Locus 8699

Sequence ID 3L_DroMel_CAF1
Location 22,569,445 – 22,569,540
Length 95
Max. P 0.939219
window14255 window14256

overview

Window 5

Location 22,569,445 – 22,569,540
Length 95
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 97.19
Mean single sequence MFE -18.53
Consensus MFE -18.71
Energy contribution -18.60
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.64
Structure conservation index 1.01
SVM decision value 0.60
SVM RNA-class probability 0.795677
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22569445 95 + 23771897
UUGUACACUAUGGAGUUGUGUGUUUUACGCUUUUUGUCAACAUUUUGUUUUCAGAUACUUUUGUGGACUUUUUCACAGCAUUCGCUGCUGCCUUU
..((.(((...(((((.(((((...)))))..((((..(((.....)))..)))).))))).))).)).......(((((.....)))))..... ( -15.80)
>DroSec_CAF1 25449 95 + 1
UUGUACACUAUGAAGUUGUGUGUUUUACGCUUUUUGUCAACAUUUUGUUUUCAGAUGCUUUUGUGUACUUUUUCACAGCAUUCGCCGCUGCCUUU
..((((((...(((((.(((((...)))))..((((..(((.....)))..)))).))))).)))))).......((((.......))))..... ( -19.90)
>DroSim_CAF1 23949 95 + 1
UUGUACACUAUGAAGUUGUGUGUUUUACGCUUUUUGUCAACAUUUUGUUUUCAGAUGCUUUUGUGUACUUUUUCACAGCAUUCGCCGCUGCCUUU
..((((((...(((((.(((((...)))))..((((..(((.....)))..)))).))))).)))))).......((((.......))))..... ( -19.90)
>consensus
UUGUACACUAUGAAGUUGUGUGUUUUACGCUUUUUGUCAACAUUUUGUUUUCAGAUGCUUUUGUGUACUUUUUCACAGCAUUCGCCGCUGCCUUU
..((((((...(((((.(((((...)))))..((((..(((.....)))..)))).))))).)))))).......((((.......))))..... (-18.71 = -18.60 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 22,569,445 – 22,569,540
Length 95
Sequences 3
Columns 95
Reading direction reverse
Mean pairwise identity 97.19
Mean single sequence MFE -16.47
Consensus MFE -16.41
Energy contribution -16.30
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -2.10
Structure conservation index 1.00
SVM decision value 1.28
SVM RNA-class probability 0.939219
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22569445 95 - 23771897
AAAGGCAGCAGCGAAUGCUGUGAAAAAGUCCACAAAAGUAUCUGAAAACAAAAUGUUGACAAAAAGCGUAAAACACACAACUCCAUAGUGUACAA
....((.(((((....)))))......(((.(((...((........))....))).))).....)).......((((.........)))).... ( -14.00)
>DroSec_CAF1 25449 95 - 1
AAAGGCAGCGGCGAAUGCUGUGAAAAAGUACACAAAAGCAUCUGAAAACAAAAUGUUGACAAAAAGCGUAAAACACACAACUUCAUAGUGUACAA
....((((((.....))))))......((((((....((...((..(((.....)))..))....))((.....))...........)))))).. ( -17.70)
>DroSim_CAF1 23949 95 - 1
AAAGGCAGCGGCGAAUGCUGUGAAAAAGUACACAAAAGCAUCUGAAAACAAAAUGUUGACAAAAAGCGUAAAACACACAACUUCAUAGUGUACAA
....((((((.....))))))......((((((....((...((..(((.....)))..))....))((.....))...........)))))).. ( -17.70)
>consensus
AAAGGCAGCGGCGAAUGCUGUGAAAAAGUACACAAAAGCAUCUGAAAACAAAAUGUUGACAAAAAGCGUAAAACACACAACUUCAUAGUGUACAA
....((((((.....))))))......((((((....((...((..(((.....)))..))....))((.....))...........)))))).. (-16.41 = -16.30 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:36 2006