Locus 4232

Sequence ID	X_DroMel_CAF1
Location	11,091,085 – 11,091,211
Length	126
Max. P	0.982944

overview

Window 3

Location	11,091,085 – 11,091,189
Length	104
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	68.01
Mean single sequence MFE	-29.07
Consensus MFE	-12.01
Energy contribution	-12.07
Covariance contribution	0.06
Combinations/Pair	1.22
Mean z-score	-1.89
Structure conservation index	0.41
SVM decision value	0.84
SVM RNA-class probability	0.863365
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11091085 104 - 22224390
CGAACGAAAA-----AUCAUCAGAGCGUCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUUGCGGUGUAUGUAUUU------UUUGU-----UGUUGUGGGCGACGCCUGAAGC
..((((((((-----((((((.(((((.(((..(((((((((((....)))))))))))))))))))..)))).....))))------)))))-----)(((.(((((...))))).))) ( -32.50)
>DroSec_CAF1 10767 86 - 1
C---GGAUAA-----AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGU---------------UU------UUUGU-----UGUUGUGGGCGAGCCCUGAAGC
.---((....-----.((((.((((((((((..(((((((((((....)))))))))))))))..---------------..------..)))-----))).)))).....))....... ( -25.70)
>DroSim_CAF1 5109 87 - 1
CUAACGAAAA-----AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAG-CGU----------------U------UUUGU-----UGUUGAGGGCGAGCCCUGAAGC
..........-----.......(((.(((....(((((((((((....)))))))))))..-(((----------------(------(((..-----....))))))).)))))).... ( -23.50)
>DroEre_CAF1 8654 104 - 1
UGGACGAA-A-----AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUUGUGGUGGCUGUUUUU-U----UACGU-----UGUUGUGGGUGACCCCUGGAGA
..((((((-(-----((((((((((..((((..(((((((((((....)))))))))))))))..)))))))))......))-)----).)))-----).....((....))........ ( -32.80)
>DroYak_CAF1 11062 111 - 1
CGCACGAAAA-----AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGUCGUUUGUGUUGAAUGUAUUUUU----UUUGUUUGCCUGUUGUGGGUGACCCCUGAAGA
.(((((((((-----((((.(((((((((....(((((((((((....))))))))))).)))).))))).))).......)))----)))))..))((...(.((....)).)...)). ( -32.11)
>DroAna_CAF1 10912 111 - 1
CCAGCGGUUCCCGCUGCGGGCGGAGUGGCCUUGAAUAGGCUUUCUAUUGAAAAUCCAUUAGUUCUAAGG---GAAUUCAUAUUUCUCUUCUGUUU-----UUUUAAAGGGGUUAUG-AGC
...((.((((((((.....))(((...((((.....))))((((....)))).)))...........))---))))(((((..((((((..(...-----..)..)))))).))))-))) ( -27.80)
>consensus
CGAACGAAAA_____AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUUG____G_AUGUAUUU______UUUGU_____UGUUGUGGGCGACCCCUGAAGC
........................(((.(....(((((((((((....))))))))))).).))).......................................(((....)))...... (-12.01 = -12.07 +   0.06)

alignment

secondary structure

dotplot

Window 4

Location	11,091,114 – 11,091,211
Length	97
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	68.09
Mean single sequence MFE	-25.84
Consensus MFE	-10.23
Energy contribution	-10.45
Covariance contribution	0.22
Combinations/Pair	1.13
Mean z-score	-2.36
Structure conservation index	0.40
SVM decision value	1.93
SVM RNA-class probability	0.982944
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11091114 97 - 22224390
UGGCGAACUUUUU-----UUUU----------UUUUG---CGAACGAAAA-----AUCAUCAGAGCGUCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUUGCGGUGUAUGUAU
..(((........-----..((----------(((((---....))))))-----).((((.(((((.(((..(((((((((((....)))))))))))))))))))..))))..))).. ( -25.00)
>DroSec_CAF1 10796 82 - 1
UGGAGAACUUUUU-----UUUU----------UUUUGGGGC---GGAUAA-----AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGU---------------
.............-----....----------.......((---.(((..-----...)))...)).((((..(((((((((((....)))))))))))))))..--------------- ( -19.60)
>DroSim_CAF1 5137 84 - 1
UGGCGAACUUUUU-----UUUU----------UUUUUUUGCUAACGAAAA-----AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAG-CGU---------------
(((((((......-----....----------....))))))).......-----............((....(((((((((((....))))))))))).)-)..--------------- ( -16.04)
>DroEre_CAF1 8684 94 - 1
UGGCGAACUUC-------UUUU----------UUUUG---UGGACGAA-A-----AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUUGUGGUGGCUGUUU
.(((.......-------...(----------(((((---....))))-)-----).((((((((..((((..(((((((((((....)))))))))))))))..))))))))))).... ( -31.40)
>DroYak_CAF1 11098 102 - 1
UGGCGAACUUUUUCUUUUUUUU----------UUUUG---CGCACGAAAA-----AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGUCGUUUGUGUUGAAUGUAU
..(((...............((----------(((((---....))))))-----)(((.(((((((((....(((((((((((....))))))))))).)))).))))).))).))).. ( -26.00)
>DroAna_CAF1 10946 112 - 1
UGGCACAUCCUUU-----UUUCCGCCCAGCAAUUUUUUGGCCAGCGGUUCCCGCUGCGGGCGGAGUGGCCUUGAAUAGGCUUUCUAUUGAAAAUCCAUUAGUUCUAAGG---GAAUUCAU
.......((((((-----.((((((((..(((....)))((.(((((...))))))))))))))).(((((.....)))))..(((.((......)).)))....))))---))...... ( -37.00)
>consensus
UGGCGAACUUUUU_____UUUU__________UUUUG___CGAACGAAAA_____AUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUUG____G_AUGUAU
................................................................(((.(....(((((((((((....))))))))))).).)))............... (-10.23 = -10.45 +   0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:48 2006