Locus 3129

Sequence ID 2L_DroMel_CAF1
Location 8,909,357 – 8,909,493
Length 136
Max. P 0.830394
window4972 window4973

overview

Window 2

Location 8,909,357 – 8,909,461
Length 104
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 90.38
Mean single sequence MFE -15.56
Consensus MFE -13.58
Energy contribution -13.62
Covariance contribution 0.04
Combinations/Pair 1.14
Mean z-score -1.31
Structure conservation index 0.87
SVM decision value 0.23
SVM RNA-class probability 0.644968
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8909357 104 + 22407834
GGUUUUCUUGUACUGCUUUUGUCACGCCUGACAAAUCACUUCACU-----UUUGACUUUCUUCUGACUGGUACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACUCUUUA
((((....((...((..(((((((....))))))).))...))..-----...))))......((((((((((((....))))))).)))))................. ( -16.30)
>DroSec_CAF1 119595 104 + 1
GGUUUUCUUGUACUGUUUUUGUCACGCCUGACAAAUCACUUAACU-----UUUGACUUUCUUCUGACUGGUACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACUCUUUA
((((.....((...((.(((((((....)))))))..))...)).-----...))))......((((((((((((....))))))).)))))................. ( -16.80)
>DroSim_CAF1 118521 103 + 1
GGUUUUCUUGUACUGCAUUUGUCACGCCUGACAAAUCACUUCACU-----UUUGACUUUCUUCUGACUGGUACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACU-UCUA
((((....((...((.((((((((....))))))))))...))..-----...))))......((((((((((((....))))))).)))))............-.... ( -18.10)
>DroEre_CAF1 126956 104 + 1
GGUUUUCCUAUACCGCUUUUGUCACGCCUGACAAAUCACUUCACUUCUCUUCUGACUUUCUUCUGGCUGGGACUUAAAUAAGUAUCAAGUUAU-----UUUACUCUUUA
(((........)))...(((((((....)))))))............................((((((..((((....))))..).))))).-----........... ( -12.50)
>DroYak_CAF1 123502 104 + 1
GGUUUUCUUGUGCUGCCUUUGUCACGCCUGACAAAUCACUUCACU-----UCUGACUUUCUUCUCGCUGGCACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACUCUUUA
(((...(((((..(((((((((((....))))))).....(((..-----..))).............)))).....))))).)))....................... ( -14.10)
>consensus
GGUUUUCUUGUACUGCUUUUGUCACGCCUGACAAAUCACUUCACU_____UUUGACUUUCUUCUGACUGGUACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACUCUUUA
(((........)))...(((((((....)))))))............................((((((((((((....))))))).)))))................. (-13.58 = -13.62 +   0.04)

alignment

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secondary structure

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dotplot

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Window 3

Location 8,909,390 – 8,909,493
Length 103
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 79.81
Mean single sequence MFE -18.64
Consensus MFE -10.39
Energy contribution -11.89
Covariance contribution 1.50
Combinations/Pair 1.05
Mean z-score -2.27
Structure conservation index 0.56
SVM decision value 0.71
SVM RNA-class probability 0.830394
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8909390 103 + 22407834
AAUCACUUCACU-----UUUGACUUUCUUCUGACUGGUACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACUCUUUACCAUGCAUAUAAUUACGGUCAGAAGACCAUUG
............-----........(((((((((((((((((....))))))).((((((........................))))))..))))))))))...... ( -19.96)
>DroSec_CAF1 119628 103 + 1
AAUCACUUAACU-----UUUGACUUUCUUCUGACUGGUACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACUCUUUACCAUGUGUAUUAUUACGGUCAGAAGAACACUG
............-----.......((((((((((((((((((....))))))).............................(((....))))))))))))))..... ( -22.40)
>DroSim_CAF1 118554 102 + 1
AAUCACUUCACU-----UUUGACUUUCUUCUGACUGGUACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACU-UCUACCAUGUGUAUAAUUACGGUCAGAAGACCACUG
............-----........(((((((((((((((((....)))))))..................-..........(((....)))))))))))))...... ( -21.50)
>DroEre_CAF1 126989 103 + 1
AAUCACUUCACUUCUCUUCUGACUUUCUUCUGGCUGGGACUUAAAUAAGUAUCAAGUUAU-----UUUACUCUUUACCGUGCAUAUAAUUACGGUCAGAAGACUACUG
..............((((((((((.......((..((((...((((((.(....).))))-----))...))))..))(((........)))))))))))))...... ( -20.60)
>DroYak_CAF1 123535 103 + 1
AAUCACUUCACU-----UCUGACUUUCUUCUCGCUGGCACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACUCUUUAUCGUGCAUAUAAUUACGGUCAGAAGACUACUG
..........((-----(((((((............((((...((..((((..((((......))))))))..))...))))..........)))))))))....... ( -18.75)
>DroAna_CAF1 122471 83 + 1
AAUCACGCCUCU------UUGACUUUCUUCUGC------------------UCUUUUUAUUUUAUUUACCUUUUUACUGUGCAUAUAAUUACGGUCAAAAGAUUGGU-
......(((...------..((......))...------------------..................(((((.((((((........)))))).)))))...)))- (  -8.60)
>consensus
AAUCACUUCACU_____UUUGACUUUCUUCUGACUGGUACUUAAAUAAGUAUCAAGUUAUUUUAUUUUACUCUUUACCAUGCAUAUAAUUACGGUCAGAAGACCACUG
.........................(((((((((((..((((....))))....((((((........................)))))).)))))))))))...... (-10.39 = -11.89 +   1.50)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:00 2006