Locus 1557

Sequence ID X_DroMel_CAF1
Location 4,466,332 – 4,466,425
Length 93
Max. P 0.981799
window2559 window2560

overview

Window 9

Location 4,466,332 – 4,466,425
Length 93
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.58
Mean single sequence MFE -19.73
Consensus MFE -14.14
Energy contribution -14.25
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -2.39
Structure conservation index 0.72
SVM decision value 1.90
SVM RNA-class probability 0.981799
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4466332 93 + 22224390
UUACUCACUCACCUGUUCUUCGUUUCUCCCACCAUC-------------------------CAAAUUGAA--ACUAUAAACAGGUGCUAUCCUCGGCUUCAUCCCUGGACAGACACGUGC
.....(((.((((((((..(.(((((..........-------------------------......)))--)).)..))))))))((.(((..((......))..))).))....))). ( -21.39)
>DroSec_CAF1 67991 93 + 1
UUACUCACUCACCUGUUCUUCGUUUCUCCCACCAUC-------------------------AAAAUUGGA--ACUAUAAACAGGUGCUAUCCUCGGCUUCAUCCCUGGACAGACACGUGC
.....(((.((((((((..(.(((((..........-------------------------......)))--)).)..))))))))((.(((..((......))..))).))....))). ( -20.89)
>DroYak_CAF1 68823 120 + 1
UUACUCACUCACCUGUUCUUCGUUUCUCCCGCCUUCUCUCUCUCUCUCUCUUCGCCCCGCACAAAUUGAUGCCCUACAAACAGGUGCUAUCCUCGGCUUCAUCCCUGGACAGACACGUGC
.....(((.((((((((.............((.....................))...((((.....).)))......))))))))((.(((..((......))..))).))....))). ( -16.90)
>consensus
UUACUCACUCACCUGUUCUUCGUUUCUCCCACCAUC_________________________CAAAUUGAA__ACUAUAAACAGGUGCUAUCCUCGGCUUCAUCCCUGGACAGACACGUGC
.....(((.((((((((......(((.........................................)))........))))))))((.(((..((......))..))).))....))). (-14.14 = -14.25 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 4,466,332 – 4,466,425
Length 93
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.58
Mean single sequence MFE -28.70
Consensus MFE -23.35
Energy contribution -23.79
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.12
Structure conservation index 0.81
SVM decision value 1.75
SVM RNA-class probability 0.975363
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4466332 93 - 22224390
GCACGUGUCUGUCCAGGGAUGAAGCCGAGGAUAGCACCUGUUUAUAGU--UUCAAUUUG-------------------------GAUGGUGGGAGAAACGAAGAACAGGUGAGUGAGUAA
.(((....((((((..((......))..))))))(((((((((...((--(((..((..-------------------------......))..)))))...))))))))).)))..... ( -29.00)
>DroSec_CAF1 67991 93 - 1
GCACGUGUCUGUCCAGGGAUGAAGCCGAGGAUAGCACCUGUUUAUAGU--UCCAAUUUU-------------------------GAUGGUGGGAGAAACGAAGAACAGGUGAGUGAGUAA
.(((....((((((..((......))..))))))(((((((((...((--(((.(((..-------------------------...))).)))...))...))))))))).)))..... ( -27.40)
>DroYak_CAF1 68823 120 - 1
GCACGUGUCUGUCCAGGGAUGAAGCCGAGGAUAGCACCUGUUUGUAGGGCAUCAAUUUGUGCGGGGCGAAGAGAGAGAGAGAGAGAAGGCGGGAGAAACGAAGAACAGGUGAGUGAGUAA
.(((....((((((..((......))..))))))(((((((((((.(.(((......))).)...))......................((.......))..))))))))).)))..... ( -29.70)
>consensus
GCACGUGUCUGUCCAGGGAUGAAGCCGAGGAUAGCACCUGUUUAUAGU__UUCAAUUUG_________________________GAUGGUGGGAGAAACGAAGAACAGGUGAGUGAGUAA
.(((....((((((..((......))..))))))(((((((((...((..(((......................................)))...))...))))))))).)))..... (-23.35 = -23.79 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:27 2006