Locus 3930

Sequence ID 3L_DroMel_CAF1
Location 11,403,683 – 11,403,809
Length 126
Max. P 0.995839
window6118 window6119

overview

Window 8

Location 11,403,683 – 11,403,786
Length 103
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 85.84
Mean single sequence MFE -24.20
Consensus MFE -18.66
Energy contribution -18.26
Covariance contribution -0.40
Combinations/Pair 1.09
Mean z-score -2.32
Structure conservation index 0.77
SVM decision value 1.40
SVM RNA-class probability 0.950000
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11403683 103 + 23771897
CCCGAAUGCGAUCCUAUAAUAUCAAUUAGGAUAUACCGUGGAAACACAAGGUGAAGGCCAUUGCUUUCACAUUUCUAAAGAAUAUCUUAAUUACCUGCCAAUG---
.......(((((........)))(((((((((((...(((....)))...((((((((....))))))))...........)))))))))))....)).....--- ( -27.10)
>DroSec_CAF1 123914 101 + 1
CC--AUUGCGAUCCUAUAAUAUCAAUUAGGAUAUACCGUGGAAUCGCAAGGUGAAGGCCGUUGCUUUCACAUUUCUAAAGAAUAUCUUAAUUAGCUGCCAAUC---
..--...(((((........)))(((((((((((.(..(((((.(....)((((((((....))))))))..)))))..).))))))))))).))........--- ( -27.00)
>DroSim_CAF1 136040 101 + 1
CC--AAUGCGAUCCUACAAUAUCAAUUAGGAUAUACCGUGGAAUCGCAAGGUGAAGGCCGUUGCUUUCAAAUUUCUAAAGAAUAUCUUAAUUAGCUGCCAAUC---
..--..((((((.((((.(((((......)))))...)))).)))))).(((((((((....)))))).........(((.....)))........)))....--- ( -24.50)
>DroEre_CAF1 130890 97 + 1
CCA---UGAGAUCCCAUAAUAUCAAUUAGGAUAUACCGUGGAAUAACAAGGUGAAGGCCGUUGCUUUCAAAUUCUUAAGGCAUAUUUUAAUUACCUGCUG------
...---.................(((((((((((.((..(((((.......(((((((....))))))).)))))...)).)))))))))))........------ ( -19.20)
>DroYak_CAF1 121644 106 + 1
CCAAAAUGAGAUCCUAUAAUAUCAAUUAGGAUAUACCGUGGAAAAGCAAGGUGAAGGCCGUUGCCUUCAAAAUCUUAAAGCAUAUUUUAAUUACCUGCCAAUAUCU
(((.......((((((..........))))))......)))....(((.(((((((((....))))))......((((((....))))))..))))))........ ( -23.22)
>consensus
CC__AAUGCGAUCCUAUAAUAUCAAUUAGGAUAUACCGUGGAAUCGCAAGGUGAAGGCCGUUGCUUUCAAAUUUCUAAAGAAUAUCUUAAUUACCUGCCAAUC___
.......................((((((((((((((.((......)).)))((((((....)))))).............))))))))))).............. (-18.66 = -18.26 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 11,403,709 – 11,403,809
Length 100
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 68.35
Mean single sequence MFE -23.00
Consensus MFE -15.56
Energy contribution -15.16
Covariance contribution -0.40
Combinations/Pair 1.11
Mean z-score -2.17
Structure conservation index 0.68
SVM decision value 2.62
SVM RNA-class probability 0.995839
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11403709 100 + 23771897
UAGGAUAUACCGUGGAAACACAAGGUGAAGGCCAUUGCUUUCACAUUUCUAAAGAAUAUCUUAAUUACCUGCCAAUG--------------------CAAGAAAUUAGUGUGUGAAAGCA
..((...(((((((....)))..))))....))..(((((((((((..((((((.....))).....(.(((....)--------------------)).)....))).))))))))))) ( -28.50)
>DroSec_CAF1 123938 79 + 1
UAGGAUAUACCGUGGAAUCGCAAGGUGAAGGCCGUUGCUUUCACAUUUCUAAAGAAUAUCUUAAUUAGCUGCCAAUC--------------------UA---------------------
((((((((.(..(((((.(....)((((((((....))))))))..)))))..).))))))))..............--------------------..--------------------- ( -22.10)
>DroSim_CAF1 136064 79 + 1
UAGGAUAUACCGUGGAAUCGCAAGGUGAAGGCCGUUGCUUUCAAAUUUCUAAAGAAUAUCUUAAUUAGCUGCCAAUC--------------------UA---------------------
((((((((.(..(((((((....))(((((((....)))))))...)))))..).))))))))..............--------------------..--------------------- ( -19.20)
>DroEre_CAF1 130913 100 + 1
UAGGAUAUACCGUGGAAUAACAAGGUGAAGGCCGUUGCUUUCAAAUUCUUAAGGCAUAUUUUAAUUACCUGCUG--------------------AUUAUAUAAAUGACAGUGUAAAAAAA
((((((((.((..(((((.......(((((((....))))))).)))))...)).)))))))).((((..((((--------------------.((((....))))))))))))..... ( -21.20)
>DroYak_CAF1 121670 120 + 1
UAGGAUAUACCGUGGAAAAGCAAGGUGAAGGCCGUUGCCUUCAAAAUCUUAAAGCAUAUUUUAAUUACCUGCCAAUAUCUCAUAUAACUACUGUAUUAUACAAAUGAGAGUGUGAGAACA
((((((..(((.((......)).)))((((((....))))))...))))))..(((.............))).....((((((((..((..((((...))))....)).))))))))... ( -24.02)
>consensus
UAGGAUAUACCGUGGAAUCGCAAGGUGAAGGCCGUUGCUUUCAAAUUUCUAAAGAAUAUCUUAAUUACCUGCCAAUC____________________AAA_AAAU_A__GUGU_A_A__A
(((((((((((.((......)).)))((((((....)))))).............))))))))......................................................... (-15.56 = -15.16 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:16 2006