AutoCloner

Multiple sequence alignment - TraesCS3B01G065700

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	TraesCS3B01G065700	chr3B	100.000	3471	0	0	1	3471	39361826	39358356	0.000000e+00	6410.0
1	TraesCS3B01G065700	chr3B	99.585	3130	13	0	1	3130	39387396	39384267	0.000000e+00	5709.0
2	TraesCS3B01G065700	chr3B	100.000	207	0	0	3265	3471	39384268	39384062	1.950000e-102	383.0
3	TraesCS3B01G065700	chr6B	88.575	814	57	19	1	779	77711991	77712803	0.000000e+00	955.0
4	TraesCS3B01G065700	chr6B	90.055	181	16	2	601	780	155230354	155230175	2.080000e-57	233.0
5	TraesCS3B01G065700	chr6B	85.714	98	7	5	2881	2972	520230435	520230339	2.850000e-16	97.1
6	TraesCS3B01G065700	chr3D	88.221	815	55	23	1	780	583226583	583227391	0.000000e+00	935.0
7	TraesCS3B01G065700	chr3D	78.210	1207	222	25	1308	2484	569900467	569901662	0.000000e+00	734.0
8	TraesCS3B01G065700	chr3D	91.250	80	6	1	2881	2960	16318168	16318246	1.320000e-19	108.0
9	TraesCS3B01G065700	chr5B	87.485	823	63	23	1	784	35615221	35616042	0.000000e+00	913.0
10	TraesCS3B01G065700	chr5B	79.612	309	61	2	1311	1618	338481528	338481835	1.620000e-53	220.0
11	TraesCS3B01G065700	chr5B	88.506	87	7	1	2881	2964	51843381	51843295	6.130000e-18	102.0
12	TraesCS3B01G065700	chr7B	87.135	754	58	28	1	717	673977487	673976736	0.000000e+00	819.0
13	TraesCS3B01G065700	chr7B	91.413	559	41	5	1	557	418188404	418187851	0.000000e+00	760.0
14	TraesCS3B01G065700	chr7B	89.535	86	8	1	1227	1312	113163410	113163326	1.320000e-19	108.0
15	TraesCS3B01G065700	chr2A	92.000	575	39	5	1	568	738783785	738784359	0.000000e+00	800.0
16	TraesCS3B01G065700	chr2A	90.244	82	7	1	2881	2961	166854949	166854868	4.740000e-19	106.0
17	TraesCS3B01G065700	chr1B	92.661	545	35	4	1	540	610350505	610351049	0.000000e+00	780.0
18	TraesCS3B01G065700	chr1B	90.244	82	5	1	2881	2962	654631584	654631662	1.700000e-18	104.0
19	TraesCS3B01G065700	chr2B	90.941	574	46	5	1	568	105802567	105801994	0.000000e+00	767.0
20	TraesCS3B01G065700	chr2B	90.135	223	22	0	558	780	36598980	36599202	1.220000e-74	291.0
21	TraesCS3B01G065700	chrUn	77.354	1179	211	33	1431	2571	341148674	341147514	0.000000e+00	647.0
22	TraesCS3B01G065700	chrUn	77.026	1197	219	30	1413	2571	287225073	287226251	1.360000e-178	636.0
23	TraesCS3B01G065700	chrUn	77.026	1197	219	30	1413	2571	287476971	287478149	1.360000e-178	636.0
24	TraesCS3B01G065700	chrUn	77.184	1179	213	31	1431	2571	323542264	323541104	1.360000e-178	636.0
25	TraesCS3B01G065700	chr3A	76.793	1241	230	38	1303	2508	702553974	702555191	0.000000e+00	643.0
26	TraesCS3B01G065700	chr7D	86.096	561	45	22	251	783	54604366	54604921	1.080000e-159	573.0
27	TraesCS3B01G065700	chr5A	74.802	1139	236	26	1306	2402	401317398	401316269	1.890000e-127	466.0
28	TraesCS3B01G065700	chr4A	82.353	442	55	17	359	780	693854950	693854512	2.550000e-96	363.0
29	TraesCS3B01G065700	chr4A	91.667	84	4	2	2881	2961	589013123	589013040	2.830000e-21	113.0
30	TraesCS3B01G065700	chr1D	92.574	202	15	0	579	780	222730409	222730610	1.220000e-74	291.0
31	TraesCS3B01G065700	chr1D	93.631	157	10	0	637	793	435308285	435308129	5.790000e-58	235.0
32	TraesCS3B01G065700	chr7A	93.103	87	6	0	1227	1313	33885815	33885901	1.010000e-25	128.0
33	TraesCS3B01G065700	chr6A	92.941	85	5	1	1227	1310	356112251	356112335	4.700000e-24	122.0
34	TraesCS3B01G065700	chr4D	92.593	81	6	0	1227	1307	467755873	467755793	2.190000e-22	117.0
35	TraesCS3B01G065700	chr4D	91.463	82	7	0	1226	1307	67330994	67330913	2.830000e-21	113.0
36	TraesCS3B01G065700	chr4B	91.667	84	5	1	2881	2964	28406934	28406853	7.870000e-22	115.0
37	TraesCS3B01G065700	chr6D	90.805	87	2	3	2881	2962	470575009	470575094	1.020000e-20	111.0
38	TraesCS3B01G065700	chr6D	90.361	83	8	0	1227	1309	190909354	190909272	3.660000e-20	110.0
39	TraesCS3B01G065700	chr1A	90.361	83	8	0	1227	1309	382550694	382550776	3.660000e-20	110.0
40	TraesCS3B01G065700	chr1A	86.139	101	10	4	1217	1315	436259742	436259644	4.740000e-19	106.0

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	TraesCS3B01G065700	chr3B	39358356	39361826	3470	True	6410	6410	100.0000	1	3471	1	chr3B.!!$R1	3470
1	TraesCS3B01G065700	chr3B	39384062	39387396	3334	True	3046	5709	99.7925	1	3471	2	chr3B.!!$R2	3470
2	TraesCS3B01G065700	chr6B	77711991	77712803	812	False	955	955	88.5750	1	779	1	chr6B.!!$F1	778
3	TraesCS3B01G065700	chr3D	583226583	583227391	808	False	935	935	88.2210	1	780	1	chr3D.!!$F3	779
4	TraesCS3B01G065700	chr3D	569900467	569901662	1195	False	734	734	78.2100	1308	2484	1	chr3D.!!$F2	1176
5	TraesCS3B01G065700	chr5B	35615221	35616042	821	False	913	913	87.4850	1	784	1	chr5B.!!$F1	783
6	TraesCS3B01G065700	chr7B	673976736	673977487	751	True	819	819	87.1350	1	717	1	chr7B.!!$R3	716
7	TraesCS3B01G065700	chr7B	418187851	418188404	553	True	760	760	91.4130	1	557	1	chr7B.!!$R2	556
8	TraesCS3B01G065700	chr2A	738783785	738784359	574	False	800	800	92.0000	1	568	1	chr2A.!!$F1	567
9	TraesCS3B01G065700	chr1B	610350505	610351049	544	False	780	780	92.6610	1	540	1	chr1B.!!$F1	539
10	TraesCS3B01G065700	chr2B	105801994	105802567	573	True	767	767	90.9410	1	568	1	chr2B.!!$R1	567
11	TraesCS3B01G065700	chrUn	341147514	341148674	1160	True	647	647	77.3540	1431	2571	1	chrUn.!!$R2	1140
12	TraesCS3B01G065700	chrUn	287225073	287226251	1178	False	636	636	77.0260	1413	2571	1	chrUn.!!$F1	1158
13	TraesCS3B01G065700	chrUn	287476971	287478149	1178	False	636	636	77.0260	1413	2571	1	chrUn.!!$F2	1158
14	TraesCS3B01G065700	chrUn	323541104	323542264	1160	True	636	636	77.1840	1431	2571	1	chrUn.!!$R1	1140
15	TraesCS3B01G065700	chr3A	702553974	702555191	1217	False	643	643	76.7930	1303	2508	1	chr3A.!!$F1	1205
16	TraesCS3B01G065700	chr7D	54604366	54604921	555	False	573	573	86.0960	251	783	1	chr7D.!!$F1	532
17	TraesCS3B01G065700	chr5A	401316269	401317398	1129	True	466	466	74.8020	1306	2402	1	chr5A.!!$R1	1096

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
1552	1603	3.550639	CGTCACCGGAACTACTTGTGTTA	60.551	47.826	9.46	0.0	0.0	2.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
3172	3274	0.038892	TAACGGAACTCTGCGACACC	60.039	55.0	0.0	0.0	38.98	4.16	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
1552	1603	3.550639	CGTCACCGGAACTACTTGTGTTA	60.551	47.826	9.46	0.00	0.00	2.41
2130	2223	8.909923	TGACTATTTGATCTTTCCGTATGACTA	58.090	33.333	0.00	0.00	0.00	2.59
2343	2436	2.376956	CGTGTTCGAGCAGATACTAGC	58.623	52.381	0.73	0.00	39.71	3.42
3000	3102	4.093998	AGCTTAGTCGTTGCATGATTTCTG	59.906	41.667	0.00	0.00	0.00	3.02
3130	3232	1.274167	TCTAACCATCTCAACCGCGTT	59.726	47.619	4.92	0.00	0.00	4.84
3131	3233	1.659098	CTAACCATCTCAACCGCGTTC	59.341	52.381	4.92	0.00	0.00	3.95
3132	3234	0.250124	AACCATCTCAACCGCGTTCA	60.250	50.000	4.92	0.00	0.00	3.18
3133	3235	0.036388	ACCATCTCAACCGCGTTCAT	60.036	50.000	4.92	0.00	0.00	2.57
3134	3236	0.374758	CCATCTCAACCGCGTTCATG	59.625	55.000	4.92	0.00	0.00	3.07
3135	3237	0.374758	CATCTCAACCGCGTTCATGG	59.625	55.000	4.92	0.00	0.00	3.66
3136	3238	0.249120	ATCTCAACCGCGTTCATGGA	59.751	50.000	4.92	0.00	0.00	3.41
3137	3239	0.249120	TCTCAACCGCGTTCATGGAT	59.751	50.000	4.92	0.00	0.00	3.41
3138	3240	0.374758	CTCAACCGCGTTCATGGATG	59.625	55.000	4.92	0.00	0.00	3.51
3139	3241	1.226379	CAACCGCGTTCATGGATGC	60.226	57.895	8.26	8.26	0.00	3.91
3140	3242	1.673993	AACCGCGTTCATGGATGCA	60.674	52.632	18.35	0.00	0.00	3.96
3141	3243	1.647545	AACCGCGTTCATGGATGCAG	61.648	55.000	18.35	9.45	0.00	4.41
3142	3244	2.711311	CGCGTTCATGGATGCAGG	59.289	61.111	18.35	0.00	0.00	4.85
3143	3245	2.410469	GCGTTCATGGATGCAGGC	59.590	61.111	13.64	0.00	0.00	4.85
3144	3246	2.409055	GCGTTCATGGATGCAGGCA	61.409	57.895	13.64	0.00	35.47	4.75
3145	3247	1.936436	GCGTTCATGGATGCAGGCAA	61.936	55.000	13.64	0.00	35.47	4.52
3146	3248	0.099968	CGTTCATGGATGCAGGCAAG	59.900	55.000	0.00	0.00	0.00	4.01
3147	3249	0.458669	GTTCATGGATGCAGGCAAGG	59.541	55.000	0.00	0.00	0.00	3.61
3148	3250	0.332293	TTCATGGATGCAGGCAAGGA	59.668	50.000	0.00	0.00	0.00	3.36
3149	3251	0.394762	TCATGGATGCAGGCAAGGAC	60.395	55.000	0.00	0.00	0.00	3.85
3150	3252	1.452651	ATGGATGCAGGCAAGGACG	60.453	57.895	0.00	0.00	0.00	4.79
3151	3253	2.825836	GGATGCAGGCAAGGACGG	60.826	66.667	0.00	0.00	0.00	4.79
3152	3254	3.512516	GATGCAGGCAAGGACGGC	61.513	66.667	0.00	0.00	0.00	5.68
3166	3268	3.395669	CGGCGACCGGAAATTCTC	58.604	61.111	9.46	0.00	44.15	2.87
3167	3269	2.514013	CGGCGACCGGAAATTCTCG	61.514	63.158	9.46	7.06	44.15	4.04
3168	3270	2.701606	GCGACCGGAAATTCTCGC	59.298	61.111	17.44	17.44	44.11	5.03
3169	3271	2.995482	CGACCGGAAATTCTCGCG	59.005	61.111	9.46	0.00	0.00	5.87
3170	3272	2.701606	GACCGGAAATTCTCGCGC	59.298	61.111	9.46	0.00	0.00	6.86
3171	3273	2.047655	ACCGGAAATTCTCGCGCA	60.048	55.556	9.46	0.00	0.00	6.09
3172	3274	2.025359	GACCGGAAATTCTCGCGCAG	62.025	60.000	9.46	4.17	0.00	5.18
3173	3275	2.703409	CGGAAATTCTCGCGCAGG	59.297	61.111	8.75	0.00	0.00	4.85
3174	3276	2.100631	CGGAAATTCTCGCGCAGGT	61.101	57.895	8.75	0.00	0.00	4.00
3175	3277	1.425428	GGAAATTCTCGCGCAGGTG	59.575	57.895	8.75	0.00	0.00	4.00
3176	3278	1.298859	GGAAATTCTCGCGCAGGTGT	61.299	55.000	8.75	0.00	0.00	4.16
3177	3279	0.095417	GAAATTCTCGCGCAGGTGTC	59.905	55.000	8.75	0.00	0.00	3.67
3178	3280	1.626654	AAATTCTCGCGCAGGTGTCG	61.627	55.000	8.75	0.00	0.00	4.35
3185	3287	2.356313	CGCAGGTGTCGCAGAGTT	60.356	61.111	0.00	0.00	36.95	3.01
3186	3288	2.375766	CGCAGGTGTCGCAGAGTTC	61.376	63.158	0.00	0.00	36.95	3.01
3187	3289	2.029844	GCAGGTGTCGCAGAGTTCC	61.030	63.158	0.00	0.00	36.95	3.62
3188	3290	1.734477	CAGGTGTCGCAGAGTTCCG	60.734	63.158	0.00	0.00	36.95	4.30
3189	3291	2.201022	AGGTGTCGCAGAGTTCCGT	61.201	57.895	0.00	0.00	36.95	4.69
3190	3292	1.300697	GGTGTCGCAGAGTTCCGTT	60.301	57.895	0.00	0.00	36.95	4.44
3191	3293	0.038892	GGTGTCGCAGAGTTCCGTTA	60.039	55.000	0.00	0.00	36.95	3.18
3192	3294	1.603678	GGTGTCGCAGAGTTCCGTTAA	60.604	52.381	0.00	0.00	36.95	2.01
3193	3295	1.454653	GTGTCGCAGAGTTCCGTTAAC	59.545	52.381	0.00	0.00	36.95	2.01
3202	3304	3.049708	AGTTCCGTTAACTTAGGCACC	57.950	47.619	3.71	0.00	46.61	5.01
3203	3305	2.369532	AGTTCCGTTAACTTAGGCACCA	59.630	45.455	3.71	0.00	46.61	4.17
3204	3306	3.140623	GTTCCGTTAACTTAGGCACCAA	58.859	45.455	3.71	0.00	35.05	3.67
3205	3307	3.488778	TCCGTTAACTTAGGCACCAAA	57.511	42.857	3.71	0.00	0.00	3.28
3206	3308	3.140623	TCCGTTAACTTAGGCACCAAAC	58.859	45.455	3.71	0.00	0.00	2.93
3207	3309	2.879646	CCGTTAACTTAGGCACCAAACA	59.120	45.455	3.71	0.00	0.00	2.83
3208	3310	3.504520	CCGTTAACTTAGGCACCAAACAT	59.495	43.478	3.71	0.00	0.00	2.71
3209	3311	4.472286	CGTTAACTTAGGCACCAAACATG	58.528	43.478	3.71	0.00	0.00	3.21
3210	3312	4.234574	GTTAACTTAGGCACCAAACATGC	58.765	43.478	0.00	0.00	42.62	4.06
3211	3313	1.993956	ACTTAGGCACCAAACATGCA	58.006	45.000	0.00	0.00	45.27	3.96
3212	3314	2.315176	ACTTAGGCACCAAACATGCAA	58.685	42.857	0.00	0.00	45.27	4.08
3213	3315	2.297033	ACTTAGGCACCAAACATGCAAG	59.703	45.455	0.00	0.00	45.27	4.01
3214	3316	2.284754	TAGGCACCAAACATGCAAGA	57.715	45.000	0.00	0.00	45.27	3.02
3215	3317	0.675633	AGGCACCAAACATGCAAGAC	59.324	50.000	0.00	0.00	45.27	3.01
3216	3318	0.388659	GGCACCAAACATGCAAGACA	59.611	50.000	0.00	0.00	45.27	3.41
3217	3319	1.001181	GGCACCAAACATGCAAGACAT	59.999	47.619	0.00	0.00	45.27	3.06
3228	3330	3.465990	CAAGACATGCCCATCGTCT	57.534	52.632	0.00	7.22	41.70	4.18
3229	3331	1.012086	CAAGACATGCCCATCGTCTG	58.988	55.000	11.41	5.68	39.86	3.51
3230	3332	0.904649	AAGACATGCCCATCGTCTGA	59.095	50.000	11.41	0.00	39.86	3.27
3231	3333	1.126488	AGACATGCCCATCGTCTGAT	58.874	50.000	10.46	0.00	38.55	2.90
3232	3334	1.487976	AGACATGCCCATCGTCTGATT	59.512	47.619	10.46	0.00	38.55	2.57
3233	3335	1.600957	GACATGCCCATCGTCTGATTG	59.399	52.381	0.00	0.00	30.49	2.67
3234	3336	1.210234	ACATGCCCATCGTCTGATTGA	59.790	47.619	0.00	0.00	30.49	2.57
3235	3337	2.158711	ACATGCCCATCGTCTGATTGAT	60.159	45.455	0.00	0.00	30.49	2.57
3236	3338	2.715749	TGCCCATCGTCTGATTGATT	57.284	45.000	0.00	0.00	30.49	2.57
3237	3339	2.564771	TGCCCATCGTCTGATTGATTC	58.435	47.619	0.00	0.00	30.49	2.52
3238	3340	2.171237	TGCCCATCGTCTGATTGATTCT	59.829	45.455	0.00	0.00	30.49	2.40
3239	3341	3.209410	GCCCATCGTCTGATTGATTCTT	58.791	45.455	0.00	0.00	30.49	2.52
3240	3342	3.003068	GCCCATCGTCTGATTGATTCTTG	59.997	47.826	0.00	0.00	30.49	3.02
3241	3343	4.194640	CCCATCGTCTGATTGATTCTTGT	58.805	43.478	0.00	0.00	30.49	3.16
3242	3344	4.034858	CCCATCGTCTGATTGATTCTTGTG	59.965	45.833	0.00	0.00	30.49	3.33
3243	3345	4.034858	CCATCGTCTGATTGATTCTTGTGG	59.965	45.833	0.00	0.00	30.49	4.17
3244	3346	3.599343	TCGTCTGATTGATTCTTGTGGG	58.401	45.455	0.00	0.00	0.00	4.61
3245	3347	2.679837	CGTCTGATTGATTCTTGTGGGG	59.320	50.000	0.00	0.00	0.00	4.96
3246	3348	3.619733	CGTCTGATTGATTCTTGTGGGGA	60.620	47.826	0.00	0.00	0.00	4.81
3247	3349	4.530875	GTCTGATTGATTCTTGTGGGGAT	58.469	43.478	0.00	0.00	0.00	3.85
3248	3350	4.952335	GTCTGATTGATTCTTGTGGGGATT	59.048	41.667	0.00	0.00	0.00	3.01
3249	3351	5.067023	GTCTGATTGATTCTTGTGGGGATTC	59.933	44.000	0.00	0.00	0.00	2.52
3250	3352	4.933134	TGATTGATTCTTGTGGGGATTCA	58.067	39.130	0.00	0.00	0.00	2.57
3251	3353	5.521696	TGATTGATTCTTGTGGGGATTCAT	58.478	37.500	0.00	0.00	0.00	2.57
3252	3354	5.595542	TGATTGATTCTTGTGGGGATTCATC	59.404	40.000	0.00	0.00	0.00	2.92
3253	3355	4.868172	TGATTCTTGTGGGGATTCATCT	57.132	40.909	0.00	0.00	0.00	2.90
3254	3356	5.974156	TGATTCTTGTGGGGATTCATCTA	57.026	39.130	0.00	0.00	0.00	1.98
3255	3357	6.520021	TGATTCTTGTGGGGATTCATCTAT	57.480	37.500	0.00	0.00	0.00	1.98
3256	3358	6.914665	TGATTCTTGTGGGGATTCATCTATT	58.085	36.000	0.00	0.00	0.00	1.73
3257	3359	6.774170	TGATTCTTGTGGGGATTCATCTATTG	59.226	38.462	0.00	0.00	0.00	1.90
3258	3360	5.974156	TCTTGTGGGGATTCATCTATTGA	57.026	39.130	0.00	0.00	0.00	2.57
3259	3361	6.520021	TCTTGTGGGGATTCATCTATTGAT	57.480	37.500	0.00	0.00	33.34	2.57
3260	3362	6.914665	TCTTGTGGGGATTCATCTATTGATT	58.085	36.000	0.00	0.00	33.34	2.57
3261	3363	7.000472	TCTTGTGGGGATTCATCTATTGATTC	59.000	38.462	0.00	0.00	35.09	2.52
3262	3364	5.308014	TGTGGGGATTCATCTATTGATTCG	58.692	41.667	0.00	0.00	36.17	3.34
3263	3365	5.163205	TGTGGGGATTCATCTATTGATTCGT	60.163	40.000	0.00	0.00	36.17	3.85
3264	3366	5.180117	GTGGGGATTCATCTATTGATTCGTG	59.820	44.000	0.00	0.00	36.17	4.35
3265	3367	5.163205	TGGGGATTCATCTATTGATTCGTGT	60.163	40.000	0.00	0.00	36.17	4.49

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
76	77	2.050350	GGGACGGTCTCGGTGATGA	61.050	63.158	8.23	0.00	41.39	2.92
156	158	4.438608	CCGGATCTGATGCAAATTTTTCGA	60.439	41.667	9.85	0.00	0.00	3.71
258	264	1.489560	CCGGTGGACCCCTTCTCTTT	61.490	60.000	0.00	0.00	0.00	2.52
1552	1603	4.042062	TCATTGTCAGGAAGGTCATTGAGT	59.958	41.667	0.00	0.00	0.00	3.41
2130	2223	7.235812	ACTTCTCTTTGTCTATTACTCCCTGTT	59.764	37.037	0.00	0.00	0.00	3.16
2343	2436	2.140065	TAGATCTCCGAAATGCTGCG	57.860	50.000	0.00	0.00	0.00	5.18
2932	3034	3.933332	CTCCGTCCCAAAATAAGTGTCTC	59.067	47.826	0.00	0.00	0.00	3.36
3000	3102	4.312443	TGGATACGTCTTGTTCTTTGGAC	58.688	43.478	0.00	0.00	42.51	4.02
3130	3232	0.394762	GTCCTTGCCTGCATCCATGA	60.395	55.000	0.00	0.00	0.00	3.07
3131	3233	1.721664	CGTCCTTGCCTGCATCCATG	61.722	60.000	0.00	0.00	0.00	3.66
3132	3234	1.452651	CGTCCTTGCCTGCATCCAT	60.453	57.895	0.00	0.00	0.00	3.41
3133	3235	2.046023	CGTCCTTGCCTGCATCCA	60.046	61.111	0.00	0.00	0.00	3.41
3134	3236	2.825836	CCGTCCTTGCCTGCATCC	60.826	66.667	0.00	0.00	0.00	3.51
3135	3237	3.512516	GCCGTCCTTGCCTGCATC	61.513	66.667	0.00	0.00	0.00	3.91
3143	3245	3.869473	TTTCCGGTCGCCGTCCTTG	62.869	63.158	15.38	2.33	46.80	3.61
3144	3246	2.459202	AATTTCCGGTCGCCGTCCTT	62.459	55.000	15.38	3.28	46.80	3.36
3145	3247	2.847435	GAATTTCCGGTCGCCGTCCT	62.847	60.000	15.38	0.00	46.80	3.85
3146	3248	2.435410	AATTTCCGGTCGCCGTCC	60.435	61.111	15.38	0.00	46.80	4.79
3147	3249	1.419107	GAGAATTTCCGGTCGCCGTC	61.419	60.000	15.38	7.40	46.80	4.79
3148	3250	1.447314	GAGAATTTCCGGTCGCCGT	60.447	57.895	15.38	0.00	46.80	5.68
3150	3252	3.395669	CGAGAATTTCCGGTCGCC	58.604	61.111	0.00	0.00	0.00	5.54
3152	3254	2.995482	CGCGAGAATTTCCGGTCG	59.005	61.111	0.00	2.95	35.51	4.79
3153	3255	2.025359	CTGCGCGAGAATTTCCGGTC	62.025	60.000	12.10	0.00	0.00	4.79
3154	3256	2.047655	TGCGCGAGAATTTCCGGT	60.048	55.556	12.10	0.00	0.00	5.28
3155	3257	2.703409	CTGCGCGAGAATTTCCGG	59.297	61.111	12.10	0.00	0.00	5.14
3156	3258	2.100631	ACCTGCGCGAGAATTTCCG	61.101	57.895	12.10	0.00	0.00	4.30
3157	3259	1.298859	ACACCTGCGCGAGAATTTCC	61.299	55.000	12.10	0.00	0.00	3.13
3158	3260	0.095417	GACACCTGCGCGAGAATTTC	59.905	55.000	12.10	0.00	0.00	2.17
3159	3261	1.626654	CGACACCTGCGCGAGAATTT	61.627	55.000	12.10	0.00	0.00	1.82
3160	3262	2.094659	CGACACCTGCGCGAGAATT	61.095	57.895	12.10	0.00	0.00	2.17
3161	3263	2.507102	CGACACCTGCGCGAGAAT	60.507	61.111	12.10	0.00	0.00	2.40
3168	3270	2.356313	AACTCTGCGACACCTGCG	60.356	61.111	0.00	0.00	34.24	5.18
3169	3271	2.029844	GGAACTCTGCGACACCTGC	61.030	63.158	0.00	0.00	0.00	4.85
3170	3272	1.734477	CGGAACTCTGCGACACCTG	60.734	63.158	0.00	0.00	38.98	4.00
3171	3273	1.745320	AACGGAACTCTGCGACACCT	61.745	55.000	0.00	0.00	38.98	4.00
3172	3274	0.038892	TAACGGAACTCTGCGACACC	60.039	55.000	0.00	0.00	38.98	4.16
3173	3275	1.454653	GTTAACGGAACTCTGCGACAC	59.545	52.381	0.00	0.00	38.98	3.67
3174	3276	1.338973	AGTTAACGGAACTCTGCGACA	59.661	47.619	0.00	0.00	45.81	4.35
3175	3277	2.061740	AGTTAACGGAACTCTGCGAC	57.938	50.000	0.00	0.00	45.81	5.19
3183	3285	2.769893	TGGTGCCTAAGTTAACGGAAC	58.230	47.619	0.00	0.26	38.44	3.62
3184	3286	3.488778	TTGGTGCCTAAGTTAACGGAA	57.511	42.857	0.00	0.00	0.00	4.30
3185	3287	3.140623	GTTTGGTGCCTAAGTTAACGGA	58.859	45.455	0.00	0.00	0.00	4.69
3186	3288	2.879646	TGTTTGGTGCCTAAGTTAACGG	59.120	45.455	0.00	0.00	0.00	4.44
3187	3289	4.472286	CATGTTTGGTGCCTAAGTTAACG	58.528	43.478	0.00	0.00	0.00	3.18
3188	3290	4.234574	GCATGTTTGGTGCCTAAGTTAAC	58.765	43.478	0.00	0.00	36.61	2.01
3189	3291	3.891977	TGCATGTTTGGTGCCTAAGTTAA	59.108	39.130	0.00	0.00	41.83	2.01
3190	3292	3.491342	TGCATGTTTGGTGCCTAAGTTA	58.509	40.909	0.00	0.00	41.83	2.24
3191	3293	2.315176	TGCATGTTTGGTGCCTAAGTT	58.685	42.857	0.00	0.00	41.83	2.66
3192	3294	1.993956	TGCATGTTTGGTGCCTAAGT	58.006	45.000	0.00	0.00	41.83	2.24
3193	3295	2.557924	TCTTGCATGTTTGGTGCCTAAG	59.442	45.455	0.00	0.00	41.83	2.18
3194	3296	2.295909	GTCTTGCATGTTTGGTGCCTAA	59.704	45.455	0.00	0.00	41.83	2.69
3195	3297	1.885887	GTCTTGCATGTTTGGTGCCTA	59.114	47.619	0.00	0.00	41.83	3.93
3196	3298	0.675633	GTCTTGCATGTTTGGTGCCT	59.324	50.000	0.00	0.00	41.83	4.75
3197	3299	0.388659	TGTCTTGCATGTTTGGTGCC	59.611	50.000	0.00	0.00	41.83	5.01
3198	3300	2.443887	ATGTCTTGCATGTTTGGTGC	57.556	45.000	0.00	0.00	42.81	5.01
3210	3312	1.012086	CAGACGATGGGCATGTCTTG	58.988	55.000	0.00	0.00	40.83	3.02
3211	3313	0.904649	TCAGACGATGGGCATGTCTT	59.095	50.000	0.00	0.00	40.83	3.01
3212	3314	1.126488	ATCAGACGATGGGCATGTCT	58.874	50.000	0.00	0.00	43.43	3.41
3213	3315	1.600957	CAATCAGACGATGGGCATGTC	59.399	52.381	0.00	0.00	30.13	3.06
3214	3316	1.210234	TCAATCAGACGATGGGCATGT	59.790	47.619	0.00	0.00	30.13	3.21
3215	3317	1.957668	TCAATCAGACGATGGGCATG	58.042	50.000	0.00	0.00	30.13	4.06
3216	3318	2.945080	ATCAATCAGACGATGGGCAT	57.055	45.000	0.00	0.00	30.13	4.40
3217	3319	2.171237	AGAATCAATCAGACGATGGGCA	59.829	45.455	0.00	0.00	30.13	5.36
3218	3320	2.843701	AGAATCAATCAGACGATGGGC	58.156	47.619	0.00	0.00	30.13	5.36
3219	3321	4.034858	CACAAGAATCAATCAGACGATGGG	59.965	45.833	0.00	0.00	30.13	4.00
3220	3322	4.034858	CCACAAGAATCAATCAGACGATGG	59.965	45.833	0.00	0.00	30.13	3.51
3221	3323	4.034858	CCCACAAGAATCAATCAGACGATG	59.965	45.833	0.00	0.00	30.13	3.84
3222	3324	4.194640	CCCACAAGAATCAATCAGACGAT	58.805	43.478	0.00	0.00	0.00	3.73
3223	3325	3.599343	CCCACAAGAATCAATCAGACGA	58.401	45.455	0.00	0.00	0.00	4.20
3224	3326	2.679837	CCCCACAAGAATCAATCAGACG	59.320	50.000	0.00	0.00	0.00	4.18
3225	3327	3.955471	TCCCCACAAGAATCAATCAGAC	58.045	45.455	0.00	0.00	0.00	3.51
3226	3328	4.868172	ATCCCCACAAGAATCAATCAGA	57.132	40.909	0.00	0.00	0.00	3.27
3227	3329	4.951715	TGAATCCCCACAAGAATCAATCAG	59.048	41.667	0.00	0.00	0.00	2.90
3228	3330	4.933134	TGAATCCCCACAAGAATCAATCA	58.067	39.130	0.00	0.00	0.00	2.57
3229	3331	5.832060	AGATGAATCCCCACAAGAATCAATC	59.168	40.000	0.00	0.00	27.53	2.67
3230	3332	5.774179	AGATGAATCCCCACAAGAATCAAT	58.226	37.500	0.00	0.00	27.53	2.57
3231	3333	5.197224	AGATGAATCCCCACAAGAATCAA	57.803	39.130	0.00	0.00	27.53	2.57
3232	3334	4.868172	AGATGAATCCCCACAAGAATCA	57.132	40.909	0.00	0.00	0.00	2.57
3233	3335	7.000472	TCAATAGATGAATCCCCACAAGAATC	59.000	38.462	0.00	0.00	34.30	2.52
3234	3336	6.914665	TCAATAGATGAATCCCCACAAGAAT	58.085	36.000	0.00	0.00	34.30	2.40
3235	3337	6.325993	TCAATAGATGAATCCCCACAAGAA	57.674	37.500	0.00	0.00	34.30	2.52
3236	3338	5.974156	TCAATAGATGAATCCCCACAAGA	57.026	39.130	0.00	0.00	34.30	3.02
3237	3339	6.072838	CGAATCAATAGATGAATCCCCACAAG	60.073	42.308	0.00	0.00	42.54	3.16
3238	3340	5.764686	CGAATCAATAGATGAATCCCCACAA	59.235	40.000	0.00	0.00	42.54	3.33
3239	3341	5.163205	ACGAATCAATAGATGAATCCCCACA	60.163	40.000	0.00	0.00	42.54	4.17
3240	3342	5.180117	CACGAATCAATAGATGAATCCCCAC	59.820	44.000	0.00	0.00	42.54	4.61
3241	3343	5.163205	ACACGAATCAATAGATGAATCCCCA	60.163	40.000	0.00	0.00	42.54	4.96
3242	3344	5.308825	ACACGAATCAATAGATGAATCCCC	58.691	41.667	0.00	0.00	42.54	4.81
3243	3345	7.962964	TTACACGAATCAATAGATGAATCCC	57.037	36.000	0.00	0.00	42.54	3.85
3244	3346	8.993121	ACATTACACGAATCAATAGATGAATCC	58.007	33.333	0.00	0.00	42.54	3.01
3248	3350	9.476202	CCTTACATTACACGAATCAATAGATGA	57.524	33.333	0.00	0.00	43.67	2.92
3249	3351	9.476202	TCCTTACATTACACGAATCAATAGATG	57.524	33.333	0.00	0.00	33.90	2.90
3250	3352	9.698309	CTCCTTACATTACACGAATCAATAGAT	57.302	33.333	0.00	0.00	35.53	1.98
3251	3353	8.692710	ACTCCTTACATTACACGAATCAATAGA	58.307	33.333	0.00	0.00	0.00	1.98
3252	3354	8.873215	ACTCCTTACATTACACGAATCAATAG	57.127	34.615	0.00	0.00	0.00	1.73
3254	3356	9.832445	ATTACTCCTTACATTACACGAATCAAT	57.168	29.630	0.00	0.00	0.00	2.57
3259	3361	9.793252	GAGTTATTACTCCTTACATTACACGAA	57.207	33.333	0.17	0.00	44.15	3.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.