Locus 7243

Sequence ID 3R_DroMel_CAF1
Location 19,091,592 – 19,091,685
Length 93
Max. P 0.966381
window11723 window11724

overview

Window 3

Location 19,091,592 – 19,091,685
Length 93
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 70.97
Mean single sequence MFE -28.87
Consensus MFE -20.95
Energy contribution -19.57
Covariance contribution -1.38
Combinations/Pair 1.52
Mean z-score -1.46
Structure conservation index 0.73
SVM decision value 1.59
SVM RNA-class probability 0.966381
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19091592 93 + 27905053
UUGACGCUGUAUUCGCACCUUGUGAAUUUGCCGCUGCUGAAGAGUUACCAUUGAUGUAGCAGCGGCAUUGGCAGCUCCUGAGUUUCCCAUCAC
.....(((((((((((.....)))))).(((((((((((....((((....)))).)))))))))))...)))))...(((........))). ( -33.40)
>DroSec_CAF1 7496 93 + 1
UUGACGCUGUAUUCGCACCUUUUGAAGUUGCCGCUGCUGAAGUGUUAACAUUGAGGUGGCAGCGGCAUUGGUAGCUCCUGAGUUUCCCAUCAC
.....((.......))......(((...(((((((((((.((((....))))....))))))))))).(((.((((....))))..)))))). ( -27.80)
>DroSim_CAF1 7432 93 + 1
UUGACGCUGUAUUCGCACCUUUUGAAGUUGCCGCUGCUGAAGAGUUAACAUUGAUGUGGCAGCGGCAUUGGUAGCUCCUGAGUUUCCCAUCAC
.....((.......))......(((...(((((((((((....((((....)))).))))))))))).(((.((((....))))..)))))). ( -25.80)
>DroEre_CAF1 7610 90 + 1
AUGAUGCUGCUGCCGCUCCUUCAGAAGUUGCCGCUGCUGAAAAGUUAACGUUGAUGUGGCAGCGGCAUUGGUGGCUCCCGAGUUUCCU---GG
..((((((((((((((...(((((.(((....))).)))))..((((....))))))))))))))))))((..(((....)))..)).---.. ( -36.00)
>DroYak_CAF1 7341 93 + 1
CUGCUGCUGCUGCCGCUCCUUGAUAAGUUGUCGCUGCUGAAAAGUUAACGUUGGUGUGGCAGCGGCAUUGGUAGCUCCUGAGUUUCCCAUCUG
....((((((((((((.((..(((.....)))...(((....))).......)).)))))))))))).(((.((((....))))..))).... ( -33.70)
>DroMoj_CAF1 7273 72 + 1
UUG---------------------GUGUUGCUGUUGCUGAUAUUUGUACAAUGAAUUGGCUGCAGAAUUGUUGCUGCCUGCAGUUGACAAGAG
...---------------------(((((((....)).)))))((((.((((.....(((.((((.....)))).)))....))))))))... ( -16.50)
>consensus
UUGACGCUGUAUUCGCACCUUGUGAAGUUGCCGCUGCUGAAAAGUUAACAUUGAUGUGGCAGCGGCAUUGGUAGCUCCUGAGUUUCCCAUCAC
............................(((((((((((....((((....)))).)))))))))))..((.((((....)))).))...... (-20.95 = -19.57 +  -1.38)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 19,091,592 – 19,091,685
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 70.97
Mean single sequence MFE -23.30
Consensus MFE -14.16
Energy contribution -14.30
Covariance contribution 0.14
Combinations/Pair 1.24
Mean z-score -1.24
Structure conservation index 0.61
SVM decision value 0.19
SVM RNA-class probability 0.628470
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19091592 93 - 27905053
GUGAUGGGAAACUCAGGAGCUGCCAAUGCCGCUGCUACAUCAAUGGUAACUCUUCAGCAGCGGCAAAUUCACAAGGUGCGAAUACAGCGUCAA
.((((((....)).....((((....((((((((((...................)))))))))).((((.(.....).)))).)))))))). ( -29.31)
>DroSec_CAF1 7496 93 - 1
GUGAUGGGAAACUCAGGAGCUACCAAUGCCGCUGCCACCUCAAUGUUAACACUUCAGCAGCGGCAACUUCAAAAGGUGCGAAUACAGCGUCAA
.((((((....)......((.(((..(((((((((.....................))))))))).........)))))........))))). ( -24.40)
>DroSim_CAF1 7432 93 - 1
GUGAUGGGAAACUCAGGAGCUACCAAUGCCGCUGCCACAUCAAUGUUAACUCUUCAGCAGCGGCAACUUCAAAAGGUGCGAAUACAGCGUCAA
.((((((....)......((.(((..(((((((((.....................))))))))).........)))))........))))). ( -24.40)
>DroEre_CAF1 7610 90 - 1
CC---AGGAAACUCGGGAGCCACCAAUGCCGCUGCCACAUCAACGUUAACUUUUCAGCAGCGGCAACUUCUGAAGGAGCGGCAGCAGCAUCAU
((---((....)).))..(((.....(((((((((.....................))))))))).((((....)))).)))........... ( -29.20)
>DroYak_CAF1 7341 93 - 1
CAGAUGGGAAACUCAGGAGCUACCAAUGCCGCUGCCACACCAACGUUAACUUUUCAGCAGCGACAACUUAUCAAGGAGCGGCAGCAGCAGCAG
....(((....).))((.....))..(((.((((((........(((........))).((..(..........)..)))))))).))).... ( -21.90)
>DroMoj_CAF1 7273 72 - 1
CUCUUGUCAACUGCAGGCAGCAACAAUUCUGCAGCCAAUUCAUUGUACAAAUAUCAGCAACAGCAACAC---------------------CAA
...........(((.(((.(((.......))).)))......((((..........))))..)))....---------------------... ( -10.60)
>consensus
CUGAUGGGAAACUCAGGAGCUACCAAUGCCGCUGCCACAUCAAUGUUAACUCUUCAGCAGCGGCAACUUCAAAAGGUGCGAAUACAGCGUCAA
....(((....((....))...))).(((((((((.....................))))))))).........(..((.......))..).. (-14.16 = -14.30 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:07 2006