Locus 3964

Sequence ID 2L_DroMel_CAF1
Location 11,576,593 – 11,576,696
Length 103
Max. P 0.956859
window6250 window6251

overview

Window 0

Location 11,576,593 – 11,576,696
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 88.52
Mean single sequence MFE -30.93
Consensus MFE -24.58
Energy contribution -24.03
Covariance contribution -0.55
Combinations/Pair 1.16
Mean z-score -2.13
Structure conservation index 0.79
SVM decision value 0.26
SVM RNA-class probability 0.656669
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11576593 103 + 22407834
AAGGGGGGAAUGUACAGGAGUGGGAUUCCCCCAAUCACAUAUGUAUGCACUUACGUGAGUCCUUAGAAAUGAGGUCCUUGUAUGUAUGUAUUGGUUGGGAAUG
..(((((((.(.(((....))).).)))))))(((((.(((((((((((...((....))(((((....)))))....)))))))))))..)))))....... ( -32.40)
>DroSec_CAF1 31047 99 + 1
AAGGGGGGAAUGCACAGGAGUGGGAUUCCCCCUAUCACAUAC----ACAUUUAUGUGAGUCCUUAGGGAAGAGGUCCUAGUAUGUAUGUAUUGGUUGGGAAUG
.((((((((.(.(((....))).).)))))))).(((((((.----.....)))))))(.((((......)))).)(((((((....)))))))......... ( -32.00)
>DroSim_CAF1 32731 99 + 1
AAGGGGGGAAAGCACAGGAGUGGGAUUCCCCCUAUCACAUAU----ACAUUUACGUGAGUCCUUACGGAGAAGGUCCUAGUAUGUAUGUAUUGGUUGGGAAUG
..((((((((..(((....)))...)))))))).((((.((.----.....)).)))).((((.(((((.....)))((((((....)))))))).))))... ( -28.40)
>consensus
AAGGGGGGAAUGCACAGGAGUGGGAUUCCCCCUAUCACAUAU____ACAUUUACGUGAGUCCUUAGGGAAGAGGUCCUAGUAUGUAUGUAUUGGUUGGGAAUG
..(((((((.(.(((....))).).)))))))....((((((.....(((....))).(.((((......)))).)...)))))).................. (-24.58 = -24.03 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 11,576,593 – 11,576,696
Length 103
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 88.52
Mean single sequence MFE -25.83
Consensus MFE -20.82
Energy contribution -20.93
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -3.77
Structure conservation index 0.81
SVM decision value 1.47
SVM RNA-class probability 0.956859
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11576593 103 - 22407834
CAUUCCCAACCAAUACAUACAUACAAGGACCUCAUUUCUAAGGACUCACGUAAGUGCAUACAUAUGUGAUUGGGGGAAUCCCACUCCUGUACAUUCCCCCCUU
.................((((((......(((........)))...(((....)))......))))))...((((((((...((....))..))))))))... ( -22.30)
>DroSec_CAF1 31047 99 - 1
CAUUCCCAACCAAUACAUACAUACUAGGACCUCUUCCCUAAGGACUCACAUAAAUGU----GUAUGUGAUAGGGGGAAUCCCACUCCUGUGCAUUCCCCCCUU
.............((((((((((.((((........)))).(......).....)))----)))))))...((((((((..(((....))).))))))))... ( -28.60)
>DroSim_CAF1 32731 99 - 1
CAUUCCCAACCAAUACAUACAUACUAGGACCUUCUCCGUAAGGACUCACGUAAAUGU----AUAUGUGAUAGGGGGAAUCCCACUCCUGUGCUUUCCCCCCUU
...............((((.((((....((....(((....))).....))....))----)).))))...(((((((...(((....)))..)))))))... ( -26.60)
>consensus
CAUUCCCAACCAAUACAUACAUACUAGGACCUCAUCCCUAAGGACUCACGUAAAUGU____AUAUGUGAUAGGGGGAAUCCCACUCCUGUGCAUUCCCCCCUU
.............................(((........)))..(((((((..........)))))))..(((((((...(((....)))..)))))))... (-20.82 = -20.93 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:56 2006