Locus 3187

Sequence ID 3R_DroMel_CAF1
Location 8,459,943 – 8,460,143
Length 200
Max. P 0.988772
window5162 window5163 window5164

overview

Window 2

Location 8,459,943 – 8,460,063
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.08
Mean single sequence MFE -38.54
Consensus MFE -34.60
Energy contribution -35.20
Covariance contribution 0.60
Combinations/Pair 1.15
Mean z-score -1.85
Structure conservation index 0.90
SVM decision value 2.13
SVM RNA-class probability 0.988772
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8459943 120 + 27905053
CUGAACAUUAACAUUUCCAGAGUGCGAUUCCUCUGAUUGCCGCCACGCUUCCAGCGGGAGUUUCUUCCCGCCAGCCCAAGCACUUCAUCCAGCUCACGGACAGCGGCAGGUUCAGACCAU
((((((...........(((((........))))).(((((((...((((...(((((((....)))))))......))))......(((.......)))..)))))))))))))..... ( -41.10)
>DroSec_CAF1 5846 120 + 1
CUGAACAUCAACACUUCCAGAGUGCGAUUCCUCUGAUUGCCGCCACGCUUCCGGCGGGAGUUUCUUCCCGGCAGCCCAAGCACUUCAUCCAGCUGACGGACAGCGGCAGGUUCAGACCAU
((((((...........(((((........))))).(((((((...(((.((((..((.....))..)))).)))((.(((..........)))...))...)))))))))))))..... ( -41.50)
>DroSim_CAF1 5904 120 + 1
UUGAACAUCAACACUUUCAGAGUGCGAUUCCUCUGAUUGCCGCCACGCUUCCGGCGGGAGUUUCUUCCCGGCAGCCCAAGCACUUCAUCCAGCUGACGGACAGCGGCAGGUUCAGACCAU
((((((..........((((((........))))))(((((((...(((.((((..((.....))..)))).)))((.(((..........)))...))...)))))))))))))..... ( -40.50)
>DroEre_CAF1 6001 120 + 1
CUAAGCAUCAACAUUUCCAGAGUGCUAUUCCUCUGAUUGCUGCCACCCUUCCGGCGGGAGUUUCUUCCCGCCAGCCAAAGCACUUCAUCCAGCUCACGGACAGCGGCAGGUUCAGCCUGU
.................(((((........)))))..(((((((........((((((((....)))))))).((....))................)).)))))(((((.....))))) ( -37.90)
>DroYak_CAF1 5962 120 + 1
CUGAACAUUAACAUUUCCAGAGUGCAAUUCCACUGAUUGUCGCCACGCUUCCGGCGGGAGUUUCUUCUCGCCAGCCAAAGCACUUCAUCCAGCUCUCGGACAGCGGCAGAUUCAGCUUGU
(((((...............((((......))))..(((((((...(((((.((((((((....)))))))).)...))))......(((.......)))..))))))).)))))..... ( -31.70)
>consensus
CUGAACAUCAACAUUUCCAGAGUGCGAUUCCUCUGAUUGCCGCCACGCUUCCGGCGGGAGUUUCUUCCCGCCAGCCCAAGCACUUCAUCCAGCUCACGGACAGCGGCAGGUUCAGACCAU
((((((...........(((((........))))).(((((((...(((((.((((((((....)))))))).)...))))......(((.......)))..)))))))))))))..... (-34.60 = -35.20 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 8,459,943 – 8,460,063
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.08
Mean single sequence MFE -45.12
Consensus MFE -40.32
Energy contribution -41.12
Covariance contribution 0.80
Combinations/Pair 1.14
Mean z-score -1.55
Structure conservation index 0.89
SVM decision value 1.22
SVM RNA-class probability 0.932462
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8459943 120 - 27905053
AUGGUCUGAACCUGCCGCUGUCCGUGAGCUGGAUGAAGUGCUUGGGCUGGCGGGAAGAAACUCCCGCUGGAAGCGUGGCGGCAAUCAGAGGAAUCGCACUCUGGAAAUGUUAAUGUUCAG
.....((((((.((((((((((((.....))))).....((((...(..((((((......))))))..)))))..))))))).((((((........))))))..........)))))) ( -48.60)
>DroSec_CAF1 5846 120 - 1
AUGGUCUGAACCUGCCGCUGUCCGUCAGCUGGAUGAAGUGCUUGGGCUGCCGGGAAGAAACUCCCGCCGGAAGCGUGGCGGCAAUCAGAGGAAUCGCACUCUGGAAGUGUUGAUGUUCAG
.....(((((((((((((..((((.(((((.((........)).))))).(((((......))))).))))...)))))))...((((((........))))))..........)))))) ( -44.70)
>DroSim_CAF1 5904 120 - 1
AUGGUCUGAACCUGCCGCUGUCCGUCAGCUGGAUGAAGUGCUUGGGCUGCCGGGAAGAAACUCCCGCCGGAAGCGUGGCGGCAAUCAGAGGAAUCGCACUCUGAAAGUGUUGAUGUUCAA
......((((((((((((..((((.(((((.((........)).))))).(((((......))))).))))...)))))))...((((((........))))))..........))))). ( -43.80)
>DroEre_CAF1 6001 120 - 1
ACAGGCUGAACCUGCCGCUGUCCGUGAGCUGGAUGAAGUGCUUUGGCUGGCGGGAAGAAACUCCCGCCGGAAGGGUGGCAGCAAUCAGAGGAAUAGCACUCUGGAAAUGUUGAUGCUUAG
..(((((.(((((((((((.(((...(((..((........))..)))(((((((......))))))))))..))))))))...((((((........))))))....))).).)))).. ( -51.10)
>DroYak_CAF1 5962 120 - 1
ACAAGCUGAAUCUGCCGCUGUCCGAGAGCUGGAUGAAGUGCUUUGGCUGGCGAGAAGAAACUCCCGCCGGAAGCGUGGCGACAAUCAGUGGAAUUGCACUCUGGAAAUGUUAAUGUUCAG
.....((((((..(((((.(((((.....))))).....((((((((.((.(((......)))))))).))))))))))((((.((((.(........).))))...))))...)))))) ( -37.40)
>consensus
AUGGUCUGAACCUGCCGCUGUCCGUGAGCUGGAUGAAGUGCUUGGGCUGGCGGGAAGAAACUCCCGCCGGAAGCGUGGCGGCAAUCAGAGGAAUCGCACUCUGGAAAUGUUGAUGUUCAG
.....(((((((((((((.(((((.....))))).....((((...(((((((((......))))))))))))))))))))...((((((........))))))..........)))))) (-40.32 = -41.12 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 8,460,023 – 8,460,143
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.00
Mean single sequence MFE -31.40
Consensus MFE -24.89
Energy contribution -25.53
Covariance contribution 0.64
Combinations/Pair 1.15
Mean z-score -1.46
Structure conservation index 0.79
SVM decision value 0.12
SVM RNA-class probability 0.593327
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8460023 120 + 27905053
CACUUCAUCCAGCUCACGGACAGCGGCAGGUUCAGACCAUUCGAUUUCGGGAUCCUGAGGAACUUGAUCAACUACAGGAGCCUCACACCUCCCGACUACCCGCUACAUAACGUCCGCCCC
................((((((((((..(((....)))........((((((...(((((..((((........))))..)))))....))))))....))))).......))))).... ( -35.71)
>DroSec_CAF1 5926 120 + 1
CACUUCAUCCAGCUGACGGACAGCGGCAGGUUCAGACCAUUCGAUUUCGGGAUCCUGAGGAACUUGAUCAACUACAGGAGCCUCACACCUCCCGACUACCCGCUGCAUAACGUCCGCCCU
...........((.((((..((((((..(((....)))........((((((...(((((..((((........))))..)))))....))))))....)))))).....)))).))... ( -40.10)
>DroSim_CAF1 5984 120 + 1
CACUUCAUCCAGCUGACGGACAGCGGCAGGUUCAGACCAUUCGAUUUCGGGAUCCUAAAGAACUUGAUCAACUACAGGAGCCUCACACCUCCCGACUACCCGCUGCAUAACGUCCGCCCU
...........((.((((..(((((((((((((.((....))((((....)))).....)))))))........(.((((........)))).).....)))))).....)))).))... ( -30.60)
>DroEre_CAF1 6081 120 + 1
CACUUCAUCCAGCUCACGGACAGCGGCAGGUUCAGCCUGUUCGAUUUCGGUAUCCUAAAAAACUUGAUCUACUACAGGAGUCUUACACCCCCCGAUUACCCGCUACAUAAUGUCCACCCC
.................(((((((((((((.....))))...((((((.(((....................))).)))))).................)))).......)))))..... ( -21.86)
>DroYak_CAF1 6042 120 + 1
CACUUCAUCCAGCUCUCGGACAGCGGCAGAUUCAGCUUGUUCGAUUUCGGGAUCCUGAGAAACUUGAUCUACUACAGGAGGCUAACACCUCCCGAUUACCCGCUACAUAACGUCCGCCCC
................((((((((((.((((.(((...(((...((((((....))))))))))))))))....(.(((((......))))).).....))))).......))))).... ( -28.71)
>consensus
CACUUCAUCCAGCUCACGGACAGCGGCAGGUUCAGACCAUUCGAUUUCGGGAUCCUGAGGAACUUGAUCAACUACAGGAGCCUCACACCUCCCGACUACCCGCUACAUAACGUCCGCCCC
................((((((((((..((......))........((((((...(((((..((((........))))..)))))....))))))....))))).......))))).... (-24.89 = -25.53 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:13 2006