Locus 4324

Sequence ID	3R_DroMel_CAF1
Location	11,443,344 – 11,443,529
Length	185
Max. P	0.879784

overview

Window 7

Location	11,443,344 – 11,443,455
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	85.54
Mean single sequence MFE	-37.36
Consensus MFE	-25.88
Energy contribution	-25.48
Covariance contribution	-0.40
Combinations/Pair	1.25
Mean z-score	-1.82
Structure conservation index	0.69
SVM decision value	0.18
SVM RNA-class probability	0.621815
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11443344 111 - 27905053
UUCGGGUGUCAGCCACAGACUUGGGAUCUCAAGAAGUGUGAGAAAGAAGGUGGGUG------GUUCCAUCGGGUGGUUCUUCUCGGAACUGGGAGAAGGAUCCACGGACAAGGAAA---G
(((...((((((((((..((((....(((((.......)))))....))))..)))------))).......((((((((((((........)))))))).)))).)))).)))..---. ( -38.00)
>DroSec_CAF1 183301 111 - 1
UUCGGGUGUCAGCCACAGACUUGGGAUCUCAAGAAGUGUGAGAAAGAAGGUGGGUG------GUUCCAUCGGGUGGUUUUUCUCGGAACUGGGAGAAGGAUCCAUGGACGAGGAAU---G
((((((((..((((((..((((....(((((.......)))))....))))..)))------))).))))..((((((((((((........)))))))).))))...))))....---. ( -34.90)
>DroSim_CAF1 177881 111 - 1
UUCGGGUGUCAGCCACAGACUUGGGAUCUCAAGAAGUGUGAGAAAGAAGGUGGGUG------GUUCCAUCGGGUGGUUCUUCUCGGAACUGAGAGAAGGAUCCACGGACGAGGAAA---G
((((((((..((((((..((((....(((((.......)))))....))))..)))------))).))))..((((((((((((........)))))))).))))...))))....---. ( -39.90)
>DroEre_CAF1 172729 117 - 1
UUCGGGUGUCAGCCGCAGACUUGGGAUCUCGAAAAGUGUGAGACAGUGGGUGGUUGUUCCCAGUUCCAUUGGGUGGUUUUUCUCGGAACUGGGAUAGGGAUCCGUGGACAGGGAGUA---
..(((((.((((((((..(((...(.(((((.......)))))))))..))))))..((((((((((...(((........)))))))))))))..)).))))).............--- ( -39.20)
>DroYak_CAF1 176258 113 - 1
UUCGGGUGUCAGCCACAGACUUGGGAUCUCGAAAAGUGCGAGAAAGUGGGUGGUUGUU-------CCAUUGGGUGGUUUUUCUGGGAACCGGGAUAAGGAUCCAGGGACAAGGAAUCAGG
....(((..(((((((..((((....(((((.......)))))))))..))))))(((-------((..(((((..((.((((((...)))))).))..))))))))))..)..)))... ( -34.80)
>consensus
UUCGGGUGUCAGCCACAGACUUGGGAUCUCAAGAAGUGUGAGAAAGAAGGUGGGUG______GUUCCAUCGGGUGGUUUUUCUCGGAACUGGGAGAAGGAUCCACGGACAAGGAAU___G
(((...((((..((............(((((.......))))).....((((((..........))))))))((((((((((((........)))))))).)))).)))).)))...... (-25.88 = -25.48 +  -0.40)

alignment

secondary structure

dotplot

Window 8

Location	11,443,415 – 11,443,529
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.67
Mean single sequence MFE	-33.62
Consensus MFE	-25.76
Energy contribution	-25.76
Covariance contribution	-0.00
Combinations/Pair	1.10
Mean z-score	-2.43
Structure conservation index	0.77
SVM decision value	0.91
SVM RNA-class probability	0.879784
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11443415 114 - 27905053
UCAUAUUUAAGAAAAAUAUUUGUUUAUAUGUAGAUAAAUUCGGCAUAGGAAGCAGAUUCGGGUGGCU------GAUUCCAUUCGGGUGUCAGCCACAGACUUGGGAUCUCAAGAAGUGUG
.(((((((.........((((((((.(((((.((.....)).)))))..))))))))((..((((((------(((.((.....)).))))))))).))(((((....)))))))))))) ( -36.80)
>DroSec_CAF1 183372 114 - 1
UCAUAUUUAAGAAAAAUAUUUGUUUAUAUGUAGAUAAAUUCGGCAUAGGAAGCAGAUUCGGGUGGCU------GAUUCCAUUCGGGUGUCAGCCACAGACUUGGGAUCUCAAGAAGUGUG
.(((((((.........((((((((.(((((.((.....)).)))))..))))))))((..((((((------(((.((.....)).))))))))).))(((((....)))))))))))) ( -36.80)
>DroSim_CAF1 177952 114 - 1
UCAUAUUUAAGAAAAAUAUUUGUUUAUAUGUAGAUAAAUUCGGCAUAGGAAGCAGAUUCGAGUGGCU------GAUUCCAUUCGGGUGUCAGCCACAGACUUGGGAUCUCAAGAAGUGUG
.(((((((.........((((((((.(((((.((.....)).)))))..))))))))....((((((------(((.((.....)).)))))))))...(((((....)))))))))))) ( -36.50)
>DroEre_CAF1 172806 120 - 1
UCAUAUUUAAGAAAAAUAUUUGUUUAUAUGUAGAUAAAUUCGGCAUAGGAGGCAGAUUUGGGUGGCUUUGGUGGAUUCCAUUCGGGUGUCAGCCGCAGACUUGGGAUCUCGAAAAGUGUG
...(((((((.......((((((((.(((((.((.....)).)))))..)))))))))))))))(((((...((((((((.((.(((....)))...))..))))))))...)))))... ( -28.41)
>DroYak_CAF1 176331 114 - 1
UCAUAUUUAAGAAAAAUAUUUGUUUAUAUGUAGAUAAAUUCGGCAUAGGAGGCAGAUUCGGGUGGCU------GCUUCCAUUCGGGUGUCAGCCACAGACUUGGGAUCUCGAAAAGUGCG
.....((((((......((((((((.(((((.((.....)).)))))..))))))))((..((((((------((.(((....))).).))))))).))))))))............... ( -29.60)
>consensus
UCAUAUUUAAGAAAAAUAUUUGUUUAUAUGUAGAUAAAUUCGGCAUAGGAAGCAGAUUCGGGUGGCU______GAUUCCAUUCGGGUGUCAGCCACAGACUUGGGAUCUCAAGAAGUGUG
.(((((((.........((((((((.(((((.((.....)).)))))..))))))))((..((((((......(((.((.....)).))))))))).))(((((....)))))))))))) (-25.76 = -25.76 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:14 2006