Locus 359

Sequence ID X_DroMel_CAF1
Location 1,099,903 – 1,100,015
Length 112
Max. P 0.695263
window540 window541

overview

Window 0

Location 1,099,903 – 1,100,015
Length 112
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 86.67
Mean single sequence MFE -17.20
Consensus MFE -11.96
Energy contribution -12.53
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -1.81
Structure conservation index 0.70
SVM decision value 0.34
SVM RNA-class probability 0.695263
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1099903 112 + 22224390
UCACAUCGUUAGUCAGCUAGAUCUAUUUCUCGUAUAGUUUUGCUCUGGUCAAAAUUACACAAAUAUCAUCUGG-----ACUAUCCCGACACUUUUUUUUUUAGUAUUAUUAUUUCUU
.....(((.(((((...(((((.(((((...((.(((((((((....).)))))))).)))))))..))))))-----))))...)))............................. ( -14.80)
>DroSec_CAF1 5838 110 + 1
UCACAUCGUUAGUCAGCUAGAUCUAUUUCUCGUGUAGUUUUGCUCUGGUCAAAAUUACACAAAUAUCAACUAG-----ACUAUCCCGACACUUUU--UUUUAGUAUUAUUAUUUCUU
.....(((.(((((....(((......))).((((((((((((....).)))))))))))............)-----))))...))).......--.................... ( -20.10)
>DroEre_CAF1 5912 104 + 1
UCACAUCGUUAGUCAACUAGAUCUAUUUUUCGUAUAGUUUUGCUCUGGUCAAAAUUACACAAAUAACAUCUGG-----ACCAUCUCGACACAUUC--UUU------UAUUAUUUCUU
.......(((((....((((((.(((((...((.(((((((((....).)))))))).)))))))..))))))-----.....)).)))......--...------........... ( -12.50)
>DroYak_CAF1 5900 109 + 1
UCACAUCGCUAGCCAGCUAGAUCUAUUUUUCGUAUAGUUUUGCUCUGGUCAAAAUUACACAAAUACCAUCUGGACUGGACUAUCUCGACACAUUC--UUU------CAUUAUUUCUU
.....(((.(((((((((((((.(((((...((.(((((((((....).)))))))).)))))))..)))))).)))).)))...))).......--...------........... ( -21.40)
>consensus
UCACAUCGUUAGUCAGCUAGAUCUAUUUCUCGUAUAGUUUUGCUCUGGUCAAAAUUACACAAAUAUCAUCUGG_____ACUAUCCCGACACAUUC__UUU______UAUUAUUUCUU
.....(((.((((...((((((.(((((...((.(((((((((....).)))))))).)))))))..)))))).....))))...)))............................. (-11.96 = -12.53 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 1,099,903 – 1,100,015
Length 112
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 86.67
Mean single sequence MFE -21.23
Consensus MFE -15.22
Energy contribution -14.41
Covariance contribution -0.81
Combinations/Pair 1.19
Mean z-score -1.64
Structure conservation index 0.72
SVM decision value 0.22
SVM RNA-class probability 0.641932
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1099903 112 - 22224390
AAGAAAUAAUAAUACUAAAAAAAAAAGUGUCGGGAUAGU-----CCAGAUGAUAUUUGUGUAAUUUUGACCAGAGCAAAACUAUACGAGAAAUAGAUCUAGCUGACUAACGAUGUGA
..........................(..(((...((((-----(.((..(((.((((((((.(((((.......))))).))))))))......)))...))))))).)))..).. ( -19.20)
>DroSec_CAF1 5838 110 - 1
AAGAAAUAAUAAUACUAAAA--AAAAGUGUCGGGAUAGU-----CUAGUUGAUAUUUGUGUAAUUUUGACCAGAGCAAAACUACACGAGAAAUAGAUCUAGCUGACUAACGAUGUGA
....................--....(..(((...((((-----(.(((((((.((((((((.(((((.......))))).))))))))......))).))))))))).)))..).. ( -23.00)
>DroEre_CAF1 5912 104 - 1
AAGAAAUAAUA------AAA--GAAUGUGUCGAGAUGGU-----CCAGAUGUUAUUUGUGUAAUUUUGACCAGAGCAAAACUAUACGAAAAAUAGAUCUAGUUGACUAACGAUGUGA
...........------...--....(..(((...((((-----(.(((((((.((((((((.(((((.......))))).)))))))).)))..))))....))))).)))..).. ( -18.00)
>DroYak_CAF1 5900 109 - 1
AAGAAAUAAUG------AAA--GAAUGUGUCGAGAUAGUCCAGUCCAGAUGGUAUUUGUGUAAUUUUGACCAGAGCAAAACUAUACGAAAAAUAGAUCUAGCUGGCUAGCGAUGUGA
...........------...--....(..(((...(((.(((((..((((.((.((((((((.(((((.......))))).))))))))..))..)))).)))))))).)))..).. ( -24.70)
>consensus
AAGAAAUAAUA______AAA__AAAAGUGUCGAGAUAGU_____CCAGAUGAUAUUUGUGUAAUUUUGACCAGAGCAAAACUAUACGAAAAAUAGAUCUAGCUGACUAACGAUGUGA
..........................(..(((...((((...............((((((((.(((((.......))))).))))))))...............)))).)))..).. (-15.22 = -14.41 +  -0.81)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:32 2006