Locus 1277

Sequence ID X_DroMel_CAF1
Location 3,808,265 – 3,808,376
Length 111
Max. P 0.743144
window2045 window2046

overview

Window 5

Location 3,808,265 – 3,808,376
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.00
Mean single sequence MFE -33.35
Consensus MFE -15.82
Energy contribution -15.38
Covariance contribution -0.44
Combinations/Pair 1.28
Mean z-score -1.80
Structure conservation index 0.47
SVM decision value 0.09
SVM RNA-class probability 0.576849
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3808265 111 + 22224390
UGCAUUUCAGCUUUAGCUUUAUGUUGGCCUUGUUAGUUUCGUCCAGCUUUAGCUUCAGCUGCUGCAGAUCCUCCUGCAUCUGCUUGCUGGCG------GCAC---UGUCCUCCGAAUGGU
..((((((((((..((((....(((((.(...........).)))))...))))..)))))..((((..((.((.(((......))).)).)------)..)---))).....))))).. ( -31.00)
>DroPse_CAF1 6816 108 + 1
UGCACUUUAGCUUCAGCUUGAUGUUGACCUUGUUCGACUCGUCCAGCUUCUGCUUCAGCUGUUGAAGUUCUUCCUUCAGCUGCUCGCUGGCC------GCCGAGGAGUCCUCC------U
.((......)).(((((.....)))))........(((((.((..(((...((...(((.(((((((......))))))).))).)).))).------...)).)))))....------. ( -30.30)
>DroGri_CAF1 9382 107 + 1
UGCAUUUGAGCUUCAGCUUGAUGUUGCUCUUGUUGCACUCAUCCAGCUUCUGUUUGAGCUGUUGCAGAUCCGUUUGUAGCUGCUCACUGCCAAUGGAAUCGC---UGGCA----------
((((...((((..((......))..))))....)))).....(((((((((((((((((.((((((((....)))))))).))))).....)))))))..))---)))..---------- ( -36.40)
>DroYak_CAF1 7188 111 + 1
UGCAUUUCAGCUUUAGCUUUAUGUUGGCCUUGUUAGUUUCGUCCAGCUUUUGCUUCAGUUGCUGCAGAUCCUCAUGCAUCUGCUUGCUGGCA------GCAC---UGUCCUCCAAAUGGU
.(((...(((((..(((.....(((((.(...........).)))))....)))..)))))..((((((.(....).)))))).))).((((------....---))))..((....)). ( -25.50)
>DroAna_CAF1 7518 111 + 1
UGCACUUGAGCUUCAGCUUGAUGUUGGCCUUGUUGGACUCGUCCAGCUUCUGCUUAAGCUGCUGGAGCUCCUCCUGCAACUCCUUGCUGGCC------ACCG---AGUCCUCCAGGGCGU
.(((.(..(((....)))..))))..((((((..(((((((.(((((....((....))(((.((((...)))).))).......)))))..------..))---)))))..)))))).. ( -46.60)
>DroPer_CAF1 6828 108 + 1
UGCACUUUAGCUUCAGCUUGAUGUUGACCUUGUUCGACUCGUCCAGCUUCUGCUUCAGCUGUUGAAGUUCUUCCUUCAGCUGCUCGCUGGCC------GCCGAGGAGUCCUCC------U
.((......)).(((((.....)))))........(((((.((..(((...((...(((.(((((((......))))))).))).)).))).------...)).)))))....------. ( -30.30)
>consensus
UGCACUUCAGCUUCAGCUUGAUGUUGGCCUUGUUAGACUCGUCCAGCUUCUGCUUCAGCUGCUGCAGAUCCUCCUGCAGCUGCUCGCUGGCC______GCCC___AGUCCUCC______U
.(((((..(((...((((.((((................)))).))))...)))..)).))).((((((........)))))).....(((...............)))........... (-15.82 = -15.38 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 3,808,265 – 3,808,376
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.00
Mean single sequence MFE -33.07
Consensus MFE -14.37
Energy contribution -15.07
Covariance contribution 0.69
Combinations/Pair 1.12
Mean z-score -2.04
Structure conservation index 0.43
SVM decision value 0.45
SVM RNA-class probability 0.743144
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3808265 111 - 22224390
ACCAUUCGGAGGACA---GUGC------CGCCAGCAAGCAGAUGCAGGAGGAUCUGCAGCAGCUGAAGCUAAAGCUGGACGAAACUAACAAGGCCAACAUAAAGCUAAAGCUGAAAUGCA
....(((((..(..(---((..------(((((((..((((((.(....).))))))...(((....)))...))))).))..)))..)....)).......(((....))))))..... ( -31.20)
>DroPse_CAF1 6816 108 - 1
A------GGAGGACUCCUCGGC------GGCCAGCGAGCAGCUGAAGGAAGAACUUCAACAGCUGAAGCAGAAGCUGGACGAGUCGAACAAGGUCAACAUCAAGCUGAAGCUAAAGUGCA
.------.((.((((..(((((------..(((((...((((((...(((....)))..))))))........)))))....)))))....))))....)).(((....)))........ ( -32.20)
>DroGri_CAF1 9382 107 - 1
----------UGCCA---GCGAUUCCAUUGGCAGUGAGCAGCUACAAACGGAUCUGCAACAGCUCAAACAGAAGCUGGAUGAGUGCAACAAGAGCAACAUCAAGCUGAAGCUCAAAUGCA
----------(((((---(.(....).)))))).(((((((((................(((((........)))))((((..(((.......))).)))).))))...)))))...... ( -29.00)
>DroYak_CAF1 7188 111 - 1
ACCAUUUGGAGGACA---GUGC------UGCCAGCAAGCAGAUGCAUGAGGAUCUGCAGCAACUGAAGCAAAAGCUGGACGAAACUAACAAGGCCAACAUAAAGCUAAAGCUGAAAUGCA
.....((((..(..(---((..------(((((((..((((((.(....).)))))).((.......))....))))).))..)))..)....))))(((..(((....)))...))).. ( -29.40)
>DroAna_CAF1 7518 111 - 1
ACGCCCUGGAGGACU---CGGU------GGCCAGCAAGGAGUUGCAGGAGGAGCUCCAGCAGCUUAAGCAGAAGCUGGACGAGUCCAACAAGGCCAACAUCAAGCUGAAGCUCAAGUGCA
..(((.((..(((((---((..------..(((((..((((((.(....).))))))....((....))....))))).)))))))..)).)))...(((..(((....)))...))).. ( -44.40)
>DroPer_CAF1 6828 108 - 1
A------GGAGGACUCCUCGGC------GGCCAGCGAGCAGCUGAAGGAAGAACUUCAACAGCUGAAGCAGAAGCUGGACGAGUCGAACAAGGUCAACAUCAAGCUGAAGCUAAAGUGCA
.------.((.((((..(((((------..(((((...((((((...(((....)))..))))))........)))))....)))))....))))....)).(((....)))........ ( -32.20)
>consensus
A______GGAGGACA___CGGC______GGCCAGCAAGCAGCUGCAGGAGGAUCUGCAACAGCUGAAGCAGAAGCUGGACGAGUCCAACAAGGCCAACAUCAAGCUGAAGCUAAAAUGCA
...............................((((.......(((((......))))).(((((........)))))..........................))))..((......)). (-14.37 = -15.07 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:34 2006