Locus 3342

Sequence ID 3R_DroMel_CAF1
Location 8,996,600 – 8,996,691
Length 91
Max. P 0.522740
window5383

overview

Window 3

Location 8,996,600 – 8,996,691
Length 91
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 84.44
Mean single sequence MFE -33.95
Consensus MFE -22.07
Energy contribution -23.15
Covariance contribution 1.08
Combinations/Pair 1.13
Mean z-score -2.57
Structure conservation index 0.65
SVM decision value -0.02
SVM RNA-class probability 0.522740
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8996600 91 + 27905053
CCGCCCAGCCUCUGUCUCGUCUUGGCAGCAAAAUGACAAAUCGAGGCAGGCAGAC----UGCAGCCGUUGCGGAGGCAGGG--CAAACAUGUGAAGA
..((((.((((((((((((..(((.((......)).)))..))))((((.....)----))).......)))))))).)))--)............. ( -37.10)
>DroSec_CAF1 110698 91 + 1
CCGCCCAGCCUCUGUCUCGUCUUGGCAGCAAAAUGACAAAUCGAGGCAGGCAGAC----UGCAGCCAUUGCGGAGGCAGGG--CAAACAUGUGAAGA
..((((.((((((((((((..(((.((......)).)))..))))((((.....)----))).......)))))))).)))--)............. ( -37.10)
>DroSim_CAF1 113852 91 + 1
CCGCCCAGCCUCUGUCUCGUCUUGGCAGCAAAAUGACAAAUCGAGGCAGGCAGAC----UGCAGCCAUUGCGGAGGCAGGG--CAAACAUGUGAAGA
..((((.((((((((((((..(((.((......)).)))..))))((((.....)----))).......)))))))).)))--)............. ( -37.10)
>DroEre_CAF1 116333 91 + 1
CCGCCCAGCCUCUGUCUCGUCUUGGCAGCGAAAUGACAAAUCGAGGCAGGCAGAC----UGCAGCCGUUGCGGAGGCUGGG--CAAACAUGUGAAGA
..(((((((((((((((((..(((.((......)).)))..))))((((.....)----))).......))))))))))))--)............. ( -42.40)
>DroWil_CAF1 115056 86 + 1
-----------CUAUUUUUUCUUGGCAGCCAAAUGACAAAUCGAGGCAGGCAGACUGACUGCAACAACAACAGAGACAACAACCACAUAUCGGCUAA
-----------...........((((.(((...(((....))).)))..((((.....))))..............................)))). ( -12.40)
>DroYak_CAF1 121742 91 + 1
CUGCCCAGCCUCUGUCUCGUCUUGGCAGCAAAAUGACAAAUCGAGGCAGGCAGAC----UGCAGCCGUUGCGGAGGCAGGG--CAAACAUGUGAAGA
.(((((.((((((((((((..(((.((......)).)))..))))((((.....)----))).......)))))))).)))--))............ ( -37.60)
>consensus
CCGCCCAGCCUCUGUCUCGUCUUGGCAGCAAAAUGACAAAUCGAGGCAGGCAGAC____UGCAGCCAUUGCGGAGGCAGGG__CAAACAUGUGAAGA
...(((.((((((((((((..(((.((......)).)))..))))))..(((.......))).........)))))).)))................ (-22.07 = -23.15 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:49 2006