Locus 1875

Sequence ID 3R_DroMel_CAF1
Location 5,376,705 – 5,376,798
Length 93
Max. P 0.973902
window3081

overview

Window 1

Location 5,376,705 – 5,376,798
Length 93
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 68.70
Mean single sequence MFE -18.93
Consensus MFE -3.76
Energy contribution -4.56
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.55
Structure conservation index 0.20
SVM decision value 1.72
SVM RNA-class probability 0.973902
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5376705 93 - 27905053
AAAACCAGCUAGCCAACAAGAGUUUCGUUGGUAUACAUAUCCAUAUAUUCAUAUAAUCAAUGUGUGUAAAGAAAACGAAACUA----AGAAAAGCGA
...........((.......(((((((((..(((((((((...((((....))))....))))))))).....))))))))).----......)).. ( -19.74)
>DroVir_CAF1 16416 79 - 1
AAAGGCAGGCA-------AACAUUUUUAUGGUAUACAUA----UAUAUUCAUAUAAUCGAUGUGCGUAUG-----CGUAUGUGUGUGUGUGCUUC--
..(((((.(((-------..(((....))).((((((((----(((((.(((((.....))))).)))).-----.)))))))))))).))))).-- ( -20.50)
>DroEre_CAF1 11943 93 - 1
AAAACCAGCUAGCCAACAAGCGUUUCGUUGGUAUACAUAUCCAUAUAUUCAUAUAACCAAUGUGUGUAAAGAAAACGAAACUA----AGAAAAACGA
.......(((........)))((((((((..(((((((((...((((....))))....))))))))).....))))))))..----.......... ( -18.60)
>DroYak_CAF1 14476 93 - 1
AAAACCAGCUAGCCAACAAGCGUUUCGGUGGUAUACAUAUCCAUAUAUUCAUAUAAUCAAUGUGUGUAAAGAAAACGAAACUA----AGAAAAACGA
.......(((........)))((((((.(..(((((((((...((((....))))....)))))))))..)....))))))..----.......... ( -16.10)
>DroMoj_CAF1 12654 78 - 1
AAAGUCAGGCA-------UACAUUUCUAUAGUAUACAUA--CAUAUAUUCAUAUAAUCGAUGUGCGUAUG-----CGUGUGU---CGUAUGUCUC--
......(((((-------((((((.....)))..(((((--(.(((((.(((((.....))))).)))))-----.))))))---.)))))))).-- ( -19.70)
>consensus
AAAACCAGCUAGCCAACAAGCGUUUCGAUGGUAUACAUAUCCAUAUAUUCAUAUAAUCAAUGUGUGUAAAGAAAACGAAACUA____AGAAAAACGA
...............................(((((((((...((((....))))....)))))))))............................. ( -3.76 =  -4.56 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:39 2006