Locus 110

Sequence ID X_DroMel_CAF1
Location 454,366 – 454,480
Length 114
Max. P 0.989188
window145 window146

overview

Window 5

Location 454,366 – 454,480
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.27
Mean single sequence MFE -19.02
Consensus MFE -18.43
Energy contribution -18.03
Covariance contribution -0.40
Combinations/Pair 1.07
Mean z-score -1.59
Structure conservation index 0.97
SVM decision value 2.15
SVM RNA-class probability 0.989188
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 454366 114 + 22224390
UAAA------UUUAUCCAUUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAGCUACAUUUCCUUCUAAAUAAAAAUCAAUUUGCAUAAUACUAGUGUCUCUUGUCAAGCGCAUUUA
....------..((((((....)))))).......(((((.(.((((((.(((..((((..........(((((........)))))........)))).))).)))))).).))))).. ( -19.47)
>DroSec_CAF1 56587 114 + 1
UAUA------UUUAUCCAUUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAGCUACAUUUCCUUCUGAAUAAAAAUCAAUUUGCAUAAUACUAGUGUCUCUUGUCAAGCGCAUUUA
....------..((((((....)))))).......(((((.(.((((((.(((..((((.(((......(((.......)))........)))..)))).))).)))))).).))))).. ( -18.84)
>DroSim_CAF1 35623 114 + 1
UAUA------UUUAUCCAUUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAGCUACAUUUCCUUCUGAAUAAAAAUCAAUUUGCAUAAUACUAGUGUCUCUUGUCAAGCGCAUUUA
....------..((((((....)))))).......(((((.(.((((((.(((..((((.(((......(((.......)))........)))..)))).))).)))))).).))))).. ( -18.84)
>DroEre_CAF1 66744 114 + 1
UGCA------UAUAUCCGCUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAACUACAUGUCCUUCUGAAUAAAAAACAAUUUGCAUUAUACUAGUGUCUCUUGUCAAGCGCAUUUA
....------.(((((((....)))))))......(((((.(.((((((.((((.((.....))..))))................((((((...))))))...)))))).).))))).. ( -19.10)
>DroYak_CAF1 54356 120 + 1
UACACACGAGUAUAUCCACUCCCGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAACUACAUUUCCUUCUGAAUAAAAAACCAUUUGCAUUACACUAGUGUCUCUUGUCAAGCGCAUUUA
.........(.((((((......))))))).....(((((.(.((((((.(((..((((...........((((........)))).........)))).))).)))))).).))))).. ( -18.85)
>consensus
UACA______UUUAUCCAUUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAGCUACAUUUCCUUCUGAAUAAAAAUCAAUUUGCAUAAUACUAGUGUCUCUUGUCAAGCGCAUUUA
............(((((......))))).......(((((.(.((((((.(((..((((..........(((((........)))))........)))).))).)))))).).))))).. (-18.43 = -18.03 +  -0.40) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 454,366 – 454,480
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.27
Mean single sequence MFE -29.38
Consensus MFE -24.54
Energy contribution -24.46
Covariance contribution -0.08
Combinations/Pair 1.07
Mean z-score -2.04
Structure conservation index 0.84
SVM decision value 1.86
SVM RNA-class probability 0.980454
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 454366 114 - 22224390
UAAAUGCGCUUGACAAGAGACACUAGUAUUAUGCAAAUUGAUUUUUAUUUAGAAGGAAAUGUAGCUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAAUGGAUAAA------UUUA
..(((((.(.((((((((((....(((....((((..((..(((((....)))))..))))))))).)))))))))).).))))).......((((((....))))))..------.... ( -27.50)
>DroSec_CAF1 56587 114 - 1
UAAAUGCGCUUGACAAGAGACACUAGUAUUAUGCAAAUUGAUUUUUAUUCAGAAGGAAAUGUAGCUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAAUGGAUAAA------UAUA
..(((((.(.((((((((((..(((.((((...(...((((.......))))...).)))))))...)))))))))).).))))).......((((((....))))))..------.... ( -28.40)
>DroSim_CAF1 35623 114 - 1
UAAAUGCGCUUGACAAGAGACACUAGUAUUAUGCAAAUUGAUUUUUAUUCAGAAGGAAAUGUAGCUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAAUGGAUAAA------UAUA
..(((((.(.((((((((((..(((.((((...(...((((.......))))...).)))))))...)))))))))).).))))).......((((((....))))))..------.... ( -28.40)
>DroEre_CAF1 66744 114 - 1
UAAAUGCGCUUGACAAGAGACACUAGUAUAAUGCAAAUUGUUUUUUAUUCAGAAGGACAUGUAGUUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAGCGGAUAUA------UGCA
..(((((.(.((((((((((.((((((.....))....((((((((.....))))))))..))))..)))))))))).).))))).((...((((((......)))))).------.)). ( -32.80)
>DroYak_CAF1 54356 120 - 1
UAAAUGCGCUUGACAAGAGACACUAGUGUAAUGCAAAUGGUUUUUUAUUCAGAAGGAAAUGUAGUUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCGGGAGUGGAUAUACUCGUGUGUA
..(((((.(.((((((((((.((((((.....)).....(((((((.......))))))).))))..)))))))))).).))))).......((..((.(((((....))))).))..)) ( -29.80)
>consensus
UAAAUGCGCUUGACAAGAGACACUAGUAUUAUGCAAAUUGAUUUUUAUUCAGAAGGAAAUGUAGCUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAAUGGAUAAA______UAUA
..(((((.(.((((((((((..(((((.....)).............(((....)))....)))...)))))))))).).))))).......((((((....))))))............ (-24.54 = -24.46 +  -0.08) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:34 2006