Locus 3125

Sequence ID 2L_DroMel_CAF1
Location 8,891,695 – 8,891,855
Length 160
Max. P 0.924405
window4967 window4968

overview

Window 7

Location 8,891,695 – 8,891,815
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.00
Mean single sequence MFE -36.36
Consensus MFE -31.00
Energy contribution -30.56
Covariance contribution -0.44
Combinations/Pair 1.16
Mean z-score -1.71
Structure conservation index 0.85
SVM decision value 1.16
SVM RNA-class probability 0.924405
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8891695 120 + 22407834
CGCAAGGCAUUGUAAUAGGGAUCCCAAUCCACAGAUGUGGUACUACAACCAACGUGAAAAUAGGUGCAUCAAGAUGAGGUACCUCGGCUGUAAGGGCAACCGCAAUCGUUAUUGCACAUU
.((((((((((((....((...(((...((((....))))...((((.((...((....))((((((.((.....)).)))))).)).)))).)))...))))))).))).))))..... ( -33.00)
>DroSec_CAF1 101842 120 + 1
CGCAAGGCAUUGUGAUAGGGAUCCCAAUCCAGAGAUGUGGUACUACAACCGCAAUGAAAAUAGGUGCAUCAAGAUGAGGUACCUCGGCUGCGAGGGCAACCGCAAUCGCUAUUGCACGUU
.((((((((((((....((....))..(((((.((((((((......)))))).........(((((.((.....)).)))))))..))).))((....))))))).))).))))..... ( -37.50)
>DroSim_CAF1 100544 120 + 1
CGCAAGGCAUUGUGAUAGGGAUCCCAAUCCAGAGAUGUGGUACUACAACCACAAUGAAAAUCGGUGCAUCAAGAUGAGGUACCUCGGCUGCAAGGGCAACCGCAAUCGCUAUUGCACGUU
.(((((((((((((((.((....)).)))(((.((((((((......)))))).........(((((.((.....)).)))))))..)))...((....))))))).))).))))..... ( -37.50)
>DroEre_CAF1 106404 120 + 1
CGCAAGGCAUUGCAAUAGUGAUCCCAAUCCAGAGAUGUGGUACUAUAACCAAAAUCGAAAUAGGUGCAUCAAGAUGAAGUACCUGGGCUGUAAGGGCAACCGCAAUCGCUAUUGCAAGUU
(....)((.((((((((((((((((......((....((((......))))...)).....((((((.((.....)).)))))))))......((....))...))))))))))))))). ( -41.10)
>DroYak_CAF1 105379 120 + 1
CGCAAGGCUUUGCAUUAGAGAUCCCAACCCAGAGAUGUGGUACUAUAACCACCACGAAAAUAGGUGCAUCAAGAUGAGGUACCUCGGCUGCUUGGGCAACCGCAAUCGCUACUGCAAGUU
.(((.(((.((((....(((...((...........(((((......))))).........((((((.((.....)).)))))).))...)))((....))))))..)))..)))..... ( -32.70)
>consensus
CGCAAGGCAUUGUAAUAGGGAUCCCAAUCCAGAGAUGUGGUACUACAACCACAAUGAAAAUAGGUGCAUCAAGAUGAGGUACCUCGGCUGCAAGGGCAACCGCAAUCGCUAUUGCACGUU
(....)....((((((((.(((.((...........(((((......)))))..........(((((.((.....)).)))))..)).(((..((....)))))))).)))))))).... (-31.00 = -30.56 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 8

Location 8,891,735 – 8,891,855
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.42
Mean single sequence MFE -35.24
Consensus MFE -25.70
Energy contribution -25.66
Covariance contribution -0.04
Combinations/Pair 1.12
Mean z-score -1.61
Structure conservation index 0.73
SVM decision value 0.02
SVM RNA-class probability 0.542454
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8891735 120 + 22407834
UACUACAACCAACGUGAAAAUAGGUGCAUCAAGAUGAGGUACCUCGGCUGUAAGGGCAACCGCAAUCGUUAUUGCACAUUGAACGAGUGUCAAAGGAAAUGCGUUCGACGAUCAUGAGGA
........((..(((((.....(((((.((.....)).)))))(((..(((..((....))(((((....))))))))(((((((....((....))....))))))))))))))).)). ( -32.90)
>DroSec_CAF1 101882 120 + 1
UACUACAACCGCAAUGAAAAUAGGUGCAUCAAGAUGAGGUACCUCGGCUGCGAGGGCAACCGCAAUCGCUAUUGCACGUUGAACGACUGUCAAAGGAAAUGCGUUCGACGAUUAUAAGGA
........((((((((.....((((((.((.....)).))))))((..(((..((....)))))..)).)))))).(((((((((....((....))....))))))))).......)). ( -40.10)
>DroSim_CAF1 100584 120 + 1
UACUACAACCACAAUGAAAAUCGGUGCAUCAAGAUGAGGUACCUCGGCUGCAAGGGCAACCGCAAUCGCUAUUGCACGUUGAACGACUGUCAAAGGAAAUGCGUUCGACGAUCAUAAGGA
........((...((((.....(((((.((.....)).))))).....(((((((....))((....))..)))))(((((((((....((....))....))))))))).))))..)). ( -35.20)
>DroEre_CAF1 106444 120 + 1
UACUAUAACCAAAAUCGAAAUAGGUGCAUCAAGAUGAAGUACCUGGGCUGUAAGGGCAACCGCAAUCGCUAUUGCAAGUUGAAAGACUGUCAGCGGGCCUGCGUUCGACGAUCCUAAGCA
..............(((((..((((((.((.....)).))))))(((((....((....)).....((((...(((.(((....)))))).)))))))))...)))))............ ( -33.90)
>DroYak_CAF1 105419 120 + 1
UACUAUAACCACCACGAAAAUAGGUGCAUCAAGAUGAGGUACCUCGGCUGCUUGGGCAACCGCAAUCGCUACUGCAAGUUGACCGACUGUCAACGGGCCUGCGUUCGACGAUUCUAGGCA
..............((((..(((((((.(((((.((((....))))....)))))))..(((((........)))..((((((.....)))))))))))))..))))............. ( -34.10)
>consensus
UACUACAACCACAAUGAAAAUAGGUGCAUCAAGAUGAGGUACCUCGGCUGCAAGGGCAACCGCAAUCGCUAUUGCACGUUGAACGACUGUCAAAGGAAAUGCGUUCGACGAUCAUAAGGA
......................(((((.((.....)).)))))..(..(((..((....)))))..)((....))..((((((((....((....))....))))))))........... (-25.70 = -25.66 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:55 2006