Locus 1997

Sequence ID X_DroMel_CAF1
Location 5,494,882 – 5,494,972
Length 90
Max. P 0.747871
window3253

overview

Window 3

Location 5,494,882 – 5,494,972
Length 90
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 81.94
Mean single sequence MFE -14.30
Consensus MFE -11.24
Energy contribution -11.24
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.79
SVM decision value 0.47
SVM RNA-class probability 0.747871
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5494882 90 + 22224390
UAUGUACGUAAGCCGCUCCGCAUUUGUAUCUAAUUGCAGGCGUGCCCACAAAA------AACGAAGAAAAAAAAACUAAAAACCAAAAGCCAUAAC
.......((..((((((..(((.(((....))).))).)))).))..))....------..................................... ( -11.50)
>DroSec_CAF1 19652 81 + 1
UAUGUACGUAAGCCGCU-CGCAUUUGUAUCUAAUUGCAGGCGUGCCCACAAA-------AACGA------AAAAACUAACAA-CAAAAGCCAUAAC
.......((..(((((.-.(((.(((....))).)))..))).))..))...-------.....------............-............. ( -13.00)
>DroSim_CAF1 13137 82 + 1
UAUGUACGUAAGCCGCU-CGCAUUUGUAUCUAAUUGCAGGCGUGCCCACAAAA------AACGA------AAAAACUAACAA-CAAAAGCCAUAAC
.......((..(((((.-.(((.(((....))).)))..))).))..))....------.....------............-............. ( -13.00)
>DroEre_CAF1 30299 87 + 1
UAUGUACGUAGGCCGCU-CGCAUUUGUAUCGAAUUGCAGGCGUGCCCACAUAAAGAACAAACAA------AAAAUACAACCA-A-AAUCCCAAAAC
.......((.((((((.-.(((((((...)))).)))..))).))).))...............------............-.-........... ( -16.90)
>DroYak_CAF1 21269 78 + 1
UAUGUACGUAGGCCGCU-CGCAUUUGUAUCUAAUUGCAGGCGUGCCCACA-----ACCAAACAA------AAAAAACAACAA-C-AA---CAAAA-
.......((.((((((.-.(((.(((....))).)))..))).))).)).-----.........------............-.-..---.....- ( -17.10)
>consensus
UAUGUACGUAAGCCGCU_CGCAUUUGUAUCUAAUUGCAGGCGUGCCCACAAAA______AACGA______AAAAACUAACAA_CAAAAGCCAUAAC
..(((..(((.(((((...))...((((......))))))).)))..))).............................................. (-11.24 = -11.24 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:49 2006