AutoCloner

Multiple sequence alignment - TraesCS2D01G543400

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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	TraesCS2D01G543400	chr2D	100.000	2770	0	0	1	2770	621266397	621269166	0.000000e+00	5116
1	TraesCS2D01G543400	chr2D	91.076	1199	86	13	670	1864	621315189	621316370	0.000000e+00	1602
2	TraesCS2D01G543400	chr2D	87.710	952	83	14	806	1751	621153309	621154232	0.000000e+00	1079
3	TraesCS2D01G543400	chr2D	94.693	603	32	0	2008	2610	621302853	621303455	0.000000e+00	937
4	TraesCS2D01G543400	chr2D	96.559	465	14	1	2	466	621150918	621151380	0.000000e+00	769
5	TraesCS2D01G543400	chr2D	84.915	769	90	11	1863	2608	362901166	362901931	0.000000e+00	754
6	TraesCS2D01G543400	chr2D	84.395	769	94	12	1864	2610	362784393	362785157	0.000000e+00	732
7	TraesCS2D01G543400	chr2D	91.848	184	15	0	147	330	621314478	621314661	9.840000e-65	257
8	TraesCS2D01G543400	chr2D	88.542	192	21	1	467	658	621314951	621315141	5.970000e-57	231
9	TraesCS2D01G543400	chr2D	90.244	164	15	1	172	334	621130761	621130924	2.160000e-51	213
10	TraesCS2D01G543400	chr2D	89.865	148	12	3	322	468	621314710	621314855	1.310000e-43	187
11	TraesCS2D01G543400	chr2D	89.855	138	14	0	670	807	621151717	621151854	7.880000e-41	178
12	TraesCS2D01G543400	chr2D	100.000	71	0	0	2700	2770	200896854	200896784	6.220000e-27	132
13	TraesCS2D01G543400	chrUn	89.972	1426	105	25	467	1864	23361946	23360531	0.000000e+00	1807
14	TraesCS2D01G543400	chrUn	89.383	1215	93	19	670	1864	388950405	388951603	0.000000e+00	1496
15	TraesCS2D01G543400	chrUn	82.000	800	121	19	846	1638	342645067	342644284	0.000000e+00	658
16	TraesCS2D01G543400	chrUn	82.000	800	121	19	846	1638	343020617	343019834	0.000000e+00	658
17	TraesCS2D01G543400	chrUn	92.670	191	10	4	467	657	329051188	329051374	3.520000e-69	272
18	TraesCS2D01G543400	chrUn	90.909	154	8	4	322	471	307395432	307395281	4.680000e-48	202
19	TraesCS2D01G543400	chrUn	89.032	155	10	6	322	471	23362347	23362195	4.710000e-43	185
20	TraesCS2D01G543400	chrUn	89.032	155	10	6	322	471	329050787	329050939	4.710000e-43	185
21	TraesCS2D01G543400	chr2A	91.257	1201	93	8	670	1864	753060461	753061655	0.000000e+00	1626
22	TraesCS2D01G543400	chr2A	90.981	632	52	4	1234	1864	753010879	753011506	0.000000e+00	846
23	TraesCS2D01G543400	chr2A	94.839	465	22	1	2	466	753059664	753060126	0.000000e+00	725
24	TraesCS2D01G543400	chr2A	89.062	576	46	5	664	1236	753006178	753006739	0.000000e+00	699
25	TraesCS2D01G543400	chr2A	86.617	269	20	7	670	938	752998332	752998584	1.620000e-72	283
26	TraesCS2D01G543400	chr2A	91.710	193	15	1	138	330	752997570	752997761	1.640000e-67	267
27	TraesCS2D01G543400	chr2A	90.625	192	17	1	467	658	753060223	753060413	1.270000e-63	254
28	TraesCS2D01G543400	chr2A	89.894	188	18	1	471	658	753005950	753006136	9.910000e-60	241
29	TraesCS2D01G543400	chr2A	93.038	158	11	0	177	334	753043910	753044067	5.970000e-57	231
30	TraesCS2D01G543400	chr2A	91.216	148	10	3	322	468	753005680	753005825	6.050000e-47	198
31	TraesCS2D01G543400	chr2A	90.141	142	12	2	322	463	752997810	752997949	1.690000e-42	183
32	TraesCS2D01G543400	chr7D	86.866	769	75	16	1864	2610	533317158	533316394	0.000000e+00	837
33	TraesCS2D01G543400	chr7D	86.486	777	71	17	1864	2610	533373602	533372830	0.000000e+00	822
34	TraesCS2D01G543400	chr7D	89.091	605	60	5	2008	2610	465562738	465563338	0.000000e+00	747
35	TraesCS2D01G543400	chr7D	98.876	89	1	0	2611	2699	203554982	203554894	2.860000e-35	159
36	TraesCS2D01G543400	chr7D	100.000	71	0	0	2700	2770	381986056	381985986	6.220000e-27	132
37	TraesCS2D01G543400	chr7D	100.000	71	0	0	2700	2770	626666255	626666185	6.220000e-27	132
38	TraesCS2D01G543400	chr4D	86.736	769	76	11	1864	2610	397184266	397183502	0.000000e+00	832
39	TraesCS2D01G543400	chr4D	86.010	772	80	16	1863	2610	321511985	321511218	0.000000e+00	802
40	TraesCS2D01G543400	chr4D	84.565	771	94	7	1862	2610	321486449	321485682	0.000000e+00	741
41	TraesCS2D01G543400	chr4D	84.436	771	92	11	1864	2610	219809828	219810594	0.000000e+00	734
42	TraesCS2D01G543400	chr4D	82.150	493	65	15	1863	2334	279790690	279790200	4.300000e-108	401
43	TraesCS2D01G543400	chr4D	98.876	89	1	0	2611	2699	123414247	123414335	2.860000e-35	159
44	TraesCS2D01G543400	chr4D	98.876	89	1	0	2611	2699	241122526	241122438	2.860000e-35	159
45	TraesCS2D01G543400	chr6B	85.992	771	73	15	1863	2607	258753295	258754056	0.000000e+00	793
46	TraesCS2D01G543400	chr6B	98.876	89	1	0	2611	2699	678549233	678549321	2.860000e-35	159
47	TraesCS2D01G543400	chr6D	85.567	776	82	20	1863	2614	125732499	125733268	0.000000e+00	785
48	TraesCS2D01G543400	chr6D	100.000	71	0	0	2700	2770	277314904	277314834	6.220000e-27	132
49	TraesCS2D01G543400	chr3D	85.658	767	85	9	1864	2608	509040050	509040813	0.000000e+00	784
50	TraesCS2D01G543400	chr3D	89.109	606	57	7	2008	2610	252896016	252896615	0.000000e+00	745
51	TraesCS2D01G543400	chr6A	84.955	771	85	16	1864	2610	421643774	421643011	0.000000e+00	752
52	TraesCS2D01G543400	chr6A	98.876	89	1	0	2611	2699	289129994	289130082	2.860000e-35	159
53	TraesCS2D01G543400	chr6A	98.876	89	1	0	2611	2699	608883458	608883370	2.860000e-35	159
54	TraesCS2D01G543400	chr6A	100.000	71	0	0	2700	2770	289143461	289143531	6.220000e-27	132
55	TraesCS2D01G543400	chr6A	100.000	71	0	0	2700	2770	561397151	561397081	6.220000e-27	132
56	TraesCS2D01G543400	chr1D	84.715	772	87	13	1864	2610	45051868	45051103	0.000000e+00	743
57	TraesCS2D01G543400	chr1D	98.876	89	1	0	2611	2699	185770819	185770907	2.860000e-35	159
58	TraesCS2D01G543400	chr1D	100.000	71	0	0	2700	2770	163302788	163302718	6.220000e-27	132
59	TraesCS2D01G543400	chr4A	82.920	767	105	6	1864	2608	402505430	402506192	0.000000e+00	667
60	TraesCS2D01G543400	chr4A	98.876	89	1	0	2611	2699	67586171	67586083	2.860000e-35	159
61	TraesCS2D01G543400	chr2B	82.125	800	120	19	846	1638	762072014	762071231	0.000000e+00	664
62	TraesCS2D01G543400	chr2B	89.610	154	10	4	322	471	762064560	762064711	1.010000e-44	191
63	TraesCS2D01G543400	chr2B	95.890	73	1	1	394	466	762072792	762072862	1.740000e-22	117
64	TraesCS2D01G543400	chr5B	98.876	89	1	0	2611	2699	679660261	679660349	2.860000e-35	159
65	TraesCS2D01G543400	chr5D	100.000	71	0	0	2700	2770	3160353	3160283	6.220000e-27	132
66	TraesCS2D01G543400	chr3B	100.000	71	0	0	2700	2770	92214413	92214483	6.220000e-27	132

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	TraesCS2D01G543400	chr2D	621266397	621269166	2769	False	5116.000000	5116	100.000000	1	2770	1	chr2D.!!$F4	2769
1	TraesCS2D01G543400	chr2D	621302853	621303455	602	False	937.000000	937	94.693000	2008	2610	1	chr2D.!!$F5	602
2	TraesCS2D01G543400	chr2D	362901166	362901931	765	False	754.000000	754	84.915000	1863	2608	1	chr2D.!!$F2	745
3	TraesCS2D01G543400	chr2D	362784393	362785157	764	False	732.000000	732	84.395000	1864	2610	1	chr2D.!!$F1	746
4	TraesCS2D01G543400	chr2D	621150918	621154232	3314	False	675.333333	1079	91.374667	2	1751	3	chr2D.!!$F6	1749
5	TraesCS2D01G543400	chr2D	621314478	621316370	1892	False	569.250000	1602	90.332750	147	1864	4	chr2D.!!$F7	1717
6	TraesCS2D01G543400	chrUn	388950405	388951603	1198	False	1496.000000	1496	89.383000	670	1864	1	chrUn.!!$F1	1194
7	TraesCS2D01G543400	chrUn	23360531	23362347	1816	True	996.000000	1807	89.502000	322	1864	2	chrUn.!!$R4	1542
8	TraesCS2D01G543400	chrUn	342644284	342645067	783	True	658.000000	658	82.000000	846	1638	1	chrUn.!!$R2	792
9	TraesCS2D01G543400	chrUn	343019834	343020617	783	True	658.000000	658	82.000000	846	1638	1	chrUn.!!$R3	792
10	TraesCS2D01G543400	chrUn	329050787	329051374	587	False	228.500000	272	90.851000	322	657	2	chrUn.!!$F2	335
11	TraesCS2D01G543400	chr2A	753059664	753061655	1991	False	868.333333	1626	92.240333	2	1864	3	chr2A.!!$F5	1862
12	TraesCS2D01G543400	chr2A	753010879	753011506	627	False	846.000000	846	90.981000	1234	1864	1	chr2A.!!$F1	630
13	TraesCS2D01G543400	chr2A	753005680	753006739	1059	False	379.333333	699	90.057333	322	1236	3	chr2A.!!$F4	914
14	TraesCS2D01G543400	chr2A	752997570	752998584	1014	False	244.333333	283	89.489333	138	938	3	chr2A.!!$F3	800
15	TraesCS2D01G543400	chr7D	533316394	533317158	764	True	837.000000	837	86.866000	1864	2610	1	chr7D.!!$R3	746
16	TraesCS2D01G543400	chr7D	533372830	533373602	772	True	822.000000	822	86.486000	1864	2610	1	chr7D.!!$R4	746
17	TraesCS2D01G543400	chr7D	465562738	465563338	600	False	747.000000	747	89.091000	2008	2610	1	chr7D.!!$F1	602
18	TraesCS2D01G543400	chr4D	397183502	397184266	764	True	832.000000	832	86.736000	1864	2610	1	chr4D.!!$R5	746
19	TraesCS2D01G543400	chr4D	321511218	321511985	767	True	802.000000	802	86.010000	1863	2610	1	chr4D.!!$R4	747
20	TraesCS2D01G543400	chr4D	321485682	321486449	767	True	741.000000	741	84.565000	1862	2610	1	chr4D.!!$R3	748
21	TraesCS2D01G543400	chr4D	219809828	219810594	766	False	734.000000	734	84.436000	1864	2610	1	chr4D.!!$F2	746
22	TraesCS2D01G543400	chr6B	258753295	258754056	761	False	793.000000	793	85.992000	1863	2607	1	chr6B.!!$F1	744
23	TraesCS2D01G543400	chr6D	125732499	125733268	769	False	785.000000	785	85.567000	1863	2614	1	chr6D.!!$F1	751
24	TraesCS2D01G543400	chr3D	509040050	509040813	763	False	784.000000	784	85.658000	1864	2608	1	chr3D.!!$F2	744
25	TraesCS2D01G543400	chr3D	252896016	252896615	599	False	745.000000	745	89.109000	2008	2610	1	chr3D.!!$F1	602
26	TraesCS2D01G543400	chr6A	421643011	421643774	763	True	752.000000	752	84.955000	1864	2610	1	chr6A.!!$R1	746
27	TraesCS2D01G543400	chr1D	45051103	45051868	765	True	743.000000	743	84.715000	1864	2610	1	chr1D.!!$R1	746
28	TraesCS2D01G543400	chr4A	402505430	402506192	762	False	667.000000	667	82.920000	1864	2608	1	chr4A.!!$F1	744
29	TraesCS2D01G543400	chr2B	762071231	762072014	783	True	664.000000	664	82.125000	846	1638	1	chr2B.!!$R1	792

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
802	1218	0.818296	CGGTCTTCAGATCCTCCGTT	59.182	55.0	0.0	0.0	34.38	4.44	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2650	4599	0.036577	GATGATGCCGCTATGCTCCT	60.037	55.0	0.0	0.0	0.0	3.69	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
109	110	9.625747	AATGTGATAATTGTATGTGGTATGACA	57.374	29.630	0.00	0.00	0.00	3.58
173	174	6.650120	AGCTGGAAATTAGACCGAAGAAATA	58.350	36.000	0.00	0.00	0.00	1.40
279	280	9.659135	ATCCCCATATGAATGAATTACTCAAAA	57.341	29.630	3.65	0.00	37.67	2.44
443	504	0.986527	TCCAGGATGATGCACTGTGT	59.013	50.000	9.86	0.00	39.69	3.72
444	505	1.092348	CCAGGATGATGCACTGTGTG	58.908	55.000	9.86	0.00	39.69	3.82
492	871	8.686334	GCTTTACTTCTTGATTGGAATATTGGA	58.314	33.333	0.00	0.00	0.00	3.53
663	1042	9.999009	AAAGGAAGTTAAAAGTTTTTCGAGTAG	57.001	29.630	6.10	0.00	0.00	2.57
664	1043	8.953368	AGGAAGTTAAAAGTTTTTCGAGTAGA	57.047	30.769	6.10	0.00	0.00	2.59
708	1123	4.281182	GGGACGTGGATTGTGATAGTCTAT	59.719	45.833	0.00	0.00	0.00	1.98
709	1124	5.223382	GGACGTGGATTGTGATAGTCTATG	58.777	45.833	0.00	0.00	0.00	2.23
740	1155	2.027688	CCGCGTCGATACTGAAGAAAAC	59.972	50.000	4.92	0.00	0.00	2.43
741	1156	2.915463	CGCGTCGATACTGAAGAAAACT	59.085	45.455	0.00	0.00	0.00	2.66
742	1157	3.241364	CGCGTCGATACTGAAGAAAACTG	60.241	47.826	0.00	0.00	0.00	3.16
749	1165	6.481976	TCGATACTGAAGAAAACTGAAGCAAA	59.518	34.615	0.00	0.00	0.00	3.68
772	1188	1.295423	GAAGCAGTCGGTAGGCCAA	59.705	57.895	5.01	0.00	34.09	4.52
796	1212	1.001406	CATAGCCCGGTCTTCAGATCC	59.999	57.143	0.00	0.00	0.00	3.36
802	1218	0.818296	CGGTCTTCAGATCCTCCGTT	59.182	55.000	0.00	0.00	34.38	4.44
946	2839	5.048364	CGTAGTCTATTCTATGCTTCCAGCT	60.048	44.000	0.00	0.00	42.97	4.24
952	2845	3.719268	TCTATGCTTCCAGCTTTCCAA	57.281	42.857	0.00	0.00	42.97	3.53
958	2851	2.076863	CTTCCAGCTTTCCAACTACCG	58.923	52.381	0.00	0.00	0.00	4.02
999	2896	2.039084	ACCTGGGCATAGCTAGTATTGC	59.961	50.000	8.28	8.28	0.00	3.56
1000	2897	2.304180	CCTGGGCATAGCTAGTATTGCT	59.696	50.000	14.87	0.00	43.79	3.91
1033	2930	3.075148	CGACACAGACACCTAGAGAAGA	58.925	50.000	0.00	0.00	0.00	2.87
1038	2940	4.991687	CACAGACACCTAGAGAAGAAAACC	59.008	45.833	0.00	0.00	0.00	3.27
1109	3015	2.926838	GCTAGCTCTCCTTTCAGTTTCG	59.073	50.000	7.70	0.00	0.00	3.46
1173	3079	2.274948	GATGGCCATCCTGAGCACCA	62.275	60.000	32.15	0.00	31.76	4.17
1350	3256	1.226435	GACTACGACTCCTGCAGCG	60.226	63.158	8.66	9.17	0.00	5.18
1435	3341	1.725557	CGCTACTTCCTCTGCGGCTA	61.726	60.000	0.00	0.00	43.97	3.93
1463	3369	1.304052	CTGTGCCGGGGGAATGAAA	60.304	57.895	2.18	0.00	0.00	2.69
1487	3393	1.154093	GATCGACGTCGTGCCAAGA	60.154	57.895	34.40	16.30	40.80	3.02
1644	3550	3.578282	TCATGGCTTGAGTGTGTCTCTAA	59.422	43.478	0.00	0.00	43.13	2.10
1691	3601	3.701205	TCAAGCATCTGTGGTGTACAT	57.299	42.857	0.00	0.00	38.92	2.29
1817	3730	6.015856	ACAATATTTGACCCGAAACATGTTCA	60.016	34.615	12.39	1.09	0.00	3.18
1965	3879	4.287067	AGAGTGCAAGGAACCAAGATCTTA	59.713	41.667	7.86	0.00	0.00	2.10
1967	3881	3.691609	GTGCAAGGAACCAAGATCTTAGG	59.308	47.826	7.86	13.94	0.00	2.69
1993	3907	3.053842	ACCAACATGCAGATCAAGAGGAT	60.054	43.478	0.00	0.00	39.53	3.24
1996	3910	4.232188	ACATGCAGATCAAGAGGATTGT	57.768	40.909	0.00	0.00	36.00	2.71
2026	3960	0.967887	GAGAAAAGCCTCCCTTGCCC	60.968	60.000	0.00	0.00	33.01	5.36
2126	4061	3.341270	AGGCCAAACCACCTCACA	58.659	55.556	5.01	0.00	43.14	3.58
2163	4106	0.319555	CCCACGTCGTCAATCAGTGT	60.320	55.000	0.00	0.00	0.00	3.55
2209	4152	2.202919	CAGCCGATCGCCACATGA	60.203	61.111	10.32	0.00	38.78	3.07
2212	4155	1.889105	GCCGATCGCCACATGACAT	60.889	57.895	10.32	0.00	0.00	3.06
2488	4433	4.503643	CGTAGAAAGGGTTGTTGGAAGGTA	60.504	45.833	0.00	0.00	0.00	3.08
2503	4452	2.097110	AGGTAGGAGAACACACACCA	57.903	50.000	0.00	0.00	0.00	4.17
2620	4569	4.383602	CCTCACGCGCAAAACCGG	62.384	66.667	5.73	0.00	0.00	5.28
2623	4572	4.914420	CACGCGCAAAACCGGCAA	62.914	61.111	5.73	0.00	0.00	4.52
2624	4573	4.194720	ACGCGCAAAACCGGCAAA	62.195	55.556	5.73	0.00	0.00	3.68
2625	4574	3.687325	CGCGCAAAACCGGCAAAC	61.687	61.111	8.75	0.00	0.00	2.93
2626	4575	2.279186	GCGCAAAACCGGCAAACT	60.279	55.556	0.30	0.00	0.00	2.66
2627	4576	2.300066	GCGCAAAACCGGCAAACTC	61.300	57.895	0.30	0.00	0.00	3.01
2628	4577	1.064946	CGCAAAACCGGCAAACTCA	59.935	52.632	0.00	0.00	0.00	3.41
2629	4578	0.934436	CGCAAAACCGGCAAACTCAG	60.934	55.000	0.00	0.00	0.00	3.35
2630	4579	0.383949	GCAAAACCGGCAAACTCAGA	59.616	50.000	0.00	0.00	0.00	3.27
2631	4580	1.600413	GCAAAACCGGCAAACTCAGAG	60.600	52.381	0.00	0.00	0.00	3.35
2632	4581	0.668535	AAAACCGGCAAACTCAGAGC	59.331	50.000	0.00	0.00	0.00	4.09
2633	4582	1.507141	AAACCGGCAAACTCAGAGCG	61.507	55.000	0.00	0.00	0.00	5.03
2634	4583	3.121030	CCGGCAAACTCAGAGCGG	61.121	66.667	0.00	0.00	0.00	5.52
2635	4584	2.357517	CGGCAAACTCAGAGCGGT	60.358	61.111	0.00	0.00	0.00	5.68
2636	4585	2.383527	CGGCAAACTCAGAGCGGTC	61.384	63.158	6.48	6.48	0.00	4.79
2637	4586	1.004440	GGCAAACTCAGAGCGGTCT	60.004	57.895	12.24	12.24	0.00	3.85
2638	4587	1.016653	GGCAAACTCAGAGCGGTCTC	61.017	60.000	15.54	1.09	39.65	3.36
2648	4597	2.440539	GAGCGGTCTCTGAAAGTGAA	57.559	50.000	7.51	0.00	38.31	3.18
2649	4598	2.966050	GAGCGGTCTCTGAAAGTGAAT	58.034	47.619	7.51	0.00	38.31	2.57
2650	4599	4.111375	GAGCGGTCTCTGAAAGTGAATA	57.889	45.455	7.51	0.00	38.31	1.75
2651	4600	4.109050	GAGCGGTCTCTGAAAGTGAATAG	58.891	47.826	7.51	0.00	38.31	1.73
2652	4601	3.118956	AGCGGTCTCTGAAAGTGAATAGG	60.119	47.826	0.00	0.00	38.31	2.57
2653	4602	3.119101	GCGGTCTCTGAAAGTGAATAGGA	60.119	47.826	0.00	0.00	38.31	2.94
2654	4603	4.677584	CGGTCTCTGAAAGTGAATAGGAG	58.322	47.826	0.00	0.00	38.31	3.69
2655	4604	4.438148	GGTCTCTGAAAGTGAATAGGAGC	58.562	47.826	0.00	0.00	38.31	4.70
2656	4605	4.081420	GGTCTCTGAAAGTGAATAGGAGCA	60.081	45.833	0.00	0.00	38.31	4.26
2657	4606	5.396213	GGTCTCTGAAAGTGAATAGGAGCAT	60.396	44.000	0.00	0.00	38.31	3.79
2658	4607	6.183360	GGTCTCTGAAAGTGAATAGGAGCATA	60.183	42.308	0.00	0.00	38.31	3.14
2659	4608	6.922957	GTCTCTGAAAGTGAATAGGAGCATAG	59.077	42.308	0.00	0.00	38.31	2.23
2660	4609	5.605534	TCTGAAAGTGAATAGGAGCATAGC	58.394	41.667	0.00	0.00	33.76	2.97
2661	4610	4.371786	TGAAAGTGAATAGGAGCATAGCG	58.628	43.478	0.00	0.00	0.00	4.26
2662	4611	3.393089	AAGTGAATAGGAGCATAGCGG	57.607	47.619	0.00	0.00	0.00	5.52
2663	4612	1.001406	AGTGAATAGGAGCATAGCGGC	59.999	52.381	0.00	0.00	0.00	6.53
2664	4613	1.047801	TGAATAGGAGCATAGCGGCA	58.952	50.000	1.45	0.00	35.83	5.69
2665	4614	1.625315	TGAATAGGAGCATAGCGGCAT	59.375	47.619	1.45	0.00	35.83	4.40
2666	4615	2.275318	GAATAGGAGCATAGCGGCATC	58.725	52.381	1.45	0.00	35.83	3.91
2667	4616	1.269958	ATAGGAGCATAGCGGCATCA	58.730	50.000	1.45	0.00	35.83	3.07
2668	4617	1.269958	TAGGAGCATAGCGGCATCAT	58.730	50.000	1.45	0.00	35.83	2.45
2669	4618	0.036577	AGGAGCATAGCGGCATCATC	60.037	55.000	1.45	0.00	35.83	2.92
2670	4619	1.023513	GGAGCATAGCGGCATCATCC	61.024	60.000	1.45	0.00	35.83	3.51
2671	4620	0.321034	GAGCATAGCGGCATCATCCA	60.321	55.000	1.45	0.00	35.83	3.41
2672	4621	0.109153	AGCATAGCGGCATCATCCAA	59.891	50.000	1.45	0.00	35.83	3.53
2673	4622	0.520404	GCATAGCGGCATCATCCAAG	59.480	55.000	1.45	0.00	0.00	3.61
2674	4623	0.520404	CATAGCGGCATCATCCAAGC	59.480	55.000	1.45	0.00	0.00	4.01
2675	4624	0.952497	ATAGCGGCATCATCCAAGCG	60.952	55.000	1.45	0.00	0.00	4.68
2676	4625	2.026945	TAGCGGCATCATCCAAGCGA	62.027	55.000	1.45	0.00	0.00	4.93
2677	4626	2.472059	GCGGCATCATCCAAGCGAA	61.472	57.895	0.00	0.00	0.00	4.70
2678	4627	1.992233	GCGGCATCATCCAAGCGAAA	61.992	55.000	0.00	0.00	0.00	3.46
2679	4628	0.248215	CGGCATCATCCAAGCGAAAC	60.248	55.000	0.00	0.00	0.00	2.78
2680	4629	0.810648	GGCATCATCCAAGCGAAACA	59.189	50.000	0.00	0.00	0.00	2.83
2681	4630	1.468054	GGCATCATCCAAGCGAAACAC	60.468	52.381	0.00	0.00	0.00	3.32
2682	4631	1.791555	GCATCATCCAAGCGAAACACG	60.792	52.381	0.00	0.00	45.66	4.49
2683	4632	1.464608	CATCATCCAAGCGAAACACGT	59.535	47.619	0.00	0.00	44.60	4.49
2684	4633	1.144969	TCATCCAAGCGAAACACGTC	58.855	50.000	0.00	0.00	44.60	4.34
2685	4634	1.148310	CATCCAAGCGAAACACGTCT	58.852	50.000	0.00	0.00	44.60	4.18
2686	4635	1.126846	CATCCAAGCGAAACACGTCTC	59.873	52.381	0.00	0.00	44.60	3.36
2687	4636	0.599204	TCCAAGCGAAACACGTCTCC	60.599	55.000	0.00	0.00	44.60	3.71
2688	4637	0.600255	CCAAGCGAAACACGTCTCCT	60.600	55.000	0.00	0.00	44.60	3.69
2689	4638	0.784778	CAAGCGAAACACGTCTCCTC	59.215	55.000	0.00	0.00	44.60	3.71
2690	4639	0.387929	AAGCGAAACACGTCTCCTCA	59.612	50.000	0.00	0.00	44.60	3.86
2691	4640	0.039074	AGCGAAACACGTCTCCTCAG	60.039	55.000	0.00	0.00	44.60	3.35
2692	4641	0.318784	GCGAAACACGTCTCCTCAGT	60.319	55.000	0.00	0.00	44.60	3.41
2693	4642	1.687628	CGAAACACGTCTCCTCAGTC	58.312	55.000	0.00	0.00	37.22	3.51
2694	4643	1.001706	CGAAACACGTCTCCTCAGTCA	60.002	52.381	0.00	0.00	37.22	3.41
2695	4644	2.543031	CGAAACACGTCTCCTCAGTCAA	60.543	50.000	0.00	0.00	37.22	3.18
2696	4645	2.802787	AACACGTCTCCTCAGTCAAG	57.197	50.000	0.00	0.00	0.00	3.02
2697	4646	0.962489	ACACGTCTCCTCAGTCAAGG	59.038	55.000	0.00	0.00	37.81	3.61
2698	4647	0.244994	CACGTCTCCTCAGTCAAGGG	59.755	60.000	0.00	0.00	37.02	3.95
2699	4648	1.216710	CGTCTCCTCAGTCAAGGGC	59.783	63.158	0.00	0.00	37.02	5.19
2700	4649	1.216710	GTCTCCTCAGTCAAGGGCG	59.783	63.158	0.00	0.00	37.02	6.13
2701	4650	1.984570	TCTCCTCAGTCAAGGGCGG	60.985	63.158	0.00	0.00	37.02	6.13
2702	4651	2.203788	TCCTCAGTCAAGGGCGGT	60.204	61.111	0.00	0.00	37.02	5.68
2703	4652	0.970937	CTCCTCAGTCAAGGGCGGTA	60.971	60.000	0.00	0.00	37.02	4.02
2704	4653	0.543410	TCCTCAGTCAAGGGCGGTAA	60.543	55.000	0.00	0.00	37.02	2.85
2705	4654	0.323629	CCTCAGTCAAGGGCGGTAAA	59.676	55.000	0.00	0.00	32.35	2.01
2706	4655	1.676014	CCTCAGTCAAGGGCGGTAAAG	60.676	57.143	0.00	0.00	32.35	1.85
2707	4656	0.321298	TCAGTCAAGGGCGGTAAAGC	60.321	55.000	0.00	0.00	0.00	3.51
2719	4668	4.443913	GCGGTAAAGCCCATTAAAAAGA	57.556	40.909	0.00	0.00	0.00	2.52
2720	4669	4.421058	GCGGTAAAGCCCATTAAAAAGAG	58.579	43.478	0.00	0.00	0.00	2.85
2721	4670	4.082408	GCGGTAAAGCCCATTAAAAAGAGT	60.082	41.667	0.00	0.00	0.00	3.24
2722	4671	5.399013	CGGTAAAGCCCATTAAAAAGAGTG	58.601	41.667	0.00	0.00	0.00	3.51
2723	4672	5.168569	GGTAAAGCCCATTAAAAAGAGTGC	58.831	41.667	0.00	0.00	0.00	4.40
2724	4673	3.961480	AAGCCCATTAAAAAGAGTGCC	57.039	42.857	0.00	0.00	0.00	5.01
2725	4674	2.888212	AGCCCATTAAAAAGAGTGCCA	58.112	42.857	0.00	0.00	0.00	4.92
2726	4675	2.562738	AGCCCATTAAAAAGAGTGCCAC	59.437	45.455	0.00	0.00	0.00	5.01
2727	4676	2.671070	GCCCATTAAAAAGAGTGCCACG	60.671	50.000	0.00	0.00	0.00	4.94
2728	4677	2.595386	CCATTAAAAAGAGTGCCACGC	58.405	47.619	0.00	0.00	0.00	5.34
2729	4678	2.030363	CCATTAAAAAGAGTGCCACGCA	60.030	45.455	0.41	0.00	35.60	5.24
2730	4679	3.236816	CATTAAAAAGAGTGCCACGCAG	58.763	45.455	0.41	0.00	40.08	5.18
2731	4680	2.248280	TAAAAAGAGTGCCACGCAGA	57.752	45.000	0.41	0.00	40.08	4.26
2732	4681	1.388547	AAAAAGAGTGCCACGCAGAA	58.611	45.000	0.41	0.00	40.08	3.02
2733	4682	0.947244	AAAAGAGTGCCACGCAGAAG	59.053	50.000	0.41	0.00	40.08	2.85
2734	4683	1.510480	AAAGAGTGCCACGCAGAAGC	61.510	55.000	0.41	0.00	40.08	3.86
2735	4684	2.665008	AAGAGTGCCACGCAGAAGCA	62.665	55.000	0.41	0.00	40.08	3.91
2738	4687	4.254709	TGCCACGCAGAAGCACCT	62.255	61.111	0.00	0.00	42.27	4.00
2739	4688	3.426568	GCCACGCAGAAGCACCTC	61.427	66.667	0.00	0.00	42.27	3.85
2740	4689	2.743928	CCACGCAGAAGCACCTCC	60.744	66.667	0.00	0.00	42.27	4.30
2741	4690	2.345244	CACGCAGAAGCACCTCCT	59.655	61.111	0.00	0.00	42.27	3.69
2742	4691	2.031516	CACGCAGAAGCACCTCCTG	61.032	63.158	0.00	0.00	42.27	3.86
2743	4692	2.345244	CGCAGAAGCACCTCCTGT	59.655	61.111	0.00	0.00	42.27	4.00
2751	4700	4.974792	CACCTCCTGTGTCACTCG	57.025	61.111	4.27	0.00	40.26	4.18
2752	4701	2.341452	CACCTCCTGTGTCACTCGA	58.659	57.895	4.27	0.00	40.26	4.04
2753	4702	0.891373	CACCTCCTGTGTCACTCGAT	59.109	55.000	4.27	0.00	40.26	3.59
2754	4703	1.135257	CACCTCCTGTGTCACTCGATC	60.135	57.143	4.27	0.00	40.26	3.69
2755	4704	0.457851	CCTCCTGTGTCACTCGATCC	59.542	60.000	4.27	0.00	0.00	3.36
2756	4705	1.177401	CTCCTGTGTCACTCGATCCA	58.823	55.000	4.27	0.00	0.00	3.41
2757	4706	1.546029	CTCCTGTGTCACTCGATCCAA	59.454	52.381	4.27	0.00	0.00	3.53
2758	4707	1.967779	TCCTGTGTCACTCGATCCAAA	59.032	47.619	4.27	0.00	0.00	3.28
2759	4708	2.069273	CCTGTGTCACTCGATCCAAAC	58.931	52.381	4.27	0.00	0.00	2.93
2760	4709	2.069273	CTGTGTCACTCGATCCAAACC	58.931	52.381	4.27	0.00	0.00	3.27
2761	4710	1.270625	TGTGTCACTCGATCCAAACCC	60.271	52.381	4.27	0.00	0.00	4.11
2762	4711	0.037697	TGTCACTCGATCCAAACCCG	60.038	55.000	0.00	0.00	0.00	5.28
2763	4712	0.245539	GTCACTCGATCCAAACCCGA	59.754	55.000	0.00	0.00	0.00	5.14
2764	4713	0.245539	TCACTCGATCCAAACCCGAC	59.754	55.000	0.00	0.00	0.00	4.79
2765	4714	0.037697	CACTCGATCCAAACCCGACA	60.038	55.000	0.00	0.00	0.00	4.35
2766	4715	0.037605	ACTCGATCCAAACCCGACAC	60.038	55.000	0.00	0.00	0.00	3.67
2767	4716	0.037697	CTCGATCCAAACCCGACACA	60.038	55.000	0.00	0.00	0.00	3.72
2768	4717	0.611200	TCGATCCAAACCCGACACAT	59.389	50.000	0.00	0.00	0.00	3.21
2769	4718	1.006832	CGATCCAAACCCGACACATC	58.993	55.000	0.00	0.00	0.00	3.06

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
37	38	2.623416	AGCCTGCAACCAAGTAAACTTC	59.377	45.455	0.00	0.00	33.11	3.01
443	504	0.687920	TGAGCCGTACAATTGACCCA	59.312	50.000	13.59	0.00	0.00	4.51
444	505	1.467342	GTTGAGCCGTACAATTGACCC	59.533	52.381	13.59	0.00	0.00	4.46
506	885	5.046231	ACAACCTCCAACTTAAAAGGCAAAA	60.046	36.000	0.00	0.00	31.79	2.44
543	922	7.887381	TCTTTTACACCTTTCAAGTTTCAACA	58.113	30.769	0.00	0.00	0.00	3.33
658	1037	6.237595	GCTCACGTACATCAACATTTCTACTC	60.238	42.308	0.00	0.00	0.00	2.59
659	1038	5.577164	GCTCACGTACATCAACATTTCTACT	59.423	40.000	0.00	0.00	0.00	2.57
660	1039	5.347635	TGCTCACGTACATCAACATTTCTAC	59.652	40.000	0.00	0.00	0.00	2.59
662	1041	4.314961	TGCTCACGTACATCAACATTTCT	58.685	39.130	0.00	0.00	0.00	2.52
663	1042	4.436050	CCTGCTCACGTACATCAACATTTC	60.436	45.833	0.00	0.00	0.00	2.17
664	1043	3.436704	CCTGCTCACGTACATCAACATTT	59.563	43.478	0.00	0.00	0.00	2.32
667	1046	1.337728	CCCTGCTCACGTACATCAACA	60.338	52.381	0.00	0.00	0.00	3.33
740	1155	0.308684	TGCTTCACGCTTTGCTTCAG	59.691	50.000	0.00	0.00	40.11	3.02
741	1156	0.308684	CTGCTTCACGCTTTGCTTCA	59.691	50.000	0.00	0.00	40.11	3.02
742	1157	0.308993	ACTGCTTCACGCTTTGCTTC	59.691	50.000	0.00	0.00	40.11	3.86
749	1165	1.213013	CTACCGACTGCTTCACGCT	59.787	57.895	0.00	0.00	40.11	5.07
763	1179	0.819666	GGCTATGCTGTTGGCCTACC	60.820	60.000	15.00	0.73	41.20	3.18
772	1188	1.264749	TGAAGACCGGGCTATGCTGT	61.265	55.000	12.33	0.00	0.00	4.40
827	2703	5.407502	TGGTCATCATAGTCAAACACGTAG	58.592	41.667	0.00	0.00	0.00	3.51
946	2839	0.033781	CGTGTCCCGGTAGTTGGAAA	59.966	55.000	0.00	0.00	31.03	3.13
952	2845	1.000171	GAAGAAACGTGTCCCGGTAGT	60.000	52.381	0.95	0.00	42.24	2.73
958	2851	0.949397	GGGTTGAAGAAACGTGTCCC	59.051	55.000	0.95	0.00	39.91	4.46
991	2888	7.121759	GTGTCGGGTCCTATATAAGCAATACTA	59.878	40.741	0.00	0.00	0.00	1.82
992	2889	6.014647	TGTCGGGTCCTATATAAGCAATACT	58.985	40.000	0.00	0.00	0.00	2.12
999	2896	4.825634	TGTCTGTGTCGGGTCCTATATAAG	59.174	45.833	0.00	0.00	0.00	1.73
1000	2897	4.581824	GTGTCTGTGTCGGGTCCTATATAA	59.418	45.833	0.00	0.00	0.00	0.98
1033	2930	0.323629	TCGAGCGGAGATTGGGTTTT	59.676	50.000	0.00	0.00	0.00	2.43
1038	2940	2.131183	GATCTTTCGAGCGGAGATTGG	58.869	52.381	9.71	0.00	30.64	3.16
1173	3079	0.107897	TTGTAGATTGCCGCCGATGT	60.108	50.000	0.00	0.00	0.00	3.06
1359	3265	2.185310	GAGTTGAGGGTGGCGATGGT	62.185	60.000	0.00	0.00	0.00	3.55
1463	3369	0.454620	GCACGACGTCGATCTTGACT	60.455	55.000	41.52	16.22	43.02	3.41
1487	3393	1.467678	CCGGCGAGGAAGAGGATGAT	61.468	60.000	9.30	0.00	45.00	2.45
1520	3426	2.987547	CACTGCTTGCACTGGGGG	60.988	66.667	0.00	0.00	0.00	5.40
1558	3464	2.590007	CATAGAGGTGGCGGCTGC	60.590	66.667	9.72	9.72	41.71	5.25
1668	3577	5.159273	TGTACACCACAGATGCTTGATAA	57.841	39.130	0.00	0.00	31.89	1.75
1679	3588	7.097192	ACTTGACTATACAATGTACACCACAG	58.903	38.462	0.00	0.00	41.51	3.66
1718	3629	5.428253	ACGTGAAGCCTGAATACATACAAT	58.572	37.500	0.00	0.00	0.00	2.71
1802	3715	1.679153	GTTGGTGAACATGTTTCGGGT	59.321	47.619	13.36	0.00	31.78	5.28
1817	3730	1.272480	GGGTGGCTTCTTATGGTTGGT	60.272	52.381	0.00	0.00	0.00	3.67
1965	3879	1.211457	GATCTGCATGTTGGTCCTCCT	59.789	52.381	0.00	0.00	34.23	3.69
1967	3881	2.408271	TGATCTGCATGTTGGTCCTC	57.592	50.000	0.00	0.00	0.00	3.71
1993	3907	2.727123	TTTCTCTGGCTTGACCACAA	57.273	45.000	0.00	0.00	46.36	3.33
2026	3960	3.610791	TTGTCGAGCTCGTCTGCCG	62.611	63.158	33.33	9.27	40.80	5.69
2126	4061	3.542676	TCGTGGCGGAGTGGTTGT	61.543	61.111	0.00	0.00	0.00	3.32
2163	4106	0.323302	TATCTTGCGGCTTGACACCA	59.677	50.000	0.00	0.00	0.00	4.17
2488	4433	2.870435	GCGTATTGGTGTGTGTTCTCCT	60.870	50.000	0.00	0.00	0.00	3.69
2503	4452	1.876714	CAGTGGCTACGCGCGTATT	60.877	57.895	39.19	19.83	40.44	1.89
2610	4559	0.934436	CTGAGTTTGCCGGTTTTGCG	60.934	55.000	1.90	0.00	0.00	4.85
2611	4560	0.383949	TCTGAGTTTGCCGGTTTTGC	59.616	50.000	1.90	0.00	0.00	3.68
2612	4561	1.600413	GCTCTGAGTTTGCCGGTTTTG	60.600	52.381	1.90	0.00	0.00	2.44
2613	4562	0.668535	GCTCTGAGTTTGCCGGTTTT	59.331	50.000	1.90	0.00	0.00	2.43
2614	4563	1.507141	CGCTCTGAGTTTGCCGGTTT	61.507	55.000	1.90	0.00	0.00	3.27
2615	4564	1.961277	CGCTCTGAGTTTGCCGGTT	60.961	57.895	1.90	0.00	0.00	4.44
2616	4565	2.357517	CGCTCTGAGTTTGCCGGT	60.358	61.111	1.90	0.00	0.00	5.28
2617	4566	3.121030	CCGCTCTGAGTTTGCCGG	61.121	66.667	6.53	0.00	0.00	6.13
2618	4567	2.357517	ACCGCTCTGAGTTTGCCG	60.358	61.111	6.53	0.75	0.00	5.69
2619	4568	1.004440	AGACCGCTCTGAGTTTGCC	60.004	57.895	6.53	0.00	0.00	4.52
2620	4569	2.450619	GAGACCGCTCTGAGTTTGC	58.549	57.895	6.53	0.00	38.16	3.68
2629	4578	2.440539	TTCACTTTCAGAGACCGCTC	57.559	50.000	0.00	0.00	41.62	5.03
2630	4579	3.118956	CCTATTCACTTTCAGAGACCGCT	60.119	47.826	0.00	0.00	0.00	5.52
2631	4580	3.119101	TCCTATTCACTTTCAGAGACCGC	60.119	47.826	0.00	0.00	0.00	5.68
2632	4581	4.677584	CTCCTATTCACTTTCAGAGACCG	58.322	47.826	0.00	0.00	0.00	4.79
2633	4582	4.081420	TGCTCCTATTCACTTTCAGAGACC	60.081	45.833	0.00	0.00	0.00	3.85
2634	4583	5.078411	TGCTCCTATTCACTTTCAGAGAC	57.922	43.478	0.00	0.00	0.00	3.36
2635	4584	5.946942	ATGCTCCTATTCACTTTCAGAGA	57.053	39.130	0.00	0.00	0.00	3.10
2636	4585	5.695816	GCTATGCTCCTATTCACTTTCAGAG	59.304	44.000	0.00	0.00	0.00	3.35
2637	4586	5.605534	GCTATGCTCCTATTCACTTTCAGA	58.394	41.667	0.00	0.00	0.00	3.27
2638	4587	4.447054	CGCTATGCTCCTATTCACTTTCAG	59.553	45.833	0.00	0.00	0.00	3.02
2639	4588	4.371786	CGCTATGCTCCTATTCACTTTCA	58.628	43.478	0.00	0.00	0.00	2.69
2640	4589	3.743396	CCGCTATGCTCCTATTCACTTTC	59.257	47.826	0.00	0.00	0.00	2.62
2641	4590	3.733337	CCGCTATGCTCCTATTCACTTT	58.267	45.455	0.00	0.00	0.00	2.66
2642	4591	2.548920	GCCGCTATGCTCCTATTCACTT	60.549	50.000	0.00	0.00	0.00	3.16
2643	4592	1.001406	GCCGCTATGCTCCTATTCACT	59.999	52.381	0.00	0.00	0.00	3.41
2644	4593	1.270305	TGCCGCTATGCTCCTATTCAC	60.270	52.381	0.00	0.00	0.00	3.18
2645	4594	1.047801	TGCCGCTATGCTCCTATTCA	58.952	50.000	0.00	0.00	0.00	2.57
2646	4595	2.275318	GATGCCGCTATGCTCCTATTC	58.725	52.381	0.00	0.00	0.00	1.75
2647	4596	1.625315	TGATGCCGCTATGCTCCTATT	59.375	47.619	0.00	0.00	0.00	1.73
2648	4597	1.269958	TGATGCCGCTATGCTCCTAT	58.730	50.000	0.00	0.00	0.00	2.57
2649	4598	1.205655	GATGATGCCGCTATGCTCCTA	59.794	52.381	0.00	0.00	0.00	2.94
2650	4599	0.036577	GATGATGCCGCTATGCTCCT	60.037	55.000	0.00	0.00	0.00	3.69
2651	4600	1.023513	GGATGATGCCGCTATGCTCC	61.024	60.000	0.00	0.00	0.00	4.70
2652	4601	0.321034	TGGATGATGCCGCTATGCTC	60.321	55.000	0.00	0.00	0.00	4.26
2653	4602	0.109153	TTGGATGATGCCGCTATGCT	59.891	50.000	0.00	0.00	0.00	3.79
2654	4603	0.520404	CTTGGATGATGCCGCTATGC	59.480	55.000	0.00	0.00	0.00	3.14
2655	4604	0.520404	GCTTGGATGATGCCGCTATG	59.480	55.000	0.00	0.00	0.00	2.23
2656	4605	0.952497	CGCTTGGATGATGCCGCTAT	60.952	55.000	0.00	0.00	0.00	2.97
2657	4606	1.595109	CGCTTGGATGATGCCGCTA	60.595	57.895	0.00	0.00	0.00	4.26
2658	4607	2.874648	TTCGCTTGGATGATGCCGCT	62.875	55.000	0.00	0.00	0.00	5.52
2659	4608	1.992233	TTTCGCTTGGATGATGCCGC	61.992	55.000	0.00	0.00	0.00	6.53
2660	4609	0.248215	GTTTCGCTTGGATGATGCCG	60.248	55.000	0.00	0.00	0.00	5.69
2661	4610	0.810648	TGTTTCGCTTGGATGATGCC	59.189	50.000	0.00	0.00	0.00	4.40
2662	4611	1.791555	CGTGTTTCGCTTGGATGATGC	60.792	52.381	0.00	0.00	0.00	3.91
2663	4612	1.464608	ACGTGTTTCGCTTGGATGATG	59.535	47.619	0.00	0.00	44.19	3.07
2664	4613	1.732259	GACGTGTTTCGCTTGGATGAT	59.268	47.619	0.00	0.00	44.19	2.45
2665	4614	1.144969	GACGTGTTTCGCTTGGATGA	58.855	50.000	0.00	0.00	44.19	2.92
2666	4615	1.126846	GAGACGTGTTTCGCTTGGATG	59.873	52.381	0.00	0.00	44.19	3.51
2667	4616	1.429463	GAGACGTGTTTCGCTTGGAT	58.571	50.000	0.00	0.00	44.19	3.41
2668	4617	0.599204	GGAGACGTGTTTCGCTTGGA	60.599	55.000	0.00	0.00	44.19	3.53
2669	4618	0.600255	AGGAGACGTGTTTCGCTTGG	60.600	55.000	0.00	0.00	44.19	3.61
2670	4619	0.784778	GAGGAGACGTGTTTCGCTTG	59.215	55.000	0.00	0.00	44.19	4.01
2671	4620	0.387929	TGAGGAGACGTGTTTCGCTT	59.612	50.000	0.00	0.00	44.19	4.68
2672	4621	0.039074	CTGAGGAGACGTGTTTCGCT	60.039	55.000	0.00	0.00	44.19	4.93
2673	4622	0.318784	ACTGAGGAGACGTGTTTCGC	60.319	55.000	0.00	0.00	44.19	4.70
2674	4623	1.001706	TGACTGAGGAGACGTGTTTCG	60.002	52.381	0.00	0.00	46.00	3.46
2675	4624	2.795175	TGACTGAGGAGACGTGTTTC	57.205	50.000	0.00	0.00	0.00	2.78
2676	4625	2.224066	CCTTGACTGAGGAGACGTGTTT	60.224	50.000	0.00	0.00	39.25	2.83
2677	4626	1.341531	CCTTGACTGAGGAGACGTGTT	59.658	52.381	0.00	0.00	39.25	3.32
2678	4627	0.962489	CCTTGACTGAGGAGACGTGT	59.038	55.000	0.00	0.00	39.25	4.49
2679	4628	0.244994	CCCTTGACTGAGGAGACGTG	59.755	60.000	0.00	0.00	39.25	4.49
2680	4629	1.536943	GCCCTTGACTGAGGAGACGT	61.537	60.000	0.00	0.00	39.25	4.34
2681	4630	1.216710	GCCCTTGACTGAGGAGACG	59.783	63.158	0.00	0.00	39.25	4.18
2682	4631	1.216710	CGCCCTTGACTGAGGAGAC	59.783	63.158	0.00	0.00	39.25	3.36
2683	4632	1.984570	CCGCCCTTGACTGAGGAGA	60.985	63.158	0.00	0.00	39.25	3.71
2684	4633	0.970937	TACCGCCCTTGACTGAGGAG	60.971	60.000	0.00	0.00	39.25	3.69
2685	4634	0.543410	TTACCGCCCTTGACTGAGGA	60.543	55.000	0.00	0.00	39.25	3.71
2686	4635	0.323629	TTTACCGCCCTTGACTGAGG	59.676	55.000	0.00	0.00	36.52	3.86
2687	4636	1.726853	CTTTACCGCCCTTGACTGAG	58.273	55.000	0.00	0.00	0.00	3.35
2688	4637	0.321298	GCTTTACCGCCCTTGACTGA	60.321	55.000	0.00	0.00	0.00	3.41
2689	4638	1.305930	GGCTTTACCGCCCTTGACTG	61.306	60.000	0.00	0.00	44.41	3.51
2690	4639	1.002502	GGCTTTACCGCCCTTGACT	60.003	57.895	0.00	0.00	44.41	3.41
2691	4640	3.587095	GGCTTTACCGCCCTTGAC	58.413	61.111	0.00	0.00	44.41	3.18
2698	4647	4.082408	ACTCTTTTTAATGGGCTTTACCGC	60.082	41.667	0.00	0.00	40.62	5.68
2699	4648	5.399013	CACTCTTTTTAATGGGCTTTACCG	58.601	41.667	0.00	0.00	40.62	4.02
2700	4649	5.168569	GCACTCTTTTTAATGGGCTTTACC	58.831	41.667	0.00	0.00	37.93	2.85
2701	4650	5.168569	GGCACTCTTTTTAATGGGCTTTAC	58.831	41.667	0.00	0.00	0.00	2.01
2702	4651	4.835615	TGGCACTCTTTTTAATGGGCTTTA	59.164	37.500	0.00	0.00	0.00	1.85
2703	4652	3.645687	TGGCACTCTTTTTAATGGGCTTT	59.354	39.130	0.00	0.00	0.00	3.51
2704	4653	3.006859	GTGGCACTCTTTTTAATGGGCTT	59.993	43.478	11.13	0.00	0.00	4.35
2705	4654	2.562738	GTGGCACTCTTTTTAATGGGCT	59.437	45.455	11.13	0.00	0.00	5.19
2706	4655	2.671070	CGTGGCACTCTTTTTAATGGGC	60.671	50.000	16.72	0.00	0.00	5.36
2707	4656	2.671070	GCGTGGCACTCTTTTTAATGGG	60.671	50.000	16.72	0.00	0.00	4.00
2708	4657	2.030363	TGCGTGGCACTCTTTTTAATGG	60.030	45.455	16.72	0.00	31.71	3.16
2709	4658	3.058293	TCTGCGTGGCACTCTTTTTAATG	60.058	43.478	16.72	0.00	33.79	1.90
2710	4659	3.146066	TCTGCGTGGCACTCTTTTTAAT	58.854	40.909	16.72	0.00	33.79	1.40
2711	4660	2.566913	TCTGCGTGGCACTCTTTTTAA	58.433	42.857	16.72	0.00	33.79	1.52
2712	4661	2.248280	TCTGCGTGGCACTCTTTTTA	57.752	45.000	16.72	0.00	33.79	1.52
2713	4662	1.334869	CTTCTGCGTGGCACTCTTTTT	59.665	47.619	16.72	0.00	33.79	1.94
2714	4663	0.947244	CTTCTGCGTGGCACTCTTTT	59.053	50.000	16.72	0.00	33.79	2.27
2715	4664	1.510480	GCTTCTGCGTGGCACTCTTT	61.510	55.000	16.72	0.00	33.79	2.52
2716	4665	1.963338	GCTTCTGCGTGGCACTCTT	60.963	57.895	16.72	0.00	33.79	2.85
2717	4666	2.358003	GCTTCTGCGTGGCACTCT	60.358	61.111	16.72	0.00	33.79	3.24
2718	4667	2.666190	TGCTTCTGCGTGGCACTC	60.666	61.111	16.72	8.59	43.34	3.51
2721	4670	4.254709	AGGTGCTTCTGCGTGGCA	62.255	61.111	0.00	0.00	43.34	4.92
2722	4671	3.426568	GAGGTGCTTCTGCGTGGC	61.427	66.667	0.00	0.00	43.34	5.01
2723	4672	2.743928	GGAGGTGCTTCTGCGTGG	60.744	66.667	0.00	0.00	43.34	4.94
2724	4673	2.031516	CAGGAGGTGCTTCTGCGTG	61.032	63.158	0.00	0.00	43.34	5.34
2725	4674	2.345244	CAGGAGGTGCTTCTGCGT	59.655	61.111	0.00	0.00	43.34	5.24
2726	4675	2.031516	CACAGGAGGTGCTTCTGCG	61.032	63.158	0.00	0.00	40.58	5.18
2727	4676	3.978272	CACAGGAGGTGCTTCTGC	58.022	61.111	0.00	0.00	40.58	4.26
2735	4684	1.178276	GATCGAGTGACACAGGAGGT	58.822	55.000	8.59	0.00	0.00	3.85
2736	4685	0.457851	GGATCGAGTGACACAGGAGG	59.542	60.000	8.59	0.00	0.00	4.30
2737	4686	1.177401	TGGATCGAGTGACACAGGAG	58.823	55.000	8.59	0.00	0.00	3.69
2738	4687	1.627864	TTGGATCGAGTGACACAGGA	58.372	50.000	8.59	4.72	0.00	3.86
2739	4688	2.069273	GTTTGGATCGAGTGACACAGG	58.931	52.381	8.59	0.00	0.00	4.00
2740	4689	2.069273	GGTTTGGATCGAGTGACACAG	58.931	52.381	8.59	1.43	0.00	3.66
2741	4690	1.270625	GGGTTTGGATCGAGTGACACA	60.271	52.381	8.59	0.00	0.00	3.72
2742	4691	1.439679	GGGTTTGGATCGAGTGACAC	58.560	55.000	0.00	0.00	0.00	3.67
2743	4692	0.037697	CGGGTTTGGATCGAGTGACA	60.038	55.000	0.00	0.00	0.00	3.58
2744	4693	0.245539	TCGGGTTTGGATCGAGTGAC	59.754	55.000	0.00	0.00	0.00	3.67
2745	4694	0.245539	GTCGGGTTTGGATCGAGTGA	59.754	55.000	0.00	0.00	33.41	3.41
2746	4695	0.037697	TGTCGGGTTTGGATCGAGTG	60.038	55.000	0.00	0.00	33.41	3.51
2747	4696	0.037605	GTGTCGGGTTTGGATCGAGT	60.038	55.000	0.00	0.00	33.41	4.18
2748	4697	0.037697	TGTGTCGGGTTTGGATCGAG	60.038	55.000	0.00	0.00	33.41	4.04
2749	4698	0.611200	ATGTGTCGGGTTTGGATCGA	59.389	50.000	0.00	0.00	0.00	3.59
2750	4699	1.006832	GATGTGTCGGGTTTGGATCG	58.993	55.000	0.00	0.00	0.00	3.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.