Mercurial > repos > bgruening > rnaz_cluster
comparison test-data/unknown.rnaz @ 0:d21d8e70e802 draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_team/rnaz commit d261ddb93500e1ea309845fa3989c87c6312583d-dirty
author | bgruening |
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date | Wed, 30 Jan 2019 04:14:06 -0500 |
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-1:000000000000 | 0:d21d8e70e802 |
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1 | |
2 ############################ RNAz 2.1 ############################## | |
3 | |
4 Sequences: 6 | |
5 Columns: 120 | |
6 Reading direction: forward | |
7 Mean pairwise identity: 83.72 | |
8 Shannon entropy: 0.30516 | |
9 G+C content: 0.50000 | |
10 Mean single sequence MFE: -36.97 | |
11 Consensus MFE: -15.85 | |
12 Energy contribution: -15.72 | |
13 Covariance contribution: -0.13 | |
14 Combinations/Pair: 1.35 | |
15 Mean z-score: -0.44 | |
16 Structure conservation index: 0.43 | |
17 Background model: dinucleotide | |
18 Decision model: sequence based alignment quality | |
19 SVM decision value: -4.76 | |
20 SVM RNA-class probability: 0.000000 | |
21 Prediction: OTHER | |
22 | |
23 ###################################################################### | |
24 | |
25 >hg17.chr1/0-120 | |
26 UACAGCAGCUGCUAUUGCUUAUGGCCUGGAUAAGAGGGAGGGGGAGAAGAACAUCCUGGUGUUUGACCUGGGUGGUGGAACCUUUGAUGUGUCUCUUCUCACCAUUGACAAUGGUGUCUU | |
27 .....(((..(((((.....)))))))).......((..((((((((...(((((..((.((((.(((.....))).))))))..))))).))))))))..))...((((....)))).. ( -39.90, z-score = -0.87, R) | |
28 >canFam1.chr9/0-120 | |
29 UACAGCAGCUGCUAUUGCUUACGGCUUGGAUAAGAGGGAAGGGGAGAAGAAUAUCCUGGUGUUUGACCUGGGUGGUGGAACUUUUGAUGUGUCUCUUCUCACCAUUGACAAUGGUGUCUU | |
30 ..((((....((....)).....)).)).......((..((((((((...(((((.....((((.(((.....))).))))....))))).))))))))..))...((((....)))).. ( -34.00, z-score = -0.16, R) | |
31 >mm5.chr2/0-120 | |
32 UACAGCAGCUGCUAUUGCAUAUGGCCUGGAUAAGAGAGAGGGAGAGAAGAACAUCCUUGUGUUUGACCUGGGUGGCGGCACCUUCGAUGUGUCUCUUCUCACCAUUGACAAUGGUGUCUU | |
33 .....(((..(((((.....)))))))).......((((((((((((...(((((...(((((.(.((.....))))))))....))))).))))))))((((((.....)))))))))) ( -34.60, z-score = 0.44, R) | |
34 >galGal2.chr17/0-120 | |
35 AACUGCUGCUGCAAUUGCAUACGGAUUGGACAAGAGAGAGGGUGAAAAGAACAUCCUUGUAUUUGACCUGGGUGGUGGAACUUUUGAUGUCUCCCUCCUGACAAUUGACAACGGAGUCUU | |
36 .(((.(((.((((((((((...(((..(((((.(((((((((((.......))))))....(((.(((.....))).))))))))..)))))...))))).)))))).)).))))))... ( -33.00, z-score = -0.79, R) | |
37 >fr1.chrUn/0-120 | |
38 AACCGCUGCUGCCAUUGCUUAUGGUCUGGACAAAAAGGACGGCGAGAAGAACAUCCUCGUGUUCGAUCUCGGUGGCGGCACCUUCGACGUGUCUCUGCUCACCAUUGACAACGGUGUGUU | |
39 .((((((((..((...(((....((((.........)))))))((((.((((((....))))))..))))))..)))))..........((((..((.....))..))))..)))..... ( -39.10, z-score = -0.61, R) | |
40 >danRer1.chr11/0-120 | |
41 UACGGCGGCUGCCAUUGCAUACGGUCUGGACAAGAGGGACGGAGAGAAAAACAUCCUGGUGUUCGAUCUGGGUGGUGGCACCUUUGACGUGUCUCUGCUGACCAUCGAUAACGGCGUGUU | |
42 ((((.(((.((((((..(...(((..((((((...((((.(..........).))))..))))))..))).)..)))))))).((((.(.(((......)))).))))....).)))).. ( -41.20, z-score = -0.64, R) | |
43 >consensus | |
44 UACAGCAGCUGCUAUUGCAUACGGCCUGGACAAGAGGGAGGGAGAGAAGAACAUCCUGGUGUUUGACCUGGGUGGUGGAACCUUUGAUGUGUCUCUUCUCACCAUUGACAACGGUGUCUU | |
45 ....(((.(..((((..(...(((..((((((...((((.(..........).))))..))))))..))).)..)))).....((((((((........))).)))))....).)))... (-15.85 = -15.72 + -0.13) | |
46 | |
47 ############################ RNAz 2.1 ############################## | |
48 | |
49 Sequences: 6 | |
50 Columns: 120 | |
51 Reading direction: reverse | |
52 Mean pairwise identity: 83.72 | |
53 Shannon entropy: 0.30516 | |
54 G+C content: 0.50000 | |
55 Mean single sequence MFE: -30.48 | |
56 Consensus MFE: -16.68 | |
57 Energy contribution: -16.27 | |
58 Covariance contribution: -0.41 | |
59 Combinations/Pair: 1.38 | |
60 Mean z-score: -0.85 | |
61 Structure conservation index: 0.55 | |
62 Background model: dinucleotide | |
63 Decision model: sequence based alignment quality | |
64 SVM decision value: -2.64 | |
65 SVM RNA-class probability: 0.005929 | |
66 Prediction: OTHER | |
67 | |
68 ###################################################################### | |
69 | |
70 >hg17.chr1/0-120 | |
71 AAGACACCAUUGUCAAUGGUGAGAAGAGACACAUCAAAGGUUCCACCACCCAGGUCAAACACCAGGAUGUUCUUCUCCCCCUCCCUCUUAUCCAGGCCAUAAGCAAUAGCAGCUGCUGUA | |
72 ..((((....)))).((((((((((((...(((((....(((..(((.....)))..))).....)))))))))))).........((.....))))))).....(((((....))))). ( -29.50, z-score = -1.08, R) | |
73 >canFam1.chr9/0-120 | |
74 AAGACACCAUUGUCAAUGGUGAGAAGAGACACAUCAAAAGUUCCACCACCCAGGUCAAACACCAGGAUAUUCUUCUCCCCUUCCCUCUUAUCCAAGCCGUAAGCAAUAGCAGCUGCUGUA | |
75 ..((((....))))...((.((((((((....(((....(((..(((.....)))..))).....))).)))))))).))...............((.....)).(((((....))))). ( -24.60, z-score = -1.16, R) | |
76 >mm5.chr2/0-120 | |
77 AAGACACCAUUGUCAAUGGUGAGAAGAGACACAUCGAAGGUGCCGCCACCCAGGUCAAACACAAGGAUGUUCUUCUCUCCCUCUCUCUUAUCCAGGCCAUAUGCAAUAGCAGCUGCUGUA | |
78 ..((((....))))...((.((((..(((.(((((....(((..(((.....)))....)))...))))))))..)))))).............(((....(((....)))...)))... ( -29.50, z-score = 0.11, R) | |
79 >galGal2.chr17/0-120 | |
80 AAGACUCCGUUGUCAAUUGUCAGGAGGGAGACAUCAAAAGUUCCACCACCCAGGUCAAAUACAAGGAUGUUCUUUUCACCCUCUCUCUUGUCCAAUCCGUAUGCAAUUGCAGCAGCAGUU | |
81 ..(((((.((((.((((((((((((((((((((((....(((..(((.....)))..))).....)))))..........))))))))))............))))))))))).).)))) ( -31.10, z-score = -1.92, R) | |
82 >fr1.chrUn/0-120 | |
83 AACACACCGUUGUCAAUGGUGAGCAGAGACACGUCGAAGGUGCCGCCACCGAGAUCGAACACGAGGAUGUUCUUCUCGCCGUCCUUUUUGUCCAGACCAUAAGCAAUGGCAGCAGCGGUU | |
84 .....((((((((..((((((((..((((.(((((...((((....))))....(((....))).)))))))))))))))))............(.((((.....))))).)))))))). ( -37.70, z-score = -0.90, R) | |
85 >danRer1.chr11/0-120 | |
86 AACACGCCGUUAUCGAUGGUCAGCAGAGACACGUCAAAGGUGCCACCACCCAGAUCGAACACCAGGAUGUUUUUCUCUCCGUCCCUCUUGUCCAGACCGUAUGCAAUGGCAGCCGCCGUA | |
87 .....((((((....((((((.((((((...((((...((((....))))..)).)).......(((((..........)))))))).)))...))))))....)))))).......... ( -30.50, z-score = -0.16, R) | |
88 >consensus | |
89 AAGACACCAUUGUCAAUGGUGAGAAGAGACACAUCAAAGGUGCCACCACCCAGGUCAAACACCAGGAUGUUCUUCUCCCCCUCCCUCUUAUCCAGGCCAUAAGCAAUAGCAGCUGCUGUA | |
90 ....(((((((...)))))))....((((.(((((....((...(((.....)))...)).....)))))...))))............................(((((....))))). (-16.68 = -16.27 + -0.41) | |
91 | |
92 ############################ RNAz 2.1 ############################## | |
93 | |
94 Sequences: 6 | |
95 Columns: 120 | |
96 Reading direction: forward | |
97 Mean pairwise identity: 83.72 | |
98 Shannon entropy: 0.30516 | |
99 G+C content: 0.50000 | |
100 Mean single sequence MFE: -30.48 | |
101 Consensus MFE: -16.68 | |
102 Energy contribution: -16.27 | |
103 Covariance contribution: -0.41 | |
104 Combinations/Pair: 1.38 | |
105 Mean z-score: -0.85 | |
106 Structure conservation index: 0.55 | |
107 Background model: dinucleotide | |
108 Decision model: sequence based alignment quality | |
109 SVM decision value: -2.64 | |
110 SVM RNA-class probability: 0.005929 | |
111 Prediction: OTHER | |
112 | |
113 ###################################################################### | |
114 | |
115 >hg17.chr1_rev/0-120 | |
116 AAGACACCAUUGUCAAUGGUGAGAAGAGACACAUCAAAGGUUCCACCACCCAGGUCAAACACCAGGAUGUUCUUCUCCCCCUCCCUCUUAUCCAGGCCAUAAGCAAUAGCAGCUGCUGUA | |
117 ..((((....)))).((((((((((((...(((((....(((..(((.....)))..))).....)))))))))))).........((.....))))))).....(((((....))))). ( -29.50, z-score = -1.08, R) | |
118 >canFam1.chr9_rev/0-120 | |
119 AAGACACCAUUGUCAAUGGUGAGAAGAGACACAUCAAAAGUUCCACCACCCAGGUCAAACACCAGGAUAUUCUUCUCCCCUUCCCUCUUAUCCAAGCCGUAAGCAAUAGCAGCUGCUGUA | |
120 ..((((....))))...((.((((((((....(((....(((..(((.....)))..))).....))).)))))))).))...............((.....)).(((((....))))). ( -24.60, z-score = -1.16, R) | |
121 >mm5.chr2_rev/0-120 | |
122 AAGACACCAUUGUCAAUGGUGAGAAGAGACACAUCGAAGGUGCCGCCACCCAGGUCAAACACAAGGAUGUUCUUCUCUCCCUCUCUCUUAUCCAGGCCAUAUGCAAUAGCAGCUGCUGUA | |
123 ..((((....))))...((.((((..(((.(((((....(((..(((.....)))....)))...))))))))..)))))).............(((....(((....)))...)))... ( -29.50, z-score = 0.11, R) | |
124 >galGal2.chr17_rev/0-120 | |
125 AAGACUCCGUUGUCAAUUGUCAGGAGGGAGACAUCAAAAGUUCCACCACCCAGGUCAAAUACAAGGAUGUUCUUUUCACCCUCUCUCUUGUCCAAUCCGUAUGCAAUUGCAGCAGCAGUU | |
126 ..(((((.((((.((((((((((((((((((((((....(((..(((.....)))..))).....)))))..........))))))))))............))))))))))).).)))) ( -31.10, z-score = -1.92, R) | |
127 >fr1.chrUn_rev/0-120 | |
128 AACACACCGUUGUCAAUGGUGAGCAGAGACACGUCGAAGGUGCCGCCACCGAGAUCGAACACGAGGAUGUUCUUCUCGCCGUCCUUUUUGUCCAGACCAUAAGCAAUGGCAGCAGCGGUU | |
129 .....((((((((..((((((((..((((.(((((...((((....))))....(((....))).)))))))))))))))))............(.((((.....))))).)))))))). ( -37.70, z-score = -0.90, R) | |
130 >danRer1.chr11_rev/0-120 | |
131 AACACGCCGUUAUCGAUGGUCAGCAGAGACACGUCAAAGGUGCCACCACCCAGAUCGAACACCAGGAUGUUUUUCUCUCCGUCCCUCUUGUCCAGACCGUAUGCAAUGGCAGCCGCCGUA | |
132 .....((((((....((((((.((((((...((((...((((....))))..)).)).......(((((..........)))))))).)))...))))))....)))))).......... ( -30.50, z-score = -0.16, R) | |
133 >consensus | |
134 AAGACACCAUUGUCAAUGGUGAGAAGAGACACAUCAAAGGUGCCACCACCCAGGUCAAACACCAGGAUGUUCUUCUCCCCCUCCCUCUUAUCCAGGCCAUAAGCAAUAGCAGCUGCUGUA | |
135 ....(((((((...)))))))....((((.(((((....((...(((.....)))...)).....)))))...))))............................(((((....))))). (-16.68 = -16.27 + -0.41) | |
136 | |
137 ############################ RNAz 2.1 ############################## | |
138 | |
139 Sequences: 6 | |
140 Columns: 120 | |
141 Reading direction: reverse | |
142 Mean pairwise identity: 83.72 | |
143 Shannon entropy: 0.30516 | |
144 G+C content: 0.50000 | |
145 Mean single sequence MFE: -36.97 | |
146 Consensus MFE: -15.85 | |
147 Energy contribution: -15.72 | |
148 Covariance contribution: -0.13 | |
149 Combinations/Pair: 1.35 | |
150 Mean z-score: -0.44 | |
151 Structure conservation index: 0.43 | |
152 Background model: dinucleotide | |
153 Decision model: sequence based alignment quality | |
154 SVM decision value: -4.76 | |
155 SVM RNA-class probability: 0.000000 | |
156 Prediction: OTHER | |
157 | |
158 ###################################################################### | |
159 | |
160 >hg17.chr1_rev/0-120 | |
161 UACAGCAGCUGCUAUUGCUUAUGGCCUGGAUAAGAGGGAGGGGGAGAAGAACAUCCUGGUGUUUGACCUGGGUGGUGGAACCUUUGAUGUGUCUCUUCUCACCAUUGACAAUGGUGUCUU | |
162 .....(((..(((((.....)))))))).......((..((((((((...(((((..((.((((.(((.....))).))))))..))))).))))))))..))...((((....)))).. ( -39.90, z-score = -0.87, R) | |
163 >canFam1.chr9_rev/0-120 | |
164 UACAGCAGCUGCUAUUGCUUACGGCUUGGAUAAGAGGGAAGGGGAGAAGAAUAUCCUGGUGUUUGACCUGGGUGGUGGAACUUUUGAUGUGUCUCUUCUCACCAUUGACAAUGGUGUCUU | |
165 ..((((....((....)).....)).)).......((..((((((((...(((((.....((((.(((.....))).))))....))))).))))))))..))...((((....)))).. ( -34.00, z-score = -0.16, R) | |
166 >mm5.chr2_rev/0-120 | |
167 UACAGCAGCUGCUAUUGCAUAUGGCCUGGAUAAGAGAGAGGGAGAGAAGAACAUCCUUGUGUUUGACCUGGGUGGCGGCACCUUCGAUGUGUCUCUUCUCACCAUUGACAAUGGUGUCUU | |
168 .....(((..(((((.....)))))))).......((((((((((((...(((((...(((((.(.((.....))))))))....))))).))))))))((((((.....)))))))))) ( -34.60, z-score = 0.44, R) | |
169 >galGal2.chr17_rev/0-120 | |
170 AACUGCUGCUGCAAUUGCAUACGGAUUGGACAAGAGAGAGGGUGAAAAGAACAUCCUUGUAUUUGACCUGGGUGGUGGAACUUUUGAUGUCUCCCUCCUGACAAUUGACAACGGAGUCUU | |
171 .(((.(((.((((((((((...(((..(((((.(((((((((((.......))))))....(((.(((.....))).))))))))..)))))...))))).)))))).)).))))))... ( -33.00, z-score = -0.79, R) | |
172 >fr1.chrUn_rev/0-120 | |
173 AACCGCUGCUGCCAUUGCUUAUGGUCUGGACAAAAAGGACGGCGAGAAGAACAUCCUCGUGUUCGAUCUCGGUGGCGGCACCUUCGACGUGUCUCUGCUCACCAUUGACAACGGUGUGUU | |
174 .((((((((..((...(((....((((.........)))))))((((.((((((....))))))..))))))..)))))..........((((..((.....))..))))..)))..... ( -39.10, z-score = -0.61, R) | |
175 >danRer1.chr11_rev/0-120 | |
176 UACGGCGGCUGCCAUUGCAUACGGUCUGGACAAGAGGGACGGAGAGAAAAACAUCCUGGUGUUCGAUCUGGGUGGUGGCACCUUUGACGUGUCUCUGCUGACCAUCGAUAACGGCGUGUU | |
177 ((((.(((.((((((..(...(((..((((((...((((.(..........).))))..))))))..))).)..)))))))).((((.(.(((......)))).))))....).)))).. ( -41.20, z-score = -0.64, R) | |
178 >consensus | |
179 UACAGCAGCUGCUAUUGCAUACGGCCUGGACAAGAGGGAGGGAGAGAAGAACAUCCUGGUGUUUGACCUGGGUGGUGGAACCUUUGAUGUGUCUCUUCUCACCAUUGACAACGGUGUCUU | |
180 ....(((.(..((((..(...(((..((((((...((((.(..........).))))..))))))..))).)..)))).....((((((((........))).)))))....).)))... (-15.85 = -15.72 + -0.13) | |
181 | |
182 ############################ RNAz 2.1 ############################## | |
183 | |
184 Sequences: 6 | |
185 Columns: 120 | |
186 Reading direction: forward | |
187 Mean pairwise identity: 85.83 | |
188 Shannon entropy: 0.26644 | |
189 G+C content: 0.46111 | |
190 Mean single sequence MFE: -29.08 | |
191 Consensus MFE: -17.18 | |
192 Energy contribution: -17.27 | |
193 Covariance contribution: 0.09 | |
194 Combinations/Pair: 1.38 | |
195 Mean z-score: -0.03 | |
196 Structure conservation index: 0.59 | |
197 Background model: dinucleotide | |
198 Decision model: sequence based alignment quality | |
199 SVM decision value: -4.58 | |
200 SVM RNA-class probability: 0.000000 | |
201 Prediction: OTHER | |
202 | |
203 ###################################################################### | |
204 | |
205 >hg17.chr1/120-240 | |
206 CAAAGUUGUGGCCACUAAUGGAGAUACUUAUCUGGGUGGAGAAGACUUUGACCAGCGUGUCAUGGAACACUUCAUCAAACUGUACAAAAAGAAGACUGGCAAAGAUGUCAGGAAAGACAA | |
207 (((((((....(((((...(((........))).)))))....))))))).......((((........((((.................)))).((((((....))))))....)))). ( -29.23, z-score = -0.65, R) | |
208 >panTro1.chr1/120-240 | |
209 CAAAGUUGUGGUCACUAAUGGAGAUACUCAUCUGGGUGGAAAAGACUUUGACCAGCAUGUCAUGGAACACUUCAUCAAACUGUACAAAAAGAAGACUGGCAAAGAUGUCGGGAAAGACAA | |
210 (((((((....(((((....(((...))).....)))))....))))))).......((((........((((.................)))).((((((....))))))....)))). ( -26.53, z-score = -0.03, R) | |
211 >rn3.chr3/120-240 | |
212 UGAAGUGGUGGCCACUAAUGGAGACACUCAUCUGGGUGGGGAAGACUUUGAUCAGCGGGUCAUGGAGCACUUCAUCAAGCUGUACAAAAAGAAGACUGGGAAAGAUGUCAGAAAGGACAA | |
213 (((((((((((((.....((....))(((((....))))).................))))))....)))))))(((..((...........))..)))......((((......)))). ( -26.70, z-score = 0.92, R) | |
214 >galGal2.chr17/120-240 | |
215 UGAAGUUGUGGCUACAAAUGGUGACACACACCUGGGUGGAGAAGACUUUGACCAGCGUGUUAUGGAGCACUUCAUCAAACUCUACAAGAAGAAAACAGGAAAAGAUGUCAGGAAGGAUAA | |
216 ((((((.((..(((....((....)).((((((((..((((....))))..)))).))))..))).))))))))...............................((((......)))). ( -24.20, z-score = 0.87, R) | |
217 >fr1.chrUn/120-240 | |
218 UGAAGUGGUGGCCACCAAUGGUGACACUCACCUUGGAGGUGAAGACUUUGAUCAGCGCGUCAUGGAACACUUCAUCAAGCUAUACAAGAAGAAGACUGGCAAAGACGUGCGCAAAGACAA | |
219 .(((((..(.(((.((((.((((.....)))))))).))).)..))))).....((((((((((((....)))))...((((..(........)..))))...))))))).......... ( -36.70, z-score = -1.77, R) | |
220 >danRer1.chr11/120-240 | |
221 UGAAGUGGUGGCCACAAACGGAGACACUCACCUGGGCGGAGAAGACUUCGACCAGCGCGUCAUGGAGCACUUCAUCAAGCUGUACAAGAAGAAGACGGGCAAAGAUGUGCGCAAAGACAA | |
222 ....((((((.((......))...))).))).(((.(((((....))))).)))((((((((((((....)))))....((((.(........))))).....))))))).......... ( -31.10, z-score = 0.50, R) | |
223 >consensus | |
224 UGAAGUGGUGGCCACUAAUGGAGACACUCACCUGGGUGGAGAAGACUUUGACCAGCGUGUCAUGGAACACUUCAUCAAACUGUACAAAAAGAAGACUGGCAAAGAUGUCAGGAAAGACAA | |
225 ((((((..(..(((((...((.(.....).))..)))))..)..))))))....((.(((((((((....)))))....((........))..)))).)).....((((......)))). (-17.18 = -17.27 + 0.09) | |
226 | |
227 ############################ RNAz 2.1 ############################## | |
228 | |
229 Sequences: 6 | |
230 Columns: 120 | |
231 Reading direction: reverse | |
232 Mean pairwise identity: 85.83 | |
233 Shannon entropy: 0.26644 | |
234 G+C content: 0.46111 | |
235 Mean single sequence MFE: -23.40 | |
236 Consensus MFE: -9.31 | |
237 Energy contribution: -9.48 | |
238 Covariance contribution: 0.17 | |
239 Combinations/Pair: 1.36 | |
240 Mean z-score: 0.40 | |
241 Structure conservation index: 0.40 | |
242 Background model: dinucleotide | |
243 Decision model: sequence based alignment quality | |
244 SVM decision value: -7.30 | |
245 SVM RNA-class probability: 0.000000 | |
246 Prediction: OTHER | |
247 | |
248 ###################################################################### | |
249 | |
250 >hg17.chr1/120-240 | |
251 UUGUCUUUCCUGACAUCUUUGCCAGUCUUCUUUUUGUACAGUUUGAUGAAGUGUUCCAUGACACGCUGGUCAAAGUCUUCUCCACCCAGAUAAGUAUCUCCAUUAGUGGCCACAACUUUG | |
252 .((((......)))).....((((((............((......))..(((((....)))))))))))((((((.....((((..((((....))))......)))).....)))))) ( -22.90, z-score = -0.12, R) | |
253 >panTro1.chr1/120-240 | |
254 UUGUCUUUCCCGACAUCUUUGCCAGUCUUCUUUUUGUACAGUUUGAUGAAGUGUUCCAUGACAUGCUGGUCAAAGUCUUUUCCACCCAGAUGAGUAUCUCCAUUAGUGACCACAACUUUG | |
255 .((((......)))).((((((((((((((.................))))((((....)))).))))).))))).......(((...((((........)))).)))............ ( -18.53, z-score = 1.10, R) | |
256 >rn3.chr3/120-240 | |
257 UUGUCCUUUCUGACAUCUUUCCCAGUCUUCUUUUUGUACAGCUUGAUGAAGUGCUCCAUGACCCGCUGAUCAAAGUCUUCCCCACCCAGAUGAGUGUCUCCAUUAGUGGCCACCACUUCA | |
258 .((((......))))...............................(((((((..((((((..((((.(((.................))).))))..)).....))))....))))))) ( -19.43, z-score = 0.66, R) | |
259 >galGal2.chr17/120-240 | |
260 UUAUCCUUCCUGACAUCUUUUCCUGUUUUCUUCUUGUAGAGUUUGAUGAAGUGCUCCAUAACACGCUGGUCAAAGUCUUCUCCACCCAGGUGUGUGUCACCAUUUGUAGCCACAACUUCA | |
261 ..........((((((.....((((............(((.((((((.(.(((........)))..).)))))).)))........))))...))))))....((((....))))..... ( -20.75, z-score = 0.35, R) | |
262 >fr1.chrUn/120-240 | |
263 UUGUCUUUGCGCACGUCUUUGCCAGUCUUCUUCUUGUAUAGCUUGAUGAAGUGUUCCAUGACGCGCUGAUCAAAGUCUUCACCUCCAAGGUGAGUGUCACCAUUGGUGGCCACCACUUCA | |
264 ..(.(((((.((.((((..((.....((((.((..(.....)..)).)))).....)).)))).))....))))).).(((((.....)))))((((((((...))))).)))....... ( -31.40, z-score = -0.65, R) | |
265 >danRer1.chr11/120-240 | |
266 UUGUCUUUGCGCACAUCUUUGCCCGUCUUCUUCUUGUACAGCUUGAUGAAGUGCUCCAUGACGCGCUGGUCGAAGUCUUCUCCGCCCAGGUGAGUGUCUCCGUUUGUGGCCACCACUUCA | |
267 ..(((...(((((......)))..(((........).)).))..)))((((((..(((((((((.((((.((.((....)).)).))))....))))).......))))....)))))). ( -27.41, z-score = 1.03, R) | |
268 >consensus | |
269 UUGUCUUUCCUGACAUCUUUGCCAGUCUUCUUCUUGUACAGCUUGAUGAAGUGCUCCAUGACACGCUGGUCAAAGUCUUCUCCACCCAGAUGAGUGUCUCCAUUAGUGGCCACAACUUCA | |
270 .((((......))))...........................(((((..(((((........))))).)))))(((.....((((...((((........)))).)))).....)))... ( -9.31 = -9.48 + 0.17) | |
271 | |
272 ############################ RNAz 2.1 ############################## | |
273 | |
274 Sequences: 6 | |
275 Columns: 120 | |
276 Reading direction: forward | |
277 Mean pairwise identity: 85.83 | |
278 Shannon entropy: 0.26644 | |
279 G+C content: 0.46111 | |
280 Mean single sequence MFE: -23.40 | |
281 Consensus MFE: -9.31 | |
282 Energy contribution: -9.48 | |
283 Covariance contribution: 0.17 | |
284 Combinations/Pair: 1.36 | |
285 Mean z-score: 0.40 | |
286 Structure conservation index: 0.40 | |
287 Background model: dinucleotide | |
288 Decision model: sequence based alignment quality | |
289 SVM decision value: -7.30 | |
290 SVM RNA-class probability: 0.000000 | |
291 Prediction: OTHER | |
292 | |
293 ###################################################################### | |
294 | |
295 >hg17.chr1_rev/120-240 | |
296 UUGUCUUUCCUGACAUCUUUGCCAGUCUUCUUUUUGUACAGUUUGAUGAAGUGUUCCAUGACACGCUGGUCAAAGUCUUCUCCACCCAGAUAAGUAUCUCCAUUAGUGGCCACAACUUUG | |
297 .((((......)))).....((((((............((......))..(((((....)))))))))))((((((.....((((..((((....))))......)))).....)))))) ( -22.90, z-score = -0.12, R) | |
298 >panTro1.chr1_rev/120-240 | |
299 UUGUCUUUCCCGACAUCUUUGCCAGUCUUCUUUUUGUACAGUUUGAUGAAGUGUUCCAUGACAUGCUGGUCAAAGUCUUUUCCACCCAGAUGAGUAUCUCCAUUAGUGACCACAACUUUG | |
300 .((((......)))).((((((((((((((.................))))((((....)))).))))).))))).......(((...((((........)))).)))............ ( -18.53, z-score = 1.10, R) | |
301 >rn3.chr3_rev/120-240 | |
302 UUGUCCUUUCUGACAUCUUUCCCAGUCUUCUUUUUGUACAGCUUGAUGAAGUGCUCCAUGACCCGCUGAUCAAAGUCUUCCCCACCCAGAUGAGUGUCUCCAUUAGUGGCCACCACUUCA | |
303 .((((......))))...............................(((((((..((((((..((((.(((.................))).))))..)).....))))....))))))) ( -19.43, z-score = 0.66, R) | |
304 >galGal2.chr17_rev/120-240 | |
305 UUAUCCUUCCUGACAUCUUUUCCUGUUUUCUUCUUGUAGAGUUUGAUGAAGUGCUCCAUAACACGCUGGUCAAAGUCUUCUCCACCCAGGUGUGUGUCACCAUUUGUAGCCACAACUUCA | |
306 ..........((((((.....((((............(((.((((((.(.(((........)))..).)))))).)))........))))...))))))....((((....))))..... ( -20.75, z-score = 0.35, R) | |
307 >fr1.chrUn_rev/120-240 | |
308 UUGUCUUUGCGCACGUCUUUGCCAGUCUUCUUCUUGUAUAGCUUGAUGAAGUGUUCCAUGACGCGCUGAUCAAAGUCUUCACCUCCAAGGUGAGUGUCACCAUUGGUGGCCACCACUUCA | |
309 ..(.(((((.((.((((..((.....((((.((..(.....)..)).)))).....)).)))).))....))))).).(((((.....)))))((((((((...))))).)))....... ( -31.40, z-score = -0.65, R) | |
310 >danRer1.chr11_rev/120-240 | |
311 UUGUCUUUGCGCACAUCUUUGCCCGUCUUCUUCUUGUACAGCUUGAUGAAGUGCUCCAUGACGCGCUGGUCGAAGUCUUCUCCGCCCAGGUGAGUGUCUCCGUUUGUGGCCACCACUUCA | |
312 ..(((...(((((......)))..(((........).)).))..)))((((((..(((((((((.((((.((.((....)).)).))))....))))).......))))....)))))). ( -27.41, z-score = 1.03, R) | |
313 >consensus | |
314 UUGUCUUUCCUGACAUCUUUGCCAGUCUUCUUCUUGUACAGCUUGAUGAAGUGCUCCAUGACACGCUGGUCAAAGUCUUCUCCACCCAGAUGAGUGUCUCCAUUAGUGGCCACAACUUCA | |
315 .((((......))))...........................(((((..(((((........))))).)))))(((.....((((...((((........)))).)))).....)))... ( -9.31 = -9.48 + 0.17) | |
316 | |
317 ############################ RNAz 2.1 ############################## | |
318 | |
319 Sequences: 6 | |
320 Columns: 120 | |
321 Reading direction: reverse | |
322 Mean pairwise identity: 85.83 | |
323 Shannon entropy: 0.26644 | |
324 G+C content: 0.46111 | |
325 Mean single sequence MFE: -29.08 | |
326 Consensus MFE: -17.18 | |
327 Energy contribution: -17.27 | |
328 Covariance contribution: 0.09 | |
329 Combinations/Pair: 1.38 | |
330 Mean z-score: -0.03 | |
331 Structure conservation index: 0.59 | |
332 Background model: dinucleotide | |
333 Decision model: sequence based alignment quality | |
334 SVM decision value: -4.58 | |
335 SVM RNA-class probability: 0.000000 | |
336 Prediction: OTHER | |
337 | |
338 ###################################################################### | |
339 | |
340 >hg17.chr1_rev/120-240 | |
341 CAAAGUUGUGGCCACUAAUGGAGAUACUUAUCUGGGUGGAGAAGACUUUGACCAGCGUGUCAUGGAACACUUCAUCAAACUGUACAAAAAGAAGACUGGCAAAGAUGUCAGGAAAGACAA | |
342 (((((((....(((((...(((........))).)))))....))))))).......((((........((((.................)))).((((((....))))))....)))). ( -29.23, z-score = -0.65, R) | |
343 >panTro1.chr1_rev/120-240 | |
344 CAAAGUUGUGGUCACUAAUGGAGAUACUCAUCUGGGUGGAAAAGACUUUGACCAGCAUGUCAUGGAACACUUCAUCAAACUGUACAAAAAGAAGACUGGCAAAGAUGUCGGGAAAGACAA | |
345 (((((((....(((((....(((...))).....)))))....))))))).......((((........((((.................)))).((((((....))))))....)))). ( -26.53, z-score = -0.03, R) | |
346 >rn3.chr3_rev/120-240 | |
347 UGAAGUGGUGGCCACUAAUGGAGACACUCAUCUGGGUGGGGAAGACUUUGAUCAGCGGGUCAUGGAGCACUUCAUCAAGCUGUACAAAAAGAAGACUGGGAAAGAUGUCAGAAAGGACAA | |
348 (((((((((((((.....((....))(((((....))))).................))))))....)))))))(((..((...........))..)))......((((......)))). ( -26.70, z-score = 0.92, R) | |
349 >galGal2.chr17_rev/120-240 | |
350 UGAAGUUGUGGCUACAAAUGGUGACACACACCUGGGUGGAGAAGACUUUGACCAGCGUGUUAUGGAGCACUUCAUCAAACUCUACAAGAAGAAAACAGGAAAAGAUGUCAGGAAGGAUAA | |
351 ((((((.((..(((....((....)).((((((((..((((....))))..)))).))))..))).))))))))...............................((((......)))). ( -24.20, z-score = 0.87, R) | |
352 >fr1.chrUn_rev/120-240 | |
353 UGAAGUGGUGGCCACCAAUGGUGACACUCACCUUGGAGGUGAAGACUUUGAUCAGCGCGUCAUGGAACACUUCAUCAAGCUAUACAAGAAGAAGACUGGCAAAGACGUGCGCAAAGACAA | |
354 .(((((..(.(((.((((.((((.....)))))))).))).)..))))).....((((((((((((....)))))...((((..(........)..))))...))))))).......... ( -36.70, z-score = -1.77, R) | |
355 >danRer1.chr11_rev/120-240 | |
356 UGAAGUGGUGGCCACAAACGGAGACACUCACCUGGGCGGAGAAGACUUCGACCAGCGCGUCAUGGAGCACUUCAUCAAGCUGUACAAGAAGAAGACGGGCAAAGAUGUGCGCAAAGACAA | |
357 ....((((((.((......))...))).))).(((.(((((....))))).)))((((((((((((....)))))....((((.(........))))).....))))))).......... ( -31.10, z-score = 0.50, R) | |
358 >consensus | |
359 UGAAGUGGUGGCCACUAAUGGAGACACUCACCUGGGUGGAGAAGACUUUGACCAGCGUGUCAUGGAACACUUCAUCAAACUGUACAAAAAGAAGACUGGCAAAGAUGUCAGGAAAGACAA | |
360 ((((((..(..(((((...((.(.....).))..)))))..)..))))))....((.(((((((((....)))))....((........))..)))).)).....((((......)))). (-17.18 = -17.27 + 0.09) | |
361 | |
362 ############################ RNAz 2.1 ############################## | |
363 | |
364 Sequences: 6 | |
365 Columns: 120 | |
366 Reading direction: forward | |
367 Mean pairwise identity: 80.00 | |
368 Shannon entropy: 0.37687 | |
369 G+C content: 0.50603 | |
370 Mean single sequence MFE: -34.52 | |
371 Consensus MFE: -15.70 | |
372 Energy contribution: -14.52 | |
373 Covariance contribution: -1.19 | |
374 Combinations/Pair: 1.43 | |
375 Mean z-score: 0.11 | |
376 Structure conservation index: 0.45 | |
377 Background model: dinucleotide | |
378 Decision model: sequence based alignment quality | |
379 SVM decision value: -4.92 | |
380 SVM RNA-class probability: 0.000000 | |
381 Prediction: OTHER | |
382 | |
383 ###################################################################### | |
384 | |
385 >hg17.chr1/240-360 | |
386 UAGAGCUGUGCAGAAACUCUGGCGCAAGGUAGAAAAGGCCAAACGGGCCCUGUCUUCUCAACAUCAAGCAAGCAGUAAUUGAAAUUGAGUCCUUCUAUGAAGGAGAAGACUUUUCUGAGA | |
387 ..........((((((.((((.(....).))))...((((.....))))..((((((((((..((((((.....))..))))..)))).((((((...)))))))))))).))))))... ( -35.40, z-score = -1.05, R) | |
388 >mm5.chr2/240-360 | |
389 CAGAGCUGUGCAGAAACUCCGGCGUGAGGUAGAAAAGGCUAAGAGAGCCUUGUCUUCUCAGCAUCAAGCAAG----GAUUGAAAUUGAGUCCUUCUUCGAAGGAGAAGACUUCUCAGAGA | |
390 .....((.((.((((.((((.((.(((((.(((.((((((.....)))))).)))))))))).(((((.(((----((((.......)))))))))).)).)))).....)))))).)). ( -37.30, z-score = -0.73, R) | |
391 >rn3.chr3/240-360 | |
392 CAGAGCUGUGCAGAAACUCCGGCGUGAGGUAGAAAAGGCCAAGAGAGCCCUGUCUUCUCAGCAUCAAGCGAG----GAUUGAAAUUGAGUCCUUCUUCGAAGGAGAAGACUUCUCAGAGA | |
393 .....((.((.((((.(((.(((.(..........).)))..)))......((((((((....(((((.(((----((((.......)))))))))).))..)))))))))))))).)). ( -32.50, z-score = 0.75, R) | |
394 >galGal2.chr17/240-360 | |
395 CAGAGCUGUACAGAAACUAAGACGGGAAGUAGAGAAAGCGAAGCGGGCCCUGUCAUCCCAGCACCAAGCUAG----AAUUGAAAUAGAAUCCUUUUUUGAAGGAGAGGAUUUCUCUGAGA | |
396 (((((((((..............((((.((((.(...((...))...).))).).))))(((.....)))..----.......))))((((((((((....)))))))))).)))))... ( -27.10, z-score = 0.14, R) | |
397 >fr1.chrUn/240-360 | |
398 CCGUGCUGUCCAGAAGCUGCGUCGUGAGGUUGAGAAGGCAAAGAGGGCCCUGUCUGCCCAGCACCAGGCCCG----CAUUGAGAUCGAGUCUUUCUUUGAGGGAGAAGAUUUCUCCGAGA | |
399 ..((((.........(((...(((......)))...))).....(((((.((..(((...))).))))))))----))).((((((...(((..(.....)..))).))))))....... ( -32.90, z-score = 1.69, R) | |
400 >danRer1.chr11/240-360 | |
401 CCGCGCCGUGCAGAAGCUGCGCAGAGAGGUGGAGAAGGCUAAGAGAGCCCUGUCUGCCCAGCAUCAGGCCCG----CAUCGAGAUCGAGUCCUUCUUUGAGGGAGAAGAUUUCUCUGAGA | |
402 .((.(((((((((...))))))...(.((..((.(.((((.....)))).).))..))).......))).))----((..((((((...((((((...))))))...))))))..))... ( -41.90, z-score = -0.14, R) | |
403 >consensus | |
404 CAGAGCUGUGCAGAAACUCCGGCGUGAGGUAGAAAAGGCCAAGAGAGCCCUGUCUUCCCAGCAUCAAGCAAG____AAUUGAAAUUGAGUCCUUCUUUGAAGGAGAAGACUUCUCUGAGA | |
405 ....(((((((....(((.(.....).))).((.(.(((.......))).).))......))))..)))...........(((.((...((((((...))))))...)).)))....... (-15.70 = -14.52 + -1.19) | |
406 | |
407 ############################ RNAz 2.1 ############################## | |
408 | |
409 Sequences: 6 | |
410 Columns: 120 | |
411 Reading direction: reverse | |
412 Mean pairwise identity: 80.00 | |
413 Shannon entropy: 0.37687 | |
414 G+C content: 0.50603 | |
415 Mean single sequence MFE: -31.38 | |
416 Consensus MFE: -17.15 | |
417 Energy contribution: -16.27 | |
418 Covariance contribution: -0.88 | |
419 Combinations/Pair: 1.50 | |
420 Mean z-score: 0.17 | |
421 Structure conservation index: 0.55 | |
422 Background model: dinucleotide | |
423 Decision model: sequence based alignment quality | |
424 SVM decision value: -4.07 | |
425 SVM RNA-class probability: 0.000000 | |
426 Prediction: OTHER | |
427 | |
428 ###################################################################### | |
429 | |
430 >hg17.chr1/240-360 | |
431 UCUCAGAAAAGUCUUCUCCUUCAUAGAAGGACUCAAUUUCAAUUACUGCUUGCUUGAUGUUGAGAAGACAGGGCCCGUUUGGCCUUUUCUACCUUGCGCCAGAGUUUCUGCACAGCUCUA | |
432 ....((((((((((((((((((...)))))).(((((.((((.((.....)).)))).)))))))))))..((((.....))))))))))..........((((((.......)))))). ( -33.30, z-score = -1.00, R) | |
433 >mm5.chr2/240-360 | |
434 UCUCUGAGAAGUCUUCUCCUUCGAAGAAGGACUCAAUUUCAAUC----CUUGCUUGAUGCUGAGAAGACAAGGCUCUCUUAGCCUUUUCUACCUCACGCCGGAGUUUCUGCACAGCUCUG | |
435 ....((((..((((((((..((((..(((((...........))----)))..))))....))))))))((((((.....))))))......))))...(((((((.......))))))) ( -33.90, z-score = -1.12, R) | |
436 >rn3.chr3/240-360 | |
437 UCUCUGAGAAGUCUUCUCCUUCGAAGAAGGACUCAAUUUCAAUC----CUCGCUUGAUGCUGAGAAGACAGGGCUCUCUUGGCCUUUUCUACCUCACGCCGGAGUUUCUGCACAGCUCUG | |
438 ....((((..((((((((..((((.((.(((...........))----)))..))))....))))))))((((((.....))))))......))))...(((((((.......))))))) ( -31.90, z-score = 0.19, R) | |
439 >galGal2.chr17/240-360 | |
440 UCUCAGAGAAAUCCUCUCCUUCAAAAAAGGAUUCUAUUUCAAUU----CUAGCUUGGUGCUGGGAUGACAGGGCCCGCUUCGCUUUCUCUACUUCCCGUCUUAGUUUCUGUACAGCUCUG | |
441 .......(((((....(((((.....)))))....))))).(((----(((((.....))))))))..((((((..((...(((....(........)....)))....))...)))))) ( -23.50, z-score = 0.63, R) | |
442 >fr1.chrUn/240-360 | |
443 UCUCGGAGAAAUCUUCUCCCUCAAAGAAAGACUCGAUCUCAAUG----CGGGCCUGGUGCUGGGCAGACAGGGCCCUCUUUGCCUUCUCAACCUCACGACGCAGCUUCUGGACAGCACGG | |
444 ....(((((.....))))).........((.((((.........----)))).)).((((((((((((.((....)).)))))).................(((...)))..)))))).. ( -29.50, z-score = 1.62, R) | |
445 >danRer1.chr11/240-360 | |
446 UCUCAGAGAAAUCUUCUCCCUCAAAGAAGGACUCGAUCUCGAUG----CGGGCCUGAUGCUGGGCAGACAGGGCUCUCUUAGCCUUCUCCACCUCUCUGCGCAGCUUCUGCACGGCGCGG | |
447 .....(((...((((((.......)))))).))).....((.((----(.(((..((.((((.(((((.((((((.....)))))).........))))).)))).)).)).).))))). ( -36.20, z-score = 0.69, R) | |
448 >consensus | |
449 UCUCAGAGAAAUCUUCUCCUUCAAAGAAGGACUCAAUUUCAAUC____CUGGCUUGAUGCUGAGAAGACAGGGCCCUCUUAGCCUUCUCUACCUCACGCCGGAGUUUCUGCACAGCUCUG | |
450 .....((((((((((((.......)).))))))...))))..................((((....((.((((((.....)))))).))..............((....)).)))).... (-17.15 = -16.27 + -0.88) | |
451 | |
452 ############################ RNAz 2.1 ############################## | |
453 | |
454 Sequences: 6 | |
455 Columns: 120 | |
456 Reading direction: forward | |
457 Mean pairwise identity: 80.00 | |
458 Shannon entropy: 0.37687 | |
459 G+C content: 0.50603 | |
460 Mean single sequence MFE: -31.38 | |
461 Consensus MFE: -17.15 | |
462 Energy contribution: -16.27 | |
463 Covariance contribution: -0.88 | |
464 Combinations/Pair: 1.50 | |
465 Mean z-score: 0.17 | |
466 Structure conservation index: 0.55 | |
467 Background model: dinucleotide | |
468 Decision model: sequence based alignment quality | |
469 SVM decision value: -4.07 | |
470 SVM RNA-class probability: 0.000000 | |
471 Prediction: OTHER | |
472 | |
473 ###################################################################### | |
474 | |
475 >hg17.chr1_rev/240-360 | |
476 UCUCAGAAAAGUCUUCUCCUUCAUAGAAGGACUCAAUUUCAAUUACUGCUUGCUUGAUGUUGAGAAGACAGGGCCCGUUUGGCCUUUUCUACCUUGCGCCAGAGUUUCUGCACAGCUCUA | |
477 ....((((((((((((((((((...)))))).(((((.((((.((.....)).)))).)))))))))))..((((.....))))))))))..........((((((.......)))))). ( -33.30, z-score = -1.00, R) | |
478 >mm5.chr2_rev/240-360 | |
479 UCUCUGAGAAGUCUUCUCCUUCGAAGAAGGACUCAAUUUCAAUC----CUUGCUUGAUGCUGAGAAGACAAGGCUCUCUUAGCCUUUUCUACCUCACGCCGGAGUUUCUGCACAGCUCUG | |
480 ....((((..((((((((..((((..(((((...........))----)))..))))....))))))))((((((.....))))))......))))...(((((((.......))))))) ( -33.90, z-score = -1.12, R) | |
481 >rn3.chr3_rev/240-360 | |
482 UCUCUGAGAAGUCUUCUCCUUCGAAGAAGGACUCAAUUUCAAUC----CUCGCUUGAUGCUGAGAAGACAGGGCUCUCUUGGCCUUUUCUACCUCACGCCGGAGUUUCUGCACAGCUCUG | |
483 ....((((..((((((((..((((.((.(((...........))----)))..))))....))))))))((((((.....))))))......))))...(((((((.......))))))) ( -31.90, z-score = 0.19, R) | |
484 >galGal2.chr17_rev/240-360 | |
485 UCUCAGAGAAAUCCUCUCCUUCAAAAAAGGAUUCUAUUUCAAUU----CUAGCUUGGUGCUGGGAUGACAGGGCCCGCUUCGCUUUCUCUACUUCCCGUCUUAGUUUCUGUACAGCUCUG | |
486 .......(((((....(((((.....)))))....))))).(((----(((((.....))))))))..((((((..((...(((....(........)....)))....))...)))))) ( -23.50, z-score = 0.63, R) | |
487 >fr1.chrUn_rev/240-360 | |
488 UCUCGGAGAAAUCUUCUCCCUCAAAGAAAGACUCGAUCUCAAUG----CGGGCCUGGUGCUGGGCAGACAGGGCCCUCUUUGCCUUCUCAACCUCACGACGCAGCUUCUGGACAGCACGG | |
489 ....(((((.....))))).........((.((((.........----)))).)).((((((((((((.((....)).)))))).................(((...)))..)))))).. ( -29.50, z-score = 1.62, R) | |
490 >danRer1.chr11_rev/240-360 | |
491 UCUCAGAGAAAUCUUCUCCCUCAAAGAAGGACUCGAUCUCGAUG----CGGGCCUGAUGCUGGGCAGACAGGGCUCUCUUAGCCUUCUCCACCUCUCUGCGCAGCUUCUGCACGGCGCGG | |
492 .....(((...((((((.......)))))).))).....((.((----(.(((..((.((((.(((((.((((((.....)))))).........))))).)))).)).)).).))))). ( -36.20, z-score = 0.69, R) | |
493 >consensus | |
494 UCUCAGAGAAAUCUUCUCCUUCAAAGAAGGACUCAAUUUCAAUC____CUGGCUUGAUGCUGAGAAGACAGGGCCCUCUUAGCCUUCUCUACCUCACGCCGGAGUUUCUGCACAGCUCUG | |
495 .....((((((((((((.......)).))))))...))))..................((((....((.((((((.....)))))).))..............((....)).)))).... (-17.15 = -16.27 + -0.88) | |
496 | |
497 ############################ RNAz 2.1 ############################## | |
498 | |
499 Sequences: 6 | |
500 Columns: 120 | |
501 Reading direction: reverse | |
502 Mean pairwise identity: 80.00 | |
503 Shannon entropy: 0.37687 | |
504 G+C content: 0.50603 | |
505 Mean single sequence MFE: -34.52 | |
506 Consensus MFE: -15.70 | |
507 Energy contribution: -14.52 | |
508 Covariance contribution: -1.19 | |
509 Combinations/Pair: 1.43 | |
510 Mean z-score: 0.11 | |
511 Structure conservation index: 0.45 | |
512 Background model: dinucleotide | |
513 Decision model: sequence based alignment quality | |
514 SVM decision value: -4.92 | |
515 SVM RNA-class probability: 0.000000 | |
516 Prediction: OTHER | |
517 | |
518 ###################################################################### | |
519 | |
520 >hg17.chr1_rev/240-360 | |
521 UAGAGCUGUGCAGAAACUCUGGCGCAAGGUAGAAAAGGCCAAACGGGCCCUGUCUUCUCAACAUCAAGCAAGCAGUAAUUGAAAUUGAGUCCUUCUAUGAAGGAGAAGACUUUUCUGAGA | |
522 ..........((((((.((((.(....).))))...((((.....))))..((((((((((..((((((.....))..))))..)))).((((((...)))))))))))).))))))... ( -35.40, z-score = -1.05, R) | |
523 >mm5.chr2_rev/240-360 | |
524 CAGAGCUGUGCAGAAACUCCGGCGUGAGGUAGAAAAGGCUAAGAGAGCCUUGUCUUCUCAGCAUCAAGCAAG----GAUUGAAAUUGAGUCCUUCUUCGAAGGAGAAGACUUCUCAGAGA | |
525 .....((.((.((((.((((.((.(((((.(((.((((((.....)))))).)))))))))).(((((.(((----((((.......)))))))))).)).)))).....)))))).)). ( -37.30, z-score = -0.73, R) | |
526 >rn3.chr3_rev/240-360 | |
527 CAGAGCUGUGCAGAAACUCCGGCGUGAGGUAGAAAAGGCCAAGAGAGCCCUGUCUUCUCAGCAUCAAGCGAG----GAUUGAAAUUGAGUCCUUCUUCGAAGGAGAAGACUUCUCAGAGA | |
528 .....((.((.((((.(((.(((.(..........).)))..)))......((((((((....(((((.(((----((((.......)))))))))).))..)))))))))))))).)). ( -32.50, z-score = 0.75, R) | |
529 >galGal2.chr17_rev/240-360 | |
530 CAGAGCUGUACAGAAACUAAGACGGGAAGUAGAGAAAGCGAAGCGGGCCCUGUCAUCCCAGCACCAAGCUAG----AAUUGAAAUAGAAUCCUUUUUUGAAGGAGAGGAUUUCUCUGAGA | |
531 (((((((((..............((((.((((.(...((...))...).))).).))))(((.....)))..----.......))))((((((((((....)))))))))).)))))... ( -27.10, z-score = 0.14, R) | |
532 >fr1.chrUn_rev/240-360 | |
533 CCGUGCUGUCCAGAAGCUGCGUCGUGAGGUUGAGAAGGCAAAGAGGGCCCUGUCUGCCCAGCACCAGGCCCG----CAUUGAGAUCGAGUCUUUCUUUGAGGGAGAAGAUUUCUCCGAGA | |
534 ..((((.........(((...(((......)))...))).....(((((.((..(((...))).))))))))----))).((((((...(((..(.....)..))).))))))....... ( -32.90, z-score = 1.69, R) | |
535 >danRer1.chr11_rev/240-360 | |
536 CCGCGCCGUGCAGAAGCUGCGCAGAGAGGUGGAGAAGGCUAAGAGAGCCCUGUCUGCCCAGCAUCAGGCCCG----CAUCGAGAUCGAGUCCUUCUUUGAGGGAGAAGAUUUCUCUGAGA | |
537 .((.(((((((((...))))))...(.((..((.(.((((.....)))).).))..))).......))).))----((..((((((...((((((...))))))...))))))..))... ( -41.90, z-score = -0.14, R) | |
538 >consensus | |
539 CAGAGCUGUGCAGAAACUCCGGCGUGAGGUAGAAAAGGCCAAGAGAGCCCUGUCUUCCCAGCAUCAAGCAAG____AAUUGAAAUUGAGUCCUUCUUUGAAGGAGAAGACUUCUCUGAGA | |
540 ....(((((((....(((.(.....).))).((.(.(((.......))).).))......))))..)))...........(((.((...((((((...))))))...)).)))....... (-15.70 = -14.52 + -1.19) | |
541 | |
542 ############################ RNAz 2.1 ############################## | |
543 | |
544 Sequences: 6 | |
545 Columns: 120 | |
546 Reading direction: forward | |
547 Mean pairwise identity: 82.22 | |
548 Shannon entropy: 0.33146 | |
549 G+C content: 0.47735 | |
550 Mean single sequence MFE: -32.55 | |
551 Consensus MFE: -18.57 | |
552 Energy contribution: -18.10 | |
553 Covariance contribution: -0.47 | |
554 Combinations/Pair: 1.42 | |
555 Mean z-score: -0.11 | |
556 Structure conservation index: 0.57 | |
557 Background model: dinucleotide | |
558 Decision model: sequence based alignment quality | |
559 SVM decision value: -3.82 | |
560 SVM RNA-class probability: 0.000001 | |
561 Prediction: OTHER | |
562 | |
563 ###################################################################### | |
564 | |
565 >hg17.chr1/271-391 | |
566 GAAAAGGCCAAACGGGCCCUGUCUUCUCAACAUCAAGCAAGCAGUAAUUGAAAUUGAGUCCUUCUAUGAAGGAGAAGACUUUUCUGAGACCCUGACUCAGGCCAAAUUUGAAGAGCUCAA | |
567 (((((((((.....))))..((((((((((..((((((.....))..))))..)))).((((((...)))))))))))))))))((((..((((...)))).((....)).....)))). ( -30.50, z-score = -0.31, R) | |
568 >mm5.chr2/271-391 | |
569 GAAAAGGCUAAGAGAGCCUUGUCUUCUCAGCAUCAAGCAAG----GAUUGAAAUUGAGUCCUUCUUCGAAGGAGAAGACUUCUCAGAGACCCUUACUCGGGCCAAAUUUGAAGAGCUGAA | |
570 ((.((((((.....)))))).))...(((((........((----((((.......))))))((((((((.((((.....))))...(.(((......))).)...))))))))))))). ( -36.20, z-score = -0.98, R) | |
571 >rn3.chr3/271-391 | |
572 GAAAAGGCCAAGAGAGCCCUGUCUUCUCAGCAUCAAGCGAG----GAUUGAAAUUGAGUCCUUCUUCGAAGGAGAAGACUUCUCAGAGACCCUUACUCGGGCCAAAUUUGAAGAGCUGAA | |
573 .....((((..(((((....((((((((....(((((.(((----((((.......)))))))))).))..))))))))))))).(((.......))).))))................. ( -35.10, z-score = -0.51, R) | |
574 >galGal2.chr17/271-391 | |
575 GAGAAAGCGAAGCGGGCCCUGUCAUCCCAGCACCAAGCUAG----AAUUGAAAUAGAAUCCUUUUUUGAAGGAGAGGAUUUCUCUGAGACGCUUACUCGUGCCAAAUUUGAAGAACUGAA | |
576 (((.(((((.(((.((..(((......)))..))..)))..----..........(((((((((((....)))))))))))........))))).)))...................... ( -27.00, z-score = 0.10, R) | |
577 >fr1.chrUn/271-391 | |
578 GAGAAGGCAAAGAGGGCCCUGUCUGCCCAGCACCAGGCCCG----CAUUGAGAUCGAGUCUUUCUUUGAGGGAGAAGAUUUCUCCGAGACACUGACCCGUGCCAAAUUUGAAGAGCUUAA | |
579 .....((((....((((..((((((((........))).((----....((((((...(((..(.....)..))).))))))..)))))))..).))).))))................. ( -33.20, z-score = -0.02, R) | |
580 >danRer1.chr11/271-391 | |
581 GAGAAGGCUAAGAGAGCCCUGUCUGCCCAGCAUCAGGCCCG----CAUCGAGAUCGAGUCCUUCUUUGAGGGAGAAGAUUUCUCUGAGACUCUCACCAGAGCCAAGUUUGAAGAGCUCAA | |
582 ((((.((((.....))))..(((((((........)))...----((..((((((...((((((...))))))...))))))..))))))))))....(((((.........).)))).. ( -33.30, z-score = 1.06, R) | |
583 >consensus | |
584 GAAAAGGCCAAGAGAGCCCUGUCUUCCCAGCAUCAAGCAAG____AAUUGAAAUUGAGUCCUUCUUUGAAGGAGAAGACUUCUCUGAGACCCUUACUCGGGCCAAAUUUGAAGAGCUGAA | |
585 .....((((....(((....((((((...((.....))....................((((((...))))))))))))..))).(((.......))).))))................. (-18.57 = -18.10 + -0.47) | |
586 | |
587 ############################ RNAz 2.1 ############################## | |
588 | |
589 Sequences: 6 | |
590 Columns: 120 | |
591 Reading direction: reverse | |
592 Mean pairwise identity: 82.22 | |
593 Shannon entropy: 0.33146 | |
594 G+C content: 0.47735 | |
595 Mean single sequence MFE: -33.18 | |
596 Consensus MFE: -22.01 | |
597 Energy contribution: -20.72 | |
598 Covariance contribution: -1.30 | |
599 Combinations/Pair: 1.48 | |
600 Mean z-score: 0.17 | |
601 Structure conservation index: 0.66 | |
602 Background model: dinucleotide | |
603 Decision model: sequence based alignment quality | |
604 SVM decision value: -3.58 | |
605 SVM RNA-class probability: 0.000003 | |
606 Prediction: OTHER | |
607 | |
608 ###################################################################### | |
609 | |
610 >hg17.chr1/271-391 | |
611 UUGAGCUCUUCAAAUUUGGCCUGAGUCAGGGUCUCAGAAAAGUCUUCUCCUUCAUAGAAGGACUCAAUUUCAAUUACUGCUUGCUUGAUGUUGAGAAGACAGGGCCCGUUUGGCCUUUUC | |
612 ((((((((((((.........)))...)))).)))))....((((((((((((...)))))).(((((.((((.((.....)).)))).)))))))))))((((((.....))))))... ( -34.00, z-score = -0.30, R) | |
613 >mm5.chr2/271-391 | |
614 UUCAGCUCUUCAAAUUUGGCCCGAGUAAGGGUCUCUGAGAAGUCUUCUCCUUCGAAGAAGGACUCAAUUUCAAUC----CUUGCUUGAUGCUGAGAAGACAAGGCUCUCUUAGCCUUUUC | |
615 ....(.(((((....(..((.(((((((((((...((((...(((((......)))))....))))......)))----))))))))..))..)))))))((((((.....))))))... ( -35.10, z-score = -0.81, R) | |
616 >rn3.chr3/271-391 | |
617 UUCAGCUCUUCAAAUUUGGCCCGAGUAAGGGUCUCUGAGAAGUCUUCUCCUUCGAAGAAGGACUCAAUUUCAAUC----CUCGCUUGAUGCUGAGAAGACAGGGCUCUCUUGGCCUUUUC | |
618 ((((((...((((....(((((......))))).....(((((....((((((...))))))....)))))....----.....)))).))))))..((.((((((.....)))))).)) ( -34.40, z-score = 0.10, R) | |
619 >galGal2.chr17/271-391 | |
620 UUCAGUUCUUCAAAUUUGGCACGAGUAAGCGUCUCAGAGAAAUCCUCUCCUUCAAAAAAGGAUUCUAUUUCAAUU----CUAGCUUGGUGCUGGGAUGACAGGGCCCGCUUCGCUUUCUC | |
621 ....((.((........)).))(((((((((.(((...(((((....(((((.....)))))....))))).(((----(((((.....))))))))....)))..))))).)))).... ( -27.00, z-score = 0.33, R) | |
622 >fr1.chrUn/271-391 | |
623 UUAAGCUCUUCAAAUUUGGCACGGGUCAGUGUCUCGGAGAAAUCUUCUCCCUCAAAGAAAGACUCGAUCUCAAUG----CGGGCCUGGUGCUGGGCAGACAGGGCCCUCUUUGCCUUCUC | |
624 .................((((((((((....(((.(((((.....))))).....)))..)))))).........----.((((((.((.((....)))).))))))....))))..... ( -34.20, z-score = 0.29, R) | |
625 >danRer1.chr11/271-391 | |
626 UUGAGCUCUUCAAACUUGGCUCUGGUGAGAGUCUCAGAGAAAUCUUCUCCCUCAAAGAAGGACUCGAUCUCGAUG----CGGGCCUGAUGCUGGGCAGACAGGGCUCUCUUAGCCUUCUC | |
627 ..(((((..........))))).(((((((((((.(((....)))((((((....(..(((.((((((....)).----)))))))..)...))).)))..))))))))...)))..... ( -34.40, z-score = 1.40, R) | |
628 >consensus | |
629 UUCAGCUCUUCAAAUUUGGCCCGAGUAAGGGUCUCAGAGAAAUCUUCUCCUUCAAAGAAGGACUCAAUUUCAAUC____CUGGCUUGAUGCUGAGAAGACAGGGCCCUCUUAGCCUUCUC | |
630 ...(((...(((.....(((((......)))))...((((((((((((.......)).))))))...))))..............))).))).....((.((((((.....)))))).)) (-22.01 = -20.72 + -1.30) | |
631 | |
632 ############################ RNAz 2.1 ############################## | |
633 | |
634 Sequences: 6 | |
635 Columns: 120 | |
636 Reading direction: forward | |
637 Mean pairwise identity: 82.22 | |
638 Shannon entropy: 0.33146 | |
639 G+C content: 0.47735 | |
640 Mean single sequence MFE: -33.18 | |
641 Consensus MFE: -22.01 | |
642 Energy contribution: -20.72 | |
643 Covariance contribution: -1.30 | |
644 Combinations/Pair: 1.48 | |
645 Mean z-score: 0.17 | |
646 Structure conservation index: 0.66 | |
647 Background model: dinucleotide | |
648 Decision model: sequence based alignment quality | |
649 SVM decision value: -3.58 | |
650 SVM RNA-class probability: 0.000003 | |
651 Prediction: OTHER | |
652 | |
653 ###################################################################### | |
654 | |
655 >hg17.chr1_rev/271-391 | |
656 UUGAGCUCUUCAAAUUUGGCCUGAGUCAGGGUCUCAGAAAAGUCUUCUCCUUCAUAGAAGGACUCAAUUUCAAUUACUGCUUGCUUGAUGUUGAGAAGACAGGGCCCGUUUGGCCUUUUC | |
657 ((((((((((((.........)))...)))).)))))....((((((((((((...)))))).(((((.((((.((.....)).)))).)))))))))))((((((.....))))))... ( -34.00, z-score = -0.30, R) | |
658 >mm5.chr2_rev/271-391 | |
659 UUCAGCUCUUCAAAUUUGGCCCGAGUAAGGGUCUCUGAGAAGUCUUCUCCUUCGAAGAAGGACUCAAUUUCAAUC----CUUGCUUGAUGCUGAGAAGACAAGGCUCUCUUAGCCUUUUC | |
660 ....(.(((((....(..((.(((((((((((...((((...(((((......)))))....))))......)))----))))))))..))..)))))))((((((.....))))))... ( -35.10, z-score = -0.81, R) | |
661 >rn3.chr3_rev/271-391 | |
662 UUCAGCUCUUCAAAUUUGGCCCGAGUAAGGGUCUCUGAGAAGUCUUCUCCUUCGAAGAAGGACUCAAUUUCAAUC----CUCGCUUGAUGCUGAGAAGACAGGGCUCUCUUGGCCUUUUC | |
663 ((((((...((((....(((((......))))).....(((((....((((((...))))))....)))))....----.....)))).))))))..((.((((((.....)))))).)) ( -34.40, z-score = 0.10, R) | |
664 >galGal2.chr17_rev/271-391 | |
665 UUCAGUUCUUCAAAUUUGGCACGAGUAAGCGUCUCAGAGAAAUCCUCUCCUUCAAAAAAGGAUUCUAUUUCAAUU----CUAGCUUGGUGCUGGGAUGACAGGGCCCGCUUCGCUUUCUC | |
666 ....((.((........)).))(((((((((.(((...(((((....(((((.....)))))....))))).(((----(((((.....))))))))....)))..))))).)))).... ( -27.00, z-score = 0.33, R) | |
667 >fr1.chrUn_rev/271-391 | |
668 UUAAGCUCUUCAAAUUUGGCACGGGUCAGUGUCUCGGAGAAAUCUUCUCCCUCAAAGAAAGACUCGAUCUCAAUG----CGGGCCUGGUGCUGGGCAGACAGGGCCCUCUUUGCCUUCUC | |
669 .................((((((((((....(((.(((((.....))))).....)))..)))))).........----.((((((.((.((....)))).))))))....))))..... ( -34.20, z-score = 0.29, R) | |
670 >danRer1.chr11_rev/271-391 | |
671 UUGAGCUCUUCAAACUUGGCUCUGGUGAGAGUCUCAGAGAAAUCUUCUCCCUCAAAGAAGGACUCGAUCUCGAUG----CGGGCCUGAUGCUGGGCAGACAGGGCUCUCUUAGCCUUCUC | |
672 ..(((((..........))))).(((((((((((.(((....)))((((((....(..(((.((((((....)).----)))))))..)...))).)))..))))))))...)))..... ( -34.40, z-score = 1.40, R) | |
673 >consensus | |
674 UUCAGCUCUUCAAAUUUGGCCCGAGUAAGGGUCUCAGAGAAAUCUUCUCCUUCAAAGAAGGACUCAAUUUCAAUC____CUGGCUUGAUGCUGAGAAGACAGGGCCCUCUUAGCCUUCUC | |
675 ...(((...(((.....(((((......)))))...((((((((((((.......)).))))))...))))..............))).))).....((.((((((.....)))))).)) (-22.01 = -20.72 + -1.30) | |
676 | |
677 ############################ RNAz 2.1 ############################## | |
678 | |
679 Sequences: 6 | |
680 Columns: 120 | |
681 Reading direction: reverse | |
682 Mean pairwise identity: 82.22 | |
683 Shannon entropy: 0.33146 | |
684 G+C content: 0.47735 | |
685 Mean single sequence MFE: -32.55 | |
686 Consensus MFE: -18.57 | |
687 Energy contribution: -18.10 | |
688 Covariance contribution: -0.47 | |
689 Combinations/Pair: 1.42 | |
690 Mean z-score: -0.11 | |
691 Structure conservation index: 0.57 | |
692 Background model: dinucleotide | |
693 Decision model: sequence based alignment quality | |
694 SVM decision value: -3.82 | |
695 SVM RNA-class probability: 0.000001 | |
696 Prediction: OTHER | |
697 | |
698 ###################################################################### | |
699 | |
700 >hg17.chr1_rev/271-391 | |
701 GAAAAGGCCAAACGGGCCCUGUCUUCUCAACAUCAAGCAAGCAGUAAUUGAAAUUGAGUCCUUCUAUGAAGGAGAAGACUUUUCUGAGACCCUGACUCAGGCCAAAUUUGAAGAGCUCAA | |
702 (((((((((.....))))..((((((((((..((((((.....))..))))..)))).((((((...)))))))))))))))))((((..((((...)))).((....)).....)))). ( -30.50, z-score = -0.31, R) | |
703 >mm5.chr2_rev/271-391 | |
704 GAAAAGGCUAAGAGAGCCUUGUCUUCUCAGCAUCAAGCAAG----GAUUGAAAUUGAGUCCUUCUUCGAAGGAGAAGACUUCUCAGAGACCCUUACUCGGGCCAAAUUUGAAGAGCUGAA | |
705 ((.((((((.....)))))).))...(((((........((----((((.......))))))((((((((.((((.....))))...(.(((......))).)...))))))))))))). ( -36.20, z-score = -0.98, R) | |
706 >rn3.chr3_rev/271-391 | |
707 GAAAAGGCCAAGAGAGCCCUGUCUUCUCAGCAUCAAGCGAG----GAUUGAAAUUGAGUCCUUCUUCGAAGGAGAAGACUUCUCAGAGACCCUUACUCGGGCCAAAUUUGAAGAGCUGAA | |
708 .....((((..(((((....((((((((....(((((.(((----((((.......)))))))))).))..))))))))))))).(((.......))).))))................. ( -35.10, z-score = -0.51, R) | |
709 >galGal2.chr17_rev/271-391 | |
710 GAGAAAGCGAAGCGGGCCCUGUCAUCCCAGCACCAAGCUAG----AAUUGAAAUAGAAUCCUUUUUUGAAGGAGAGGAUUUCUCUGAGACGCUUACUCGUGCCAAAUUUGAAGAACUGAA | |
711 (((.(((((.(((.((..(((......)))..))..)))..----..........(((((((((((....)))))))))))........))))).)))...................... ( -27.00, z-score = 0.10, R) | |
712 >fr1.chrUn_rev/271-391 | |
713 GAGAAGGCAAAGAGGGCCCUGUCUGCCCAGCACCAGGCCCG----CAUUGAGAUCGAGUCUUUCUUUGAGGGAGAAGAUUUCUCCGAGACACUGACCCGUGCCAAAUUUGAAGAGCUUAA | |
714 .....((((....((((..((((((((........))).((----....((((((...(((..(.....)..))).))))))..)))))))..).))).))))................. ( -33.20, z-score = -0.02, R) | |
715 >danRer1.chr11_rev/271-391 | |
716 GAGAAGGCUAAGAGAGCCCUGUCUGCCCAGCAUCAGGCCCG----CAUCGAGAUCGAGUCCUUCUUUGAGGGAGAAGAUUUCUCUGAGACUCUCACCAGAGCCAAGUUUGAAGAGCUCAA | |
717 ((((.((((.....))))..(((((((........)))...----((..((((((...((((((...))))))...))))))..))))))))))....(((((.........).)))).. ( -33.30, z-score = 1.06, R) | |
718 >consensus | |
719 GAAAAGGCCAAGAGAGCCCUGUCUUCCCAGCAUCAAGCAAG____AAUUGAAAUUGAGUCCUUCUUUGAAGGAGAAGACUUCUCUGAGACCCUUACUCGGGCCAAAUUUGAAGAGCUGAA | |
720 .....((((....(((....((((((...((.....))....................((((((...))))))))))))..))).(((.......))).))))................. (-18.57 = -18.10 + -0.47) |