Locus 6895

Sequence ID	X_DroMel_CAF1
Location	17,249,368 – 17,249,472
Length	104
Max. P	0.950669

overview

Window 9

Location	17,249,368 – 17,249,472
Length	104
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	74.08
Mean single sequence MFE	-25.72
Consensus MFE	-17.47
Energy contribution	-17.80
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.64
Structure conservation index	0.68
SVM decision value	1.40
SVM RNA-class probability	0.950669
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17249368 104 + 22224390
GCGC-GGGAACAAAGUGUACACGCU--UG----UGGUUCG--CUGUUGUGGGCAUGUCCUUGCUAAUUACGCAGCACUUAUGCCA-GGCAAUUCCAAAUUAUACAACAAUGAUA
..((-(((.((((.(((....))))--))----)..))))--)(((((((((((((....((((........))))..)))))).-((.....))......)))))))...... ( -29.30)
>DroVir_CAF1 116049 95 + 1
--------------CUGUAUCCUUUUGUG----UGGUUGGCCCUGUUGUGGGCAUGUCCUUGCUAAUUACGCAGCACUUAUGCCA-GGCAAUGCCAAAUUAUACAACAAUGAUA
--------------...((((.(((((((----((((((((..((((...((((((....((((........))))..)))))).-))))..))).)))))))))).)).)))) ( -29.30)
>DroPse_CAF1 133694 98 + 1
UUGCUGGGUUCC-----------GU--UCCGUUCCUUUUG--GUGUUGUGGGCAUGUCCUUGCUAAUUACGCAGCACUUAUGCCA-GGCAAAUCCAAAUUAUACAACAAUGAUA
.....(((....-----------..--)))((....((((--(..((((.((((((....((((........))))..)))))).-.))))..)))))....)).......... ( -23.00)
>DroWil_CAF1 171271 89 + 1
GUUA--------U------UAU-UA--UU----UGCC--U--UGGUUGUGGGCAUGUCCUUGCUAAUUACGCAGCACUUAUGCCAAGGCAAUGCCAAAUUAUACAACAAUGAUA
....--------.------...-..--.(----((((--(--((((.(((((.....))((((.......)))))))....))))))))))......(((((......))))). ( -20.70)
>DroMoj_CAF1 133420 90 + 1
-------------------CCCUUUUGUG----CGGUUGGCUCUGUUGUGGGCAUGUCCUUGCUAAUUACGCAGCACUUAUGCCA-GGCAAUGCCAAAUUAUACAACAAUGAUA
-------------------.....(((((----..((((((..((((...((((((....((((........))))..)))))).-))))..))).)))..)))))........ ( -26.40)
>DroAna_CAF1 131922 93 + 1
GUUU--------GUGUGUGUAU-UG--UG----UGGU-----GUAUUGUGGGCAUGUCCUUGCUAAUUACGCAGCACUUAUGCCA-GGCAAUUCCAAAUUAUACAACAAUGAUA
..((--------((.((((((.-..--..----(((.-----..(((((.((((((....((((........))))..)))))).-.))))).)))...))))))))))..... ( -25.60)
>consensus
GU_________________UAC_UU__UG____UGGUU_G__CUGUUGUGGGCAUGUCCUUGCUAAUUACGCAGCACUUAUGCCA_GGCAAUGCCAAAUUAUACAACAAUGAUA
...........................................(((((((((((((....((((........))))..))))))..((.....))......)))))))...... (-17.47 = -17.80 +   0.33)

alignment

secondary structure

dotplot

Window 0

Location	17,249,368 – 17,249,472
Length	104
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	74.08
Mean single sequence MFE	-21.43
Consensus MFE	-15.39
Energy contribution	-15.42
Covariance contribution	0.03
Combinations/Pair	1.05
Mean z-score	-0.92
Structure conservation index	0.72
SVM decision value	0.30
SVM RNA-class probability	0.677008
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17249368 104 - 22224390
UAUCAUUGUUGUAUAAUUUGGAAUUGCC-UGGCAUAAGUGCUGCGUAAUUAGCAAGGACAUGCCCACAACAG--CGAACCA----CA--AGCGUGUACACUUUGUUCCC-GCGC
..((.(((((((.......((.....))-.(((((..((.((((.......)).)).))))))).)))))))--.))....----..--.(((((.((.....))...)-)))) ( -24.40)
>DroVir_CAF1 116049 95 - 1
UAUCAUUGUUGUAUAAUUUGGCAUUGCC-UGGCAUAAGUGCUGCGUAAUUAGCAAGGACAUGCCCACAACAGGGCCAACCA----CACAAAAGGAUACAG--------------
.........(((((..(((((((((((.-(((((....))))).)))))..))..((....((((......))))...)).----..))))...))))).-------------- ( -22.80)
>DroPse_CAF1 133694 98 - 1
UAUCAUUGUUGUAUAAUUUGGAUUUGCC-UGGCAUAAGUGCUGCGUAAUUAGCAAGGACAUGCCCACAACAC--CAAAAGGAACGGA--AC-----------GGAACCCAGCAA
.....((((((.....(((((..(((..-.(((((..((.((((.......)).)).)))))))..)))..)--)))).((..((..--.)-----------)...)))))))) ( -20.10)
>DroWil_CAF1 171271 89 - 1
UAUCAUUGUUGUAUAAUUUGGCAUUGCCUUGGCAUAAGUGCUGCGUAAUUAGCAAGGACAUGCCCACAACCA--A--GGCA----AA--UA-AUA------A--------UAAC
....((((((((...........(((((((((......(((((......))))).((......))....)))--)--))))----))--))-)))------)--------)... ( -21.80)
>DroMoj_CAF1 133420 90 - 1
UAUCAUUGUUGUAUAAUUUGGCAUUGCC-UGGCAUAAGUGCUGCGUAAUUAGCAAGGACAUGCCCACAACAGAGCCAACCG----CACAAAAGGG-------------------
.....(((((((.......(((...)))-.(((((..((.((((.......)).)).))))))).)))))))......((.----.......)).------------------- ( -21.20)
>DroAna_CAF1 131922 93 - 1
UAUCAUUGUUGUAUAAUUUGGAAUUGCC-UGGCAUAAGUGCUGCGUAAUUAGCAAGGACAUGCCCACAAUAC-----ACCA----CA--CA-AUACACACAC--------AAAC
......((((((((....(((.((((..-.(((((..((.((((.......)).)).)))))))..))))..-----.)))----..--..-))))).))).--------.... ( -18.30)
>consensus
UAUCAUUGUUGUAUAAUUUGGAAUUGCC_UGGCAUAAGUGCUGCGUAAUUAGCAAGGACAUGCCCACAACAG__C_AACCA____CA__AA_GUA_________________AC
......((((((.......((.....))..(((((..((.((((.......)).)).))))))).))))))........................................... (-15.39 = -15.42 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:24 2006