Locus 6893

Sequence ID 3R_DroMel_CAF1
Location 18,211,134 – 18,211,289
Length 155
Max. P 0.920212
window11191 window11192

overview

Window 1

Location 18,211,134 – 18,211,250
Length 116
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 92.67
Mean single sequence MFE -35.94
Consensus MFE -30.70
Energy contribution -31.10
Covariance contribution 0.40
Combinations/Pair 1.18
Mean z-score -1.42
Structure conservation index 0.85
SVM decision value 0.56
SVM RNA-class probability 0.780816
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18211134 116 - 27905053
AGGGUGGUGGAACAGAUCUAGGUUGAUUCUGGAACUGUGGACUGCCCUCGCGGAUAUGUGAUUGUUUACUAGGCAUUGUUACUGGCAAGGGGACUGCGGGGAUUUGGUUUGGAGUG
.(((..((...((((.((((((.....)))))).))))..))..)))(((((....))))).......((((((...(((.((.(((.(....)))).)))))...)))))).... ( -39.60)
>DroSec_CAF1 13340 116 - 1
AGGGUGGUGGAACAGAUUUAGGUUGAUUCUGGAACUGUGGACUGCCCUCGCGGAUAUGAGAUUGUUUACUAGGCAUUGUUACUGGCAAGGGGACUGCGGGAAUUUGGUUUGGAGUG
((((..((...((((.((((((.....)))))).))))..))..))))((((((((......))))).((((((...(((.((.(((.(....)))).)))))...)))))).))) ( -36.20)
>DroSim_CAF1 14028 116 - 1
AGGGUGGUGGAACAGAUUUAGGUUGAUUCUGGAACUGUGGACUGCCUUCACGGAUAUGAGAUUGUUUACUAGGCAUUGUUACUGGCAAGGGGACUGCGGGAAUUUGGUUUGGAGUG
((((..((...((((.((((((.....)))))).))))..))..))))((((((((......))))).((((((...(((.((.(((.(....)))).)))))...)))))).))) ( -33.90)
>DroEre_CAF1 13194 116 - 1
AGGGUGGCGGAACAGAUUUAGGCUGAUUCUCGAACUGUGGACUGCCCUCGCGGAUAUGGGAUUGUUUAUUAGGCACUGUUACUGGCAAGGGGACUGCGGGGAUUUGGGUAGGAGUG
..(((..((((((((.......))).))).)).))).....((((((..((.((((..........))))..)).......((.(((.(....)))).)).....))))))..... ( -28.10)
>DroYak_CAF1 9303 116 - 1
AGGGUGGUGGAACAGAUUUAGGUUGAUUCUGGAACUGUGGACUGCCCUCGCGGAUCUGGGAUUGUUUCCUAGGUACUACUACUGGCAAGGGAACUGCGGGGAUUUGGGUGGGAGUG
((((..((...((((.((((((.....)))))).))))..))..))))(((..((((((((.....)))))))).(((((.((.(((.(....)))).))......)))))..))) ( -41.90)
>consensus
AGGGUGGUGGAACAGAUUUAGGUUGAUUCUGGAACUGUGGACUGCCCUCGCGGAUAUGAGAUUGUUUACUAGGCAUUGUUACUGGCAAGGGGACUGCGGGGAUUUGGUUUGGAGUG
((((..((...((((.((((((.....)))))).))))..))..))))((((((((......))))).((((((...(((.((.(((.(....)))).)))))...)))))).))) (-30.70 = -31.10 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,211,170 – 18,211,289
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 71.44
Mean single sequence MFE -36.83
Consensus MFE -20.73
Energy contribution -22.90
Covariance contribution 2.17
Combinations/Pair 1.19
Mean z-score -1.76
Structure conservation index 0.56
SVM decision value 1.13
SVM RNA-class probability 0.920212
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18211170 119 - 27905053
GCUGCUGUUCCUUUGGCGACUGUGGUUUUGUUUGUGGCGAGGGUGGUGGAACAGAUCUAGGUUGAUUCUGGAACUGUGGACUGCCCUCGCGGAUAUGUGAUUGUUUACUAGGCAUUGUU
((..(.(((((...)).))).)..))..((((((..(((((((..((...((((.((((((.....)))))).))))..))..)))))))......((((....))))))))))..... ( -41.20)
>DroPse_CAF1 7957 102 - 1
GCUGCUGCUCCUGAGGAGUCAGUGGCAGUGUCUGCGGCGAUGGAGGUGGAAUCGAACGCGGCGUACCCUGAAACUGGGGCGAGCCUUCCGGAAUCUU---CUGUC--------------
((..(((((((...)))).)))..))...((.....))(((((((((((((........(((...((((......))))...))))))))....)))---)))))-------------- ( -35.20)
>DroSec_CAF1 13376 119 - 1
GCUGCUGUUCCUUGGGCGACUGUGGUUUUGUUUGUGGCGAGGGUGGUGGAACAGAUUUAGGUUGAUUCUGGAACUGUGGACUGCCCUCGCGGAUAUGAGAUUGUUUACUAGGCAUUGUU
((((((........)))....(..((((..(...(.(((((((..((...((((.((((((.....)))))).))))..))..))))))).)..)..))))..)......)))...... ( -40.30)
>DroSim_CAF1 14064 119 - 1
GCUGCUGUUCCUUGGGCGACUGUGGUUUUGUUUGUGGCGAGGGUGGUGGAACAGAUUUAGGUUGAUUCUGGAACUGUGGACUGCCUUCACGGAUAUGAGAUUGUUUACUAGGCAUUGUU
((((((........)))....(..((((..(.(.((..(((((..((...((((.((((((.....)))))).))))..))..))))).)).).)..))))..)......)))...... ( -32.40)
>DroEre_CAF1 13230 99 - 1
--------------------UUUGGUUUAGUUUUUGGCGAGGGUGGCGGAACAGAUUUAGGCUGAUUCUCGAACUGUGGACUGCCCUCGCGGAUAUGGGAUUGUUUAUUAGGCACUGUU
--------------------....(((((((.....(((((((..(....((((.((..((......))..))))))...)..)))))))(((((......))))))))))))...... ( -28.30)
>DroYak_CAF1 9339 99 - 1
--------------------UGUGGUUUGGUUUUUGGCGAGGGUGGUGGAACAGAUUUAGGUUGAUUCUGGAACUGUGGACUGCCCUCGCGGAUCUGGGAUUGUUUCCUAGGUACUACU
--------------------.(((((..........(((((((..((...((((.((((((.....)))))).))))..))..)))))))..((((((((.....))))))))))))). ( -43.60)
>consensus
GCUGCUGUUCCUU_GGCGACUGUGGUUUUGUUUGUGGCGAGGGUGGUGGAACAGAUUUAGGUUGAUUCUGGAACUGUGGACUGCCCUCGCGGAUAUGAGAUUGUUUACUAGGCAUUGUU
....................................(((((((((((...((((.((((((.....)))))).))))..)))))))))))............................. (-20.73 = -22.90 +   2.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:42 2006