Locus 4413

Sequence ID 3R_DroMel_CAF1
Location 11,647,672 – 11,647,792
Length 120
Max. P 0.974037
window7205 window7206

overview

Window 5

Location 11,647,672 – 11,647,792
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -42.48
Consensus MFE -37.30
Energy contribution -37.14
Covariance contribution -0.16
Combinations/Pair 1.15
Mean z-score -1.67
Structure conservation index 0.88
SVM decision value 1.54
SVM RNA-class probability 0.962406
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11647672 120 + 27905053
UCGGGAGACGGAGCUGUUUAUGCGAUUUGUCACCAACAUAGACAAUAUAGCUCAAGCUCCGAUGCAGCGGGAUCCGCUUAAGGAGCCGGUCGAUGCGGCUACCAUGCCGGAGCUUCCCGU
.(((((....(((((((.........(((((.........))))).))))))).(((((((..(((((((...))))....(((((((.......))))).)).))))))))))))))). ( -48.90)
>DroSec_CAF1 28516 120 + 1
UCGGGAGACGGAGCUGUUUAUGCGAUUUGUCACCAACAUAGAUAAUAUAGCUCAAGCUCCGAUGCAGCGGGAUCCGCUUAAAGAGCCUGCCGAUGCGGCUACCAUGCCGGAGCUUCCCGU
.(((((....(((((((((((.(....(((.....)))..))))).))))))).((((((...((((((((.((........)).)))))...)))(((......)))))))))))))). ( -44.40)
>DroSim_CAF1 30713 120 + 1
UCGGGAGACGGAGCUGUUUAUGCGAUUUGUCACCAACAUAGAUAAUAUAGCUCAAGCUCCGAUGCAGCGGGAUCCGCUUAAAGAGCCGGCCGAUGCGGCUACCAUGCCGGAGCUUCCCGU
.(((((....(((((((((((.(....(((.....)))..))))).))))))).((((((...(((.(((...((((((...))).)))))).)))(((......)))))))))))))). ( -45.10)
>DroEre_CAF1 26416 120 + 1
UCGCGAGACGGAACUAUUCAUGCGAUUUGUCACCAAUAUAGAUAACAUAGCUCAAGUUCCGAUGCCGCGGGAUCCGCUUAAGGAACCAGCCGAUGCGGCUACCAUGCCGGAGCUUCCCGU
((....))(((((((......((...(((((.........)))))....))...))))))).....((((((...((((..((......))....((((......)))))))).)))))) ( -36.50)
>DroYak_CAF1 29004 120 + 1
UCGCGAGACGGAGCUGUUUAUGCGAUUUGUCACCAACAUAGAUAACAUAGCUCAAGUUCCGAUGCAACGGGAUCCACUUAAGGAACCAGUUGAUGCGGCUACCAUGCCGGAGCUUCCCGU
((....))(((((((((((((.(....(((.....)))..))))).)))))))((((((((...((((.((.(((......))).)).))))...)(((......))))))))))..)). ( -37.50)
>consensus
UCGGGAGACGGAGCUGUUUAUGCGAUUUGUCACCAACAUAGAUAAUAUAGCUCAAGCUCCGAUGCAGCGGGAUCCGCUUAAGGAGCCAGCCGAUGCGGCUACCAUGCCGGAGCUUCCCGU
.((((((.(((((((......((...(((((.........)))))....))...)))))))..((.((.((.(((......))).)).))...(.((((......)))).))))))))). (-37.30 = -37.14 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 11,647,672 – 11,647,792
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -43.28
Consensus MFE -37.60
Energy contribution -37.84
Covariance contribution 0.24
Combinations/Pair 1.14
Mean z-score -1.78
Structure conservation index 0.87
SVM decision value 1.72
SVM RNA-class probability 0.974037
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11647672 120 - 27905053
ACGGGAAGCUCCGGCAUGGUAGCCGCAUCGACCGGCUCCUUAAGCGGAUCCCGCUGCAUCGGAGCUUGAGCUAUAUUGUCUAUGUUGGUGACAAAUCGCAUAAACAGCUCCGUCUCCCGA
.((((((((((((((..((.(((((.......)))))))...(((((...)))))))..))))))).(((((.....((.(((((((....))....))))).)))))))....))))). ( -48.30)
>DroSec_CAF1 28516 120 - 1
ACGGGAAGCUCCGGCAUGGUAGCCGCAUCGGCAGGCUCUUUAAGCGGAUCCCGCUGCAUCGGAGCUUGAGCUAUAUUAUCUAUGUUGGUGACAAAUCGCAUAAACAGCUCCGUCUCCCGA
.((((((((((((((..((.((((((....)).))))))...(((((...)))))))..))))))).(((((...((((.....(((....))).....))))..)))))....))))). ( -45.60)
>DroSim_CAF1 30713 120 - 1
ACGGGAAGCUCCGGCAUGGUAGCCGCAUCGGCCGGCUCUUUAAGCGGAUCCCGCUGCAUCGGAGCUUGAGCUAUAUUAUCUAUGUUGGUGACAAAUCGCAUAAACAGCUCCGUCUCCCGA
.((((((((((((((..((.((((((....).)))))))...(((((...)))))))..))))))).(((((...((((.....(((....))).....))))..)))))....))))). ( -45.60)
>DroEre_CAF1 26416 120 - 1
ACGGGAAGCUCCGGCAUGGUAGCCGCAUCGGCUGGUUCCUUAAGCGGAUCCCGCGGCAUCGGAACUUGAGCUAUGUUAUCUAUAUUGGUGACAAAUCGCAUGAAUAGUUCCGUCUCGCGA
..((((...((((....((((((((...))))))...)).....))))))))((((...(((((((...((..(((((((......)))))))....))......)))))))..)))).. ( -41.00)
>DroYak_CAF1 29004 120 - 1
ACGGGAAGCUCCGGCAUGGUAGCCGCAUCAACUGGUUCCUUAAGUGGAUCCCGUUGCAUCGGAACUUGAGCUAUGUUAUCUAUGUUGGUGACAAAUCGCAUAAACAGCUCCGUCUCGCGA
.((.((..(((((((......)))....((((.((.(((......))).)).))))....)))....(((((...((((.....(((....))).....))))..))))).)..)).)). ( -35.90)
>consensus
ACGGGAAGCUCCGGCAUGGUAGCCGCAUCGGCCGGCUCCUUAAGCGGAUCCCGCUGCAUCGGAGCUUGAGCUAUAUUAUCUAUGUUGGUGACAAAUCGCAUAAACAGCUCCGUCUCCCGA
.((((((((((((((......)))(((...((.((.(((......))).)).)))))...)))))).(((((...((((.....(((....))).....))))..)))))....))))). (-37.60 = -37.84 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:30 2006