Locus 3324

Sequence ID 2L_DroMel_CAF1
Location 9,626,880 – 9,626,988
Length 108
Max. P 0.823977
window5274 window5275

overview

Window 4

Location 9,626,880 – 9,626,988
Length 108
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 74.11
Mean single sequence MFE -36.35
Consensus MFE -19.42
Energy contribution -21.87
Covariance contribution 2.45
Combinations/Pair 1.19
Mean z-score -1.79
Structure conservation index 0.53
SVM decision value 0.69
SVM RNA-class probability 0.823977
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9626880 108 + 22407834
CUCGUUAUGUUCGAGUACCGGAUAUGCAUAGCAAACCGCAGAAAGUGGUGCGUUUCGCAUUCUGUAGUCUGCUUUUCAGCGCACUUCUGCGGGAUGCGAGUCAACAGG-----------
(((((.(((((((.....)))))))))...(((..(((((((....((((((((..(((..(....)..))).....)))))))))))))))..))))))........----------- ( -38.90)
>DroSec_CAF1 27522 108 + 1
CUCGUUAUGUUCGAGUACCGGAUAUGCAUAGCAAACCGCAGAAAGUGGUGCGUUCCGCAUUCUGUAGUCUGCUUUUCAGCGCACUUCUGCGGGAUGCGAGUCAACAGG-----------
(((((.(((((((.....)))))))))...(((..(((((((....((((((((..(((..(....)..))).....)))))))))))))))..))))))........----------- ( -38.90)
>DroSim_CAF1 26733 108 + 1
CUCGUUAUGUUCGAGUACCGGAUAUGCAUAGCAAACCGCAGAAAGUGGUGCGUUCCGCAUUCUGUAGUCUGCUUUUCAGCUCACUUCUGCGGGAUGCGAGUCAACAGG-----------
(((((.(((((((.....)))))))))...(((..((((((((.((((.((.....(((..(....)..)))......))))))))))))))..))))))........----------- ( -37.30)
>DroEre_CAF1 29540 96 + 1
CUCGUUAUGUUCGAGUAACGGAUAUGCACAGCGAACCGCAGAAAGUGGUGCGUAUCGCAGACUGUAGUCUGCUUUUCAGCGCACUUCUGCGGC-----------------------AGC
...((((((((((.....)))))))).)).((...(((((((....(((((((...((((((....))))))......)))))))))))))).-----------------------.)) ( -38.80)
>DroYak_CAF1 28925 102 + 1
CUCGUUAUGUUCGAGUACCGGAUAUGCAUAGCAAACCGCAGAAAGU-----------------AUAGCCUGCUUUUCAGCGCACUUCUGCGGGAUGCGAGUCAACAGGCAGCGGUGAGC
((((.......))))(((((..........(((..((((((((.((-----------------...(((((.....))).))))))))))))..)))..(((....)))..)))))... ( -33.90)
>DroAna_CAF1 37126 103 + 1
UUCGAUUUGUUCAAGUACCGGAUAUCCUUUACCGACCGCAA----UGGUAG--UUCACGAACCGUAGCCUACUUUUCAGCGCGGCUCGGUGAGACUCGAGUCAAGUGG----------C
..(.((((((((.(((...((....))((((((((((((.(----((((.(--....)..))))).((..........)))))).))))))))))).))).))))).)----------. ( -30.30)
>consensus
CUCGUUAUGUUCGAGUACCGGAUAUGCAUAGCAAACCGCAGAAAGUGGUGCGUUUCGCAUUCUGUAGUCUGCUUUUCAGCGCACUUCUGCGGGAUGCGAGUCAACAGG___________
(((((((((((((.....)))))))).........((((((((.((((......))))........((.((((....)))).))))))))))...)))))................... (-19.42 = -21.87 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 9,626,880 – 9,626,988
Length 108
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 74.11
Mean single sequence MFE -32.90
Consensus MFE -18.78
Energy contribution -20.63
Covariance contribution 1.85
Combinations/Pair 1.25
Mean z-score -1.59
Structure conservation index 0.57
SVM decision value 0.49
SVM RNA-class probability 0.755285
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9626880 108 - 22407834
-----------CCUGUUGACUCGCAUCCCGCAGAAGUGCGCUGAAAAGCAGACUACAGAAUGCGAAACGCACCACUUUCUGCGGUUUGCUAUGCAUAUCCGGUACUCGAACAUAACGAG
-----------((.(.((....(((..(((((((((((.(((....)))...........((((...)))).))).))))))))..)))....))...).))..((((.......)))) ( -33.30)
>DroSec_CAF1 27522 108 - 1
-----------CCUGUUGACUCGCAUCCCGCAGAAGUGCGCUGAAAAGCAGACUACAGAAUGCGGAACGCACCACUUUCUGCGGUUUGCUAUGCAUAUCCGGUACUCGAACAUAACGAG
-----------((.(.((....(((..(((((((((((.(((....)))...........((((...)))).))).))))))))..)))....))...).))..((((.......)))) ( -33.30)
>DroSim_CAF1 26733 108 - 1
-----------CCUGUUGACUCGCAUCCCGCAGAAGUGAGCUGAAAAGCAGACUACAGAAUGCGGAACGCACCACUUUCUGCGGUUUGCUAUGCAUAUCCGGUACUCGAACAUAACGAG
-----------((.(.((....(((..(((((((((((.(((....)))...........((((...)))).))).))))))))..)))....))...).))..((((.......)))) ( -33.90)
>DroEre_CAF1 29540 96 - 1
GCU-----------------------GCCGCAGAAGUGCGCUGAAAAGCAGACUACAGUCUGCGAUACGCACCACUUUCUGCGGUUCGCUGUGCAUAUCCGUUACUCGAACAUAACGAG
((.-----------------------((((((((((((((.......((((((....))))))....)))))....)))))))))..))..........(((((........))))).. ( -35.20)
>DroYak_CAF1 28925 102 - 1
GCUCACCGCUGCCUGUUGACUCGCAUCCCGCAGAAGUGCGCUGAAAAGCAGGCUAU-----------------ACUUUCUGCGGUUUGCUAUGCAUAUCCGGUACUCGAACAUAACGAG
((.....))((((.(.((....(((..(((((((((((((((....)))..))...-----------------)).))))))))..)))....))...).))))((((.......)))) ( -30.90)
>DroAna_CAF1 37126 103 - 1
G----------CCACUUGACUCGAGUCUCACCGAGCCGCGCUGAAAAGUAGGCUACGGUUCGUGAA--CUACCA----UUGCGGUCGGUAAAGGAUAUCCGGUACUUGAACAAAUCGAA
.----------.........((((((..((((((.(((((.((....((((..((((...))))..--))))))----.))))))))))...((....)))..)))))).......... ( -30.80)
>consensus
___________CCUGUUGACUCGCAUCCCGCAGAAGUGCGCUGAAAAGCAGACUACAGAAUGCGAAACGCACCACUUUCUGCGGUUUGCUAUGCAUAUCCGGUACUCGAACAUAACGAG
......................(((..(((((((((((.(((....)))...........(((.....))).))).))))))))..)))...............((((.......)))) (-18.78 = -20.63 +   1.85)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:47 2006