Locus 2645

Sequence ID 2L_DroMel_CAF1
Location 7,401,931 – 7,402,028
Length 97
Max. P 0.953518
window4210 window4211

overview

Window 0

Location 7,401,931 – 7,402,028
Length 97
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 76.87
Mean single sequence MFE -32.40
Consensus MFE -17.99
Energy contribution -18.80
Covariance contribution 0.81
Combinations/Pair 1.22
Mean z-score -2.13
Structure conservation index 0.56
SVM decision value 1.15
SVM RNA-class probability 0.923053
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7401931 97 + 22407834
UAAACAGUUUGGCCUGGUC-AGGUCUGGAUUUGUUUUGGGUUUGGUCGGUAUCGGUGUGUGUCUGAGCAUGCUUUUGGAGCAUGCU---------------GCGGUUCCCAGA
.......(((((.(((..(-((..(..((.....))..)..)))..))).............((((((((((((...)))))))))---------------.)))...))))) ( -30.90)
>DroSec_CAF1 13836 97 + 1
UAAACAGUUUGGCCUGGUC-AGGUCUGGAUUUGUUUUGGGUUUGGUUGGUAUCGGUGUUUGUCUGAGCAUGCUUUUGGAGCAUGCU---------------GCGGUUCCCAGA
.((((((((..((((....-))).)..)).))))))((((..(.((.....((((.......))))((((((((...)))))))).---------------)).)..)))).. ( -30.20)
>DroSim_CAF1 13942 97 + 1
UAAACAGUUUGGCCUGGUC-AGGUCUGGAUUUGUUUUGGGUUUGGUUGGUAUCGGUGUUUGUCUGAGCAUGCUUUUGGAGCAUGCU---------------GCGGUUCCCAGA
.((((((((..((((....-))).)..)).))))))((((..(.((.....((((.......))))((((((((...)))))))).---------------)).)..)))).. ( -30.20)
>DroEre_CAF1 14339 97 + 1
UAAACAGUUUGGCCUGGUC-AGGUCUCUAUUUGUUUUGGGUUUGGACGGUAUCGGUGUUUGUCUGAGCAUGCUUUUGGAGCAUGCU---------------GCGCUUCCCAGA
.((((((...(((((....-))))).....))))))((((.(..(((((.........)))))..)((((((((...)))))))).---------------......)))).. ( -30.10)
>DroAna_CAF1 16485 112 + 1
UAAACAGUUUGGCCUGGUC-AGGUCUGGAUUUGUUUUGGGUCUGGCUAGUGGCUUUGUACAUUGGAGCAUGCUUUCGAAGCAUGCUUUCAAAGCAUGCCUUGGGGUAACCAGA
..........(((((((((-((..(..((.....))..)..))))))))..((((((......((((((((((.....))))))))))))))))..)))((((.....)))). ( -45.00)
>DroPer_CAF1 14608 83 + 1
UAAACAAUUUGGCCAGGUCUAGGCCU-----------CGGUCUGGCU---GCCUGUCUGCGUCUGAGCAUGCAUUUGGGGCAUGUU----------------CUAUACACCAA
........((((.(((((((((((..-----------..))))))..---))))).....((..((((((((.......)))))))----------------)...)).)))) ( -28.00)
>consensus
UAAACAGUUUGGCCUGGUC_AGGUCUGGAUUUGUUUUGGGUUUGGUUGGUAUCGGUGUUUGUCUGAGCAUGCUUUUGGAGCAUGCU_______________GCGGUUCCCAGA
..........(((((.....))))).........((((((...(((....)))............(((((((((...))))))))).....................)))))) (-17.99 = -18.80 +   0.81)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,401,931 – 7,402,028
Length 97
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 76.87
Mean single sequence MFE -22.04
Consensus MFE -11.73
Energy contribution -11.82
Covariance contribution 0.09
Combinations/Pair 1.14
Mean z-score -2.35
Structure conservation index 0.53
SVM decision value 1.43
SVM RNA-class probability 0.953518
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7401931 97 - 22407834
UCUGGGAACCGC---------------AGCAUGCUCCAAAAGCAUGCUCAGACACACACCGAUACCGACCAAACCCAAAACAAAUCCAGACCU-GACCAGGCCAAACUGUUUA
((((((....(.---------------((((((((.....)))))))))..........((....)).................))))))...-...(((......))).... ( -20.70)
>DroSec_CAF1 13836 97 - 1
UCUGGGAACCGC---------------AGCAUGCUCCAAAAGCAUGCUCAGACAAACACCGAUACCAACCAAACCCAAAACAAAUCCAGACCU-GACCAGGCCAAACUGUUUA
((((((....(.---------------((((((((.....)))))))))...........(....)..................))))))...-...(((......))).... ( -18.90)
>DroSim_CAF1 13942 97 - 1
UCUGGGAACCGC---------------AGCAUGCUCCAAAAGCAUGCUCAGACAAACACCGAUACCAACCAAACCCAAAACAAAUCCAGACCU-GACCAGGCCAAACUGUUUA
((((((....(.---------------((((((((.....)))))))))...........(....)..................))))))...-...(((......))).... ( -18.90)
>DroEre_CAF1 14339 97 - 1
UCUGGGAAGCGC---------------AGCAUGCUCCAAAAGCAUGCUCAGACAAACACCGAUACCGUCCAAACCCAAAACAAAUAGAGACCU-GACCAGGCCAAACUGUUUA
..((((....(.---------------((((((((.....))))))))).(((.............)))....))))....((((((.(.(((-....))).)...)))))). ( -22.62)
>DroAna_CAF1 16485 112 - 1
UCUGGUUACCCCAAGGCAUGCUUUGAAAGCAUGCUUCGAAAGCAUGCUCCAAUGUACAAAGCCACUAGCCAGACCCAAAACAAAUCCAGACCU-GACCAGGCCAAACUGUUUA
((((((((......(((.(((.(((..((((((((.....)))))))).))).)))....)))..))))))))....(((((......(.(((-....)))).....))))). ( -28.70)
>DroPer_CAF1 14608 83 - 1
UUGGUGUAUAG----------------AACAUGCCCCAAAUGCAUGCUCAGACGCAGACAGGC---AGCCAGACCG-----------AGGCCUAGACCUGGCCAAAUUGUUUA
...((((...(----------------(.(((((.......))))).))..))))((((((..---.(((((..(.-----------.......)..)))))....)))))). ( -22.40)
>consensus
UCUGGGAACCGC_______________AGCAUGCUCCAAAAGCAUGCUCAGACAAACACCGAUACCAACCAAACCCAAAACAAAUCCAGACCU_GACCAGGCCAAACUGUUUA
(((((......................((((((((.....))))))))............(........)..........................)))))............ (-11.73 = -11.82 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:41 2006