AutoCloner

Multiple sequence alignment - TraesCS7D01G437400

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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	TraesCS7D01G437400	chr7D	100.000	3449	0	0	1	3449	556642011	556638563	0.000000e+00	6370
1	TraesCS7D01G437400	chr7D	98.810	84	1	0	1596	1679	556640332	556640249	2.140000e-32	150
2	TraesCS7D01G437400	chr7D	98.810	84	1	0	1680	1763	556640416	556640333	2.140000e-32	150
3	TraesCS7D01G437400	chr7A	94.334	2524	82	15	1	2491	642255877	642253382	0.000000e+00	3812
4	TraesCS7D01G437400	chr7A	89.286	224	14	3	2651	2873	642252966	642252752	4.390000e-69	272
5	TraesCS7D01G437400	chr7A	98.810	84	1	0	1680	1763	642254277	642254194	2.140000e-32	150
6	TraesCS7D01G437400	chr7A	96.429	84	3	0	1596	1679	642254193	642254110	4.640000e-29	139
7	TraesCS7D01G437400	chr7A	95.161	62	3	0	2561	2622	642253017	642252956	7.880000e-17	99
8	TraesCS7D01G437400	chr7B	93.864	1809	63	19	1	1768	604037240	604035439	0.000000e+00	2682
9	TraesCS7D01G437400	chr7B	93.153	1110	65	4	1765	2867	604035400	604034295	0.000000e+00	1618
10	TraesCS7D01G437400	chr7B	79.947	753	133	10	866	1609	598017138	598016395	3.920000e-149	538
11	TraesCS7D01G437400	chr7B	83.246	382	52	10	2890	3267	69822363	69822736	1.190000e-89	340
12	TraesCS7D01G437400	chr7B	100.000	84	0	0	1596	1679	604035527	604035444	4.610000e-34	156
13	TraesCS7D01G437400	chr7B	98.810	84	1	0	1680	1763	604035611	604035528	2.140000e-32	150
14	TraesCS7D01G437400	chr1D	82.735	724	115	4	1765	2488	314574101	314574814	1.350000e-178	636
15	TraesCS7D01G437400	chr1D	82.443	524	66	10	2890	3409	442153839	442153338	5.290000e-118	435
16	TraesCS7D01G437400	chr1D	81.594	527	62	16	2890	3411	340318972	340318476	1.490000e-108	403
17	TraesCS7D01G437400	chr1A	83.756	671	103	2	1765	2435	394852277	394852941	6.280000e-177	630
18	TraesCS7D01G437400	chr6D	83.303	557	61	18	2890	3442	33893265	33892737	5.180000e-133	484
19	TraesCS7D01G437400	chr6D	82.712	295	50	1	988	1281	12345161	12345455	9.490000e-66	261
20	TraesCS7D01G437400	chr2B	81.693	579	77	23	2890	3447	707600737	707600167	4.060000e-124	455
21	TraesCS7D01G437400	chr5B	82.751	458	52	10	2895	3342	325960679	325960239	1.940000e-102	383
22	TraesCS7D01G437400	chr5A	82.340	453	56	9	2895	3342	379090517	379090084	4.200000e-99	372
23	TraesCS7D01G437400	chr3D	81.967	427	61	14	2890	3308	615475854	615476272	7.080000e-92	348
24	TraesCS7D01G437400	chr2A	80.043	461	82	10	2890	3345	62137305	62137760	1.980000e-87	333

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	TraesCS7D01G437400	chr7D	556638563	556642011	3448	True	2223.333333	6370	99.206667	1	3449	3	chr7D.!!$R1	3448
1	TraesCS7D01G437400	chr7A	642252752	642255877	3125	True	894.400000	3812	94.804000	1	2873	5	chr7A.!!$R1	2872
2	TraesCS7D01G437400	chr7B	604034295	604037240	2945	True	1151.500000	2682	96.456750	1	2867	4	chr7B.!!$R2	2866
3	TraesCS7D01G437400	chr7B	598016395	598017138	743	True	538.000000	538	79.947000	866	1609	1	chr7B.!!$R1	743
4	TraesCS7D01G437400	chr1D	314574101	314574814	713	False	636.000000	636	82.735000	1765	2488	1	chr1D.!!$F1	723
5	TraesCS7D01G437400	chr1D	442153338	442153839	501	True	435.000000	435	82.443000	2890	3409	1	chr1D.!!$R2	519
6	TraesCS7D01G437400	chr1A	394852277	394852941	664	False	630.000000	630	83.756000	1765	2435	1	chr1A.!!$F1	670
7	TraesCS7D01G437400	chr6D	33892737	33893265	528	True	484.000000	484	83.303000	2890	3442	1	chr6D.!!$R1	552
8	TraesCS7D01G437400	chr2B	707600167	707600737	570	True	455.000000	455	81.693000	2890	3447	1	chr2B.!!$R1	557

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
154	163	1.482182	AGCACACAGAGAATATCCGCA	59.518	47.619	0.0	0.0	0.00	5.69	F
1461	1509	1.466167	CCAATGGAAGCACACTCTTCG	59.534	52.381	0.0	0.0	42.48	3.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1494	1542	0.036875	CCTCACCAGTTCCAACCTCC	59.963	60.0	0.0	0.0	0.0	4.30	R
2621	3006	0.597377	CAAAACGGCAGCAGGAAACC	60.597	55.0	0.0	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
34	35	2.664916	CCATTCGCTTCTTGGTTGTTG	58.335	47.619	0.00	0.00	0.00	3.33
35	36	2.034558	CCATTCGCTTCTTGGTTGTTGT	59.965	45.455	0.00	0.00	0.00	3.32
82	83	6.038271	ACCGTAGTGCAATTTATCTTGGATTC	59.962	38.462	0.00	0.00	0.00	2.52
86	87	7.251704	AGTGCAATTTATCTTGGATTCGTAG	57.748	36.000	0.00	0.00	0.00	3.51
87	88	6.823689	AGTGCAATTTATCTTGGATTCGTAGT	59.176	34.615	0.00	0.00	0.00	2.73
88	89	7.011482	AGTGCAATTTATCTTGGATTCGTAGTC	59.989	37.037	0.00	0.00	0.00	2.59
89	90	6.821160	TGCAATTTATCTTGGATTCGTAGTCA	59.179	34.615	0.00	0.00	0.00	3.41
90	91	7.498900	TGCAATTTATCTTGGATTCGTAGTCAT	59.501	33.333	0.00	0.00	0.00	3.06
91	92	8.345565	GCAATTTATCTTGGATTCGTAGTCATT	58.654	33.333	0.00	0.00	0.00	2.57
154	163	1.482182	AGCACACAGAGAATATCCGCA	59.518	47.619	0.00	0.00	0.00	5.69
163	172	4.813161	CAGAGAATATCCGCAGTTGAATGT	59.187	41.667	0.00	0.00	0.00	2.71
212	221	3.328382	TGTCAGGTAATTGGACGGAAG	57.672	47.619	0.00	0.00	34.32	3.46
258	295	7.775093	TGCATAGCTATGGTAAAAGAGAAATGT	59.225	33.333	30.14	0.00	34.32	2.71
283	320	9.236691	GTTATCACAAATTCGCATTAATGTCAT	57.763	29.630	16.61	4.19	0.00	3.06
394	432	5.083821	ACAACATATTGGCTGTAAACCCTT	58.916	37.500	0.00	0.00	40.42	3.95
411	449	6.544928	AACCCTTTGATCTTTGAAACAGTT	57.455	33.333	0.00	0.00	0.00	3.16
439	477	4.376340	AAACCAAACTGCAGACAAGAAG	57.624	40.909	23.35	4.56	0.00	2.85
527	565	9.593134	CCAGAAATAATATAGATACTCCACTGC	57.407	37.037	0.00	0.00	0.00	4.40
649	687	4.127171	TGCTTGTTTCTTAGTCACAGGTC	58.873	43.478	0.00	0.00	0.00	3.85
701	739	3.991773	CACATTCATCTTTGCACTTTGGG	59.008	43.478	0.00	0.00	0.00	4.12
706	744	4.211125	TCATCTTTGCACTTTGGGTAACA	58.789	39.130	0.00	0.00	39.74	2.41
744	786	4.533919	TTTCCATTTTGTGTATGCCTGG	57.466	40.909	0.00	0.00	0.00	4.45
784	826	5.479027	ACATTTTCCCTACTTTGCCGTTATT	59.521	36.000	0.00	0.00	0.00	1.40
846	888	3.737559	ATTCTGTGAATGGGCTTGGTA	57.262	42.857	0.00	0.00	0.00	3.25
894	936	9.599322	CATAGTCAAATTTGTGTGTCTAAACTC	57.401	33.333	17.47	0.00	0.00	3.01
1155	1197	2.231215	TGGCAACCCGAAAAATTGTG	57.769	45.000	0.00	0.00	0.00	3.33
1272	1314	1.512926	CTGTCTCAAAACCTCCACCG	58.487	55.000	0.00	0.00	0.00	4.94
1349	1397	2.827921	GCAATGGAAGTGGGAAAGATGT	59.172	45.455	0.00	0.00	28.90	3.06
1461	1509	1.466167	CCAATGGAAGCACACTCTTCG	59.534	52.381	0.00	0.00	42.48	3.79
1589	1637	4.093556	CGAGGGTAAAACAGAAGATGAAGC	59.906	45.833	0.00	0.00	0.00	3.86
1806	1896	6.998074	TCTCTTTTATGAATGTGTCAAGTGGT	59.002	34.615	0.00	0.00	40.50	4.16
1851	1941	0.875059	GAACTGGGTTTTCAGCCTCG	59.125	55.000	0.00	0.00	41.69	4.63
1918	2008	4.258543	CCTATTTGGGCTAAAGAACGACA	58.741	43.478	1.72	0.00	0.00	4.35
1921	2011	0.669318	TGGGCTAAAGAACGACAGCG	60.669	55.000	0.00	0.00	44.79	5.18
2015	2105	4.282703	AGCAGAAGCACCAAAGAAATTCAT	59.717	37.500	0.00	0.00	45.49	2.57
2154	2244	0.326264	AGCTGAACATCCCAGTGTCC	59.674	55.000	0.00	0.00	34.29	4.02
2236	2326	1.202302	CGAGCCTGTACGATGACATGT	60.202	52.381	0.00	0.00	0.00	3.21
2482	2572	1.196808	GGTTGCGTGTTTCGATGATGT	59.803	47.619	0.00	0.00	42.86	3.06
2494	2584	1.939934	CGATGATGTGTATGCGGGTTT	59.060	47.619	0.00	0.00	0.00	3.27
2496	2586	1.458398	TGATGTGTATGCGGGTTTGG	58.542	50.000	0.00	0.00	0.00	3.28
2497	2587	1.003696	TGATGTGTATGCGGGTTTGGA	59.996	47.619	0.00	0.00	0.00	3.53
2498	2588	1.670811	GATGTGTATGCGGGTTTGGAG	59.329	52.381	0.00	0.00	0.00	3.86
2519	2609	3.011517	GGAGAGGGGCTGGCTGAA	61.012	66.667	0.00	0.00	0.00	3.02
2520	2610	2.588989	GAGAGGGGCTGGCTGAAG	59.411	66.667	0.00	0.00	0.00	3.02
2523	2613	1.676967	GAGGGGCTGGCTGAAGTTG	60.677	63.158	0.00	0.00	0.00	3.16
2527	2617	1.073897	GGCTGGCTGAAGTTGTCCT	59.926	57.895	0.00	0.00	0.00	3.85
2528	2618	0.957888	GGCTGGCTGAAGTTGTCCTC	60.958	60.000	0.00	0.00	0.00	3.71
2621	3006	1.511887	GCATGCACGCGGTTACTTG	60.512	57.895	14.21	6.28	0.00	3.16
2752	3145	7.542890	CACCGATCTGAGCTATATTCAGTAAT	58.457	38.462	11.87	2.91	42.11	1.89
2753	3146	7.700234	CACCGATCTGAGCTATATTCAGTAATC	59.300	40.741	11.87	8.81	42.11	1.75
2754	3147	7.394641	ACCGATCTGAGCTATATTCAGTAATCA	59.605	37.037	11.87	0.00	42.11	2.57
2755	3148	7.914871	CCGATCTGAGCTATATTCAGTAATCAG	59.085	40.741	11.87	0.00	42.11	2.90
2756	3149	8.458052	CGATCTGAGCTATATTCAGTAATCAGT	58.542	37.037	11.87	0.00	42.11	3.41
2818	3218	0.731417	GCTCTGTGTATTGCAGCAGG	59.269	55.000	0.00	0.00	34.21	4.85
2830	3230	1.600636	CAGCAGGTTTCTTGCCCGA	60.601	57.895	0.50	0.00	0.00	5.14
2834	3234	1.816224	GCAGGTTTCTTGCCCGATAAA	59.184	47.619	0.00	0.00	0.00	1.40
2839	3239	3.181490	GGTTTCTTGCCCGATAAATGTCC	60.181	47.826	0.00	0.00	0.00	4.02
2870	3270	6.884472	TCCTCACATATCCCTTTTGTAGAA	57.116	37.500	0.00	0.00	0.00	2.10
2873	3273	6.763610	CCTCACATATCCCTTTTGTAGAAGAC	59.236	42.308	0.00	0.00	0.00	3.01
2874	3274	7.365117	CCTCACATATCCCTTTTGTAGAAGACT	60.365	40.741	0.00	0.00	0.00	3.24
2875	3275	8.603898	TCACATATCCCTTTTGTAGAAGACTA	57.396	34.615	0.00	0.00	0.00	2.59
2876	3276	8.696374	TCACATATCCCTTTTGTAGAAGACTAG	58.304	37.037	0.00	0.00	0.00	2.57
2877	3277	7.439655	CACATATCCCTTTTGTAGAAGACTAGC	59.560	40.741	0.00	0.00	0.00	3.42
2878	3278	4.451629	TCCCTTTTGTAGAAGACTAGCG	57.548	45.455	0.00	0.00	0.00	4.26
2879	3279	4.084287	TCCCTTTTGTAGAAGACTAGCGA	58.916	43.478	0.00	0.00	0.00	4.93
2880	3280	4.525487	TCCCTTTTGTAGAAGACTAGCGAA	59.475	41.667	0.00	0.00	0.00	4.70
2881	3281	5.011329	TCCCTTTTGTAGAAGACTAGCGAAA	59.989	40.000	0.00	0.00	0.00	3.46
2882	3282	5.348997	CCCTTTTGTAGAAGACTAGCGAAAG	59.651	44.000	0.00	0.00	34.89	2.62
2883	3283	5.348997	CCTTTTGTAGAAGACTAGCGAAAGG	59.651	44.000	3.38	3.38	40.14	3.11
2884	3284	4.451629	TTGTAGAAGACTAGCGAAAGGG	57.548	45.455	0.00	0.00	0.00	3.95
2885	3285	2.165845	TGTAGAAGACTAGCGAAAGGGC	59.834	50.000	0.00	0.00	0.00	5.19
2886	3286	1.562783	AGAAGACTAGCGAAAGGGCT	58.437	50.000	0.00	0.00	46.88	5.19
2887	3287	2.736347	AGAAGACTAGCGAAAGGGCTA	58.264	47.619	0.00	0.00	44.29	3.93
2888	3288	3.301274	AGAAGACTAGCGAAAGGGCTAT	58.699	45.455	0.00	0.00	44.02	2.97
2901	3301	8.860088	AGCGAAAGGGCTATAAAAATCATAATT	58.140	29.630	0.00	0.00	42.62	1.40
2935	3335	3.508402	TGATCACATTTTGCTGCATCACT	59.492	39.130	1.84	0.00	0.00	3.41
2946	3346	2.864946	GCTGCATCACTGAGATACACTG	59.135	50.000	0.00	0.00	34.43	3.66
3158	3564	4.369182	ACAGTTTACTTGAGTCGGTGAAG	58.631	43.478	0.00	0.00	0.00	3.02
3159	3565	4.142004	ACAGTTTACTTGAGTCGGTGAAGT	60.142	41.667	0.00	0.00	34.36	3.01
3173	3579	5.699458	GTCGGTGAAGTTTTCTAGAATGGAA	59.301	40.000	5.89	0.00	32.03	3.53
3194	3601	6.126940	TGGAAGAACATTGTTTGGAAATTGGA	60.127	34.615	3.08	0.00	0.00	3.53
3206	3618	8.147704	TGTTTGGAAATTGGAGGAACTATTTTC	58.852	33.333	0.00	0.00	41.55	2.29
3222	3634	9.537848	GAACTATTTTCGAAATTCACGTACATT	57.462	29.630	12.12	0.00	0.00	2.71
3223	3635	9.887406	AACTATTTTCGAAATTCACGTACATTT	57.113	25.926	12.12	4.24	0.00	2.32
3224	3636	9.887406	ACTATTTTCGAAATTCACGTACATTTT	57.113	25.926	12.12	0.00	0.00	1.82
3344	3781	9.843334	TTTTGTAAGTCACGAACAGTTTTTAAT	57.157	25.926	0.00	0.00	29.77	1.40
3352	3789	9.281075	GTCACGAACAGTTTTTAATTTTGTAGT	57.719	29.630	0.00	0.00	0.00	2.73

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
34	35	0.881118	ACATTGCGATGTGGTGGAAC	59.119	50.000	19.06	0.00	44.64	3.62
35	36	3.337834	ACATTGCGATGTGGTGGAA	57.662	47.368	19.06	0.00	44.64	3.53
53	54	4.827692	AGATAAATTGCACTACGGTGACA	58.172	39.130	0.00	0.00	45.61	3.58
58	59	6.377327	AATCCAAGATAAATTGCACTACGG	57.623	37.500	0.00	0.00	0.00	4.02
82	83	1.209128	GCCGGATGACAATGACTACG	58.791	55.000	5.05	0.00	0.00	3.51
89	90	2.882761	CTCATCATTGCCGGATGACAAT	59.117	45.455	5.05	1.67	44.51	2.71
90	91	2.291365	CTCATCATTGCCGGATGACAA	58.709	47.619	5.05	0.00	44.51	3.18
91	92	1.957668	CTCATCATTGCCGGATGACA	58.042	50.000	5.05	0.00	44.51	3.58
154	163	2.517959	CATGGTGTGGGACATTCAACT	58.482	47.619	0.00	0.00	44.52	3.16
212	221	0.106519	ACCCTGGCATGCATAGTTCC	60.107	55.000	21.36	0.00	0.00	3.62
270	307	7.862741	ATTTCAATGCTATGACATTAATGCG	57.137	32.000	15.48	0.87	38.19	4.73
362	399	7.996098	ACAGCCAATATGTTGTTAGTTAACT	57.004	32.000	13.68	13.68	37.12	2.24
394	432	4.644234	TGGCTCAACTGTTTCAAAGATCAA	59.356	37.500	0.00	0.00	0.00	2.57
411	449	1.136695	CTGCAGTTTGGTTTTGGCTCA	59.863	47.619	5.25	0.00	0.00	4.26
527	565	4.808414	TTCTGTCTACAACCATCCTCAG	57.192	45.455	0.00	0.00	0.00	3.35
701	739	7.704899	GGAAAACCATAATGTAGGCAATGTTAC	59.295	37.037	0.00	0.00	0.00	2.50
706	744	7.436320	AATGGAAAACCATAATGTAGGCAAT	57.564	32.000	2.10	0.00	0.00	3.56
744	786	6.294010	GGGAAAATGTAACCAAGAGAAGACAC	60.294	42.308	0.00	0.00	0.00	3.67
784	826	7.226325	CAGGAAAATTGAAAGGCATACACAAAA	59.774	33.333	0.00	0.00	0.00	2.44
894	936	3.945921	CCAATCATCATAGGGCATAGCAG	59.054	47.826	0.00	0.00	0.00	4.24
1272	1314	4.024893	ACATTTGACGTTGTGACATCAGAC	60.025	41.667	0.00	0.00	28.69	3.51
1349	1397	7.066645	CCTCATTAGAATCTGCATTCTTGTCAA	59.933	37.037	7.83	0.00	45.68	3.18
1461	1509	5.181245	TGCCTTGTTATCAGTTTCAGTAAGC	59.819	40.000	0.00	0.00	0.00	3.09
1494	1542	0.036875	CCTCACCAGTTCCAACCTCC	59.963	60.000	0.00	0.00	0.00	4.30
1589	1637	4.326826	TCCACCTTCATTCACTTTAGCAG	58.673	43.478	0.00	0.00	0.00	4.24
1806	1896	1.899814	AGTCCTGTGAAGGCGTTATGA	59.100	47.619	0.00	0.00	0.00	2.15
1851	1941	2.560105	AGCTGAGCCAAAGGAAAATGAC	59.440	45.455	0.00	0.00	0.00	3.06
1913	2003	2.125512	GGAAGGATGCGCTGTCGT	60.126	61.111	9.73	5.83	38.14	4.34
1918	2008	0.329596	AAAGAAGGGAAGGATGCGCT	59.670	50.000	9.73	0.00	39.56	5.92
1921	2011	5.049129	CGATATTGAAAGAAGGGAAGGATGC	60.049	44.000	0.00	0.00	0.00	3.91
2073	2163	2.656560	ACTCGTACATTGCAGAGTCC	57.343	50.000	0.00	0.00	39.49	3.85
2236	2326	1.205655	CTTCTCCATGTCCTTCAGCGA	59.794	52.381	0.00	0.00	0.00	4.93
2302	2392	3.050275	GAACGTGGTGAGCCTGCC	61.050	66.667	0.00	0.00	35.27	4.85
2305	2395	4.681978	GGCGAACGTGGTGAGCCT	62.682	66.667	11.20	0.00	44.06	4.58
2482	2572	1.301623	CCCTCCAAACCCGCATACA	59.698	57.895	0.00	0.00	0.00	2.29
2509	2599	0.957888	GAGGACAACTTCAGCCAGCC	60.958	60.000	0.00	0.00	0.00	4.85
2514	2604	1.865865	TGAACGAGGACAACTTCAGC	58.134	50.000	0.00	0.00	0.00	4.26
2519	2609	1.616865	TCCGAATGAACGAGGACAACT	59.383	47.619	0.00	0.00	35.09	3.16
2520	2610	1.993370	CTCCGAATGAACGAGGACAAC	59.007	52.381	0.00	0.00	35.09	3.32
2523	2613	1.473278	AGACTCCGAATGAACGAGGAC	59.527	52.381	0.00	0.00	35.09	3.85
2527	2617	4.482386	CACTTTAGACTCCGAATGAACGA	58.518	43.478	0.00	0.00	35.09	3.85
2528	2618	3.060895	GCACTTTAGACTCCGAATGAACG	59.939	47.826	0.00	0.00	0.00	3.95
2621	3006	0.597377	CAAAACGGCAGCAGGAAACC	60.597	55.000	0.00	0.00	0.00	3.27
2752	3145	6.358974	TGACTCATTTCCAGACATTACTGA	57.641	37.500	0.00	0.00	39.94	3.41
2753	3146	7.465111	CGAATGACTCATTTCCAGACATTACTG	60.465	40.741	5.73	0.00	36.70	2.74
2754	3147	6.536582	CGAATGACTCATTTCCAGACATTACT	59.463	38.462	5.73	0.00	36.70	2.24
2755	3148	6.313905	ACGAATGACTCATTTCCAGACATTAC	59.686	38.462	5.73	0.00	36.70	1.89
2756	3149	6.406370	ACGAATGACTCATTTCCAGACATTA	58.594	36.000	5.73	0.00	36.70	1.90
2757	3150	5.248640	ACGAATGACTCATTTCCAGACATT	58.751	37.500	5.73	0.00	38.44	2.71
2758	3151	4.836825	ACGAATGACTCATTTCCAGACAT	58.163	39.130	5.73	0.00	33.90	3.06
2800	3200	2.105006	ACCTGCTGCAATACACAGAG	57.895	50.000	3.02	0.00	37.32	3.35
2801	3201	2.566833	AACCTGCTGCAATACACAGA	57.433	45.000	3.02	0.00	37.32	3.41
2818	3218	3.486875	CGGACATTTATCGGGCAAGAAAC	60.487	47.826	0.00	0.00	0.00	2.78
2830	3230	5.943416	TGTGAGGAAATGAACGGACATTTAT	59.057	36.000	17.40	11.66	46.18	1.40
2834	3234	3.417069	TGTGAGGAAATGAACGGACAT	57.583	42.857	0.00	0.00	0.00	3.06
2839	3239	4.708177	AGGGATATGTGAGGAAATGAACG	58.292	43.478	0.00	0.00	0.00	3.95
2870	3270	5.609533	TTTTATAGCCCTTTCGCTAGTCT	57.390	39.130	0.00	0.00	44.28	3.24
2873	3273	6.861065	TGATTTTTATAGCCCTTTCGCTAG	57.139	37.500	0.00	0.00	44.28	3.42
2874	3274	8.911918	TTATGATTTTTATAGCCCTTTCGCTA	57.088	30.769	0.00	0.00	45.11	4.26
2875	3275	7.817418	TTATGATTTTTATAGCCCTTTCGCT	57.183	32.000	0.00	0.00	43.09	4.93
2876	3276	9.476202	AAATTATGATTTTTATAGCCCTTTCGC	57.524	29.630	0.00	0.00	31.48	4.70
2901	3301	5.423704	AAATGTGATCATGGCCATTGAAA	57.576	34.783	17.92	7.53	34.19	2.69
2935	3335	6.596309	AATTGAGAGTGACAGTGTATCTCA	57.404	37.500	22.24	22.24	43.38	3.27
2946	3346	6.228273	TGATTTCACGAAATTGAGAGTGAC	57.772	37.500	6.47	0.00	42.44	3.67
3139	3545	5.729974	AAACTTCACCGACTCAAGTAAAC	57.270	39.130	0.00	0.00	30.00	2.01
3143	3549	4.138487	AGAAAACTTCACCGACTCAAGT	57.862	40.909	0.00	0.00	31.48	3.16
3149	3555	5.235516	TCCATTCTAGAAAACTTCACCGAC	58.764	41.667	9.71	0.00	0.00	4.79
3158	3564	9.750125	AAACAATGTTCTTCCATTCTAGAAAAC	57.250	29.630	9.71	8.69	32.81	2.43
3159	3565	9.748708	CAAACAATGTTCTTCCATTCTAGAAAA	57.251	29.630	9.71	0.00	32.81	2.29
3173	3579	5.602145	TCCTCCAATTTCCAAACAATGTTCT	59.398	36.000	0.00	0.00	0.00	3.01
3194	3601	6.796705	ACGTGAATTTCGAAAATAGTTCCT	57.203	33.333	15.66	0.00	0.00	3.36
3314	3726	9.843334	AAAACTGTTCGTGACTTACAAAATAAA	57.157	25.926	0.00	0.00	0.00	1.40
3411	3848	9.698309	TTCAAAGAGTTTGTGTATTGAAAACAA	57.302	25.926	0.00	0.00	41.36	2.83
3412	3849	9.698309	TTTCAAAGAGTTTGTGTATTGAAAACA	57.302	25.926	8.53	0.00	41.26	2.83

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.