Locus 110

Sequence ID	X_DroMel_CAF1
Location	454,366 – 454,480
Length	114
Max. P	0.989188

overview

Window 5

Location	454,366 – 454,480
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.27
Mean single sequence MFE	-19.02
Consensus MFE	-18.43
Energy contribution	-18.03
Covariance contribution	-0.40
Combinations/Pair	1.07
Mean z-score	-1.59
Structure conservation index	0.97
SVM decision value	2.15
SVM RNA-class probability	0.989188
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 454366 114 + 22224390
UAAA------UUUAUCCAUUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAGCUACAUUUCCUUCUAAAUAAAAAUCAAUUUGCAUAAUACUAGUGUCUCUUGUCAAGCGCAUUUA
....------..((((((....)))))).......(((((.(.((((((.(((..((((..........(((((........)))))........)))).))).)))))).).))))).. ( -19.47)
>DroSec_CAF1 56587 114 + 1
UAUA------UUUAUCCAUUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAGCUACAUUUCCUUCUGAAUAAAAAUCAAUUUGCAUAAUACUAGUGUCUCUUGUCAAGCGCAUUUA
....------..((((((....)))))).......(((((.(.((((((.(((..((((.(((......(((.......)))........)))..)))).))).)))))).).))))).. ( -18.84)
>DroSim_CAF1 35623 114 + 1
UAUA------UUUAUCCAUUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAGCUACAUUUCCUUCUGAAUAAAAAUCAAUUUGCAUAAUACUAGUGUCUCUUGUCAAGCGCAUUUA
....------..((((((....)))))).......(((((.(.((((((.(((..((((.(((......(((.......)))........)))..)))).))).)))))).).))))).. ( -18.84)
>DroEre_CAF1 66744 114 + 1
UGCA------UAUAUCCGCUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAACUACAUGUCCUUCUGAAUAAAAAACAAUUUGCAUUAUACUAGUGUCUCUUGUCAAGCGCAUUUA
....------.(((((((....)))))))......(((((.(.((((((.((((.((.....))..))))................((((((...))))))...)))))).).))))).. ( -19.10)
>DroYak_CAF1 54356 120 + 1
UACACACGAGUAUAUCCACUCCCGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAACUACAUUUCCUUCUGAAUAAAAAACCAUUUGCAUUACACUAGUGUCUCUUGUCAAGCGCAUUUA
.........(.((((((......))))))).....(((((.(.((((((.(((..((((...........((((........)))).........)))).))).)))))).).))))).. ( -18.85)
>consensus
UACA______UUUAUCCAUUCCUGGAUAUCAGACCAAUGCCCAUGACAAAAGAAAGCUACAUUUCCUUCUGAAUAAAAAUCAAUUUGCAUAAUACUAGUGUCUCUUGUCAAGCGCAUUUA
............(((((......))))).......(((((.(.((((((.(((..((((..........(((((........)))))........)))).))).)))))).).))))).. (-18.43 = -18.03 +  -0.40)

alignment

secondary structure

dotplot

Window 6

Location	454,366 – 454,480
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.27
Mean single sequence MFE	-29.38
Consensus MFE	-24.54
Energy contribution	-24.46
Covariance contribution	-0.08
Combinations/Pair	1.07
Mean z-score	-2.04
Structure conservation index	0.84
SVM decision value	1.86
SVM RNA-class probability	0.980454
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 454366 114 - 22224390
UAAAUGCGCUUGACAAGAGACACUAGUAUUAUGCAAAUUGAUUUUUAUUUAGAAGGAAAUGUAGCUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAAUGGAUAAA------UUUA
..(((((.(.((((((((((....(((....((((..((..(((((....)))))..))))))))).)))))))))).).))))).......((((((....))))))..------.... ( -27.50)
>DroSec_CAF1 56587 114 - 1
UAAAUGCGCUUGACAAGAGACACUAGUAUUAUGCAAAUUGAUUUUUAUUCAGAAGGAAAUGUAGCUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAAUGGAUAAA------UAUA
..(((((.(.((((((((((..(((.((((...(...((((.......))))...).)))))))...)))))))))).).))))).......((((((....))))))..------.... ( -28.40)
>DroSim_CAF1 35623 114 - 1
UAAAUGCGCUUGACAAGAGACACUAGUAUUAUGCAAAUUGAUUUUUAUUCAGAAGGAAAUGUAGCUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAAUGGAUAAA------UAUA
..(((((.(.((((((((((..(((.((((...(...((((.......))))...).)))))))...)))))))))).).))))).......((((((....))))))..------.... ( -28.40)
>DroEre_CAF1 66744 114 - 1
UAAAUGCGCUUGACAAGAGACACUAGUAUAAUGCAAAUUGUUUUUUAUUCAGAAGGACAUGUAGUUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAGCGGAUAUA------UGCA
..(((((.(.((((((((((.((((((.....))....((((((((.....))))))))..))))..)))))))))).).))))).((...((((((......)))))).------.)). ( -32.80)
>DroYak_CAF1 54356 120 - 1
UAAAUGCGCUUGACAAGAGACACUAGUGUAAUGCAAAUGGUUUUUUAUUCAGAAGGAAAUGUAGUUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCGGGAGUGGAUAUACUCGUGUGUA
..(((((.(.((((((((((.((((((.....)).....(((((((.......))))))).))))..)))))))))).).))))).......((..((.(((((....))))).))..)) ( -29.80)
>consensus
UAAAUGCGCUUGACAAGAGACACUAGUAUUAUGCAAAUUGAUUUUUAUUCAGAAGGAAAUGUAGCUUUCUUUUGUCAUGGGCAUUGGUCUGAUAUCCAGGAAUGGAUAAA______UAUA
..(((((.(.((((((((((..(((((.....)).............(((....)))....)))...)))))))))).).))))).......((((((....))))))............ (-24.54 = -24.46 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:34 2006