Locus 3701

Sequence ID 3L_DroMel_CAF1
Location 10,768,116 – 10,768,212
Length 96
Max. P 0.975652
window5782 window5783

overview

Window 2

Location 10,768,116 – 10,768,212
Length 96
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 86.43
Mean single sequence MFE -26.22
Consensus MFE -18.14
Energy contribution -18.83
Covariance contribution 0.69
Combinations/Pair 1.10
Mean z-score -3.57
Structure conservation index 0.69
SVM decision value 1.72
SVM RNA-class probability 0.973780
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10768116 96 + 23771897
UUCUUUCACAAACUAU--AACAUUUUCUCUCAGUGCAGCGUUAUUGUUACUGCUGCACUUGGAUGAAAAAUUGUAGAAGCUGUUAACGAAAACAACAA
............((((--((..((((((((.(((((((((.((....)).))))))))).))).))))).))))))..(.((((......)))).).. ( -25.90)
>DroSec_CAF1 101797 90 + 1
------CACAAACUAU--AUUUUUUUUUCUCAGUGCAGCGUUAUUGUUACUGCUGCACUUGGAUGAAAAAUUGUAGAAGCUGUUAACGAAAACAACAA
------......((((--(.((((((.(((.(((((((((.((....)).))))))))).))).)))))).)))))..(.((((......)))).).. ( -27.20)
>DroSim_CAF1 104690 96 + 1
UCCCUUCACAAACUAU--AUUUUUUUCUCUCAGUGCAGCGUUAUUGUUACUGCUGCACUUGGAUGAAAAAUUGUAGAAGCUGGUAACGAAAACAACAA
............((((--(.((((((.(((.(((((((((.((....)).))))))))).))).)))))).)))))...................... ( -26.10)
>DroEre_CAF1 106703 95 + 1
UUGUUUCACAUAAUGUGUACAUGUUUCUCUCAGUGCACCGUUAUUGUUGCUGCUGCACUUGGAUGAAAAAUUGUA---GCUGUUAACGAAAACAGCAA
......(((.....)))((((..(((((((.(((((((.((.......)).).)))))).))).))))...))))---((((((......)))))).. ( -25.70)
>consensus
UUCUUUCACAAACUAU__AUUUUUUUCUCUCAGUGCAGCGUUAUUGUUACUGCUGCACUUGGAUGAAAAAUUGUAGAAGCUGUUAACGAAAACAACAA
............((((.....(((((((((.(((((((((.((....)).))))))))).))).))))))..))))..(.((((......)))).).. (-18.14 = -18.83 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 10,768,116 – 10,768,212
Length 96
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 86.43
Mean single sequence MFE -23.62
Consensus MFE -19.12
Energy contribution -19.25
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -2.54
Structure conservation index 0.81
SVM decision value 1.75
SVM RNA-class probability 0.975652
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10768116 96 - 23771897
UUGUUGUUUUCGUUAACAGCUUCUACAAUUUUUCAUCCAAGUGCAGCAGUAACAAUAACGCUGCACUGAGAGAAAAUGUU--AUAGUUUGUGAAAGAA
........(((....((((((...(((.((((((.((..((((((((.((.......)))))))))))))))))).))).--..)).))))....))) ( -24.80)
>DroSec_CAF1 101797 90 - 1
UUGUUGUUUUCGUUAACAGCUUCUACAAUUUUUCAUCCAAGUGCAGCAGUAACAAUAACGCUGCACUGAGAAAAAAAAAU--AUAGUUUGUG------
..((((((......))))))........((((((.((..((((((((.((.......)))))))))))))))))).....--..........------ ( -21.70)
>DroSim_CAF1 104690 96 - 1
UUGUUGUUUUCGUUACCAGCUUCUACAAUUUUUCAUCCAAGUGCAGCAGUAACAAUAACGCUGCACUGAGAGAAAAAAAU--AUAGUUUGUGAAGGGA
.......(..(.((((.((((.......((((((.((..((((((((.((.......))))))))))..))))))))...--..)))).)))).)..) ( -24.90)
>DroEre_CAF1 106703 95 - 1
UUGCUGUUUUCGUUAACAGC---UACAAUUUUUCAUCCAAGUGCAGCAGCAACAAUAACGGUGCACUGAGAGAAACAUGUACACAUUAUGUGAAACAA
..((((((......))))))---((((...((((.((..((((((.(............).))))))..))))))..))))(((.....)))...... ( -23.10)
>consensus
UUGUUGUUUUCGUUAACAGCUUCUACAAUUUUUCAUCCAAGUGCAGCAGUAACAAUAACGCUGCACUGAGAGAAAAAAAU__AUAGUUUGUGAAAGAA
..((((((......))))))........((((((.((..((((((((............))))))))))))))))....................... (-19.12 = -19.25 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:41 2006