Locus 6260

Sequence ID X_DroMel_CAF1
Location 15,926,506 – 15,926,664
Length 158
Max. P 0.819005
window10201 window10202

overview

Window 1

Location 15,926,506 – 15,926,624
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.28
Mean single sequence MFE -41.24
Consensus MFE -33.16
Energy contribution -32.96
Covariance contribution -0.20
Combinations/Pair 1.15
Mean z-score -1.67
Structure conservation index 0.80
SVM decision value 0.48
SVM RNA-class probability 0.751770
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15926506 118 + 22224390
CGUGACUGGACGAUUGGAGGAGUGU--GUGGGCGUGUGUUGGUUGUGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACAGUUUUAGUACAG
.......(.(((((..(....(..(--(....))..).)..))))).)..(((.((((((.(.(((..((((((..(((((.....)))))..))))))...))).).)))))).))).. ( -38.00)
>DroSec_CAF1 25127 118 + 1
CGUGACUGGGCGAUUGCAGGAGUGU--GUGGGUGUGUGUUGGUUGUGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACAGUUUUAGUACAG
.(((...((((...(((.((((...--..(((((((..((.(((((((.....(......)((((((....))))))))))))).))..)))))))))))...)))..))))...))).. ( -41.10)
>DroSim_CAF1 10298 120 + 1
CGUGACUGGGCGAUUGGAGGAGUGUGUGUGGGCGUGUGUUGGUUGUGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACAGUUUUAGUACAG
...(((((.((.((.((((((((.(....).))(((..((.(((((((.....(......)((((((....))))))))))))).))..))).)))))).)).)).)))))......... ( -40.70)
>DroEre_CAF1 18489 118 + 1
CGUGACUGGGCGAGUGCAGGAGUGU--GUGGGCGUGUGUUUAUUGCGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUGCGUGGCACAGUUUUAGUACAG
.(((...((((..((((....(((.--..((..(((..((((((((((.....(......)((((((....))))))))))))))))..)))..)).)))...)))).))))...))).. ( -42.80)
>DroYak_CAF1 9480 118 + 1
CGUGACUGGGCGAGUGCAGGAGUGU--GUGGGCGAGUGUUGGUUGUGCUUGUAGUAAAAUCGAGCCAAGAAGGACUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACACUUUUAGUACAC
(((......))).((((((((((((--....(((((..(.....)..)))))...........((((.((((((..(((((.....)))))..))))))..)))))))))))).)))).. ( -43.60)
>consensus
CGUGACUGGGCGAUUGCAGGAGUGU__GUGGGCGUGUGUUGGUUGUGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACAGUUUUAGUACAG
(((......))).................(((((((.......)))))))(((.((((((.(.(((..((((((..(((((.....)))))..))))))...))).).)))))).))).. (-33.16 = -32.96 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,926,544 – 15,926,664
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.51
Mean single sequence MFE -35.38
Consensus MFE -28.78
Energy contribution -29.42
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.77
Structure conservation index 0.81
SVM decision value 0.67
SVM RNA-class probability 0.819005
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15926544 120 + 22224390
GGUUGUGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACAGUUUUAGUACAGCCCCCCCCCUCCUCCUCCUCUUCCACCACUCUGGCCGACA
.((((.(((.(((.((((((.(.(((..((((((..(((((.....)))))..))))))...))).).)))))).)))))).....................(((......))).)))). ( -35.20)
>DroSec_CAF1 25165 109 + 1
GGUUGUGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACAGUUUUAGUACAGCUCCCCCCU-CC-CCUCCU---------CUCUGGCCGACA
.((((.(((.(((.((((((.(.(((..((((((..(((((.....)))))..))))))...))).).)))))).))))))........-..-((....---------....)).)))). ( -35.30)
>DroSim_CAF1 10338 109 + 1
GGUUGUGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACAGUUUUAGUACAGCUCCCCCCU-CC-CCUCCU---------CUCGGGCCGACA
.((((.(((.(((.((((((.(.(((..((((((..(((((.....)))))..))))))...))).).)))))).))))))........-.(-((....---------...))).)))). ( -37.70)
>DroEre_CAF1 18527 102 + 1
UAUUGCGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUGCGUGGCACAGUUUUAGUACAGAUCC---------CCGCCU---------CUCUGGCCGACA
((((((....))))))...(((.(((.(((..((((..(((((.((.......)).)))))..)....((......))......---------..))).---------.))))))))).. ( -30.80)
>DroYak_CAF1 9518 102 + 1
GGUUGUGCUUGUAGUAAAAUCGAGCCAAGAAGGACUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACACUUUUAGUACACAUGC---------CCGCCU---------CUCUGGCCCACA
((..(((..((((.(((((..(.((((.((((((..(((((.....)))))..))))))..)))).)..))))).)))))))..---------))(((.---------....)))..... ( -37.90)
>consensus
GGUUGUGCUCGUAGUAAAAUCGAGCCUAGAAGGGCUUGCGCAAUGAGUGCAUAUCCUUCCGUGGCACAGUUUUAGUACAGCUCCCCCC__CC_CCUCCU_________CUCUGGCCGACA
.((((.((..(((.((((((.(.(((..((((((..(((((.....)))))..))))))...))).).)))))).)))...................(..............))))))). (-28.78 = -29.42 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:46 2006