Locus 8572

Sequence ID 3L_DroMel_CAF1
Location 22,355,247 – 22,355,348
Length 101
Max. P 0.599820
window14048 window14049

overview

Window 8

Location 22,355,247 – 22,355,348
Length 101
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 79.65
Mean single sequence MFE -27.62
Consensus MFE -18.21
Energy contribution -20.65
Covariance contribution 2.44
Combinations/Pair 1.12
Mean z-score -1.68
Structure conservation index 0.66
SVM decision value 0.13
SVM RNA-class probability 0.599820
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22355247 101 + 23771897
AAUUUGCGAACAGUAUAUGCCACUUGUGUGGAUAUU------------UGUUUACACUGGGCCAGAAUAGCUAAGGAUUUCUAAGUAAUGAGGUCUAAAUUAAGACCUUAACA
...((((((((((.((((.((((....)))))))))------------)))))...((.(((.......))).)).........))))((((((((......))))))))... ( -26.10)
>DroSec_CAF1 6219 113 + 1
AAUUGGCGAACAGUGUAUGCCACUUAUGUGGCUAUUUUGUGAUCCGAUUGUUUACACUGGGCCAGAAUAGCCAAGGAUUUCUGAGUAAUGAGGUCUAAAUUAAGACUACAACA
...(((((.((...)).)))))((((..(((((((((((.(.((((..((....)).)))))))))))))))).(((((((........)))))))....))))......... ( -30.90)
>DroSim_CAF1 19653 113 + 1
AAUUGGCGAACAGUAUAUGCCACUUAUGUGGCUAUUUUGCGAUCCGAUUGUUUACACUGGGCCAGAAUAGCCAAGGAUUUCUGAGUAAUGAGGUCUAAAUUAAGACUACACCA
...(((((.........)))))((((..(((((((((((.(.((((..((....)).)))))))))))))))).(((((((........)))))))....))))......... ( -29.50)
>DroYak_CAF1 4229 100 + 1
AAUUGGCGAAUAGUGUAUGCCACUUUUGUGGGUAUUUUUUGAUCCGAUGGUUUACACUGGGCACGAAUAGCC----------GUGUAAUGAGUUCUAAAUUAAGAUCU---UA
..........(((((((.((((......(((((........))))).)))).))))))).(((((......)----------))))..((((.(((......))).))---)) ( -24.00)
>consensus
AAUUGGCGAACAGUAUAUGCCACUUAUGUGGCUAUUUUGUGAUCCGAUUGUUUACACUGGGCCAGAAUAGCCAAGGAUUUCUGAGUAAUGAGGUCUAAAUUAAGACCACAACA
..(((((...(((((((.(((((....)))))....................))))))).))))).......................((((((((......))))))))... (-18.21 = -20.65 +   2.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 22,355,247 – 22,355,348
Length 101
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 79.65
Mean single sequence MFE -22.88
Consensus MFE -13.90
Energy contribution -17.15
Covariance contribution 3.25
Combinations/Pair 1.04
Mean z-score -1.79
Structure conservation index 0.61
SVM decision value 0.06
SVM RNA-class probability 0.566229
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22355247 101 - 23771897
UGUUAAGGUCUUAAUUUAGACCUCAUUACUUAGAAAUCCUUAGCUAUUCUGGCCCAGUGUAAACA------------AAUAUCCACACAAGUGGCAUAUACUGUUCGCAAAUU
.....((((((......))))))...............((..(((.....)))..))((..((((------------.((((((((....)))).))))..))))..)).... ( -20.10)
>DroSec_CAF1 6219 113 - 1
UGUUGUAGUCUUAAUUUAGACCUCAUUACUCAGAAAUCCUUGGCUAUUCUGGCCCAGUGUAAACAAUCGGAUCACAAAAUAGCCACAUAAGUGGCAUACACUGUUCGCCAAUU
...((..((((......))))..)).......(((......((((.....))))(((((((.......(.....)......(((((....))))).))))))))))....... ( -26.80)
>DroSim_CAF1 19653 113 - 1
UGGUGUAGUCUUAAUUUAGACCUCAUUACUCAGAAAUCCUUGGCUAUUCUGGCCCAGUGUAAACAAUCGGAUCGCAAAAUAGCCACAUAAGUGGCAUAUACUGUUCGCCAAUU
(((((..((((......)))).........(((..((((..((((.....))))..((....))....)))).........(((((....))))).....)))..)))))... ( -27.50)
>DroYak_CAF1 4229 100 - 1
UA---AGAUCUUAAUUUAGAACUCAUUACAC----------GGCUAUUCGUGCCCAGUGUAAACCAUCGGAUCAAAAAAUACCCACAAAAGUGGCAUACACUAUUCGCCAAUU
..---.(((((.......(....).((((((----------(((.......)))..))))))......))))).........((((....))))................... ( -17.10)
>consensus
UGUUGAAGUCUUAAUUUAGACCUCAUUACUCAGAAAUCCUUGGCUAUUCUGGCCCAGUGUAAACAAUCGGAUCACAAAAUAGCCACAUAAGUGGCAUACACUGUUCGCCAAUU
...((((((((......))))))))................((((.....))))(((((((..(.....)...........(((((....))))).))))))).......... (-13.90 = -17.15 +   3.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:19:22 2006