AutoCloner

Multiple sequence alignment - TraesCS6B01G446900

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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	TraesCS6B01G446900	chr6B	100.000	2417	0	0	1	2417	707810873	707813289	0.000000e+00	4464.0
1	TraesCS6B01G446900	chr6B	90.433	993	88	5	1430	2417	715856407	715855417	0.000000e+00	1301.0
2	TraesCS6B01G446900	chr6B	90.923	661	47	8	248	905	9925500	9924850	0.000000e+00	876.0
3	TraesCS6B01G446900	chr6B	89.169	397	32	7	247	639	9924263	9923874	3.610000e-133	484.0
4	TraesCS6B01G446900	chr7D	89.403	1189	95	13	245	1413	14047051	14045874	0.000000e+00	1469.0
5	TraesCS6B01G446900	chr7D	91.102	753	63	2	661	1413	408566120	408565372	0.000000e+00	1016.0
6	TraesCS6B01G446900	chr7D	87.059	850	91	8	577	1413	304551585	304552428	0.000000e+00	942.0
7	TraesCS6B01G446900	chr7D	90.247	687	54	5	736	1413	581129483	581128801	0.000000e+00	885.0
8	TraesCS6B01G446900	chr7D	89.925	665	53	4	758	1413	124617934	124618593	0.000000e+00	845.0
9	TraesCS6B01G446900	chr7D	93.206	471	29	3	174	644	64493737	64494204	0.000000e+00	689.0
10	TraesCS6B01G446900	chr7D	92.947	397	22	5	245	639	14045759	14045367	7.500000e-160	573.0
11	TraesCS6B01G446900	chr7D	100.000	33	0	0	542	574	632027602	632027570	7.220000e-06	62.1
12	TraesCS6B01G446900	chr5B	88.263	1261	95	17	179	1413	448846450	448845217	0.000000e+00	1459.0
13	TraesCS6B01G446900	chr5B	88.055	653	72	3	762	1413	688015966	688015319	0.000000e+00	769.0
14	TraesCS6B01G446900	chr5B	94.086	186	11	0	455	640	448843120	448842935	1.410000e-72	283.0
15	TraesCS6B01G446900	chr6A	90.390	999	90	5	1424	2417	613601630	613602627	0.000000e+00	1308.0
16	TraesCS6B01G446900	chr6A	89.951	1015	96	5	1407	2417	27177128	27178140	0.000000e+00	1304.0
17	TraesCS6B01G446900	chr6A	86.579	611	70	8	634	1233	326422968	326422359	0.000000e+00	664.0
18	TraesCS6B01G446900	chr6A	86.905	168	21	1	179	346	90264702	90264536	1.140000e-43	187.0
19	TraesCS6B01G446900	chr3A	89.921	1012	96	4	1407	2414	8320195	8321204	0.000000e+00	1299.0
20	TraesCS6B01G446900	chr4B	90.190	999	90	6	1424	2417	547210690	547209695	0.000000e+00	1295.0
21	TraesCS6B01G446900	chrUn	89.744	1014	97	6	1410	2417	112972197	112971185	0.000000e+00	1290.0
22	TraesCS6B01G446900	chrUn	90.080	998	89	6	1429	2417	47641746	47640750	0.000000e+00	1286.0
23	TraesCS6B01G446900	chrUn	88.000	550	48	5	661	1192	32436471	32435922	3.390000e-178	634.0
24	TraesCS6B01G446900	chrUn	88.259	494	40	3	762	1237	36168123	36167630	2.080000e-160	575.0
25	TraesCS6B01G446900	chrUn	83.333	276	30	8	179	444	238125127	238124858	8.630000e-60	241.0
26	TraesCS6B01G446900	chrUn	87.081	209	25	1	761	969	321936210	321936004	4.020000e-58	235.0
27	TraesCS6B01G446900	chrUn	80.000	275	36	14	179	446	385685	385423	4.100000e-43	185.0
28	TraesCS6B01G446900	chrUn	80.000	275	36	14	179	446	317801774	317801512	4.100000e-43	185.0
29	TraesCS6B01G446900	chrUn	76.276	392	53	26	628	1013	277735488	277735845	3.190000e-39	172.0
30	TraesCS6B01G446900	chrUn	76.276	392	53	26	628	1013	282948101	282948458	3.190000e-39	172.0
31	TraesCS6B01G446900	chrUn	81.818	143	23	3	198	339	335842666	335842806	1.520000e-22	117.0
32	TraesCS6B01G446900	chrUn	81.818	143	23	3	198	339	382530688	382530828	1.520000e-22	117.0
33	TraesCS6B01G446900	chrUn	88.172	93	11	0	660	752	231614946	231615038	7.060000e-21	111.0
34	TraesCS6B01G446900	chrUn	85.714	98	14	0	660	757	231616045	231616142	1.180000e-18	104.0
35	TraesCS6B01G446900	chr4A	89.665	1016	100	4	1407	2417	731969064	731970079	0.000000e+00	1290.0
36	TraesCS6B01G446900	chr4A	85.406	788	99	13	634	1413	39597975	39597196	0.000000e+00	804.0
37	TraesCS6B01G446900	chr2B	89.557	1015	102	3	1407	2417	473306267	473307281	0.000000e+00	1284.0
38	TraesCS6B01G446900	chr1B	86.433	1172	100	32	179	1309	643016939	643018092	0.000000e+00	1229.0
39	TraesCS6B01G446900	chr1B	89.275	662	55	8	762	1413	29292464	29291809	0.000000e+00	815.0
40	TraesCS6B01G446900	chr1B	80.139	287	36	16	178	461	347776903	347777171	6.820000e-46	195.0
41	TraesCS6B01G446900	chr1B	87.578	161	18	2	179	338	91656159	91656318	4.100000e-43	185.0
42	TraesCS6B01G446900	chr1D	91.310	771	49	2	661	1413	69474854	69474084	0.000000e+00	1037.0
43	TraesCS6B01G446900	chr1D	89.682	785	64	11	642	1413	195760576	195759796	0.000000e+00	985.0
44	TraesCS6B01G446900	chr7B	91.896	728	56	3	179	905	750577344	750578069	0.000000e+00	1014.0
45	TraesCS6B01G446900	chr7B	91.423	548	45	2	867	1413	495302338	495301792	0.000000e+00	750.0
46	TraesCS6B01G446900	chr3D	92.427	647	46	3	661	1307	579302611	579301968	0.000000e+00	920.0
47	TraesCS6B01G446900	chr3D	88.889	162	17	1	185	345	608216196	608216035	5.270000e-47	198.0
48	TraesCS6B01G446900	chr4D	87.927	762	59	8	661	1413	464718762	464719499	0.000000e+00	867.0
49	TraesCS6B01G446900	chr4D	85.794	359	41	7	618	967	95284203	95283846	2.930000e-99	372.0
50	TraesCS6B01G446900	chr4D	84.568	162	17	7	178	337	502390209	502390054	1.160000e-33	154.0
51	TraesCS6B01G446900	chr5A	89.458	664	52	3	763	1408	1812379	1811716	0.000000e+00	822.0
52	TraesCS6B01G446900	chr5A	88.438	666	68	6	754	1413	304461279	304461941	0.000000e+00	795.0
53	TraesCS6B01G446900	chr6D	89.619	578	42	8	697	1265	136744938	136744370	0.000000e+00	719.0
54	TraesCS6B01G446900	chr6D	88.942	208	23	0	762	969	53129601	53129394	8.570000e-65	257.0
55	TraesCS6B01G446900	chr5D	92.094	468	30	4	179	640	510564976	510565442	0.000000e+00	652.0
56	TraesCS6B01G446900	chr5D	88.065	310	35	2	661	969	97050902	97051210	1.370000e-97	366.0

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	TraesCS6B01G446900	chr6B	707810873	707813289	2416	False	4464	4464	100.0000	1	2417	1	chr6B.!!$F1	2416
1	TraesCS6B01G446900	chr6B	715855417	715856407	990	True	1301	1301	90.4330	1430	2417	1	chr6B.!!$R1	987
2	TraesCS6B01G446900	chr6B	9923874	9925500	1626	True	680	876	90.0460	247	905	2	chr6B.!!$R2	658
3	TraesCS6B01G446900	chr7D	14045367	14047051	1684	True	1021	1469	91.1750	245	1413	2	chr7D.!!$R4	1168
4	TraesCS6B01G446900	chr7D	408565372	408566120	748	True	1016	1016	91.1020	661	1413	1	chr7D.!!$R1	752
5	TraesCS6B01G446900	chr7D	304551585	304552428	843	False	942	942	87.0590	577	1413	1	chr7D.!!$F3	836
6	TraesCS6B01G446900	chr7D	581128801	581129483	682	True	885	885	90.2470	736	1413	1	chr7D.!!$R2	677
7	TraesCS6B01G446900	chr7D	124617934	124618593	659	False	845	845	89.9250	758	1413	1	chr7D.!!$F2	655
8	TraesCS6B01G446900	chr5B	448842935	448846450	3515	True	871	1459	91.1745	179	1413	2	chr5B.!!$R2	1234
9	TraesCS6B01G446900	chr5B	688015319	688015966	647	True	769	769	88.0550	762	1413	1	chr5B.!!$R1	651
10	TraesCS6B01G446900	chr6A	613601630	613602627	997	False	1308	1308	90.3900	1424	2417	1	chr6A.!!$F2	993
11	TraesCS6B01G446900	chr6A	27177128	27178140	1012	False	1304	1304	89.9510	1407	2417	1	chr6A.!!$F1	1010
12	TraesCS6B01G446900	chr6A	326422359	326422968	609	True	664	664	86.5790	634	1233	1	chr6A.!!$R2	599
13	TraesCS6B01G446900	chr3A	8320195	8321204	1009	False	1299	1299	89.9210	1407	2414	1	chr3A.!!$F1	1007
14	TraesCS6B01G446900	chr4B	547209695	547210690	995	True	1295	1295	90.1900	1424	2417	1	chr4B.!!$R1	993
15	TraesCS6B01G446900	chrUn	112971185	112972197	1012	True	1290	1290	89.7440	1410	2417	1	chrUn.!!$R5	1007
16	TraesCS6B01G446900	chrUn	47640750	47641746	996	True	1286	1286	90.0800	1429	2417	1	chrUn.!!$R4	988
17	TraesCS6B01G446900	chrUn	32435922	32436471	549	True	634	634	88.0000	661	1192	1	chrUn.!!$R2	531
18	TraesCS6B01G446900	chr4A	731969064	731970079	1015	False	1290	1290	89.6650	1407	2417	1	chr4A.!!$F1	1010
19	TraesCS6B01G446900	chr4A	39597196	39597975	779	True	804	804	85.4060	634	1413	1	chr4A.!!$R1	779
20	TraesCS6B01G446900	chr2B	473306267	473307281	1014	False	1284	1284	89.5570	1407	2417	1	chr2B.!!$F1	1010
21	TraesCS6B01G446900	chr1B	643016939	643018092	1153	False	1229	1229	86.4330	179	1309	1	chr1B.!!$F3	1130
22	TraesCS6B01G446900	chr1B	29291809	29292464	655	True	815	815	89.2750	762	1413	1	chr1B.!!$R1	651
23	TraesCS6B01G446900	chr1D	69474084	69474854	770	True	1037	1037	91.3100	661	1413	1	chr1D.!!$R1	752
24	TraesCS6B01G446900	chr1D	195759796	195760576	780	True	985	985	89.6820	642	1413	1	chr1D.!!$R2	771
25	TraesCS6B01G446900	chr7B	750577344	750578069	725	False	1014	1014	91.8960	179	905	1	chr7B.!!$F1	726
26	TraesCS6B01G446900	chr7B	495301792	495302338	546	True	750	750	91.4230	867	1413	1	chr7B.!!$R1	546
27	TraesCS6B01G446900	chr3D	579301968	579302611	643	True	920	920	92.4270	661	1307	1	chr3D.!!$R1	646
28	TraesCS6B01G446900	chr4D	464718762	464719499	737	False	867	867	87.9270	661	1413	1	chr4D.!!$F1	752
29	TraesCS6B01G446900	chr5A	1811716	1812379	663	True	822	822	89.4580	763	1408	1	chr5A.!!$R1	645
30	TraesCS6B01G446900	chr5A	304461279	304461941	662	False	795	795	88.4380	754	1413	1	chr5A.!!$F1	659
31	TraesCS6B01G446900	chr6D	136744370	136744938	568	True	719	719	89.6190	697	1265	1	chr6D.!!$R2	568

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
442	469	0.249699	CCACTAACTCCACGCACACA	60.25	55.0	0.0	0.0	0.0	3.72	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2052	2601	0.179081	GCGACTATTCTCCACCACCC	60.179	60.0	0.0	0.0	0.0	4.61	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
39	40	7.931015	TTTGAGGGGAATAGAGTGTATATGT	57.069	36.000	0.00	0.00	0.00	2.29
40	41	7.540474	TTGAGGGGAATAGAGTGTATATGTC	57.460	40.000	0.00	0.00	0.00	3.06
41	42	6.864421	TGAGGGGAATAGAGTGTATATGTCT	58.136	40.000	0.00	0.00	0.00	3.41
42	43	6.721668	TGAGGGGAATAGAGTGTATATGTCTG	59.278	42.308	0.00	0.00	0.00	3.51
43	44	6.019748	AGGGGAATAGAGTGTATATGTCTGG	58.980	44.000	0.00	0.00	0.00	3.86
44	45	5.337652	GGGGAATAGAGTGTATATGTCTGGC	60.338	48.000	0.00	0.00	0.00	4.85
45	46	5.246203	GGGAATAGAGTGTATATGTCTGGCA	59.754	44.000	0.00	0.00	0.00	4.92
46	47	6.393990	GGAATAGAGTGTATATGTCTGGCAG	58.606	44.000	8.58	8.58	0.00	4.85
47	48	3.742433	AGAGTGTATATGTCTGGCAGC	57.258	47.619	10.34	5.78	0.00	5.25
48	49	3.033909	AGAGTGTATATGTCTGGCAGCA	58.966	45.455	10.34	11.78	0.00	4.41
49	50	3.069300	AGAGTGTATATGTCTGGCAGCAG	59.931	47.826	10.34	0.00	0.00	4.24
50	51	3.033909	AGTGTATATGTCTGGCAGCAGA	58.966	45.455	10.34	9.11	0.00	4.26
51	52	3.069300	AGTGTATATGTCTGGCAGCAGAG	59.931	47.826	10.34	0.00	0.00	3.35
52	53	2.366590	TGTATATGTCTGGCAGCAGAGG	59.633	50.000	10.34	0.00	0.00	3.69
53	54	1.504912	ATATGTCTGGCAGCAGAGGT	58.495	50.000	10.34	0.00	0.00	3.85
54	55	1.279496	TATGTCTGGCAGCAGAGGTT	58.721	50.000	10.34	0.00	0.00	3.50
55	56	0.322277	ATGTCTGGCAGCAGAGGTTG	60.322	55.000	10.34	0.00	0.00	3.77
56	57	1.673665	GTCTGGCAGCAGAGGTTGG	60.674	63.158	10.34	0.00	0.00	3.77
57	58	2.149383	TCTGGCAGCAGAGGTTGGT	61.149	57.895	10.34	0.00	38.24	3.67
62	63	3.560251	AGCAGAGGTTGGTGCCGT	61.560	61.111	0.00	0.00	40.81	5.68
63	64	3.357079	GCAGAGGTTGGTGCCGTG	61.357	66.667	0.00	0.00	33.29	4.94
64	65	3.357079	CAGAGGTTGGTGCCGTGC	61.357	66.667	0.00	0.00	0.00	5.34
65	66	3.560251	AGAGGTTGGTGCCGTGCT	61.560	61.111	0.00	0.00	0.00	4.40
66	67	3.050275	GAGGTTGGTGCCGTGCTC	61.050	66.667	0.00	0.00	0.00	4.26
67	68	3.537206	GAGGTTGGTGCCGTGCTCT	62.537	63.158	0.00	0.00	0.00	4.09
68	69	2.594592	GGTTGGTGCCGTGCTCTT	60.595	61.111	0.00	0.00	0.00	2.85
69	70	2.639286	GTTGGTGCCGTGCTCTTG	59.361	61.111	0.00	0.00	0.00	3.02
70	71	3.286751	TTGGTGCCGTGCTCTTGC	61.287	61.111	0.00	0.00	40.20	4.01
71	72	3.772853	TTGGTGCCGTGCTCTTGCT	62.773	57.895	0.00	0.00	40.48	3.91
72	73	2.047274	GGTGCCGTGCTCTTGCTA	60.047	61.111	0.00	0.00	40.48	3.49
73	74	1.671054	GGTGCCGTGCTCTTGCTAA	60.671	57.895	0.00	0.00	40.48	3.09
74	75	1.234615	GGTGCCGTGCTCTTGCTAAA	61.235	55.000	0.00	0.00	40.48	1.85
75	76	0.804989	GTGCCGTGCTCTTGCTAAAT	59.195	50.000	0.00	0.00	40.48	1.40
76	77	2.006888	GTGCCGTGCTCTTGCTAAATA	58.993	47.619	0.00	0.00	40.48	1.40
77	78	2.614057	GTGCCGTGCTCTTGCTAAATAT	59.386	45.455	0.00	0.00	40.48	1.28
78	79	2.872245	TGCCGTGCTCTTGCTAAATATC	59.128	45.455	0.00	0.00	40.48	1.63
79	80	3.134458	GCCGTGCTCTTGCTAAATATCT	58.866	45.455	0.00	0.00	40.48	1.98
80	81	3.561725	GCCGTGCTCTTGCTAAATATCTT	59.438	43.478	0.00	0.00	40.48	2.40
81	82	4.319118	GCCGTGCTCTTGCTAAATATCTTC	60.319	45.833	0.00	0.00	40.48	2.87
82	83	4.212214	CCGTGCTCTTGCTAAATATCTTCC	59.788	45.833	0.00	0.00	40.48	3.46
83	84	4.084849	CGTGCTCTTGCTAAATATCTTCCG	60.085	45.833	0.00	0.00	40.48	4.30
84	85	5.050490	GTGCTCTTGCTAAATATCTTCCGA	58.950	41.667	0.00	0.00	40.48	4.55
85	86	5.523916	GTGCTCTTGCTAAATATCTTCCGAA	59.476	40.000	0.00	0.00	40.48	4.30
86	87	6.037172	GTGCTCTTGCTAAATATCTTCCGAAA	59.963	38.462	0.00	0.00	40.48	3.46
87	88	6.037172	TGCTCTTGCTAAATATCTTCCGAAAC	59.963	38.462	0.00	0.00	40.48	2.78
88	89	6.258947	GCTCTTGCTAAATATCTTCCGAAACT	59.741	38.462	0.00	0.00	36.03	2.66
89	90	7.517575	GCTCTTGCTAAATATCTTCCGAAACTC	60.518	40.741	0.00	0.00	36.03	3.01
90	91	6.761714	TCTTGCTAAATATCTTCCGAAACTCC	59.238	38.462	0.00	0.00	0.00	3.85
91	92	5.047847	TGCTAAATATCTTCCGAAACTCCG	58.952	41.667	0.00	0.00	0.00	4.63
92	93	5.163488	TGCTAAATATCTTCCGAAACTCCGA	60.163	40.000	0.00	0.00	0.00	4.55
93	94	5.927115	GCTAAATATCTTCCGAAACTCCGAT	59.073	40.000	0.00	0.00	0.00	4.18
94	95	6.424207	GCTAAATATCTTCCGAAACTCCGATT	59.576	38.462	0.00	0.00	0.00	3.34
95	96	7.041984	GCTAAATATCTTCCGAAACTCCGATTT	60.042	37.037	0.00	0.00	0.00	2.17
96	97	6.846325	AATATCTTCCGAAACTCCGATTTC	57.154	37.500	0.00	0.00	35.59	2.17
104	105	4.246409	GAAACTCCGATTTCGTAGCTTG	57.754	45.455	0.00	0.00	37.74	4.01
105	106	3.587797	AACTCCGATTTCGTAGCTTGA	57.412	42.857	0.00	0.00	37.74	3.02
106	107	3.152261	ACTCCGATTTCGTAGCTTGAG	57.848	47.619	0.00	0.49	37.74	3.02
107	108	2.492484	ACTCCGATTTCGTAGCTTGAGT	59.508	45.455	0.00	1.08	37.74	3.41
108	109	3.056749	ACTCCGATTTCGTAGCTTGAGTT	60.057	43.478	0.00	0.00	32.41	3.01
109	110	3.921677	TCCGATTTCGTAGCTTGAGTTT	58.078	40.909	0.00	0.00	37.74	2.66
110	111	4.312443	TCCGATTTCGTAGCTTGAGTTTT	58.688	39.130	0.00	0.00	37.74	2.43
111	112	4.753107	TCCGATTTCGTAGCTTGAGTTTTT	59.247	37.500	0.00	0.00	37.74	1.94
112	113	4.846137	CCGATTTCGTAGCTTGAGTTTTTG	59.154	41.667	0.00	0.00	37.74	2.44
113	114	5.440685	CGATTTCGTAGCTTGAGTTTTTGT	58.559	37.500	0.00	0.00	34.11	2.83
114	115	6.347079	CCGATTTCGTAGCTTGAGTTTTTGTA	60.347	38.462	0.00	0.00	37.74	2.41
115	116	7.067116	CGATTTCGTAGCTTGAGTTTTTGTAA	58.933	34.615	0.00	0.00	34.11	2.41
116	117	7.744715	CGATTTCGTAGCTTGAGTTTTTGTAAT	59.255	33.333	0.00	0.00	34.11	1.89
117	118	8.950403	ATTTCGTAGCTTGAGTTTTTGTAATC	57.050	30.769	0.00	0.00	0.00	1.75
118	119	7.724305	TTCGTAGCTTGAGTTTTTGTAATCT	57.276	32.000	0.00	0.00	0.00	2.40
119	120	7.347508	TCGTAGCTTGAGTTTTTGTAATCTC	57.652	36.000	0.00	0.00	32.88	2.75
120	121	6.089016	TCGTAGCTTGAGTTTTTGTAATCTCG	59.911	38.462	0.00	0.00	34.30	4.04
121	122	6.128902	CGTAGCTTGAGTTTTTGTAATCTCGT	60.129	38.462	0.00	0.00	34.30	4.18
122	123	6.229561	AGCTTGAGTTTTTGTAATCTCGTC	57.770	37.500	0.00	0.00	34.30	4.20
123	124	5.073478	GCTTGAGTTTTTGTAATCTCGTCG	58.927	41.667	0.00	0.00	34.30	5.12
124	125	5.585500	TTGAGTTTTTGTAATCTCGTCGG	57.415	39.130	0.00	0.00	34.30	4.79
125	126	4.624015	TGAGTTTTTGTAATCTCGTCGGT	58.376	39.130	0.00	0.00	34.30	4.69
126	127	4.682860	TGAGTTTTTGTAATCTCGTCGGTC	59.317	41.667	0.00	0.00	34.30	4.79
127	128	3.992427	AGTTTTTGTAATCTCGTCGGTCC	59.008	43.478	0.00	0.00	0.00	4.46
128	129	3.947910	TTTTGTAATCTCGTCGGTCCT	57.052	42.857	0.00	0.00	0.00	3.85
129	130	5.047802	AGTTTTTGTAATCTCGTCGGTCCTA	60.048	40.000	0.00	0.00	0.00	2.94
130	131	5.587388	TTTTGTAATCTCGTCGGTCCTAT	57.413	39.130	0.00	0.00	0.00	2.57
131	132	5.587388	TTTGTAATCTCGTCGGTCCTATT	57.413	39.130	0.00	0.00	0.00	1.73
132	133	5.587388	TTGTAATCTCGTCGGTCCTATTT	57.413	39.130	0.00	0.00	0.00	1.40
133	134	4.928601	TGTAATCTCGTCGGTCCTATTTG	58.071	43.478	0.00	0.00	0.00	2.32
134	135	4.400251	TGTAATCTCGTCGGTCCTATTTGT	59.600	41.667	0.00	0.00	0.00	2.83
135	136	3.712091	ATCTCGTCGGTCCTATTTGTC	57.288	47.619	0.00	0.00	0.00	3.18
136	137	1.747355	TCTCGTCGGTCCTATTTGTCC	59.253	52.381	0.00	0.00	0.00	4.02
137	138	1.475280	CTCGTCGGTCCTATTTGTCCA	59.525	52.381	0.00	0.00	0.00	4.02
138	139	2.100916	CTCGTCGGTCCTATTTGTCCAT	59.899	50.000	0.00	0.00	0.00	3.41
139	140	2.100252	TCGTCGGTCCTATTTGTCCATC	59.900	50.000	0.00	0.00	0.00	3.51
140	141	2.802057	CGTCGGTCCTATTTGTCCATCC	60.802	54.545	0.00	0.00	0.00	3.51
141	142	1.766496	TCGGTCCTATTTGTCCATCCC	59.234	52.381	0.00	0.00	0.00	3.85
142	143	1.768870	CGGTCCTATTTGTCCATCCCT	59.231	52.381	0.00	0.00	0.00	4.20
143	144	2.172717	CGGTCCTATTTGTCCATCCCTT	59.827	50.000	0.00	0.00	0.00	3.95
144	145	3.371595	CGGTCCTATTTGTCCATCCCTTT	60.372	47.826	0.00	0.00	0.00	3.11
145	146	4.207955	GGTCCTATTTGTCCATCCCTTTC	58.792	47.826	0.00	0.00	0.00	2.62
146	147	4.325030	GGTCCTATTTGTCCATCCCTTTCA	60.325	45.833	0.00	0.00	0.00	2.69
147	148	5.261216	GTCCTATTTGTCCATCCCTTTCAA	58.739	41.667	0.00	0.00	0.00	2.69
148	149	5.714806	GTCCTATTTGTCCATCCCTTTCAAA	59.285	40.000	0.00	0.00	33.61	2.69
149	150	5.714806	TCCTATTTGTCCATCCCTTTCAAAC	59.285	40.000	0.00	0.00	32.25	2.93
150	151	4.890158	ATTTGTCCATCCCTTTCAAACC	57.110	40.909	0.00	0.00	32.25	3.27
151	152	3.611025	TTGTCCATCCCTTTCAAACCT	57.389	42.857	0.00	0.00	0.00	3.50
152	153	3.154827	TGTCCATCCCTTTCAAACCTC	57.845	47.619	0.00	0.00	0.00	3.85
153	154	2.225017	TGTCCATCCCTTTCAAACCTCC	60.225	50.000	0.00	0.00	0.00	4.30
154	155	2.069775	TCCATCCCTTTCAAACCTCCA	58.930	47.619	0.00	0.00	0.00	3.86
155	156	2.654385	TCCATCCCTTTCAAACCTCCAT	59.346	45.455	0.00	0.00	0.00	3.41
156	157	3.077391	TCCATCCCTTTCAAACCTCCATT	59.923	43.478	0.00	0.00	0.00	3.16
157	158	3.448660	CCATCCCTTTCAAACCTCCATTC	59.551	47.826	0.00	0.00	0.00	2.67
158	159	3.169512	TCCCTTTCAAACCTCCATTCC	57.830	47.619	0.00	0.00	0.00	3.01
159	160	2.179427	CCCTTTCAAACCTCCATTCCC	58.821	52.381	0.00	0.00	0.00	3.97
160	161	2.225369	CCCTTTCAAACCTCCATTCCCT	60.225	50.000	0.00	0.00	0.00	4.20
161	162	3.011257	CCCTTTCAAACCTCCATTCCCTA	59.989	47.826	0.00	0.00	0.00	3.53
162	163	4.510205	CCCTTTCAAACCTCCATTCCCTAA	60.510	45.833	0.00	0.00	0.00	2.69
163	164	4.462834	CCTTTCAAACCTCCATTCCCTAAC	59.537	45.833	0.00	0.00	0.00	2.34
164	165	5.325239	CTTTCAAACCTCCATTCCCTAACT	58.675	41.667	0.00	0.00	0.00	2.24
165	166	4.301072	TCAAACCTCCATTCCCTAACTG	57.699	45.455	0.00	0.00	0.00	3.16
166	167	3.913799	TCAAACCTCCATTCCCTAACTGA	59.086	43.478	0.00	0.00	0.00	3.41
167	168	4.019321	TCAAACCTCCATTCCCTAACTGAG	60.019	45.833	0.00	0.00	0.00	3.35
168	169	3.491766	ACCTCCATTCCCTAACTGAGA	57.508	47.619	0.00	0.00	0.00	3.27
169	170	4.014273	ACCTCCATTCCCTAACTGAGAT	57.986	45.455	0.00	0.00	0.00	2.75
170	171	3.970640	ACCTCCATTCCCTAACTGAGATC	59.029	47.826	0.00	0.00	0.00	2.75
171	172	3.969976	CCTCCATTCCCTAACTGAGATCA	59.030	47.826	0.00	0.00	0.00	2.92
172	173	4.410228	CCTCCATTCCCTAACTGAGATCAA	59.590	45.833	0.00	0.00	0.00	2.57
173	174	5.072872	CCTCCATTCCCTAACTGAGATCAAT	59.927	44.000	0.00	0.00	0.00	2.57
174	175	6.179906	TCCATTCCCTAACTGAGATCAATC	57.820	41.667	0.00	0.00	0.00	2.67
175	176	5.907662	TCCATTCCCTAACTGAGATCAATCT	59.092	40.000	0.00	0.00	40.50	2.40
193	194	1.153066	TCCTGTTGAAACCGCAGCA	60.153	52.632	0.00	0.00	0.00	4.41
196	197	1.269726	CCTGTTGAAACCGCAGCATTT	60.270	47.619	0.00	0.00	0.00	2.32
203	204	3.694072	TGAAACCGCAGCATTTTAGCTAT	59.306	39.130	0.00	0.00	44.54	2.97
213	214	6.523840	CAGCATTTTAGCTATCTCTCCTCTT	58.476	40.000	0.00	0.00	44.54	2.85
242	243	3.067833	CGGAGGTGAAAGAAGAAGAACC	58.932	50.000	0.00	0.00	0.00	3.62
267	269	1.074248	ACAAGATTTTCCGGCCGGT	59.926	52.632	41.57	25.05	36.47	5.28
295	297	3.418913	CGCCATGGACGCACGAAA	61.419	61.111	18.40	0.00	0.00	3.46
403	428	1.825090	ATACATGGGCACACACACAG	58.175	50.000	0.00	0.00	0.00	3.66
442	469	0.249699	CCACTAACTCCACGCACACA	60.250	55.000	0.00	0.00	0.00	3.72
443	470	0.859232	CACTAACTCCACGCACACAC	59.141	55.000	0.00	0.00	0.00	3.82
484	511	1.454847	ACGGCAACAACCACCATGT	60.455	52.632	0.00	0.00	0.00	3.21
591	618	5.003804	ACCAAGCTACTAACCAACAATCAG	58.996	41.667	0.00	0.00	0.00	2.90
611	638	1.675720	GCATGGCCCGGCTAACAAAT	61.676	55.000	9.86	0.00	0.00	2.32
721	751	4.101448	GGCCATGACTCAGCCCGT	62.101	66.667	0.00	0.00	41.00	5.28
1090	1167	3.090219	ATACGCCTCCTCCCAACGC	62.090	63.158	0.00	0.00	0.00	4.84
1197	1326	4.344237	GCTTATTGCCCTGCACCT	57.656	55.556	0.00	0.00	38.71	4.00
1244	1376	2.903350	CATGCCGCCATGCTGCTA	60.903	61.111	0.00	0.00	42.08	3.49
1291	1446	2.765807	CCTCCGTGGCCTCCTCAT	60.766	66.667	3.32	0.00	0.00	2.90
1422	1580	2.740714	GCCTTCGGCGTAAGTGCAG	61.741	63.158	6.85	0.00	39.62	4.41
1462	1628	1.673920	GCGGGAAAAAGTGAGTGACAA	59.326	47.619	0.00	0.00	0.00	3.18
1463	1629	2.098443	GCGGGAAAAAGTGAGTGACAAA	59.902	45.455	0.00	0.00	0.00	2.83
1513	1679	3.804036	TGGAAGTGTGAAACTCGTCATT	58.196	40.909	0.00	0.00	39.90	2.57
1520	1686	0.442699	GAAACTCGTCATTGGTCGGC	59.557	55.000	0.00	0.00	0.00	5.54
1529	1695	0.875908	CATTGGTCGGCGATGATCGT	60.876	55.000	14.79	0.00	42.81	3.73
1613	1781	0.389948	GGGCTCGATGCGGTAATAGG	60.390	60.000	0.00	0.00	44.05	2.57
1656	1825	3.083349	CATGGAGACGGGCCAGGA	61.083	66.667	8.08	0.00	39.44	3.86
1685	1854	3.055891	TGGTCATACATGTGGTGAGACAG	60.056	47.826	9.11	0.00	36.75	3.51
1720	1889	1.671850	CGGGATGACTACAAGCAACGT	60.672	52.381	0.00	0.00	0.00	3.99
1731	1900	5.761234	ACTACAAGCAACGTTGAAATTCCTA	59.239	36.000	31.62	11.86	0.00	2.94
1744	1913	6.877611	TGAAATTCCTACAAGTTTCAGACC	57.122	37.500	0.00	0.00	36.11	3.85
1777	1946	1.072331	AGGAGCGGTGATGTTGAGTTT	59.928	47.619	0.00	0.00	0.00	2.66
1837	2040	0.532862	ACTTTCACGCAGGTCAGTGG	60.533	55.000	0.00	0.00	38.77	4.00
1851	2054	3.195610	GGTCAGTGGTCAGTATGTGATGA	59.804	47.826	0.00	0.00	37.56	2.92
1899	2103	5.061179	GGGAGCACAAACTAGAGTAACAAA	58.939	41.667	0.00	0.00	0.00	2.83
2026	2575	8.023021	AGATAAGCTCAAGTCCAATGTACATA	57.977	34.615	9.21	0.00	0.00	2.29
2027	2576	8.486210	AGATAAGCTCAAGTCCAATGTACATAA	58.514	33.333	9.21	0.00	0.00	1.90
2052	2601	6.241207	AGTTTGACGTATGGACAAATTCAG	57.759	37.500	10.94	0.00	36.25	3.02
2067	2636	4.510167	AATTCAGGGTGGTGGAGAATAG	57.490	45.455	0.00	0.00	0.00	1.73
2106	2675	7.442969	AGTTTGTTGGAGTTGTGTCGAATATAA	59.557	33.333	0.00	0.00	0.00	0.98
2129	2698	6.675413	ATGTACAAGGTAGGTTACAGTTGA	57.325	37.500	0.00	0.00	31.95	3.18
2135	2705	6.552350	ACAAGGTAGGTTACAGTTGAACTCTA	59.448	38.462	0.00	0.00	31.95	2.43
2140	2710	8.026026	GGTAGGTTACAGTTGAACTCTAAGTAC	58.974	40.741	0.00	0.46	0.00	2.73
2194	2764	6.088541	TCCTAGTAGGACACTTGTATCCTT	57.911	41.667	15.33	0.00	43.09	3.36
2195	2765	6.127793	TCCTAGTAGGACACTTGTATCCTTC	58.872	44.000	15.33	1.42	43.09	3.46
2197	2767	4.342359	AGTAGGACACTTGTATCCTTCGT	58.658	43.478	5.88	0.00	43.09	3.85
2213	2784	5.731591	TCCTTCGTCTCTCATATATAGCGA	58.268	41.667	0.00	0.00	0.00	4.93
2273	3112	2.261671	GAACGCAGGAGAAGCCGA	59.738	61.111	0.00	0.00	43.43	5.54
2274	3113	1.153549	GAACGCAGGAGAAGCCGAT	60.154	57.895	0.00	0.00	43.43	4.18
2318	3525	1.153529	CGGGTGCGGTATTGTAGCA	60.154	57.895	0.00	0.00	38.71	3.49
2397	4228	2.671396	CCTCGTTAACAAATCTCGGTGG	59.329	50.000	6.39	0.00	0.00	4.61

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
13	14	8.778059	ACATATACACTCTATTCCCCTCAAAAA	58.222	33.333	0.00	0.00	0.00	1.94
14	15	8.331931	ACATATACACTCTATTCCCCTCAAAA	57.668	34.615	0.00	0.00	0.00	2.44
15	16	7.789831	AGACATATACACTCTATTCCCCTCAAA	59.210	37.037	0.00	0.00	0.00	2.69
16	17	7.233553	CAGACATATACACTCTATTCCCCTCAA	59.766	40.741	0.00	0.00	0.00	3.02
17	18	6.721668	CAGACATATACACTCTATTCCCCTCA	59.278	42.308	0.00	0.00	0.00	3.86
18	19	6.153680	CCAGACATATACACTCTATTCCCCTC	59.846	46.154	0.00	0.00	0.00	4.30
19	20	6.019748	CCAGACATATACACTCTATTCCCCT	58.980	44.000	0.00	0.00	0.00	4.79
20	21	5.337652	GCCAGACATATACACTCTATTCCCC	60.338	48.000	0.00	0.00	0.00	4.81
21	22	5.246203	TGCCAGACATATACACTCTATTCCC	59.754	44.000	0.00	0.00	0.00	3.97
22	23	6.346477	TGCCAGACATATACACTCTATTCC	57.654	41.667	0.00	0.00	0.00	3.01
23	24	5.866633	GCTGCCAGACATATACACTCTATTC	59.133	44.000	0.00	0.00	0.00	1.75
24	25	5.305386	TGCTGCCAGACATATACACTCTATT	59.695	40.000	0.00	0.00	0.00	1.73
25	26	4.835056	TGCTGCCAGACATATACACTCTAT	59.165	41.667	0.00	0.00	0.00	1.98
26	27	4.215109	TGCTGCCAGACATATACACTCTA	58.785	43.478	0.00	0.00	0.00	2.43
27	28	3.033909	TGCTGCCAGACATATACACTCT	58.966	45.455	0.00	0.00	0.00	3.24
28	29	3.068732	TCTGCTGCCAGACATATACACTC	59.931	47.826	0.00	0.00	42.98	3.51
29	30	3.033909	TCTGCTGCCAGACATATACACT	58.966	45.455	0.00	0.00	42.98	3.55
30	31	3.388308	CTCTGCTGCCAGACATATACAC	58.612	50.000	0.00	0.00	42.98	2.90
31	32	2.366590	CCTCTGCTGCCAGACATATACA	59.633	50.000	0.00	0.00	42.98	2.29
32	33	2.366916	ACCTCTGCTGCCAGACATATAC	59.633	50.000	0.00	0.00	42.98	1.47
33	34	2.682594	ACCTCTGCTGCCAGACATATA	58.317	47.619	0.00	0.00	42.98	0.86
34	35	1.504912	ACCTCTGCTGCCAGACATAT	58.495	50.000	0.00	0.00	42.98	1.78
35	36	1.065926	CAACCTCTGCTGCCAGACATA	60.066	52.381	0.00	0.00	42.98	2.29
36	37	0.322277	CAACCTCTGCTGCCAGACAT	60.322	55.000	0.00	0.00	42.98	3.06
37	38	1.071987	CAACCTCTGCTGCCAGACA	59.928	57.895	0.00	0.00	42.98	3.41
38	39	1.673665	CCAACCTCTGCTGCCAGAC	60.674	63.158	0.00	0.00	42.98	3.51
39	40	2.149383	ACCAACCTCTGCTGCCAGA	61.149	57.895	0.00	0.00	45.54	3.86
40	41	1.970114	CACCAACCTCTGCTGCCAG	60.970	63.158	0.00	0.00	40.54	4.85
41	42	2.113774	CACCAACCTCTGCTGCCA	59.886	61.111	0.00	0.00	0.00	4.92
42	43	3.368571	GCACCAACCTCTGCTGCC	61.369	66.667	0.00	0.00	0.00	4.85
43	44	3.368571	GGCACCAACCTCTGCTGC	61.369	66.667	0.00	0.00	33.63	5.25
44	45	3.052082	CGGCACCAACCTCTGCTG	61.052	66.667	0.00	0.00	33.63	4.41
45	46	3.560251	ACGGCACCAACCTCTGCT	61.560	61.111	0.00	0.00	33.63	4.24
46	47	3.357079	CACGGCACCAACCTCTGC	61.357	66.667	0.00	0.00	0.00	4.26
47	48	3.357079	GCACGGCACCAACCTCTG	61.357	66.667	0.00	0.00	0.00	3.35
48	49	3.537206	GAGCACGGCACCAACCTCT	62.537	63.158	0.00	0.00	0.00	3.69
49	50	3.050275	GAGCACGGCACCAACCTC	61.050	66.667	0.00	0.00	0.00	3.85
50	51	3.120086	AAGAGCACGGCACCAACCT	62.120	57.895	0.00	0.00	0.00	3.50
51	52	2.594592	AAGAGCACGGCACCAACC	60.595	61.111	0.00	0.00	0.00	3.77
52	53	2.639286	CAAGAGCACGGCACCAAC	59.361	61.111	0.00	0.00	0.00	3.77
53	54	2.390306	TAGCAAGAGCACGGCACCAA	62.390	55.000	4.02	0.00	45.49	3.67
54	55	2.390306	TTAGCAAGAGCACGGCACCA	62.390	55.000	4.02	0.00	45.49	4.17
55	56	1.234615	TTTAGCAAGAGCACGGCACC	61.235	55.000	4.02	0.00	45.49	5.01
56	57	0.804989	ATTTAGCAAGAGCACGGCAC	59.195	50.000	4.02	0.00	45.49	5.01
57	58	2.394930	TATTTAGCAAGAGCACGGCA	57.605	45.000	4.02	0.00	45.49	5.69
58	59	3.134458	AGATATTTAGCAAGAGCACGGC	58.866	45.455	0.00	0.00	45.49	5.68
59	60	4.212214	GGAAGATATTTAGCAAGAGCACGG	59.788	45.833	0.00	0.00	45.49	4.94
60	61	4.084849	CGGAAGATATTTAGCAAGAGCACG	60.085	45.833	0.00	0.00	45.49	5.34
61	62	5.050490	TCGGAAGATATTTAGCAAGAGCAC	58.950	41.667	0.00	0.00	38.25	4.40
62	63	5.276461	TCGGAAGATATTTAGCAAGAGCA	57.724	39.130	0.00	0.00	38.25	4.26
63	64	6.258947	AGTTTCGGAAGATATTTAGCAAGAGC	59.741	38.462	0.00	0.00	41.60	4.09
64	65	7.042389	GGAGTTTCGGAAGATATTTAGCAAGAG	60.042	40.741	0.00	0.00	41.60	2.85
65	66	6.761714	GGAGTTTCGGAAGATATTTAGCAAGA	59.238	38.462	0.00	0.00	41.60	3.02
66	67	6.292381	CGGAGTTTCGGAAGATATTTAGCAAG	60.292	42.308	0.00	0.00	41.60	4.01
67	68	5.522460	CGGAGTTTCGGAAGATATTTAGCAA	59.478	40.000	0.00	0.00	41.60	3.91
68	69	5.047847	CGGAGTTTCGGAAGATATTTAGCA	58.952	41.667	0.00	0.00	41.60	3.49
69	70	5.287226	TCGGAGTTTCGGAAGATATTTAGC	58.713	41.667	0.00	0.00	41.60	3.09
70	71	7.948278	AATCGGAGTTTCGGAAGATATTTAG	57.052	36.000	0.00	0.00	41.60	1.85
71	72	8.361592	GAAATCGGAGTTTCGGAAGATATTTA	57.638	34.615	0.00	0.00	41.60	1.40
72	73	7.247929	GAAATCGGAGTTTCGGAAGATATTT	57.752	36.000	0.00	0.00	41.60	1.40
73	74	6.846325	GAAATCGGAGTTTCGGAAGATATT	57.154	37.500	0.00	0.00	41.60	1.28
88	89	3.587797	AACTCAAGCTACGAAATCGGA	57.412	42.857	7.81	0.00	44.95	4.55
89	90	4.663636	AAAACTCAAGCTACGAAATCGG	57.336	40.909	7.81	0.00	44.95	4.18
90	91	5.440685	ACAAAAACTCAAGCTACGAAATCG	58.559	37.500	0.48	0.48	46.33	3.34
91	92	8.950403	ATTACAAAAACTCAAGCTACGAAATC	57.050	30.769	0.00	0.00	0.00	2.17
92	93	8.784043	AGATTACAAAAACTCAAGCTACGAAAT	58.216	29.630	0.00	0.00	0.00	2.17
93	94	8.149973	AGATTACAAAAACTCAAGCTACGAAA	57.850	30.769	0.00	0.00	0.00	3.46
94	95	7.358931	CGAGATTACAAAAACTCAAGCTACGAA	60.359	37.037	0.00	0.00	34.95	3.85
95	96	6.089016	CGAGATTACAAAAACTCAAGCTACGA	59.911	38.462	0.00	0.00	34.95	3.43
96	97	6.128902	ACGAGATTACAAAAACTCAAGCTACG	60.129	38.462	0.00	0.00	34.95	3.51
97	98	7.118422	ACGAGATTACAAAAACTCAAGCTAC	57.882	36.000	0.00	0.00	34.95	3.58
98	99	6.089016	CGACGAGATTACAAAAACTCAAGCTA	59.911	38.462	0.00	0.00	34.95	3.32
99	100	5.107453	CGACGAGATTACAAAAACTCAAGCT	60.107	40.000	0.00	0.00	34.95	3.74
100	101	5.073478	CGACGAGATTACAAAAACTCAAGC	58.927	41.667	0.00	0.00	34.95	4.01
101	102	5.176958	ACCGACGAGATTACAAAAACTCAAG	59.823	40.000	0.00	0.00	34.95	3.02
102	103	5.051816	ACCGACGAGATTACAAAAACTCAA	58.948	37.500	0.00	0.00	34.95	3.02
103	104	4.624015	ACCGACGAGATTACAAAAACTCA	58.376	39.130	0.00	0.00	34.95	3.41
104	105	4.091075	GGACCGACGAGATTACAAAAACTC	59.909	45.833	0.00	0.00	32.63	3.01
105	106	3.992427	GGACCGACGAGATTACAAAAACT	59.008	43.478	0.00	0.00	0.00	2.66
106	107	3.992427	AGGACCGACGAGATTACAAAAAC	59.008	43.478	0.00	0.00	0.00	2.43
107	108	4.261578	AGGACCGACGAGATTACAAAAA	57.738	40.909	0.00	0.00	0.00	1.94
108	109	3.947910	AGGACCGACGAGATTACAAAA	57.052	42.857	0.00	0.00	0.00	2.44
109	110	5.587388	AATAGGACCGACGAGATTACAAA	57.413	39.130	0.00	0.00	0.00	2.83
110	111	5.105635	ACAAATAGGACCGACGAGATTACAA	60.106	40.000	0.00	0.00	0.00	2.41
111	112	4.400251	ACAAATAGGACCGACGAGATTACA	59.600	41.667	0.00	0.00	0.00	2.41
112	113	4.929781	ACAAATAGGACCGACGAGATTAC	58.070	43.478	0.00	0.00	0.00	1.89
113	114	4.037208	GGACAAATAGGACCGACGAGATTA	59.963	45.833	0.00	0.00	0.00	1.75
114	115	3.181478	GGACAAATAGGACCGACGAGATT	60.181	47.826	0.00	0.00	0.00	2.40
115	116	2.361438	GGACAAATAGGACCGACGAGAT	59.639	50.000	0.00	0.00	0.00	2.75
116	117	1.747355	GGACAAATAGGACCGACGAGA	59.253	52.381	0.00	0.00	0.00	4.04
117	118	1.475280	TGGACAAATAGGACCGACGAG	59.525	52.381	0.00	0.00	0.00	4.18
118	119	1.548081	TGGACAAATAGGACCGACGA	58.452	50.000	0.00	0.00	0.00	4.20
119	120	2.470821	GATGGACAAATAGGACCGACG	58.529	52.381	0.00	0.00	0.00	5.12
120	121	2.484947	GGGATGGACAAATAGGACCGAC	60.485	54.545	0.00	0.00	0.00	4.79
121	122	1.766496	GGGATGGACAAATAGGACCGA	59.234	52.381	0.00	0.00	0.00	4.69
122	123	1.768870	AGGGATGGACAAATAGGACCG	59.231	52.381	0.00	0.00	0.00	4.79
123	124	3.953542	AAGGGATGGACAAATAGGACC	57.046	47.619	0.00	0.00	0.00	4.46
124	125	4.855340	TGAAAGGGATGGACAAATAGGAC	58.145	43.478	0.00	0.00	0.00	3.85
125	126	5.528600	TTGAAAGGGATGGACAAATAGGA	57.471	39.130	0.00	0.00	0.00	2.94
126	127	5.105351	GGTTTGAAAGGGATGGACAAATAGG	60.105	44.000	0.00	0.00	34.02	2.57
127	128	5.716703	AGGTTTGAAAGGGATGGACAAATAG	59.283	40.000	0.00	0.00	34.02	1.73
128	129	5.650283	AGGTTTGAAAGGGATGGACAAATA	58.350	37.500	0.00	0.00	34.02	1.40
129	130	4.492646	AGGTTTGAAAGGGATGGACAAAT	58.507	39.130	0.00	0.00	34.02	2.32
130	131	3.895041	GAGGTTTGAAAGGGATGGACAAA	59.105	43.478	0.00	0.00	0.00	2.83
131	132	3.496331	GAGGTTTGAAAGGGATGGACAA	58.504	45.455	0.00	0.00	0.00	3.18
132	133	2.225017	GGAGGTTTGAAAGGGATGGACA	60.225	50.000	0.00	0.00	0.00	4.02
133	134	2.225017	TGGAGGTTTGAAAGGGATGGAC	60.225	50.000	0.00	0.00	0.00	4.02
134	135	2.069775	TGGAGGTTTGAAAGGGATGGA	58.930	47.619	0.00	0.00	0.00	3.41
135	136	2.603075	TGGAGGTTTGAAAGGGATGG	57.397	50.000	0.00	0.00	0.00	3.51
136	137	3.448660	GGAATGGAGGTTTGAAAGGGATG	59.551	47.826	0.00	0.00	0.00	3.51
137	138	3.566553	GGGAATGGAGGTTTGAAAGGGAT	60.567	47.826	0.00	0.00	0.00	3.85
138	139	2.225267	GGGAATGGAGGTTTGAAAGGGA	60.225	50.000	0.00	0.00	0.00	4.20
139	140	2.179427	GGGAATGGAGGTTTGAAAGGG	58.821	52.381	0.00	0.00	0.00	3.95
140	141	3.175438	AGGGAATGGAGGTTTGAAAGG	57.825	47.619	0.00	0.00	0.00	3.11
141	142	5.183904	CAGTTAGGGAATGGAGGTTTGAAAG	59.816	44.000	0.00	0.00	0.00	2.62
142	143	5.076873	CAGTTAGGGAATGGAGGTTTGAAA	58.923	41.667	0.00	0.00	0.00	2.69
143	144	4.352595	TCAGTTAGGGAATGGAGGTTTGAA	59.647	41.667	0.00	0.00	0.00	2.69
144	145	3.913799	TCAGTTAGGGAATGGAGGTTTGA	59.086	43.478	0.00	0.00	0.00	2.69
145	146	4.019321	TCTCAGTTAGGGAATGGAGGTTTG	60.019	45.833	0.00	0.00	0.00	2.93
146	147	4.175962	TCTCAGTTAGGGAATGGAGGTTT	58.824	43.478	0.00	0.00	0.00	3.27
147	148	3.803340	TCTCAGTTAGGGAATGGAGGTT	58.197	45.455	0.00	0.00	0.00	3.50
148	149	3.491766	TCTCAGTTAGGGAATGGAGGT	57.508	47.619	0.00	0.00	0.00	3.85
149	150	3.969976	TGATCTCAGTTAGGGAATGGAGG	59.030	47.826	0.00	0.00	0.00	4.30
150	151	5.620738	TTGATCTCAGTTAGGGAATGGAG	57.379	43.478	0.00	0.00	0.00	3.86
151	152	5.907662	AGATTGATCTCAGTTAGGGAATGGA	59.092	40.000	0.00	0.00	29.30	3.41
152	153	6.185114	AGATTGATCTCAGTTAGGGAATGG	57.815	41.667	0.00	0.00	29.30	3.16
166	167	4.256920	CGGTTTCAACAGGAGATTGATCT	58.743	43.478	0.00	0.00	40.50	2.75
167	168	3.181506	GCGGTTTCAACAGGAGATTGATC	60.182	47.826	0.00	0.00	36.02	2.92
168	169	2.749621	GCGGTTTCAACAGGAGATTGAT	59.250	45.455	0.00	0.00	36.02	2.57
169	170	2.151202	GCGGTTTCAACAGGAGATTGA	58.849	47.619	0.00	0.00	34.27	2.57
170	171	1.879380	TGCGGTTTCAACAGGAGATTG	59.121	47.619	0.00	0.00	0.00	2.67
171	172	2.154462	CTGCGGTTTCAACAGGAGATT	58.846	47.619	5.59	0.00	43.12	2.40
172	173	1.813513	CTGCGGTTTCAACAGGAGAT	58.186	50.000	5.59	0.00	43.12	2.75
173	174	0.884704	GCTGCGGTTTCAACAGGAGA	60.885	55.000	13.98	0.00	43.12	3.71
174	175	1.165907	TGCTGCGGTTTCAACAGGAG	61.166	55.000	6.92	6.92	43.27	3.69
175	176	0.537143	ATGCTGCGGTTTCAACAGGA	60.537	50.000	0.00	0.00	36.16	3.86
176	177	0.314935	AATGCTGCGGTTTCAACAGG	59.685	50.000	0.00	0.00	31.94	4.00
177	178	2.138596	AAATGCTGCGGTTTCAACAG	57.861	45.000	0.00	0.00	34.48	3.16
193	194	7.940137	TCGAGTAAGAGGAGAGATAGCTAAAAT	59.060	37.037	0.00	0.00	0.00	1.82
196	197	6.422344	TCGAGTAAGAGGAGAGATAGCTAA	57.578	41.667	0.00	0.00	0.00	3.09
203	204	2.235650	TCCGTTCGAGTAAGAGGAGAGA	59.764	50.000	0.00	0.00	0.00	3.10
213	214	2.507484	TCTTTCACCTCCGTTCGAGTA	58.493	47.619	0.00	0.00	36.82	2.59
242	243	1.196808	CCGGAAAATCTTGTGTCCACG	59.803	52.381	0.00	0.00	0.00	4.94
283	285	2.102109	TTAGGGCTTTCGTGCGTCCA	62.102	55.000	0.00	0.00	0.00	4.02
295	297	4.955693	AAGGAAGAAAAGGATTAGGGCT	57.044	40.909	0.00	0.00	0.00	5.19
365	367	8.160765	CCATGTATAAATACCCCATGTACTGAA	58.839	37.037	0.00	0.00	32.33	3.02
484	511	3.005050	CAGGTTGTTACGTGAGGTGAGTA	59.995	47.826	0.00	0.00	41.51	2.59
672	702	2.211250	ATGACAGGAGCTGCAACAAT	57.789	45.000	8.35	0.00	34.37	2.71
1090	1167	3.475774	GTACGAGCGTGCGGTTGG	61.476	66.667	14.34	5.38	35.12	3.77
1244	1376	2.045926	GCGGCTCCAAGGACACAT	60.046	61.111	0.00	0.00	0.00	3.21
1329	1487	1.379443	TCGGTCTATGGAGGTGCGT	60.379	57.895	0.00	0.00	0.00	5.24
1422	1580	3.628017	GCTGAATAGCTTCGACTCTCTC	58.372	50.000	0.00	0.00	46.57	3.20
1453	1619	4.556233	CAGTCCGAACTATTTGTCACTCA	58.444	43.478	0.00	0.00	33.25	3.41
1462	1628	0.831307	GGGCTCCAGTCCGAACTATT	59.169	55.000	0.00	0.00	33.25	1.73
1463	1629	0.325296	TGGGCTCCAGTCCGAACTAT	60.325	55.000	0.00	0.00	44.44	2.12
1486	1652	4.248859	CGAGTTTCACACTTCCATCAGAT	58.751	43.478	0.00	0.00	35.01	2.90
1513	1679	1.518352	CAACGATCATCGCCGACCA	60.518	57.895	7.05	0.00	45.12	4.02
1520	1686	1.755161	CGGAGTACCAACGATCATCG	58.245	55.000	5.22	5.22	40.16	3.84
1529	1695	2.589157	CCCCACTGCGGAGTACCAA	61.589	63.158	10.03	0.00	36.56	3.67
1594	1762	0.389948	CCTATTACCGCATCGAGCCC	60.390	60.000	0.00	0.00	41.38	5.19
1602	1770	2.504274	CCTCGCCCCTATTACCGCA	61.504	63.158	0.00	0.00	0.00	5.69
1627	1795	3.589654	CTCCATGTCCCGTGCACGT	62.590	63.158	34.81	15.88	37.74	4.49
1656	1825	2.237143	CCACATGTATGACCACCAGAGT	59.763	50.000	0.00	0.00	0.00	3.24
1685	1854	1.019278	TCCCGAGTCAAATTCGCAGC	61.019	55.000	0.00	0.00	36.76	5.25
1720	1889	6.017440	CGGTCTGAAACTTGTAGGAATTTCAA	60.017	38.462	0.00	0.00	39.78	2.69
1731	1900	1.597027	CCGCCGGTCTGAAACTTGT	60.597	57.895	1.90	0.00	0.00	3.16
1744	1913	2.391389	GCTCCTTTCTTGACCGCCG	61.391	63.158	0.00	0.00	0.00	6.46
1777	1946	5.186409	GGGTGTCACACATAAGAGTTACCTA	59.814	44.000	10.85	0.00	35.86	3.08
1837	2040	3.612860	GTCCAACGTCATCACATACTGAC	59.387	47.826	0.00	0.00	38.69	3.51
1851	2054	5.254901	ACTTCTAGAGTATCAGTCCAACGT	58.745	41.667	0.00	0.00	36.65	3.99
1899	2103	6.260050	TCAACACTCGAGCAAAATTAAGTTCT	59.740	34.615	13.61	0.00	0.00	3.01
2026	2575	7.484975	TGAATTTGTCCATACGTCAAACTTTT	58.515	30.769	0.00	0.00	34.63	2.27
2027	2576	7.033530	TGAATTTGTCCATACGTCAAACTTT	57.966	32.000	0.00	0.00	34.63	2.66
2052	2601	0.179081	GCGACTATTCTCCACCACCC	60.179	60.000	0.00	0.00	0.00	4.61
2067	2636	0.818040	ACAAACTCCACCTTGGCGAC	60.818	55.000	0.00	0.00	37.47	5.19
2106	2675	6.675413	TCAACTGTAACCTACCTTGTACAT	57.325	37.500	0.00	0.00	0.00	2.29
2194	2764	4.081031	ACCCTCGCTATATATGAGAGACGA	60.081	45.833	11.74	8.06	34.09	4.20
2195	2765	4.193090	ACCCTCGCTATATATGAGAGACG	58.807	47.826	11.74	5.20	34.09	4.18
2197	2767	7.120873	GTGTTTACCCTCGCTATATATGAGAGA	59.879	40.741	11.74	6.52	34.09	3.10
2213	2784	4.339872	TGTTACATCGTGTGTTTACCCT	57.660	40.909	1.87	0.00	42.29	4.34
2273	3112	2.677524	AACGCCAGCACATGCCAT	60.678	55.556	0.00	0.00	43.38	4.40
2274	3113	3.364441	GAACGCCAGCACATGCCA	61.364	61.111	0.00	0.00	43.38	4.92
2318	3525	2.362369	CGCTCCTCCCCATGACACT	61.362	63.158	0.00	0.00	0.00	3.55
2351	4025	1.182667	CGATATGGCTACATCCCCGA	58.817	55.000	0.00	0.00	38.53	5.14
2397	4228	2.175184	AAGCAATCACACGAGCACGC	62.175	55.000	2.62	0.00	43.96	5.34

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.