AutoCloner

Multiple sequence alignment - TraesCS6B01G153100

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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	TraesCS6B01G153100	chr6B	100.000	5468	0	0	1	5468	156742033	156736566	0.000000e+00	10098
1	TraesCS6B01G153100	chr6B	87.180	3791	433	25	531	4305	157027897	157024144	0.000000e+00	4259
2	TraesCS6B01G153100	chr6B	84.079	3310	481	35	902	4186	156533335	156530047	0.000000e+00	3151
3	TraesCS6B01G153100	chr6B	80.952	3906	624	68	529	4392	157489764	157485937	0.000000e+00	2981
4	TraesCS6B01G153100	chr6B	80.944	3621	591	71	755	4324	157109672	157106100	0.000000e+00	2772
5	TraesCS6B01G153100	chr6B	90.006	1661	113	21	3795	5424	156686243	156684605	0.000000e+00	2098
6	TraesCS6B01G153100	chr6B	84.950	2093	285	17	986	3058	157900247	157902329	0.000000e+00	2093
7	TraesCS6B01G153100	chr6D	94.825	5469	195	31	1	5421	81936428	81931000	0.000000e+00	8451
8	TraesCS6B01G153100	chr6D	87.418	3799	418	27	531	4312	82139624	82135869	0.000000e+00	4313
9	TraesCS6B01G153100	chr6D	79.652	3337	598	61	921	4214	82220616	82217318	0.000000e+00	2326
10	TraesCS6B01G153100	chr6D	82.418	91	10	6	232	321	82139715	82139630	2.110000e-09	75
11	TraesCS6B01G153100	chr6A	95.993	4592	146	19	1	4572	98324889	98320316	0.000000e+00	7426
12	TraesCS6B01G153100	chr6A	89.069	3815	358	33	531	4326	98814098	98810324	0.000000e+00	4680
13	TraesCS6B01G153100	chr6A	84.277	3180	461	24	1034	4186	98250013	98246846	0.000000e+00	3066
14	TraesCS6B01G153100	chr6A	84.955	2672	361	26	1865	4509	98916398	98913741	0.000000e+00	2669
15	TraesCS6B01G153100	chr6A	78.875	3716	663	79	545	4214	99016644	99013005	0.000000e+00	2401
16	TraesCS6B01G153100	chr6A	89.486	428	36	4	4569	4987	98320077	98319650	2.900000e-147	532
17	TraesCS6B01G153100	chr6A	87.983	466	20	10	4983	5438	98319162	98318723	8.120000e-143	518
18	TraesCS6B01G153100	chr7D	82.528	2524	353	51	579	3060	560999787	561002264	0.000000e+00	2137
19	TraesCS6B01G153100	chr7A	82.947	2287	346	26	809	3060	645087615	645089892	0.000000e+00	2023
20	TraesCS6B01G153100	chr7A	87.565	193	21	3	330	520	654795267	654795076	2.560000e-53	220
21	TraesCS6B01G153100	chr4D	88.889	180	17	2	338	515	509822275	509822453	9.220000e-53	219
22	TraesCS6B01G153100	chr3D	87.234	188	14	6	329	515	217588948	217588770	7.180000e-49	206
23	TraesCS6B01G153100	chr3A	86.316	190	13	7	330	515	127196567	127196387	1.550000e-45	195
24	TraesCS6B01G153100	chr1A	84.896	192	20	3	326	515	202099442	202099258	9.350000e-43	185
25	TraesCS6B01G153100	chr2D	85.246	183	17	7	330	510	242327024	242327198	4.350000e-41	180
26	TraesCS6B01G153100	chr5A	85.811	148	17	2	373	516	657987374	657987227	2.640000e-33	154
27	TraesCS6B01G153100	chr3B	80.829	193	28	4	330	520	150947344	150947159	5.710000e-30	143

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	TraesCS6B01G153100	chr6B	156736566	156742033	5467	True	10098.000000	10098	100.000	1	5468	1	chr6B.!!$R3	5467
1	TraesCS6B01G153100	chr6B	157024144	157027897	3753	True	4259.000000	4259	87.180	531	4305	1	chr6B.!!$R4	3774
2	TraesCS6B01G153100	chr6B	156530047	156533335	3288	True	3151.000000	3151	84.079	902	4186	1	chr6B.!!$R1	3284
3	TraesCS6B01G153100	chr6B	157485937	157489764	3827	True	2981.000000	2981	80.952	529	4392	1	chr6B.!!$R6	3863
4	TraesCS6B01G153100	chr6B	157106100	157109672	3572	True	2772.000000	2772	80.944	755	4324	1	chr6B.!!$R5	3569
5	TraesCS6B01G153100	chr6B	156684605	156686243	1638	True	2098.000000	2098	90.006	3795	5424	1	chr6B.!!$R2	1629
6	TraesCS6B01G153100	chr6B	157900247	157902329	2082	False	2093.000000	2093	84.950	986	3058	1	chr6B.!!$F1	2072
7	TraesCS6B01G153100	chr6D	81931000	81936428	5428	True	8451.000000	8451	94.825	1	5421	1	chr6D.!!$R1	5420
8	TraesCS6B01G153100	chr6D	82217318	82220616	3298	True	2326.000000	2326	79.652	921	4214	1	chr6D.!!$R2	3293
9	TraesCS6B01G153100	chr6D	82135869	82139715	3846	True	2194.000000	4313	84.918	232	4312	2	chr6D.!!$R3	4080
10	TraesCS6B01G153100	chr6A	98810324	98814098	3774	True	4680.000000	4680	89.069	531	4326	1	chr6A.!!$R2	3795
11	TraesCS6B01G153100	chr6A	98246846	98250013	3167	True	3066.000000	3066	84.277	1034	4186	1	chr6A.!!$R1	3152
12	TraesCS6B01G153100	chr6A	98318723	98324889	6166	True	2825.333333	7426	91.154	1	5438	3	chr6A.!!$R5	5437
13	TraesCS6B01G153100	chr6A	98913741	98916398	2657	True	2669.000000	2669	84.955	1865	4509	1	chr6A.!!$R3	2644
14	TraesCS6B01G153100	chr6A	99013005	99016644	3639	True	2401.000000	2401	78.875	545	4214	1	chr6A.!!$R4	3669
15	TraesCS6B01G153100	chr7D	560999787	561002264	2477	False	2137.000000	2137	82.528	579	3060	1	chr7D.!!$F1	2481
16	TraesCS6B01G153100	chr7A	645087615	645089892	2277	False	2023.000000	2023	82.947	809	3060	1	chr7A.!!$F1	2251

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	Hairpin	End Stability	Orientation
450	458	0.102481	AGGCTGCGTACAATAGACCG	59.898	55.000	0.00	4.79	F
1635	1710	0.537188	ACTGGGCAGATACCAACTCG	59.463	55.000	37.59	4.18	F
2054	2129	2.213499	ACCTCAAGAGCAACAAACTCG	58.787	47.619	39.23	4.18	F
3506	3593	0.908198	AGAGGTTGATGCACTCTCCC	59.092	55.000	36.96	4.30	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
2404	2479	0.819582	GGCAACCATCCATGTCCAAG	59.180	55.0	0.00	3.61	R
3116	3197	0.595588	AACACGCCAAATGCAATCGA	59.404	45.0	41.33	3.59	R
3829	3919	1.300971	CCAGCTCCGTTGTGACATGG	61.301	60.0	0.00	3.66	R
5107	6030	0.173708	GTGGACGTAGAGAAGCAGGG	59.826	60.0	0.00	4.45	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
64	66	1.739562	CGCCAGTGAGCAGGAGAAC	60.740	63.158	0.00	0.00	0.00	3.01
130	132	8.265764	GTGATAAGGGTTAGTAAATCAAGAGGT	58.734	37.037	0.00	0.00	0.00	3.85
223	231	1.040339	TTGCCTGGGTTTGTCCACAC	61.040	55.000	0.00	0.00	38.11	3.82
302	310	1.951602	AGCCGTTACCCAACTGTTTTC	59.048	47.619	0.00	0.00	32.09	2.29
308	316	5.813157	CCGTTACCCAACTGTTTTCATTTTT	59.187	36.000	0.00	0.00	32.09	1.94
366	374	1.502190	GCGGTAAAGCTGTTGCCTC	59.498	57.895	11.70	3.34	40.80	4.70
396	404	3.760693	CCATGAGGTCACGGGTTAG	57.239	57.895	0.00	0.00	0.00	2.34
397	405	1.191535	CCATGAGGTCACGGGTTAGA	58.808	55.000	0.00	0.00	0.00	2.10
398	406	1.137086	CCATGAGGTCACGGGTTAGAG	59.863	57.143	0.00	0.00	0.00	2.43
399	407	1.825474	CATGAGGTCACGGGTTAGAGT	59.175	52.381	0.00	0.00	0.00	3.24
400	408	2.005370	TGAGGTCACGGGTTAGAGTT	57.995	50.000	0.00	0.00	0.00	3.01
401	409	1.891150	TGAGGTCACGGGTTAGAGTTC	59.109	52.381	0.00	0.00	0.00	3.01
402	410	1.204231	GAGGTCACGGGTTAGAGTTCC	59.796	57.143	0.00	0.00	0.00	3.62
408	416	2.460757	CGGGTTAGAGTTCCGGAAAA	57.539	50.000	20.79	6.71	40.07	2.29
409	417	2.769893	CGGGTTAGAGTTCCGGAAAAA	58.230	47.619	20.79	8.40	40.07	1.94
410	418	2.740447	CGGGTTAGAGTTCCGGAAAAAG	59.260	50.000	20.79	1.30	40.07	2.27
411	419	2.486982	GGGTTAGAGTTCCGGAAAAAGC	59.513	50.000	20.79	18.43	0.00	3.51
430	438	8.422577	AAAAAGCCTTACAGAAATGTAGGAAT	57.577	30.769	0.00	0.00	0.00	3.01
447	455	3.895656	AGGAATAGGCTGCGTACAATAGA	59.104	43.478	3.95	0.00	0.00	1.98
450	458	0.102481	AGGCTGCGTACAATAGACCG	59.898	55.000	0.00	0.00	0.00	4.79
503	511	4.189188	CGGGAGCTACGTCCACCG	62.189	72.222	0.00	0.00	38.52	4.94
522	531	1.265905	CGGACTGCCCTTTAAACACAC	59.734	52.381	0.00	0.00	0.00	3.82
576	585	9.329913	CAAAGGATACGTCAAGAAGTAAATTTG	57.670	33.333	0.00	7.79	46.39	2.32
620	630	8.194769	GGAAGAAGTTGGATTTGTTTAGTGAAA	58.805	33.333	0.00	0.00	0.00	2.69
1080	1128	3.009916	ACACTCCATTTCTCCAGCAAGAT	59.990	43.478	0.00	0.00	0.00	2.40
1138	1201	1.228245	GTTCTGCTTGGCCACTCCA	60.228	57.895	3.88	1.28	44.85	3.86
1348	1414	5.310409	TCTCACAATCTCTTGGAAACCTT	57.690	39.130	0.00	0.00	36.64	3.50
1502	1571	1.026718	GTCATCTTCAACCCCTGGCG	61.027	60.000	0.00	0.00	0.00	5.69
1635	1710	0.537188	ACTGGGCAGATACCAACTCG	59.463	55.000	0.00	0.00	37.59	4.18
2054	2129	2.213499	ACCTCAAGAGCAACAAACTCG	58.787	47.619	0.00	0.00	39.23	4.18
2392	2467	5.047092	GGATGACAGAATTGGTGGTTTTGAT	60.047	40.000	0.00	0.00	0.00	2.57
2404	2479	5.710099	TGGTGGTTTTGATAATCTTCAGGTC	59.290	40.000	0.00	0.00	0.00	3.85
3506	3593	0.908198	AGAGGTTGATGCACTCTCCC	59.092	55.000	0.00	0.00	36.96	4.30
3639	3729	1.142465	CAGGGATGATGGTGCTAGCTT	59.858	52.381	17.23	0.00	0.00	3.74
3829	3919	2.286365	TGATCCTTCCCAACAACACC	57.714	50.000	0.00	0.00	0.00	4.16
3934	4025	8.021973	GGTGATATATACAGTTTCGGAGTAGTG	58.978	40.741	0.00	0.00	0.00	2.74
3970	4061	1.004918	AGGAAGGCGACCTGTTTCG	60.005	57.895	4.85	0.00	42.15	3.46
4257	4361	1.021202	TCCTTCAGTTTTGTGCACGG	58.979	50.000	13.13	3.74	0.00	4.94
4317	4451	6.310467	TGCTTCTGATAATCGTACAGTTTGTC	59.690	38.462	0.00	0.00	33.93	3.18
4333	4467	5.700832	CAGTTTGTCTTGTACATAGCCTGAA	59.299	40.000	0.00	0.00	38.10	3.02
4378	4515	8.575649	TGTAAGTCTTCAAGGAAAGAGTTTTT	57.424	30.769	10.89	0.00	43.24	1.94
4380	4517	5.895928	AGTCTTCAAGGAAAGAGTTTTTGC	58.104	37.500	0.00	0.00	35.82	3.68
4528	4668	6.662414	TTCAGATGTTTGCTTCGTATAAGG	57.338	37.500	0.00	0.00	0.00	2.69
4608	4997	1.021202	TTGTTGGTTCAAGTGCCGAG	58.979	50.000	0.00	0.00	0.00	4.63
4671	5066	8.873830	ACGCACATCAGTATTATAAATATGCTC	58.126	33.333	0.00	0.00	0.00	4.26
4794	5189	1.333258	GCTGTCACTGTTTGCTTCGTC	60.333	52.381	0.00	0.00	0.00	4.20
4795	5190	0.927537	TGTCACTGTTTGCTTCGTCG	59.072	50.000	0.00	0.00	0.00	5.12
4796	5191	0.232303	GTCACTGTTTGCTTCGTCGG	59.768	55.000	0.00	0.00	0.00	4.79
4797	5192	0.179094	TCACTGTTTGCTTCGTCGGT	60.179	50.000	0.00	0.00	0.00	4.69
4811	5209	1.254954	GTCGGTGGAGGTGAGTTACT	58.745	55.000	0.00	0.00	0.00	2.24
4815	5213	2.609737	CGGTGGAGGTGAGTTACTGAAC	60.610	54.545	0.00	0.00	35.64	3.18
4880	5280	5.841957	AGCACTGAATGGAAATATGGAAC	57.158	39.130	0.00	0.00	0.00	3.62
4916	5316	4.430007	GAGAATGTAACACGACTGCCATA	58.570	43.478	0.00	0.00	0.00	2.74
4959	5359	2.143122	CACACAGAACGCATAACAGGT	58.857	47.619	0.00	0.00	0.00	4.00
4977	5377	2.005451	GGTATGCACTCACAAGCAGAG	58.995	52.381	0.00	0.00	44.94	3.35
4993	5885	3.492311	GAGCACGAGAGGGATCGCC	62.492	68.421	6.09	0.00	41.59	5.54
5023	5921	2.480587	CGCATACGTACCATGTCCAAGA	60.481	50.000	0.00	0.00	33.53	3.02
5026	5924	4.211374	GCATACGTACCATGTCCAAGAATC	59.789	45.833	0.00	0.00	0.00	2.52
5095	6018	3.043713	CTTCAGAACGCGCCTGCA	61.044	61.111	20.23	11.57	42.97	4.41
5107	6030	3.499737	CCTGCACCACGAATCCGC	61.500	66.667	0.00	0.00	39.95	5.54
5119	6042	0.753262	GAATCCGCCCTGCTTCTCTA	59.247	55.000	0.00	0.00	0.00	2.43
5131	6054	2.594119	CTTCTCTACGTCCACCCGCG	62.594	65.000	0.00	0.00	0.00	6.46
5173	6096	3.171911	GCATTTCGCCAAACGCCG	61.172	61.111	0.00	0.00	43.23	6.46
5198	6121	4.687215	GCCGGCTCTGAGCACACA	62.687	66.667	28.95	0.00	44.75	3.72
5214	6137	0.600557	CACAAAAGGCCGGCACATTA	59.399	50.000	30.85	0.00	0.00	1.90
5325	6248	4.681978	GGTGAGCGCGGTGGAGTT	62.682	66.667	18.92	0.00	0.00	3.01
5326	6249	3.414700	GTGAGCGCGGTGGAGTTG	61.415	66.667	18.92	0.00	0.00	3.16
5373	6296	2.185867	GATGGCGTGGCGGTAGAA	59.814	61.111	0.00	0.00	0.00	2.10
5389	6313	2.037385	AGAAGCAGGAAAGAGAGGGT	57.963	50.000	0.00	0.00	0.00	4.34
5395	6319	1.079057	GGAAAGAGAGGGTGCGACC	60.079	63.158	0.00	0.00	37.60	4.79
5438	6366	1.532868	CTTGTAAGACACAGTGCAGCC	59.467	52.381	0.00	0.00	38.72	4.85
5439	6367	0.758734	TGTAAGACACAGTGCAGCCT	59.241	50.000	0.00	0.00	31.89	4.58
5440	6368	1.270305	TGTAAGACACAGTGCAGCCTC	60.270	52.381	0.00	0.00	31.89	4.70
5441	6369	0.038251	TAAGACACAGTGCAGCCTCG	60.038	55.000	0.00	0.00	0.00	4.63
5442	6370	3.418068	GACACAGTGCAGCCTCGC	61.418	66.667	0.00	0.00	0.00	5.03
5445	6373	3.680786	ACAGTGCAGCCTCGCGTA	61.681	61.111	5.77	0.00	33.35	4.42
5446	6374	2.882777	CAGTGCAGCCTCGCGTAG	60.883	66.667	5.77	1.91	33.35	3.51
5459	6387	4.891727	CGTAGCAGCCGCCGGAAT	62.892	66.667	7.68	0.00	39.83	3.01
5460	6388	3.272334	GTAGCAGCCGCCGGAATG	61.272	66.667	7.68	5.76	39.83	2.67
5461	6389	4.545706	TAGCAGCCGCCGGAATGG	62.546	66.667	7.68	4.14	39.83	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
64	66	0.385390	ACCTTTGCTGTTGCTTTCGG	59.615	50.000	0.00	0.00	40.48	4.30
130	132	3.711704	GGGTGATATGTCCTCTCTTCCAA	59.288	47.826	0.00	0.00	0.00	3.53
223	231	1.667830	ATCGGTGTTGCAGTCCGTG	60.668	57.895	19.91	0.00	43.94	4.94
232	240	0.445436	GAGAGCAAGCATCGGTGTTG	59.555	55.000	0.00	2.10	0.00	3.33
233	241	1.016130	CGAGAGCAAGCATCGGTGTT	61.016	55.000	0.00	0.00	32.93	3.32
284	292	4.577834	AATGAAAACAGTTGGGTAACGG	57.422	40.909	0.00	0.00	41.71	4.44
366	374	1.270305	ACCTCATGGTCACAACTCACG	60.270	52.381	0.00	0.00	44.78	4.35
395	403	2.658807	AAGGCTTTTTCCGGAACTCT	57.341	45.000	18.64	7.22	0.00	3.24
396	404	3.143728	TGTAAGGCTTTTTCCGGAACTC	58.856	45.455	18.64	6.01	0.00	3.01
397	405	3.146847	CTGTAAGGCTTTTTCCGGAACT	58.853	45.455	18.64	7.49	0.00	3.01
398	406	3.143728	TCTGTAAGGCTTTTTCCGGAAC	58.856	45.455	18.64	5.02	0.00	3.62
399	407	3.495434	TCTGTAAGGCTTTTTCCGGAA	57.505	42.857	14.35	14.35	0.00	4.30
400	408	3.495434	TTCTGTAAGGCTTTTTCCGGA	57.505	42.857	4.45	0.00	0.00	5.14
401	409	4.022329	ACATTTCTGTAAGGCTTTTTCCGG	60.022	41.667	4.45	0.00	32.49	5.14
402	410	5.121221	ACATTTCTGTAAGGCTTTTTCCG	57.879	39.130	4.45	0.00	32.49	4.30
403	411	6.433093	TCCTACATTTCTGTAAGGCTTTTTCC	59.567	38.462	4.45	0.00	37.41	3.13
404	412	7.448748	TCCTACATTTCTGTAAGGCTTTTTC	57.551	36.000	4.45	0.00	37.41	2.29
406	414	9.178758	CTATTCCTACATTTCTGTAAGGCTTTT	57.821	33.333	4.45	0.00	37.41	2.27
407	415	7.775561	CCTATTCCTACATTTCTGTAAGGCTTT	59.224	37.037	4.45	0.00	37.41	3.51
408	416	7.283329	CCTATTCCTACATTTCTGTAAGGCTT	58.717	38.462	4.58	4.58	37.41	4.35
409	417	6.689177	GCCTATTCCTACATTTCTGTAAGGCT	60.689	42.308	14.05	0.00	45.35	4.58
410	418	5.470437	GCCTATTCCTACATTTCTGTAAGGC	59.530	44.000	8.75	8.75	43.94	4.35
411	419	6.708054	CAGCCTATTCCTACATTTCTGTAAGG	59.292	42.308	0.00	0.00	37.41	2.69
430	438	1.335810	CGGTCTATTGTACGCAGCCTA	59.664	52.381	0.00	0.00	0.00	3.93
450	458	1.520494	GGAAGGGTCCGACAACTTTC	58.480	55.000	0.00	0.00	33.05	2.62
503	511	1.611977	GGTGTGTTTAAAGGGCAGTCC	59.388	52.381	0.00	0.00	0.00	3.85
522	531	4.357918	TTTGAACAGGAGAAGGAGAAGG	57.642	45.455	0.00	0.00	0.00	3.46
576	585	0.674895	CCCACTAGCACTTGACCAGC	60.675	60.000	0.00	0.00	0.00	4.85
620	630	1.549170	GACATCACCACTCTTACCGGT	59.451	52.381	13.98	13.98	0.00	5.28
734	750	2.422127	CCTGAATACCGACCGCAAAAAT	59.578	45.455	0.00	0.00	0.00	1.82
736	752	1.002201	TCCTGAATACCGACCGCAAAA	59.998	47.619	0.00	0.00	0.00	2.44
738	754	0.108520	GTCCTGAATACCGACCGCAA	60.109	55.000	0.00	0.00	0.00	4.85
739	755	1.514087	GTCCTGAATACCGACCGCA	59.486	57.895	0.00	0.00	0.00	5.69
740	756	1.588139	CGTCCTGAATACCGACCGC	60.588	63.158	0.00	0.00	0.00	5.68
1138	1201	1.829533	CTGGGTGCAGCAACTGGTT	60.830	57.895	19.06	0.00	31.21	3.67
1348	1414	2.528818	AAGGTGCTGCAGCCCAGTA	61.529	57.895	33.78	17.93	43.71	2.74
1502	1571	0.909623	TTTAGTACCTGCAGAGGCCC	59.090	55.000	17.39	0.00	44.33	5.80
1635	1710	3.503748	GGATGGCAAGGTGCTACATAATC	59.496	47.826	0.00	0.00	44.28	1.75
2054	2129	3.674997	TGACATTGCTAAGTTCTCCACC	58.325	45.455	0.00	0.00	0.00	4.61
2392	2467	4.782691	TCCATGTCCAAGACCTGAAGATTA	59.217	41.667	2.10	0.00	31.52	1.75
2404	2479	0.819582	GGCAACCATCCATGTCCAAG	59.180	55.000	0.00	0.00	0.00	3.61
3116	3197	0.595588	AACACGCCAAATGCAATCGA	59.404	45.000	0.00	0.00	41.33	3.59
3506	3593	2.988493	CAAGATTTTCATGTTGTGCCCG	59.012	45.455	0.00	0.00	30.54	6.13
3639	3729	2.159099	CGAGTAGGCCAGTCAAGCAATA	60.159	50.000	5.01	0.00	0.00	1.90
3829	3919	1.300971	CCAGCTCCGTTGTGACATGG	61.301	60.000	0.00	0.00	0.00	3.66
4257	4361	6.557110	TGGAACTAAAAAGTTGCAAGTACAC	58.443	36.000	7.33	0.00	44.83	2.90
4317	4451	5.220931	GGCAATCTTTCAGGCTATGTACAAG	60.221	44.000	0.00	0.00	0.00	3.16
4333	4467	7.395489	ACTTACAAAGATCAGAATGGCAATCTT	59.605	33.333	1.39	3.94	39.52	2.40
4378	4515	9.545105	AACATCAAAAGTAAGATGAATTTTGCA	57.455	25.926	9.17	0.00	43.28	4.08
4423	4560	6.948309	ACCTTTTCCTATGCTTGTGACTTAAT	59.052	34.615	0.00	0.00	0.00	1.40
4528	4668	1.407979	TCCGACGGCTCCTAAAATCTC	59.592	52.381	9.66	0.00	0.00	2.75
4608	4997	8.547069	GCATTAGATTCTCTCATTACACTTCAC	58.453	37.037	0.00	0.00	0.00	3.18
4671	5066	0.523072	CCCCATGCTCGTCAAAGTTG	59.477	55.000	0.00	0.00	0.00	3.16
4761	5156	3.857549	GTGACAGCACATAGTCTCTGA	57.142	47.619	0.00	0.00	44.51	3.27
4794	5189	1.254026	TCAGTAACTCACCTCCACCG	58.746	55.000	0.00	0.00	0.00	4.94
4795	5190	2.633481	AGTTCAGTAACTCACCTCCACC	59.367	50.000	0.00	0.00	42.42	4.61
4796	5191	4.523558	AGTAGTTCAGTAACTCACCTCCAC	59.476	45.833	0.00	0.00	42.42	4.02
4797	5192	4.523173	CAGTAGTTCAGTAACTCACCTCCA	59.477	45.833	0.00	0.00	42.42	3.86
4811	5209	6.018588	CCAAACATTTGACGTACAGTAGTTCA	60.019	38.462	5.91	0.00	40.55	3.18
4815	5213	5.917541	ACCAAACATTTGACGTACAGTAG	57.082	39.130	5.91	0.00	40.55	2.57
4880	5280	6.316140	TGTTACATTCTCCAATTCTCATTCCG	59.684	38.462	0.00	0.00	0.00	4.30
4959	5359	1.002315	TGCTCTGCTTGTGAGTGCATA	59.998	47.619	0.00	0.00	38.59	3.14
4977	5377	3.157217	ATGGCGATCCCTCTCGTGC	62.157	63.158	0.00	0.00	40.73	5.34
4993	5885	1.787155	GGTACGTATGCGCTTCTGATG	59.213	52.381	9.73	0.00	42.83	3.07
5023	5921	3.561120	TTCTTGGCCGCGGGTGATT	62.561	57.895	29.38	0.00	0.00	2.57
5026	5924	4.038080	GTTTCTTGGCCGCGGGTG	62.038	66.667	29.38	0.83	0.00	4.61
5076	5999	2.740055	CAGGCGCGTTCTGAAGCT	60.740	61.111	21.27	0.00	34.36	3.74
5095	6018	4.778143	GCAGGGCGGATTCGTGGT	62.778	66.667	0.00	0.00	38.89	4.16
5102	6025	1.739338	CGTAGAGAAGCAGGGCGGAT	61.739	60.000	0.00	0.00	0.00	4.18
5107	6030	0.173708	GTGGACGTAGAGAAGCAGGG	59.826	60.000	0.00	0.00	0.00	4.45
5131	6054	1.749258	GGATGCCGGTTCTTGGACC	60.749	63.158	1.90	0.00	36.31	4.46
5187	6110	1.165907	CGGCCTTTTGTGTGCTCAGA	61.166	55.000	0.00	0.00	0.00	3.27
5198	6121	0.891904	ACGTAATGTGCCGGCCTTTT	60.892	50.000	26.77	16.54	0.00	2.27
5268	6191	4.075854	TCGCATGCCGCCACACTA	62.076	61.111	13.15	0.00	37.30	2.74
5321	6244	1.775962	GAGTCGCAACTCGCAACTC	59.224	57.895	0.00	0.00	42.42	3.01
5322	6245	3.938112	GAGTCGCAACTCGCAACT	58.062	55.556	0.00	0.00	42.42	3.16
5373	6296	1.682257	GCACCCTCTCTTTCCTGCT	59.318	57.895	0.00	0.00	0.00	4.24
5389	6313	1.732941	AGCAATTTCGTATGGTCGCA	58.267	45.000	0.00	0.00	0.00	5.10
5395	6319	5.050769	AGCGAGACATAAGCAATTTCGTATG	60.051	40.000	8.90	8.90	35.49	2.39
5442	6370	4.891727	ATTCCGGCGGCTGCTACG	62.892	66.667	23.83	13.39	42.25	3.51
5443	6371	3.272334	CATTCCGGCGGCTGCTAC	61.272	66.667	23.83	0.00	42.25	3.58
5444	6372	4.545706	CCATTCCGGCGGCTGCTA	62.546	66.667	23.83	0.00	42.25	3.49

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.