Locus 4914

Sequence ID	2L_DroMel_CAF1
Location	14,065,291 – 14,065,384
Length	93
Max. P	0.842558

overview

Window 5

Location	14,065,291 – 14,065,384
Length	93
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	66.53
Mean single sequence MFE	-25.52
Consensus MFE	-9.56
Energy contribution	-8.48
Covariance contribution	-1.08
Combinations/Pair	1.50
Mean z-score	-1.81
Structure conservation index	0.37
SVM decision value	0.45
SVM RNA-class probability	0.740123
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14065291 93 + 22407834
GACACAAGGCAGUUUGAUUGAUGGCGCUGUCAGGGGAGUU-CUGAAAAUGCCAGUUACUGUU--------UCUACUUGAAAAAAGUAGCAGAAUACUUUGAA
....(((((..((((......(((((...(((((.....)-))))...)))))((((((.((--------((.....))))..)))))).)))).))))).. ( -22.90)
>DroPse_CAF1 191326 88 + 1
GACACAAGGAAUUUUGAUUGAUGGCUCUGCCGG---AGUUGCCGGCAAUGCCAGGGCUUGUUGGAAAGCUUCUCUAUGUGAGAAGUAUCCA-----------
.......(((.(((..((.(.((((..((((((---.....))))))..))))...)..))..))).(((((((.....))))))).))).----------- ( -34.80)
>DroSec_CAF1 154160 93 + 1
GACACAAGGCAGUUUGAUUGAUGGCGCUGUCAGGGGAGUU-CUGAAAAUGCCAGUUACUGGU--------UCUACUGGGAAAAAGUAGCAGAAUACUUUGAA
....(((((..((((......(((((...(((((.....)-))))...)))))((((((..(--------(((....))))..)))))).)))).))))).. ( -25.40)
>DroEre_CAF1 156009 93 + 1
GACAUCAGGCAGUUUGAUUGAUGGUCCUGUCAGGGGAGUU-CUGAAAAUACCAGUUACUGUU--------UCUACUUUGGAAAAGUAACCAAAUACUUUGAA
....(((((..(((((.....((((....(((((.....)-))))....))))((((((.((--------((......)))).)))))))))))..))))). ( -21.60)
>DroAna_CAF1 151572 78 + 1
GACACAAGGCACUUUGAUUGAUGGCCCUGCCAGAGAAUUC-CCGGGAAUGUCAGUUACUUUG--------AAUACUUUGAAAAAAAA---------------
....(((((.....(((((((((((...))).....((((-....)))))))))))))))))--------.................--------------- ( -13.70)
>DroPer_CAF1 203380 88 + 1
GACACAAGGAAUUUUGAUUGAUGGCUCUGCCGG---AGUUGCCGGCAAUGCCAGGGCCUGUUGGAAAGCUUCUCUAUGUGAGAAGUAUCCA-----------
.......(((.(((..((.(.((((..((((((---.....))))))..))))...)..))..))).(((((((.....))))))).))).----------- ( -34.70)
>consensus
GACACAAGGCAGUUUGAUUGAUGGCCCUGCCAGGGGAGUU_CCGAAAAUGCCAGUUACUGUU________UCUACUUGGAAAAAGUAGCCA___________
.....................((((....((((........))))....))))................................................. ( -9.56 =  -8.48 +  -1.08)

alignment

secondary structure

dotplot

Window 6

Location	14,065,291 – 14,065,384
Length	93
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	66.53
Mean single sequence MFE	-20.43
Consensus MFE	-8.83
Energy contribution	-7.75
Covariance contribution	-1.08
Combinations/Pair	1.40
Mean z-score	-1.78
Structure conservation index	0.43
SVM decision value	0.76
SVM RNA-class probability	0.842558
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14065291 93 - 22407834
UUCAAAGUAUUCUGCUACUUUUUUCAAGUAGA--------AACAGUAACUGGCAUUUUCAG-AACUCCCCUGACAGCGCCAUCAAUCAAACUGCCUUGUGUC
..(((.((((((((((..........))))))--------)........((((.((.((((-.......)))).)).))))..........))).))).... ( -16.30)
>DroPse_CAF1 191326 88 - 1
-----------UGGAUACUUCUCACAUAGAGAAGCUUUCCAACAAGCCCUGGCAUUGCCGGCAACU---CCGGCAGAGCCAUCAAUCAAAAUUCCUUGUGUC
-----------((((..((((((.....))))))...))))(((((...((((.(((((((.....---))))))).)))).............)))))... ( -30.39)
>DroSec_CAF1 154160 93 - 1
UUCAAAGUAUUCUGCUACUUUUUCCCAGUAGA--------ACCAGUAACUGGCAUUUUCAG-AACUCCCCUGACAGCGCCAUCAAUCAAACUGCCUUGUGUC
..(((.((((((((((..........))))))--------)........((((.((.((((-.......)))).)).))))..........))).))).... ( -15.80)
>DroEre_CAF1 156009 93 - 1
UUCAAAGUAUUUGGUUACUUUUCCAAAGUAGA--------AACAGUAACUGGUAUUUUCAG-AACUCCCCUGACAGGACCAUCAAUCAAACUGCCUGAUGUC
.(((..(((((((((((((((((.......))--------)).))))))((((....((((-.......))))....)))).....)))).))).))).... ( -16.90)
>DroAna_CAF1 151572 78 - 1
---------------UUUUUUUUCAAAGUAUU--------CAAAGUAACUGACAUUCCCGG-GAAUUCUCUGGCAGGGCCAUCAAUCAAAGUGCCUUGUGUC
---------------.................--------..........((((...((((-(.....)))))(((((((..........).)))))))))) ( -13.10)
>DroPer_CAF1 203380 88 - 1
-----------UGGAUACUUCUCACAUAGAGAAGCUUUCCAACAGGCCCUGGCAUUGCCGGCAACU---CCGGCAGAGCCAUCAAUCAAAAUUCCUUGUGUC
-----------((((..((((((.....))))))...))))(((((...((((.(((((((.....---))))))).)))).............)))))... ( -30.09)
>consensus
___________UGGAUACUUUUCCCAAGUAGA________AACAGUAACUGGCAUUUCCAG_AACUCCCCUGACAGAGCCAUCAAUCAAACUGCCUUGUGUC
.................................................((((.((.((((........)))).)).))))..................... ( -8.83 =  -7.75 +  -1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:54 2006