Locus 7140

Sequence ID 3R_DroMel_CAF1
Location 18,814,802 – 18,814,937
Length 135
Max. P 0.876787
window11553 window11554

overview

Window 3

Location 18,814,802 – 18,814,898
Length 96
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 71.14
Mean single sequence MFE -20.52
Consensus MFE -12.60
Energy contribution -13.43
Covariance contribution 0.83
Combinations/Pair 1.23
Mean z-score -1.50
Structure conservation index 0.61
SVM decision value 0.90
SVM RNA-class probability 0.876787
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18814802 96 - 27905053
GGUGAACUAGGGUGGUAUCAUUUUACUUUGUCCAGCUUGAA-CUUACUUUCUACAUCCUAGUUCAC--UUCUAGUUCCUUAAAAUUACUGCUGA--CAUCC---
(((((((((((((((((......)))............(((-......)))..)))))))))))))--).........................--.....--- ( -22.20)
>DroSec_CAF1 40032 96 - 1
GGUGAACUAGGGUGGUAUCAUUUUACUUAGUCCAGCUUGAA-CUUACUUUCUACAUCCUAGUUCGC--UCCUAGUUCCUUAAAAUUACUACUGA--CAUCC---
(((((((((((((((((......)))............(((-......)))..)))))))))))))--).........................--.....--- ( -21.80)
>DroSim_CAF1 43203 96 - 1
GGUGAACUAGGGUGGUAUCAUUUUACUAAGUCCAGCUUGAA-CUUACUUUCUACAUCCUAGUUCAC--UCCUAGUUCCUUAAAAUUACUACUGA--CAUCC---
(((((((((((((((((......)))(((((.(.....).)-)))).......)))))))))))))--).........................--.....--- ( -24.60)
>DroEre_CAF1 40291 94 - 1
GGUGAACUAGGGUGGUAUCAAUAAACUUUUCCCUCGCUGAA-CUCUCUUUUUACGUCCUAGUUCAC--UCCAAGCGCC-UGGACAUUCUGCUGG--CAUC----
(((((((((((..(...........................-...........)..))))))))))--)......(((-.((.....))...))--)...---- ( -21.76)
>DroYak_CAF1 42736 84 - 1
UGUGAACUAGGGCGGUAUCAAUAGACUUUCUCCUGGCUGAA-CCUACAUUUUACAUCCUAGUUC------------CU-UGAAAUUACUGCUGG--CAUC----
...(((((((((.(((.(((.(((........)))..))))-))...........)))))))))------------..-...............--....---- ( -14.20)
>DroAna_CAF1 42482 101 - 1
CCCGAACUAGGGUAGUAUUGUCAUACUG-GUUCACGUUGAAACUAGCUUCUAAGAUUCCAGUUCAUGGUAAUAGUUA--AAAAUUUGCUUCUGAAGCAGCCUGC
(((......)))...((((..(((((((-(........(((......))).......)))))..)))..))))....--.....(((((.....)))))..... ( -18.56)
>consensus
GGUGAACUAGGGUGGUAUCAUUAUACUUUGUCCAGCUUGAA_CUUACUUUCUACAUCCUAGUUCAC__UCCUAGUUCC_UAAAAUUACUGCUGA__CAUCC___
.(((((((((((((.......................................)))))))))))))...................................... (-12.60 = -13.43 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,814,826 – 18,814,937
Length 111
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 70.98
Mean single sequence MFE -26.64
Consensus MFE -13.29
Energy contribution -13.88
Covariance contribution 0.59
Combinations/Pair 1.38
Mean z-score -1.53
Structure conservation index 0.50
SVM decision value 0.05
SVM RNA-class probability 0.560455
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18814826 111 - 27905053
CCUCAAUGGGUAGCCUUGUGGAAUUUU-UUGUUGAUUCAAGGUGAACUAGGGUGGUAUCAUUUUACUUUGUCCAGCUUGAA-CUUACUUUCUACAUCCUAGUUCAC--UUCUAGU
..(((((..(...((....)).....)-..)))))....((((((((((((((((((......)))............(((-......)))..)))))))))))))--))..... ( -29.20)
>DroSec_CAF1 40056 112 - 1
CCCUAAUGGGCACCCUUGUGGAAUUUUUUUUUUGAUUCAAGGUGAACUAGGGUGGUAUCAUUUUACUUAGUCCAGCUUGAA-CUUACUUUCUACAUCCUAGUUCGC--UCCUAGU
(((....)))(((....)))(((((........)))))..(((((((((((((((((......)))............(((-......)))..)))))))))))))--)...... ( -29.10)
>DroSim_CAF1 43227 112 - 1
CCUUAAUGGGCAGCCUUGUGGAAUUUUUUUUUUGAUUCAAGGUGAACUAGGGUGGUAUCAUUUUACUAAGUCCAGCUUGAA-CUUACUUUCUACAUCCUAGUUCAC--UCCUAGU
......((((..........(((((........)))))..(((((((((((((((((......)))(((((.(.....).)-)))).......)))))))))))))--))))).. ( -30.40)
>DroEre_CAF1 40313 111 - 1
CCUUAUUGGGUAAGUUAGUGGACAUUU-UUUUGGAUUUUGGGUGAACUAGGGUGGUAUCAAUAAACUUUUCCCUCGCUGAA-CUCUCUUUUUACGUCCUAGUUCAC--UCCAAGC
(((....)))...(((....)))....-........(((((((((((((((..(...........................-...........)..))))))))))--.))))). ( -23.66)
>DroYak_CAF1 42757 101 - 1
CCUUUAUGGGUGACCUUGUGGAAAUUU-UUUU-GAUUUAGUGUGAACUAGGGCGGUAUCAAUAGACUUUCUCCUGGCUGAA-CCUACAUUUUACAUCCUAGUUC-----------
((.....((....))....))......-....-..........(((((((((.(((.(((.(((........)))..))))-))...........)))))))))----------- ( -19.40)
>DroAna_CAF1 42509 114 - 1
UAUUUAUAGGGGUUUCCCUGGGAUCUUUCUGUUAAUAAAGCCCGAACUAGGGUAGUAUUGUCAUACUG-GUUCACGUUGAAACUAGCUUCUAAGAUUCCAGUUCAUGGUAAUAGU
.......((((....))))((((((((..((.(((((..((((......))))..))))).))..(((-((((.....).)))))).....))))))))................ ( -28.10)
>consensus
CCUUAAUGGGUAACCUUGUGGAAUUUU_UUUUUGAUUCAAGGUGAACUAGGGUGGUAUCAUUAUACUUUGUCCAGCUUGAA_CUUACUUUCUACAUCCUAGUUCAC__UCCUAGU
(((....)))...............................(((((((((((((.......................................)))))))))))))......... (-13.29 = -13.88 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:26 2006