Locus 4640

Sequence ID 2R_DroMel_CAF1
Location 15,166,610 – 15,166,724
Length 114
Max. P 0.999827
window7460 window7461

overview

Window 0

Location 15,166,610 – 15,166,724
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 96.26
Mean single sequence MFE -22.58
Consensus MFE -21.75
Energy contribution -21.83
Covariance contribution 0.09
Combinations/Pair 1.06
Mean z-score -0.95
Structure conservation index 0.96
SVM decision value 0.71
SVM RNA-class probability 0.829198
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15166610 114 + 20766785
------UUUUAGCAAACAUUUCUCUGUCAGAACUUUGCGAUUAAGUAAUUCCAAAAGUUGUUUGUUCAAAAUUACUCAAGUUCAUGGAAUGUGUUUGCUAGUAAUAUUUUAAAUUGAGCG
------..(((((((((((...(((((..(((((((((......)))........(((.((((.....)))).))).)))))))))))..)))))))))))................... ( -22.70)
>DroSec_CAF1 4977 114 + 1
------UUUUAGCAAACAUUUCUCUGUCAGAACUUUGCGAUUAAGUAAUUCCAAAAGUUGUUUGUUCAAAAUUACUCAAGUUCAUGGAAUGUGUUUGCUAGUAAUAUUUUAAAUUGAGCG
------..(((((((((((...(((((..(((((((((......)))........(((.((((.....)))).))).)))))))))))..)))))))))))................... ( -22.70)
>DroSim_CAF1 6630 114 + 1
------UUUUAGCAAACAUUUCUCUGUCAGAACUUUGCGAUUAAGUAAUUCCAAAAGUUGUUUGUUCAAAAUUACUCAAGUUCAUGGAAUGUGUUUGCUAGUAAUAUUUUAAAUUGAGCG
------..(((((((((((...(((((..(((((((((......)))........(((.((((.....)))).))).)))))))))))..)))))))))))................... ( -22.70)
>DroEre_CAF1 6793 114 + 1
------UUUUAGCAAACAUUUCUCUGUCAGAACUUUGCGAUUAAGUAAUUCCAAAAGUUGUUUGUUCAGAAUUACUCAAGUUCAUGGAAUGUGUUUGCUAGUAAUAUUUUAAAUUGAGCG
------..(((((((((((...(((((..((((((.(......((((((((((((.....))))....))))))))))))))))))))..)))))))))))................... ( -24.40)
>DroYak_CAF1 5023 114 + 1
------UUUUAGCAAACAUUUCUCUGUCAGAACUUUGCGAUUAAGUAAUUCCAAAAGUUGUUUGUUCAAAAUUACUCAAGUUCAUGGAAUGUGUUUGCUGGUAAUAUUUUAAAUUGAGCG
------..(((((((((((...(((((..(((((((((......)))........(((.((((.....)))).))).)))))))))))..)))))))))))................... ( -22.30)
>DroAna_CAF1 4652 120 + 1
AUUUUUUCUCAGCAAACAUUUCACUGUCAGAACUUUGCGAUUAAGUAAUUCCAAAAGUUGUUUGUAAAAAAUUACUCAAGUUCAUGGAAUGUGUUUGCUAGUAAUAUUUUAAAUUGAGCG
.......((((((((((((................(((......)))((((((.((.(((...((((....)))).))).))..))))))))))))))((....))........)))).. ( -20.70)
>consensus
______UUUUAGCAAACAUUUCUCUGUCAGAACUUUGCGAUUAAGUAAUUCCAAAAGUUGUUUGUUCAAAAUUACUCAAGUUCAUGGAAUGUGUUUGCUAGUAAUAUUUUAAAUUGAGCG
........(((((((((((...(((((..(((((((((......)))........(((.((((.....)))).))).)))))))))))..)))))))))))................... (-21.75 = -21.83 +   0.09)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,166,610 – 15,166,724
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 96.26
Mean single sequence MFE -23.54
Consensus MFE -21.89
Energy contribution -21.98
Covariance contribution 0.09
Combinations/Pair 1.07
Mean z-score -2.83
Structure conservation index 0.93
SVM decision value 4.18
SVM RNA-class probability 0.999827
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15166610 114 - 20766785
CGCUCAAUUUAAAAUAUUACUAGCAAACACAUUCCAUGAACUUGAGUAAUUUUGAACAAACAACUUUUGGAAUUACUUAAUCGCAAAGUUCUGACAGAGAAAUGUUUGCUAAAA------
....................(((((((((..(((...(((((((((((((((..((.........))..)))))))))).......))))).....)))...)))))))))...------ ( -23.81)
>DroSec_CAF1 4977 114 - 1
CGCUCAAUUUAAAAUAUUACUAGCAAACACAUUCCAUGAACUUGAGUAAUUUUGAACAAACAACUUUUGGAAUUACUUAAUCGCAAAGUUCUGACAGAGAAAUGUUUGCUAAAA------
....................(((((((((..(((...(((((((((((((((..((.........))..)))))))))).......))))).....)))...)))))))))...------ ( -23.81)
>DroSim_CAF1 6630 114 - 1
CGCUCAAUUUAAAAUAUUACUAGCAAACACAUUCCAUGAACUUGAGUAAUUUUGAACAAACAACUUUUGGAAUUACUUAAUCGCAAAGUUCUGACAGAGAAAUGUUUGCUAAAA------
....................(((((((((..(((...(((((((((((((((..((.........))..)))))))))).......))))).....)))...)))))))))...------ ( -23.81)
>DroEre_CAF1 6793 114 - 1
CGCUCAAUUUAAAAUAUUACUAGCAAACACAUUCCAUGAACUUGAGUAAUUCUGAACAAACAACUUUUGGAAUUACUUAAUCGCAAAGUUCUGACAGAGAAAUGUUUGCUAAAA------
....................(((((((((..(((...(((((((((((((((..((.........))..)))))))))).......))))).....)))...)))))))))...------ ( -25.51)
>DroYak_CAF1 5023 114 - 1
CGCUCAAUUUAAAAUAUUACCAGCAAACACAUUCCAUGAACUUGAGUAAUUUUGAACAAACAACUUUUGGAAUUACUUAAUCGCAAAGUUCUGACAGAGAAAUGUUUGCUAAAA------
.....................((((((((..(((...(((((((((((((((..((.........))..)))))))))).......))))).....)))...))))))))....------ ( -22.61)
>DroAna_CAF1 4652 120 - 1
CGCUCAAUUUAAAAUAUUACUAGCAAACACAUUCCAUGAACUUGAGUAAUUUUUUACAAACAACUUUUGGAAUUACUUAAUCGCAAAGUUCUGACAGUGAAAUGUUUGCUGAGAAAAAAU
....................(((((((((((((....(((((((((((((((....((((.....)))))))))))))).......)))))....))))...)))))))))......... ( -21.71)
>consensus
CGCUCAAUUUAAAAUAUUACUAGCAAACACAUUCCAUGAACUUGAGUAAUUUUGAACAAACAACUUUUGGAAUUACUUAAUCGCAAAGUUCUGACAGAGAAAUGUUUGCUAAAA______
....................(((((((((..((((..(((((((((((((((..((.........))..)))))))))).......))))).....).))).)))))))))......... (-21.89 = -21.98 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:28 2006