Locus 7757

Sequence ID X_DroMel_CAF1
Location 19,304,886 – 19,304,979
Length 93
Max. P 0.999866
window12734 window12735

overview

Window 4

Location 19,304,886 – 19,304,979
Length 93
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 63.22
Mean single sequence MFE -23.49
Consensus MFE -11.77
Energy contribution -11.33
Covariance contribution -0.44
Combinations/Pair 1.27
Mean z-score -2.81
Structure conservation index 0.50
SVM decision value 4.31
SVM RNA-class probability 0.999866
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19304886 93 + 22224390
-------------ACUAA----------GCAUCCAAAUCAGCAGCAAUCAUUCGCAAUACAUCAGUACGAAUAUACCCACAAAGUGUCGUUGAGUCCAAUGGGUAACAUUGAAUG--C
-------------.....----------((((.(((.............(((((...(((....)))))))).(((((((.....)).((((....)))))))))...))).)))--) ( -14.60)
>DroSec_CAF1 83270 81 + 1
-------------ACCAA----------GCAUUC---UCAUCAGCAAUC-----------AGCAGUACGAAUAUACCCGCAAAGUAUCGUUGAGUCCAAUGGGUAACAUUGGACAGCC
-------------.....----------......---......((..((-----------(((.((((...............)))).)))))((((((((.....)))))))).)). ( -21.76)
>DroEre_CAF1 79273 116 + 1
AAUAACGAAGCAAACGAAUGCAUAUUAGGCAUUC--AUCAGCCAUCAUCAUUUGAAAUACAUCAGAACAAAUAUGCCCGCAAAGCAUCGUUAAGUCCAAUGGGUAACAUUGGACAAAU
..((((((.((...((...(((((((.(((....--....))).......(((((......)))))...))))))).))....)).)))))).((((((((.....)))))))).... ( -34.10)
>consensus
_____________ACCAA__________GCAUUC__AUCAGCAGCAAUCAUU_G_AAUACAUCAGUACGAAUAUACCCGCAAAGUAUCGUUGAGUCCAAUGGGUAACAUUGGACA__C
...................................................................(((..((((.......))))..))).((((((((.....)))))))).... (-11.77 = -11.33 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 19,304,886 – 19,304,979
Length 93
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 63.22
Mean single sequence MFE -27.50
Consensus MFE -11.88
Energy contribution -11.67
Covariance contribution -0.22
Combinations/Pair 1.19
Mean z-score -2.16
Structure conservation index 0.43
SVM decision value 0.80
SVM RNA-class probability 0.854998
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19304886 93 - 22224390
G--CAUUCAAUGUUACCCAUUGGACUCAACGACACUUUGUGGGUAUAUUCGUACUGAUGUAUUGCGAAUGAUUGCUGCUGAUUUGGAUGC----------UUAGU-------------
(--(((((((...(((((((.((...........))..)))))))((((((((.........))))))))............))))))))----------.....------------- ( -22.80)
>DroSec_CAF1 83270 81 - 1
GGCUGUCCAAUGUUACCCAUUGGACUCAACGAUACUUUGCGGGUAUAUUCGUACUGCU-----------GAUUGCUGAUGA---GAAUGC----------UUGGU-------------
....((((((((.....))))))))..............(((((((.(((((...((.-----------....))..))))---).))))----------)))..------------- ( -23.50)
>DroEre_CAF1 79273 116 - 1
AUUUGUCCAAUGUUACCCAUUGGACUUAACGAUGCUUUGCGGGCAUAUUUGUUCUGAUGUAUUUCAAAUGAUGAUGGCUGAU--GAAUGCCUAAUAUGCAUUCGUUUGCUUCGUUAUU
....((((((((.....)))))))).....(((((.(((.(((((....)))))))).)))))...((((((((.(((.(((--((((((.......))))))))).))))))))))) ( -36.20)
>consensus
G__UGUCCAAUGUUACCCAUUGGACUCAACGAUACUUUGCGGGUAUAUUCGUACUGAUGUAUU_C_AAUGAUUGCUGCUGAU__GAAUGC__________UUAGU_____________
....((((((((.....))))))))...((((((((.....))))...)))).................................................................. (-11.88 = -11.67 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:54 2006