Locus 504

Sequence ID 3L_DroMel_CAF1
Location 1,475,478 – 1,475,577
Length 99
Max. P 0.500000
window755

overview

Window 5

Location 1,475,478 – 1,475,577
Length 99
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 76.76
Mean single sequence MFE -35.20
Consensus MFE -20.68
Energy contribution -21.02
Covariance contribution 0.33
Combinations/Pair 1.11
Mean z-score -1.41
Structure conservation index 0.59
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1475478 99 - 23771897
GCUGCUACGAGACGCCCCAGUGCCAACAUUGGGCUGUUUGGGCCCUGGCCAAUCUGACACAGGUGGGGG-------------------AGCAAUUCCUUUUCCCAUUGUUGGUGCAUU
((((((.(.(((((.(((((((....))))))).))))).).((((.(((...........))).))))-------------------))))..........(((....))).))... ( -34.10)
>DroSec_CAF1 122427 95 - 1
GCUGCUACGAGACGCCCCAGUGCCAGCAUUGGGCUGUCUGGGCCCUGGCCAAUCUGACACAGGUGG--U-------------------AGCAAGUCCUUUUCACAUGGUUA--GCAAU
((((((((.(((((.(((((((....))))))).))))).(((....)))............))))--)-------------------)))....................--..... ( -36.00)
>DroSim_CAF1 119874 95 - 1
GCUGCUACGAGACGCCCCAGUGCCAGCAUUGGGCUGUCUGGGCCCUGGCCAAUCUGACACAGGUGG--U-------------------AGCAAGUCCUUUUCACAUGCUUA--GCAAU
((((((((.(((((.(((((((....))))))).))))).(((....)))............))))--)-------------------)))..............(((...--))).. ( -36.40)
>DroEre_CAF1 127179 96 - 1
GCUGCUACGAGACGCCCCAGUGCCAACAUUGGGCGGUUUGGGCCCUGGCCAAUCUGACGCAGGUUGGUG--------------------UAUAGUCCAUUUCGUUUGCUUA--CCAAU
...((.(((((((((((.((((....)))))))))...(((((....(((((((((...))))))))).--------------------....)))))))))))..))...--..... ( -35.60)
>DroYak_CAF1 128024 100 - 1
GCUGCUACGAGACGCCCCAGUGCCAACAUUGGGCGGUUUGGGCACUGGCCAAUCUGACACAGGUGCGUGA----------------CUAUACAGUCCUUUUCUUUUGGUUA--GCAGU
((((((((.((((((.((.(((.((..(((((.((((......)))).))))).)).))).)).))))((----------------((....))))........)).).))--))))) ( -33.60)
>DroMoj_CAF1 109780 109 - 1
GCUGCUAUGAGACGCCCGAAUGCCAGCACUGGGCCGUCUGGGCGCUGGCCAAUCUUACACAGGUGAGAGAGGGAGCAACUCUAUAG--A-AAAGGCCUUUUGUAAU-CUUA-----UA
.....((((((((((((((..(((.......)))..)).)))))..((((..((((((....))))))(((.......))).....--.-...))))........)-))))-----)) ( -35.50)
>consensus
GCUGCUACGAGACGCCCCAGUGCCAACAUUGGGCUGUCUGGGCCCUGGCCAAUCUGACACAGGUGGG_G___________________AGAAAGUCCUUUUCACAUGCUUA__GCAAU
.(((.....(((((.(((((((....))))))).))))).(((....))).........)))........................................................ (-20.68 = -21.02 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:42 2006