AutoCloner

Multiple sequence alignment - TraesCS3A01G423400

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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	TraesCS3A01G423400	chr3A	100.000	6274	0	0	1	6274	665953720	665959993	0.000000e+00	11587
1	TraesCS3A01G423400	chr3B	95.383	5371	151	31	17	5354	702681182	702686488	0.000000e+00	8455
2	TraesCS3A01G423400	chr3B	87.028	424	43	10	5334	5753	702686509	702686924	9.520000e-128	468
3	TraesCS3A01G423400	chr3B	91.837	147	8	2	6130	6274	702687566	702687710	1.070000e-47	202
4	TraesCS3A01G423400	chr3B	88.235	102	12	0	2213	2314	532452760	532452659	8.540000e-24	122
5	TraesCS3A01G423400	chr2D	92.899	5661	275	55	631	6274	380087623	380082073	0.000000e+00	8109
6	TraesCS3A01G423400	chr2D	96.894	4669	131	3	994	5660	13211118	13215774	0.000000e+00	7806
7	TraesCS3A01G423400	chr2D	96.380	3204	85	15	2571	5774	46679685	46682857	0.000000e+00	5245
8	TraesCS3A01G423400	chr2D	97.254	1821	48	2	768	2586	46677484	46679304	0.000000e+00	3085
9	TraesCS3A01G423400	chr2D	86.551	1212	100	38	17	1186	46674684	46675874	0.000000e+00	1277
10	TraesCS3A01G423400	chr2D	96.000	75	0	3	664	737	46675890	46675962	1.100000e-22	119
11	TraesCS3A01G423400	chr3D	96.724	4884	133	15	894	5767	426166458	426161592	0.000000e+00	8107
12	TraesCS3A01G423400	chr3D	94.421	5108	214	37	613	5696	531348128	531353188	0.000000e+00	7788
13	TraesCS3A01G423400	chr3D	94.883	4983	183	42	276	5207	464059414	464054453	0.000000e+00	7723
14	TraesCS3A01G423400	chr3D	84.600	513	67	9	5767	6274	464053762	464053257	3.380000e-137	499
15	TraesCS3A01G423400	chr3D	93.084	347	15	8	5246	5589	464054471	464054131	3.380000e-137	499
16	TraesCS3A01G423400	chr3D	91.029	379	14	7	10	381	531300573	531300938	1.570000e-135	494
17	TraesCS3A01G423400	chr3D	85.649	439	37	20	5850	6274	531363745	531364171	7.470000e-119	438
18	TraesCS3A01G423400	chr3D	95.930	172	2	2	417	585	531303389	531303558	2.230000e-69	274
19	TraesCS3A01G423400	chr3D	91.667	72	6	0	75	146	464059482	464059411	4.000000e-17	100
20	TraesCS3A01G423400	chr3D	86.765	68	7	2	5707	5774	531353221	531353286	2.430000e-09	75
21	TraesCS3A01G423400	chr6A	75.745	2585	584	37	1475	4036	169190088	169192652	0.000000e+00	1260
22	TraesCS3A01G423400	chr6A	85.841	113	12	1	4634	4742	456719984	456720096	3.970000e-22	117
23	TraesCS3A01G423400	chr1A	77.970	985	133	46	185	1115	77271267	77272221	1.990000e-149	540
24	TraesCS3A01G423400	chr1A	78.854	506	70	25	641	1114	542360346	542360846	2.200000e-79	307
25	TraesCS3A01G423400	chr1B	76.690	991	130	55	185	1115	120038322	120039271	2.060000e-124	457
26	TraesCS3A01G423400	chr6B	86.239	109	15	0	4634	4742	504590213	504590105	1.100000e-22	119

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	TraesCS3A01G423400	chr3A	665953720	665959993	6273	False	11587.000000	11587	100.00000	1	6274	1	chr3A.!!$F1	6273
1	TraesCS3A01G423400	chr3B	702681182	702687710	6528	False	3041.666667	8455	91.41600	17	6274	3	chr3B.!!$F1	6257
2	TraesCS3A01G423400	chr2D	380082073	380087623	5550	True	8109.000000	8109	92.89900	631	6274	1	chr2D.!!$R1	5643
3	TraesCS3A01G423400	chr2D	13211118	13215774	4656	False	7806.000000	7806	96.89400	994	5660	1	chr2D.!!$F1	4666
4	TraesCS3A01G423400	chr2D	46674684	46682857	8173	False	2431.500000	5245	94.04625	17	5774	4	chr2D.!!$F2	5757
5	TraesCS3A01G423400	chr3D	426161592	426166458	4866	True	8107.000000	8107	96.72400	894	5767	1	chr3D.!!$R1	4873
6	TraesCS3A01G423400	chr3D	531348128	531353286	5158	False	3931.500000	7788	90.59300	613	5774	2	chr3D.!!$F3	5161
7	TraesCS3A01G423400	chr3D	464053257	464059482	6225	True	2205.250000	7723	91.05850	75	6274	4	chr3D.!!$R2	6199
8	TraesCS3A01G423400	chr3D	531300573	531303558	2985	False	384.000000	494	93.47950	10	585	2	chr3D.!!$F2	575
9	TraesCS3A01G423400	chr6A	169190088	169192652	2564	False	1260.000000	1260	75.74500	1475	4036	1	chr6A.!!$F1	2561
10	TraesCS3A01G423400	chr1A	77271267	77272221	954	False	540.000000	540	77.97000	185	1115	1	chr1A.!!$F1	930
11	TraesCS3A01G423400	chr1A	542360346	542360846	500	False	307.000000	307	78.85400	641	1114	1	chr1A.!!$F2	473
12	TraesCS3A01G423400	chr1B	120038322	120039271	949	False	457.000000	457	76.69000	185	1115	1	chr1B.!!$F1	930

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
610	3122	0.042131	ATCCTTGTGTCCTACCCCGA	59.958	55.000	0.00	0.0	0.00	5.14	F
743	3302	0.768997	TTTCCCCGGGTCTGAGGAAA	60.769	55.000	21.85	17.3	44.15	3.13	F
750	3309	2.280628	CGGGTCTGAGGAAATGCTAAC	58.719	52.381	0.00	0.0	0.00	2.34	F
3114	8118	2.034104	TCTGTCTCTGCATGGCAATC	57.966	50.000	0.00	0.0	38.41	2.67	F
4241	9252	0.179113	CATTGGTTATTGTGCCCGCC	60.179	55.000	0.00	0.0	0.00	6.13	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1472	6080	4.462508	TGAGTGCCTCAGAGTGAATAAG	57.537	45.455	0.00	0.00	35.39	1.73	R
2858	7862	2.569404	ACTAACTAAAGGCAGCTCAGCT	59.431	45.455	0.00	0.00	40.77	4.24	R
3155	8159	2.230508	CAGGTCGAGTGTAGCAAGGTTA	59.769	50.000	0.00	0.00	0.00	2.85	R
4790	9801	0.318699	CGAAGTTCACGTCCAGCAGA	60.319	55.000	3.32	0.00	0.00	4.26	R
5924	11332	0.322456	TTTCAGATGAACTGGGCCCG	60.322	55.000	19.37	14.85	45.76	6.13	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
24	25	4.501433	AGGATCTGGCTCTCCATCTTTAT	58.499	43.478	0.00	0.00	42.51	1.40
100	103	1.651737	AACCCCCTTTGCAATTACCC	58.348	50.000	0.00	0.00	0.00	3.69
101	104	0.252513	ACCCCCTTTGCAATTACCCC	60.253	55.000	0.00	0.00	0.00	4.95
241	251	4.129148	GTGATGGGGAGGGGGCAC	62.129	72.222	0.00	0.00	0.00	5.01
290	300	1.153369	CAGCGGTGGAGGTGTATGG	60.153	63.158	6.74	0.00	35.15	2.74
525	3034	4.705110	ACCATGCAGCATTACTATACCA	57.295	40.909	4.69	0.00	0.00	3.25
585	3097	5.345741	GTGAATTTGTTGGATGGATGTTTCG	59.654	40.000	0.00	0.00	0.00	3.46
596	3108	1.463674	GATGTTTCGTGGGCATCCTT	58.536	50.000	0.00	0.00	34.55	3.36
597	3109	1.133025	GATGTTTCGTGGGCATCCTTG	59.867	52.381	0.00	0.00	34.55	3.61
598	3110	0.179004	TGTTTCGTGGGCATCCTTGT	60.179	50.000	0.00	0.00	0.00	3.16
599	3111	0.240945	GTTTCGTGGGCATCCTTGTG	59.759	55.000	0.00	0.00	0.00	3.33
600	3112	0.179004	TTTCGTGGGCATCCTTGTGT	60.179	50.000	0.00	0.00	0.00	3.72
602	3114	2.040544	CGTGGGCATCCTTGTGTCC	61.041	63.158	0.00	0.00	44.23	4.02
603	3115	1.380302	GTGGGCATCCTTGTGTCCT	59.620	57.895	0.00	0.00	44.28	3.85
604	3116	0.618458	GTGGGCATCCTTGTGTCCTA	59.382	55.000	0.00	0.00	44.28	2.94
605	3117	0.618458	TGGGCATCCTTGTGTCCTAC	59.382	55.000	0.00	0.00	44.28	3.18
609	3121	0.178068	CATCCTTGTGTCCTACCCCG	59.822	60.000	0.00	0.00	0.00	5.73
610	3122	0.042131	ATCCTTGTGTCCTACCCCGA	59.958	55.000	0.00	0.00	0.00	5.14
611	3123	0.901580	TCCTTGTGTCCTACCCCGAC	60.902	60.000	0.00	0.00	0.00	4.79
614	3142	3.376078	GTGTCCTACCCCGACGCA	61.376	66.667	0.00	0.00	39.89	5.24
738	3297	2.931649	GGGTTTCCCCGGGTCTGA	60.932	66.667	21.85	6.81	42.41	3.27
743	3302	0.768997	TTTCCCCGGGTCTGAGGAAA	60.769	55.000	21.85	17.30	44.15	3.13
750	3309	2.280628	CGGGTCTGAGGAAATGCTAAC	58.719	52.381	0.00	0.00	0.00	2.34
806	3367	5.064579	TGTGTTGTGTGATGTTACTGAACTG	59.935	40.000	0.00	0.00	36.45	3.16
828	3392	4.586841	TGTAATGGGCTTGCTTGTTTACTT	59.413	37.500	0.00	0.00	0.00	2.24
856	3427	3.244181	TGTGTCTTGAGCTGAGCATTACA	60.244	43.478	7.39	0.46	0.00	2.41
951	5547	6.808829	ACATTTGATTGAGTTGAGCTTTTCA	58.191	32.000	0.00	0.00	0.00	2.69
960	5556	3.887716	AGTTGAGCTTTTCATCTGCTGTT	59.112	39.130	0.00	0.00	35.13	3.16
966	5562	5.555017	AGCTTTTCATCTGCTGTTTCTCTA	58.445	37.500	0.00	0.00	35.54	2.43
1144	5749	4.344679	TGTTTTGAAGCCTTGAACATCCAT	59.655	37.500	0.00	0.00	0.00	3.41
1172	5777	8.117813	TGGTTCAGATAAATAAAAACCTGACC	57.882	34.615	0.00	0.00	37.60	4.02
1189	5794	5.163513	CCTGACCATTACTTCAATTGTTGC	58.836	41.667	5.13	0.00	0.00	4.17
1396	6004	7.083062	AGAACATAATAGCAATGGGATCTCA	57.917	36.000	0.00	0.00	0.00	3.27
1397	6005	7.166851	AGAACATAATAGCAATGGGATCTCAG	58.833	38.462	0.00	0.00	0.00	3.35
3114	8118	2.034104	TCTGTCTCTGCATGGCAATC	57.966	50.000	0.00	0.00	38.41	2.67
3155	8159	3.963428	ATAGAACTCTTCAACTGCCGT	57.037	42.857	0.00	0.00	0.00	5.68
3170	8174	1.337447	TGCCGTAACCTTGCTACACTC	60.337	52.381	0.00	0.00	0.00	3.51
3524	8528	5.753921	GTCTTCTAATGGATTAGTTGGACCG	59.246	44.000	6.34	0.00	40.41	4.79
3803	8814	3.365767	GCTCACTGCTGTTCTTCAATTCC	60.366	47.826	0.00	0.00	38.95	3.01
4105	9116	2.580601	GCACTGGTCGTAGGGTGGT	61.581	63.158	0.00	0.00	0.00	4.16
4173	9184	2.227149	TCACTTGCTGTCATCATTGTGC	59.773	45.455	5.82	0.00	0.00	4.57
4241	9252	0.179113	CATTGGTTATTGTGCCCGCC	60.179	55.000	0.00	0.00	0.00	6.13
4484	9495	0.458543	TCGCGATCAAGAGGCTTCAC	60.459	55.000	3.71	0.00	0.00	3.18
4733	9744	0.971386	CTGCCCATGGACTTGCTTTT	59.029	50.000	15.22	0.00	0.00	2.27
4790	9801	4.618927	CGGGACATGAAATCAAGCAACATT	60.619	41.667	0.00	0.00	0.00	2.71
5159	10176	4.101448	ATCGCCCTGGACTGCACC	62.101	66.667	0.00	0.00	0.00	5.01
5276	10293	3.164269	AGGGGCGGCACATAGAGG	61.164	66.667	15.94	0.00	0.00	3.69
5499	10570	4.276926	GGTGTTTCACAAGCTCTGAAGATT	59.723	41.667	6.83	0.00	35.86	2.40
5517	10588	5.581126	AGATTGTTGTGCTGAAAGTTCAA	57.419	34.783	0.00	0.00	36.64	2.69
5624	10698	6.647067	GCTCTTATACTCTGTTGTTGTTCACT	59.353	38.462	0.00	0.00	0.00	3.41
5625	10699	7.171678	GCTCTTATACTCTGTTGTTGTTCACTT	59.828	37.037	0.00	0.00	0.00	3.16
5627	10701	8.826710	TCTTATACTCTGTTGTTGTTCACTTTG	58.173	33.333	0.00	0.00	0.00	2.77
5629	10703	5.296813	ACTCTGTTGTTGTTCACTTTGTC	57.703	39.130	0.00	0.00	0.00	3.18
5683	10764	1.343142	TCTGTGTCGTAGTGCACCATT	59.657	47.619	14.63	0.00	34.80	3.16
5692	10773	1.901591	AGTGCACCATTGAACTCCTG	58.098	50.000	14.63	0.00	36.88	3.86
5700	10781	4.466370	CACCATTGAACTCCTGGTAGTCTA	59.534	45.833	0.00	0.00	41.30	2.59
5763	10867	6.302269	TCTTCTGCTCTTCATTCTTCCTTTT	58.698	36.000	0.00	0.00	0.00	2.27
5801	11176	7.933033	AGGTTTTGAAAATACATCATGCAAAGT	59.067	29.630	0.00	0.00	0.00	2.66
5831	11206	0.389426	GCAAGCTTGTCTGCAATGGG	60.389	55.000	26.55	0.00	33.65	4.00
5853	11250	3.304057	GCTGTCTCCAGGAAAAGAAAACG	60.304	47.826	0.00	0.00	39.22	3.60
5901	11298	1.860326	CGGCCTGAAAACTTGCAAAAG	59.140	47.619	0.00	0.00	0.00	2.27
5913	11310	2.363306	TGCAAAAGGAAGCTTCTGGA	57.637	45.000	25.05	14.17	0.00	3.86
5924	11332	1.034292	GCTTCTGGAGGCAATGTCCC	61.034	60.000	0.00	0.00	32.49	4.46
5925	11333	0.745845	CTTCTGGAGGCAATGTCCCG	60.746	60.000	0.00	0.00	32.49	5.14
5926	11334	2.124570	CTGGAGGCAATGTCCCGG	60.125	66.667	0.00	0.00	32.49	5.73
5957	11365	3.398954	TCTGAAAGAACGTGTTGCAAC	57.601	42.857	22.83	22.83	42.31	4.17
5968	11376	6.910433	AGAACGTGTTGCAACTATACAAAAAG	59.090	34.615	28.61	11.60	0.00	2.27
5970	11378	4.381566	CGTGTTGCAACTATACAAAAAGGC	59.618	41.667	28.61	0.00	0.00	4.35
5971	11379	5.285651	GTGTTGCAACTATACAAAAAGGCA	58.714	37.500	28.61	1.83	0.00	4.75
6001	11410	1.187567	GGTGCCATTGCCACTTTCCT	61.188	55.000	0.00	0.00	36.33	3.36
6101	11518	2.101415	TGTGTTGAGTCCAGACTGTCTG	59.899	50.000	26.94	26.94	42.66	3.51
6114	11531	4.573900	AGACTGTCTGATGTTCATTCCAC	58.426	43.478	10.00	0.00	0.00	4.02
6118	11535	3.327464	TGTCTGATGTTCATTCCACAGGA	59.673	43.478	0.00	0.00	0.00	3.86
6135	11552	0.034670	GGAACATCCTGGAGCAGCTT	60.035	55.000	1.52	0.00	32.53	3.74
6215	11646	9.729023	TTTAACACACATGATGAAACAAAGTAG	57.271	29.630	0.00	0.00	0.00	2.57
6216	11647	6.942532	ACACACATGATGAAACAAAGTAGT	57.057	33.333	0.00	0.00	0.00	2.73
6217	11648	8.445275	AACACACATGATGAAACAAAGTAGTA	57.555	30.769	0.00	0.00	0.00	1.82
6220	11651	8.011673	CACACATGATGAAACAAAGTAGTACTG	58.988	37.037	5.39	0.00	0.00	2.74

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	5.188434	TGTTTGCAGGATAAAGATGGAGAG	58.812	41.667	0.00	0.00	0.00	3.20
15	16	5.902613	TCTTGTTTGCAGGATAAAGATGG	57.097	39.130	0.00	0.00	0.00	3.51
24	25	5.593909	TCAGATCTTTTTCTTGTTTGCAGGA	59.406	36.000	0.00	0.00	0.00	3.86
100	103	5.518487	GTGACAATAATACAAATTTGCGGGG	59.482	40.000	18.12	4.48	0.00	5.73
101	104	5.518487	GGTGACAATAATACAAATTTGCGGG	59.482	40.000	18.12	3.97	0.00	6.13
241	251	2.542178	TGACAAGAACCACGTCAAATCG	59.458	45.455	0.00	0.00	36.75	3.34
290	300	1.856012	GCACAGAACAGTCGTGCTC	59.144	57.895	13.05	0.00	44.10	4.26
525	3034	6.117975	TGTTTTCCTATAACGAGAAAGGGT	57.882	37.500	0.00	0.00	31.59	4.34
585	3097	0.618458	TAGGACACAAGGATGCCCAC	59.382	55.000	0.00	0.00	33.88	4.61
596	3108	3.376078	GCGTCGGGGTAGGACACA	61.376	66.667	0.00	0.00	34.04	3.72
597	3109	2.234913	AATGCGTCGGGGTAGGACAC	62.235	60.000	0.00	0.00	34.04	3.67
598	3110	0.683828	TAATGCGTCGGGGTAGGACA	60.684	55.000	0.00	0.00	34.04	4.02
599	3111	0.031721	CTAATGCGTCGGGGTAGGAC	59.968	60.000	0.00	0.00	0.00	3.85
600	3112	1.111116	CCTAATGCGTCGGGGTAGGA	61.111	60.000	0.00	0.00	34.41	2.94
602	3114	1.111116	TCCCTAATGCGTCGGGGTAG	61.111	60.000	12.07	0.00	39.80	3.18
603	3115	1.076118	TCCCTAATGCGTCGGGGTA	60.076	57.895	12.07	0.65	39.80	3.69
604	3116	2.364579	TCCCTAATGCGTCGGGGT	60.365	61.111	12.07	0.00	39.80	4.95
605	3117	2.421739	CTCCCTAATGCGTCGGGG	59.578	66.667	12.07	10.67	38.55	5.73
609	3121	0.255033	AAACCCCTCCCTAATGCGTC	59.745	55.000	0.00	0.00	0.00	5.19
610	3122	1.587066	TAAACCCCTCCCTAATGCGT	58.413	50.000	0.00	0.00	0.00	5.24
611	3123	2.092592	AGTTAAACCCCTCCCTAATGCG	60.093	50.000	0.00	0.00	0.00	4.73
614	3142	4.813133	GCACAAGTTAAACCCCTCCCTAAT	60.813	45.833	0.00	0.00	0.00	1.73
735	3294	5.083533	ACTCTCAGTTAGCATTTCCTCAG	57.916	43.478	0.00	0.00	0.00	3.35
736	3295	6.798427	ATACTCTCAGTTAGCATTTCCTCA	57.202	37.500	0.00	0.00	0.00	3.86
750	3309	8.478877	AGACCCACAAGTTATAAATACTCTCAG	58.521	37.037	0.00	0.00	0.00	3.35
773	3332	2.004017	TCACACAACACAACGGAAGAC	58.996	47.619	0.00	0.00	0.00	3.01
806	3367	4.783764	AGTAAACAAGCAAGCCCATTAC	57.216	40.909	0.00	0.00	0.00	1.89
828	3392	4.248859	GCTCAGCTCAAGACACAAGAATA	58.751	43.478	0.00	0.00	0.00	1.75
960	5556	9.884636	TTTGCTGCTATTAGTTACAATAGAGAA	57.115	29.630	14.24	5.47	39.77	2.87
966	5562	9.231297	TCTTTCTTTGCTGCTATTAGTTACAAT	57.769	29.630	0.00	0.00	0.00	2.71
1144	5749	9.581289	TCAGGTTTTTATTTATCTGAACCAGAA	57.419	29.630	0.43	0.00	44.04	3.02
1172	5777	6.680810	TGAGGAAGCAACAATTGAAGTAATG	58.319	36.000	13.59	2.58	0.00	1.90
1189	5794	7.929941	ACTTTTCCTTTAGCTTATGAGGAAG	57.070	36.000	15.07	10.12	45.93	3.46
1272	5879	4.708868	TGTCAAAAGTTCGTCATCTTCG	57.291	40.909	0.00	0.00	0.00	3.79
1396	6004	2.773087	AGAATGAGAAGGCAGATGCTCT	59.227	45.455	4.59	0.40	41.70	4.09
1397	6005	3.196939	AGAATGAGAAGGCAGATGCTC	57.803	47.619	4.59	0.00	41.70	4.26
1472	6080	4.462508	TGAGTGCCTCAGAGTGAATAAG	57.537	45.455	0.00	0.00	35.39	1.73
2858	7862	2.569404	ACTAACTAAAGGCAGCTCAGCT	59.431	45.455	0.00	0.00	40.77	4.24
3155	8159	2.230508	CAGGTCGAGTGTAGCAAGGTTA	59.769	50.000	0.00	0.00	0.00	2.85
3170	8174	5.457140	GTCAGATTATTAGAGCTCAGGTCG	58.543	45.833	17.77	2.76	35.00	4.79
3524	8528	0.807496	GTGCAGACCAAGGAAGCATC	59.193	55.000	0.00	0.00	37.56	3.91
3803	8814	3.012518	CCCTGAGAAATGGTTACTGCTG	58.987	50.000	0.00	0.00	0.00	4.41
4105	9116	3.632145	TCGAACTCGATGAGATGGATGAA	59.368	43.478	0.00	0.00	44.22	2.57
4173	9184	8.740906	TCTCAGATAAAACACCAGAAGTACTAG	58.259	37.037	0.00	0.00	0.00	2.57
4241	9252	0.462047	CAGTAGCCTTGGCCTTACCG	60.462	60.000	3.32	0.00	43.94	4.02
4325	9336	3.130869	ACAGTGAATGCTGAAAAGTTGCA	59.869	39.130	0.00	0.00	39.62	4.08
4484	9495	1.746615	CTGGAACTGATGGCCACCG	60.747	63.158	8.16	0.98	0.00	4.94
4733	9744	4.012374	GAGGCACAAATCCTTCATGAAGA	58.988	43.478	32.49	20.05	40.79	2.87
4790	9801	0.318699	CGAAGTTCACGTCCAGCAGA	60.319	55.000	3.32	0.00	0.00	4.26
4967	9984	1.681166	CCTGTAAGCAGCTCCAGCATT	60.681	52.381	14.08	0.00	45.16	3.56
5033	10050	2.278596	CATCGTACCCAGCCGACG	60.279	66.667	0.00	0.00	35.69	5.12
5162	10179	2.182030	CTCTTCCACGGCTCGTCC	59.818	66.667	0.00	0.00	38.32	4.79
5276	10293	1.004918	AACAGTGCTACGAGGCCAC	60.005	57.895	5.01	0.00	0.00	5.01
5499	10570	5.450412	GGAGAATTGAACTTTCAGCACAACA	60.450	40.000	0.00	0.00	38.61	3.33
5517	10588	9.783081	AAATGCATAAACAAAAGAAAGGAGAAT	57.217	25.926	0.00	0.00	0.00	2.40
5683	10764	4.737578	ACAACTAGACTACCAGGAGTTCA	58.262	43.478	0.00	0.00	0.00	3.18
5692	10773	5.621781	GCAGAACCAGTACAACTAGACTACC	60.622	48.000	0.00	0.00	0.00	3.18
5700	10781	3.580458	AGATGAGCAGAACCAGTACAACT	59.420	43.478	0.00	0.00	0.00	3.16
5763	10867	4.733077	TTCAAAACCTCCATAGAACCCA	57.267	40.909	0.00	0.00	0.00	4.51
5801	11176	5.620654	GCAGACAAGCTTGCAGATTCAATAA	60.621	40.000	26.27	0.00	0.00	1.40
5901	11298	1.101331	CATTGCCTCCAGAAGCTTCC	58.899	55.000	22.81	7.00	0.00	3.46
5924	11332	0.322456	TTTCAGATGAACTGGGCCCG	60.322	55.000	19.37	14.85	45.76	6.13
5925	11333	1.004745	TCTTTCAGATGAACTGGGCCC	59.995	52.381	17.59	17.59	45.76	5.80
5926	11334	2.489722	GTTCTTTCAGATGAACTGGGCC	59.510	50.000	0.00	0.00	45.76	5.80
5929	11337	3.809832	ACACGTTCTTTCAGATGAACTGG	59.190	43.478	12.29	8.18	45.76	4.00
5950	11358	5.768317	TCTGCCTTTTTGTATAGTTGCAAC	58.232	37.500	22.17	22.17	0.00	4.17
5957	11365	6.255887	CGGTAGAACTCTGCCTTTTTGTATAG	59.744	42.308	11.47	0.00	45.16	1.31
5968	11376	1.448013	GCACCGGTAGAACTCTGCC	60.448	63.158	6.87	3.89	44.09	4.85
5970	11378	0.537188	ATGGCACCGGTAGAACTCTG	59.463	55.000	6.87	0.00	0.00	3.35
5971	11379	1.066143	CAATGGCACCGGTAGAACTCT	60.066	52.381	6.87	0.00	0.00	3.24
6001	11410	1.517361	CCCAGCATGTCGTCAGCTA	59.483	57.895	0.00	0.00	36.73	3.32
6069	11482	9.601217	GTCTGGACTCAACACACTATAAATAAT	57.399	33.333	0.00	0.00	0.00	1.28
6070	11483	8.812972	AGTCTGGACTCAACACACTATAAATAA	58.187	33.333	0.00	0.00	36.92	1.40
6072	11485	7.099764	CAGTCTGGACTCAACACACTATAAAT	58.900	38.462	0.00	0.00	40.20	1.40
6088	11505	3.667497	TGAACATCAGACAGTCTGGAC	57.333	47.619	27.15	15.28	44.39	4.02
6093	11510	4.318332	TGTGGAATGAACATCAGACAGTC	58.682	43.478	0.00	0.00	0.00	3.51
6118	11535	0.403271	ACAAGCTGCTCCAGGATGTT	59.597	50.000	1.00	0.00	31.21	2.71
6158	11575	4.368543	GCTGTGCTTTGCTGGGGC	62.369	66.667	0.00	0.00	39.26	5.80

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.