Locus 4629

Sequence ID 3L_DroMel_CAF1
Location 13,165,294 – 13,165,387
Length 93
Max. P 0.938376
window7266 window7267

overview

Window 6

Location 13,165,294 – 13,165,387
Length 93
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 90.51
Mean single sequence MFE -25.91
Consensus MFE -21.48
Energy contribution -22.73
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.83
SVM decision value 1.29
SVM RNA-class probability 0.938376
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13165294 93 + 23771897
UCCAUGCCUAAUUAAAAAUGCCAUGCGGCACUUAUAGCU-UUGCUGGUUCU-------GGUUUUCUGCUGCCUUGGC-UUUCGUU-UUGCGGCCAUGUCUUUC
..(((((((((........((((.((((((.....((((-...........-------))))...))))))..))))-.......-))).)).))))...... ( -21.06)
>DroSec_CAF1 16838 95 + 1
UCCAUGCCUAAUUAAAAAUGCCAUGCGGCACUUAUAGCUUUUGCUGGUUCU-------GGUUUUCUGCUGCCUUGGC-UUUCGUUUUUGCGGGCAUGUCUUUC
..(((((((...(((((((((((.((((((((..((((....)))).....-------))).....)))))..))))-....))))))).)))))))...... ( -29.20)
>DroSim_CAF1 15059 94 + 1
UCCAUGCCUAAUUAAAAAUGCCAUGCGGCACUUAUAGCU-CUGCUGGUUCU-------GGUUUUCUGCUGCCUUGGC-UUUCGUUUUUGCGGCCAUGUCUUUC
..(((((((((..(..((.((((.((((((....(((..-(.....)..))-------)......))))))..))))-.))..)..))).)).))))...... ( -21.50)
>DroEre_CAF1 20298 100 + 1
UCCAUGCCUAAUUAAAAAUGCCAUGCGGCACUUAUAGCA-UUGCUGUUUUUCUGUGCUGGUUUUCUGCUGCCUUGGCCUUUGGUU-UUGUG-GCAUGUCUUUC
..((((((.(((((((...((((.((((((....(((((-(............))))))......))))))..)))).)))))))-....)-)))))...... ( -31.90)
>consensus
UCCAUGCCUAAUUAAAAAUGCCAUGCGGCACUUAUAGCU_UUGCUGGUUCU_______GGUUUUCUGCUGCCUUGGC_UUUCGUU_UUGCGGCCAUGUCUUUC
..(((((((...(((((((((((.(((((.....((((....))))............((....)))))))..)))).....))))))).)))))))...... (-21.48 = -22.73 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 13,165,294 – 13,165,387
Length 93
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 90.51
Mean single sequence MFE -21.55
Consensus MFE -16.35
Energy contribution -16.60
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.65
Structure conservation index 0.76
SVM decision value 0.13
SVM RNA-class probability 0.597256
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13165294 93 - 23771897
GAAAGACAUGGCCGCAA-AACGAAA-GCCAAGGCAGCAGAAAACC-------AGAACCAGCAA-AGCUAUAAGUGCCGCAUGGCAUUUUUAAUUAGGCAUGGA
..........((.((..-..(....-).....)).))........-------....(((((..-......(((((((....)))))))........)).))). ( -19.89)
>DroSec_CAF1 16838 95 - 1
GAAAGACAUGCCCGCAAAAACGAAA-GCCAAGGCAGCAGAAAACC-------AGAACCAGCAAAAGCUAUAAGUGCCGCAUGGCAUUUUUAAUUAGGCAUGGA
......((((((((......))...-((((.((((...(.....)-------......(((....))).....))))...))))...........)))))).. ( -22.50)
>DroSim_CAF1 15059 94 - 1
GAAAGACAUGGCCGCAAAAACGAAA-GCCAAGGCAGCAGAAAACC-------AGAACCAGCAG-AGCUAUAAGUGCCGCAUGGCAUUUUUAAUUAGGCAUGGA
..........((.((.....(....-).....)).))........-------....(((((..-((.((.(((((((....))))))).)).))..)).))). ( -20.90)
>DroEre_CAF1 20298 100 - 1
GAAAGACAUGC-CACAA-AACCAAAGGCCAAGGCAGCAGAAAACCAGCACAGAAAAACAGCAA-UGCUAUAAGUGCCGCAUGGCAUUUUUAAUUAGGCAUGGA
......(((((-(....-........((((.((((((.........))..........(((..-.))).....))))...))))...........)))))).. ( -22.90)
>consensus
GAAAGACAUGCCCGCAA_AACGAAA_GCCAAGGCAGCAGAAAACC_______AGAACCAGCAA_AGCUAUAAGUGCCGCAUGGCAUUUUUAAUUAGGCAUGGA
......((((.((.............((....))........................(((....)))..(((((((....))))))).......)))))).. (-16.35 = -16.60 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:56 2006