Locus 232

Sequence ID	3R_DroMel_CAF1
Location	924,837 – 924,936
Length	99
Max. P	0.926037

overview

Window 6

Location	924,837 – 924,936
Length	99
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	86.51
Mean single sequence MFE	-38.59
Consensus MFE	-31.68
Energy contribution	-31.77
Covariance contribution	0.09
Combinations/Pair	1.21
Mean z-score	-2.86
Structure conservation index	0.82
SVM decision value	1.17
SVM RNA-class probability	0.926037
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 924837 99 + 27905053
GCCCACCUAUUAGUUCGGCCAGAGCUAGUUGUUCAUUAAAGUCCUGGCCAACGCCCCUUUUGGGCUGAUUUGGGUGGCAAAUGGCACGUGCCAUAAAUU
(((.(((((...(((.((((((..((.............))..)))))))))((((.....)))).....))))))))..(((((....)))))..... ( -39.62)
>DroSec_CAF1 13832 98 + 1
GCCCACCUAUUAGUUCGGCCAGAGCUAGUUGUUCAUUAAAGUCGUGGCCAACGCCCCU-UUGGGCGGAUUUGGGUGGCAACUGGCACGUGCCAUAAAUU
(((.(((((..((((((.((((((...((((..(((.......)))..))))....))-)))).))))))))))))))...((((....))))...... ( -38.20)
>DroSim_CAF1 19732 98 + 1
GCCCACCUAUUAGUUCGGCCAGAGCUAGUUGUUCAUUAAAGUCGUGGCCAACGCCCCU-UCGGGCGGAUUUGGGUGGCAACUGGCACGUGCCAUAAAUU
(((.(((((..((((((((((..(((.............)))..)))))...((((..-..)))))))))))))))))...((((....))))...... ( -37.02)
>DroEre_CAF1 14927 98 + 1
GCCCACCUAUUACUUCGGCCGGGGCUAGUUGCUCAUUAAAGUCCUGGCCAACGCCCCU-UUGGGCGGACUUGGGUGGCAACUGGCACGUGCCGUAAAUU
...............((((((..(((((((((.(((..((((((.(.....)((((..-..))))))))))..)))))))))))).)).))))...... ( -44.30)
>DroYak_CAF1 34481 98 + 1
GCCCACCUAUUACUUAGGCCAGAGCUAGUUGCUCAUUAAAGUCCUGGCCAACGCCCCU-UGGGGCGGACUUGGAUGGCAACUGGCACGUGCCAUAAAUU
................(((..(.(((((((((.((((.((((((.(.....)((((..-..)))))))))).))))))))))))).)..)))....... ( -42.00)
>DroAna_CAF1 12367 97 + 1
UCAGGCCUAAUUCCACGCCCGUCGCUAGUUGUUCAUUAAAGCCUCGGCCGACGCCCCU-UCAGGCGUUUGUGGGCGGU-CCUGGCACGUGCCAUAAAUU
...((((....((((((.(((..(((.............)))..))).)((((((...-...)))))).))))).)))-).((((....))))...... ( -30.42)
>consensus
GCCCACCUAUUACUUCGGCCAGAGCUAGUUGUUCAUUAAAGUCCUGGCCAACGCCCCU_UUGGGCGGAUUUGGGUGGCAACUGGCACGUGCCAUAAAUU
..(((((((.......(((((..(((.............)))..)))))..(((((.....)))))....)))))))....((((....))))...... (-31.68 = -31.77 +   0.09)

alignment

secondary structure

dotplot

Window 7

Location	924,837 – 924,936
Length	99
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	86.51
Mean single sequence MFE	-35.98
Consensus MFE	-27.11
Energy contribution	-27.62
Covariance contribution	0.51
Combinations/Pair	1.25
Mean z-score	-2.23
Structure conservation index	0.75
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 924837 99 - 27905053
AAUUUAUGGCACGUGCCAUUUGCCACCCAAAUCAGCCCAAAAGGGGCGUUGGCCAGGACUUUAAUGAACAACUAGCUCUGGCCGAACUAAUAGGUGGGC
.....(((((....)))))...(((((.......((((.....)))).((((((((..((.............))..)))))))).......))))).. ( -37.42)
>DroSec_CAF1 13832 98 - 1
AAUUUAUGGCACGUGCCAGUUGCCACCCAAAUCCGCCCAA-AGGGGCGUUGGCCACGACUUUAAUGAACAACUAGCUCUGGCCGAACUAAUAGGUGGGC
......((((....))))....(((((......(((((..-..)))))(((((((.((((.............)).))))))))).......))))).. ( -34.02)
>DroSim_CAF1 19732 98 - 1
AAUUUAUGGCACGUGCCAGUUGCCACCCAAAUCCGCCCGA-AGGGGCGUUGGCCACGACUUUAAUGAACAACUAGCUCUGGCCGAACUAAUAGGUGGGC
......((((....))))....(((((......(((((..-..)))))(((((((.((((.............)).))))))))).......))))).. ( -36.72)
>DroEre_CAF1 14927 98 - 1
AAUUUACGGCACGUGCCAGUUGCCACCCAAGUCCGCCCAA-AGGGGCGUUGGCCAGGACUUUAAUGAGCAACUAGCCCCGGCCGAAGUAAUAGGUGGGC
.......(((....)))((((((((...((((((((((..-..))))(....)..))))))...)).)))))).((((..(((.........))))))) ( -36.50)
>DroYak_CAF1 34481 98 - 1
AAUUUAUGGCACGUGCCAGUUGCCAUCCAAGUCCGCCCCA-AGGGGCGUUGGCCAGGACUUUAAUGAGCAACUAGCUCUGGCCUAAGUAAUAGGUGGGC
.......(((....)))(((((((((..((((((((((..-..))))(....)..))))))..))).)))))).((((..(((((.....))))))))) ( -39.20)
>DroAna_CAF1 12367 97 - 1
AAUUUAUGGCACGUGCCAGG-ACCGCCCACAAACGCCUGA-AGGGGCGUCGGCCGAGGCUUUAAUGAACAACUAGCGACGGGCGUGGAAUUAGGCCUGA
.......(((....)))(((-.((..((((..((((((..-..)))))).(.(((..(((.............)))..))).))))).....))))).. ( -32.02)
>consensus
AAUUUAUGGCACGUGCCAGUUGCCACCCAAAUCCGCCCAA_AGGGGCGUUGGCCAGGACUUUAAUGAACAACUAGCUCUGGCCGAACUAAUAGGUGGGC
......((((....))))....(((((......(((((.....)))))(((((((.(.((.............)).).))))))).......))))).. (-27.11 = -27.62 +   0.51)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:19 2006