Locus 252

Sequence ID X_DroMel_CAF1
Location 851,343 – 851,477
Length 134
Max. P 0.972564
window380 window381 window382

overview

Window 0

Location 851,343 – 851,438
Length 95
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 82.65
Mean single sequence MFE -24.75
Consensus MFE -12.83
Energy contribution -13.63
Covariance contribution 0.80
Combinations/Pair 1.18
Mean z-score -2.28
Structure conservation index 0.52
SVM decision value 0.21
SVM RNA-class probability 0.636002
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 851343 95 + 22224390
----GCUUUUC-AUGGGUCCAACCGGCGGUGCAUGUAUCUAUGUAUGUAUAUACUU-UUACACAGAUAUUUGCUGGGUGAACAUAAAAAGCCGUUUUUCUA
----((((((.-(((..((...(((((((.....((((((.((((.((....))..-.)))).)))))))))))))..)).))).)))))).......... ( -24.90)
>DroSec_CAF1 54121 93 + 1
----GCUUUUCAUCGGGUCCACCCAGCAGUACAUGUAUAU----ACCUAUAUACUUUUUACACAGAUAUGUGCUGGGUGCACAUAAAAAGCCGUUUUUCUA
----((((((......((.((((((((.(((...((((((----....))))))....)))(((....))))))))))).))...)))))).......... ( -27.10)
>DroSim_CAF1 50323 92 + 1
----GCUUUUGCAUGGGUCCACCCAGCGGUACAUGUAUAU----ACCUAUAUACUU-UUACACAGAUAUGUGCUGGGUGCACAUAAAAAGCCGUUUUUCUA
----((((((..(((....((((((((.(((...((((((----....))))))..-.)))(((....)))))))))))..))).)))))).......... ( -29.20)
>DroEre_CAF1 54072 91 + 1
CAAGGAUAG-CAGUGGGCCCACCCUGCGCUAUAUGUAU--------CUAUAUACUU-UUACACAGAUAUGUGCUGGGUGCACAUAAAAAGCCGUUUUUCUA
..((((..(-(((.((.....))))))(((...((((.--------..........-.))))....(((((((.....)))))))...))).....)))). ( -22.20)
>DroYak_CAF1 51858 87 + 1
----GAUAG-CAGCGGGUUCACCCUGCGGUACAUGCAU--------CUAUAUACUU-UUACACAGAUAUGUGCUGGGUGCACAUAAAAAGCCGUUUUUCUA
----....(-(((.((.....))))))(((.......(--------((........-......)))(((((((.....)))))))....)))......... ( -20.34)
>consensus
____GCUUUUCAAUGGGUCCACCCAGCGGUACAUGUAU_U____A_CUAUAUACUU_UUACACAGAUAUGUGCUGGGUGCACAUAAAAAGCCGUUUUUCUA
................((.((((((((((((..(((.........................)))..))).))))))))).))................... (-12.83 = -13.63 +   0.80)

alignment

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secondary structure

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dotplot

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Window 1

Location 851,343 – 851,438
Length 95
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 82.65
Mean single sequence MFE -27.86
Consensus MFE -14.50
Energy contribution -15.62
Covariance contribution 1.12
Combinations/Pair 1.05
Mean z-score -3.30
Structure conservation index 0.52
SVM decision value 1.70
SVM RNA-class probability 0.972564
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 851343 95 - 22224390
UAGAAAAACGGCUUUUUAUGUUCACCCAGCAAAUAUCUGUGUAA-AAGUAUAUACAUACAUAGAUACAUGCACCGCCGGUUGGACCCAU-GAAAAGC----
..........((((((((((.....((((((..((((((((((.-..((....)).))))))))))..)))(((...))))))...)))-)))))))---- ( -24.90)
>DroSec_CAF1 54121 93 - 1
UAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAAAAAGUAUAUAGGU----AUAUACAUGUACUGCUGGGUGGACCCGAUGAAAAGC----
..........(((((((((((.(((((((((.(((((((((((.....)))))))))----)).((....)).))))))))).))...)))))))))---- ( -33.40)
>DroSim_CAF1 50323 92 - 1
UAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAA-AAGUAUAUAGGU----AUAUACAUGUACCGCUGGGUGGACCCAUGCAAAAGC----
..........(((((((((((.((((((((.......((((((.-...))))))(((----(((....)))))))))))))).))..))).))))))---- ( -30.60)
>DroEre_CAF1 54072 91 - 1
UAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAA-AAGUAUAUAG--------AUACAUAUAGCGCAGGGUGGGCCCACUG-CUAUCCUUG
.........((.......(((((.....)))))((((((((((.-...)))))))--------)))...((((((..(((....)))..))-))))))... ( -24.40)
>DroYak_CAF1 51858 87 - 1
UAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAA-AAGUAUAUAG--------AUGCAUGUACCGCAGGGUGAACCCGCUG-CUAUC----
........((((....(((((((.....)))))))((((((((.-...)))))))--------)(((.......)))(((....)))))))-.....---- ( -26.00)
>consensus
UAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAA_AAGUAUAUAG_U____A_AUACAUGUACCGCAGGGUGGACCCACUGAAAAGC____
.........(((....(((((((.....))))))).(((((((.....)))))))...................)))(((....))).............. (-14.50 = -15.62 +   1.12)

alignment

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secondary structure

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dotplot

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Window 2

Location 851,378 – 851,477
Length 99
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 93.80
Mean single sequence MFE -19.64
Consensus MFE -16.80
Energy contribution -17.20
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.86
SVM decision value 0.82
SVM RNA-class probability 0.860003
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 851378 99 - 22224390
CACAACGCAACUGUAGCACACACCGAAAUGCAGCUGACAUAGAAAAACGGCUUUUUAUGUUCACCCAGCAAAUAUCUGUGUAA-AAGUAUAUACAUACAU
....(((((..(((.(((..........))).(((((((((((((......))))))))).....))))..)))..)))))..-..((((....)))).. ( -17.40)
>DroSec_CAF1 54157 96 - 1
CUCAUCACAACUGUAGCACACACCGAAAUGCAGCUGACAUAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAAAAAGUAUAUAGGU----
..........((((((((..........))).(((.(((((((............(((((((.....))))))))))))))....))).)))))..---- ( -20.40)
>DroSim_CAF1 50359 95 - 1
CUCAUCACAACUGUAGCACACACCGAAAUGCAGCUGACAUAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAA-AAGUAUAUAGGU----
..........((((((((..........))).(((.(((((((............(((((((.....))))))))))))))..-.))).)))))..---- ( -21.00)
>DroEre_CAF1 54109 93 - 1
CUCAUCGCAACUGUAGCACACACCGAAAUGCAGCUGACAUAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAA-AAGUAUAUAG------
..........((((((((..........))).(((.(((((((............(((((((.....))))))))))))))..-.))).)))))------ ( -19.70)
>DroYak_CAF1 51891 93 - 1
CUCAUCGCAACUGUAGCACACACCGAAAUGCAGCUGACAUAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAA-AAGUAUAUAG------
..........((((((((..........))).(((.(((((((............(((((((.....))))))))))))))..-.))).)))))------ ( -19.70)
>consensus
CUCAUCGCAACUGUAGCACACACCGAAAUGCAGCUGACAUAGAAAAACGGCUUUUUAUGUGCACCCAGCACAUAUCUGUGUAA_AAGUAUAUAG_U____
..........(((((..((((((.((.(((..(((((((((((((......))))))))).....)))).))).)).)))).....)).)))))...... (-16.80 = -17.20 +   0.40)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:02 2006