Locus 2750

Sequence ID 3L_DroMel_CAF1
Location 7,746,003 – 7,746,099
Length 96
Max. P 0.936398
window4299 window4300

overview

Window 9

Location 7,746,003 – 7,746,099
Length 96
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 59.41
Mean single sequence MFE -22.43
Consensus MFE -10.08
Energy contribution -9.97
Covariance contribution -0.11
Combinations/Pair 1.29
Mean z-score -1.84
Structure conservation index 0.45
SVM decision value 1.25
SVM RNA-class probability 0.936398
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7746003 96 + 23771897
UGUAUCAAACAAUUGGCAUUGACCACAUUGUUGUGGAAUAGUGUGCUGUAGUGUGCUGGA----------AU--AUCUA---AAUACACAUUUGCAAUGCGGAAGCCAGUU
..........(((((((.....(((((....)))))....((((((...((((((.(((.----------..--..)))---....)))))).)).))))....))))))) ( -24.80)
>DroPse_CAF1 19925 93 + 1
CAGAUUAAACAUUUGGCAUUGACAGCAUUCUGGCUGU---------UA---UUUAAUUGU------AUGUACGUAUGUACUAUAUAUUUAUUUGCAAUGCGGAAGCCAAUG
............(((((..(((((((......)))))---------))---(((.(((((------(.(((.((((((...)))))).))).))))))...)))))))).. ( -23.50)
>DroSec_CAF1 10530 88 + 1
UGUAUCAAACAUUUGGCAUUGACCACAUUGUUGUGGAAGUGUGUUC--UAU------UGA----------AU--AUCUA---AAUGCACAUUUGCAAUGCGGAAGCCAGUU
...........(((.((((((.(((((....)))))((((((((..--...------.(.----------..--..)..---...)))))))).)))))).)))....... ( -23.40)
>DroYak_CAF1 11115 97 + 1
UGUAUAAAACAUAUGACAUUGUUGCUAAUACUAUGUAUAUGUGUUC--CAU------AGAAUAUCUAUCUAU--AUC---CAUAUGCACAUUUGCAAUGCGGAAGGCAGU-
.((((..((((........))))....))))........(((.(((--(((------(((.......)))))--...---(((.((((....))))))).)))).)))..- ( -17.80)
>DroAna_CAF1 17815 81 + 1
CUGAUCAAACAAUUGGCAUUGACAACAUUGUUGUUGU---------UGUGGUUUAGUGGC----------AU--AUUU---------GUAUGUGCAAUGCGGAAGCCAGUG
...........((((((...(((((((....))))))---------)........((.((----------((--((..---------..))))))...))....)))))). ( -21.60)
>DroPer_CAF1 19982 93 + 1
CAGAUUAAACAUUUGGCAUUGACAGCAUUCUGGCUGU---------UA---UUUAAUUGU------AUGUACGUAUGUACUAUAUAUUUAUUUGCAAUGCGGAAGCCAAUG
............(((((..(((((((......)))))---------))---(((.(((((------(.(((.((((((...)))))).))).))))))...)))))))).. ( -23.50)
>consensus
CGGAUCAAACAUUUGGCAUUGACAACAUUGUUGUGGA_________U_UA_UUUA_UUGA__________AU__AUCUA___UAUACACAUUUGCAAUGCGGAAGCCAGUG
............(((((.....((((......))))......................................................(((((...))))).))))).. (-10.08 =  -9.97 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,746,003 – 7,746,099
Length 96
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 59.41
Mean single sequence MFE -15.90
Consensus MFE -7.14
Energy contribution -6.87
Covariance contribution -0.28
Combinations/Pair 1.30
Mean z-score -1.26
Structure conservation index 0.45
SVM decision value 0.19
SVM RNA-class probability 0.625615
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7746003 96 - 23771897
AACUGGCUUCCGCAUUGCAAAUGUGUAUU---UAGAU--AU----------UCCAGCACACUACAGCACACUAUUCCACAACAAUGUGGUCAAUGCCAAUUGUUUGAUACA
...((((..((((((((....((((....---..(..--..----------..).((........)).........)))).)))))))).....))))............. ( -18.20)
>DroPse_CAF1 19925 93 - 1
CAUUGGCUUCCGCAUUGCAAAUAAAUAUAUAGUACAUACGUACAU------ACAAUUAAA---UA---------ACAGCCAGAAUGCUGUCAAUGCCAAAUGUUUAAUCUG
..(((((........................((((....))))..------.........---..---------(((((......)))))....)))))............ ( -15.50)
>DroSec_CAF1 10530 88 - 1
AACUGGCUUCCGCAUUGCAAAUGUGCAUU---UAGAU--AU----------UCA------AUA--GAACACACUUCCACAACAAUGUGGUCAAUGCCAAAUGUUUGAUACA
...((((..((((((((....((((....---.....--.(----------((.------...--)))........)))).)))))))).....))))............. ( -17.07)
>DroYak_CAF1 11115 97 - 1
-ACUGCCUUCCGCAUUGCAAAUGUGCAUAUG---GAU--AUAGAUAGAUAUUCU------AUG--GAACACAUAUACAUAGUAUUAGCAACAAUGUCAUAUGUUUUAUACA
-.......((((...((((....))))..))---))(--(((((.......)))------)))--....((((((((((.((.......)).)))).))))))........ ( -16.70)
>DroAna_CAF1 17815 81 - 1
CACUGGCUUCCGCAUUGCACAUAC---------AAAU--AU----------GCCACUAAACCACA---------ACAACAACAAUGUUGUCAAUGCCAAUUGUUUGAUCAG
..((((.....((((((..((((.---------...)--))----------).............---------((((((....))))))))))))(((....))).)))) ( -12.40)
>DroPer_CAF1 19982 93 - 1
CAUUGGCUUCCGCAUUGCAAAUAAAUAUAUAGUACAUACGUACAU------ACAAUUAAA---UA---------ACAGCCAGAAUGCUGUCAAUGCCAAAUGUUUAAUCUG
..(((((........................((((....))))..------.........---..---------(((((......)))))....)))))............ ( -15.50)
>consensus
CACUGGCUUCCGCAUUGCAAAUAUGUAUA___UAGAU__AU__________UCAA_UAAA_UA_A_________ACAACAACAAUGUUGUCAAUGCCAAAUGUUUGAUACA
...((((....((...)).........................................................((((......)))).....))))............. ( -7.14 =  -6.87 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:50 2006