AutoCloner

Multiple sequence alignment - TraesCS4B01G391100

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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	TraesCS4B01G391100	chr4B	100.000	2692	0	0	1	2692	666782173	666779482	0.000000e+00	4972
1	TraesCS4B01G391100	chr2B	94.276	926	33	8	1535	2442	29128327	29129250	0.000000e+00	1399
2	TraesCS4B01G391100	chr2B	86.638	943	108	13	1127	2054	737768305	737767366	0.000000e+00	1027
3	TraesCS4B01G391100	chr2B	86.426	943	110	13	1127	2054	737852124	737851185	0.000000e+00	1016
4	TraesCS4B01G391100	chr2B	86.123	944	111	15	1127	2054	737790252	737789313	0.000000e+00	1000
5	TraesCS4B01G391100	chr2B	96.000	575	23	0	897	1471	29127682	29128256	0.000000e+00	935
6	TraesCS4B01G391100	chr2B	82.228	1086	175	14	984	2054	635064000	635062918	0.000000e+00	920
7	TraesCS4B01G391100	chr2B	83.926	815	109	15	1256	2054	642832945	642833753	0.000000e+00	760
8	TraesCS4B01G391100	chr2B	94.030	335	16	4	526	858	29106560	29106892	3.090000e-139	505
9	TraesCS4B01G391100	chr2B	93.927	247	11	4	2440	2685	29129331	29129574	1.180000e-98	370
10	TraesCS4B01G391100	chr2B	84.273	337	53	0	926	1262	642832437	642832773	2.000000e-86	329
11	TraesCS4B01G391100	chr2B	82.353	136	19	2	900	1034	737852255	737852124	2.190000e-21	113
12	TraesCS4B01G391100	chr1A	89.738	877	65	12	48	904	589116632	589117503	0.000000e+00	1098
13	TraesCS4B01G391100	chr1A	89.192	879	67	15	48	904	515791644	515792516	0.000000e+00	1072
14	TraesCS4B01G391100	chr1A	82.597	1086	170	14	984	2054	42499487	42498406	0.000000e+00	941
15	TraesCS4B01G391100	chr2A	89.624	877	66	12	48	904	771808448	771809319	0.000000e+00	1092
16	TraesCS4B01G391100	chr5A	85.255	1058	128	17	913	1955	552843325	552844369	0.000000e+00	1064
17	TraesCS4B01G391100	chr5A	82.044	1125	163	19	1004	2104	341870616	341869507	0.000000e+00	922
18	TraesCS4B01G391100	chr5A	81.422	1125	173	20	1004	2104	590561337	590562449	0.000000e+00	887
19	TraesCS4B01G391100	chr6B	80.684	1403	203	42	1178	2540	56015062	56016436	0.000000e+00	1027
20	TraesCS4B01G391100	chr1B	88.759	854	56	16	48	888	40947850	40947024	0.000000e+00	1009
21	TraesCS4B01G391100	chr1B	88.056	854	62	16	48	888	39830795	39829969	0.000000e+00	976
22	TraesCS4B01G391100	chr7B	82.327	1126	159	22	1004	2104	703295022	703293912	0.000000e+00	941
23	TraesCS4B01G391100	chr4D	86.059	746	80	7	1316	2048	50981432	50982166	0.000000e+00	780
24	TraesCS4B01G391100	chr3A	76.830	1079	192	36	998	2054	158740511	158739469	3.030000e-154	555

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	TraesCS4B01G391100	chr4B	666779482	666782173	2691	True	4972.000000	4972	100.000000	1	2692	1	chr4B.!!$R1	2691
1	TraesCS4B01G391100	chr2B	737767366	737768305	939	True	1027.000000	1027	86.638000	1127	2054	1	chr2B.!!$R2	927
2	TraesCS4B01G391100	chr2B	737789313	737790252	939	True	1000.000000	1000	86.123000	1127	2054	1	chr2B.!!$R3	927
3	TraesCS4B01G391100	chr2B	635062918	635064000	1082	True	920.000000	920	82.228000	984	2054	1	chr2B.!!$R1	1070
4	TraesCS4B01G391100	chr2B	29127682	29129574	1892	False	901.333333	1399	94.734333	897	2685	3	chr2B.!!$F2	1788
5	TraesCS4B01G391100	chr2B	737851185	737852255	1070	True	564.500000	1016	84.389500	900	2054	2	chr2B.!!$R4	1154
6	TraesCS4B01G391100	chr2B	642832437	642833753	1316	False	544.500000	760	84.099500	926	2054	2	chr2B.!!$F3	1128
7	TraesCS4B01G391100	chr1A	589116632	589117503	871	False	1098.000000	1098	89.738000	48	904	1	chr1A.!!$F2	856
8	TraesCS4B01G391100	chr1A	515791644	515792516	872	False	1072.000000	1072	89.192000	48	904	1	chr1A.!!$F1	856
9	TraesCS4B01G391100	chr1A	42498406	42499487	1081	True	941.000000	941	82.597000	984	2054	1	chr1A.!!$R1	1070
10	TraesCS4B01G391100	chr2A	771808448	771809319	871	False	1092.000000	1092	89.624000	48	904	1	chr2A.!!$F1	856
11	TraesCS4B01G391100	chr5A	552843325	552844369	1044	False	1064.000000	1064	85.255000	913	1955	1	chr5A.!!$F1	1042
12	TraesCS4B01G391100	chr5A	341869507	341870616	1109	True	922.000000	922	82.044000	1004	2104	1	chr5A.!!$R1	1100
13	TraesCS4B01G391100	chr5A	590561337	590562449	1112	False	887.000000	887	81.422000	1004	2104	1	chr5A.!!$F2	1100
14	TraesCS4B01G391100	chr6B	56015062	56016436	1374	False	1027.000000	1027	80.684000	1178	2540	1	chr6B.!!$F1	1362
15	TraesCS4B01G391100	chr1B	40947024	40947850	826	True	1009.000000	1009	88.759000	48	888	1	chr1B.!!$R2	840
16	TraesCS4B01G391100	chr1B	39829969	39830795	826	True	976.000000	976	88.056000	48	888	1	chr1B.!!$R1	840
17	TraesCS4B01G391100	chr7B	703293912	703295022	1110	True	941.000000	941	82.327000	1004	2104	1	chr7B.!!$R1	1100
18	TraesCS4B01G391100	chr4D	50981432	50982166	734	False	780.000000	780	86.059000	1316	2048	1	chr4D.!!$F1	732
19	TraesCS4B01G391100	chr3A	158739469	158740511	1042	True	555.000000	555	76.830000	998	2054	1	chr3A.!!$R1	1056

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
798	814	0.332972	ATGGGAAGAGAAAGGGGTGC	59.667	55.0	0.0	0.0	0.0	5.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1695	1926	0.032813	ATTATGTGGCCCTTGCAGCT	60.033	50.0	0.0	0.0	40.13	4.24	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
44	45	9.895138	TCATTCTTAATGATTTCAGATGTCTGA	57.105	29.630	8.58	8.58	45.16	3.27
118	119	3.964909	CCCTCGGCATAAAAATAGCAAC	58.035	45.455	0.00	0.00	0.00	4.17
119	120	3.632145	CCCTCGGCATAAAAATAGCAACT	59.368	43.478	0.00	0.00	0.00	3.16
120	121	4.819630	CCCTCGGCATAAAAATAGCAACTA	59.180	41.667	0.00	0.00	0.00	2.24
122	123	5.758296	CCTCGGCATAAAAATAGCAACTAGA	59.242	40.000	0.00	0.00	0.00	2.43
133	136	6.901081	AATAGCAACTAGAAAAACAAGGCT	57.099	33.333	0.00	0.00	0.00	4.58
197	201	2.251409	ATCTCATGCCATGAACCTCG	57.749	50.000	9.00	0.00	39.11	4.63
201	205	1.003003	TCATGCCATGAACCTCGACAA	59.997	47.619	4.55	0.00	36.11	3.18
202	206	1.399440	CATGCCATGAACCTCGACAAG	59.601	52.381	0.00	0.00	0.00	3.16
212	216	3.870633	ACCTCGACAAGACAAGTATCC	57.129	47.619	0.00	0.00	0.00	2.59
219	223	4.683832	GACAAGACAAGTATCCGCACTAT	58.316	43.478	0.00	0.00	0.00	2.12
220	224	4.433615	ACAAGACAAGTATCCGCACTATG	58.566	43.478	0.00	0.00	0.00	2.23
275	279	7.165977	GCTAATAAGTTATCAAAAGCGCCTTTC	59.834	37.037	2.29	0.00	31.99	2.62
415	428	9.463443	GCACTAAAAACTGAACATAGAAACAAT	57.537	29.630	0.00	0.00	0.00	2.71
487	502	1.648467	GAAGAAGACCATGTGGCGGC	61.648	60.000	0.00	0.00	39.32	6.53
505	520	1.550524	GGCACTGTATGTGTCTCTGGA	59.449	52.381	0.00	0.00	46.94	3.86
506	521	2.675317	GGCACTGTATGTGTCTCTGGAC	60.675	54.545	0.00	0.00	46.94	4.02
507	522	4.937492	GGCACTGTATGTGTCTCTGGACT	61.937	52.174	0.00	0.00	46.94	3.85
529	544	2.467880	TGGTAGTCCAGTTGATCCTCC	58.532	52.381	0.00	0.00	39.03	4.30
537	552	4.042884	TCCAGTTGATCCTCCTGATGAAT	58.957	43.478	5.27	0.00	32.41	2.57
544	559	6.256643	TGATCCTCCTGATGAATCAATGAA	57.743	37.500	0.00	0.00	36.18	2.57
553	568	5.600696	TGATGAATCAATGAACTAGCGCTA	58.399	37.500	17.75	17.75	33.08	4.26
554	569	5.463392	TGATGAATCAATGAACTAGCGCTAC	59.537	40.000	14.45	4.66	33.08	3.58
556	571	6.144078	TGAATCAATGAACTAGCGCTACTA	57.856	37.500	14.45	0.00	0.00	1.82
656	671	3.117888	AGAGAACAGAGAAAAAGGCACCA	60.118	43.478	0.00	0.00	0.00	4.17
676	691	7.201902	GGCACCAAATAAACATATGGATTGAGA	60.202	37.037	7.80	0.00	36.75	3.27
719	734	2.302733	GCATCAGGGATTTGTTTTGGGT	59.697	45.455	0.00	0.00	0.00	4.51
720	735	3.244526	GCATCAGGGATTTGTTTTGGGTT	60.245	43.478	0.00	0.00	0.00	4.11
735	750	4.782019	TTGGGTTAAATGTGAGTGCATC	57.218	40.909	0.00	0.00	0.00	3.91
737	752	4.148079	TGGGTTAAATGTGAGTGCATCAA	58.852	39.130	0.00	0.00	40.43	2.57
743	758	4.913335	AATGTGAGTGCATCAATCCATC	57.087	40.909	0.00	0.00	40.43	3.51
753	768	4.070716	GCATCAATCCATCGGAGAAGATT	58.929	43.478	0.00	0.00	43.58	2.40
778	794	5.760743	GGGAGCTGAGATAAAATACTTGACC	59.239	44.000	0.00	0.00	0.00	4.02
795	811	1.002857	ACCATGGGAAGAGAAAGGGG	58.997	55.000	18.09	0.00	0.00	4.79
798	814	0.332972	ATGGGAAGAGAAAGGGGTGC	59.667	55.000	0.00	0.00	0.00	5.01
807	823	1.809567	GAAAGGGGTGCTTGTGCTGG	61.810	60.000	0.00	0.00	40.48	4.85
821	837	2.037772	TGTGCTGGAAGAGAAAGAGGAC	59.962	50.000	0.00	0.00	34.07	3.85
822	838	1.273606	TGCTGGAAGAGAAAGAGGACG	59.726	52.381	0.00	0.00	34.07	4.79
823	839	1.404851	GCTGGAAGAGAAAGAGGACGG	60.405	57.143	0.00	0.00	34.07	4.79
824	840	2.171840	CTGGAAGAGAAAGAGGACGGA	58.828	52.381	0.00	0.00	34.07	4.69
833	849	2.137810	AAGAGGACGGAGAGAGAAGG	57.862	55.000	0.00	0.00	0.00	3.46
888	904	5.712152	AAATTTCTTGCAGATTCCGAAGT	57.288	34.783	0.00	0.00	0.00	3.01
890	906	7.396540	AAATTTCTTGCAGATTCCGAAGTAT	57.603	32.000	0.00	0.00	0.00	2.12
891	907	7.396540	AATTTCTTGCAGATTCCGAAGTATT	57.603	32.000	0.00	0.00	0.00	1.89
892	908	6.817765	TTTCTTGCAGATTCCGAAGTATTT	57.182	33.333	0.00	0.00	0.00	1.40
893	909	5.801350	TCTTGCAGATTCCGAAGTATTTG	57.199	39.130	0.00	0.00	0.00	2.32
894	910	4.094887	TCTTGCAGATTCCGAAGTATTTGC	59.905	41.667	0.00	0.00	33.76	3.68
895	911	3.609853	TGCAGATTCCGAAGTATTTGCT	58.390	40.909	0.00	0.00	34.14	3.91
898	914	5.050490	GCAGATTCCGAAGTATTTGCTAGA	58.950	41.667	0.00	0.00	31.33	2.43
919	935	9.304731	GCTAGATGCATCAAAATTGTATTGAAA	57.695	29.630	27.81	0.00	39.98	2.69
1047	1071	2.579541	CATGCTAGCGAGATCTACACG	58.420	52.381	10.77	0.00	35.82	4.49
1090	1114	6.587206	TTGGTGAAATCATGTATGAAGCAA	57.413	33.333	0.00	2.40	40.69	3.91
1170	1194	1.197721	CCGGAGAAACATGACAAGTGC	59.802	52.381	0.00	0.00	0.00	4.40
1188	1219	4.836825	AGTGCTGCAGAGTATTGTACATT	58.163	39.130	20.43	0.00	0.00	2.71
1212	1243	0.689080	ATGTCCTCGCTCAGGGTGAT	60.689	55.000	0.00	0.00	43.67	3.06
1279	1486	5.779529	ATGCTGCCATTCAATTAAGGTAG	57.220	39.130	0.00	0.00	37.00	3.18
1494	1705	5.564848	GCCCACCTACAAAAAGACAAGATTC	60.565	44.000	0.00	0.00	0.00	2.52
1695	1926	5.357878	AGACAAAACTTGCAGAATTGAGTCA	59.642	36.000	9.61	0.00	0.00	3.41
1778	2009	3.939740	TTGGATTAGCAGCTCCAGAAT	57.060	42.857	0.00	0.00	42.32	2.40
1787	2018	0.036732	AGCTCCAGAATGCAAACGGA	59.963	50.000	0.00	0.00	31.97	4.69
1792	2023	2.050691	CCAGAATGCAAACGGAAAACG	58.949	47.619	0.00	0.00	41.99	3.60
2124	2380	5.697633	GCAAATCACCAAAATCATGTCAAGT	59.302	36.000	0.00	0.00	0.00	3.16
2142	2398	3.423539	AGTAGCACTGAAATTCTGCCA	57.576	42.857	3.96	0.00	0.00	4.92
2146	2402	2.295349	AGCACTGAAATTCTGCCAGTTG	59.705	45.455	3.96	0.00	38.93	3.16
2237	2493	1.431195	TTTGGCTGAACCCTGGGCTA	61.431	55.000	14.08	0.00	37.83	3.93
2451	2799	9.881529	GTACTACTGAATTCTACCTATTTCTCG	57.118	37.037	7.05	0.00	0.00	4.04
2482	2830	0.250467	AATGCTCACTGCCAGTTCGT	60.250	50.000	0.00	0.00	42.00	3.85
2614	2964	6.688578	TGTCAGATAGCCTTCGTATTAATCC	58.311	40.000	0.00	0.00	0.00	3.01
2616	2966	7.030768	GTCAGATAGCCTTCGTATTAATCCTC	58.969	42.308	0.00	0.00	0.00	3.71
2620	2970	7.889073	AGATAGCCTTCGTATTAATCCTCTGTA	59.111	37.037	0.00	0.00	0.00	2.74
2644	2994	9.120538	GTATGGTAATGAACACATGTTAATCCT	57.879	33.333	0.00	0.00	38.56	3.24
2652	3002	7.458397	TGAACACATGTTAATCCTTAGGAAGT	58.542	34.615	4.56	0.00	38.56	3.01
2657	3007	8.345565	CACATGTTAATCCTTAGGAAGTTATGC	58.654	37.037	4.56	0.00	34.34	3.14
2660	3010	7.857456	TGTTAATCCTTAGGAAGTTATGCTGA	58.143	34.615	4.56	0.00	34.34	4.26
2685	3035	4.456280	TCACGAGCACATTCTTCTGTAT	57.544	40.909	0.00	0.00	0.00	2.29
2686	3036	5.576447	TCACGAGCACATTCTTCTGTATA	57.424	39.130	0.00	0.00	0.00	1.47
2687	3037	5.340803	TCACGAGCACATTCTTCTGTATAC	58.659	41.667	0.00	0.00	0.00	1.47
2688	3038	5.102313	CACGAGCACATTCTTCTGTATACA	58.898	41.667	5.25	5.25	0.00	2.29
2689	3039	5.230936	CACGAGCACATTCTTCTGTATACAG	59.769	44.000	24.37	24.37	45.08	2.74

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
34	35	1.457346	GGCCCTGTTTCAGACATCTG	58.543	55.000	2.24	2.24	45.08	2.90
35	36	0.036010	CGGCCCTGTTTCAGACATCT	60.036	55.000	0.00	0.00	37.69	2.90
36	37	0.321653	ACGGCCCTGTTTCAGACATC	60.322	55.000	0.00	0.00	37.69	3.06
37	38	0.981183	TACGGCCCTGTTTCAGACAT	59.019	50.000	0.00	0.00	37.69	3.06
38	39	0.034337	GTACGGCCCTGTTTCAGACA	59.966	55.000	0.00	0.00	36.65	3.41
39	40	0.672711	GGTACGGCCCTGTTTCAGAC	60.673	60.000	0.00	0.00	32.44	3.51
40	41	0.834687	AGGTACGGCCCTGTTTCAGA	60.835	55.000	0.00	0.00	38.26	3.27
41	42	0.673644	CAGGTACGGCCCTGTTTCAG	60.674	60.000	13.00	0.00	45.81	3.02
42	43	1.373435	CAGGTACGGCCCTGTTTCA	59.627	57.895	13.00	0.00	45.81	2.69
43	44	4.296265	CAGGTACGGCCCTGTTTC	57.704	61.111	13.00	0.00	45.81	2.78
112	113	6.709018	AAAGCCTTGTTTTTCTAGTTGCTA	57.291	33.333	0.00	0.00	0.00	3.49
115	116	7.595311	AACAAAAGCCTTGTTTTTCTAGTTG	57.405	32.000	8.36	0.00	39.36	3.16
116	117	9.313118	CATAACAAAAGCCTTGTTTTTCTAGTT	57.687	29.630	17.00	4.46	42.10	2.24
118	119	8.871686	ACATAACAAAAGCCTTGTTTTTCTAG	57.128	30.769	17.00	3.97	42.10	2.43
168	171	7.039923	GGTTCATGGCATGAGATTATCAATTCT	60.040	37.037	27.39	0.00	42.53	2.40
197	201	2.960819	AGTGCGGATACTTGTCTTGTC	58.039	47.619	0.00	0.00	0.00	3.18
201	205	5.537300	AATCATAGTGCGGATACTTGTCT	57.463	39.130	0.00	0.00	32.19	3.41
202	206	6.257849	TGAAAATCATAGTGCGGATACTTGTC	59.742	38.462	0.00	0.00	32.19	3.18
212	216	5.801350	TTCCTTCTGAAAATCATAGTGCG	57.199	39.130	0.00	0.00	0.00	5.34
247	251	5.909610	GGCGCTTTTGATAACTTATTAGCAG	59.090	40.000	7.64	0.00	37.94	4.24
275	279	3.717707	TGAAAAACTCACTCGACCTCAG	58.282	45.455	0.00	0.00	0.00	3.35
315	320	7.120138	GGAAATTTGAGTCGGGTATGAAAAGTA	59.880	37.037	0.00	0.00	0.00	2.24
317	322	6.151144	AGGAAATTTGAGTCGGGTATGAAAAG	59.849	38.462	0.00	0.00	0.00	2.27
415	428	5.779241	ATCAGAGGTTGTTTCATCCCTTA	57.221	39.130	0.00	0.00	0.00	2.69
460	475	4.141413	CCACATGGTCTTCTTCCCATATCA	60.141	45.833	0.00	0.00	39.44	2.15
529	544	4.510711	AGCGCTAGTTCATTGATTCATCAG	59.489	41.667	8.99	0.00	38.19	2.90
537	552	3.243434	GGCTAGTAGCGCTAGTTCATTGA	60.243	47.826	28.61	9.80	46.81	2.57
544	559	0.537828	GGGAGGCTAGTAGCGCTAGT	60.538	60.000	26.86	26.86	46.81	2.57
553	568	2.183679	CAAAGTCAGAGGGAGGCTAGT	58.816	52.381	0.00	0.00	0.00	2.57
554	569	2.461695	TCAAAGTCAGAGGGAGGCTAG	58.538	52.381	0.00	0.00	0.00	3.42
556	571	1.836802	GATCAAAGTCAGAGGGAGGCT	59.163	52.381	0.00	0.00	0.00	4.58
599	614	3.379372	TCAATCTCCTTATTGCTTGCTGC	59.621	43.478	0.00	0.00	43.25	5.25
656	671	9.347240	CTCCACTCTCAATCCATATGTTTATTT	57.653	33.333	1.24	0.00	0.00	1.40
700	715	6.755542	TTTAACCCAAAACAAATCCCTGAT	57.244	33.333	0.00	0.00	0.00	2.90
719	734	6.458615	CGATGGATTGATGCACTCACATTTAA	60.459	38.462	0.00	0.00	32.17	1.52
720	735	5.007921	CGATGGATTGATGCACTCACATTTA	59.992	40.000	0.00	0.00	32.17	1.40
735	750	3.144506	CCCAATCTTCTCCGATGGATTG	58.855	50.000	0.00	0.00	42.42	2.67
737	752	2.636893	CTCCCAATCTTCTCCGATGGAT	59.363	50.000	0.00	0.00	0.00	3.41
743	758	0.826715	TCAGCTCCCAATCTTCTCCG	59.173	55.000	0.00	0.00	0.00	4.63
753	768	6.349300	GTCAAGTATTTTATCTCAGCTCCCA	58.651	40.000	0.00	0.00	0.00	4.37
778	794	1.957113	GCACCCCTTTCTCTTCCCATG	60.957	57.143	0.00	0.00	0.00	3.66
795	811	1.597742	TTCTCTTCCAGCACAAGCAC	58.402	50.000	0.00	0.00	45.49	4.40
798	814	3.072944	CCTCTTTCTCTTCCAGCACAAG	58.927	50.000	0.00	0.00	0.00	3.16
807	823	3.349022	TCTCTCCGTCCTCTTTCTCTTC	58.651	50.000	0.00	0.00	0.00	2.87
821	837	1.107945	GTCTTCCCCTTCTCTCTCCG	58.892	60.000	0.00	0.00	0.00	4.63
822	838	1.107945	CGTCTTCCCCTTCTCTCTCC	58.892	60.000	0.00	0.00	0.00	3.71
823	839	1.474879	CACGTCTTCCCCTTCTCTCTC	59.525	57.143	0.00	0.00	0.00	3.20
824	840	1.075698	TCACGTCTTCCCCTTCTCTCT	59.924	52.381	0.00	0.00	0.00	3.10
833	849	2.555199	CCATCTCATTCACGTCTTCCC	58.445	52.381	0.00	0.00	0.00	3.97
893	909	8.861033	TTCAATACAATTTTGATGCATCTAGC	57.139	30.769	26.32	2.00	45.96	3.42
898	914	9.451002	TGGATTTTCAATACAATTTTGATGCAT	57.549	25.926	0.00	0.00	33.37	3.96
1047	1071	4.448005	CAAATTTGTCGAACATTGCTTGC	58.552	39.130	10.15	0.00	0.00	4.01
1049	1073	4.507388	CACCAAATTTGTCGAACATTGCTT	59.493	37.500	16.73	0.00	0.00	3.91
1090	1114	8.410673	TCAACTTCTTCTACTCTGTATTGTCT	57.589	34.615	0.00	0.00	0.00	3.41
1170	1194	7.278646	ACATGTACAATGTACAATACTCTGCAG	59.721	37.037	27.16	7.63	0.00	4.41
1188	1219	0.817654	CCTGAGCGAGGACATGTACA	59.182	55.000	11.55	0.00	46.33	2.90
1212	1243	2.553602	GCCACATTCACATGTCAGTTCA	59.446	45.455	0.00	0.00	42.14	3.18
1494	1705	5.525378	GTCTGAATGTTATGGAGTTAGCTGG	59.475	44.000	0.00	0.00	0.00	4.85
1647	1868	1.843851	TGAGTGTTCCAAACCCAGACT	59.156	47.619	0.00	0.00	0.00	3.24
1695	1926	0.032813	ATTATGTGGCCCTTGCAGCT	60.033	50.000	0.00	0.00	40.13	4.24
1727	1958	1.204146	ATGGCACTACCCTCATCGTT	58.796	50.000	0.00	0.00	37.83	3.85
1778	2009	2.024871	CCGCGTTTTCCGTTTGCA	59.975	55.556	4.92	0.00	39.32	4.08
1787	2018	1.367599	TTGTTGGTCGTCCGCGTTTT	61.368	50.000	4.92	0.00	39.49	2.43
1792	2023	1.278637	CTGTTTGTTGGTCGTCCGC	59.721	57.895	0.00	0.00	36.30	5.54
1858	2089	5.276868	GCATCGAGTTGTGATGTAACCATAC	60.277	44.000	5.03	0.00	44.02	2.39
2109	2365	6.245115	TCAGTGCTACTTGACATGATTTTG	57.755	37.500	0.00	0.00	0.00	2.44
2124	2380	3.423539	ACTGGCAGAATTTCAGTGCTA	57.576	42.857	23.66	4.21	39.89	3.49
2146	2402	1.414158	TCAGGCAGGATACAGTAGGC	58.586	55.000	0.00	0.00	41.41	3.93
2287	2543	7.330900	TCAGTAGCACACTAAGATTAGTACC	57.669	40.000	4.98	0.00	41.82	3.34
2288	2544	8.622157	TCATCAGTAGCACACTAAGATTAGTAC	58.378	37.037	4.98	0.68	41.82	2.73
2360	2618	6.093771	TGCTAAAAGTAACACGAAAACAGGAA	59.906	34.615	0.00	0.00	0.00	3.36
2448	2796	4.033358	GTGAGCATTCAGGATACAAACGAG	59.967	45.833	0.00	0.00	41.41	4.18
2451	2799	4.437930	GCAGTGAGCATTCAGGATACAAAC	60.438	45.833	0.00	0.00	44.79	2.93
2482	2830	8.293867	GCAAACACAGTACATAATTTAGGTGAA	58.706	33.333	4.07	0.00	0.00	3.18
2543	2892	7.139896	ACAATACATCACATACTCGCAAAAA	57.860	32.000	0.00	0.00	0.00	1.94
2545	2894	6.370166	TCAACAATACATCACATACTCGCAAA	59.630	34.615	0.00	0.00	0.00	3.68
2546	2895	5.872070	TCAACAATACATCACATACTCGCAA	59.128	36.000	0.00	0.00	0.00	4.85
2552	2901	9.988350	CCTAGTTTTCAACAATACATCACATAC	57.012	33.333	0.00	0.00	0.00	2.39
2614	2964	7.615582	AACATGTGTTCATTACCATACAGAG	57.384	36.000	0.00	0.00	31.64	3.35
2616	2966	9.935682	GATTAACATGTGTTCATTACCATACAG	57.064	33.333	0.00	0.00	39.31	2.74
2620	2970	8.593945	AAGGATTAACATGTGTTCATTACCAT	57.406	30.769	0.00	0.00	39.31	3.55
2644	2994	6.876789	TCGTGATTTTCAGCATAACTTCCTAA	59.123	34.615	0.00	0.00	0.00	2.69
2652	3002	3.750652	TGTGCTCGTGATTTTCAGCATAA	59.249	39.130	0.00	0.00	29.80	1.90
2657	3007	4.675190	AGAATGTGCTCGTGATTTTCAG	57.325	40.909	0.00	0.00	0.00	3.02
2660	3010	4.516698	ACAGAAGAATGTGCTCGTGATTTT	59.483	37.500	0.00	0.00	30.46	1.82

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.