Locus 1184

Sequence ID 3L_DroMel_CAF1
Location 3,374,040 – 3,374,187
Length 147
Max. P 0.994666
window1854 window1855

overview

Window 4

Location 3,374,040 – 3,374,147
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.33
Mean single sequence MFE -24.78
Consensus MFE -20.45
Energy contribution -20.61
Covariance contribution 0.16
Combinations/Pair 1.12
Mean z-score -1.79
Structure conservation index 0.83
SVM decision value 1.04
SVM RNA-class probability 0.905609
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3374040 107 - 23771897
UGUACGCUCUGCCCCACGGCUGUGUACAAAAAAAUUUAAGGAAAAACGUCCACAGCCAACAAAUGAAAA-A----------AAAAUGUAAAAACAUUGUGUUUAAUGCUAGGG--UGGUG
....((((((((..((((((((((.((....................)).)))))))............-.----------..(((((....))))))))......)).))))--))... ( -24.45)
>DroSec_CAF1 41181 110 - 1
UGUACGCUCUGCCCCACGGCUGUGUACAAAAAAAUUUAAGGAAAAACGUCCACAGCCAACAAAUGAAAAAA----------AAAAUGUAAAAACAUUGUGUUUAAUUCUGGGUCUUAGUG
....((((..(.((((.(((((((.((....................)).))))))).......(((..((----------(.(((((....)))))...)))..))))))).)..)))) ( -24.75)
>DroSim_CAF1 38924 109 - 1
UGUACGCUCUGCCCCACGGCUGUGUACAAAAAAAUUUAAGGAAAAACGUCCACAGCCAACAAAUGAAAA-A----------AAAAUGUAAAAACAUUGUGUUUAAUGCUGGGUCUUAGUG
....((((..(.((((((((((((.((....................)).)))))))......((((..-.----------..(((((....)))))...))))..).)))).)..)))) ( -24.45)
>DroEre_CAF1 40603 107 - 1
UGUACGCUCUGCCCCACGGCUGUGUACAAA-AAAUUUAAGGAAAACCGUCCACGGCCAGCAAAUGAAAA-A-----------AAAUGUAAAAACAUUGUGCCUAAUGCUGGGUUUUAGUG
(((((((...(((....))).)))))))..-....((((((....(((....)))((((((........-.-----------.(((((....)))))........)))))).)))))).. ( -26.97)
>DroYak_CAF1 40005 119 - 1
UGUGCGCUCUGCCCCGCGGCUGUGUACAAAAAAAUUUAAGGAAAACCGUCCACUGCCAACAAAUCAAAA-AAAAAAAAGGAAAAAUGUAAAAACAUUGUGUUUAAUGCUGGGUUUAAGUG
....((((..((((.(((((.(((.(((((....)))..((....)))).))).)))............-.........(((.(((((....)))))...)))...)).))))...)))) ( -23.30)
>consensus
UGUACGCUCUGCCCCACGGCUGUGUACAAAAAAAUUUAAGGAAAAACGUCCACAGCCAACAAAUGAAAA_A__________AAAAUGUAAAAACAUUGUGUUUAAUGCUGGGUCUUAGUG
....((((..((((((((((((((.((....................)).)))))))..........................(((((....)))))))).........))))...)))) (-20.45 = -20.61 +   0.16)

alignment

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secondary structure

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dotplot

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Window 5

Location 3,374,077 – 3,374,187
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.60
Mean single sequence MFE -30.14
Consensus MFE -29.32
Energy contribution -29.28
Covariance contribution -0.04
Combinations/Pair 1.10
Mean z-score -1.65
Structure conservation index 0.97
SVM decision value 2.50
SVM RNA-class probability 0.994666
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3374077 110 - 23771897
UACGGUUUGUUUUGGUUGUUCUUGUUGUUUGGCUCGCUUUUGUACGCUCUGCCCCACGGCUGUGUACAAAAAAAUUUAAGGAAAAACGUCCACAGCCAACAAAUGAAAA-A---------
....((((((..(((((((..................((((((((((...(((....))).))))))))))........(((......)))))))))))))))).....-.--------- ( -30.40)
>DroSec_CAF1 41220 111 - 1
UACGGUUUGUUUUGGUUGUUCUUGUUGUUUGGCUCGCUUUUGUACGCUCUGCCCCACGGCUGUGUACAAAAAAAUUUAAGGAAAAACGUCCACAGCCAACAAAUGAAAAAA---------
....((((((..(((((((..................((((((((((...(((....))).))))))))))........(((......)))))))))))))))).......--------- ( -30.40)
>DroSim_CAF1 38963 110 - 1
UACGGUUUGUUUUGGUUGUUCUUGUUGUUUGGCUCGCUUUUGUACGCUCUGCCCCACGGCUGUGUACAAAAAAAUUUAAGGAAAAACGUCCACAGCCAACAAAUGAAAA-A---------
....((((((..(((((((..................((((((((((...(((....))).))))))))))........(((......)))))))))))))))).....-.--------- ( -30.40)
>DroEre_CAF1 40641 109 - 1
UACGGUUUGUUUUGGUUGUUCUUGUUGUUUGGCUCGCUUUUGUACGCUCUGCCCCACGGCUGUGUACAAA-AAAUUUAAGGAAAACCGUCCACGGCCAGCAAAUGAAAA-A---------
....((((((..(((((((..................((((((((((...(((....))).)))))))))-).......(((......)))))))))))))))).....-.--------- ( -29.90)
>DroYak_CAF1 40045 119 - 1
UACGGUUUGUUUUGGUUGUUCUUGUUGUUUGGCUCGCUUUUGUGCGCUCUGCCCCGCGGCUGUGUACAAAAAAAUUUAAGGAAAACCGUCCACUGCCAACAAAUCAAAA-AAAAAAAAGG
..(..(((.((((((((........((((.(((....((((((((((...(((....))).))))))))))........(((......)))...)))))))))))))))-...)))..). ( -29.60)
>consensus
UACGGUUUGUUUUGGUUGUUCUUGUUGUUUGGCUCGCUUUUGUACGCUCUGCCCCACGGCUGUGUACAAAAAAAUUUAAGGAAAAACGUCCACAGCCAACAAAUGAAAA_A_________
....((((((..(((((((..................((((((((((...(((....))).))))))))))........(((......))))))))))))))))................ (-29.32 = -29.28 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:29 2006