Locus 6734

Sequence ID 3L_DroMel_CAF1
Location 18,036,608 – 18,036,719
Length 111
Max. P 0.637543
window10949

overview

Window 9

Location 18,036,608 – 18,036,719
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.67
Mean single sequence MFE -20.87
Consensus MFE -13.08
Energy contribution -12.88
Covariance contribution -0.20
Combinations/Pair 1.30
Mean z-score -1.70
Structure conservation index 0.63
SVM decision value 0.21
SVM RNA-class probability 0.637543
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18036608 111 + 23771897
AAUUAGCCGAACGGGAGUCAAAACAAAAGAAAACAAAGACGGACAGAAAUCUGAUAAUCGU---------CAAGCGGAAAAAGAAAUUUACCGUUUGAUAUCGGCCGAGCCUGAAUAUAA
..(..(((((....(((((..................)))...(((....)))....))((---------(((((((..(((....))).))))))))).)))))..)............ ( -24.47)
>DroSec_CAF1 150875 104 + 1
AAUUAUCCGAACGGGAGUCAAAACAAAAGG-----AAGACAGACAGAAAUCUGAUAAUCGU---------CAAACGGAAAA--AAAUUUACCGUUUGAUAUUGGCCGAGUCUGAAUAUAA
...........((((.(((((.........-----....((((......))))......((---------((((((((((.--...))).))))))))).)))))....))))....... ( -20.80)
>DroSim_CAF1 162479 104 + 1
UAUUAUCCGAACGGGAGUCAAAACAAAAGG-----AAGACAGACAGAAAUCUGAUAAUCGU---------CAAACGGAAAA--AAAUGUACCGUUUGAUAUCGGCCGAGUCUGAAUAUAA
.....(((.....)))..............-----....(((((......(((((....((---------(((((((....--.......))))))))))))))....)))))....... ( -21.70)
>DroEre_CAF1 152616 106 + 1
AAUAAUAAAGGCGGGAGUCAAAACAAAAA--------A---GACAGAAAUCUGAUAAUCGU-UUGUAGCUGAAACGGAAAA--AAAUGUACCGUUUGAUAUCGAUCGAGCUUGAAUAUAA
.........(((....)))...(((((..--------.---(((((....)))....)).)-))))((((.((((((....--.......))))))(((....))).))))......... ( -16.80)
>DroYak_CAF1 158485 110 + 1
AAUAAUCCGGACGGGAGUCAAAACAAAAA--------CACGAACAUUAAGCUGAUAGUUGUUUUGUAGCUAAAACGGAUAA--AUAUGUACCGUUUGAUAUCGACCGAGCUUGAAUAUAA
.........(((....)))..........--------........(((((((..((((((.....))))))(((((((((.--...))).))))))...........)))))))...... ( -20.60)
>consensus
AAUUAUCCGAACGGGAGUCAAAACAAAAG______AAGACAGACAGAAAUCUGAUAAUCGU_________CAAACGGAAAA__AAAUGUACCGUUUGAUAUCGGCCGAGCCUGAAUAUAA
...........((((.(((........................(((....))).................((((((((((......))).))))))).....)))....))))....... (-13.08 = -12.88 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:41 2006