AutoCloner

Multiple sequence alignment - TraesCS2B01G158600

Loading Multiple Alignment...

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	TraesCS2B01G158600	chr2B	100.000	2765	0	0	1	2765	132505407	132508171	0.000000e+00	5107.0
1	TraesCS2B01G158600	chr2B	87.289	653	45	21	2081	2715	132574345	132574977	0.000000e+00	712.0
2	TraesCS2B01G158600	chr2B	88.727	479	27	11	2244	2715	132576605	132577063	6.690000e-156	560.0
3	TraesCS2B01G158600	chr2B	90.698	129	12	0	1906	2034	132573726	132573854	3.660000e-39	172.0
4	TraesCS2B01G158600	chr2B	85.811	148	15	3	2571	2715	699225073	699225217	4.770000e-33	152.0
5	TraesCS2B01G158600	chr2D	94.444	738	26	7	2	730	80758504	80759235	0.000000e+00	1122.0
6	TraesCS2B01G158600	chr2D	93.396	636	33	3	2081	2715	80966444	80967071	0.000000e+00	933.0
7	TraesCS2B01G158600	chr2D	88.611	720	58	5	972	1691	80964844	80965539	0.000000e+00	854.0
8	TraesCS2B01G158600	chr2D	90.454	639	39	9	2081	2715	81017261	81017881	0.000000e+00	822.0
9	TraesCS2B01G158600	chr2D	93.645	535	32	2	1158	1691	80771651	80772184	0.000000e+00	798.0
10	TraesCS2B01G158600	chr2D	94.605	519	14	11	740	1252	80759204	80759714	0.000000e+00	791.0
11	TraesCS2B01G158600	chr2D	92.416	356	14	5	1685	2034	80965575	80965923	1.910000e-136	496.0
12	TraesCS2B01G158600	chr2D	85.185	162	15	4	1873	2034	81003906	81004058	1.030000e-34	158.0
13	TraesCS2B01G158600	chr2D	86.614	127	6	4	854	970	80839057	80839182	2.230000e-26	130.0
14	TraesCS2B01G158600	chr2D	84.058	138	13	3	1906	2034	81021438	81021575	1.040000e-24	124.0
15	TraesCS2B01G158600	chr2D	85.124	121	8	4	859	970	80946178	80946297	6.260000e-22	115.0
16	TraesCS2B01G158600	chr2D	94.643	56	3	0	2031	2086	80965945	80966000	1.360000e-13	87.9
17	TraesCS2B01G158600	chr2D	97.561	41	1	0	2725	2765	80967187	80967227	1.370000e-08	71.3
18	TraesCS2B01G158600	chr2D	94.595	37	2	0	836	872	80946125	80946161	1.070000e-04	58.4
19	TraesCS2B01G158600	chr2D	94.286	35	2	0	838	872	80839011	80839045	1.000000e-03	54.7
20	TraesCS2B01G158600	chr2A	90.141	639	47	7	2081	2715	81523694	81524320	0.000000e+00	817.0
21	TraesCS2B01G158600	chr2A	94.774	421	12	7	838	1249	81181682	81182101	0.000000e+00	647.0
22	TraesCS2B01G158600	chr2A	91.270	378	33	0	973	1350	81511774	81512151	1.470000e-142	516.0
23	TraesCS2B01G158600	chr2A	89.340	394	33	5	1245	1638	81448905	81449289	1.150000e-133	486.0
24	TraesCS2B01G158600	chr2A	93.548	279	15	2	2	278	81179173	81179450	1.980000e-111	412.0
25	TraesCS2B01G158600	chr2A	94.024	251	15	0	480	730	81180201	81180451	5.590000e-102	381.0
26	TraesCS2B01G158600	chr2A	87.879	165	13	2	1870	2034	81523016	81523173	1.310000e-43	187.0
27	TraesCS2B01G158600	chr2A	86.667	165	15	2	1870	2034	81477119	81477276	2.830000e-40	176.0
28	TraesCS2B01G158600	chr2A	91.870	123	8	2	1690	1812	81457720	81457840	1.320000e-38	171.0
29	TraesCS2B01G158600	chr2A	93.750	80	4	1	740	818	81180420	81180499	4.840000e-23	119.0
30	TraesCS2B01G158600	chr2A	94.643	56	3	0	2031	2086	81523195	81523250	1.360000e-13	87.9
31	TraesCS2B01G158600	chr2A	91.071	56	5	0	2031	2086	81478810	81478865	2.950000e-10	76.8
32	TraesCS2B01G158600	chr2A	97.436	39	1	0	2725	2763	81524436	81524474	1.780000e-07	67.6
33	TraesCS2B01G158600	chr2A	95.122	41	2	0	2725	2765	81494345	81494385	6.390000e-07	65.8
34	TraesCS2B01G158600	chr2A	94.872	39	2	0	2727	2765	81530082	81530120	8.270000e-06	62.1
35	TraesCS2B01G158600	chr2A	100.000	32	0	0	2728	2759	81472645	81472676	2.970000e-05	60.2
36	TraesCS2B01G158600	chrUn	86.989	661	46	23	2081	2721	318562014	318561374	0.000000e+00	708.0
37	TraesCS2B01G158600	chrUn	89.130	138	15	0	1906	2043	318562633	318562496	3.660000e-39	172.0
38	TraesCS2B01G158600	chr1D	85.288	503	74	0	1164	1666	487341432	487341934	1.130000e-143	520.0
39	TraesCS2B01G158600	chr1D	89.000	100	11	0	2220	2319	293296743	293296644	1.040000e-24	124.0
40	TraesCS2B01G158600	chr1A	84.950	505	72	3	1164	1666	585386134	585386636	2.460000e-140	508.0
41	TraesCS2B01G158600	chr5D	89.109	101	10	1	2220	2319	77056394	77056494	1.040000e-24	124.0
42	TraesCS2B01G158600	chr7D	87.500	104	11	2	2221	2324	306239947	306239846	4.840000e-23	119.0

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	TraesCS2B01G158600	chr2B	132505407	132508171	2764	False	5107.000000	5107	100.000000	1	2765	1	chr2B.!!$F1	2764
1	TraesCS2B01G158600	chr2B	132573726	132577063	3337	False	481.333333	712	88.904667	1906	2715	3	chr2B.!!$F3	809
2	TraesCS2B01G158600	chr2D	80758504	80759714	1210	False	956.500000	1122	94.524500	2	1252	2	chr2D.!!$F3	1250
3	TraesCS2B01G158600	chr2D	80771651	80772184	533	False	798.000000	798	93.645000	1158	1691	1	chr2D.!!$F1	533
4	TraesCS2B01G158600	chr2D	80964844	80967227	2383	False	488.440000	933	93.325400	972	2765	5	chr2D.!!$F6	1793
5	TraesCS2B01G158600	chr2D	81017261	81021575	4314	False	473.000000	822	87.256000	1906	2715	2	chr2D.!!$F7	809
6	TraesCS2B01G158600	chr2A	81179173	81182101	2928	False	389.750000	647	94.024000	2	1249	4	chr2A.!!$F7	1247
7	TraesCS2B01G158600	chr2A	81523016	81524474	1458	False	289.875000	817	92.524750	1870	2763	4	chr2A.!!$F9	893
8	TraesCS2B01G158600	chrUn	318561374	318562633	1259	True	440.000000	708	88.059500	1906	2721	2	chrUn.!!$R1	815
9	TraesCS2B01G158600	chr1D	487341432	487341934	502	False	520.000000	520	85.288000	1164	1666	1	chr1D.!!$F1	502
10	TraesCS2B01G158600	chr1A	585386134	585386636	502	False	508.000000	508	84.950000	1164	1666	1	chr1A.!!$F1	502

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
723	1277	0.105246	TTGAACAATTGGGGCCTGGT	60.105	50.0	10.83	0.0	0.0	4.0	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2113	4371	0.66567	CTGCAGATACTGATCCGGCG	60.666	60.0	8.42	0.0	36.26	6.46	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
154	156	9.936759	TGTACATCATGTAATTAGAACTTCACA	57.063	29.630	0.00	0.00	34.21	3.58
278	283	7.045416	GGGTTCCACATTCTAAAAAGTTGTTT	58.955	34.615	0.00	0.00	0.00	2.83
279	284	7.011016	GGGTTCCACATTCTAAAAAGTTGTTTG	59.989	37.037	0.00	0.00	0.00	2.93
326	331	8.696410	ACTGAATAAAACACGAAAACAACAAT	57.304	26.923	0.00	0.00	0.00	2.71
426	436	6.254157	CAGCCACATTTCATTAGAAAAATCCG	59.746	38.462	0.00	0.00	46.06	4.18
429	439	6.254157	CCACATTTCATTAGAAAAATCCGCAG	59.746	38.462	0.00	0.00	46.06	5.18
462	472	1.761500	AACTAGACCGGCCCACGTTT	61.761	55.000	0.00	0.00	42.24	3.60
611	1165	1.377333	CTCCTCCGGCAGAAAACCC	60.377	63.158	0.00	0.00	0.00	4.11
615	1169	1.668419	CTCCGGCAGAAAACCCATAG	58.332	55.000	0.00	0.00	0.00	2.23
658	1212	2.699846	AGAGGCTTCTGCTAGAGATTGG	59.300	50.000	0.00	0.00	39.59	3.16
662	1216	1.487976	CTTCTGCTAGAGATTGGGCCA	59.512	52.381	0.00	0.00	0.00	5.36
686	1240	2.182516	ATCTTGAGTGTCCTAGGGGG	57.817	55.000	9.46	0.00	0.00	5.40
702	1256	3.193782	AGGGGGCTAGTTGAGATTTTCT	58.806	45.455	0.00	0.00	0.00	2.52
703	1257	3.593780	AGGGGGCTAGTTGAGATTTTCTT	59.406	43.478	0.00	0.00	0.00	2.52
704	1258	4.044698	AGGGGGCTAGTTGAGATTTTCTTT	59.955	41.667	0.00	0.00	0.00	2.52
705	1259	4.772624	GGGGGCTAGTTGAGATTTTCTTTT	59.227	41.667	0.00	0.00	0.00	2.27
706	1260	5.336770	GGGGGCTAGTTGAGATTTTCTTTTG	60.337	44.000	0.00	0.00	0.00	2.44
707	1261	5.476945	GGGGCTAGTTGAGATTTTCTTTTGA	59.523	40.000	0.00	0.00	0.00	2.69
708	1262	6.015434	GGGGCTAGTTGAGATTTTCTTTTGAA	60.015	38.462	0.00	0.00	36.52	2.69
709	1263	6.863645	GGGCTAGTTGAGATTTTCTTTTGAAC	59.136	38.462	0.00	0.00	38.30	3.18
710	1264	7.425606	GGCTAGTTGAGATTTTCTTTTGAACA	58.574	34.615	0.00	0.00	38.30	3.18
711	1265	7.920682	GGCTAGTTGAGATTTTCTTTTGAACAA	59.079	33.333	0.00	0.00	38.30	2.83
712	1266	9.468532	GCTAGTTGAGATTTTCTTTTGAACAAT	57.531	29.630	0.00	0.00	38.30	2.71
715	1269	9.101655	AGTTGAGATTTTCTTTTGAACAATTGG	57.898	29.630	10.83	0.00	38.30	3.16
716	1270	8.337532	GTTGAGATTTTCTTTTGAACAATTGGG	58.662	33.333	10.83	0.00	38.30	4.12
717	1271	6.991531	TGAGATTTTCTTTTGAACAATTGGGG	59.008	34.615	10.83	0.00	38.30	4.96
718	1272	5.764686	AGATTTTCTTTTGAACAATTGGGGC	59.235	36.000	10.83	0.00	38.30	5.80
719	1273	3.483808	TTCTTTTGAACAATTGGGGCC	57.516	42.857	10.83	0.00	32.77	5.80
720	1274	2.688477	TCTTTTGAACAATTGGGGCCT	58.312	42.857	10.83	0.00	0.00	5.19
721	1275	2.368221	TCTTTTGAACAATTGGGGCCTG	59.632	45.455	10.83	0.00	0.00	4.85
722	1276	1.055040	TTTGAACAATTGGGGCCTGG	58.945	50.000	10.83	0.00	0.00	4.45
723	1277	0.105246	TTGAACAATTGGGGCCTGGT	60.105	50.000	10.83	0.00	0.00	4.00
724	1278	0.105246	TGAACAATTGGGGCCTGGTT	60.105	50.000	10.83	0.83	0.00	3.67
725	1279	0.321346	GAACAATTGGGGCCTGGTTG	59.679	55.000	10.83	8.54	0.00	3.77
726	1280	0.105246	AACAATTGGGGCCTGGTTGA	60.105	50.000	10.83	0.00	0.00	3.18
727	1281	0.542702	ACAATTGGGGCCTGGTTGAG	60.543	55.000	10.83	1.14	0.00	3.02
728	1282	0.251742	CAATTGGGGCCTGGTTGAGA	60.252	55.000	0.84	0.00	0.00	3.27
729	1283	0.712380	AATTGGGGCCTGGTTGAGAT	59.288	50.000	0.84	0.00	0.00	2.75
730	1284	0.712380	ATTGGGGCCTGGTTGAGATT	59.288	50.000	0.84	0.00	0.00	2.40
731	1285	0.486879	TTGGGGCCTGGTTGAGATTT	59.513	50.000	0.84	0.00	0.00	2.17
732	1286	0.486879	TGGGGCCTGGTTGAGATTTT	59.513	50.000	0.84	0.00	0.00	1.82
733	1287	1.713647	TGGGGCCTGGTTGAGATTTTA	59.286	47.619	0.84	0.00	0.00	1.52
734	1288	2.314549	TGGGGCCTGGTTGAGATTTTAT	59.685	45.455	0.84	0.00	0.00	1.40
735	1289	3.245948	TGGGGCCTGGTTGAGATTTTATT	60.246	43.478	0.84	0.00	0.00	1.40
736	1290	3.774766	GGGGCCTGGTTGAGATTTTATTT	59.225	43.478	0.84	0.00	0.00	1.40
737	1291	4.225042	GGGGCCTGGTTGAGATTTTATTTT	59.775	41.667	0.84	0.00	0.00	1.82
738	1292	5.423931	GGGGCCTGGTTGAGATTTTATTTTA	59.576	40.000	0.84	0.00	0.00	1.52
739	1293	6.099701	GGGGCCTGGTTGAGATTTTATTTTAT	59.900	38.462	0.84	0.00	0.00	1.40
740	1294	7.365563	GGGGCCTGGTTGAGATTTTATTTTATT	60.366	37.037	0.84	0.00	0.00	1.40
741	1295	8.046708	GGGCCTGGTTGAGATTTTATTTTATTT	58.953	33.333	0.84	0.00	0.00	1.40
818	1372	0.110823	GCGATCGTGTGTTGTGGTTC	60.111	55.000	17.81	0.00	0.00	3.62
819	1373	1.497991	CGATCGTGTGTTGTGGTTCT	58.502	50.000	7.03	0.00	0.00	3.01
822	1376	3.242608	CGATCGTGTGTTGTGGTTCTTTT	60.243	43.478	7.03	0.00	0.00	2.27
823	1377	4.668289	GATCGTGTGTTGTGGTTCTTTTT	58.332	39.130	0.00	0.00	0.00	1.94
938	2664	1.966451	AACTCCTTTCCTTGCGCGG	60.966	57.895	8.83	0.00	0.00	6.46
966	2695	1.211449	CACGCAGCTCTCTCGTTCT	59.789	57.895	0.00	0.00	33.84	3.01
968	2697	0.109504	ACGCAGCTCTCTCGTTCTTC	60.110	55.000	0.00	0.00	31.89	2.87
969	2698	0.170116	CGCAGCTCTCTCGTTCTTCT	59.830	55.000	0.00	0.00	0.00	2.85
970	2699	1.398739	CGCAGCTCTCTCGTTCTTCTA	59.601	52.381	0.00	0.00	0.00	2.10
1058	2790	4.259610	CGATCAAGCTAAGAAGAACGAAGC	60.260	45.833	0.00	0.00	0.00	3.86
1261	2994	2.905075	CTGGATCCGCTGTTCAACATA	58.095	47.619	7.39	0.00	0.00	2.29
1270	3003	3.412386	GCTGTTCAACATAACCCTCAGT	58.588	45.455	0.00	0.00	0.00	3.41
1276	3009	0.973632	ACATAACCCTCAGTGTCGCA	59.026	50.000	0.00	0.00	0.00	5.10
1345	3078	2.491022	GGTCTCATACCGCGGCTCT	61.491	63.158	28.58	8.89	38.88	4.09
1578	3311	3.419580	TAGGCGGGTAGGGGACGA	61.420	66.667	0.00	0.00	0.00	4.20
1694	3469	1.633561	CGAATGTCACGTGCAGAGAT	58.366	50.000	11.67	0.00	0.00	2.75
1710	3485	2.234661	AGAGATGACGATGGCAACTTGA	59.765	45.455	0.00	0.00	37.61	3.02
1714	3489	2.076100	TGACGATGGCAACTTGATGTC	58.924	47.619	0.00	0.00	37.61	3.06
1731	3506	5.149976	TGATGTCATCCATAGAGTCATCCA	58.850	41.667	10.36	0.00	32.56	3.41
1736	3511	5.304101	GTCATCCATAGAGTCATCCAGTTCT	59.696	44.000	0.00	0.00	0.00	3.01
1745	3520	7.156694	AGAGTCATCCAGTTCTAGTATAGGT	57.843	40.000	0.00	0.00	39.78	3.08
1746	3521	7.588169	AGAGTCATCCAGTTCTAGTATAGGTT	58.412	38.462	0.00	0.00	39.78	3.50
1854	3632	9.265901	CTAGATATTTAATGTTGGGTCTCACTG	57.734	37.037	0.00	0.00	0.00	3.66
1855	3633	7.861629	AGATATTTAATGTTGGGTCTCACTGA	58.138	34.615	0.00	0.00	0.00	3.41
1900	3678	7.996066	TGGGTAATTGCTTCAAGCTAATACATA	59.004	33.333	17.37	6.08	42.97	2.29
1901	3679	8.290325	GGGTAATTGCTTCAAGCTAATACATAC	58.710	37.037	17.37	11.24	42.97	2.39
1902	3680	8.009974	GGTAATTGCTTCAAGCTAATACATACG	58.990	37.037	17.37	0.00	42.97	3.06
1903	3681	7.786178	AATTGCTTCAAGCTAATACATACGA	57.214	32.000	11.57	0.00	42.97	3.43
1904	3682	7.969536	ATTGCTTCAAGCTAATACATACGAT	57.030	32.000	11.57	0.00	42.97	3.73
2075	3881	4.043310	AGGTGGAAACCATCTCATTGAAGA	59.957	41.667	0.00	0.00	41.90	2.87
2082	3888	3.265221	ACCATCTCATTGAAGAGCCTGAA	59.735	43.478	0.00	0.00	35.59	3.02
2112	4370	1.093972	CAATGATGTACTTGGCGCCA	58.906	50.000	29.03	29.03	0.00	5.69
2113	4371	1.094785	AATGATGTACTTGGCGCCAC	58.905	50.000	32.95	19.05	0.00	5.01
2175	4433	8.993121	CAGTTTATCTTGAGTCATACACAAGTT	58.007	33.333	14.16	10.08	43.90	2.66
2217	4475	5.928839	CCTATCATCCATTCTTTGTACTCCG	59.071	44.000	0.00	0.00	0.00	4.63
2218	4476	5.614324	ATCATCCATTCTTTGTACTCCGA	57.386	39.130	0.00	0.00	0.00	4.55
2219	4477	5.614324	TCATCCATTCTTTGTACTCCGAT	57.386	39.130	0.00	0.00	0.00	4.18
2220	4478	5.601662	TCATCCATTCTTTGTACTCCGATC	58.398	41.667	0.00	0.00	0.00	3.69
2221	4479	4.402056	TCCATTCTTTGTACTCCGATCC	57.598	45.455	0.00	0.00	0.00	3.36
2358	4632	1.134946	GCAGGCCATAACCACATTGAC	59.865	52.381	5.01	0.00	0.00	3.18
2367	4641	2.425143	ACCACATTGACCATAGGCAG	57.575	50.000	0.00	0.00	0.00	4.85
2424	4699	2.281139	TCATGGCGACGCAACCAA	60.281	55.556	23.09	1.39	39.96	3.67
2532	4809	8.803235	GGAGAAGTAAATTGTGGGAATTAAAGT	58.197	33.333	0.00	0.00	0.00	2.66
2610	4891	3.002791	GAGATGCTGTCAACGATTTGGA	58.997	45.455	0.00	0.00	33.06	3.53
2620	4901	6.227522	TGTCAACGATTTGGAGAACATAAGA	58.772	36.000	0.00	0.00	33.06	2.10
2629	4910	4.922206	TGGAGAACATAAGATGTGGCTTT	58.078	39.130	0.00	0.00	44.07	3.51
2759	5207	1.884235	AGGCTTGAGTTTCTGGAACG	58.116	50.000	0.00	0.00	43.20	3.95

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
397	407	5.726980	TTCTAATGAAATGTGGCTGCTTT	57.273	34.783	0.00	0.00	0.00	3.51
426	436	5.289434	GTCTAGTTTTGCCATATTTTGCTGC	59.711	40.000	0.00	0.00	0.00	5.25
429	439	4.798387	CGGTCTAGTTTTGCCATATTTTGC	59.202	41.667	0.00	0.00	0.00	3.68
474	484	0.332972	TGAGCAGTAGGAGAGCCTCA	59.667	55.000	0.00	0.00	45.54	3.86
611	1165	0.758734	TTCATCACGGCCCTCCTATG	59.241	55.000	0.00	0.00	0.00	2.23
615	1169	0.533755	CATCTTCATCACGGCCCTCC	60.534	60.000	0.00	0.00	0.00	4.30
620	1174	2.200067	CTCTCACATCTTCATCACGGC	58.800	52.381	0.00	0.00	0.00	5.68
658	1212	2.029918	GGACACTCAAGATTTGTTGGCC	60.030	50.000	0.00	0.00	36.33	5.36
662	1216	4.263506	CCCCTAGGACACTCAAGATTTGTT	60.264	45.833	11.48	0.00	33.47	2.83
686	1240	8.856490	TTGTTCAAAAGAAAATCTCAACTAGC	57.144	30.769	0.00	0.00	0.00	3.42
702	1256	1.419387	CCAGGCCCCAATTGTTCAAAA	59.581	47.619	0.00	0.00	0.00	2.44
703	1257	1.055040	CCAGGCCCCAATTGTTCAAA	58.945	50.000	0.00	0.00	0.00	2.69
704	1258	0.105246	ACCAGGCCCCAATTGTTCAA	60.105	50.000	0.00	0.00	0.00	2.69
705	1259	0.105246	AACCAGGCCCCAATTGTTCA	60.105	50.000	0.00	0.00	0.00	3.18
706	1260	0.321346	CAACCAGGCCCCAATTGTTC	59.679	55.000	0.00	0.00	0.00	3.18
707	1261	0.105246	TCAACCAGGCCCCAATTGTT	60.105	50.000	0.00	0.00	0.00	2.83
708	1262	0.542702	CTCAACCAGGCCCCAATTGT	60.543	55.000	0.00	0.00	0.00	2.71
709	1263	0.251742	TCTCAACCAGGCCCCAATTG	60.252	55.000	0.00	0.00	0.00	2.32
710	1264	0.712380	ATCTCAACCAGGCCCCAATT	59.288	50.000	0.00	0.00	0.00	2.32
711	1265	0.712380	AATCTCAACCAGGCCCCAAT	59.288	50.000	0.00	0.00	0.00	3.16
712	1266	0.486879	AAATCTCAACCAGGCCCCAA	59.513	50.000	0.00	0.00	0.00	4.12
713	1267	0.486879	AAAATCTCAACCAGGCCCCA	59.513	50.000	0.00	0.00	0.00	4.96
714	1268	2.525105	TAAAATCTCAACCAGGCCCC	57.475	50.000	0.00	0.00	0.00	5.80
715	1269	5.420725	AAAATAAAATCTCAACCAGGCCC	57.579	39.130	0.00	0.00	0.00	5.80
716	1270	9.448438	AAAATAAAATAAAATCTCAACCAGGCC	57.552	29.630	0.00	0.00	0.00	5.19
741	1295	5.109500	ACCAGGCCTCAATTTTTCAAAAA	57.891	34.783	0.00	0.00	0.00	1.94
968	2697	7.822822	CCGGGAAGAGGGTTTGTTTATATATAG	59.177	40.741	0.00	0.00	0.00	1.31
969	2698	7.682628	CCGGGAAGAGGGTTTGTTTATATATA	58.317	38.462	0.00	0.00	0.00	0.86
970	2699	6.540083	CCGGGAAGAGGGTTTGTTTATATAT	58.460	40.000	0.00	0.00	0.00	0.86
1003	2735	0.677731	TGGCTTGGCTTGATCGGAAG	60.678	55.000	0.00	0.00	0.00	3.46
1261	2994	1.079819	CGATGCGACACTGAGGGTT	60.080	57.895	0.00	0.00	0.00	4.11
1270	3003	4.393155	AAGCCCTGCGATGCGACA	62.393	61.111	0.00	0.00	0.00	4.35
1694	3469	2.076100	GACATCAAGTTGCCATCGTCA	58.924	47.619	0.00	0.00	0.00	4.35
1710	3485	5.153675	ACTGGATGACTCTATGGATGACAT	58.846	41.667	0.00	0.00	43.68	3.06
1714	3489	5.804944	AGAACTGGATGACTCTATGGATG	57.195	43.478	0.00	0.00	0.00	3.51
1716	3491	6.019656	ACTAGAACTGGATGACTCTATGGA	57.980	41.667	0.00	0.00	0.00	3.41
1718	3493	9.173021	CCTATACTAGAACTGGATGACTCTATG	57.827	40.741	0.00	0.00	0.00	2.23
1782	3557	8.688747	AAATCTACCATGATTGATCTCCTTTC	57.311	34.615	0.00	0.00	36.84	2.62
1841	3619	2.839486	TGTGATCAGTGAGACCCAAC	57.161	50.000	0.00	0.00	0.00	3.77
2066	3872	4.698780	CAGACATTTCAGGCTCTTCAATGA	59.301	41.667	10.06	0.00	0.00	2.57
2082	3888	5.108187	AGTACATCATTGAGCCAGACATT	57.892	39.130	0.00	0.00	0.00	2.71
2092	4350	1.339535	TGGCGCCAAGTACATCATTGA	60.340	47.619	30.74	0.00	0.00	2.57
2112	4370	1.364171	GCAGATACTGATCCGGCGT	59.636	57.895	6.01	0.00	32.44	5.68
2113	4371	0.665670	CTGCAGATACTGATCCGGCG	60.666	60.000	8.42	0.00	36.26	6.46
2217	4475	5.048224	CACTGCATATTGGAATGGAAGGATC	60.048	44.000	0.00	0.00	0.00	3.36
2218	4476	4.831155	CACTGCATATTGGAATGGAAGGAT	59.169	41.667	0.00	0.00	0.00	3.24
2219	4477	4.209538	CACTGCATATTGGAATGGAAGGA	58.790	43.478	0.00	0.00	0.00	3.36
2220	4478	3.243636	GCACTGCATATTGGAATGGAAGG	60.244	47.826	0.00	0.00	0.00	3.46
2221	4479	3.382227	TGCACTGCATATTGGAATGGAAG	59.618	43.478	0.00	0.00	31.71	3.46
2333	4607	1.342819	TGTGGTTATGGCCTGCAAAAC	59.657	47.619	3.32	0.98	0.00	2.43
2358	4632	8.853077	TTATGTTCTTGATTATCTGCCTATGG	57.147	34.615	0.00	0.00	0.00	2.74
2610	4891	5.774690	TGGAAAAAGCCACATCTTATGTTCT	59.225	36.000	0.00	0.00	42.70	3.01
2629	4910	2.341846	GTCCAACAGGACTGTGGAAA	57.658	50.000	18.55	2.74	46.73	3.13
2668	4949	4.018506	TCATGGGAGAGTTTGGAGCAAATA	60.019	41.667	0.00	0.00	35.74	1.40
2715	4996	4.434520	GCTCTGCAAGGGTAAACTACTAG	58.565	47.826	0.00	0.00	36.17	2.57
2716	4997	3.119245	CGCTCTGCAAGGGTAAACTACTA	60.119	47.826	0.00	0.00	36.17	1.82
2721	5002	1.464997	CTTCGCTCTGCAAGGGTAAAC	59.535	52.381	10.94	0.00	36.17	2.01
2722	5003	1.610624	CCTTCGCTCTGCAAGGGTAAA	60.611	52.381	10.94	2.05	36.17	2.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.