Locus 4238

Sequence ID 3R_DroMel_CAF1
Location 11,375,939 – 11,376,058
Length 119
Max. P 0.589246
window6871

overview

Window 1

Location 11,375,939 – 11,376,058
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.48
Mean single sequence MFE -28.20
Consensus MFE -27.20
Energy contribution -26.68
Covariance contribution -0.52
Combinations/Pair 1.10
Mean z-score -1.17
Structure conservation index 0.96
SVM decision value 0.11
SVM RNA-class probability 0.589246
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11375939 119 + 27905053
AAUAAGACAAAAAUUUAUUU-AAGUAUUUGUCUUACCUCUAGUUGCACAUCUUUGGCUUUCAUCUGCAGGGUAUGAGCAAUCACUGAUUGAGUCUGAUCAAUCCAUUGGGUAGCCGAGAA
..(((((((((.((((....-)))).))))))))).(((..(((((.((((((((.(........)))))).))).)))))....((((((......))))))....((....))))).. ( -28.20)
>DroSec_CAF1 123577 120 + 1
AAUACUAAACAAACUUAAUUAAAUUAUUUGUGUUACCUCUAGUUGCACAUCUUUGGCUUUCAUCUGCAGGGUAUGAGCAAUCACAGAUUGAGUCUGAUCAAUCCAUUGGGUAGCCGAGAA
..........................((((.(((((((...(((((.((((((((.(........)))))).))).)))))....((((((......))))))....))))))))))).. ( -26.60)
>DroSim_CAF1 114581 120 + 1
AAUACUAAACAAACUUAAUUAAAUUAUUUGUGUUACCUCUAGUUGCACAUCUUUGGCUUUCAUCUGCAGGGUAUGGGCAAUCACUGAUUGAGUCUGAUCAAUCCAUUGGGUAGCCGAGAA
..........................((((.(((((((...(((((.((((((((.(........)))))).))).)))))....((((((......))))))....))))))))))).. ( -26.40)
>DroEre_CAF1 111134 118 + 1
AAUUAGA-GAAAAAUG-AUUAAAUAAUUUGCGCCACCUCUAGUUGCACAUCCUUGGCUUUCAUCUGCAGGGCAUGAGCAAUCACUGAUUGAGUCUGGUCAAUCCAUUGGGUGGCCGAGAA
.......-........-.........((((.(((((((...(((((.((((((((.(........)))))).))).)))))....((((((......))))))....))))))))))).. ( -32.70)
>DroYak_CAF1 113676 118 + 1
AAUUCAA-ACAAAAUU-AUUAAAUAAUUUGUGUUACCUCUAGUUGCACAUCCUUGGCCUUCAUCUGCAGGGUAUGAGCAAUCACUGAUUGAGUCUGGUCAAUCCACUGGGUAGCCGAGAA
.......-........-.........((((.(((((((...(((((.((((((((...........))))).))).)))))....((((((......))))))....))))))))))).. ( -27.10)
>consensus
AAUACGA_ACAAAAUUAAUUAAAUUAUUUGUGUUACCUCUAGUUGCACAUCUUUGGCUUUCAUCUGCAGGGUAUGAGCAAUCACUGAUUGAGUCUGAUCAAUCCAUUGGGUAGCCGAGAA
..........................((((.(((((((...(((((.((((((((.(........)))))).))).)))))....((((((......))))))....))))))))))).. (-27.20 = -26.68 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:04 2006