Locus 10009

Sequence ID 3R_DroMel_CAF1
Location 26,787,505 – 26,787,625
Length 120
Max. P 0.500000
window15955

overview

Window 5

Location 26,787,505 – 26,787,625
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.33
Mean single sequence MFE -38.73
Consensus MFE -22.01
Energy contribution -22.43
Covariance contribution 0.42
Combinations/Pair 1.39
Mean z-score -1.63
Structure conservation index 0.57
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26787505 120 - 27905053
UAUCCAUUCGAUGAGGUAGGGCACAGAGUGAACAUCGGGGAGGGUGGGCAAUACAUAUCUUUUGUCCUGGGCCACCUUUUCGAGGCCCAACCUUAGCAUCUCCUUCAUCAAGGGGAUAUU
.........(.((((((.((((...(((....).)).(..(((((((.(...(((.......)))....).)))))))..)...)))).)))))).)((((((((....))))))))... ( -43.70)
>DroSec_CAF1 90418 120 - 1
UAUCCAUUCGAUGAGGUAGGGCACAGAGUGGACAUCGGGUAGGGUGGGCAAUACAUAUCUCUUGUCCUGGGCCACCUUCUCUAGGCCCAACCUUAACAUCUCCUUCAUCAAGGGGAUAUU
.........(.((((((.((((..((((.(((((..(((((..(((.....))).)))))..))))).((....))..))))..)))).)))))).)((((((((....))))))))... ( -44.20)
>DroEre_CAF1 92503 120 - 1
UAUCCAUUCGAUGAGGUAGGGAACAGAGUGCACAUCGGGCAGGGUGGGCAAUACAUAUCUCUUGUCCUGGGCCACCUUUUCCAGGCCCAACCUAAGCAUCUCCUUCAUCAAAGGGAUAUU
(((((....(((((((..(....).((((((.....((((((((((.......)))....)))))))((((((..........))))))......))).))))))))))....))))).. ( -41.20)
>DroWil_CAF1 108480 120 - 1
UAUCCAUUCGACUAGAUAUGGCACGGAUUCAACAUCGGGUAAGGUGGGCAACACAUAUCGACGAUUUUCGCCUACUUUAUCCAGACCUUUUCUCAGCAUAUGCUUCAUAAGUUUUAUGUC
....(((..(((((((...(((...(((.....)))(((((((((((((....................))))))))))))).).))...))).(((....))).....))))..))).. ( -27.55)
>DroYak_CAF1 94385 120 - 1
UAUCCAUUCGAUGAGGUAGGGAACGGAGUGGACAUCGGGCAGGGUGGGCAACACAUAUCUCUUGUCCUGGGCCACCUUUUCCAGGCCCAGCCUGAGCAUCUCCUUCAUCAAGGGAAUGUU
..(((....((((((...(....)((((..(...((((((.....((((((..........))))))((((((..........)))))))))))).)..))))))))))...)))..... ( -42.40)
>DroAna_CAF1 106222 120 - 1
GAUCCAAUCGAGUAGAUAUGGCACCGUUUGGACAUCCGGUAAGGUUGGGAGAACGAAACGCUUGUCCUCGCCCACCUUCUCGAGGCCAAGCCUUAGCAUCUCCUUCAUUAAGGGCAGGUU
...((((((.....))).))).(((((((((...((.((.(((((.(((((.((((.....)))).))).)).))))))).))..))))))....((....((((....)))))).))). ( -33.30)
>consensus
UAUCCAUUCGAUGAGGUAGGGCACAGAGUGGACAUCGGGUAGGGUGGGCAAUACAUAUCUCUUGUCCUGGGCCACCUUUUCCAGGCCCAACCUUAGCAUCUCCUUCAUCAAGGGGAUAUU
.........(...((((.(((....((.......))((..(((((((.(...(((.......)))....).)))))))..))...))).))))...)((((((((....))))))))... (-22.01 = -22.43 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:46:59 2006