Locus 8615

Sequence ID 3R_DroMel_CAF1
Location 23,017,900 – 23,017,990
Length 90
Max. P 0.994639
window13846 window13847

overview

Window 6

Location 23,017,900 – 23,017,990
Length 90
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 82.53
Mean single sequence MFE -36.70
Consensus MFE -24.17
Energy contribution -25.24
Covariance contribution 1.06
Combinations/Pair 1.08
Mean z-score -3.30
Structure conservation index 0.66
SVM decision value 2.50
SVM RNA-class probability 0.994639
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23017900 90 + 27905053
CACUGUGCAUCAUCAACGCUAAUUGACACGCAGAUGAUGCUGCUGCUGCUGCAGUUGCAGUUGC------AGUAGCGGCA----ACCGCAGCAAGCCGCA
..((((((((((((..((..........))..))))))))((((((((((((((......))))------))))))))))----...))))......... ( -38.90)
>DroSim_CAF1 8676 96 + 1
CACUGUGCAUCAUCAACGCUAAUUGACACGCAGAGGCUGCUGCUGCUGCGGCAGUUGCAGUUGCAGUAGCAGUAGCGGCA----ACCGCAGCAAGCCGCA
..(((((..(((...........)))..))))).((((((((((((((((((.......)))))))))))))).((((..----.))))....))))... ( -42.70)
>DroEre_CAF1 23987 85 + 1
CACUGUGCAUCAUCAACGCUAAUUGACACGCAGAUGCUGCUGC---------AGUUGCAGUAGC------GGCAGCCGCAGCCAGCCGCAGCAAGCCGCA
..(((((..(((...........)))..)))))..((((((((---------....))))))))------(((.((.((.(....).)).))..)))... ( -30.70)
>DroYak_CAF1 24520 81 + 1
CACUGUGCAUCAUCAACGCUAAUUGACACGCAGCUGCUGCUGC---------UGCUGCAGUAGC------AGUAGCGGCA----ACCGCAGCAAGCCGCA
...((((..(((...........)))..))))(((((((((((---------((((((....))------))))))))))----...)))))........ ( -34.50)
>consensus
CACUGUGCAUCAUCAACGCUAAUUGACACGCAGAUGCUGCUGC_________AGUUGCAGUAGC______AGUAGCGGCA____ACCGCAGCAAGCCGCA
..(((((..(((...........)))..))))).((((((.(((((....))))).))))))............(((((...............))))). (-24.17 = -25.24 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 23,017,900 – 23,017,990
Length 90
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 82.53
Mean single sequence MFE -39.92
Consensus MFE -23.84
Energy contribution -24.90
Covariance contribution 1.06
Combinations/Pair 1.04
Mean z-score -3.35
Structure conservation index 0.60
SVM decision value 2.00
SVM RNA-class probability 0.985303
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23017900 90 - 27905053
UGCGGCUUGCUGCGGU----UGCCGCUACU------GCAACUGCAACUGCAGCAGCAGCAGCAUCAUCUGCGUGUCAAUUAGCGUUGAUGAUGCACAGUG
(((.(((.((((((((----(((.((....------))....)))))))))))))).)))((((((((.((((........)))).))))))))...... ( -46.80)
>DroSim_CAF1 8676 96 - 1
UGCGGCUUGCUGCGGU----UGCCGCUACUGCUACUGCAACUGCAACUGCCGCAGCAGCAGCAGCCUCUGCGUGUCAAUUAGCGUUGAUGAUGCACAGUG
(((.(((.((((((((----....((...(((....)))...))....))))))))))).)))..((.(((((((((((....)))))).))))).)).. ( -38.90)
>DroEre_CAF1 23987 85 - 1
UGCGGCUUGCUGCGGCUGGCUGCGGCUGCC------GCUACUGCAACU---------GCAGCAGCAUCUGCGUGUCAAUUAGCGUUGAUGAUGCACAGUG
.(((((..(((((((....))))))).)))------)).......(((---------(..(((.((((.((((........)))).)))).))).)))). ( -39.40)
>DroYak_CAF1 24520 81 - 1
UGCGGCUUGCUGCGGU----UGCCGCUACU------GCUACUGCAGCA---------GCAGCAGCAGCUGCGUGUCAAUUAGCGUUGAUGAUGCACAGUG
.((((((.(((((((.----..))(((.((------((....)))).)---------)).)))))))))))((((((.(((....)))))))))...... ( -34.60)
>consensus
UGCGGCUUGCUGCGGU____UGCCGCUACU______GCAACUGCAACU_________GCAGCAGCAUCUGCGUGUCAAUUAGCGUUGAUGAUGCACAGUG
(((((.((((.(((((.....)))))..........)))))))))...............(((.((((.((((........)))).)))).)))...... (-23.84 = -24.90 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:35 2006