Locus 6687

Sequence ID 3L_DroMel_CAF1
Location 17,804,008 – 17,804,117
Length 109
Max. P 0.996171
window10881 window10882

overview

Window 1

Location 17,804,008 – 17,804,117
Length 109
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 90.39
Mean single sequence MFE -33.97
Consensus MFE -33.36
Energy contribution -34.03
Covariance contribution 0.67
Combinations/Pair 1.10
Mean z-score -3.20
Structure conservation index 0.98
SVM decision value 2.66
SVM RNA-class probability 0.996171
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17804008 109 + 23771897
UAAAGCUGAUGGAAAGCGAUGCAUACGCAGAGUCGCGGAAUUUAAACACUGCGAUUCUAUAAAAUC---UUUGCACAUGCAUCGUUUAAAAUCAGCUUAAGACAAGGCGUGG
..((((((((...(((((((((((..((((((((((((..........))))))))).........---..)))..)))))))))))...)))))))).............. ( -39.20)
>DroSec_CAF1 28513 109 + 1
UAAAGCUGAUGGAUGACGAUGCAUACGCAGAGUCGCGGAAUUUCAACACUGCGAUUUUAUCAAGUU---UUUGCAGAUGCAUCAUUUAAAAUCAGCUUAAGACAAGGCGUGG
..((((((((....((.(((((((..((((((((((((..........)))))))...........---)))))..))))))).))....)))))))).............. ( -32.90)
>DroSim_CAF1 27218 112 + 1
UAAAGCUAAUGGAAAGCGAGGCAUAUGCAGAGUCGCGGAAUUUCAACACUGCGAUUUUAUCAAAUUUUUUUUGCAGAUGCAUCGUUUAAAAUCAGCUUAAGACAAGGCGUGG
..(((((.((...((((((.((((.(((((((((((((..........))))))))))...(((.....)))))).)))).))))))...)).))))).............. ( -29.80)
>consensus
UAAAGCUGAUGGAAAGCGAUGCAUACGCAGAGUCGCGGAAUUUCAACACUGCGAUUUUAUCAAAUU___UUUGCAGAUGCAUCGUUUAAAAUCAGCUUAAGACAAGGCGUGG
..((((((((...(((((((((((..((((((((((((..........)))))))))..............)))..)))))))))))...)))))))).............. (-33.36 = -34.03 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,804,008 – 17,804,117
Length 109
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 90.39
Mean single sequence MFE -29.20
Consensus MFE -25.23
Energy contribution -25.57
Covariance contribution 0.34
Combinations/Pair 1.11
Mean z-score -2.94
Structure conservation index 0.86
SVM decision value 1.39
SVM RNA-class probability 0.949201
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17804008 109 - 23771897
CCACGCCUUGUCUUAAGCUGAUUUUAAACGAUGCAUGUGCAAA---GAUUUUAUAGAAUCGCAGUGUUUAAAUUCCGCGACUCUGCGUAUGCAUCGCUUUCCAUCAGCUUUA
..............((((((((...((.(((((((((......---(((((....)))))((((.(((..........))).)))).))))))))).))...)))))))).. ( -31.90)
>DroSec_CAF1 28513 109 - 1
CCACGCCUUGUCUUAAGCUGAUUUUAAAUGAUGCAUCUGCAAA---AACUUGAUAAAAUCGCAGUGUUGAAAUUCCGCGACUCUGCGUAUGCAUCGUCAUCCAUCAGCUUUA
..............((((((((.....(((((((((...(((.---...))).......(((((.((((........)))).))))).))))))))).....)))))))).. ( -31.00)
>DroSim_CAF1 27218 112 - 1
CCACGCCUUGUCUUAAGCUGAUUUUAAACGAUGCAUCUGCAAAAAAAAUUUGAUAAAAUCGCAGUGUUGAAAUUCCGCGACUCUGCAUAUGCCUCGCUUUCCAUUAGCUUUA
..............((((((((...((.(((.((((...((((.....))))........((((.((((........)))).))))..)))).))).))...)))))))).. ( -24.70)
>consensus
CCACGCCUUGUCUUAAGCUGAUUUUAAACGAUGCAUCUGCAAA___AAUUUGAUAAAAUCGCAGUGUUGAAAUUCCGCGACUCUGCGUAUGCAUCGCUUUCCAUCAGCUUUA
..............((((((((......((((((((...........((((....)))).((((.((((........)))).))))..))))))))......)))))))).. (-25.23 = -25.57 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:36 2006