Locus 741

Sequence ID	3R_DroMel_CAF1
Location	2,632,407 – 2,632,559
Length	152
Max. P	0.942009

overview

Window 2

Location	2,632,407 – 2,632,523
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	80.62
Mean single sequence MFE	-24.37
Consensus MFE	-13.63
Energy contribution	-14.27
Covariance contribution	0.64
Combinations/Pair	1.14
Mean z-score	-1.91
Structure conservation index	0.56
SVM decision value	0.14
SVM RNA-class probability	0.604704
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2632407 116 - 27905053
UUCUACAUUUUACAAUCAAGUUCGA----AAACAAAGCGAAUAUGUCGGACCGCACGAGUUCGAAUGAUUGUAAGCAAACUCGAAAAUGUCAUUAUGCAGUCGAACGAAAUUAAUAUUUA
(((.....((((((((((.(((((.----........)))))...(((((((....).)))))).)))))))))).....((((...(((......))).))))..)))........... ( -23.90)
>DroSec_CAF1 32560 115 - 1
UUCUACAUUUUACAAUCAAGUUCGAAUAAAAACGAAGCGAAUUUGUAGGACCGCACGAGUUCGAAUGAUUGUAAGCAAGCUUGAAAAUGUCAUUAUGCAUUCGAACGAAAAUAAU-----
...................((((((((..........(((((((((........)))))))))((((((..((((....)))).....))))))....)))))))).........----- ( -24.70)
>DroSim_CAF1 20788 120 - 1
UUCUACAUUUUACAAUCAAGUUCGAAUAAAAACGAAGCGAAUUUGUAGGACCGCACGAGUUCGAAUGAUUGUAAGCAAGCUGGAAAAUGUCAUUAUGCAUUCGAACGAAAUUAAUAUUUA
((((((..((((((((((..((((........)))).(((((((((........)))))))))..))))))))))...).)))))(((((......)))))................... ( -23.10)
>DroEre_CAF1 22113 112 - 1
UUCUACAUUUUACAAUCUAGUUCGAAAGAAAACAAGGCGAAUUUGUAGG--------AGUUCGAAUGAAUGUUAACAAUCUCGAACAAGUCGUAAUGCAUUCGAACCAAAUUAAUAUUUA
(((((((..((.........(((....))).........))..))))))--------)(((((((((..((....))((..(((.....)))..)).))))))))).............. ( -23.17)
>DroYak_CAF1 14416 109 - 1
UUCUACAUCUUACAUUCAAGUUCGAAAGAAAGCAAAGCGAAUUCGUAGG--------AGUUCGAAUGAAUGUAGGCAAACUCGACAAAA--AUGAUGAGUUCGAACACAAUU-AUAUUUA
........((((((((((..(((....))).......(((((((....)--------))))))..))))))))))(.((((((.((...--.)).)))))).).........-....... ( -27.00)
>consensus
UUCUACAUUUUACAAUCAAGUUCGAAAAAAAACAAAGCGAAUUUGUAGGACCGCACGAGUUCGAAUGAUUGUAAGCAAACUCGAAAAUGUCAUUAUGCAUUCGAACGAAAUUAAUAUUUA
............(...((((((((.............))))))))...).........(((((((((...((((..................)))).))))))))).............. (-13.63 = -14.27 +   0.64)

alignment

secondary structure

dotplot

Window 3

Location	2,632,447 – 2,632,559
Length	112
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	82.58
Mean single sequence MFE	-28.34
Consensus MFE	-20.71
Energy contribution	-22.27
Covariance contribution	1.56
Combinations/Pair	1.19
Mean z-score	-2.29
Structure conservation index	0.73
SVM decision value	1.32
SVM RNA-class probability	0.942009
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2632447 112 - 27905053
UUGUGUAUUAGCUAAGU-UGUAAAAUU---UUCUGAUACAUUCUACAUUUUACAAUCAAGUUCGA----AAACAAAGCGAAUAUGUCGGACCGCACGAGUUCGAAUGAUUGUAAGCAAAC
..(((((((((..((((-(....))))---).))))))))).......((((((((((.(((((.----........)))))...(((((((....).)))))).))))))))))..... ( -28.30)
>DroSec_CAF1 32595 117 - 1
UUGUGUAUUAGCUAAGCGUGUAAAAUU---UGCUGAUACAUUCUACAUUUUACAAUCAAGUUCGAAUAAAAACGAAGCGAAUUUGUAGGACCGCACGAGUUCGAAUGAUUGUAAGCAAGC
..((((((((((...............---.)))))))))).......((((((((((..((((........)))).(((((((((........)))))))))..))))))))))..... ( -30.79)
>DroSim_CAF1 20828 117 - 1
UUGUGUAUUAGCUAAGCGUGUAAAAUU---UGCUGAUACAUUCUACAUUUUACAAUCAAGUUCGAAUAAAAACGAAGCGAAUUUGUAGGACCGCACGAGUUCGAAUGAUUGUAAGCAAGC
..((((((((((...............---.)))))))))).......((((((((((..((((........)))).(((((((((........)))))))))..))))))))))..... ( -30.79)
>DroEre_CAF1 22153 108 - 1
UUGUGUAUUAGCUAAGC-CCUGGAAUU---CGCAGAUACAUUCUACAUUUUACAAUCUAGUUCGAAAGAAAACAAGGCGAAUUUGUAGG--------AGUUCGAAUGAAUGUUAACAAUC
((((.((((.....(((-(((((((((---((((((.....)))................(((....)))......)))))))).))))--------.)))......))))...)))).. ( -21.00)
>DroYak_CAF1 14453 111 - 1
UUGUGUAUUAGCUAAGC-UUUGUAUUUGUGUGUAGAUACAUUCUACAUCUUACAUUCAAGUUCGAAAGAAAGCAAAGCGAAUUCGUAGG--------AGUUCGAAUGAAUGUAGGCAAAC
((((.(((...(...((-(((((...((((((((((.....)))))))...)))......(((....))).)))))))((((((....)--------)))))....)...))).)))).. ( -30.80)
>consensus
UUGUGUAUUAGCUAAGC_UGUAAAAUU___UGCUGAUACAUUCUACAUUUUACAAUCAAGUUCGAAAAAAAACAAAGCGAAUUUGUAGGACCGCACGAGUUCGAAUGAUUGUAAGCAAAC
..((((((((((...................)))))))))).......((((((((((.(((........)))....(((((((((........)))))))))..))))))))))..... (-20.71 = -22.27 +   1.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:47 2006