Locus 4235

Sequence ID 3R_DroMel_CAF1
Location 11,374,949 – 11,375,069
Length 120
Max. P 0.993152
window6864 window6865

overview

Window 4

Location 11,374,949 – 11,375,069
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.50
Mean single sequence MFE -43.66
Consensus MFE -36.76
Energy contribution -37.92
Covariance contribution 1.16
Combinations/Pair 1.13
Mean z-score -1.81
Structure conservation index 0.84
SVM decision value 1.42
SVM RNA-class probability 0.952408
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11374949 120 + 27905053
GGCCUUCCUCACUGGCUUCAAUCGGGCAUUGAGCGUCUCGCAGAUCUUACGGACUGCGUAGCAGACACUCUCGCUUCCGAUGGCAUAGCCAGUGACCAUUGAAUUGGCUCCAUUGAUGCU
(((((((.(((((((((...(((((((...(((.(((((((((.((.....)))))))....)))).)))..))..))))).....))))))))).....)))..))))........... ( -43.20)
>DroSec_CAF1 122587 120 + 1
GGCCCUUUUCACUGGCUUCAAUCGGGCAUUGAGCGUUUCGCAGAUCUUACUGACUGCAUAGCAGACACUCUCGCUUCCGAUGGCAUAGCCAGUGACCAUCGAAUUGGCUCCAUUGAUGGU
........(((((((((...(((((((...(((.(((((((((.((.....))))))...).)))).)))..))..))))).....)))))))))(((((((..((....))))))))). ( -42.70)
>DroSim_CAF1 113591 120 + 1
GGCCUUUCUCACUGGCUUCAAUCGGGCAUUGAGCGUUUCGCAGAUCUUACGGACUGCGUAGCAAACACUCUCGCUUCCGAUGGCAUAGCCAGUGACCAUCGAAUUGGCUCCAUUGAUGGU
........(((((((((...(((((((...(((.(((((((((.((.....)))))))....)))).)))..))..))))).....)))))))))(((((((..((....))))))))). ( -45.20)
>DroEre_CAF1 110142 120 + 1
GGCCUUCCUCACUGGCUUCAAGCGGGCGUUGAGCGUCUCGCAGGUCUUACGGACGGCAUAGCAGACACUCUCACUACCGAUGGCGUAGCCCGUGACCAUUGAGUUGGCUCCAUUGAUGGU
((((...((((.(((......((((((...(((.((((.((..(((........)))...)))))).)))....((((....).)))))))))..))).))))..))))(((....))). ( -38.70)
>DroYak_CAF1 112680 120 + 1
GGCCUUCCUCACUGGCUUCAGCCGGGCAUUGAGCGUCUCGCAGAUCUUACGGACUGCGUAGCAGACACUCUCACUUCCGAUGGCGUAGCCGGUGACCAUGGAGUUCGCUCCAUUGAUGGU
.(((.((.(((((((((...((((((....(((.(((((((((.((.....)))))))....)))).))).....)))...)))..)))))))))..((((((....)))))).)).))) ( -48.50)
>consensus
GGCCUUCCUCACUGGCUUCAAUCGGGCAUUGAGCGUCUCGCAGAUCUUACGGACUGCGUAGCAGACACUCUCGCUUCCGAUGGCAUAGCCAGUGACCAUCGAAUUGGCUCCAUUGAUGGU
........(((((((((...((((((....(((.(((((((((.((.....)))))))....)))).))).....)))))).....)))))))))(((((((..((....))))))))). (-36.76 = -37.92 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 11,374,949 – 11,375,069
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.50
Mean single sequence MFE -45.60
Consensus MFE -37.74
Energy contribution -37.90
Covariance contribution 0.16
Combinations/Pair 1.20
Mean z-score -2.38
Structure conservation index 0.83
SVM decision value 2.38
SVM RNA-class probability 0.993152
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11374949 120 - 27905053
AGCAUCAAUGGAGCCAAUUCAAUGGUCACUGGCUAUGCCAUCGGAAGCGAGAGUGUCUGCUACGCAGUCCGUAAGAUCUGCGAGACGCUCAAUGCCCGAUUGAAGCCAGUGAGGAAGGCC
.((.(((.((((.....)))).)))(((((((((...(.(((((..(((.((((((((....(((((..(....)..)))))))))))))..)))))))).).))))))))).....)). ( -48.40)
>DroSec_CAF1 122587 120 - 1
ACCAUCAAUGGAGCCAAUUCGAUGGUCACUGGCUAUGCCAUCGGAAGCGAGAGUGUCUGCUAUGCAGUCAGUAAGAUCUGCGAAACGCUCAAUGCCCGAUUGAAGCCAGUGAAAAGGGCC
.(((((((((....).))).)))))(((((((((...(.(((((..(((.((((((......(((((((.....)).)))))..))))))..)))))))).).)))))))))........ ( -41.30)
>DroSim_CAF1 113591 120 - 1
ACCAUCAAUGGAGCCAAUUCGAUGGUCACUGGCUAUGCCAUCGGAAGCGAGAGUGUUUGCUACGCAGUCCGUAAGAUCUGCGAAACGCUCAAUGCCCGAUUGAAGCCAGUGAGAAAGGCC
.(((((((((....).))).)))))(((((((((...(.(((((..(((.((((((((....(((((..(....)..)))))))))))))..)))))))).).)))))))))........ ( -47.40)
>DroEre_CAF1 110142 120 - 1
ACCAUCAAUGGAGCCAACUCAAUGGUCACGGGCUACGCCAUCGGUAGUGAGAGUGUCUGCUAUGCCGUCCGUAAGACCUGCGAGACGCUCAACGCCCGCUUGAAGCCAGUGAGGAAGGCC
.(((....))).(((..((((.(((((((((((((((((...))).))).((((((((....(((.(..(....)..).)))))))))))...)))))..))..)))).))))...))). ( -42.50)
>DroYak_CAF1 112680 120 - 1
ACCAUCAAUGGAGCGAACUCCAUGGUCACCGGCUACGCCAUCGGAAGUGAGAGUGUCUGCUACGCAGUCCGUAAGAUCUGCGAGACGCUCAAUGCCCGGCUGAAGCCAGUGAGGAAGGCC
.((.((.((((((....))))))..((((.((((.((((..(....)...((((((((....(((((..(....)..))))))))))))).......))).).)))).)))).)).)).. ( -48.40)
>consensus
ACCAUCAAUGGAGCCAAUUCAAUGGUCACUGGCUAUGCCAUCGGAAGCGAGAGUGUCUGCUACGCAGUCCGUAAGAUCUGCGAGACGCUCAAUGCCCGAUUGAAGCCAGUGAGGAAGGCC
.(((....))).(((..((......(((((((((...(.(((((..(((.((((((((....(((((..(....)..)))))))))))))..)))))))).).)))))))))))..))). (-37.74 = -37.90 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:57 2006