Locus 3760

Sequence ID 2R_DroMel_CAF1
Location 12,416,408 – 12,416,505
Length 97
Max. P 0.906801
window6098

overview

Window 8

Location 12,416,408 – 12,416,505
Length 97
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 62.58
Mean single sequence MFE -18.07
Consensus MFE -8.84
Energy contribution -11.04
Covariance contribution 2.20
Combinations/Pair 1.29
Mean z-score -1.84
Structure conservation index 0.49
SVM decision value 1.05
SVM RNA-class probability 0.906801
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12416408 97 - 20766785
GUGAA------AAGCUGUCUCUUAA-AAGAGAGAAAGC----------CAAAAGAA-AAAUCCACCCA-CUAAAUAUCAGAGCUUUAAGCGUUAAAGCUUUAAUGAACAUUUAGAU
.....------..(((.((((((..-..)))))).)))----------........-...........-((((((.(((((((((((.....))))))))...)))..)))))).. ( -21.20)
>DroGri_CAF1 49296 80 - 1
CUUAA------AAGCUCGCCUUUAA-CUG----UUAGU----------CGAAUGUU-AAA----GAGA-GUAAAGUUCG-----UU----AUUAAAUGUUAAUCGAAUGUUUACAA
.....------..((((..((((((-(..----.....----------.....)))-)))----).))-))...(((((-----((----(........))).)))))........ ( -14.20)
>DroSec_CAF1 32833 97 - 1
UUGAA------AAGCUGCCUCUUAA-AAGAGAGAAAGU----------CGAAAGAA-AAGUCCACCCA-CUAAAUUACGGAGCUUUAAGCGUUAAAGCUUUAAUGAACAUUUAGAU
....(------(((((.((((((..-..)))))....(----------(....)).-...........-.........).))))))((((......))))................ ( -17.10)
>DroSim_CAF1 34109 97 - 1
UUGAA------AAGCUGUCUCUUAA-AAGAGAGAAAGU----------CGAAAGAA-AAGUCCACCCA-CUAAAUUACGGAGCUUUAAGCGUUAAAGCUUUAAUGAACAUUUAGAU
.....------...((.((((((..-..)))))).))(----------(....)).-...........-((((((...(((((((((.....))))))))).......)))))).. ( -18.10)
>DroAna_CAF1 33598 107 - 1
AUUAACAUUUCAAGCUCUCUCUCACUGAGAGAGAAAGUUUCACAAUCCCAAAAAAAAACAUCCUUUUAUGUAGAUAAGAAAGCU---AGACUUAAAGCUUUA----ACAUCAAG--
....((((...((((((((((.....)))))))...((((...............))))...)))..)))).(((...((((((---........)))))).----..)))...-- ( -19.76)
>consensus
UUGAA______AAGCUGUCUCUUAA_AAGAGAGAAAGU__________CGAAAGAA_AAAUCCACCCA_CUAAAUUACGGAGCUUUAAGCGUUAAAGCUUUAAUGAACAUUUAGAU
.............(((.((((((.....)))))).)))...............................((((((...(((((((((.....))))))))).......)))))).. ( -8.84 = -11.04 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:34 2006