AutoCloner

Multiple sequence alignment - TraesCS7B01G098400

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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	TraesCS7B01G098400	chr7B	100.000	5656	0	0	1	5656	113144706	113139051	0.000000e+00	10445.0
1	TraesCS7B01G098400	chr7B	100.000	2074	0	0	5860	7933	113138847	113136774	0.000000e+00	3831.0
2	TraesCS7B01G098400	chr7B	81.132	583	98	10	6387	6965	113131703	113131129	2.610000e-124	457.0
3	TraesCS7B01G098400	chr7B	78.541	699	100	37	740	1423	113132476	113131813	1.590000e-111	414.0
4	TraesCS7B01G098400	chr7B	84.857	350	43	4	2187	2535	750575435	750575775	2.120000e-90	344.0
5	TraesCS7B01G098400	chr7B	82.587	201	24	4	1578	1774	146139191	146138998	4.920000e-37	167.0
6	TraesCS7B01G098400	chr7B	76.378	127	21	6	3609	3728	144073614	144073490	8.600000e-05	60.2
7	TraesCS7B01G098400	chr4B	97.038	3174	74	11	2499	5656	403054224	403051055	0.000000e+00	5323.0
8	TraesCS7B01G098400	chr4B	96.370	2507	72	15	3	2500	403056980	403054484	0.000000e+00	4108.0
9	TraesCS7B01G098400	chr4B	96.838	1518	45	3	5863	7379	403050931	403049416	0.000000e+00	2534.0
10	TraesCS7B01G098400	chr4B	76.226	2549	525	54	2659	5165	35529819	35527310	0.000000e+00	1275.0
11	TraesCS7B01G098400	chr4B	97.291	443	9	3	7492	7933	403049152	403048712	0.000000e+00	749.0
12	TraesCS7B01G098400	chr4B	81.818	583	94	10	6387	6965	403035705	403035131	5.570000e-131	479.0
13	TraesCS7B01G098400	chr4B	78.398	699	101	37	740	1423	403036478	403035815	7.410000e-110	409.0
14	TraesCS7B01G098400	chr4B	87.342	79	10	0	7207	7285	638354480	638354558	3.050000e-14	91.6
15	TraesCS7B01G098400	chr4B	92.308	39	2	1	3592	3629	367310551	367310589	4.000000e-03	54.7
16	TraesCS7B01G098400	chr7A	89.772	3823	294	45	1884	5653	150909899	150906121	0.000000e+00	4804.0
17	TraesCS7B01G098400	chr7A	89.831	1298	122	3	5860	7148	150905923	150904627	0.000000e+00	1657.0
18	TraesCS7B01G098400	chr7A	92.067	958	31	16	489	1425	150911286	150910353	0.000000e+00	1306.0
19	TraesCS7B01G098400	chr7A	85.387	349	50	1	2187	2535	732596010	732596357	2.100000e-95	361.0
20	TraesCS7B01G098400	chr7A	93.413	167	11	0	7147	7313	150902037	150901871	1.710000e-61	248.0
21	TraesCS7B01G098400	chr7A	90.845	142	9	3	350	489	150913142	150913003	3.780000e-43	187.0
22	TraesCS7B01G098400	chr7A	89.130	92	10	0	1578	1669	184932556	184932465	1.810000e-21	115.0
23	TraesCS7B01G098400	chr7D	91.367	2027	118	23	1982	3962	151023599	151021584	0.000000e+00	2721.0
24	TraesCS7B01G098400	chr7D	92.376	1679	102	17	3995	5655	151021584	151019914	0.000000e+00	2368.0
25	TraesCS7B01G098400	chr7D	93.067	1428	88	4	5988	7406	151019521	151018096	0.000000e+00	2078.0
26	TraesCS7B01G098400	chr7D	94.451	811	34	4	690	1499	151024937	151024137	0.000000e+00	1238.0
27	TraesCS7B01G098400	chr7D	88.956	498	26	16	7454	7931	151017885	151017397	8.870000e-164	588.0
28	TraesCS7B01G098400	chr7D	90.747	281	15	5	1497	1774	151024034	151023762	1.630000e-96	364.0
29	TraesCS7B01G098400	chr7D	87.541	305	22	10	3	302	452691952	452691659	9.860000e-89	339.0
30	TraesCS7B01G098400	chr7D	75.621	644	114	31	805	1430	151014281	151013663	6.060000e-71	279.0
31	TraesCS7B01G098400	chr7D	86.893	206	26	1	315	519	151036499	151036294	6.190000e-56	230.0
32	TraesCS7B01G098400	chr7D	91.304	92	8	0	1578	1669	180412587	180412496	8.360000e-25	126.0
33	TraesCS7B01G098400	chr7D	83.636	110	16	2	1150	1258	381003210	381003102	1.410000e-17	102.0
34	TraesCS7B01G098400	chr7D	89.062	64	4	2	344	406	591096404	591096465	8.540000e-10	76.8
35	TraesCS7B01G098400	chr3D	71.967	1830	420	74	3167	4942	150866047	150867837	1.210000e-122	451.0
36	TraesCS7B01G098400	chr1B	90.909	297	24	3	4	299	223768204	223768498	5.770000e-106	396.0
37	TraesCS7B01G098400	chr2D	90.000	300	26	3	3	300	601265361	601265064	1.250000e-102	385.0
38	TraesCS7B01G098400	chr5D	88.816	304	23	10	1	299	443352666	443352963	5.850000e-96	363.0
39	TraesCS7B01G098400	chr1D	88.552	297	26	4	3	297	216403494	216403784	3.520000e-93	353.0
40	TraesCS7B01G098400	chr1D	87.838	296	28	4	3	297	362608165	362607877	2.740000e-89	340.0
41	TraesCS7B01G098400	chr5B	87.625	299	26	8	5	299	683355804	683355513	3.550000e-88	337.0
42	TraesCS7B01G098400	chrUn	86.755	302	34	5	3	300	191167152	191167451	1.650000e-86	331.0
43	TraesCS7B01G098400	chr2B	70.517	1740	428	72	2578	4264	485329843	485328136	7.790000e-75	292.0
44	TraesCS7B01G098400	chr5A	69.818	1809	454	70	3158	4914	624220577	624222345	1.720000e-56	231.0
45	TraesCS7B01G098400	chr5A	90.909	44	2	2	3588	3629	11917660	11917703	3.090000e-04	58.4
46	TraesCS7B01G098400	chr3B	84.783	92	13	1	313	403	507146082	507146173	3.050000e-14	91.6
47	TraesCS7B01G098400	chr6D	89.706	68	4	3	1418	1483	437776474	437776540	5.100000e-12	84.2
48	TraesCS7B01G098400	chr6A	88.889	63	6	1	1423	1484	604384209	604384147	8.540000e-10	76.8
49	TraesCS7B01G098400	chr6A	92.308	39	1	2	3592	3629	579386482	579386445	4.000000e-03	54.7
50	TraesCS7B01G098400	chr6B	84.746	59	9	0	3592	3650	281638212	281638270	8.600000e-05	60.2
51	TraesCS7B01G098400	chr3A	92.308	39	2	1	3592	3629	696151876	696151838	4.000000e-03	54.7
52	TraesCS7B01G098400	chr2A	88.636	44	5	0	3592	3635	117361321	117361278	4.000000e-03	54.7

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	TraesCS7B01G098400	chr7B	113136774	113144706	7932	True	7138.000000	10445	100.000000	1	7933	2	chr7B.!!$R4	7932
1	TraesCS7B01G098400	chr7B	113131129	113132476	1347	True	435.500000	457	79.836500	740	6965	2	chr7B.!!$R3	6225
2	TraesCS7B01G098400	chr4B	403048712	403056980	8268	True	3178.500000	5323	96.884250	3	7933	4	chr4B.!!$R3	7930
3	TraesCS7B01G098400	chr4B	35527310	35529819	2509	True	1275.000000	1275	76.226000	2659	5165	1	chr4B.!!$R1	2506
4	TraesCS7B01G098400	chr4B	403035131	403036478	1347	True	444.000000	479	80.108000	740	6965	2	chr4B.!!$R2	6225
5	TraesCS7B01G098400	chr7A	150901871	150913142	11271	True	1640.400000	4804	91.185600	350	7313	5	chr7A.!!$R2	6963
6	TraesCS7B01G098400	chr7D	151013663	151024937	11274	True	1376.571429	2721	89.512143	690	7931	7	chr7D.!!$R5	7241
7	TraesCS7B01G098400	chr3D	150866047	150867837	1790	False	451.000000	451	71.967000	3167	4942	1	chr3D.!!$F1	1775
8	TraesCS7B01G098400	chr2B	485328136	485329843	1707	True	292.000000	292	70.517000	2578	4264	1	chr2B.!!$R1	1686
9	TraesCS7B01G098400	chr5A	624220577	624222345	1768	False	231.000000	231	69.818000	3158	4914	1	chr5A.!!$F2	1756

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
238	242	0.038166	AGAAAATTGGGCCGAGCTCA	59.962	50.000	15.40	0.00	37.19	4.26	F
1167	2945	0.179000	GGCTGGACCACATCGAGATT	59.821	55.000	0.00	0.00	35.21	2.40	F
1664	3850	0.104144	TCCTCTCCCCTTCACCCAAA	60.104	55.000	0.00	0.00	0.00	3.28	F
1749	3936	2.746904	CAGTGTCTCACTCGATCTCTGT	59.253	50.000	0.00	0.00	43.43	3.41	F
2169	4418	2.892852	AGCCATAATTATGTGCGCCATT	59.107	40.909	21.20	7.81	36.02	3.16	F
3099	5635	0.740737	GTCTGTGTTTGGCAGTTGCT	59.259	50.000	3.88	0.00	41.70	3.91	F
3949	6538	4.442706	CCCCGATAGTATGCATTATCCAC	58.557	47.826	3.54	0.00	0.00	4.02	F
4479	7110	3.077359	ACTCCATTGTGAACTTAGCAGC	58.923	45.455	0.00	0.00	0.00	5.25	F
5074	7712	4.035675	GGATCAGTTTTAGGCAAATCCTCG	59.964	45.833	0.00	0.00	43.20	4.63	F
6015	8756	0.679505	CACGGACCTCCTCTTCAACA	59.320	55.000	0.00	0.00	0.00	3.33	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1664	3850	0.426022	AGGGGAAGGATTAGTGGGGT	59.574	55.000	0.00	0.00	0.00	4.95	R
2158	4407	0.820891	GGATGGAGAATGGCGCACAT	60.821	55.000	10.83	7.73	43.07	3.21	R
2563	5092	1.913419	GGGGTGGGTGTGAGATAAGAA	59.087	52.381	0.00	0.00	0.00	2.52	R
3099	5635	5.975988	AATATTTGAACAGAGAGGGCCTA	57.024	39.130	5.73	0.00	0.00	3.93	R
3905	6493	0.769247	GGGGGAGGTGTGTGTTAAGT	59.231	55.000	0.00	0.00	0.00	2.24	R
4479	7110	0.695803	AGGGGCTGGAGATAGGTTGG	60.696	60.000	0.00	0.00	0.00	3.77	R
5909	8649	1.134401	TGAGGAAGATAAGGCTTGGCG	60.134	52.381	10.69	0.00	0.00	5.69	R
5986	8727	4.041198	AGAGGAGGTCCGTGTAATTGAAAA	59.959	41.667	0.00	0.00	42.08	2.29	R
6487	9288	1.939255	GCTCTAACTCCTCAAGCATGC	59.061	52.381	10.51	10.51	33.21	4.06	R
7346	12740	1.202463	TCGCCAAAAATGTTGGTGTGG	60.202	47.619	14.77	1.60	46.95	4.17	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
76	78	1.304381	GGAGTGGGGAATTGCAGCA	60.304	57.895	0.00	0.00	0.00	4.41
82	84	1.508088	GGGAATTGCAGCAAGACGG	59.492	57.895	14.47	0.00	0.00	4.79
146	149	3.079578	CCCGTAGATATACTGCTTCGGA	58.920	50.000	14.56	0.00	39.17	4.55
150	153	2.530701	AGATATACTGCTTCGGAGGGG	58.469	52.381	0.00	0.00	0.00	4.79
151	154	2.110188	AGATATACTGCTTCGGAGGGGA	59.890	50.000	0.00	0.00	0.00	4.81
203	207	2.641559	GGGCCGGACGAGTATACG	59.358	66.667	5.05	0.00	39.31	3.06
204	208	1.893808	GGGCCGGACGAGTATACGA	60.894	63.158	5.05	0.00	37.03	3.43
218	222	4.251268	AGTATACGAACTTTGTTCTGGCC	58.749	43.478	0.00	0.00	0.00	5.36
238	242	0.038166	AGAAAATTGGGCCGAGCTCA	59.962	50.000	15.40	0.00	37.19	4.26
276	280	5.733226	TTTGCAGGTTCATGACATATACG	57.267	39.130	0.00	0.00	0.00	3.06
277	281	3.727726	TGCAGGTTCATGACATATACGG	58.272	45.455	0.00	0.00	0.00	4.02
324	329	0.535335	TAAGGACGATTTGAGGCGCT	59.465	50.000	7.64	0.00	0.00	5.92
326	331	2.517450	GGACGATTTGAGGCGCTCG	61.517	63.158	7.64	10.43	37.17	5.03
358	363	1.974265	TTTTGTGAATGGTCAGCCGA	58.026	45.000	0.00	0.00	37.67	5.54
419	424	5.307976	AGATGCTCTAATGCCCATACAACTA	59.692	40.000	0.00	0.00	0.00	2.24
948	2706	3.166679	GAGAGGAACTGTGGTCTACCTT	58.833	50.000	0.02	0.00	41.55	3.50
973	2742	5.122396	CCTCCTGTATAAACAAGAACTGTGC	59.878	44.000	0.00	0.00	38.67	4.57
1005	2774	1.606531	GAGACCTCTTGCCATGGCT	59.393	57.895	35.53	16.22	42.51	4.75
1025	2794	1.205460	GCACCACCCTCCCTTTCCTA	61.205	60.000	0.00	0.00	0.00	2.94
1167	2945	0.179000	GGCTGGACCACATCGAGATT	59.821	55.000	0.00	0.00	35.21	2.40
1664	3850	0.104144	TCCTCTCCCCTTCACCCAAA	60.104	55.000	0.00	0.00	0.00	3.28
1716	3903	3.569250	ACATTTGGTTACAATCGCCAC	57.431	42.857	0.00	0.00	36.29	5.01
1749	3936	2.746904	CAGTGTCTCACTCGATCTCTGT	59.253	50.000	0.00	0.00	43.43	3.41
2169	4418	2.892852	AGCCATAATTATGTGCGCCATT	59.107	40.909	21.20	7.81	36.02	3.16
2452	4705	5.182487	ACTTCAACCAAATCCCAAACAAAC	58.818	37.500	0.00	0.00	0.00	2.93
2548	5062	9.246670	TGGAACATTTCAATTCTTATCTCACAT	57.753	29.630	0.00	0.00	0.00	3.21
2563	5092	6.862469	ATCTCACATCAAACAAATCCCAAT	57.138	33.333	0.00	0.00	0.00	3.16
2646	5176	6.313744	AGACCAACCAAATAAAGACTTTCG	57.686	37.500	3.07	0.00	0.00	3.46
2937	5473	8.479689	TCAAAACACAGGTTATATAATCGAGGA	58.520	33.333	0.00	0.00	35.82	3.71
3099	5635	0.740737	GTCTGTGTTTGGCAGTTGCT	59.259	50.000	3.88	0.00	41.70	3.91
3191	5736	6.726379	TCCACCATCACTTTACCAATAATGA	58.274	36.000	0.00	0.00	0.00	2.57
3560	6133	9.462606	AAACTTCCTATAGGACAAGTAATTTGG	57.537	33.333	21.57	0.00	45.39	3.28
3949	6538	4.442706	CCCCGATAGTATGCATTATCCAC	58.557	47.826	3.54	0.00	0.00	4.02
4479	7110	3.077359	ACTCCATTGTGAACTTAGCAGC	58.923	45.455	0.00	0.00	0.00	5.25
4685	7317	5.066893	TGCCATTAGCTTTAGCATGAAAGAG	59.933	40.000	10.29	0.00	45.16	2.85
4720	7352	4.713814	TGTCTCCTTCTAGCAGTTCATCAT	59.286	41.667	0.00	0.00	0.00	2.45
5074	7712	4.035675	GGATCAGTTTTAGGCAAATCCTCG	59.964	45.833	0.00	0.00	43.20	4.63
5333	7971	7.122204	GGCCTGTTTTTATCTAAAGCTTTCCTA	59.878	37.037	16.57	2.60	0.00	2.94
5403	8042	7.089770	TGTAATACACTAGAGAGTTCAGCTG	57.910	40.000	7.63	7.63	31.73	4.24
5478	8123	4.701956	AACCTGATTTTAACATCCTGCG	57.298	40.909	0.00	0.00	0.00	5.18
5909	8649	6.959361	TGTGAGAAAAGATGTTTAGCTTGTC	58.041	36.000	0.00	0.00	36.92	3.18
6015	8756	0.679505	CACGGACCTCCTCTTCAACA	59.320	55.000	0.00	0.00	0.00	3.33
6314	9063	6.647067	ACATCTTTACTTTCCTCAAACTCTCG	59.353	38.462	0.00	0.00	0.00	4.04
6487	9288	3.589988	AGCTAGTGATCACAAAGTTCCG	58.410	45.455	27.02	7.33	0.00	4.30
6695	9496	2.679837	CACTGCTAATTCGCTCACCAAT	59.320	45.455	3.41	0.00	0.00	3.16
6973	9776	5.506708	GGTAGAACATCCACCCTACATTTT	58.493	41.667	0.00	0.00	34.68	1.82
6998	9801	4.848562	TGAGATTCGTGTAACTGTGACT	57.151	40.909	0.00	0.00	31.75	3.41
7125	9928	0.456628	TGACAGTGTCGTTGTTCCGA	59.543	50.000	18.17	0.00	34.95	4.55
7131	9934	3.127451	TCGTTGTTCCGACCCGAA	58.873	55.556	0.00	0.00	30.63	4.30
7177	12571	7.773690	TCTTGCTAGTTTTTCCTCTTACAAAGT	59.226	33.333	0.00	0.00	0.00	2.66
7346	12740	9.744468	TCTAAAAGAAATGTAAACTCAAAAGGC	57.256	29.630	0.00	0.00	0.00	4.35
7392	12786	4.464951	AGGACATAACGTGTTGGATGACTA	59.535	41.667	0.00	0.00	42.36	2.59
7394	12788	5.462398	GGACATAACGTGTTGGATGACTATC	59.538	44.000	0.00	0.00	42.36	2.08
7395	12789	5.972935	ACATAACGTGTTGGATGACTATCA	58.027	37.500	0.00	0.00	38.01	2.15
7396	12790	6.582636	ACATAACGTGTTGGATGACTATCAT	58.417	36.000	0.00	0.00	37.54	2.45
7397	12791	7.047891	ACATAACGTGTTGGATGACTATCATT	58.952	34.615	0.00	0.00	35.76	2.57
7402	12796	7.327975	ACGTGTTGGATGACTATCATTTTCTA	58.672	34.615	0.00	0.00	37.20	2.10
7404	12798	8.491152	CGTGTTGGATGACTATCATTTTCTATC	58.509	37.037	0.00	0.00	37.20	2.08
7405	12799	8.778358	GTGTTGGATGACTATCATTTTCTATCC	58.222	37.037	0.00	0.00	37.20	2.59
7408	12802	6.794493	TGGATGACTATCATTTTCTATCCCCT	59.206	38.462	0.00	0.00	37.20	4.79
7409	12803	7.038017	TGGATGACTATCATTTTCTATCCCCTC	60.038	40.741	0.00	0.00	37.20	4.30
7410	12804	6.688073	TGACTATCATTTTCTATCCCCTCC	57.312	41.667	0.00	0.00	0.00	4.30
7411	12805	5.548056	TGACTATCATTTTCTATCCCCTCCC	59.452	44.000	0.00	0.00	0.00	4.30
7412	12806	4.852697	ACTATCATTTTCTATCCCCTCCCC	59.147	45.833	0.00	0.00	0.00	4.81
7413	12807	2.428901	TCATTTTCTATCCCCTCCCCC	58.571	52.381	0.00	0.00	0.00	5.40
7449	12843	8.767478	AAAATCTTGCATTCTATTTCTTGGTG	57.233	30.769	0.00	0.00	0.00	4.17
7450	12844	7.707624	AATCTTGCATTCTATTTCTTGGTGA	57.292	32.000	0.00	0.00	0.00	4.02
7451	12845	7.893124	ATCTTGCATTCTATTTCTTGGTGAT	57.107	32.000	0.00	0.00	0.00	3.06
7452	12846	8.985315	ATCTTGCATTCTATTTCTTGGTGATA	57.015	30.769	0.00	0.00	0.00	2.15
7482	13041	8.723942	AGATGCTTCACATAGTTTAAAGTAGG	57.276	34.615	12.08	12.08	39.84	3.18
7541	13100	2.892852	CTCAGGACATGGCCTTTCAAAA	59.107	45.455	20.75	0.00	35.66	2.44
7911	13490	9.768662	GATAAGAAACCATTTCGTATAACCCTA	57.231	33.333	8.95	0.00	41.95	3.53

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
178	182	0.741927	CTCGTCCGGCCCGTAATTTT	60.742	55.000	0.85	0.00	0.00	1.82
193	197	5.159209	CCAGAACAAAGTTCGTATACTCGT	58.841	41.667	0.56	0.00	0.00	4.18
203	207	4.385358	TTTTCTGGCCAGAACAAAGTTC	57.615	40.909	41.34	1.77	46.13	3.01
204	208	5.118286	CAATTTTCTGGCCAGAACAAAGTT	58.882	37.500	41.34	27.89	46.13	2.66
218	222	0.453390	GAGCTCGGCCCAATTTTCTG	59.547	55.000	0.00	0.00	0.00	3.02
238	242	6.349300	ACCTGCAAAATTCAGACGAGTATAT	58.651	36.000	0.00	0.00	33.54	0.86
249	253	4.933505	TGTCATGAACCTGCAAAATTCA	57.066	36.364	0.00	8.82	36.81	2.57
276	280	1.903183	AGAACAACTCTAGCAGACCCC	59.097	52.381	0.00	0.00	30.22	4.95
277	281	3.686916	AAGAACAACTCTAGCAGACCC	57.313	47.619	0.00	0.00	32.46	4.46
313	318	2.040544	CCAACCGAGCGCCTCAAAT	61.041	57.895	2.29	0.00	0.00	2.32
324	329	4.563404	AAAAACCGCTCCAACCGA	57.437	50.000	0.00	0.00	0.00	4.69
419	424	3.469008	TCCCACGCTCATATTTCGAAT	57.531	42.857	0.00	0.00	0.00	3.34
522	2246	1.134788	GCGGGTGCAATCTACTACAGT	60.135	52.381	0.00	0.00	42.15	3.55
948	2706	6.464222	CACAGTTCTTGTTTATACAGGAGGA	58.536	40.000	0.00	0.00	40.86	3.71
1005	2774	2.840753	GGAAAGGGAGGGTGGTGCA	61.841	63.158	0.00	0.00	0.00	4.57
1025	2794	4.347865	GAGGCTCCTCGAGAAGGT	57.652	61.111	15.71	0.00	46.32	3.50
1167	2945	2.366837	ATGTCGGGCCCCATGAGA	60.367	61.111	18.66	6.86	0.00	3.27
1353	3131	1.272490	CTTTCTGTGACGTAGCTCCCA	59.728	52.381	0.00	0.00	0.00	4.37
1664	3850	0.426022	AGGGGAAGGATTAGTGGGGT	59.574	55.000	0.00	0.00	0.00	4.95
1716	3903	4.646945	AGTGAGACACTGGTATCTGGTATG	59.353	45.833	3.54	0.00	43.63	2.39
1749	3936	2.028484	GCGTGGAACTGGACGACA	59.972	61.111	0.00	0.00	37.81	4.35
1980	4228	2.212869	TGTTACGTGCGTTCTTGAGT	57.787	45.000	1.66	0.00	0.00	3.41
2158	4407	0.820891	GGATGGAGAATGGCGCACAT	60.821	55.000	10.83	7.73	43.07	3.21
2169	4418	3.096852	TCGAGCAACTTTAGGATGGAGA	58.903	45.455	0.00	0.00	0.00	3.71
2452	4705	2.262915	GTCTGACAGCACTCGGGG	59.737	66.667	2.24	0.00	0.00	5.73
2535	5049	7.669304	TGGGATTTGTTTGATGTGAGATAAGAA	59.331	33.333	0.00	0.00	0.00	2.52
2548	5062	8.522830	GTGAGATAAGAATTGGGATTTGTTTGA	58.477	33.333	0.00	0.00	0.00	2.69
2563	5092	1.913419	GGGGTGGGTGTGAGATAAGAA	59.087	52.381	0.00	0.00	0.00	2.52
2937	5473	9.186837	AATGATAGAGCATTGAAAGATGACTTT	57.813	29.630	0.00	0.00	38.62	2.66
2966	5502	6.581388	TCAGATTTTGGGAAGATAGATGGT	57.419	37.500	0.00	0.00	0.00	3.55
3099	5635	5.975988	AATATTTGAACAGAGAGGGCCTA	57.024	39.130	5.73	0.00	0.00	3.93
3222	5773	7.626084	TGTAGGACTAAAGATTTGGGAGGATTA	59.374	37.037	0.00	0.00	0.00	1.75
3905	6493	0.769247	GGGGGAGGTGTGTGTTAAGT	59.231	55.000	0.00	0.00	0.00	2.24
3949	6538	4.884164	GGATTCCCAGGTAAGTGAATTGAG	59.116	45.833	0.00	0.00	0.00	3.02
4072	6699	5.683681	TGCATGAGGCTTTGAATAGTATCA	58.316	37.500	0.00	0.00	45.15	2.15
4268	6899	9.159254	TGACATTATCACACTATTCCCTAAGAT	57.841	33.333	0.00	0.00	29.99	2.40
4459	7090	2.421424	GGCTGCTAAGTTCACAATGGAG	59.579	50.000	0.00	0.00	0.00	3.86
4479	7110	0.695803	AGGGGCTGGAGATAGGTTGG	60.696	60.000	0.00	0.00	0.00	3.77
4685	7317	6.128254	GCTAGAAGGAGACAACAATACCAAAC	60.128	42.308	0.00	0.00	0.00	2.93
4855	7488	7.544566	CACAGAGCTGCAAAAATATTCAAAGAT	59.455	33.333	1.02	0.00	0.00	2.40
5074	7712	3.458487	ACACTCCCCTGTTTATGGATACC	59.542	47.826	0.00	0.00	0.00	2.73
5403	8042	5.309638	ACCTGAGAGAAAAGCTAGGTTTTC	58.690	41.667	36.23	36.23	43.81	2.29
5909	8649	1.134401	TGAGGAAGATAAGGCTTGGCG	60.134	52.381	10.69	0.00	0.00	5.69
5986	8727	4.041198	AGAGGAGGTCCGTGTAATTGAAAA	59.959	41.667	0.00	0.00	42.08	2.29
6015	8756	9.470399	AATAGTTCTAAATAAAAACCCCGTCAT	57.530	29.630	0.00	0.00	0.00	3.06
6314	9063	6.749139	ACAAGATTGGAAAAAGCTAGGAAAC	58.251	36.000	0.00	0.00	0.00	2.78
6487	9288	1.939255	GCTCTAACTCCTCAAGCATGC	59.061	52.381	10.51	10.51	33.21	4.06
6973	9776	5.690409	GTCACAGTTACACGAATCTCAAAGA	59.310	40.000	0.00	0.00	0.00	2.52
6998	9801	5.911752	ACAACAAATACAAATGGACTGCAA	58.088	33.333	0.00	0.00	0.00	4.08
7125	9928	5.014858	TCTGTAAAGAGACTACATTCGGGT	58.985	41.667	0.00	0.00	0.00	5.28
7126	9929	5.578005	TCTGTAAAGAGACTACATTCGGG	57.422	43.478	0.00	0.00	0.00	5.14
7129	9932	9.134734	CAAGACTTCTGTAAAGAGACTACATTC	57.865	37.037	0.00	0.00	0.00	2.67
7131	9934	7.039363	AGCAAGACTTCTGTAAAGAGACTACAT	60.039	37.037	0.00	0.00	0.00	2.29
7177	12571	4.039973	AGACGTCTTCTTGGTGGTATCAAA	59.960	41.667	13.58	0.00	0.00	2.69
7346	12740	1.202463	TCGCCAAAAATGTTGGTGTGG	60.202	47.619	14.77	1.60	46.95	4.17
7392	12786	2.996742	GGGGGAGGGGATAGAAAATGAT	59.003	50.000	0.00	0.00	0.00	2.45
7394	12788	2.980246	GGGGGAGGGGATAGAAAATG	57.020	55.000	0.00	0.00	0.00	2.32
7423	12817	9.211485	CACCAAGAAATAGAATGCAAGATTTTT	57.789	29.630	0.00	0.00	0.00	1.94
7424	12818	8.587608	TCACCAAGAAATAGAATGCAAGATTTT	58.412	29.630	0.00	0.00	0.00	1.82
7425	12819	8.125978	TCACCAAGAAATAGAATGCAAGATTT	57.874	30.769	0.00	0.00	0.00	2.17
7426	12820	7.707624	TCACCAAGAAATAGAATGCAAGATT	57.292	32.000	0.00	0.00	0.00	2.40
7427	12821	7.893124	ATCACCAAGAAATAGAATGCAAGAT	57.107	32.000	0.00	0.00	0.00	2.40
7428	12822	8.985315	ATATCACCAAGAAATAGAATGCAAGA	57.015	30.769	0.00	0.00	0.00	3.02
7440	12834	9.241919	TGAAGCATCTAAAATATCACCAAGAAA	57.758	29.630	0.00	0.00	0.00	2.52
7441	12835	8.677300	GTGAAGCATCTAAAATATCACCAAGAA	58.323	33.333	0.00	0.00	31.81	2.52
7442	12836	7.828717	TGTGAAGCATCTAAAATATCACCAAGA	59.171	33.333	0.00	0.00	35.91	3.02
7443	12837	7.988737	TGTGAAGCATCTAAAATATCACCAAG	58.011	34.615	0.00	0.00	35.91	3.61
7444	12838	7.936496	TGTGAAGCATCTAAAATATCACCAA	57.064	32.000	0.00	0.00	35.91	3.67
7445	12839	9.276590	CTATGTGAAGCATCTAAAATATCACCA	57.723	33.333	0.00	0.00	38.94	4.17
7446	12840	9.277783	ACTATGTGAAGCATCTAAAATATCACC	57.722	33.333	0.00	0.00	38.94	4.02
7768	13345	7.962964	TTGATTTTCAGTAGTAGGTCACTTG	57.037	36.000	0.00	0.00	38.80	3.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.