Locus 7708

Sequence ID 3L_DroMel_CAF1
Location 20,609,303 – 20,609,459
Length 156
Max. P 0.998722
window12536 window12537 window12538

overview

Window 6

Location 20,609,303 – 20,609,419
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.16
Mean single sequence MFE -30.62
Consensus MFE -23.70
Energy contribution -23.94
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.77
Structure conservation index 0.77
SVM decision value 0.53
SVM RNA-class probability 0.769552
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20609303 116 - 23771897
UCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGAGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAGCAGCGACUAC----CCAGCGAAAGCCAGCUCCAUAUAGUA
((((((((((((.(((((((((....))))))........((.((((......))))))....))).))))......))).)))))....----...((....))............... ( -27.60)
>DroSec_CAF1 54162 116 - 1
UCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAGCAGCCACUAC----CCAGCAAAAGCCAGCUCCAUAUGGUA
..(((.((((((((..((((((....))))))....(((((((......))))))).......)))))))).......))).((((....----..(((........))).....)))). ( -29.50)
>DroAna_CAF1 75986 116 - 1
UCGCUCUGUGUG--CGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAACGGCUAUUGCCAGCCAAGUAAAAGUCAGCCCGAGCUCG--
..((((.(((..--..((((((....))))))....)))..((((.(((((..((((.......)))).............((((......)))).......)))))))))))))...-- ( -38.50)
>DroSim_CAF1 48992 116 - 1
UCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAGCAGCGACUAC----CCAGCAAAAGCCAGCUCCAUAUAGUA
.(((((((((((.(((((((((....))))))....(((((((......))))))).......))).))))......))).))))((((.----..(((........))).....)))). ( -29.00)
>DroEre_CAF1 46639 116 - 1
UCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAGCAGCGCUUAC----CCAGCAAAAGCCAGCUCCAUAUAGUA
..(((..(((.((((.((((((....))))))....(((((((......))))))).......(((.............))))))).)))----..)))..................... ( -28.52)
>consensus
UCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAGCAGCGACUAC____CCAGCAAAAGCCAGCUCCAUAUAGUA
..(((.(((((((...((((((....))))))....(((((((......)))))))........)))))))...........((.............)).......)))........... (-23.70 = -23.94 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,609,339 – 20,609,459
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.33
Mean single sequence MFE -28.65
Consensus MFE -25.66
Energy contribution -25.50
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -1.40
Structure conservation index 0.90
SVM decision value 0.69
SVM RNA-class probability 0.823832
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20609339 120 + 23771897
CUGGAAUUUUGUAUGCAUUUAUGGCACUUAGUCAUGCUCAAGUGAUUUGCUAAACUAGUUUAGCCGCGCACACAGAGCGAAUUCCCAUUGGGUAAUUCCAAAACAUUGCGCCACACAAAA
..(((((((...........(((((.....)))))((((..(((....((((((....))))))....)))...)))))))))))...((((((((........))))).)))....... ( -29.50)
>DroSec_CAF1 54198 120 + 1
CUGGAAUUUUGUAUGCAUUUAUGGCACUUAGUCAUGCCCAAGUGAUUUGCUAAACUAGUUUAGCCGCGCACACAGAGCGAAUUCCCAUUGGGUAAUUCCAAAACAUUGCGCCACACAAAA
......((((((.......((((((.....)))))).....(((....((((((....)))))).(((((........((((((((...))).)))))........)))))))))))))) ( -28.79)
>DroAna_CAF1 76024 118 + 1
UUGGAAUUUUGUAUGCAUUUAUGGCACUUAGUCAUGCCCAAGUGAUUUGCUAAACUAGUUUAGCCG--CACACAGAGCGAAUUCCCAUUGGGUAAUUCCAAAACCGUACACUCAACAAAA
((((((((............(((((.....)))))((((((.((....((((((....))))))((--(.......)))......))))))))))))))))................... ( -27.40)
>DroSim_CAF1 49028 120 + 1
CUGGAAUUUUGUAUGCAUUUAUGGCACUUAGUCAUGCCCAAGUGAUUUGCUAAACUAGUUUAGCCGCGCACACAGAGCGAAUUCCCAUUGGGUAAUUCCAAAACAUUGCGCCACACAAAA
......((((((.......((((((.....)))))).....(((....((((((....)))))).(((((........((((((((...))).)))))........)))))))))))))) ( -28.79)
>DroEre_CAF1 46675 120 + 1
CUGGAAUUUUGUAUGCAUUUAUGGCACUUAGUCAUGCCCAAGUGAUUUGCUAAACUAGUUUAGCCGCGCACACAGAGCGAAUUCCCAUUGGGUAAUUCCAAAACAUUGCGCCACACAAAA
......((((((.......((((((.....)))))).....(((....((((((....)))))).(((((........((((((((...))).)))))........)))))))))))))) ( -28.79)
>consensus
CUGGAAUUUUGUAUGCAUUUAUGGCACUUAGUCAUGCCCAAGUGAUUUGCUAAACUAGUUUAGCCGCGCACACAGAGCGAAUUCCCAUUGGGUAAUUCCAAAACAUUGCGCCACACAAAA
.(((((((............(((((.....)))))(((((((((....((((((....))))))....)))...(((....)))...))))))))))))).................... (-25.66 = -25.50 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 20,609,339 – 20,609,459
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.33
Mean single sequence MFE -36.41
Consensus MFE -32.24
Energy contribution -32.36
Covariance contribution 0.12
Combinations/Pair 1.08
Mean z-score -2.50
Structure conservation index 0.89
SVM decision value 3.20
SVM RNA-class probability 0.998722
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20609339 120 - 23771897
UUUUGUGUGGCGCAAUGUUUUGGAAUUACCCAAUGGGAAUUCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGAGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAG
.....((((((((...(((...(((((.(((...))))))))((((...(((....((((((....))))))....)))..))))..)))...))))))))................... ( -36.10)
>DroSec_CAF1 54198 120 - 1
UUUUGUGUGGCGCAAUGUUUUGGAAUUACCCAAUGGGAAUUCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAG
((((((((((((((........(((((.(((...))))))))........))))).((((((....))))))....(((((((......))))))).........)))))))))...... ( -37.39)
>DroAna_CAF1 76024 118 - 1
UUUUGUUGAGUGUACGGUUUUGGAAUUACCCAAUGGGAAUUCGCUCUGUGUG--CGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAA
...................((((((((.(((...))).........((((((--((((((((....))))))....(((((((......))))))).......)))))))).)))))))) ( -33.80)
>DroSim_CAF1 49028 120 - 1
UUUUGUGUGGCGCAAUGUUUUGGAAUUACCCAAUGGGAAUUCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAG
((((((((((((((........(((((.(((...))))))))........))))).((((((....))))))....(((((((......))))))).........)))))))))...... ( -37.39)
>DroEre_CAF1 46675 120 - 1
UUUUGUGUGGCGCAAUGUUUUGGAAUUACCCAAUGGGAAUUCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAG
((((((((((((((........(((((.(((...))))))))........))))).((((((....))))))....(((((((......))))))).........)))))))))...... ( -37.39)
>consensus
UUUUGUGUGGCGCAAUGUUUUGGAAUUACCCAAUGGGAAUUCGCUCUGUGUGCGCGGCUAAACUAGUUUAGCAAAUCACUUGGGCAUGACUAAGUGCCAUAAAUGCAUACAAAAUUCCAG
(((((((((((((...(((...(((((.(((...))))))))((((...(((....((((((....))))))....)))..))))..)))...)))))))........))))))...... (-32.24 = -32.36 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:34 2006