Locus 5915

Sequence ID 3R_DroMel_CAF1
Location 15,567,739 – 15,567,875
Length 136
Max. P 0.999404
window9661 window9662 window9663 window9664

overview

Window 1

Location 15,567,739 – 15,567,844
Length 105
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 88.10
Mean single sequence MFE -36.89
Consensus MFE -34.98
Energy contribution -35.94
Covariance contribution 0.96
Combinations/Pair 1.11
Mean z-score -3.04
Structure conservation index 0.95
SVM decision value 3.57
SVM RNA-class probability 0.999404
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15567739 105 + 27905053
CAUCCAAUCUACUCUUCAGUCUGUGAAAAUGCAAUCAAGUCGCUGA------AGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUUAAAUCGCCGGCGACACCAAAGGAG
..(((.............(..(((......)))..)..((((((((------((((((((.((((((....)))))).))))))))).......)))))))......))). ( -39.31)
>DroSec_CAF1 92853 105 + 1
CAUCCAAUCUACUCUUCAGUCUGUGAAAAUGCAAUCAAGUCGCUGA------AGCUGCAGCUCCAGCUGCUGUUGCAUCUGCAGCUUAAAUCGCCGGCGACACCAAAGGAG
..(((.............(..(((......)))..)..((((((((------((((((((...((((....))))...))))))))).......)))))))......))). ( -32.91)
>DroSim_CAF1 86875 105 + 1
CAUCCAAUCUACUCUUCAGUCUGUGAAAAUGCAAUCAAGUCGCUGA------AGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUUAAAUCGCCGGCGACACCAAAGGAG
..(((.............(..(((......)))..)..((((((((------((((((((.((((((....)))))).))))))))).......)))))))......))). ( -39.31)
>DroEre_CAF1 82250 110 + 1
CAUCCAAUCUACUCUUCAGUCUGUGAAAAUGCAAUCAAGUCGCCGAGGCUGCAGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUCGAAUCGCCGGCGACACCA-AGGAG
..(((.............(..(((......)))..)..((((((..(((..(((((((((.((((((....)))))).)))))))).)....)))))))))....-.))). ( -43.60)
>DroYak_CAF1 91447 105 + 1
UAUCCAAUCUUCUCUUCAGUCUGUGAAAAUGCAAUCAAGUCGCUGA------AGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUCAAAUCGCCGGCGACACCAAAGGAG
..(((.............(..(((......)))..)..(((((((.------((((((((.((((((....)))))).))))))))........)))))))......))). ( -37.40)
>DroAna_CAF1 93739 92 + 1
CAUUCAAUCCGCUCUUCAGUCUGUGAAAAUGCAAUCAAGUCGCUGC------AGCUGCCACUGCGG------------GAGCAGCUUAAAUCGCCAGCGACACCAGUGGA-
.......((((((.....(..(((......)))..)..((((((((------((((((..(....)------------..))))))......).)))))))...))))))- ( -28.80)
>consensus
CAUCCAAUCUACUCUUCAGUCUGUGAAAAUGCAAUCAAGUCGCUGA______AGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUUAAAUCGCCGGCGACACCAAAGGAG
..(((.............(..(((......)))..)..(((((((.......((((((((.((((((....)))))).))))))))........)))))))......))). (-34.98 = -35.94 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,567,739 – 15,567,844
Length 105
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 88.10
Mean single sequence MFE -35.92
Consensus MFE -30.24
Energy contribution -30.99
Covariance contribution 0.75
Combinations/Pair 1.07
Mean z-score -1.58
Structure conservation index 0.84
SVM decision value -0.02
SVM RNA-class probability 0.522707
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15567739 105 - 27905053
CUCCUUUGGUGUCGCCGGCGAUUUAAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCU------UCAGCGACUUGAUUGCAUUUUCACAGACUGAAGAGUAGAUUGGAUG
.(((.(..(.(((((.(((......((((((((.(((....))).))))))))...)))------...))))))..)((((.((((((.....))))))))))...))).. ( -36.60)
>DroSec_CAF1 92853 105 - 1
CUCCUUUGGUGUCGCCGGCGAUUUAAGCUGCAGAUGCAACAGCAGCUGGAGCUGCAGCU------UCAGCGACUUGAUUGCAUUUUCACAGACUGAAGAGUAGAUUGGAUG
((.((((...(((((.(((.......)))))(((((((((((..((((((((....)))------)))))...))).)))))))).....)))...)))).))........ ( -34.50)
>DroSim_CAF1 86875 105 - 1
CUCCUUUGGUGUCGCCGGCGAUUUAAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCU------UCAGCGACUUGAUUGCAUUUUCACAGACUGAAGAGUAGAUUGGAUG
.(((.(..(.(((((.(((......((((((((.(((....))).))))))))...)))------...))))))..)((((.((((((.....))))))))))...))).. ( -36.60)
>DroEre_CAF1 82250 110 - 1
CUCCU-UGGUGUCGCCGGCGAUUCGAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCUGCAGCCUCGGCGACUUGAUUGCAUUUUCACAGACUGAAGAGUAGAUUGGAUG
.((((-..(.(((((((((......((((((((.(((....))).))))))))((....)).)))..)))))))..)((((.((((((.....))))))))))...))).. ( -43.20)
>DroYak_CAF1 91447 105 - 1
CUCCUUUGGUGUCGCCGGCGAUUUGAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCU------UCAGCGACUUGAUUGCAUUUUCACAGACUGAAGAGAAGAUUGGAUA
.(((......(((((.(((....((((((((((.(((....))).)))))))).)))))------...)))))..((((...((((((.....))))))...))))))).. ( -35.20)
>DroAna_CAF1 93739 92 - 1
-UCCACUGGUGUCGCUGGCGAUUUAAGCUGCUC------------CCGCAGUGGCAGCU------GCAGCGACUUGAUUGCAUUUUCACAGACUGAAGAGCGGAUUGAAUG
-(((......(((((((........((((((..------------(....)..))))))------.)))))))......((.((((((.....)))))))))))....... ( -29.40)
>consensus
CUCCUUUGGUGUCGCCGGCGAUUUAAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCU______UCAGCGACUUGAUUGCAUUUUCACAGACUGAAGAGUAGAUUGGAUG
..........(((((.((.......((((((((.((((........)))).))))))))......)).)))))(..(((...((((((.....))))))...)))..)... (-30.24 = -30.99 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,567,775 – 15,567,875
Length 100
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 85.82
Mean single sequence MFE -37.39
Consensus MFE -33.69
Energy contribution -34.79
Covariance contribution 1.10
Combinations/Pair 1.08
Mean z-score -3.46
Structure conservation index 0.90
SVM decision value 2.58
SVM RNA-class probability 0.995466
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15567775 100 + 27905053
AAGUCGCUGA------AGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUUAAAUCGCCGGCGACACCAAAGGAGAAGGCAGUGGCAACAAAAAGUGUCAAUUGAC
..((((((.(------((((((((.((((((....)))))).))))))))).....(((..(..(......)..)..)))))))))..........(((....))) ( -40.40)
>DroSec_CAF1 92889 100 + 1
AAGUCGCUGA------AGCUGCAGCUCCAGCUGCUGUUGCAUCUGCAGCUUAAAUCGCCGGCGACACCAAAGGAGAAGGCAAUGGCAACAAAAAGUGUCAAUUGAC
..((((((((------((((((((...((((....))))...))))))))).......)))))))............((((.((....)).....))))....... ( -33.61)
>DroSim_CAF1 86911 100 + 1
AAGUCGCUGA------AGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUUAAAUCGCCGGCGACACCAAAGGAGAAGGCAAUGGCAACAAAAAGUGUCAAUUGAC
..((((((((------((((((((.((((((....)))))).))))))))).......)))))))............((((.((....)).....))))....... ( -40.01)
>DroEre_CAF1 82286 105 + 1
AAGUCGCCGAGGCUGCAGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUCGAAUCGCCGGCGACACCA-AGGAGAAGGCAACGGCAACAAAAAGUGUCAAUUGAC
..((((.(((((((((((.((((((.((....)).)))))).))))))))....))).))))(((((..-.......(....)(....).....)))))....... ( -44.00)
>DroYak_CAF1 91483 100 + 1
AAGUCGCUGA------AGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUCAAAUCGCCGGCGACACCAAAGGAGAAGGCAACGGCAACAAAAAGUGUCAAUUGAC
..((((.(((------((((((((.((((((....)))))).))))))))....))).))))(((((..........(....)(....).....)))))....... ( -39.50)
>DroAna_CAF1 93775 79 + 1
AAGUCGCUGC------AGCUGCCACUGCGG------------GAGCAGCUUAAAUCGCCAGCGACACCAGUGGA---------GGCAACAAAAAGUGUCAAUUGAC
..((((((((------((((((..(....)------------..))))))......).)))))))..((((.((---------.((........)).)).)))).. ( -26.80)
>consensus
AAGUCGCUGA______AGCUGCAGCUGCAGCUGCUGUUGCAUCUGCAGCUUAAAUCGCCGGCGACACCAAAGGAGAAGGCAAUGGCAACAAAAAGUGUCAAUUGAC
..(((((((.......((((((((.((((((....)))))).))))))))........)))))))..................((((........))))....... (-33.69 = -34.79 +   1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,567,775 – 15,567,875
Length 100
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 85.82
Mean single sequence MFE -34.45
Consensus MFE -27.90
Energy contribution -28.79
Covariance contribution 0.89
Combinations/Pair 1.08
Mean z-score -2.24
Structure conservation index 0.81
SVM decision value 0.55
SVM RNA-class probability 0.779127
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15567775 100 - 27905053
GUCAAUUGACACUUUUUGUUGCCACUGCCUUCUCCUUUGGUGUCGCCGGCGAUUUAAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCU------UCAGCGACUU
(((....)))..........((((..(.......)..))))(((((.(((......((((((((.(((....))).))))))))...)))------...))))).. ( -33.60)
>DroSec_CAF1 92889 100 - 1
GUCAAUUGACACUUUUUGUUGCCAUUGCCUUCUCCUUUGGUGUCGCCGGCGAUUUAAGCUGCAGAUGCAACAGCAGCUGGAGCUGCAGCU------UCAGCGACUU
(((............(((((((....(((.........)))(((..((((.......))))..))))))))))..((((((((....)))------)))))))).. ( -32.90)
>DroSim_CAF1 86911 100 - 1
GUCAAUUGACACUUUUUGUUGCCAUUGCCUUCUCCUUUGGUGUCGCCGGCGAUUUAAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCU------UCAGCGACUU
(((....)))..........((((..(.......)..))))(((((.(((......((((((((.(((....))).))))))))...)))------...))))).. ( -34.40)
>DroEre_CAF1 82286 105 - 1
GUCAAUUGACACUUUUUGUUGCCGUUGCCUUCUCCU-UGGUGUCGCCGGCGAUUCGAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCUGCAGCCUCGGCGACUU
(((....))).......(((((((((((..(((.((-(((.((((....)))))))))....))).))))).((((((((....))))))))......)))))).. ( -44.40)
>DroYak_CAF1 91483 100 - 1
GUCAAUUGACACUUUUUGUUGCCGUUGCCUUCUCCUUUGGUGUCGCCGGCGAUUUGAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCU------UCAGCGACUU
(((....))).....((((((..(((((.............((((....))))...((((((((.(((....))).))))))))))))).------.))))))... ( -35.20)
>DroAna_CAF1 93775 79 - 1
GUCAAUUGACACUUUUUGUUGCC---------UCCACUGGUGUCGCUGGCGAUUUAAGCUGCUC------------CCGCAGUGGCAGCU------GCAGCGACUU
(((....)))..........(((---------......)))(((((((........((((((..------------(....)..))))))------.))))))).. ( -26.20)
>consensus
GUCAAUUGACACUUUUUGUUGCCAUUGCCUUCUCCUUUGGUGUCGCCGGCGAUUUAAGCUGCAGAUGCAACAGCAGCUGCAGCUGCAGCU______UCAGCGACUU
(((....)))..........((((.............))))(((((.((.......((((((((.((((........)))).))))))))......)).))))).. (-27.90 = -28.79 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:45 2006