Locus 5985

Sequence ID 3R_DroMel_CAF1
Location 15,772,333 – 15,772,453
Length 120
Max. P 0.948760
window9773 window9774

overview

Window 3

Location 15,772,333 – 15,772,453
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -30.27
Consensus MFE -29.46
Energy contribution -28.80
Covariance contribution -0.66
Combinations/Pair 1.09
Mean z-score -2.24
Structure conservation index 0.97
SVM decision value 1.38
SVM RNA-class probability 0.948760
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15772333 120 + 27905053
UGUUUUCAUCUGAUUUGAUUUGGCUUUUGGCCAUUUGUUGGCCAGCACUGUUUUGUUGGUAUAUUCUCGCACUUUAAUCAAAAGAAAAAAAAAUGCUCUGGCUAAUCUGCUAAGCGUUUU
........(((..(((((((((((.....)))).......(((((((......)))))))...............))))))))))....((((((((.((((......)))))))))))) ( -29.60)
>DroSim_CAF1 29459 120 + 1
UGUUUUCAUCUGAUUUGAUUUGGCUUUCGGCCAUUUGUUGGCCAGCACUGUUUUGUUGGCAAAUUCUCGCACUUUAAUCAAAAGAAAAAAUAAUGCUCUGGCUAAUCUGCUAAGCGUUUU
((((((..(((..(((((((((((.....)))).......(((((((......)))))))...............)))))))))).))))))(((((.((((......)))))))))... ( -30.20)
>DroEre_CAF1 31918 120 + 1
UGUUUUCAUCUGAUUUGAUUUGGCUUUCAGCCAUUUGUUGGCCAGCACUGUUUUGUUGGUAAAUUCUUGCACUUUAAUCAAAAGGAAAAAUAACGCUCUGGCUAAUCUGCUAAGCGUUUU
((((((..(((..(((((((((((.....)))).......(((((((......)))))))...............))))))).)))))))))(((((.((((......)))))))))... ( -31.00)
>consensus
UGUUUUCAUCUGAUUUGAUUUGGCUUUCGGCCAUUUGUUGGCCAGCACUGUUUUGUUGGUAAAUUCUCGCACUUUAAUCAAAAGAAAAAAUAAUGCUCUGGCUAAUCUGCUAAGCGUUUU
..(((((...(((((.(((.((((.....))))...))).(((((((......)))))))...............)))))...)))))...((((((.((((......)))))))))).. (-29.46 = -28.80 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,772,333 – 15,772,453
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -25.30
Consensus MFE -22.57
Energy contribution -22.68
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.11
Structure conservation index 0.89
SVM decision value 0.48
SVM RNA-class probability 0.754450
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15772333 120 - 27905053
AAAACGCUUAGCAGAUUAGCCAGAGCAUUUUUUUUUCUUUUGAUUAAAGUGCGAGAAUAUACCAACAAAACAGUGCUGGCCAACAAAUGGCCAAAAGCCAAAUCAAAUCAGAUGAAAACA
.....((((.((......))..))))......(((((.(((((((..((..(....................)..))(((((.....))))).............))))))).))))).. ( -24.85)
>DroSim_CAF1 29459 120 - 1
AAAACGCUUAGCAGAUUAGCCAGAGCAUUAUUUUUUCUUUUGAUUAAAGUGCGAGAAUUUGCCAACAAAACAGUGCUGGCCAACAAAUGGCCGAAAGCCAAAUCAAAUCAGAUGAAAACA
.....((((.((......))..))))......(((((.(((((((..((..(.....((((....))))...)..))(((((.....))))).............))))))).))))).. ( -26.40)
>DroEre_CAF1 31918 120 - 1
AAAACGCUUAGCAGAUUAGCCAGAGCGUUAUUUUUCCUUUUGAUUAAAGUGCAAGAAUUUACCAACAAAACAGUGCUGGCCAACAAAUGGCUGAAAGCCAAAUCAAAUCAGAUGAAAACA
..(((((((.((......))..)))))))..(((((..(((((((..((..(....................)..))(((((.....))))).............))))))).))))).. ( -24.65)
>consensus
AAAACGCUUAGCAGAUUAGCCAGAGCAUUAUUUUUUCUUUUGAUUAAAGUGCGAGAAUUUACCAACAAAACAGUGCUGGCCAACAAAUGGCCGAAAGCCAAAUCAAAUCAGAUGAAAACA
.....((((.((......))..))))......(((((.(((((((..((..(....................)..))(((((.....))))).............))))))).))))).. (-22.57 = -22.68 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:49 2006