Locus 1118

Sequence ID 2L_DroMel_CAF1
Location 3,020,466 – 3,020,572
Length 106
Max. P 0.806233
window1821 window1822

overview

Window 1

Location 3,020,466 – 3,020,572
Length 106
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 83.77
Mean single sequence MFE -25.20
Consensus MFE -15.69
Energy contribution -15.20
Covariance contribution -0.49
Combinations/Pair 1.43
Mean z-score -2.85
Structure conservation index 0.62
SVM decision value 0.24
SVM RNA-class probability 0.650297
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3020466 106 + 22407834
CAACAGCAACAACAUUAGGCAAUGCUGCAGUGACCACUACAGCACCUACUUCUAGCACCCUCAUGCAGAUGCUAGCCAACAUGGCAAACUCCACAACCACAACGCU
....((((.......((((...(((((.(((....))).)))))))))..(((.(((......)))))))))).(((.....)))..................... ( -23.90)
>DroSec_CAF1 1686 106 + 1
CAACAGCAGCUACAUUAGGAAAUGCUGCAGUGACCACAACAGCACCCACUUCUAGCACCCUCAUGCAGAUGCUAGCCAAUAUGGCAAACUCUACAACCACAACGCU
....((((.((.(((.(((...(((((.((((..............))))..))))).))).))).)).)))).(((.....)))..................... ( -22.54)
>DroSim_CAF1 4254 106 + 1
CAACAGCAGCUACAUUAGGGAAUGCUGCAGUGACCACAACAGCACCCACUUCUAGCACCCUCAUGCAGAUGCUAGCCAACAUGGCAAACUCCACAACCACAACGCU
....((((.((.(((.((((..(((((.((((..............))))..))))))))).))).)).)))).(((.....)))..................... ( -25.94)
>DroEre_CAF1 7308 106 + 1
GAACAGCAUCAACAUUAGGCAAUGCUGCAGUGACCACUACAGCACCCACUUCUAGCACCCUCAUGCAGAUGAUAGCUAACAUGGCAAAUUCCACAUCUACAUCGCU
....(((((((......((...(((((.(((....))).))))).))...(((.(((......)))))))))).(((.....)))..................))) ( -20.70)
>DroYak_CAF1 13004 106 + 1
CAACCGCAGCAACAUCAGGCAAUGCUGCAGUGACCACUGCAGCACCCACUUCUAGCACCCUCAUGCAGAUGCUAGCCAACAUGGCAAACUCCACAACCGCCACCCU
.....((((((......((...(((((((((....))))))))).))...(((.(((......)))))))))).(((.....))).............))...... ( -31.00)
>DroAna_CAF1 23589 103 + 1
UA---GGAGCAACAGCAGGUAAUGUAGCCACGACUACGCCUGUCCCUACCUCCAGCACCCUAAUGCAAAUGCUGGCCAGUAUGGCCAACUCCACUACCACGACCUU
..---((((((...((((((...((((......))))))))))...........(((......)))...)))(((((.....)))))..))).............. ( -27.10)
>consensus
CAACAGCAGCAACAUUAGGCAAUGCUGCAGUGACCACUACAGCACCCACUUCUAGCACCCUCAUGCAGAUGCUAGCCAACAUGGCAAACUCCACAACCACAACGCU
.....(((((.......((...(((((.(((....))).))))).)).......(((......)))....))).(((.....)))..................)). (-15.69 = -15.20 +  -0.49) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,020,466 – 3,020,572
Length 106
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 83.77
Mean single sequence MFE -38.92
Consensus MFE -28.80
Energy contribution -28.62
Covariance contribution -0.18
Combinations/Pair 1.38
Mean z-score -2.63
Structure conservation index 0.74
SVM decision value 0.63
SVM RNA-class probability 0.806233
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3020466 106 - 22407834
AGCGUUGUGGUUGUGGAGUUUGCCAUGUUGGCUAGCAUCUGCAUGAGGGUGCUAGAAGUAGGUGCUGUAGUGGUCACUGCAGCAUUGCCUAAUGUUGUUGCUGUUG
(((((((.(((.((((......)))).....(((((((((......))))))))).....(((((((((((....))))))))))))))))))))).......... ( -38.20)
>DroSec_CAF1 1686 106 - 1
AGCGUUGUGGUUGUAGAGUUUGCCAUAUUGGCUAGCAUCUGCAUGAGGGUGCUAGAAGUGGGUGCUGUUGUGGUCACUGCAGCAUUUCCUAAUGUAGCUGCUGUUG
(((..((((((..........))))))...)))((((.((((((.((((((((...(((((.(((....))).)))))..)))))..))).)))))).)))).... ( -37.40)
>DroSim_CAF1 4254 106 - 1
AGCGUUGUGGUUGUGGAGUUUGCCAUGUUGGCUAGCAUCUGCAUGAGGGUGCUAGAAGUGGGUGCUGUUGUGGUCACUGCAGCAUUCCCUAAUGUAGCUGCUGUUG
(((..((((((..........))))))...)))((((.((((((.((((((((...(((((.(((....))).)))))..))))..)))).)))))).)))).... ( -38.00)
>DroEre_CAF1 7308 106 - 1
AGCGAUGUAGAUGUGGAAUUUGCCAUGUUAGCUAUCAUCUGCAUGAGGGUGCUAGAAGUGGGUGCUGUAGUGGUCACUGCAGCAUUGCCUAAUGUUGAUGCUGUUC
((((((((.(((((((......))))))).)).)))(((.((((..((((((.....)).(((((((((((....))))))))))))))).)))).)))))).... ( -36.90)
>DroYak_CAF1 13004 106 - 1
AGGGUGGCGGUUGUGGAGUUUGCCAUGUUGGCUAGCAUCUGCAUGAGGGUGCUAGAAGUGGGUGCUGCAGUGGUCACUGCAGCAUUGCCUGAUGUUGCUGCGGUUG
...(..((..(...((......((((.....(((((((((......)))))))))..))))((((((((((....))))))))))..))....)..))..)..... ( -43.10)
>DroAna_CAF1 23589 103 - 1
AAGGUCGUGGUAGUGGAGUUGGCCAUACUGGCCAGCAUUUGCAUUAGGGUGCUGGAGGUAGGGACAGGCGUAGUCGUGGCUACAUUACCUGCUGUUGCUCC---UA
.(((..((..(((..(.(((..((.((((..(((((((((......))))))))).)))).))...)))(((((....))))).....)..)))..)).))---). ( -39.90)
>consensus
AGCGUUGUGGUUGUGGAGUUUGCCAUGUUGGCUAGCAUCUGCAUGAGGGUGCUAGAAGUGGGUGCUGUAGUGGUCACUGCAGCAUUGCCUAAUGUUGCUGCUGUUG
......(((((.((((......))))((((((((((((((......))))))))).....(((((((((((....)))))))))))..)))))...)))))..... (-28.80 = -28.62 +  -0.18) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:10 2006