Locus 1157

Sequence ID 3L_DroMel_CAF1
Location 3,355,297 – 3,355,436
Length 139
Max. P 0.922509
window1800 window1801 window1802

overview

Window 0

Location 3,355,297 – 3,355,396
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.05
Mean single sequence MFE -45.80
Consensus MFE -26.40
Energy contribution -26.56
Covariance contribution 0.16
Combinations/Pair 1.31
Mean z-score -2.22
Structure conservation index 0.58
SVM decision value 1.15
SVM RNA-class probability 0.922509
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3355297 99 - 23771897
GGCGGUAGCAAUGGAGCUGGCGGGUUAGCUGCU---GCCCAGGCGGCGGCUGCGGGCGGUGGCAUGGGAGCCGGUG------GAGGAUCCGG---U---------GGCGGUAUGGGUGGA
..((.((((......)))).)).....((..((---((((.(((....)))..))))))..))......((((.((------(.....))).---)---------)))............ ( -42.40)
>DroSec_CAF1 22478 99 - 1
GGCGGUAGCAAUGGAGCUGGUGGGUUAGCUGCU---GCCCAGGCGGCGGCUGCGGGCGGAGGCAUGGGAUCCGGUG------GAGGAUCCGG---U---------GGCGGUAUGGGUGGA
..(.(((.(......(((.((.....(((((((---((....))))))))))).)))...(.(((.((((((....------..)))))).)---)---------).)).))).)..... ( -43.90)
>DroSim_CAF1 20166 99 - 1
GGCGGUAGCAAUGGCGCUGGUGGGUUAGCUGCU---GCCCAGGCGGCGGCUGCGGGCGGAGGCAUGGGAUCCGGUG------GAGGAUCCGG---U---------GGCGGUAUGGGUGGA
..(.(((.(.....((((.((.....(((((((---((....))))))))))).))))..(.(((.((((((....------..)))))).)---)---------).)).))).)..... ( -45.90)
>DroEre_CAF1 21051 105 - 1
GGCGGUAGCAAUGGAGCUGGCGGCGUAGCUGCU---GCACAGGCAGCGGCUGCGGGCGGCGGCAUGGGAGCUGGUGGAGGUGGAGGAUCCGG---U---------GGCGGUAUGGGUGGA
..(.(((.(......((((.((.((((((((((---((....))))))))))).).)).))))......((((.((((.........)))).---)---------)))).))).)..... ( -46.20)
>DroAna_CAF1 23177 114 - 1
GGUGGCAGUAACGGGGCUGGUGGAGCAGCUGGCGGAGCCCAGGCGGCAGCCGCUGGCGUUGGCCUGGGGCCGGGUG------UGGGCGGCAGUGGUGGCGGUUCGGGCAGUAUAGGUGGA
..(.((....((...((..((......))..))...((((..((.((.(((((((.((((.(((((....))))).------..)))).))))))).)).))..)))).))....)).). ( -50.60)
>consensus
GGCGGUAGCAAUGGAGCUGGUGGGUUAGCUGCU___GCCCAGGCGGCGGCUGCGGGCGGAGGCAUGGGAGCCGGUG______GAGGAUCCGG___U_________GGCGGUAUGGGUGGA
..((.((((......)))).)).....((((((....((((.((.((.((.....)).)).)).))))..((((..............)))).............))))))......... (-26.40 = -26.56 +   0.16) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 3,355,323 – 3,355,436
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.68
Mean single sequence MFE -51.53
Consensus MFE -36.86
Energy contribution -38.58
Covariance contribution 1.72
Combinations/Pair 1.16
Mean z-score -1.82
Structure conservation index 0.72
SVM decision value 0.37
SVM RNA-class probability 0.710526
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3355323 113 + 23771897
----CACCGGCUCCCAUGCCACCGCCCGCAGCCGCCGCCUGGGC---AGCAGCUAACCCGCCAGCUCCAUUGCUACCGCCAUUGGCUGCUCCGCCGUAGACGGGGAAGCCAGGCGGUGGC
----....(((......)))..........((((((((((((.(---.((((((((..((..(((......)))..))...))))))))(((.(((....)))))).))))))))))))) ( -56.50)
>DroSec_CAF1 22504 113 + 1
----CACCGGAUCCCAUGCCUCCGCCCGCAGCCGCCGCCUGGGC---AGCAGCUAACCCACCAGCUCCAUUGCUACCGCCAUUGGCUGCUCCGCCGUAGACGGGGAAGCCAGGCGGUGGC
----...((((.........))))......((((((((((((.(---.((((((((......(((......))).......))))))))(((.(((....)))))).))))))))))))) ( -51.72)
>DroSim_CAF1 20192 113 + 1
----CACCGGAUCCCAUGCCUCCGCCCGCAGCCGCCGCCUGGGC---AGCAGCUAACCCACCAGCGCCAUUGCUACCGCCAUUGGCUGCUCCGCCGUAGACGGGGAAGCCAGGCGGUGGC
----...((((.........))))......((((((((((((.(---.((((((((......((((....)))).......))))))))(((.(((....)))))).))))))))))))) ( -51.12)
>DroEre_CAF1 21079 117 + 1
CCUCCACCAGCUCCCAUGCCGCCGCCCGCAGCCGCUGCCUGUGC---AGCAGCUACGCCGCCAGCUCCAUUGCUACCGCCAUUGGCUGCGCCGCCGUAGACAGGGAAACCAGGUGGUGGC
.................(((((((((((((((((((((....))---)))......(.((..(((......)))..)).)...)))))))............((....)).))))))))) ( -49.40)
>DroAna_CAF1 23215 116 + 1
----CACCCGGCCCCAGGCCAACGCCAGCGGCUGCCGCCUGGGCUCCGCCAGCUGCUCCACCAGCCCCGUUACUGCCACCAUUGGAAGCUCCACCGUAAACGGGAAAACCUGGUGGCGGG
----..(((((((((((((....(((...)))....)))))))....))).((((......)))).........(((((((.(((.....)))(((....))).......)))))))))) ( -48.90)
>consensus
____CACCGGAUCCCAUGCCACCGCCCGCAGCCGCCGCCUGGGC___AGCAGCUAACCCACCAGCUCCAUUGCUACCGCCAUUGGCUGCUCCGCCGUAGACGGGGAAGCCAGGCGGUGGC
................(((........)))((((((((((((......((((((((......(((......))).......))))))))(((.(((....))))))..)))))))))))) (-36.86 = -38.58 +   1.72) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,355,323 – 3,355,436
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.68
Mean single sequence MFE -60.92
Consensus MFE -45.18
Energy contribution -45.30
Covariance contribution 0.12
Combinations/Pair 1.27
Mean z-score -1.65
Structure conservation index 0.74
SVM decision value 0.18
SVM RNA-class probability 0.619667
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3355323 113 - 23771897
GCCACCGCCUGGCUUCCCCGUCUACGGCGGAGCAGCCAAUGGCGGUAGCAAUGGAGCUGGCGGGUUAGCUGCU---GCCCAGGCGGCGGCUGCGGGCGGUGGCAUGGGAGCCGGUG----
(((((((((((.....((((((...(((......)))...(((..((....))..))))))))).((((((((---((....)))))))))))))))))))))((.(....).)).---- ( -63.10)
>DroSec_CAF1 22504 113 - 1
GCCACCGCCUGGCUUCCCCGUCUACGGCGGAGCAGCCAAUGGCGGUAGCAAUGGAGCUGGUGGGUUAGCUGCU---GCCCAGGCGGCGGCUGCGGGCGGAGGCAUGGGAUCCGGUG----
(((.((((((((((((.(((....))).)))))..(((..(((..((....))..)))..)))..((((((((---((....))))))))))))))))).)))((.(....).)).---- ( -58.20)
>DroSim_CAF1 20192 113 - 1
GCCACCGCCUGGCUUCCCCGUCUACGGCGGAGCAGCCAAUGGCGGUAGCAAUGGCGCUGGUGGGUUAGCUGCU---GCCCAGGCGGCGGCUGCGGGCGGAGGCAUGGGAUCCGGUG----
(((.((((((((((((.(((....))).)))))..(((..((((.((....)).))))..)))..((((((((---((....))))))))))))))))).)))((.(....).)).---- ( -61.90)
>DroEre_CAF1 21079 117 - 1
GCCACCACCUGGUUUCCCUGUCUACGGCGGCGCAGCCAAUGGCGGUAGCAAUGGAGCUGGCGGCGUAGCUGCU---GCACAGGCAGCGGCUGCGGGCGGCGGCAUGGGAGCUGGUGGAGG
.((.(((((.(((((((.((((..((.(..(((((((.(((.((.((((......)))).)).))).((((((---.....)))))))))))))).))..)))).)))))))))))).)) ( -64.90)
>DroAna_CAF1 23215 116 - 1
CCCGCCACCAGGUUUUCCCGUUUACGGUGGAGCUUCCAAUGGUGGCAGUAACGGGGCUGGUGGAGCAGCUGGCGGAGCCCAGGCGGCAGCCGCUGGCGUUGGCCUGGGGCCGGGUG----
(((((((((((((((..(((....)))..))))).....))))))).........((..((......))..))((..(((((((.(..(((...)))..).))))))).)))))..---- ( -56.50)
>consensus
GCCACCGCCUGGCUUCCCCGUCUACGGCGGAGCAGCCAAUGGCGGUAGCAAUGGAGCUGGUGGGUUAGCUGCU___GCCCAGGCGGCGGCUGCGGGCGGAGGCAUGGGAGCCGGUG____
(((.((((((....((((((....))).)))((((((.....((.((((......)))).)).....((((((........)))))))))))))))))).)))................. (-45.18 = -45.30 +   0.12) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:36 2006