Locus 9259

Sequence ID 3R_DroMel_CAF1
Location 24,677,406 – 24,677,522
Length 116
Max. P 0.991968
window14806 window14807

overview

Window 6

Location 24,677,406 – 24,677,522
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.48
Mean single sequence MFE -30.52
Consensus MFE -29.74
Energy contribution -29.58
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -2.09
Structure conservation index 0.97
SVM decision value 2.30
SVM RNA-class probability 0.991968
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24677406 116 + 27905053
GGGCGUGCGUUUUAUUAGCUCCUUUCGUUGAUAUGCUCAUGCCGUGCUCGCUCGUUUGUCUUUCAACAAGGGAGCCCCGCAUCCA--CAUCAACA--UCCACAGCCACAUAUACACCCAC
.((((((.((..(((((((.......))))))).)).))))))((((..((((.(((((......))))).))))...))))...--........--....................... ( -30.40)
>DroSec_CAF1 18442 98 + 1
GGGCGUGCGUUUUAUUAGCUCCUUUCGUUGAUAUGCUCAUGCCGUGCUCGCUCGUUUGUCUUUCAACAAGGGAGCCCCGCAUCCA----------------------CAUAUACACCCAC
.((((((.((..(((((((.......))))))).)).))))))((((..((((.(((((......))))).))))...))))...----------------------............. ( -30.40)
>DroSim_CAF1 18486 110 + 1
GGGCGUGCGUUUUAUUAGCUCCUUUCGUUGAUAUGCUCAUGCCGUGCUCGCUCGUUUGUCUUUCAACAAGGGAGCCCCGCAUCCA--C------A--UCCACAGCCACAUAUACACCCAC
.((((((.((..(((((((.......))))))).)).))))))((((..((((.(((((......))))).))))...))))...--.------.--....................... ( -30.40)
>DroEre_CAF1 19828 118 + 1
GGGCGUGCGUUUUAUUAGCUCCUUUCGUUGAUAUGCUCAUGCCGUGCUCGCUCGUUUGUCUUUCAACAAGGGAGCCCCGCAUCCA--CAGCCACAUAUACACAUGUACAUAUACAUCCAC
.((((((.((..(((((((.......))))))).)).))))))((((..((((.(((((......))))).))))...))))...--...............(((((....))))).... ( -31.50)
>DroYak_CAF1 18906 108 + 1
GGGCGUGCGUUUUAUUAGCUCCUUUCGUUGAUAUGCUCAUGCCGUGCUCGCUCGUUUGUCUUUCAACAAGGGAGCUCCACAUCCACACAGCCACAUAUACAC------------AUCCAC
.((((((.((..(((((((.......))))))).)).))))))(((...((((.(((((......))))).))))..)))......................------------...... ( -29.90)
>consensus
GGGCGUGCGUUUUAUUAGCUCCUUUCGUUGAUAUGCUCAUGCCGUGCUCGCUCGUUUGUCUUUCAACAAGGGAGCCCCGCAUCCA__CA_C_ACA__UACACA___ACAUAUACACCCAC
.((((((.((..(((((((.......))))))).)).))))))(((...((((.(((((......))))).))))..)))........................................ (-29.74 = -29.58 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 24,677,406 – 24,677,522
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.48
Mean single sequence MFE -38.32
Consensus MFE -25.66
Energy contribution -26.30
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -2.60
Structure conservation index 0.67
SVM decision value 1.01
SVM RNA-class probability 0.899266
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24677406 116 - 27905053
GUGGGUGUAUAUGUGGCUGUGGA--UGUUGAUG--UGGAUGCGGGGCUCCCUUGUUGAAAGACAAACGAGCGAGCACGGCAUGAGCAUAUCAACGAAAGGAGCUAAUAAAACGCACGCCC
(((.((((.....(((((.(...--((((((((--((.((((.(.((((.((((((........)))))).)))).).))))...))))))))))...).))))).....)))).))).. ( -44.20)
>DroSec_CAF1 18442 98 - 1
GUGGGUGUAUAUG----------------------UGGAUGCGGGGCUCCCUUGUUGAAAGACAAACGAGCGAGCACGGCAUGAGCAUAUCAACGAAAGGAGCUAAUAAAACGCACGCCC
..(((((((((((----------------------(..((((.(.((((.((((((........)))))).)))).).))))..))))))...(....)...............)))))) ( -35.50)
>DroSim_CAF1 18486 110 - 1
GUGGGUGUAUAUGUGGCUGUGGA--U------G--UGGAUGCGGGGCUCCCUUGUUGAAAGACAAACGAGCGAGCACGGCAUGAGCAUAUCAACGAAAGGAGCUAAUAAAACGCACGCCC
(((.((((.....(((((...((--(------(--((.((((.(.((((.((((((........)))))).)))).).))))...))))))..(....).))))).....)))).))).. ( -38.60)
>DroEre_CAF1 19828 118 - 1
GUGGAUGUAUAUGUACAUGUGUAUAUGUGGCUG--UGGAUGCGGGGCUCCCUUGUUGAAAGACAAACGAGCGAGCACGGCAUGAGCAUAUCAACGAAAGGAGCUAAUAAAACGCACGCCC
(((..(((((((((((....))))))))(((((--(..((((.(.((((.((((((........)))))).)))).).))))..)).......(....).))))......)))..))).. ( -37.50)
>DroYak_CAF1 18906 108 - 1
GUGGAU------------GUGUAUAUGUGGCUGUGUGGAUGUGGAGCUCCCUUGUUGAAAGACAAACGAGCGAGCACGGCAUGAGCAUAUCAACGAAAGGAGCUAAUAAAACGCACGCCC
..((.(------------((((.....(((((((((..((((.(.((((.((((((........)))))).)))).).))))..)))).....(....).))))).....)))))..)). ( -35.80)
>consensus
GUGGGUGUAUAUGU___UGUGGA__UGU_G_UG__UGGAUGCGGGGCUCCCUUGUUGAAAGACAAACGAGCGAGCACGGCAUGAGCAUAUCAACGAAAGGAGCUAAUAAAACGCACGCCC
..((((((..............................((((.(.((((.((((((........)))))).)))).).)))).(((.......(....)..)))..........)))))) (-25.66 = -26.30 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:30:09 2006