Locus 627

Sequence ID 3L_DroMel_CAF1
Location 1,860,236 – 1,860,329
Length 93
Max. P 0.598994
window964

overview

Window 4

Location 1,860,236 – 1,860,329
Length 93
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 85.79
Mean single sequence MFE -31.92
Consensus MFE -27.40
Energy contribution -27.18
Covariance contribution -0.22
Combinations/Pair 1.17
Mean z-score -1.54
Structure conservation index 0.86
SVM decision value 0.13
SVM RNA-class probability 0.598994
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1860236 93 + 23771897
CCGGACUUUCGGCCUCAUCCGGCCGGGCAACCUGCAGAUACUCCUGGAUAUCGUAGUCGAACAGCUCGAAGUCGUAUCUGUGGGG-----AGG-------AAUUU
((.....(((((((......)))))))...((..(((((((.....(((.(((.(((......)))))).))))))))))..)).-----.))-------..... ( -33.90)
>DroSec_CAF1 144 93 + 1
CCGGACUUUCGGCCUCAUCCGGCCGGGCAACCUGCAGAUACUCCUGGAUAUCGUAGUCGAACAGCUCGAAGUCGUAUCUGUGGGG-----AGC-------AAUUU
........((((((......))))))((..((..(((((((.....(((.(((.(((......)))))).))))))))))..)).-----.))-------..... ( -35.60)
>DroSim_CAF1 21 93 + 1
CCGGACUUUCGGCCUCAUCCGGCCGGGCAACCUGCAGAUACUCCUGGAUAUCGUAGUCGAACAGCUCGAAGUCGUAUCUGUGGGU-----AAA-------AGUUA
...(((((((((((......)))))....(((..(((((((.....(((.(((.(((......)))))).))))))))))..)))-----.))-------)))). ( -35.60)
>DroEre_CAF1 37 100 + 1
CCGGACUUUCGGCCUCAUCCGGCCGGGCAACCUGCAGAUACUCCUGGAUAUCGUAGUCGAACAGCUCAAAGUCGUAUCUGUGGGG-----AAAAACAAAUUAUUU
.......(((((((......)))))))...((..(((((((..((((...(((....)))....))...))..)))))))..)).-----............... ( -29.50)
>DroYak_CAF1 21 93 + 1
CCGGACUUUCGGCCUCAUCCGGCCGGGCAACCUGCAGAUACUCCUGGAUGUCGUAGUCGAACAGCUCAAAGUCGUAUCUGUGGGU-----AAA-------UAUUU
.......(((((((......)))))))..(((..(((((((..((...(((((....)).)))......))..)))))))..)))-----...-------..... ( -32.20)
>DroAna_CAF1 21 101 + 1
CAGGACUGCCGGCCUCGUCGGGCUGGGCCACCUGCAGAUAUUCCUGGAUGUCAUAGUCGAACAGCUCAAAGUCGUAUCUGAAGAACACAGAAAAAUA----AGAU
((((....(((((((....)))))))....))))(((((((..((.(((......)))((.....))..))..))))))).................----.... ( -24.70)
>consensus
CCGGACUUUCGGCCUCAUCCGGCCGGGCAACCUGCAGAUACUCCUGGAUAUCGUAGUCGAACAGCUCAAAGUCGUAUCUGUGGGG_____AAA_______AAUUU
........((((((......))))))....(((((((((((..((.(((......)))((.....))..))..)))))))))))..................... (-27.40 = -27.18 +  -0.22) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:07 2006