Locus 2799

Sequence ID X_DroMel_CAF1
Location 7,484,525 – 7,484,676
Length 151
Max. P 0.925653
window4584 window4585

overview

Window 4

Location 7,484,525 – 7,484,642
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.26
Mean single sequence MFE -30.78
Consensus MFE -20.20
Energy contribution -20.12
Covariance contribution -0.08
Combinations/Pair 1.08
Mean z-score -2.77
Structure conservation index 0.66
SVM decision value 0.69
SVM RNA-class probability 0.824179
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7484525 117 - 22224390
UUAAU-CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA-GGCCCCGCAGACUAGGGAAUCAAUAAUUCUUUUGGGUGCUGAAAUAGCAAUGCCUAAGCUAGCUCUG-UCGA
.....-....((.((((((((((((........))))))))))))..-))...(((((((((((((((.....)))))(((((((..((......))..))))))))))).))))-.)). ( -31.60)
>DroSec_CAF1 17593 118 - 1
UUAAU-CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA-GGCCCCGCAGACUAGAGAAUCAAUAAUUCUUUUGGGUGCUGGAAUAGCAAUGCCUAAGCUAGCUCCGUUCGA
....(-(..((..((((((((((((........))))))))))))..-(((((((......(((((((.....))))))))))).)))(((.((((.........))))..)))))..)) ( -30.90)
>DroSim_CAF1 19278 118 - 1
UUAAU-CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA-GGCCCCGCAGACUAGAGAAUCAAUAAUUCUUUUGGGUGCUGGAAUAGCAAUGCCUAAGCUAGCUCCGUUCGA
....(-(..((..((((((((((((........))))))))))))..-(((((((......(((((((.....))))))))))).)))(((.((((.........))))..)))))..)) ( -30.90)
>DroEre_CAF1 18602 114 - 1
UUAAU-CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAAGGCCACCGCCGACUAGAGAAUCAAUAAUUCUUUUGGGCGCUGGAAUAGCAUUGGCUAAGCU----CUA-ACGA
.....-.(((.(.((((((((((((........))))))))))))..(((((..(((.(..(((((((.....)))))))).)))((((...))))..)))))..).)----)).-.... ( -31.10)
>DroYak_CAF1 21043 107 - 1
UUAAUUUAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA-GCUGCCGCAGACUAGAGAAUCAAUAAUUCUAUUGGGUGCUA-----------GCUAAGCUGGCGAUG-UCGA
........(((..((((((((((((........))))))))))))..-..((((((((.((((....((((((....))))))...)))-----------)))..)).))))..)-)).. ( -29.40)
>consensus
UUAAU_CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA_GGCCCCGCAGACUAGAGAAUCAAUAAUUCUUUUGGGUGCUGGAAUAGCAAUGCCUAAGCUAGCUCUG_UCGA
......((((((.((((((((((((........))))))))))))..............(.(((((((.....))))))).)))).)))............................... (-20.20 = -20.12 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 5

Location 7,484,564 – 7,484,676
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.84
Mean single sequence MFE -25.06
Consensus MFE -18.76
Energy contribution -19.00
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -2.58
Structure conservation index 0.75
SVM decision value 1.17
SVM RNA-class probability 0.925653
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7484564 112 - 22224390
GCCUAAUUAAAUAUU------AUGUGAAUCCUUUCUGGGCUUAAU-CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA-GGCCCCGCAGACUAGGGAAUCAAUAAUUCUUU
............(((------((.(((.((((((((((((((...-.......((((((((((((........)))))))))))).)-)))))...)))..))))).))))))))..... ( -26.40)
>DroSec_CAF1 17633 112 - 1
ACCUAAUUAAAUAUU------AUGUGAAUCUUUUCUGGGCUUAAU-CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA-GGCCCCGCAGACUAGAGAAUCAAUAAUUCUUU
............(((------((.(((.((((((((((((((...-.......((((((((((((........)))))))))))).)-)))))...)))..))))).))))))))..... ( -24.40)
>DroSim_CAF1 19318 112 - 1
ACCUAAUUAAAUAUU------AUGUGAAUCCUUUCUGGGCUUAAU-CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA-GGCCCCGCAGACUAGAGAAUCAAUAAUUCUUU
...............------.((((...(((((((((......)-))))...((((((((((((........))))))))))))))-))...))))....(((((((.....))))))) ( -24.30)
>DroEre_CAF1 18637 113 - 1
GCCUAAUUAAAUACU------AUGUGAAUCCUUUUUGGCCUUAAU-CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAAGGCCACCGCCGACUAGAGAAUCAAUAAUUCUUU
...............------..............((((((((..-........(((((((((((........))))))))))))))))))).........(((((((.....))))))) ( -23.70)
>DroYak_CAF1 21071 119 - 1
GCCUAAUUAAAUAGUAGUAGCAUGUGAAUCCUUUUUGGCCUUAAUUUAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA-GCUGCCGCAGACUAGAGAAUCAAUAAUUCUAU
.............(..(((((..............(((.((......)).)))((((((((((((........))))))))))))..-)))))..).......(((((.....))))).. ( -26.50)
>consensus
GCCUAAUUAAAUAUU______AUGUGAAUCCUUUCUGGGCUUAAU_CAGACCAAAGCAUUAAUAUAAAUGAACGUAUUAAUGCUUAA_GGCCCCGCAGACUAGAGAAUCAAUAAUUCUUU
......................((((.........(((.((......)).)))((((((((((((........))))))))))))........))))....(((((((.....))))))) (-18.76 = -19.00 +   0.24)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:41 2006