Locus 1158

Sequence ID 2L_DroMel_CAF1
Location 3,169,576 – 3,169,683
Length 107
Max. P 0.992262
window1875 window1876

overview

Window 5

Location 3,169,576 – 3,169,683
Length 107
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 85.94
Mean single sequence MFE -36.92
Consensus MFE -34.74
Energy contribution -34.30
Covariance contribution -0.44
Combinations/Pair 1.03
Mean z-score -1.40
Structure conservation index 0.94
SVM decision value 0.51
SVM RNA-class probability 0.764311
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3169576 107 + 22407834
CAAGAGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGACUGCGAUGACAAG--AGUUAC-------UUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......))))))))))))..((((...--.)))).-------...... ( -33.60)
>DroVir_CAF1 8805 107 + 1
CACAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGAAACAAGG--UGUUUC-------UUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......))))))))))))(((((....--.)))))-------...... ( -39.10)
>DroPse_CAF1 21154 114 + 1
AACAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGUUCCGUUGGAUGUUUUUU--UUCCGUUUU
........((....)).((((((..((((((((..((.......((((.....))))(((((((((..(((........))))))))))))))..))))))))..--..)))))). ( -39.40)
>DroEre_CAF1 6057 107 + 1
CAAGAGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGACUGCGAUGAAUUG--AGUUUC-------UUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......))))))))))))...(((...--...)))-------...... ( -33.10)
>DroMoj_CAF1 5037 107 + 1
CAGAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGAGAGAUUU--GAAUUC-------AUUUUU
((((....(((.(((((....))))).))).))))....(((.((((((...((((.(.((((((((.......)))))..))).).))))))))--)).)))-------...... ( -38.30)
>DroPer_CAF1 17738 116 + 1
AACAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGUUUCGUCGGAUGUUUUUCAUUCCUUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......))))))))))))........(((((.....)))))....... ( -38.00)
>consensus
CACAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGAUACAUUG__UGUUUC_______UUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))).............................. (-34.74 = -34.30 +  -0.44) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 3,169,576 – 3,169,683
Length 107
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 85.94
Mean single sequence MFE -35.00
Consensus MFE -33.86
Energy contribution -33.42
Covariance contribution -0.44
Combinations/Pair 1.04
Mean z-score -2.18
Structure conservation index 0.97
SVM decision value 2.32
SVM RNA-class probability 0.992262
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3169576 107 - 22407834
AAAAAA-------GUAACU--CUUGUCAUCGCAGUCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCUCUUG
......-------......--.........((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -32.02)
>DroVir_CAF1 8805 107 - 1
AAAAAA-------GAAACA--CCUUGUUUCGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUGUG
......-------(((((.--....)))))((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -38.62)
>DroPse_CAF1 21154 114 - 1
AAAACGGAA--AAAAAACAUCCAACGGAACGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUGUU
.....(((.--........)))........((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -35.72)
>DroEre_CAF1 6057 107 - 1
AAAAAA-------GAAACU--CAAUUCAUCGCAGUCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCUCUUG
......-------(((...--...)))...((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -32.12)
>DroMoj_CAF1 5037 107 - 1
AAAAAU-------GAAUUC--AAAUCUCUCGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUCUG
......-------......--.........((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -34.12)
>DroPer_CAF1 17738 116 - 1
AAAAAAGGAAUGAAAAACAUCCGACGAAACGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUGUU
......(((.((.....)))))(((((...((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))))))) ( -37.42)
>consensus
AAAAAA_______GAAACA__CAAUGCAUCGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUGUG
..............................((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... (-33.86 = -33.42 +  -0.44) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:02 2006