Locus 2614

Sequence ID 3L_DroMel_CAF1
Location 7,229,894 – 7,230,033
Length 139
Max. P 0.956856
window4095 window4096 window4097

overview

Window 5

Location 7,229,894 – 7,229,993
Length 99
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 78.25
Mean single sequence MFE -24.42
Consensus MFE -18.54
Energy contribution -18.23
Covariance contribution -0.31
Combinations/Pair 1.10
Mean z-score -1.52
Structure conservation index 0.76
SVM decision value 0.23
SVM RNA-class probability 0.646325
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7229894 99 + 23771897
ACUUAUAUA--UAACCGUGUA---------------CGUAUGCAUCUAUAUAAUGCGUAGUCUAGUCGCCGAUCUUAGACACUAAGUAGCCAUGUCUGCUGCGCGUUAAUCGCUUU
.......((--((...(((((---------------....))))).))))(((((((((((...((.((....(((((...)))))..)).))....)))))))))))........ ( -20.10)
>DroSec_CAF1 11609 101 + 1
AACUAUAUAGGUAUACAAGUA---------------GGUAUGUAUGUAUAUAAUGCGUAGUCUAGUCGCUGAUCUUAGACACUAAGUAGCCAUGUCUGCUGCGCGUUAAUCGCUUU
...((((((..(((((.....---------------.)))))..))))))(((((((((((...((.((((..(((((...))))))))).))....)))))))))))........ ( -27.70)
>DroSim_CAF1 11526 91 + 1
AACUAUAUA--UAACCAAGUA---------------GGU--------AUAUAAUGCGUAGUCUAGUCGCCGAUCUUAGACACUAAGUAGCCAUGUCUGCUGCGCGUUAAUCGCUUU
.........--..(((.....---------------)))--------...(((((((((((...((.((....(((((...)))))..)).))....)))))))))))........ ( -20.50)
>DroEre_CAF1 11830 106 + 1
ACCUAUAUA--UACGCAUAUAUAUAUCCGAUAUAUAC--------GUAUACGAUGCGUGGUCUCGUCGCCGAUCUUAGACACUAAGUAGCCAUGUCUGCCGCGCGUUAAUCGCUUU
.......((--((((.((((((.......)))))).)--------))))).((((((((((..(((.((....(((((...)))))..)).)))...))))))))))......... ( -29.40)
>consensus
AACUAUAUA__UAACCAAGUA_______________CGU______GUAUAUAAUGCGUAGUCUAGUCGCCGAUCUUAGACACUAAGUAGCCAUGUCUGCUGCGCGUUAAUCGCUUU
..................................................(((((((((((...((.((....(((((...)))))..)).))....)))))))))))........ (-18.54 = -18.23 +  -0.31)

alignment

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secondary structure

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Window 6

Location 7,229,914 – 7,230,033
Length 119
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 91.53
Mean single sequence MFE -34.50
Consensus MFE -31.54
Energy contribution -31.35
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.46
Structure conservation index 0.91
SVM decision value 0.36
SVM RNA-class probability 0.704486
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7229914 119 + 23771897
GUAUGCAUCUAUAUAAUGCGUAGUCUAGUCGCCGAUCUUAGACACUAAGUAGCCAUGUCUGCUGCGCGUUAAUCGCUUUUAAUUGCUAAAUUACGCGCUGCAUGGCCGACAUUGCGACG
.(((((((.......))))))).....(((((....(((((...)))))..(((((((.....((((((.....((........))......)))))).))))))).......))))). ( -37.40)
>DroSec_CAF1 11631 119 + 1
GUAUGUAUGUAUAUAAUGCGUAGUCUAGUCGCUGAUCUUAGACACUAAGUAGCCAUGUCUGCUGCGCGUUAAUCGCUUUUAAUUGCUAAAUUACGCGCUGCAUGGCCGACAUUGCGACG
.(((((((.......))))))).....(((((....(((((...)))))..(((((((.....((((((.....((........))......)))))).))))))).......))))). ( -37.00)
>DroSim_CAF1 11546 111 + 1
GU--------AUAUAAUGCGUAGUCUAGUCGCCGAUCUUAGACACUAAGUAGCCAUGUCUGCUGCGCGUUAAUCGCUUUUAAUUGCUAAAUUACGCGCUGCAUGGCCGACAUUGCGACG
..--------........((((((...((((.....(((((...)))))..(((((((.....((((((.....((........))......)))))).)))))))))))))))))... ( -32.00)
>DroEre_CAF1 11865 111 + 1
--------GUAUACGAUGCGUGGUCUCGUCGCCGAUCUUAGACACUAAGUAGCCAUGUCUGCCGCGCGUUAAUCGCUUUUAAUUGCUAAAUUACGCGCUGCAUGGUCGACAUUGCGACG
--------...((((...))))....(((((((((((..(((((...........)))))((.((((((.....((........))......)))))).))..))))).....)))))) ( -31.60)
>consensus
GU______GUAUAUAAUGCGUAGUCUAGUCGCCGAUCUUAGACACUAAGUAGCCAUGUCUGCUGCGCGUUAAUCGCUUUUAAUUGCUAAAUUACGCGCUGCAUGGCCGACAUUGCGACG
...........................(((((....(((((...)))))..(((((((.....((((((.....((........))......)))))).))))))).......))))). (-31.54 = -31.35 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 7

Location 7,229,914 – 7,230,033
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 91.53
Mean single sequence MFE -34.45
Consensus MFE -31.83
Energy contribution -32.08
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.92
SVM decision value 1.47
SVM RNA-class probability 0.956856
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7229914 119 - 23771897
CGUCGCAAUGUCGGCCAUGCAGCGCGUAAUUUAGCAAUUAAAAGCGAUUAACGCGCAGCAGACAUGGCUACUUAGUGUCUAAGAUCGGCGACUAGACUACGCAUUAUAUAGAUGCAUAC
.(((((......((((((((.((((((((((..((........)))))).)))))).)))....))))).(((((...)))))....)))))........(((((.....))))).... ( -37.90)
>DroSec_CAF1 11631 119 - 1
CGUCGCAAUGUCGGCCAUGCAGCGCGUAAUUUAGCAAUUAAAAGCGAUUAACGCGCAGCAGACAUGGCUACUUAGUGUCUAAGAUCAGCGACUAGACUACGCAUUAUAUACAUACAUAC
.(((((......((((((((.((((((((((..((........)))))).)))))).)))....))))).(((((...)))))....)))))........................... ( -33.30)
>DroSim_CAF1 11546 111 - 1
CGUCGCAAUGUCGGCCAUGCAGCGCGUAAUUUAGCAAUUAAAAGCGAUUAACGCGCAGCAGACAUGGCUACUUAGUGUCUAAGAUCGGCGACUAGACUACGCAUUAUAU--------AC
.(((((......((((((((.((((((((((..((........)))))).)))))).)))....))))).(((((...)))))....))))).................--------.. ( -33.10)
>DroEre_CAF1 11865 111 - 1
CGUCGCAAUGUCGACCAUGCAGCGCGUAAUUUAGCAAUUAAAAGCGAUUAACGCGCGGCAGACAUGGCUACUUAGUGUCUAAGAUCGGCGACGAGACCACGCAUCGUAUAC--------
((((((...(((......((.((((((((((..((........)))))).)))))).))((((((.........))))))..)))..))))))..................-------- ( -33.50)
>consensus
CGUCGCAAUGUCGGCCAUGCAGCGCGUAAUUUAGCAAUUAAAAGCGAUUAACGCGCAGCAGACAUGGCUACUUAGUGUCUAAGAUCGGCGACUAGACUACGCAUUAUAUAC______AC
.(((((......((((((((.((((((((((..((........)))))).)))))).)))....))))).(((((...)))))....)))))........................... (-31.83 = -32.08 +   0.25)

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 10:37:34 2006