Locus 9793

Sequence ID 3R_DroMel_CAF1
Location 26,009,840 – 26,009,935
Length 95
Max. P 0.956053
window15637 window15638

overview

Window 7

Location 26,009,840 – 26,009,935
Length 95
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 80.48
Mean single sequence MFE -30.03
Consensus MFE -18.70
Energy contribution -18.90
Covariance contribution 0.20
Combinations/Pair 1.08
Mean z-score -2.04
Structure conservation index 0.62
SVM decision value 0.61
SVM RNA-class probability 0.800304
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26009840 95 + 27905053
AAGAUCGGCGUACGUGCCGAGUGCACGUAGGCCAUGCCAAGUGGAGGGAGUCAAGGG------GCAGGUGGGGAAGUUAGUUAAUUGAUUAGGGAACUAUG
..(((((((.(((((((.....))))))).))).((((...(((......)))...)------)))....................))))((....))... ( -29.10)
>DroSec_CAF1 3745 95 + 1
AAGAUCGGCGUACGUGCCGAGUGCACGUAGGCCAUGCCAAGUGGAGGGAGUCGAGGG------GCAGGUGGGGAAGUUAGUUAAUUGAUUAGGGAACUAUG
..(((((((.(((((((.....))))))).))).((((...(((......)))...)------)))....................))))((....))... ( -28.40)
>DroSim_CAF1 3852 95 + 1
AAGAUCGGCGUACGUGCCGAGUGCACGUAGGCCAUGCCAAGUGGAGGGUGUCAAGGG------GCAGGUGGGGAAGUUAGUUAAUUGAUUAGGGAACUAUG
..(((((((.(((((((.....))))))).))).((((...(((......)))...)------)))....................))))((....))... ( -29.10)
>DroEre_CAF1 3955 95 + 1
GAGAUCGGUGUACGUGCCGCGUGCACGUAGGCCAGGCCAAGUGGAGGAUCUUGGGGG------CUAGGCGGGGAAGUUAGUUAAUUGAUUAGGGAACUAUG
(((((((((.(((((((.....))))))).)))...((....))..))))))...((------((((.(......))))))).......(((....))).. ( -29.50)
>DroYak_CAF1 3819 101 + 1
AAGAUCGGCGUACGUGCCGAGUGCACGUAGGCCAGACCAAGUGGAGGAUCCCAGGGGGGGAUCUCAGGUGGGGAAGUUAGUUAAUUGAUUAGGGAACUAUG
..(((((((.(((((((.....))))))).)))...(((..((..(((((((.....)))))))))..)))...............))))((....))... ( -37.30)
>DroAna_CAF1 4310 84 + 1
------GGCGUACGUGCCAAGUGCACGUAGGCCUCGUCAGAUUCUUGGAGCUCAGGG------GCAAGUGGUGGAG-----CAAUCAAUUAAGGAACAAUU
------(((.(((((((.....))))))).)))......(.(((((((.(((....)------))...((((....-----..)))).))))))).).... ( -26.80)
>consensus
AAGAUCGGCGUACGUGCCGAGUGCACGUAGGCCAUGCCAAGUGGAGGGAGUCAAGGG______GCAGGUGGGGAAGUUAGUUAAUUGAUUAGGGAACUAUG
......(((.(((((((.....))))))).)))........................................................(((....))).. (-18.70 = -18.90 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 26,009,840 – 26,009,935
Length 95
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 80.48
Mean single sequence MFE -22.64
Consensus MFE -15.62
Energy contribution -15.78
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.98
Structure conservation index 0.69
SVM decision value 1.46
SVM RNA-class probability 0.956053
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26009840 95 - 27905053
CAUAGUUCCCUAAUCAAUUAACUAACUUCCCCACCUGC------CCCUUGACUCCCUCCACUUGGCAUGGCCUACGUGCACUCGGCACGUACGCCGAUCUU
............(((....................(((------(...((........))...)))).(((.(((((((.....))))))).))))))... ( -21.80)
>DroSec_CAF1 3745 95 - 1
CAUAGUUCCCUAAUCAAUUAACUAACUUCCCCACCUGC------CCCUCGACUCCCUCCACUUGGCAUGGCCUACGUGCACUCGGCACGUACGCCGAUCUU
............(((....................(((------(....((.....)).....)))).(((.(((((((.....))))))).))))))... ( -20.60)
>DroSim_CAF1 3852 95 - 1
CAUAGUUCCCUAAUCAAUUAACUAACUUCCCCACCUGC------CCCUUGACACCCUCCACUUGGCAUGGCCUACGUGCACUCGGCACGUACGCCGAUCUU
............(((....................(((------(...((........))...)))).(((.(((((((.....))))))).))))))... ( -21.80)
>DroEre_CAF1 3955 95 - 1
CAUAGUUCCCUAAUCAAUUAACUAACUUCCCCGCCUAG------CCCCCAAGAUCCUCCACUUGGCCUGGCCUACGUGCACGCGGCACGUACACCGAUCUC
............(((.................(((.((------...(((((........))))).))))).(((((((.....)))))))....)))... ( -19.70)
>DroYak_CAF1 3819 101 - 1
CAUAGUUCCCUAAUCAAUUAACUAACUUCCCCACCUGAGAUCCCCCCCUGGGAUCCUCCACUUGGUCUGGCCUACGUGCACUCGGCACGUACGCCGAUCUU
..(((((............)))))............((((((((.....))))).))).....((((.(((.(((((((.....))))))).))))))).. ( -29.70)
>DroAna_CAF1 4310 84 - 1
AAUUGUUCCUUAAUUGAUUG-----CUCCACCACUUGC------CCCUGAGCUCCAAGAAUCUGACGAGGCCUACGUGCACUUGGCACGUACGCC------
..(((((......(((...(-----(((..........------....))))..)))......)))))(((.(((((((.....))))))).)))------ ( -22.24)
>consensus
CAUAGUUCCCUAAUCAAUUAACUAACUUCCCCACCUGC______CCCUUGACACCCUCCACUUGGCAUGGCCUACGUGCACUCGGCACGUACGCCGAUCUU
....................................................................(((.(((((((.....))))))).)))...... (-15.62 = -15.78 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:42:16 2006