AutoCloner

Multiple sequence alignment - TraesCS4D01G273400

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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	TraesCS4D01G273400	chr4D	100.000	3452	0	0	1	3452	443205500	443208951	0.000000e+00	6375.0
1	TraesCS4D01G273400	chr4D	86.442	1394	184	4	1061	2453	4067578	4066189	0.000000e+00	1522.0
2	TraesCS4D01G273400	chr4D	93.913	115	5	1	3338	3452	9306376	9306264	4.580000e-39	172.0
3	TraesCS4D01G273400	chr4D	83.529	170	21	6	219	386	509337083	509336919	5.970000e-33	152.0
4	TraesCS4D01G273400	chr4D	100.000	34	0	0	2589	2622	443208008	443208041	2.880000e-06	63.9
5	TraesCS4D01G273400	chr4D	100.000	34	0	0	2509	2542	443208088	443208121	2.880000e-06	63.9
6	TraesCS4D01G273400	chr4B	96.274	2013	59	4	578	2587	552744023	552746022	0.000000e+00	3288.0
7	TraesCS4D01G273400	chr4B	86.838	1398	177	6	1058	2453	4688524	4689916	0.000000e+00	1555.0
8	TraesCS4D01G273400	chr4B	90.446	471	41	2	1	471	552741384	552741850	4.890000e-173	617.0
9	TraesCS4D01G273400	chr4B	76.618	479	75	28	2772	3229	552746387	552746849	2.680000e-56	230.0
10	TraesCS4D01G273400	chr4B	84.848	165	22	2	217	381	20589839	20589678	2.760000e-36	163.0
11	TraesCS4D01G273400	chr4B	84.146	164	20	6	219	381	638159475	638159317	1.660000e-33	154.0
12	TraesCS4D01G273400	chr4B	95.238	42	2	0	538	579	552743858	552743899	2.220000e-07	67.6
13	TraesCS4D01G273400	chr4A	96.846	1807	56	1	785	2591	24557828	24556023	0.000000e+00	3020.0
14	TraesCS4D01G273400	chr4A	88.458	1187	137	0	1267	2453	600366328	600367514	0.000000e+00	1434.0
15	TraesCS4D01G273400	chr4A	92.031	640	23	12	2621	3234	24556039	24555402	0.000000e+00	874.0
16	TraesCS4D01G273400	chr4A	91.755	473	37	1	1	473	24560463	24559993	0.000000e+00	656.0
17	TraesCS4D01G273400	chr4A	93.023	301	19	2	470	768	24558113	24557813	4.090000e-119	438.0
18	TraesCS4D01G273400	chr4A	93.103	203	14	0	3250	3452	24555417	24555215	7.240000e-77	298.0
19	TraesCS4D01G273400	chr4A	84.524	168	21	4	215	381	63749970	63750133	9.910000e-36	161.0
20	TraesCS4D01G273400	chr5B	86.901	1397	178	4	1058	2453	641314352	641315744	0.000000e+00	1561.0
21	TraesCS4D01G273400	chr5B	84.337	166	17	8	219	381	618158167	618158326	1.660000e-33	154.0
22	TraesCS4D01G273400	chr7B	83.703	1264	185	18	1200	2448	711475713	711476970	0.000000e+00	1173.0
23	TraesCS4D01G273400	chr7B	83.178	1290	203	12	1170	2451	711489347	711488064	0.000000e+00	1168.0
24	TraesCS4D01G273400	chr7B	84.795	171	20	5	218	386	245068373	245068207	2.130000e-37	167.0
25	TraesCS4D01G273400	chr7D	83.179	1296	198	18	1170	2451	617378018	617376729	0.000000e+00	1168.0
26	TraesCS4D01G273400	chr7D	84.049	163	23	2	219	381	135039308	135039467	1.660000e-33	154.0
27	TraesCS4D01G273400	chr5A	92.105	114	9	0	3339	3452	83023086	83022973	9.910000e-36	161.0
28	TraesCS4D01G273400	chr2B	91.597	119	6	4	3336	3452	133949982	133949866	9.910000e-36	161.0
29	TraesCS4D01G273400	chr2B	92.793	111	8	0	3342	3452	585894197	585894087	9.910000e-36	161.0
30	TraesCS4D01G273400	chr6B	92.035	113	9	0	3340	3452	50480525	50480637	3.570000e-35	159.0
31	TraesCS4D01G273400	chr6D	93.396	106	7	0	3342	3447	348087602	348087707	1.280000e-34	158.0
32	TraesCS4D01G273400	chr1A	91.379	116	8	2	3337	3452	568073922	568073809	1.280000e-34	158.0
33	TraesCS4D01G273400	chr3B	91.228	114	10	0	3339	3452	794870780	794870893	4.610000e-34	156.0

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	TraesCS4D01G273400	chr4D	443205500	443208951	3451	False	2167.60	6375	100.0000	1	3452	3	chr4D.!!$F1	3451
1	TraesCS4D01G273400	chr4D	4066189	4067578	1389	True	1522.00	1522	86.4420	1061	2453	1	chr4D.!!$R1	1392
2	TraesCS4D01G273400	chr4B	4688524	4689916	1392	False	1555.00	1555	86.8380	1058	2453	1	chr4B.!!$F1	1395
3	TraesCS4D01G273400	chr4B	552741384	552746849	5465	False	1050.65	3288	89.6440	1	3229	4	chr4B.!!$F2	3228
4	TraesCS4D01G273400	chr4A	600366328	600367514	1186	False	1434.00	1434	88.4580	1267	2453	1	chr4A.!!$F2	1186
5	TraesCS4D01G273400	chr4A	24555215	24560463	5248	True	1057.20	3020	93.3516	1	3452	5	chr4A.!!$R1	3451
6	TraesCS4D01G273400	chr5B	641314352	641315744	1392	False	1561.00	1561	86.9010	1058	2453	1	chr5B.!!$F2	1395
7	TraesCS4D01G273400	chr7B	711475713	711476970	1257	False	1173.00	1173	83.7030	1200	2448	1	chr7B.!!$F1	1248
8	TraesCS4D01G273400	chr7B	711488064	711489347	1283	True	1168.00	1168	83.1780	1170	2451	1	chr7B.!!$R2	1281
9	TraesCS4D01G273400	chr7D	617376729	617378018	1289	True	1168.00	1168	83.1790	1170	2451	1	chr7D.!!$R1	1281

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
421	422	0.255033	GGTGTGGTTCCCCCTATGTC	59.745	60.0	0.00	0.0	0.0	3.06	F
1546	3961	0.033920	ACTCATCGTCAACTGCAGCA	59.966	50.0	15.27	0.0	0.0	4.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2403	4827	0.681733	CCGGGTATCTGTGGATGGAG	59.318	60.0	0.0	0.0	33.71	3.86	R
3118	5796	0.106708	AACTTCTCTTGCACGGCTGA	59.893	50.0	0.0	0.0	0.00	4.26	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
39	40	9.438291	GATGTTTGTTAATCTTACGATCAATGG	57.562	33.333	0.00	0.00	0.00	3.16
53	54	5.528690	ACGATCAATGGTAGAATGTTGGATG	59.471	40.000	0.00	0.00	0.00	3.51
61	62	6.484288	TGGTAGAATGTTGGATGTTGATCTT	58.516	36.000	0.00	0.00	0.00	2.40
84	85	2.671596	CTAGCAGCCGAGATAGAAAGC	58.328	52.381	0.00	0.00	29.17	3.51
91	92	1.136305	CCGAGATAGAAAGCCAACGGA	59.864	52.381	0.00	0.00	41.30	4.69
113	114	2.115052	GACCCACCACATGCCACA	59.885	61.111	0.00	0.00	0.00	4.17
160	161	0.671251	GGTGCCAACCAACGATTTGA	59.329	50.000	0.00	0.00	46.75	2.69
228	229	4.018779	CCCACCAGTTTAATACTCCCTTCA	60.019	45.833	0.00	0.00	33.85	3.02
232	233	7.832187	CCACCAGTTTAATACTCCCTTCATTTA	59.168	37.037	0.00	0.00	33.85	1.40
324	325	7.516198	AGTGTAGATTCACTCAATTTTGCTT	57.484	32.000	0.00	0.00	44.07	3.91
381	382	6.522946	ACTTATATCTAAAAACGGAGGGAGC	58.477	40.000	0.00	0.00	0.00	4.70
421	422	0.255033	GGTGTGGTTCCCCCTATGTC	59.745	60.000	0.00	0.00	0.00	3.06
439	440	0.824109	TCGATCCTAAGGTGGTGCTG	59.176	55.000	0.00	0.00	0.00	4.41
440	441	0.824109	CGATCCTAAGGTGGTGCTGA	59.176	55.000	0.00	0.00	0.00	4.26
480	2753	1.686587	TCTACCGCATACCACCATGAG	59.313	52.381	0.00	0.00	0.00	2.90
497	2770	0.822164	GAGGGCTACGTCTTTGCCTA	59.178	55.000	17.18	0.00	45.45	3.93
498	2771	1.206371	GAGGGCTACGTCTTTGCCTAA	59.794	52.381	17.18	0.00	45.45	2.69
511	2784	1.538666	GCCTAAGATGGCCATGGGT	59.461	57.895	26.56	10.40	46.82	4.51
549	2823	6.856895	ACCAGTTTTTGCTCTTATCTAATGC	58.143	36.000	0.00	0.00	0.00	3.56
621	3020	9.057089	AGACAAGTTATCCTAACACTTCAAAAG	57.943	33.333	0.39	0.00	0.00	2.27
657	3056	8.779354	AACAAGCTATCCTAACTCTTAACAAG	57.221	34.615	0.00	0.00	0.00	3.16
759	3161	3.306917	TCGGCGAATGAGTTTGTTAGA	57.693	42.857	7.35	0.00	0.00	2.10
771	3173	9.788960	AATGAGTTTGTTAGAGTTGAGTTTTTC	57.211	29.630	0.00	0.00	0.00	2.29
806	3209	3.774734	TGTTAGAGTTGAGCTAGACCCA	58.225	45.455	0.00	0.00	0.00	4.51
842	3245	5.335191	GCATCAACAACTTTTCTGTCTAGGG	60.335	44.000	0.00	0.00	0.00	3.53
866	3269	3.191162	GCAACACTGAGCCAATTGATACA	59.809	43.478	7.12	2.89	0.00	2.29
903	3306	4.689071	CTGCCCACGTATGAAATGTAGTA	58.311	43.478	0.00	0.00	0.00	1.82
1007	3410	4.033129	CGCACCAAAAATATCCATGCTTTG	59.967	41.667	0.00	0.00	0.00	2.77
1069	3484	2.697761	CCGTCCATCGTCACCGTCT	61.698	63.158	0.00	0.00	37.94	4.18
1071	3486	1.226323	GTCCATCGTCACCGTCTCG	60.226	63.158	0.00	0.00	35.01	4.04
1072	3487	2.579787	CCATCGTCACCGTCTCGC	60.580	66.667	0.00	0.00	35.01	5.03
1546	3961	0.033920	ACTCATCGTCAACTGCAGCA	59.966	50.000	15.27	0.00	0.00	4.41
1863	4278	0.975556	TCCGCCTGAAGCACCTCATA	60.976	55.000	0.00	0.00	44.04	2.15
1992	4410	3.127533	GACGCGCTCAAGGCCAAT	61.128	61.111	5.73	0.00	37.74	3.16
2454	4878	1.659098	GACGTTCTCAGCCATTAACCG	59.341	52.381	0.00	0.00	0.00	4.44
2463	4887	1.363885	GCCATTAACCGACCACCGTC	61.364	60.000	0.00	0.00	36.31	4.79
2517	4941	6.303259	GCTCGTGTTTCATCAAGTAATTTGTC	59.697	38.462	0.00	0.00	38.01	3.18
2606	5030	9.555727	AATATACTGTAATTTGTCTACGCCATT	57.444	29.630	0.00	0.00	0.00	3.16
2609	5033	7.068692	ACTGTAATTTGTCTACGCCATTAAC	57.931	36.000	0.00	0.00	0.00	2.01
2610	5034	6.093082	ACTGTAATTTGTCTACGCCATTAACC	59.907	38.462	0.00	0.00	0.00	2.85
2611	5035	4.609691	AATTTGTCTACGCCATTAACCG	57.390	40.909	0.00	0.00	0.00	4.44
2612	5036	2.747396	TTGTCTACGCCATTAACCGT	57.253	45.000	3.63	3.63	41.11	4.83
2613	5037	2.747396	TGTCTACGCCATTAACCGTT	57.253	45.000	3.47	0.00	38.75	4.44
2614	5038	3.042871	TGTCTACGCCATTAACCGTTT	57.957	42.857	3.47	0.00	38.75	3.60
2615	5039	2.737783	TGTCTACGCCATTAACCGTTTG	59.262	45.455	3.47	0.00	38.75	2.93
2616	5040	1.733360	TCTACGCCATTAACCGTTTGC	59.267	47.619	3.47	0.00	38.75	3.68
2617	5041	0.443088	TACGCCATTAACCGTTTGCG	59.557	50.000	12.59	12.59	46.69	4.85
2628	5052	3.731295	CGTTTGCGGCCCAAATAAT	57.269	47.368	18.52	0.00	44.61	1.28
2629	5053	2.853731	CGTTTGCGGCCCAAATAATA	57.146	45.000	18.52	0.00	44.61	0.98
2630	5054	3.363341	CGTTTGCGGCCCAAATAATAT	57.637	42.857	18.52	0.00	44.61	1.28
2631	5055	3.305110	CGTTTGCGGCCCAAATAATATC	58.695	45.455	18.52	7.36	44.61	1.63
2632	5056	3.649073	GTTTGCGGCCCAAATAATATCC	58.351	45.455	18.52	4.74	44.61	2.59
2633	5057	2.969821	TGCGGCCCAAATAATATCCT	57.030	45.000	0.00	0.00	0.00	3.24
2634	5058	2.513753	TGCGGCCCAAATAATATCCTG	58.486	47.619	0.00	0.00	0.00	3.86
2635	5059	2.158534	TGCGGCCCAAATAATATCCTGT	60.159	45.455	0.00	0.00	0.00	4.00
2636	5060	2.890945	GCGGCCCAAATAATATCCTGTT	59.109	45.455	0.00	0.00	0.00	3.16
2637	5061	3.057526	GCGGCCCAAATAATATCCTGTTC	60.058	47.826	0.00	0.00	0.00	3.18
2638	5062	4.141287	CGGCCCAAATAATATCCTGTTCA	58.859	43.478	0.00	0.00	0.00	3.18
2639	5063	4.023193	CGGCCCAAATAATATCCTGTTCAC	60.023	45.833	0.00	0.00	0.00	3.18
3118	5796	4.423960	TCAATATAGAGACTTCCCCCTCCT	59.576	45.833	0.00	0.00	0.00	3.69
3146	5824	4.665142	CGTGCAAGAGAAGTTTTGATCTCG	60.665	45.833	0.00	0.00	34.67	4.04
3164	5842	2.224606	TCGCGAGTAGTCCGGATTTAT	58.775	47.619	7.81	0.00	0.00	1.40
3208	5887	6.775088	TCACGGTTACTTACTCTTATGTACG	58.225	40.000	0.00	0.00	0.00	3.67
3234	5913	0.401738	CCCAAGTCACATGGTGGAGT	59.598	55.000	0.00	0.00	36.14	3.85
3235	5914	1.202927	CCCAAGTCACATGGTGGAGTT	60.203	52.381	0.00	0.00	36.14	3.01
3236	5915	2.586425	CCAAGTCACATGGTGGAGTTT	58.414	47.619	0.00	0.00	33.87	2.66
3237	5916	2.554032	CCAAGTCACATGGTGGAGTTTC	59.446	50.000	0.00	0.00	33.87	2.78
3238	5917	2.554032	CAAGTCACATGGTGGAGTTTCC	59.446	50.000	0.00	0.00	36.96	3.13
3239	5918	1.156736	GTCACATGGTGGAGTTTCCG	58.843	55.000	0.00	0.00	40.17	4.30
3240	5919	0.605319	TCACATGGTGGAGTTTCCGC	60.605	55.000	0.00	0.01	46.03	5.54
3269	5948	5.458041	AAAAGTCACATGGTGGAGAAATG	57.542	39.130	0.00	0.00	33.87	2.32
3326	6005	5.304101	ACTTGCACTTTGATTTTGACCCATA	59.696	36.000	0.00	0.00	0.00	2.74
3344	6023	3.119101	CCATACCACGAGGCATATACTCC	60.119	52.174	0.00	0.00	39.06	3.85
3347	6026	1.546476	CCACGAGGCATATACTCCCTC	59.454	57.143	0.00	5.48	41.35	4.30
3348	6027	1.546476	CACGAGGCATATACTCCCTCC	59.454	57.143	8.71	0.00	41.66	4.30
3349	6028	1.147191	ACGAGGCATATACTCCCTCCA	59.853	52.381	8.71	0.00	41.66	3.86

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
37	38	6.065976	AGATCAACATCCAACATTCTACCA	57.934	37.500	0.00	0.00	0.00	3.25
39	40	6.678900	GCCAAGATCAACATCCAACATTCTAC	60.679	42.308	0.00	0.00	0.00	2.59
84	85	1.241315	GGTGGGTCACATTCCGTTGG	61.241	60.000	0.38	0.00	35.86	3.77
126	127	1.983224	CACCTCCGACCATGGACTT	59.017	57.895	21.47	0.00	33.48	3.01
160	161	4.618920	ACTACAGAGTCGGAACCAAAAT	57.381	40.909	0.00	0.00	0.00	1.82
355	356	7.498239	GCTCCCTCCGTTTTTAGATATAAGTTT	59.502	37.037	0.00	0.00	0.00	2.66
365	366	2.474410	AGTGCTCCCTCCGTTTTTAG	57.526	50.000	0.00	0.00	0.00	1.85
368	369	1.607251	CGTTAGTGCTCCCTCCGTTTT	60.607	52.381	0.00	0.00	0.00	2.43
369	370	0.037605	CGTTAGTGCTCCCTCCGTTT	60.038	55.000	0.00	0.00	0.00	3.60
381	382	6.592607	ACACCTACCATGTAAAATCGTTAGTG	59.407	38.462	0.00	0.00	0.00	2.74
421	422	0.824109	TCAGCACCACCTTAGGATCG	59.176	55.000	4.77	0.00	0.00	3.69
439	440	3.821033	GAGATGGTCTTAGCCTCTCTCTC	59.179	52.174	13.03	0.00	36.25	3.20
440	441	3.463329	AGAGATGGTCTTAGCCTCTCTCT	59.537	47.826	15.15	15.15	40.34	3.10
497	2770	0.706433	AAGACACCCATGGCCATCTT	59.294	50.000	17.61	13.44	32.13	2.40
498	2771	1.595311	TAAGACACCCATGGCCATCT	58.405	50.000	17.61	6.90	32.13	2.90
508	2781	3.197983	ACTGGTAAGAGCATAAGACACCC	59.802	47.826	0.00	0.00	0.00	4.61
511	2784	6.293955	GCAAAAACTGGTAAGAGCATAAGACA	60.294	38.462	0.00	0.00	0.00	3.41
657	3056	3.323243	ACATGTAACCAACGTGACTAGC	58.677	45.455	0.00	0.00	46.40	3.42
776	3178	5.437060	AGCTCAACTCTAACAACCTTTCAA	58.563	37.500	0.00	0.00	0.00	2.69
842	3245	1.881973	TCAATTGGCTCAGTGTTGCTC	59.118	47.619	5.42	3.06	0.00	4.26
866	3269	2.699846	TGGGCAGCTTGATTTTTCAAGT	59.300	40.909	15.06	2.54	46.36	3.16
903	3306	2.480610	ATCAATCCGCCGCGCAATT	61.481	52.632	8.75	6.53	0.00	2.32
1007	3410	2.881352	GCTCGGCGAGTGTAGTGC	60.881	66.667	34.41	18.10	31.39	4.40
1191	3606	2.623416	CAGCATGAGATACAGGACGGTA	59.377	50.000	0.00	0.00	39.69	4.02
1992	4410	3.936203	GGCCCCATCGCGGTGATA	61.936	66.667	23.56	0.00	34.83	2.15
2403	4827	0.681733	CCGGGTATCTGTGGATGGAG	59.318	60.000	0.00	0.00	33.71	3.86
2463	4887	0.673985	TGTAATCCTCTCGATGGCCG	59.326	55.000	0.00	0.00	40.25	6.13
2517	4941	1.528198	CGCAAACGGTTAATGGCGTAG	60.528	52.381	7.41	0.00	39.65	3.51
2552	4976	3.217608	CACAACGTGAACATGATGAACG	58.782	45.455	14.75	14.75	40.00	3.95
2595	5019	2.475022	GCAAACGGTTAATGGCGTAGAC	60.475	50.000	0.00	0.00	0.00	2.59
2597	5021	1.528198	CGCAAACGGTTAATGGCGTAG	60.528	52.381	7.41	0.00	39.65	3.51
2598	5022	0.443088	CGCAAACGGTTAATGGCGTA	59.557	50.000	7.41	0.00	39.65	4.42
2599	5023	1.208103	CGCAAACGGTTAATGGCGT	59.792	52.632	7.41	0.00	39.65	5.68
2600	5024	4.050044	CGCAAACGGTTAATGGCG	57.950	55.556	1.08	1.08	38.45	5.69
2610	5034	2.853731	TATTATTTGGGCCGCAAACG	57.146	45.000	18.09	0.00	39.67	3.60
2611	5035	3.320826	AGGATATTATTTGGGCCGCAAAC	59.679	43.478	18.09	7.52	0.00	2.93
2612	5036	3.320541	CAGGATATTATTTGGGCCGCAAA	59.679	43.478	18.05	18.05	0.00	3.68
2613	5037	2.890311	CAGGATATTATTTGGGCCGCAA	59.110	45.455	0.00	0.00	0.00	4.85
2614	5038	2.158534	ACAGGATATTATTTGGGCCGCA	60.159	45.455	0.00	0.00	0.00	5.69
2615	5039	2.514803	ACAGGATATTATTTGGGCCGC	58.485	47.619	0.00	0.00	0.00	6.53
2616	5040	4.023193	GTGAACAGGATATTATTTGGGCCG	60.023	45.833	0.00	0.00	0.00	6.13
2617	5041	4.023193	CGTGAACAGGATATTATTTGGGCC	60.023	45.833	0.00	0.00	0.00	5.80
2618	5042	4.578928	ACGTGAACAGGATATTATTTGGGC	59.421	41.667	0.00	0.00	0.00	5.36
2619	5043	6.542370	AGAACGTGAACAGGATATTATTTGGG	59.458	38.462	0.00	0.00	0.00	4.12
2620	5044	7.553881	AGAACGTGAACAGGATATTATTTGG	57.446	36.000	0.00	0.00	0.00	3.28
2621	5045	9.490663	GAAAGAACGTGAACAGGATATTATTTG	57.509	33.333	0.00	0.00	0.00	2.32
2622	5046	9.226606	TGAAAGAACGTGAACAGGATATTATTT	57.773	29.630	0.00	0.00	0.00	1.40
2623	5047	8.786826	TGAAAGAACGTGAACAGGATATTATT	57.213	30.769	0.00	0.00	0.00	1.40
2624	5048	8.786826	TTGAAAGAACGTGAACAGGATATTAT	57.213	30.769	0.00	0.00	0.00	1.28
2625	5049	8.786826	ATTGAAAGAACGTGAACAGGATATTA	57.213	30.769	0.00	0.00	0.00	0.98
2626	5050	7.390440	TGATTGAAAGAACGTGAACAGGATATT	59.610	33.333	0.00	0.00	0.00	1.28
2627	5051	6.878923	TGATTGAAAGAACGTGAACAGGATAT	59.121	34.615	0.00	0.00	0.00	1.63
2628	5052	6.147164	GTGATTGAAAGAACGTGAACAGGATA	59.853	38.462	0.00	0.00	0.00	2.59
2629	5053	5.049405	GTGATTGAAAGAACGTGAACAGGAT	60.049	40.000	0.00	0.00	0.00	3.24
2630	5054	4.272504	GTGATTGAAAGAACGTGAACAGGA	59.727	41.667	0.00	0.00	0.00	3.86
2631	5055	4.527564	GTGATTGAAAGAACGTGAACAGG	58.472	43.478	0.00	0.00	0.00	4.00
2632	5056	4.273480	AGGTGATTGAAAGAACGTGAACAG	59.727	41.667	0.00	0.00	0.00	3.16
2633	5057	4.196193	AGGTGATTGAAAGAACGTGAACA	58.804	39.130	0.00	0.00	0.00	3.18
2634	5058	4.813296	AGGTGATTGAAAGAACGTGAAC	57.187	40.909	0.00	0.00	0.00	3.18
2635	5059	8.610248	TTAATAGGTGATTGAAAGAACGTGAA	57.390	30.769	0.00	0.00	0.00	3.18
2636	5060	8.786826	ATTAATAGGTGATTGAAAGAACGTGA	57.213	30.769	0.00	0.00	0.00	4.35
2637	5061	8.883731	AGATTAATAGGTGATTGAAAGAACGTG	58.116	33.333	0.00	0.00	0.00	4.49
2638	5062	9.449719	AAGATTAATAGGTGATTGAAAGAACGT	57.550	29.630	0.00	0.00	0.00	3.99
2639	5063	9.922305	GAAGATTAATAGGTGATTGAAAGAACG	57.078	33.333	0.00	0.00	0.00	3.95
2901	5569	4.079844	TGGCATGTAGGAATGGATCTTTCA	60.080	41.667	9.95	0.00	0.00	2.69
3118	5796	0.106708	AACTTCTCTTGCACGGCTGA	59.893	50.000	0.00	0.00	0.00	4.26
3146	5824	8.524870	TTTATTTATAAATCCGGACTACTCGC	57.475	34.615	13.95	0.00	0.00	5.03
3208	5887	2.026822	ACCATGTGACTTGGGATCACTC	60.027	50.000	19.95	0.00	45.58	3.51
3246	5925	5.221501	CCATTTCTCCACCATGTGACTTTTT	60.222	40.000	0.00	0.00	35.23	1.94
3247	5926	4.281688	CCATTTCTCCACCATGTGACTTTT	59.718	41.667	0.00	0.00	35.23	2.27
3248	5927	3.828451	CCATTTCTCCACCATGTGACTTT	59.172	43.478	0.00	0.00	35.23	2.66
3249	5928	3.181429	ACCATTTCTCCACCATGTGACTT	60.181	43.478	0.00	0.00	35.23	3.01
3250	5929	2.376518	ACCATTTCTCCACCATGTGACT	59.623	45.455	0.00	0.00	35.23	3.41
3251	5930	2.489329	CACCATTTCTCCACCATGTGAC	59.511	50.000	0.00	0.00	35.23	3.67
3252	5931	2.555006	CCACCATTTCTCCACCATGTGA	60.555	50.000	0.00	0.00	35.23	3.58
3253	5932	1.820519	CCACCATTTCTCCACCATGTG	59.179	52.381	0.00	0.00	0.00	3.21
3254	5933	1.428912	ACCACCATTTCTCCACCATGT	59.571	47.619	0.00	0.00	0.00	3.21
3255	5934	2.220653	ACCACCATTTCTCCACCATG	57.779	50.000	0.00	0.00	0.00	3.66
3256	5935	2.528564	CAACCACCATTTCTCCACCAT	58.471	47.619	0.00	0.00	0.00	3.55
3257	5936	1.993956	CAACCACCATTTCTCCACCA	58.006	50.000	0.00	0.00	0.00	4.17
3258	5937	0.603065	GCAACCACCATTTCTCCACC	59.397	55.000	0.00	0.00	0.00	4.61
3259	5938	1.000274	GTGCAACCACCATTTCTCCAC	60.000	52.381	0.00	0.00	35.92	4.02
3260	5939	1.133513	AGTGCAACCACCATTTCTCCA	60.134	47.619	0.00	0.00	43.09	3.86
3261	5940	1.620822	AGTGCAACCACCATTTCTCC	58.379	50.000	0.00	0.00	43.09	3.71
3262	5941	4.846779	TTTAGTGCAACCACCATTTCTC	57.153	40.909	0.00	0.00	43.09	2.87
3263	5942	6.151144	GTCTATTTAGTGCAACCACCATTTCT	59.849	38.462	0.00	0.00	43.09	2.52
3264	5943	6.072175	TGTCTATTTAGTGCAACCACCATTTC	60.072	38.462	0.00	0.00	43.09	2.17
3265	5944	5.772672	TGTCTATTTAGTGCAACCACCATTT	59.227	36.000	0.00	0.00	43.09	2.32
3266	5945	5.321102	TGTCTATTTAGTGCAACCACCATT	58.679	37.500	0.00	0.00	43.09	3.16
3267	5946	4.917385	TGTCTATTTAGTGCAACCACCAT	58.083	39.130	0.00	0.00	43.09	3.55
3268	5947	4.359434	TGTCTATTTAGTGCAACCACCA	57.641	40.909	0.00	0.00	43.09	4.17
3269	5948	5.001232	TCTTGTCTATTTAGTGCAACCACC	58.999	41.667	0.00	0.00	43.09	4.61
3309	5988	4.457603	TCGTGGTATGGGTCAAAATCAAAG	59.542	41.667	0.00	0.00	0.00	2.77
3315	5994	1.612199	GCCTCGTGGTATGGGTCAAAA	60.612	52.381	5.26	0.00	35.27	2.44
3318	5997	0.980754	ATGCCTCGTGGTATGGGTCA	60.981	55.000	6.29	0.00	37.28	4.02
3326	6005	1.339097	GGGAGTATATGCCTCGTGGT	58.661	55.000	5.26	0.00	36.22	4.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.