Locus 4423

Sequence ID	X_DroMel_CAF1
Location	11,657,584 – 11,657,679
Length	95
Max. P	0.931139

overview

Window 0

Location	11,657,584 – 11,657,679
Length	95
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	76.09
Mean single sequence MFE	-44.84
Consensus MFE	-26.22
Energy contribution	-28.50
Covariance contribution	2.28
Combinations/Pair	1.27
Mean z-score	-2.04
Structure conservation index	0.58
SVM decision value	1.21
SVM RNA-class probability	0.931139
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11657584 95 + 22224390
GGUUCCGGC---AUUGGAUUGGGCUCCGGAUCCGGUACUGGC-UUGGGUUCCGGCUCUACCGGUGGCAGCAAAUCGGGCGCCGCCGUGCCGGCCAUUGU
((..(((((---((.((...((((.(.(((((((((....))-.))))))).)))))..))((((((.((.......)))))))))))))))))..... ( -42.50)
>DroSec_CAF1 45 95 + 1
GGUUCCGGC---AUUGGAUUGGGCUCCGGAUCCGGUACUGGC-UUGGGCUCCGGCUCUGCCGGUGGCAGCAAAUCGGGUGCCGCCGUGCCGGCCAUUGU
((..(((((---((.(((((.(....).)))))(((((((((-..((((....)))).))))))((((.(......).))))))))))))))))..... ( -47.50)
>DroEre_CAF1 46 95 + 1
GGUUCCGGC---AUUGGAUCGGGCUCCGGAUCCGGUUCCGGG-UUGGGCUCCGGUUCUGCCGCUGGCAGCAAAUCGGGUGCCGCCGUGCCGGCCAUUGU
((..(((((---((.(((((.((..(((....)))..)).))-)).(((((((((((((((...)))))..))))))).))).).)))))))))..... ( -45.70)
>DroWil_CAF1 43 86 + 1
GGGGCCGGGGGGAUUGGUUUGCUCGG------UGGUGGCGGCGGUGGUCAUCGGAU-------UGGAGGAAAUUCGGGAAUGCCAGUGCCAGCUACUGU
...((((((.(((....))).)))))------)((((((((((.((((..((((((-------(......)))))))....)))).)))).)))))).. ( -37.80)
>DroYak_CAF1 43 95 + 1
GGUUCCGGC---AUUGGAUCGGGCUCCGGAUCCGGUUCCGGC-CUGGGCUCCGGUUCUGCUGGUGGCAGCAAAACGGGUGCCGCCGUGCCGGCCAUUGU
((..(((((---((.(((((((((.((((..(((....))).-)))))).)))))))....(((((((.(......).))))))))))))))))..... ( -50.70)
>consensus
GGUUCCGGC___AUUGGAUUGGGCUCCGGAUCCGGUACCGGC_UUGGGCUCCGGCUCUGCCGGUGGCAGCAAAUCGGGUGCCGCCGUGCCGGCCAUUGU
....((((....((((((((.(....).)))))))).))))...(((...(((((.....((((((((.(......).)))))))).)))))))).... (-26.22 = -28.50 +   2.28)

alignment

secondary structure

dotplot

Window 1

Location	11,657,584 – 11,657,679
Length	95
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	76.09
Mean single sequence MFE	-35.58
Consensus MFE	-21.12
Energy contribution	-23.12
Covariance contribution	2.00
Combinations/Pair	1.16
Mean z-score	-1.81
Structure conservation index	0.59
SVM decision value	0.63
SVM RNA-class probability	0.805671
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11657584 95 - 22224390
ACAAUGGCCGGCACGGCGGCGCCCGAUUUGCUGCCACCGGUAGAGCCGGAACCCAA-GCCAGUACCGGAUCCGGAGCCCAAUCCAAU---GCCGGAACC
.......((((((.(((((((.......))))))).((((.....((((.((....-....)).))))..))))............)---))))).... ( -37.00)
>DroSec_CAF1 45 95 - 1
ACAAUGGCCGGCACGGCGGCACCCGAUUUGCUGCCACCGGCAGAGCCGGAGCCCAA-GCCAGUACCGGAUCCGGAGCCCAAUCCAAU---GCCGGAACC
....((((.(((..(((((((.......))))))).(((((...))))).)))...-))))((.((((....(((......)))...---.)))).)). ( -42.30)
>DroEre_CAF1 46 95 - 1
ACAAUGGCCGGCACGGCGGCACCCGAUUUGCUGCCAGCGGCAGAACCGGAGCCCAA-CCCGGAACCGGAUCCGGAGCCCGAUCCAAU---GCCGGAACC
.......((((((.(((((((.......))))))).(.(((....((((.......-.))))..(((....))).)))).......)---))))).... ( -40.00)
>DroWil_CAF1 43 86 - 1
ACAGUAGCUGGCACUGGCAUUCCCGAAUUUCCUCCA-------AUCCGAUGACCACCGCCGCCACCA------CCGAGCAAACCAAUCCCCCCGGCCCC
...((.((.(((..((((((...((.(((......)-------)).))))).)))..))))).))..------(((................))).... ( -12.29)
>DroYak_CAF1 43 95 - 1
ACAAUGGCCGGCACGGCGGCACCCGUUUUGCUGCCACCAGCAGAACCGGAGCCCAG-GCCGGAACCGGAUCCGGAGCCCGAUCCAAU---GCCGGAACC
.......(((((((((((((.((.(((((((((....))))))))).)).)))...-)))).....(((((.(....).)))))..)---))))).... ( -46.30)
>consensus
ACAAUGGCCGGCACGGCGGCACCCGAUUUGCUGCCACCGGCAGAACCGGAGCCCAA_GCCGGAACCGGAUCCGGAGCCCAAUCCAAU___GCCGGAACC
.......(((((..(((((((.......)))))))..........(((((.((.............)).)))))................))))).... (-21.12 = -23.12 +   2.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:43 2006