Locus 301

Sequence ID 3R_DroMel_CAF1
Location 1,149,767 – 1,149,858
Length 91
Max. P 0.888524
window510 window511

overview

Window 0

Location 1,149,767 – 1,149,858
Length 91
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 82.75
Mean single sequence MFE -19.97
Consensus MFE -14.31
Energy contribution -14.09
Covariance contribution -0.22
Combinations/Pair 1.19
Mean z-score -1.59
Structure conservation index 0.72
SVM decision value 0.09
SVM RNA-class probability 0.580918
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1149767 91 + 27905053
CAUGUGCUGCAACAAACUCGUUUUUGUUUUUGUUGCAGGCCAAAAACCUAAACCUGCUUGAGUUUGGCUUAUUUCCGUUUAUUUCCACUUC--------
...(((((((((((((..((....))..))))))))))((((((....(((......)))..)))))).................)))...-------- ( -21.40)
>DroSec_CAF1 85265 91 + 1
CAUGUGCUGCAACAAACUCGUUUUUAUUUUUGUUGCAGGCCAAAAACCUGAACCUGCUUGAGCUCGGCUUAUUUCCGUUUAUUUCCACUUC--------
...(((((((((((((............))))))))))..........(((((.....(((((...))))).....)))))....)))...-------- ( -18.50)
>DroSim_CAF1 81128 91 + 1
AAUGUGCUGCAACAAACUCGUUUUUAUUUUUGUUGCAGGCCAAAAACCUGAACCUGCUUGAGCUCGGCUUAUUUCCGUUUAUUUCCACUUC--------
...(((((((((((((............))))))))))..........(((((.....(((((...))))).....)))))....)))...-------- ( -18.50)
>DroEre_CAF1 83738 99 + 1
CAUGUGCUGCAACAAACUCGUUUUUGCUUUUGUUGCAGGCCAAAAACCUGAACCUGCUUGAGCUCGGCUUAUUUCCGUUUAUUUCCACUUCCAAGUGUG
..((..((((((((((..((....))..))))))))))..))......(((((.....(((((...))))).....)))))....((((....)))).. ( -21.40)
>DroYak_CAF1 106455 97 + 1
CAUGUGCUGCAACAAACUCGUUUUUG-UUUUGUUGCAGGCUAAAAACCUGAACCUGCUUGGGCUGAGCUUAUUUCCGUUUAUUUCCACUUU-GUGUGUG
...((((((((((((((........)-.))))))))))(((.....((..(......)..))...))).................)))...-....... ( -20.30)
>DroAna_CAF1 80459 70 + 1
CAUGUGCUGCAAUAAACUCGUU--------UGUUGCAGGCCAAAAACC------UGCUUA---UUGGCUUAUUUCCGUU----UCCAUGUG--------
((((((((((((((((....))--------))))))))(((((.((..------...)).---)))))...........----..))))))-------- ( -19.70)
>consensus
CAUGUGCUGCAACAAACUCGUUUUUGUUUUUGUUGCAGGCCAAAAACCUGAACCUGCUUGAGCUCGGCUUAUUUCCGUUUAUUUCCACUUC________
...(((((((((((((............))))))))))(((........................))).................)))........... (-14.31 = -14.09 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,149,767 – 1,149,858
Length 91
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 82.75
Mean single sequence MFE -22.90
Consensus MFE -18.53
Energy contribution -19.30
Covariance contribution 0.77
Combinations/Pair 1.20
Mean z-score -2.32
Structure conservation index 0.81
SVM decision value 0.95
SVM RNA-class probability 0.888524
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1149767 91 - 27905053
--------GAAGUGGAAAUAAACGGAAAUAAGCCAAACUCAAGCAGGUUUAGGUUUUUGGCCUGCAACAAAAACAAAAACGAGUUUGUUGCAGCACAUG
--------...(((.........((..(.((((((((((......))))).))))).)..))(((((((((..(......)..))))))))).)))... ( -23.40)
>DroSec_CAF1 85265 91 - 1
--------GAAGUGGAAAUAAACGGAAAUAAGCCGAGCUCAAGCAGGUUCAGGUUUUUGGCCUGCAACAAAAAUAAAAACGAGUUUGUUGCAGCACAUG
--------...(((........(((((((.((((..((....)).))))...)))))))..((((((((((............)))))))))))))... ( -24.20)
>DroSim_CAF1 81128 91 - 1
--------GAAGUGGAAAUAAACGGAAAUAAGCCGAGCUCAAGCAGGUUCAGGUUUUUGGCCUGCAACAAAAAUAAAAACGAGUUUGUUGCAGCACAUU
--------...(((........(((((((.((((..((....)).))))...)))))))..((((((((((............)))))))))))))... ( -24.20)
>DroEre_CAF1 83738 99 - 1
CACACUUGGAAGUGGAAAUAAACGGAAAUAAGCCGAGCUCAAGCAGGUUCAGGUUUUUGGCCUGCAACAAAAGCAAAAACGAGUUUGUUGCAGCACAUG
..((((....))))........(((((((.((((..((....)).))))...)))))))((.(((((((((..(......)..)))))))))))..... ( -27.60)
>DroYak_CAF1 106455 97 - 1
CACACAC-AAAGUGGAAAUAAACGGAAAUAAGCUCAGCCCAAGCAGGUUCAGGUUUUUAGCCUGCAACAAAA-CAAAAACGAGUUUGUUGCAGCACAUG
..(((..-...)))..........(.(((((((((.((....))..((((((((.....))))).)))....-.......))))))))).)........ ( -20.90)
>DroAna_CAF1 80459 70 - 1
--------CACAUGGA----AACGGAAAUAAGCCAA---UAAGCA------GGUUUUUGGCCUGCAACA--------AACGAGUUUAUUGCAGCACAUG
--------..((((..----..(((((((..((...---...)).------.)))))))((.(((((.(--------((....))).))))))).)))) ( -17.10)
>consensus
________GAAGUGGAAAUAAACGGAAAUAAGCCGAGCUCAAGCAGGUUCAGGUUUUUGGCCUGCAACAAAAACAAAAACGAGUUUGUUGCAGCACAUG
...........(((.........((....((((((((((......))))).)))))....))(((((((((..(......)..))))))))).)))... (-18.53 = -19.30 +   0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:52 2006