Locus 4384

Sequence ID 2R_DroMel_CAF1
Location 14,416,136 – 14,416,230
Length 94
Max. P 0.791022
window7011 window7012

overview

Window 1

Location 14,416,136 – 14,416,230
Length 94
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 83.93
Mean single sequence MFE -20.15
Consensus MFE -13.89
Energy contribution -15.12
Covariance contribution 1.22
Combinations/Pair 1.10
Mean z-score -3.04
Structure conservation index 0.69
SVM decision value 0.59
SVM RNA-class probability 0.791022
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14416136 94 + 20766785
AAAGUUUGUCUGCAACAAAGGCA------GUUGCAACAAA--AAAGCUGGCAAACUAGACCUACACAAAAUGCUCAUACGUAACUUUAAGUGCAGCAGACAA
...(((((.(((((..((((.((------(((........--..))))).....................(((......))).))))...)))))))))).. ( -19.70)
>DroSec_CAF1 48306 94 + 1
AAAGUUUGUC-GCAACAAAGGCA------GUUGCAACAAAA-AAAGCUGGCAAACUAGACCUACACAAAAUGCUCAUACGUAACUUUAAGUGCAGCAGACAA
.....(((((-(((((.......------))))).......-...((((.((...((((..(((...............)))..))))..)))))).))))) ( -18.36)
>DroSim_CAF1 51064 96 + 1
AAAGUUUGUCUGCAACAAAGGCA------GUUGCAACAAAAAAAAGCUGGCAAACUAGACCUACACAAAAUGCUCAUACGUAACUUUAAGUGCAGCAGACAA
...(((((.(((((..((((...------((.(((...........((((....))))............)))....))....))))...)))))))))).. ( -20.50)
>DroEre_CAF1 50098 91 + 1
AAAGUUUGUCUGCAACAAAGGCA------GUUGCAA---AAA--AGCCAGCAAACUAGACCUACACAAAAUGCUCAUACGUAACUUUAAGUGCAGCAGACAA
.....((((((((......(((.------.((....---)).--.))).(((...((((..(((...............)))..))))..))).)))))))) ( -20.46)
>DroWil_CAF1 95620 83 + 1
AAAGUUUG-CUGCACU-----CA------CCUGAAA---GU---ACC-CUAAAAAAAUACCCACACAAAGCUCUCAUAUGUAACUUUAAGUGCAGCAGACAA
...(((((-(((((((-----((------..(((.(---((---...-.....................))).)))..))........)))))))))))).. ( -20.66)
>DroYak_CAF1 49883 99 + 1
AAAGUUUGUCUGCAACAAAGGCAAAAAAUGUUGCAA---AAAACAGCUAGCAAACUAGACCUACACAAAAUGCUCAUACGUAACUUUAAGUGCAGCAGACAA
...(((((.(((((..((((((((......))))..---.......((((....)))).........................))))...)))))))))).. ( -21.20)
>consensus
AAAGUUUGUCUGCAACAAAGGCA______GUUGCAA___AA_AAAGCUGGCAAACUAGACCUACACAAAAUGCUCAUACGUAACUUUAAGUGCAGCAGACAA
...(((((.(((((..(((((((........)))............((((....)))).........................))))...)))))))))).. (-13.89 = -15.12 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,416,136 – 14,416,230
Length 94
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 83.93
Mean single sequence MFE -24.58
Consensus MFE -15.16
Energy contribution -15.42
Covariance contribution 0.25
Combinations/Pair 1.10
Mean z-score -2.53
Structure conservation index 0.62
SVM decision value -0.03
SVM RNA-class probability 0.516095
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14416136 94 - 20766785
UUGUCUGCUGCACUUAAAGUUACGUAUGAGCAUUUUGUGUAGGUCUAGUUUGCCAGCUUU--UUUGUUGCAAC------UGCCUUUGUUGCAGACAAACUUU
(((((((((((((..((.(((.......))).))..)))))(((..((((.((.(((...--...))))))))------))))......))))))))..... ( -25.90)
>DroSec_CAF1 48306 94 - 1
UUGUCUGCUGCACUUAAAGUUACGUAUGAGCAUUUUGUGUAGGUCUAGUUUGCCAGCUUU-UUUUGUUGCAAC------UGCCUUUGUUGC-GACAAACUUU
......(((((((..((.(((.......))).))..)))).(((.......))))))...-.(((((((((((------.......)))))-)))))).... ( -22.60)
>DroSim_CAF1 51064 96 - 1
UUGUCUGCUGCACUUAAAGUUACGUAUGAGCAUUUUGUGUAGGUCUAGUUUGCCAGCUUUUUUUUGUUGCAAC------UGCCUUUGUUGCAGACAAACUUU
(((((((((((((..((.(((.......))).))..)))))(((..((((.((.(((........))))))))------))))......))))))))..... ( -25.70)
>DroEre_CAF1 50098 91 - 1
UUGUCUGCUGCACUUAAAGUUACGUAUGAGCAUUUUGUGUAGGUCUAGUUUGCUGGCU--UUU---UUGCAAC------UGCCUUUGUUGCAGACAAACUUU
(((((((((((((..((.(((.......))).))..)))))(((..((((.((.....--...---..)))))------))))......))))))))..... ( -23.40)
>DroWil_CAF1 95620 83 - 1
UUGUCUGCUGCACUUAAAGUUACAUAUGAGAGCUUUGUGUGGGUAUUUUUUUAG-GGU---AC---UUUCAGG------UG-----AGUGCAG-CAAACUUU
..((.((((((((((((((((.(......))))))).((..(((((((.....)-)))---))---)..))..------.)-----)))))))-)).))... ( -25.90)
>DroYak_CAF1 49883 99 - 1
UUGUCUGCUGCACUUAAAGUUACGUAUGAGCAUUUUGUGUAGGUCUAGUUUGCUAGCUGUUUU---UUGCAACAUUUUUUGCCUUUGUUGCAGACAAACUUU
((((((.((((((..((.(((.......))).))..))))))(.((((....)))))......---..((((((...........))))))))))))..... ( -24.00)
>consensus
UUGUCUGCUGCACUUAAAGUUACGUAUGAGCAUUUUGUGUAGGUCUAGUUUGCCAGCUUU_UU___UUGCAAC______UGCCUUUGUUGCAGACAAACUUU
(((((((((((((..((.(((.......))).))..)))))..............((...........))...................))))))))..... (-15.16 = -15.42 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:20 2006