Locus 3744

Sequence ID 3R_DroMel_CAF1
Location 10,159,947 – 10,160,042
Length 95
Max. P 0.842975
window6001 window6002

overview

Window 1

Location 10,159,947 – 10,160,042
Length 95
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 76.41
Mean single sequence MFE -20.37
Consensus MFE -15.95
Energy contribution -15.73
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.39
Structure conservation index 0.78
SVM decision value 0.76
SVM RNA-class probability 0.842975
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10159947 95 + 27905053
AA----------UGGAUAUGGAAUGGAAUAAAUUUAUAAAUCAAGCACUCAUAUUAAAUCACAGUGACUAGCUAACAUGCUGGUUAGCAUCUCCUUUUUGAAAGG
..----------.(((.(((((((.......)))).............................((((((((......)))))))).))).)))........... ( -14.90)
>DroSec_CAF1 18491 91 + 1
AAUGGAAUUAUUUGGAUAUGGAAUGGACUUGAUUUAUAAAUU--------------AAUCACAGUGACUAGCUAACAUGCUGGUUAGCAUCUCCGUUUUGGAAGC
..........((..((.((((((((.((((((((........--------------))))).)))(((((((......)))))))..))).)))))))..))... ( -21.70)
>DroSim_CAF1 17575 91 + 1
UAUUGAAUUAUUUGGAUAUGGAAUGGACUUAAUUUAUAAAUU--------------AGUCACAGUGACUAGCUAACAUGCUGGUCAGCAUCUCCGUUUUGGACGC
..........((..((.((((((((((((.((((....))))--------------))))....((((((((......)))))))).))).)))))))..))... ( -24.50)
>consensus
AAU_GAAUUAUUUGGAUAUGGAAUGGACUUAAUUUAUAAAUU______________AAUCACAGUGACUAGCUAACAUGCUGGUUAGCAUCUCCGUUUUGGAAGC
.............(((.(((((((.......)))).............................((((((((......)))))))).))).)))........... (-15.95 = -15.73 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 10,159,947 – 10,160,042
Length 95
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 76.41
Mean single sequence MFE -14.70
Consensus MFE -12.34
Energy contribution -11.90
Covariance contribution -0.44
Combinations/Pair 1.14
Mean z-score -0.76
Structure conservation index 0.84
SVM decision value -0.05
SVM RNA-class probability 0.509024
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10159947 95 - 27905053
CCUUUCAAAAAGGAGAUGCUAACCAGCAUGUUAGCUAGUCACUGUGAUUUAAUAUGAGUGCUUGAUUUAUAAAUUUAUUCCAUUCCAUAUCCA----------UU
...........((((((((((((......))))))..)))..((..((....(((((((.....))))))).....))..)).......))).----------.. ( -13.80)
>DroSec_CAF1 18491 91 - 1
GCUUCCAAAACGGAGAUGCUAACCAGCAUGUUAGCUAGUCACUGUGAUU--------------AAUUUAUAAAUCAAGUCCAUUCCAUAUCCAAAUAAUUCCAUU
...........((((((((((((......))))))..)))(((.(((((--------------........))))))))..........)))............. ( -14.10)
>DroSim_CAF1 17575 91 - 1
GCGUCCAAAACGGAGAUGCUGACCAGCAUGUUAGCUAGUCACUGUGACU--------------AAUUUAUAAAUUAAGUCCAUUCCAUAUCCAAAUAAUUCAAUA
((((((......).)))))((((.(((......))).)))).((.((((--------------((((....)))).))))))....................... ( -16.20)
>consensus
GCUUCCAAAACGGAGAUGCUAACCAGCAUGUUAGCUAGUCACUGUGAUU______________AAUUUAUAAAUUAAGUCCAUUCCAUAUCCAAAUAAUUC_AUU
...........((((..((((((......)))))).((((.....)))).................................))))................... (-12.34 = -11.90 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:00 2006