AutoCloner

Multiple sequence alignment - TraesCS7A01G510600

Loading Multiple Alignment...

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	TraesCS7A01G510600	chr7A	100.000	4947	0	0	1	4947	698588151	698593097	0.000000e+00	9099
1	TraesCS7A01G510600	chr7D	87.156	3597	377	42	511	4061	606339326	606342883	0.000000e+00	4008
2	TraesCS7A01G510600	chr7D	90.387	2455	179	19	2264	4704	606536518	606538929	0.000000e+00	3173
3	TraesCS7A01G510600	chr7D	83.718	3335	455	55	760	4061	606318225	606321504	0.000000e+00	3073
4	TraesCS7A01G510600	chr7D	87.253	659	71	8	511	1159	606527798	606528453	0.000000e+00	739
5	TraesCS7A01G510600	chr7D	94.465	271	5	2	4687	4947	606539570	606539840	4.610000e-110	409
6	TraesCS7A01G510600	chrUn	84.473	3903	521	54	747	4609	83315444	83319301	0.000000e+00	3777
7	TraesCS7A01G510600	chrUn	100.000	1410	0	0	1	1410	83353903	83355312	0.000000e+00	2604
8	TraesCS7A01G510600	chrUn	96.220	1217	35	2	3541	4746	83339303	83340519	0.000000e+00	1982
9	TraesCS7A01G510600	chrUn	80.514	1555	274	18	792	2336	83331636	83333171	0.000000e+00	1170
10	TraesCS7A01G510600	chrUn	86.504	904	107	9	2330	3230	83338421	83339312	0.000000e+00	979
11	TraesCS7A01G510600	chrUn	87.605	831	80	9	3783	4609	245474964	245474153	0.000000e+00	942
12	TraesCS7A01G510600	chrUn	87.349	830	83	9	3783	4609	273206609	273207419	0.000000e+00	931
13	TraesCS7A01G510600	chrUn	79.193	471	88	8	3371	3836	34276773	34276308	7.990000e-83	318
14	TraesCS7A01G510600	chrUn	72.007	1086	271	32	1589	2657	246208727	246207658	1.740000e-74	291
15	TraesCS7A01G510600	chrUn	100.000	122	0	0	4826	4947	391247586	391247707	4.980000e-55	226
16	TraesCS7A01G510600	chrUn	100.000	122	0	0	4826	4947	478397236	478397357	4.980000e-55	226
17	TraesCS7A01G510600	chr7B	90.838	2565	213	13	321	2884	690299549	690302092	0.000000e+00	3417
18	TraesCS7A01G510600	chr7B	80.113	3555	573	71	760	4244	690249894	690253384	0.000000e+00	2531
19	TraesCS7A01G510600	chr7B	83.581	2558	373	36	792	3333	690416590	690419116	0.000000e+00	2357
20	TraesCS7A01G510600	chr7B	81.468	1867	254	51	2450	4263	690257311	690259138	0.000000e+00	1447
21	TraesCS7A01G510600	chr7B	87.726	831	79	9	3783	4609	690492301	690493112	0.000000e+00	948
22	TraesCS7A01G510600	chr7B	86.219	849	87	16	2934	3766	690302088	690302922	0.000000e+00	893
23	TraesCS7A01G510600	chr7B	92.025	489	31	4	4123	4609	690419986	690420468	0.000000e+00	680
24	TraesCS7A01G510600	chr7B	84.411	526	61	11	3444	3952	690419129	690419650	9.560000e-137	497
25	TraesCS7A01G510600	chr7B	84.477	277	37	6	2163	2436	690254197	690254470	8.160000e-68	268
26	TraesCS7A01G510600	chr7B	96.190	105	4	0	154	258	690298607	690298711	6.580000e-39	172
27	TraesCS7A01G510600	chr7B	97.872	94	2	0	1	94	690298507	690298600	3.960000e-36	163
28	TraesCS7A01G510600	chr3A	75.663	641	134	18	3207	3836	8038848	8039477	2.890000e-77	300
29	TraesCS7A01G510600	chr3A	72.475	1010	249	22	1655	2654	8024874	8025864	1.040000e-76	298
30	TraesCS7A01G510600	chr3A	74.120	483	76	27	3386	3834	8026642	8027109	2.380000e-33	154
31	TraesCS7A01G510600	chr4B	74.854	342	71	12	4609	4947	472386660	472386331	1.860000e-29	141
32	TraesCS7A01G510600	chr1D	88.991	109	11	1	4609	4717	203321352	203321459	3.110000e-27	134
33	TraesCS7A01G510600	chr1D	84.545	110	13	4	4609	4717	469581773	469581667	6.770000e-19	106
34	TraesCS7A01G510600	chr1A	88.073	109	12	1	4609	4717	313267350	313267457	1.450000e-25	128
35	TraesCS7A01G510600	chr1A	83.333	114	15	3	4608	4721	271618837	271618728	8.760000e-18	102
36	TraesCS7A01G510600	chr2D	85.321	109	14	2	4609	4717	326399722	326399616	1.460000e-20	111
37	TraesCS7A01G510600	chr5A	83.486	109	15	3	4609	4717	340026750	340026645	1.130000e-16	99

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	TraesCS7A01G510600	chr7A	698588151	698593097	4946	False	9099.000000	9099	100.000000	1	4947	1	chr7A.!!$F1	4946
1	TraesCS7A01G510600	chr7D	606339326	606342883	3557	False	4008.000000	4008	87.156000	511	4061	1	chr7D.!!$F2	3550
2	TraesCS7A01G510600	chr7D	606318225	606321504	3279	False	3073.000000	3073	83.718000	760	4061	1	chr7D.!!$F1	3301
3	TraesCS7A01G510600	chr7D	606536518	606539840	3322	False	1791.000000	3173	92.426000	2264	4947	2	chr7D.!!$F4	2683
4	TraesCS7A01G510600	chr7D	606527798	606528453	655	False	739.000000	739	87.253000	511	1159	1	chr7D.!!$F3	648
5	TraesCS7A01G510600	chrUn	83315444	83319301	3857	False	3777.000000	3777	84.473000	747	4609	1	chrUn.!!$F1	3862
6	TraesCS7A01G510600	chrUn	83353903	83355312	1409	False	2604.000000	2604	100.000000	1	1410	1	chrUn.!!$F3	1409
7	TraesCS7A01G510600	chrUn	83338421	83340519	2098	False	1480.500000	1982	91.362000	2330	4746	2	chrUn.!!$F7	2416
8	TraesCS7A01G510600	chrUn	83331636	83333171	1535	False	1170.000000	1170	80.514000	792	2336	1	chrUn.!!$F2	1544
9	TraesCS7A01G510600	chrUn	245474153	245474964	811	True	942.000000	942	87.605000	3783	4609	1	chrUn.!!$R2	826
10	TraesCS7A01G510600	chrUn	273206609	273207419	810	False	931.000000	931	87.349000	3783	4609	1	chrUn.!!$F4	826
11	TraesCS7A01G510600	chrUn	246207658	246208727	1069	True	291.000000	291	72.007000	1589	2657	1	chrUn.!!$R3	1068
12	TraesCS7A01G510600	chr7B	690249894	690259138	9244	False	1415.333333	2531	82.019333	760	4263	3	chr7B.!!$F2	3503
13	TraesCS7A01G510600	chr7B	690416590	690420468	3878	False	1178.000000	2357	86.672333	792	4609	3	chr7B.!!$F4	3817
14	TraesCS7A01G510600	chr7B	690298507	690302922	4415	False	1161.250000	3417	92.779750	1	3766	4	chr7B.!!$F3	3765
15	TraesCS7A01G510600	chr7B	690492301	690493112	811	False	948.000000	948	87.726000	3783	4609	1	chr7B.!!$F1	826
16	TraesCS7A01G510600	chr3A	8038848	8039477	629	False	300.000000	300	75.663000	3207	3836	1	chr3A.!!$F1	629
17	TraesCS7A01G510600	chr3A	8024874	8027109	2235	False	226.000000	298	73.297500	1655	3834	2	chr3A.!!$F2	2179

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
1555	2357	7.280876	TGCAGAAAGACATAACATTGGAGATAC	59.719	37.037	0.00	0.00	0.00	2.24	F
2557	9084	0.967887	TGAGCTTGACCTCTCCGGAG	60.968	60.000	26.32	26.32	39.18	4.63	F
3265	9909	1.135112	GGGGATCACGTGAATTTTGGC	60.135	52.381	24.13	6.01	0.00	4.52	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2700	9236	0.179137	CAGTTCCAGCTCGCGTATCA	60.179	55.0	5.77	0.00	0.00	2.15	R
3361	10008	0.654683	CGTAGATGCTGCAGCTTTCC	59.345	55.0	36.61	22.35	42.66	3.13	R
4100	10847	0.824109	CAGTAGGAGCCGATTGACCA	59.176	55.0	0.00	0.00	0.00	4.02	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
1555	2357	7.280876	TGCAGAAAGACATAACATTGGAGATAC	59.719	37.037	0.00	0.00	0.00	2.24
1562	2364	3.587797	AACATTGGAGATACGTGACGT	57.412	42.857	17.03	17.03	44.35	4.34
1704	2506	3.593442	TGGATTTCAACCAGGTCAAGT	57.407	42.857	0.00	0.00	33.22	3.16
1721	2523	5.239525	GGTCAAGTGATAGGGAAATACATGC	59.760	44.000	0.00	0.00	0.00	4.06
1780	2582	8.044309	TCTTCTTGGAATTTGTAATGTCCGATA	58.956	33.333	0.00	0.00	32.45	2.92
1891	2694	3.512724	ACCTCCTTTCTTGAAATGCCATG	59.487	43.478	0.00	0.00	0.00	3.66
1897	2700	2.378038	TCTTGAAATGCCATGGCCTAC	58.622	47.619	33.44	20.96	41.09	3.18
1951	2754	4.962362	ACAAAACAGGTGAAGGAAAGGATT	59.038	37.500	0.00	0.00	0.00	3.01
1954	2757	6.840780	AAACAGGTGAAGGAAAGGATTATG	57.159	37.500	0.00	0.00	0.00	1.90
1956	2759	3.633986	CAGGTGAAGGAAAGGATTATGCC	59.366	47.826	0.00	0.00	0.00	4.40
1967	2770	1.029681	GATTATGCCGGGTGGGTTTC	58.970	55.000	2.18	0.00	38.44	2.78
2006	2809	1.271656	GTTGGACCTACGCTACACTGT	59.728	52.381	0.00	0.00	0.00	3.55
2035	2838	7.396540	AATGAAATCTTATCGCAGGAAAAGT	57.603	32.000	0.00	0.00	0.00	2.66
2043	2846	3.973206	TCGCAGGAAAAGTTGGATCTA	57.027	42.857	0.00	0.00	0.00	1.98
2064	2867	1.568504	TGGATAACCTCGTGGAGCTT	58.431	50.000	11.17	0.00	37.04	3.74
2096	2899	1.699634	AGTCTGGTGTTGGCAGTACAT	59.300	47.619	0.00	0.00	0.00	2.29
2099	2902	3.684788	GTCTGGTGTTGGCAGTACATAAG	59.315	47.826	0.00	0.00	0.00	1.73
2163	2966	1.375523	CAAGCCTACACGTGGACCC	60.376	63.158	21.57	2.39	0.00	4.46
2202	3005	3.228188	AGCAACTCCTTCATGGACAAA	57.772	42.857	0.00	0.00	40.56	2.83
2251	3054	3.253921	TGGCAACAGTGAGATGAACATTG	59.746	43.478	0.00	0.00	46.17	2.82
2320	3123	4.082081	TGGATGGTTGCAATGAGCTTAAAG	60.082	41.667	0.59	0.00	45.94	1.85
2383	3186	4.467769	CTTCAGCTTTGATGGATATGGGT	58.532	43.478	0.00	0.00	0.00	4.51
2385	3188	3.718434	TCAGCTTTGATGGATATGGGTCT	59.282	43.478	0.00	0.00	0.00	3.85
2387	3190	3.461085	AGCTTTGATGGATATGGGTCTGT	59.539	43.478	0.00	0.00	0.00	3.41
2392	3195	4.047166	TGATGGATATGGGTCTGTTTCCT	58.953	43.478	0.00	0.00	0.00	3.36
2419	3225	2.851195	CACCAACTGTTGAGCTACCTT	58.149	47.619	21.49	0.00	0.00	3.50
2451	3257	1.002659	CGTCCATCTACCCCAACAACA	59.997	52.381	0.00	0.00	0.00	3.33
2523	3329	3.948473	TGGAGAATTTGTTTGTTCGTGGA	59.052	39.130	0.00	0.00	0.00	4.02
2527	3333	5.288804	AGAATTTGTTTGTTCGTGGATTGG	58.711	37.500	0.00	0.00	0.00	3.16
2528	3334	4.927978	ATTTGTTTGTTCGTGGATTGGA	57.072	36.364	0.00	0.00	0.00	3.53
2532	3338	3.634448	TGTTTGTTCGTGGATTGGACAAT	59.366	39.130	0.00	0.00	31.15	2.71
2557	9084	0.967887	TGAGCTTGACCTCTCCGGAG	60.968	60.000	26.32	26.32	39.18	4.63
2575	9102	3.338249	GGAGCTGCAATCAAGACACTTA	58.662	45.455	0.00	0.00	0.00	2.24
2608	9135	7.253905	ACTATGGTGTTAGAAGTACCAATGT	57.746	36.000	0.00	0.00	46.56	2.71
2665	9192	1.202568	GGGCAATAATTTGGAGCAGCC	60.203	52.381	0.00	0.00	40.08	4.85
2700	9236	6.369615	GCTTCAAGTTGGAATTGTTATGCATT	59.630	34.615	3.54	0.00	0.00	3.56
2725	9261	2.032681	GAGCTGGAACTGGCCGTT	59.967	61.111	11.90	11.90	38.91	4.44
2806	9342	3.571119	CAAGGCTTGCTCGGTCAG	58.429	61.111	15.25	0.00	0.00	3.51
2894	9438	3.379688	TCTGCTGTGTATAGTGAGCTGAG	59.620	47.826	0.00	0.00	35.31	3.35
2909	9453	4.067896	GAGCTGAGTCAATCCAAAGTGAA	58.932	43.478	0.00	0.00	30.07	3.18
3126	9770	4.641989	GGATATGTGATGACAAGGTTTGCT	59.358	41.667	0.00	0.00	35.11	3.91
3129	9773	3.489355	TGTGATGACAAGGTTTGCTGAT	58.511	40.909	0.00	0.00	0.00	2.90
3184	9828	2.862674	TTTGCCGACGGGATACAGCC	62.863	60.000	17.22	0.00	39.74	4.85
3185	9829	4.603946	GCCGACGGGATACAGCCC	62.604	72.222	17.22	0.00	45.10	5.19
3262	9906	2.356135	CGAGGGGATCACGTGAATTTT	58.644	47.619	24.13	5.57	0.00	1.82
3265	9909	1.135112	GGGGATCACGTGAATTTTGGC	60.135	52.381	24.13	6.01	0.00	4.52
3361	10008	2.159572	GGGTTCAATGATGGTTCGTTCG	60.160	50.000	0.00	0.00	0.00	3.95
3428	10075	2.358737	GCTCCCTGTGTGGTTCCG	60.359	66.667	0.00	0.00	0.00	4.30
3513	10163	6.750775	GTGCTAGACGAGAAATATTGGTAC	57.249	41.667	0.00	0.00	0.00	3.34
3515	10165	5.221382	TGCTAGACGAGAAATATTGGTACCC	60.221	44.000	10.07	0.00	0.00	3.69
3518	10168	4.960469	AGACGAGAAATATTGGTACCCAGA	59.040	41.667	10.07	0.00	33.81	3.86
3519	10169	5.602978	AGACGAGAAATATTGGTACCCAGAT	59.397	40.000	10.07	0.00	33.81	2.90
3521	10171	7.455008	AGACGAGAAATATTGGTACCCAGATAT	59.545	37.037	10.07	7.93	33.81	1.63
3636	10317	5.954150	ACCAAAGCTCAATACCATCAAGATT	59.046	36.000	0.00	0.00	0.00	2.40
3733	10414	0.882474	CGAGAAAGACGTCTGGGACT	59.118	55.000	20.85	15.24	0.00	3.85
3813	10494	4.315803	GCTACTACAAGAAGAAACTGCCA	58.684	43.478	0.00	0.00	0.00	4.92
3859	10540	6.166279	TCTCTCTGACATGTAACAAATCCAC	58.834	40.000	0.00	0.00	0.00	4.02
4019	10744	4.742201	GGACGCTCGCTCCTGCAA	62.742	66.667	0.00	0.00	39.64	4.08
4100	10847	1.302511	GCTGGTGGTGTCGGTCATT	60.303	57.895	0.00	0.00	0.00	2.57
4105	10852	0.250124	GTGGTGTCGGTCATTGGTCA	60.250	55.000	0.00	0.00	0.00	4.02
4336	11293	4.450122	GTGTGCCTGCGTGCATCG	62.450	66.667	3.11	0.00	44.30	3.84
4338	11295	3.197790	GTGCCTGCGTGCATCGAT	61.198	61.111	11.94	0.00	44.30	3.59
4434	11427	2.364324	TGGACCTGCTATTATCCGTGTC	59.636	50.000	0.00	0.00	33.63	3.67
4435	11428	2.628657	GGACCTGCTATTATCCGTGTCT	59.371	50.000	0.00	0.00	0.00	3.41
4436	11429	3.553096	GGACCTGCTATTATCCGTGTCTG	60.553	52.174	0.00	0.00	0.00	3.51
4443	11440	5.221441	TGCTATTATCCGTGTCTGTTATGCT	60.221	40.000	0.00	0.00	0.00	3.79
4666	11692	6.018098	TGTTATGCATTCAAAACAGGCAAAAG	60.018	34.615	3.54	0.00	38.08	2.27
4810	12503	4.069304	GGTGTGTAAACTATGCAGAACCA	58.931	43.478	0.00	0.00	33.93	3.67
4823	12516	4.207165	TGCAGAACCAATAAGATTAGCCC	58.793	43.478	0.00	0.00	0.00	5.19
4862	12555	3.327404	TTGGTTCTCCCCGAGCCC	61.327	66.667	0.00	0.00	41.94	5.19

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1555	2357	2.927618	CTCGGTGCAACACGTCACG	61.928	63.158	0.98	0.00	39.98	4.35
1562	2364	1.550524	AGCTTATCTCTCGGTGCAACA	59.449	47.619	0.98	0.00	39.98	3.33
1704	2506	9.453572	GATTTCATAGCATGTATTTCCCTATCA	57.546	33.333	0.00	0.00	0.00	2.15
1721	2523	9.829507	ATGTCTCTTCAGGTAAAGATTTCATAG	57.170	33.333	0.00	0.00	34.85	2.23
1780	2582	3.434167	CCATCTGGTAATGCTACTGGCTT	60.434	47.826	0.00	0.00	42.39	4.35
1891	2694	1.526225	GCCCAAGGAATCGTAGGCC	60.526	63.158	0.00	0.00	34.23	5.19
1897	2700	0.322456	TTGTCCAGCCCAAGGAATCG	60.322	55.000	0.00	0.00	36.80	3.34
1951	2754	0.912487	AGAGAAACCCACCCGGCATA	60.912	55.000	0.00	0.00	33.26	3.14
1954	2757	2.359975	CAGAGAAACCCACCCGGC	60.360	66.667	0.00	0.00	33.26	6.13
1956	2759	0.251916	TATGCAGAGAAACCCACCCG	59.748	55.000	0.00	0.00	0.00	5.28
1967	2770	1.339438	ACACCCACAAGCTATGCAGAG	60.339	52.381	3.34	3.34	0.00	3.35
2006	2809	4.576053	CCTGCGATAAGATTTCATTCCACA	59.424	41.667	0.00	0.00	0.00	4.17
2035	2838	5.221641	CCACGAGGTTATCCATTAGATCCAA	60.222	44.000	0.00	0.00	36.33	3.53
2043	2846	2.119495	AGCTCCACGAGGTTATCCATT	58.881	47.619	0.00	0.00	37.04	3.16
2064	2867	0.339859	ACCAGACTCCCTCCATGCTA	59.660	55.000	0.00	0.00	0.00	3.49
2096	2899	1.816074	CCGGCCTTGTAAGCAACTTA	58.184	50.000	0.00	0.00	0.00	2.24
2099	2902	0.675522	TAGCCGGCCTTGTAAGCAAC	60.676	55.000	26.15	0.00	0.00	4.17
2163	2966	5.739752	TGCTTGGATCTGTTGAAATATCG	57.260	39.130	0.00	0.00	0.00	2.92
2202	3005	5.645497	CAGGTCAAGTATTTCTAGCTTTGCT	59.355	40.000	0.00	0.00	43.41	3.91
2247	3050	6.260936	CCTTAGATAGGCTGTTTGGTACAATG	59.739	42.308	0.00	0.00	40.00	2.82
2283	3086	3.535561	ACCATCCAGAATAAGCACTTCG	58.464	45.455	0.00	0.00	0.00	3.79
2284	3087	4.439289	GCAACCATCCAGAATAAGCACTTC	60.439	45.833	0.00	0.00	0.00	3.01
2383	3186	3.565214	TGCCCGGCAGGAAACAGA	61.565	61.111	8.43	0.00	41.02	3.41
2385	3188	4.966787	GGTGCCCGGCAGGAAACA	62.967	66.667	13.92	0.00	40.08	2.83
2387	3190	4.211330	TTGGTGCCCGGCAGGAAA	62.211	61.111	13.92	4.74	40.08	3.13
2392	3195	4.514585	AACAGTTGGTGCCCGGCA	62.515	61.111	8.43	8.43	35.60	5.69
2419	3225	3.380479	AGATGGACGTTCTTGTTTCGA	57.620	42.857	0.00	0.00	0.00	3.71
2451	3257	1.840635	GAGATACTGGCACCCTCCTTT	59.159	52.381	0.00	0.00	0.00	3.11
2523	3329	3.340814	AGCTCAACGAGATTGTCCAAT	57.659	42.857	0.00	0.00	39.54	3.16
2532	3338	1.542030	GAGAGGTCAAGCTCAACGAGA	59.458	52.381	11.45	0.00	0.00	4.04
2557	9084	6.151691	TGAAATTAAGTGTCTTGATTGCAGC	58.848	36.000	4.32	0.00	0.00	5.25
2601	9128	6.324819	CAGAAATAATCGCTTCAACATTGGT	58.675	36.000	0.00	0.00	0.00	3.67
2608	9135	5.670485	TCCTAGCAGAAATAATCGCTTCAA	58.330	37.500	0.00	0.00	38.35	2.69
2665	9192	7.856145	ATTCCAACTTGAAGCTATCAGTAAG	57.144	36.000	0.00	0.00	39.77	2.34
2700	9236	0.179137	CAGTTCCAGCTCGCGTATCA	60.179	55.000	5.77	0.00	0.00	2.15
2725	9261	1.451927	GGTCAATGCATGGCCGAGA	60.452	57.895	0.00	0.00	45.62	4.04
2874	9415	3.092301	ACTCAGCTCACTATACACAGCA	58.908	45.455	0.00	0.00	34.08	4.41
2894	9438	6.805713	TCCTTTTCTTTCACTTTGGATTGAC	58.194	36.000	0.00	0.00	0.00	3.18
2909	9453	7.723172	ACATGTCAATCTTCTTCTCCTTTTCTT	59.277	33.333	0.00	0.00	0.00	2.52
3126	9770	0.392863	CGTGGACATGCAGGGAATCA	60.393	55.000	2.31	0.00	0.00	2.57
3129	9773	0.392863	CATCGTGGACATGCAGGGAA	60.393	55.000	2.31	0.00	0.00	3.97
3184	9828	1.377725	ATTGCCTGAGAACCTGCGG	60.378	57.895	0.00	0.00	0.00	5.69
3185	9829	1.798735	CATTGCCTGAGAACCTGCG	59.201	57.895	0.00	0.00	0.00	5.18
3201	9845	2.191375	CACCTCTCCATGCGGCAT	59.809	61.111	10.23	10.23	0.00	4.40
3253	9897	0.597568	TCCAGCTGCCAAAATTCACG	59.402	50.000	8.66	0.00	0.00	4.35
3262	9906	0.538057	CAAAAGGTCTCCAGCTGCCA	60.538	55.000	8.66	0.00	0.00	4.92
3265	9909	1.246737	GCCCAAAAGGTCTCCAGCTG	61.247	60.000	6.78	6.78	38.26	4.24
3333	9977	2.040545	ACCATCATTGAACCCGTGGTAA	59.959	45.455	7.03	0.00	38.13	2.85
3337	9981	1.130373	CGAACCATCATTGAACCCGTG	59.870	52.381	0.00	0.00	0.00	4.94
3339	9983	1.448985	ACGAACCATCATTGAACCCG	58.551	50.000	0.00	0.00	0.00	5.28
3340	9984	2.159572	CGAACGAACCATCATTGAACCC	60.160	50.000	0.00	0.00	0.00	4.11
3341	9985	2.159572	CCGAACGAACCATCATTGAACC	60.160	50.000	0.00	0.00	0.00	3.62
3342	9986	2.739913	TCCGAACGAACCATCATTGAAC	59.260	45.455	0.00	0.00	0.00	3.18
3361	10008	0.654683	CGTAGATGCTGCAGCTTTCC	59.345	55.000	36.61	22.35	42.66	3.13
3510	10160	5.930135	ACAACTTGGATGATATCTGGGTAC	58.070	41.667	3.98	0.00	0.00	3.34
3513	10163	4.999950	GCTACAACTTGGATGATATCTGGG	59.000	45.833	3.98	0.00	0.00	4.45
3515	10165	7.094890	GGAATGCTACAACTTGGATGATATCTG	60.095	40.741	3.98	0.00	0.00	2.90
3518	10168	6.006449	GGGAATGCTACAACTTGGATGATAT	58.994	40.000	0.00	0.00	0.00	1.63
3519	10169	5.104151	TGGGAATGCTACAACTTGGATGATA	60.104	40.000	0.00	0.00	0.00	2.15
3521	10171	3.010027	TGGGAATGCTACAACTTGGATGA	59.990	43.478	0.00	0.00	0.00	2.92
3636	10317	1.767672	CAGGCCCCAGCATCCTCTA	60.768	63.158	0.00	0.00	42.56	2.43
3733	10414	1.000771	CCTCGTCCCACTCCAGAGA	60.001	63.158	0.70	0.00	0.00	3.10
3813	10494	2.286523	CCTGAGCACGGAGACCCTT	61.287	63.158	0.00	0.00	0.00	3.95
3859	10540	9.722056	GAGTATGATATTGGCAGTTTACAAAAG	57.278	33.333	0.00	0.00	0.00	2.27
4100	10847	0.824109	CAGTAGGAGCCGATTGACCA	59.176	55.000	0.00	0.00	0.00	4.02
4105	10852	1.683917	CAGTAGCAGTAGGAGCCGATT	59.316	52.381	0.00	0.00	0.00	3.34
4336	11293	4.052518	ACACCAGGCAGCCCCATC	62.053	66.667	8.22	0.00	35.39	3.51
4434	11427	7.144722	TCTGTTTATTCCACAAGCATAACAG	57.855	36.000	0.00	0.00	0.00	3.16
4435	11428	7.701539	ATCTGTTTATTCCACAAGCATAACA	57.298	32.000	0.00	0.00	0.00	2.41
4436	11429	8.028938	ACAATCTGTTTATTCCACAAGCATAAC	58.971	33.333	0.00	0.00	0.00	1.89
4641	11667	4.597404	TGCCTGTTTTGAATGCATAACA	57.403	36.364	9.12	9.12	41.52	2.41
4666	11692	4.899239	CTCCGGTCATCCAGGCGC	62.899	72.222	0.00	0.00	0.00	6.53
4810	12503	9.780186	GTACTAGTGAATTGGGCTAATCTTATT	57.220	33.333	5.39	0.00	0.00	1.40
4823	12516	5.422214	ACCAGGGAAGTACTAGTGAATTG	57.578	43.478	5.39	0.00	0.00	2.32
4870	12563	1.500108	CCGATCTCATCAAGCTCTGC	58.500	55.000	0.00	0.00	0.00	4.26

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.