Locus 501

Sequence ID 2R_DroMel_CAF1
Location 2,741,096 – 2,741,189
Length 93
Max. P 0.784003
window951 window952

overview

Window 1

Location 2,741,096 – 2,741,189
Length 93
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.36
Mean single sequence MFE -32.33
Consensus MFE -19.26
Energy contribution -19.73
Covariance contribution 0.47
Combinations/Pair 1.13
Mean z-score -1.71
Structure conservation index 0.60
SVM decision value 0.57
SVM RNA-class probability 0.784003
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2741096 93 + 20766785
--------------UUUCAGGUGGCG-UGGC--------AAAGCGCUAAACGCUGUUUGCCAUUCGGA--UAUCGAAAGUUAUAAAGCAUGAAAUCAGUGCCAGCCACCGCCAUGCGA
--------------.....(((((((-((((--------((((((.....))))..)))))))....(--((.(....).)))...((((.......))))..))))))......... ( -30.20)
>DroPse_CAF1 24185 116 + 1
GCUCCGUUCCUUUUUGGCAGGUGGCACUGGCACUACGCUAAAGCGCUAAACGUUGUUUGCCAUUCGGA--UAUCGGGAGUUAUAAAGCAUGAAAUCAGUGCCAGCCACCGCCAGGAGA
.((((.........((((.((((((..(((((((.(((....))).....(((.((((....(((.(.--...).)))......))))))).....))))))))))))))))))))). ( -40.80)
>DroGri_CAF1 27785 85 + 1
-----------------------GGC-UGGC--------GAAGCGCUAAACGUUGUUUGCUAUUCGCAUCUAUCGAAGGUUAUAAAGCAUAAAAUCAGUGCCAGACGGCGGCAGCAG-
-----------------------.((-((((--------(...)))....(((((((((...((((.......)))).........((((.......))))))))))))).))))..- ( -21.80)
>DroEre_CAF1 16416 93 + 1
--------------UUUCAGGUGGCG-UGGC--------AAAGCGCUAAACGCUGUUUGCCAUUCGGA--UAUCGAAAGUUAUAAAGCAUGAAAUCAGUGCCAGCCACCGCCAUGCGA
--------------.....(((((((-((((--------((((((.....))))..)))))))....(--((.(....).)))...((((.......))))..))))))......... ( -30.20)
>DroYak_CAF1 26014 93 + 1
--------------UUUCAGGUGGCG-UGGC--------AAAGCGCUAAACGCUGUUUGCCAUUCGGA--UAUCGAAAGUUAUAAAGCAUGAAAUCAGUGCCAGCCACCGCCAUGCGA
--------------.....(((((((-((((--------((((((.....))))..)))))))....(--((.(....).)))...((((.......))))..))))))......... ( -30.20)
>DroPer_CAF1 24569 116 + 1
GCUCCGUUCCUUUUUGGCAGGUGGCACUGGCACUACGCUAAAGCGCUAAACGUUGUUUGCCAUUCGGA--UAUCGGGAGUUAUAAAGCAUGAAAUCAGUGCCAGCCACCGCCAGGAGA
.((((.........((((.((((((..(((((((.(((....))).....(((.((((....(((.(.--...).)))......))))))).....))))))))))))))))))))). ( -40.80)
>consensus
______________UUUCAGGUGGCG_UGGC________AAAGCGCUAAACGCUGUUUGCCAUUCGGA__UAUCGAAAGUUAUAAAGCAUGAAAUCAGUGCCAGCCACCGCCAGGAGA
...................((((((..((((..........((((.....))))((((....(((((.....))))).......))))...........))))))))))......... (-19.26 = -19.73 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,741,096 – 2,741,189
Length 93
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 77.36
Mean single sequence MFE -31.27
Consensus MFE -16.60
Energy contribution -18.13
Covariance contribution 1.53
Combinations/Pair 1.05
Mean z-score -1.74
Structure conservation index 0.53
SVM decision value 0.08
SVM RNA-class probability 0.573336
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2741096 93 - 20766785
UCGCAUGGCGGUGGCUGGCACUGAUUUCAUGCUUUAUAACUUUCGAUA--UCCGAAUGGCAAACAGCGUUUAGCGCUUU--------GCCA-CGCCACCUGAAA--------------
(((..(((((.((((.(((.((((....(((((......(.((((...--..)))).)......))))))))).)))..--------))))-)))))..)))..-------------- ( -30.50)
>DroPse_CAF1 24185 116 - 1
UCUCCUGGCGGUGGCUGGCACUGAUUUCAUGCUUUAUAACUCCCGAUA--UCCGAAUGGCAAACAACGUUUAGCGCUUUAGCGUAGUGCCAGUGCCACCUGCCAAAAAGGAACGGAGC
.(((((((((((((((((((((..........................--...(((((........))))).((((....)))))))))))..)))))).)))).........)))). ( -39.60)
>DroGri_CAF1 27785 85 - 1
-CUGCUGCCGCCGUCUGGCACUGAUUUUAUGCUUUAUAACCUUCGAUAGAUGCGAAUAGCAAACAACGUUUAGCGCUUC--------GCCA-GCC-----------------------
-..((((..(((....)))................................(((((..((((((...)))).))..)))--------))))-)).----------------------- ( -16.90)
>DroEre_CAF1 16416 93 - 1
UCGCAUGGCGGUGGCUGGCACUGAUUUCAUGCUUUAUAACUUUCGAUA--UCCGAAUGGCAAACAGCGUUUAGCGCUUU--------GCCA-CGCCACCUGAAA--------------
(((..(((((.((((.(((.((((....(((((......(.((((...--..)))).)......))))))))).)))..--------))))-)))))..)))..-------------- ( -30.50)
>DroYak_CAF1 26014 93 - 1
UCGCAUGGCGGUGGCUGGCACUGAUUUCAUGCUUUAUAACUUUCGAUA--UCCGAAUGGCAAACAGCGUUUAGCGCUUU--------GCCA-CGCCACCUGAAA--------------
(((..(((((.((((.(((.((((....(((((......(.((((...--..)))).)......))))))))).)))..--------))))-)))))..)))..-------------- ( -30.50)
>DroPer_CAF1 24569 116 - 1
UCUCCUGGCGGUGGCUGGCACUGAUUUCAUGCUUUAUAACUCCCGAUA--UCCGAAUGGCAAACAACGUUUAGCGCUUUAGCGUAGUGCCAGUGCCACCUGCCAAAAAGGAACGGAGC
.(((((((((((((((((((((..........................--...(((((........))))).((((....)))))))))))..)))))).)))).........)))). ( -39.60)
>consensus
UCGCAUGGCGGUGGCUGGCACUGAUUUCAUGCUUUAUAACUUUCGAUA__UCCGAAUGGCAAACAACGUUUAGCGCUUU________GCCA_CGCCACCUGAAA______________
.........((((((((((..........((((........((((.......)))).)))).....((.....))............))))..))))))................... (-16.60 = -18.13 +   1.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:18 2006