Locus 4288

Sequence ID X_DroMel_CAF1
Location 11,294,108 – 11,294,201
Length 93
Max. P 0.921158
window7049 window7050

overview

Window 9

Location 11,294,108 – 11,294,201
Length 93
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 74.05
Mean single sequence MFE -22.02
Consensus MFE -7.74
Energy contribution -8.72
Covariance contribution 0.97
Combinations/Pair 1.30
Mean z-score -2.27
Structure conservation index 0.35
SVM decision value 0.65
SVM RNA-class probability 0.810045
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11294108 93 + 22224390
CAUUUGUUGUCUUGCUAAUUU---GCGCAC---GCAC--ACACGCCGCAUUUGCA--UUUGCAUUUGCAUCUGCAAUAUGCAUU-------UGCAUCUUUUAAUGCAAC--G
.....(((((.(((......(---(((...---((..--....))))))..((((--..(((((((((....)))).)))))..-------)))).....))).)))))--. ( -25.40)
>DroPse_CAF1 26180 104 + 1
CAGUUGUUUUAUUGCUAAUUUUAAGCGCUCAGUGCAUUCACGAGGCGCAUUUUGAGGUUUGA------GUCAGUGUUUGGUA--CAGUCCCGGCGGCAUUUGGUAAAUCUCA
........................(((((..(((....)))..)))))....(((((((((.------...(((((((((..--.....)))..))))))...))))))))) ( -23.90)
>DroSec_CAF1 24280 93 + 1
CAUUUGUUGUCUUGCUAAUUU---GCGCAC---GCAC--ACACGCCGCAUUUGCA--UUUGCAUUUGCAUCUGCAAUUUGCAUU-------UGCAUCUUUUAAUGCAAC--G
.....(((((.(((......(---(((...---((..--....))))))..((((--..((((.((((....))))..))))..-------)))).....))).)))))--. ( -24.50)
>DroSim_CAF1 19409 93 + 1
CAUUUGUUGUCUUGCUAAUUU---GCGCAC---GCAC--ACACGCCGCAUUUGCA--UUUGCAUUUGCAUCUGCAAUUUGCAUU-------UGCAUCUUUUAAUGCAAC--G
.....(((((.(((......(---(((...---((..--....))))))..((((--..((((.((((....))))..))))..-------)))).....))).)))))--. ( -24.50)
>DroEre_CAF1 24011 81 + 1
CAUUUGCUGUCUUGCUAAUUU---GCGCAC---GCAC--ACACGCCGCAUU--------------UGCAUCUGCAAUUUGCAUU-------UGCAUCUUUUAAUGCAUC--C
....((((((...((......---))))).---))).--.......(((((--------------((((..(((.....)))..-------))))......)))))...--. ( -16.90)
>DroYak_CAF1 24775 83 + 1
CAUUUGCUGUCUUGCUAAUUU---GCGCAC---GCAC--ACACGCCGCAUU--------------UGCAUCUGCAAUUUGCAUU-------UGCAUCUUUUAAUGCAUCUUU
....((((((...((......---))))).---))).--.......(((((--------------((((..(((.....)))..-------))))......)))))...... ( -16.90)
>consensus
CAUUUGUUGUCUUGCUAAUUU___GCGCAC___GCAC__ACACGCCGCAUUUGCA__UUUGC___UGCAUCUGCAAUUUGCAUU_______UGCAUCUUUUAAUGCAAC__G
....(((....((((...........((.....))...........(((..(((......)))..)))....))))...))).........(((((......)))))..... ( -7.74 =  -8.72 +   0.97)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,294,108 – 11,294,201
Length 93
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 74.05
Mean single sequence MFE -23.30
Consensus MFE -8.72
Energy contribution -9.97
Covariance contribution 1.25
Combinations/Pair 1.11
Mean z-score -2.40
Structure conservation index 0.37
SVM decision value 1.14
SVM RNA-class probability 0.921158
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11294108 93 - 22224390
C--GUUGCAUUAAAAGAUGCA-------AAUGCAUAUUGCAGAUGCAAAUGCAAA--UGCAAAUGCGGCGUGU--GUGC---GUGCGC---AAAUUAGCAAGACAACAAAUG
(--((((((((......((((-------..(((((.((((....)))))))))..--)))))))))))))(((--...(---.(((..---......))).)...))).... ( -28.00)
>DroPse_CAF1 26180 104 - 1
UGAGAUUUACCAAAUGCCGCCGGGACUG--UACCAAACACUGAC------UCAAACCUCAAAAUGCGCCUCGUGAAUGCACUGAGCGCUUAAAAUUAGCAAUAAAACAACUG
..............(((....((.....--..))..........------..............((((.(((((....))).)))))).........)))............ ( -14.00)
>DroSec_CAF1 24280 93 - 1
C--GUUGCAUUAAAAGAUGCA-------AAUGCAAAUUGCAGAUGCAAAUGCAAA--UGCAAAUGCGGCGUGU--GUGC---GUGCGC---AAAUUAGCAAGACAACAAAUG
.--.(((((((....))))))-------).(((...(((((..(((....)))..--))))).((((((((..--..))---)).)))---).....)))............ ( -27.70)
>DroSim_CAF1 19409 93 - 1
C--GUUGCAUUAAAAGAUGCA-------AAUGCAAAUUGCAGAUGCAAAUGCAAA--UGCAAAUGCGGCGUGU--GUGC---GUGCGC---AAAUUAGCAAGACAACAAAUG
.--.(((((((....))))))-------).(((...(((((..(((....)))..--))))).((((((((..--..))---)).)))---).....)))............ ( -27.70)
>DroEre_CAF1 24011 81 - 1
G--GAUGCAUUAAAAGAUGCA-------AAUGCAAAUUGCAGAUGCA--------------AAUGCGGCGUGU--GUGC---GUGCGC---AAAUUAGCAAGACAGCAAAUG
.--..((((((....))))))-------..(((...((((...(((.--------------...)))(((..(--....---)..)))---......))))....))).... ( -21.20)
>DroYak_CAF1 24775 83 - 1
AAAGAUGCAUUAAAAGAUGCA-------AAUGCAAAUUGCAGAUGCA--------------AAUGCGGCGUGU--GUGC---GUGCGC---AAAUUAGCAAGACAGCAAAUG
.....((((((....))))))-------..(((...((((...(((.--------------...)))(((..(--....---)..)))---......))))....))).... ( -21.20)
>consensus
C__GAUGCAUUAAAAGAUGCA_______AAUGCAAAUUGCAGAUGCA___GCAAA__UGCAAAUGCGGCGUGU__GUGC___GUGCGC___AAAUUAGCAAGACAACAAAUG
.....((((((..((..((((.........))))..))...))))))................(((.........((((.....)))).........)))............ ( -8.72 =  -9.97 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:18 2006