Locus 222

Sequence ID X_DroMel_CAF1
Location 778,026 – 778,219
Length 193
Max. P 0.681119
window335 window336

overview

Window 5

Location 778,026 – 778,124
Length 98
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 90.31
Mean single sequence MFE -27.43
Consensus MFE -24.46
Energy contribution -23.90
Covariance contribution -0.56
Combinations/Pair 1.12
Mean z-score -1.32
Structure conservation index 0.89
SVM decision value 0.01
SVM RNA-class probability 0.536947
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 778026 98 + 22224390
CGUGGACUGUGGCAAAGUUGUCAUGACUGGGAUACAAAUCCUUAUCGCUAUAAAUUAAUUGAAGCUGGCGUAAAGCGGUCGGCAUCAGUGACCAGCAA
..(((..((((((..((((.....))))(((((....)))))....)))))).....(((((.((((((........)))))).)))))..))).... ( -27.20)
>DroSec_CAF1 93591 98 + 1
CGUGGACCGUGGCAAAGUUGUCAUGACUGGGAUACAAAUCCUUAUCGCUAUAAAUUAAUUGAAGCUGGCGUAAAGCGGUCGGUAUCAGUGACCAGCAA
.......(((((((....))))))).((((((((........))))...........(((((.((((((........)))))).)))))..))))... ( -25.10)
>DroSim_CAF1 54810 98 + 1
CGUGGACCGUGGCAAAGUUGUCAUGACUGGGAUACAAAUCCUUAUCGCUAUAAAUUAAUUGAAGCUGGCGUAAAGCGGUCGGCAUCAGUGACCAGCAA
.......(((((((....))))))).((((((((........))))...........(((((.((((((........)))))).)))))..))))... ( -26.60)
>DroYak_CAF1 94071 93 + 1
-----AUCCAGGUCCAGUUGUCCUGACUGGGAUACAAAUCCCUAUCGCUAUAAAUUAAUUGAAGCUGGCGUACAGCGGUCGGCUUCAAUGAGCAGCAA
-----...........((((..(.((..(((((....)))))..))...........((((((((((((........)))))))))))))..)))).. ( -30.80)
>consensus
CGUGGACCGUGGCAAAGUUGUCAUGACUGGGAUACAAAUCCUUAUCGCUAUAAAUUAAUUGAAGCUGGCGUAAAGCGGUCGGCAUCAGUGACCAGCAA
................((((((..((..(((((....)))))..))...........(((((.((((((........)))))).))))))).)))).. (-24.46 = -23.90 +  -0.56) 

alignment

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secondary structure

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dotplot

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Window 6

Location 778,124 – 778,219
Length 95
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 79.16
Mean single sequence MFE -25.67
Consensus MFE -14.57
Energy contribution -15.38
Covariance contribution 0.81
Combinations/Pair 1.12
Mean z-score -1.85
Structure conservation index 0.57
SVM decision value 0.31
SVM RNA-class probability 0.681119
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 778124 95 - 22224390
AAAGGGUUAACUGAAGUGAAUGUGGGCCUGCAAAAUGGACUGAAAUCAGGGUUAGCCCCGAAAUGGACUUUUGGAAUUUUUCAAAGUU-UUCUGCA
...(((((((((..............((........)).(((....)))))))))))).(....(((((((.(((....)))))))))-)....). ( -21.20)
>DroSec_CAF1 93689 96 - 1
AAAGGGUUAACUGAAGUGAAUGUGGGCCUGGAAAAUGGACUGAAUUCAGGGUUAGGCCCGAAAUGGACUUUUGGAAUUUUUCAAAGUUUUUCUGCA
...(((..(((((((((..((.(((((((((....((((.....))))...)))))))))..))..)))))((((....)))).))))..)))... ( -23.40)
>DroSim_CAF1 54908 96 - 1
AAAGGGUUAACUGAAGUGAAUGUCGGCCUGGAAAAUGGACUGAAUUCAGGGUUAGCCCCGAAAUGGACUUUUGGAAUUUUUCAAAGUUUUUCUGCA
...(((((((((....(((((.((((((........)).))))))))).))))))))).((((..((((((.(((....))))))))))))).... ( -26.40)
>DroEre_CAF1 106498 91 - 1
AAAGGGUUAACUG-----AAUGUGGGCCUGGAAAAUGGUCUGAUUUCAGGGUUAGCCCCGAAAUGGACUUUGGGCAUUUUCCAAAGUUUUUCUGCG
...((((((((((-----((..((((((........))))))..)))..))))))))).((((..(((((((((.....))))))))))))).... ( -31.30)
>DroYak_CAF1 94164 91 - 1
AAAGGGUUAACUG-----AAUGUGGGCCUGGAAAACGGGCCGAUUUCGGGGUUAGCCCCGAAAUGGACUUUUGGCAUUUUGCAAACUUUUUCUGCA
((((((((..(.(-----(((((.((((((.....)))))).(((((((((....))))))))).........)))))).)..))))))))..... ( -35.40)
>DroPer_CAF1 167423 73 - 1
AAAGGGUUAACAGAAAGG-----------------------GGUUCCCGGGUUAGCCCCAAAAUUGACUUUUGGCAUUUUUCAAAGUUUUCUCUCU
...((((((((.....((-----------------------(...)))..)))))))).......((((((.((......))))))))........ ( -16.30)
>consensus
AAAGGGUUAACUGAAGUGAAUGUGGGCCUGGAAAAUGGACUGAAUUCAGGGUUAGCCCCGAAAUGGACUUUUGGAAUUUUUCAAAGUUUUUCUGCA
...(((((((((..............((........)).(((....)))))))))))).((((..((((((.((......)))))))))))).... (-14.57 = -15.38 +   0.81) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:19 2006