	60.508	45.833	0.00	0.00	34.77	3.53
970	1025	2.223665	ACTTTTGCTCTTGCTTGCTGTC	60.224	45.455	0.00	0.00	40.48	3.51
993	1054	2.525629	TCCGGTGTGCCTGGAGAA	60.526	61.111	0.00	0.00	34.28	2.87
994	1055	2.046892	CCGGTGTGCCTGGAGAAG	60.047	66.667	0.00	0.00	32.59	2.85
995	1056	2.743718	CGGTGTGCCTGGAGAAGT	59.256	61.111	0.00	0.00	0.00	3.01
996	1057	1.669115	CGGTGTGCCTGGAGAAGTG	60.669	63.158	0.00	0.00	0.00	3.16
1184	1248	2.688666	TGCTGCCGAGGGAAGGAT	60.689	61.111	0.00	0.00	0.00	3.24
1231	1295	5.486526	GTTCACTGGATGATCTCAAAGAGT	58.513	41.667	0.00	0.00	37.11	3.24
1277	1341	1.945394	GGACGAGCTCGATTACTACCA	59.055	52.381	40.58	0.00	43.02	3.25
1284	1348	3.767673	AGCTCGATTACTACCAACTCCAA	59.232	43.478	0.00	0.00	0.00	3.53
1342	1406	6.992123	TCTTGTTCTATCTCTGTTGCTTTCAA	59.008	34.615	0.00	0.00	0.00	2.69
1453	1553	5.070847	AGGTTTGAACAGCAATTTGAGGAAT	59.929	36.000	0.00	0.00	36.15	3.01
1628	3401	5.392595	GCCTTGTATTTTGCGACCAATAGAA	60.393	40.000	0.00	0.00	0.00	2.10
1885	3780	3.008704	GGGAAAGGTTGTAGTGCTCCTAA	59.991	47.826	0.00	0.00	0.00	2.69
2023	3918	2.285668	TGAAGAGGAGGGGCCAGG	60.286	66.667	4.39	0.00	40.02	4.45
2338	4233	1.318576	GGTGGTGTTGGGAAGACAAG	58.681	55.000	0.00	0.00	0.00	3.16
2573	4468	3.133691	CGTATTGGATGACATGTGGGAG	58.866	50.000	1.15	0.00	0.00	4.30
2636	4532	6.569179	TTGAAAGGTAATCAAGTAAGTGGC	57.431	37.500	0.00	0.00	33.15	5.01
2669	4565	7.295952	ACTAGCAACAACTAGAATGAATTCG	57.704	36.000	0.00	0.00	41.92	3.34
2682	4578	5.409214	AGAATGAATTCGGTTGCAAAAATGG	59.591	36.000	0.00	0.00	41.56	3.16
2704	4600	3.526931	ACGAACGATGGATGAAGTCAT	57.473	42.857	0.14	0.00	39.70	3.06
2749	4645	5.543790	AGGAATTTTGGCTGTTATTCAAGGT	59.456	36.000	0.00	0.00	0.00	3.50
2762	4658	6.435591	TGTTATTCAAGGTATGTGCATTTGGA	59.564	34.615	0.00	0.00	0.00	3.53
2870	4766	3.508744	AGTGTTGGTGCACTTTTGAAG	57.491	42.857	17.98	0.00	46.45	3.02
2879	4775	4.098416	GTGCACTTTTGAAGACAAGTGTC	58.902	43.478	10.32	3.12	45.08	3.67
2933	4829	7.224522	ACAAATGGAGATCTTTTCAAGAAGG	57.775	36.000	0.00	0.00	41.63	3.46
2934	4830	5.911378	AATGGAGATCTTTTCAAGAAGGC	57.089	39.130	0.00	0.00	41.63	4.35
2995	4891	6.214615	TGATTATCTACCAGTCCACCTTCAAA	59.785	38.462	0.00	0.00	0.00	2.69
3050	4946	5.366477	AGGACAAACAATTTGATGGGAAAGT	59.634	36.000	8.24	0.00	43.26	2.66
3070	4966	7.147915	GGAAAGTATTGGTTCATGCTTGGATAA	60.148	37.037	0.00	0.00	0.00	1.75
3097	4993	4.641989	AGAATTTTGTGCAGTGTGAAGACT	59.358	37.500	0.00	0.00	0.00	3.24
3102	4998	2.693074	TGTGCAGTGTGAAGACTCTACA	59.307	45.455	0.00	0.00	0.00	2.74
3186	5082	5.163513	CAAAAGGTTGGCTCACATTATGTC	58.836	41.667	0.00	0.00	0.00	3.06
3295	5191	2.605338	CCAAGTGTTCGCCATTTGTCAG	60.605	50.000	8.53	0.00	38.68	3.51
3398	5294	4.229876	CCTTCGCAAAAATTGAGGACTTC	58.770	43.478	0.00	0.00	0.00	3.01
3405	5301	5.691754	GCAAAAATTGAGGACTTCGATGTTT	59.308	36.000	5.33	0.00	37.53	2.83
3442	5338	7.201911	GCAGCATAAATTTATTAGGGTCCTTGT	60.202	37.037	8.01	0.00	0.00	3.16
3444	5340	6.923508	GCATAAATTTATTAGGGTCCTTGTGC	59.076	38.462	8.01	2.39	0.00	4.57
3447	5343	4.374689	TTTATTAGGGTCCTTGTGCACA	57.625	40.909	17.42	17.42	0.00	4.57
3511	5407	1.297664	GACAGATGCTGACATGAGCC	58.702	55.000	0.00	0.00	38.28	4.70
3528	5424	4.585879	TGAGCCCTATACACAGTTTTTCC	58.414	43.478	0.00	0.00	0.00	3.13
3563	5459	9.039870	CCATCTTCGCTATCTTGAATATATTCC	57.960	37.037	20.29	5.68	35.97	3.01
3585	5481	3.941483	CTGTTGTCATTACACCCAGATCC	59.059	47.826	1.36	0.00	37.15	3.36
3650	5555	9.994432	GACAAGATTTTATCACCTTCAAGTATG	57.006	33.333	0.00	0.00	0.00	2.39
3732	5640	4.198530	TGCGCCATCTTATTTCTCATGAA	58.801	39.130	4.18	0.00	0.00	2.57
3745	5653	6.638096	TTTCTCATGAAAAAGTGCATCAGA	57.362	33.333	0.00	0.00	39.02	3.27
3753	5661	4.708726	AAAAGTGCATCAGACAATAGCC	57.291	40.909	0.00	0.00	0.00	3.93

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
9	10	9.769677	TGGCATATAGAGTAGGACATTAACTAT	57.230	33.333	0.00	0.00	0.00	2.12
18	19	8.451908	ACAAATTTTGGCATATAGAGTAGGAC	57.548	34.615	13.42	0.00	34.12	3.85
74	79	4.584874	TGAGATGCTTTGGTTTCCGATAA	58.415	39.130	0.00	0.00	0.00	1.75
75	80	4.214986	TGAGATGCTTTGGTTTCCGATA	57.785	40.909	0.00	0.00	0.00	2.92
76	81	3.071874	TGAGATGCTTTGGTTTCCGAT	57.928	42.857	0.00	0.00	0.00	4.18
77	82	2.559698	TGAGATGCTTTGGTTTCCGA	57.440	45.000	0.00	0.00	0.00	4.55
78	83	3.641437	TTTGAGATGCTTTGGTTTCCG	57.359	42.857	0.00	0.00	0.00	4.30
79	84	3.681417	GCATTTGAGATGCTTTGGTTTCC	59.319	43.478	0.10	0.00	41.52	3.13
80	85	4.916099	GCATTTGAGATGCTTTGGTTTC	57.084	40.909	0.10	0.00	41.52	2.78
185	193	0.460987	GCCTGGAATCTCTGGACGTG	60.461	60.000	0.00	0.00	0.00	4.49
186	194	0.616111	AGCCTGGAATCTCTGGACGT	60.616	55.000	0.00	0.00	0.00	4.34
246	254	3.153919	GGGCACTTTCATGGTAACTGAA	58.846	45.455	0.00	0.00	37.61	3.02
270	278	7.792374	AGCTTATGATGTAACATACCAACTG	57.208	36.000	0.00	0.00	33.31	3.16
364	373	4.139786	CCCATAGCTGCATCAACTAATGT	58.860	43.478	1.02	0.00	0.00	2.71
373	382	1.152694	TTGGCCCCATAGCTGCATC	60.153	57.895	0.00	0.00	0.00	3.91
379	388	0.255890	TCAAGTCTTGGCCCCATAGC	59.744	55.000	12.66	0.00	0.00	2.97
402	411	1.296727	GGTGAAACTATGGTAGCCGC	58.703	55.000	0.00	0.00	36.74	6.53
482	494	4.202172	ACAACCAATTTTCCCAACTAACGG	60.202	41.667	0.00	0.00	0.00	4.44
497	509	8.361139	TCGAATTATACACCAAAAACAACCAAT	58.639	29.630	0.00	0.00	0.00	3.16
500	512	7.364970	AGTCGAATTATACACCAAAAACAACC	58.635	34.615	0.00	0.00	0.00	3.77
502	514	8.155821	TGAGTCGAATTATACACCAAAAACAA	57.844	30.769	0.00	0.00	0.00	2.83
518	530	5.641209	GCAGCAAATAGGATATGAGTCGAAT	59.359	40.000	0.00	0.00	0.00	3.34
521	533	3.681897	GGCAGCAAATAGGATATGAGTCG	59.318	47.826	0.00	0.00	0.00	4.18
532	544	4.445452	AAACATGTCAGGCAGCAAATAG	57.555	40.909	0.00	0.00	0.00	1.73
555	567	5.775701	AGTCTAGAGCTAACTTCACCAAGAA	59.224	40.000	0.00	0.00	33.34	2.52
556	568	5.326069	AGTCTAGAGCTAACTTCACCAAGA	58.674	41.667	0.00	0.00	33.34	3.02
557	569	5.184096	TGAGTCTAGAGCTAACTTCACCAAG	59.816	44.000	0.00	0.00	35.50	3.61
583	595	3.446873	ACTACAGAGCACTCTCATGGAAG	59.553	47.826	0.00	0.00	41.81	3.46
592	604	4.457834	ACATACCAACTACAGAGCACTC	57.542	45.455	0.00	0.00	0.00	3.51
717	739	5.046735	TGGCACCACAGTTGCAATAATTAAT	60.047	36.000	0.59	0.00	0.00	1.40
725	747	0.682532	TCTTGGCACCACAGTTGCAA	60.683	50.000	0.00	0.00	0.00	4.08
834	857	7.412455	GCAGCAAATGAGAGAGAGTTAAACTAC	60.412	40.741	0.00	0.00	0.00	2.73
938	991	1.821136	GAGCAAAAGTAGGCCTTGCAT	59.179	47.619	24.56	12.12	46.26	3.96
993	1054	1.613630	AAGCCCCGTCATCTCCACT	60.614	57.895	0.00	0.00	0.00	4.00
994	1055	1.153349	GAAGCCCCGTCATCTCCAC	60.153	63.158	0.00	0.00	0.00	4.02
995	1056	1.306141	AGAAGCCCCGTCATCTCCA	60.306	57.895	0.00	0.00	0.00	3.86
996	1057	1.330655	TGAGAAGCCCCGTCATCTCC	61.331	60.000	0.00	0.00	37.99	3.71
1102	1166	1.068055	CACATCTTCAGCAAGCCCAAC	60.068	52.381	0.00	0.00	0.00	3.77
1184	1248	2.297033	GCCAGAGGCTTGTTTTCAATCA	59.703	45.455	0.00	0.00	46.69	2.57
1231	1295	2.416836	CGTCCTCCGAGTCATAAAGCAA	60.417	50.000	0.00	0.00	39.56	3.91
1277	1341	2.300152	TCTTCGATCTGCTGTTGGAGTT	59.700	45.455	0.00	0.00	33.13	3.01
1284	1348	1.674221	GCACCTTCTTCGATCTGCTGT	60.674	52.381	0.00	0.00	0.00	4.40
1559	3332	6.765403	AGCTTGACCAACAGTTAATACTACA	58.235	36.000	0.00	0.00	31.96	2.74
1628	3401	7.250032	TCAGCTGCTCTTGGTTATATATCAT	57.750	36.000	9.47	0.00	0.00	2.45
1668	3442	5.745312	TTAAGCAAGAGACAATCTGAGGA	57.255	39.130	0.00	0.00	38.67	3.71
1809	3704	2.760092	AGCAAACAAAAGCCACTTGAGA	59.240	40.909	0.00	0.00	0.00	3.27
1885	3780	1.887797	TCCCTCGGGATTAACACCAT	58.112	50.000	0.00	0.00	39.76	3.55
2023	3918	4.153117	CAGAAGTCAGCATGGTACTTTGAC	59.847	45.833	15.87	11.01	38.68	3.18
2282	4177	7.119846	ACTGGCAAAACATTCAGATTACTAGAC	59.880	37.037	0.00	0.00	0.00	2.59
2289	4184	3.642848	ACCACTGGCAAAACATTCAGATT	59.357	39.130	0.00	0.00	0.00	2.40
2388	4283	4.322650	GGATACACAAACCCACATTTGCAT	60.323	41.667	0.00	0.00	42.29	3.96
2440	4335	6.015282	TCACATACATGCTCTAGGATCTCAT	58.985	40.000	0.00	0.00	0.00	2.90
2573	4468	1.065854	CATCCACTCCTGTCCTTGTCC	60.066	57.143	0.00	0.00	0.00	4.02
2636	4532	6.276091	TCTAGTTGTTGCTAGTATCATGCAG	58.724	40.000	0.00	0.00	39.44	4.41
2669	4565	2.722116	CGTTCGTACCATTTTTGCAACC	59.278	45.455	0.00	0.00	0.00	3.77
2682	4578	3.766151	TGACTTCATCCATCGTTCGTAC	58.234	45.455	0.00	0.00	0.00	3.67
2704	4600	4.706476	CCTTTTCATTCAGGCCACTCAATA	59.294	41.667	5.01	0.00	0.00	1.90
2749	4645	4.759693	AGTTCTCGTTTCCAAATGCACATA	59.240	37.500	0.00	0.00	0.00	2.29
2762	4658	2.233271	TCACCCTCGTAGTTCTCGTTT	58.767	47.619	0.00	0.00	0.00	3.60
2825	4721	2.124529	GCTAGTGGGCAGCCCTTC	60.125	66.667	31.51	22.63	45.70	3.46
2870	4766	5.869753	ATGCTTTATCACTGACACTTGTC	57.130	39.130	2.19	2.19	44.97	3.18
2879	4775	4.264253	TGTCCTCCAATGCTTTATCACTG	58.736	43.478	0.00	0.00	0.00	3.66
2886	4782	2.154462	CGAACTGTCCTCCAATGCTTT	58.846	47.619	0.00	0.00	0.00	3.51
2933	4829	6.743575	AGATGGGTAAAATATCATTAGCGC	57.256	37.500	0.00	0.00	32.84	5.92
2934	4830	8.322906	TCAAGATGGGTAAAATATCATTAGCG	57.677	34.615	0.00	0.00	32.84	4.26
2995	4891	4.323553	AAGAGCAGTACGAGAAACAGTT	57.676	40.909	0.00	0.00	0.00	3.16
3050	4946	5.948758	TGTGTTATCCAAGCATGAACCAATA	59.051	36.000	0.00	0.00	0.00	1.90
3070	4966	3.443329	TCACACTGCACAAAATTCTGTGT	59.557	39.130	13.26	7.23	46.93	3.72
3097	4993	7.829211	CCCTGTTTCCTCTAATTTCATTGTAGA	59.171	37.037	0.00	0.00	0.00	2.59
3102	4998	5.332743	TGCCCTGTTTCCTCTAATTTCATT	58.667	37.500	0.00	0.00	0.00	2.57
3295	5191	8.256611	TCTTCATCAAAAGCAGTAGTTATGAC	57.743	34.615	0.00	0.00	0.00	3.06
3405	5301	1.252175	TTATGCTGCTTCGCCCAAAA	58.748	45.000	0.00	0.00	0.00	2.44
3444	5340	6.102006	CATTTTGCCTTCTTGCATAATGTG	57.898	37.500	16.09	0.43	46.49	3.21
3447	5343	7.063308	CGTAAACATTTTGCCTTCTTGCATAAT	59.937	33.333	0.00	0.00	41.54	1.28
3511	5407	7.645058	ATGGATTGGAAAAACTGTGTATAGG	57.355	36.000	0.00	0.00	0.00	2.57
3528	5424	5.728471	AGATAGCGAAGATGGTATGGATTG	58.272	41.667	0.00	0.00	32.97	2.67
3563	5459	3.941483	GGATCTGGGTGTAATGACAACAG	59.059	47.826	0.00	5.29	45.89	3.16
3585	5481	6.146216	CACAGTGTTGTTGTAGACTCTAGAG	58.854	44.000	18.49	18.49	34.62	2.43
3650	5555	2.733956	TGCCTGAAATACCCACATTCC	58.266	47.619	0.00	0.00	0.00	3.01
3732	5640	4.338879	AGGCTATTGTCTGATGCACTTTT	58.661	39.130	0.00	0.00	0.00	2.27
3745	5653	3.561143	TGTTTCCAACACAGGCTATTGT	58.439	40.909	0.00	0.00	36.25	2.71
3753	5661	3.480470	AGAGGTCATGTTTCCAACACAG	58.520	45.455	0.00	0.00	45.50	3.66
3800	5708	9.868277	AGTTCTCTTATCTCAAAACTACTGATG	57.132	33.333	0.00	0.00	0.00	3.07

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.