Locus 5737

Sequence ID X_DroMel_CAF1
Location 14,837,982 – 14,838,138
Length 156
Max. P 0.865600
window9308 window9309

overview

Window 8

Location 14,837,982 – 14,838,102
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.78
Mean single sequence MFE -59.60
Consensus MFE -50.06
Energy contribution -52.15
Covariance contribution 2.09
Combinations/Pair 1.23
Mean z-score -1.77
Structure conservation index 0.84
SVM decision value 0.31
SVM RNA-class probability 0.683420
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14837982 120 - 22224390
GCUGCACCCUCGAUGACCACGCGACUGUCGCGACUUGGCGGCGAGGAGUCCACCUCGCCACCCUCGUCGAUGGUGUCCUGGCGGGCAAGGGUGGCCUGGCUAGCUUGCAGCUUGGGCGCC
((((((((.(((((((...((((.....))))....((.(((((((......))))))).)).))))))).)))))...))).......((((.((.((((.(....))))).)).)))) ( -57.50)
>DroVir_CAF1 4351 120 - 1
GCGCCGCCAUCGAUGACCACCCGGCUGUCACGGCUGGGCGGCGAUGAGUCAACCUCGCCGCCCUCGUCGAUGGUGUCCUGGCGGGCCAGCGUCGCCUGGCUGGCCUGCAGCUUGGGCGCC
((((((((((((((((......(((((...)))))(((((((((.(......).))))))))))))))))))))......((((((((((........))))))))))......))))). ( -73.50)
>DroGri_CAF1 5076 120 - 1
GCAGCGCCAUCGAUGACCACCCGACUGUCCCGACUAGGUGGCGAGGAGUCAACCUCGCCGCCCUCAUCGAUGGUGUCCUGGCGGGCGAGUGUUGCCUGGCUAGCUUGUAGCUUGGGCGCU
..((((((((((((((.....((.......))....((((((((((......)))))))))).)))))))))))((((.(((..((((((...((...))..)))))).))).))))))) ( -59.20)
>DroWil_CAF1 5977 120 - 1
CCUCCGCCCUCCAUGACCACACGACUGUCACGACUGGGCGGGGAGGAGUCAACCUCGCCGCCCUCAUCGAUGGUAUCCUGGCGUGCUAGGGUAGCUUGGCUAGCCUGCAUUUUGGGUGCC
....(((((.....(.(((....((((((......((((((.((((......)))).)))))).....))))))....))))((((.(((.((((...)))).)))))))...))))).. ( -50.80)
>DroMoj_CAF1 4301 120 - 1
GCACCGCCAUCGAUGACCACACGACUGUCCCGGCUGGGUGGCGACGAGUCCACCUCGCCGCCCUCGUCGAUGGUGUCCUGACGAGCGAGCGUCGCCUGGCUAGCCUGCAGCUUGGGCGCC
((..((((((((((((.....((.......))...(((((((((.(......).)))))))))))))))))))))....((((......))))((((((((.(....)))).))))))). ( -52.00)
>DroPer_CAF1 4843 120 - 1
GCCCCUCCAUCGAUGACUAUACGGCUGUCGCGACUGGGUGGAGAGGAGUCCACCUCGCCGCCCUCGUCGAUGGUGUCCUGGCGGGCGAGCGUCGCCUGGCUCGCCUGCAGCUUGGGCGCC
(((((.((((((((((.......((....))....((((((.((((......)))).)))))))))))))))).).....((((((((((........)))))))))).....))))... ( -64.60)
>consensus
GCACCGCCAUCGAUGACCACACGACUGUCACGACUGGGCGGCGAGGAGUCAACCUCGCCGCCCUCGUCGAUGGUGUCCUGGCGGGCGAGCGUCGCCUGGCUAGCCUGCAGCUUGGGCGCC
((...(((((((((((.....((.......))...(((((((((((......))))))))))))))))))))))((((..((((((((((........)))))))))).....)))))). (-50.06 = -52.15 +   2.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,838,022 – 14,838,138
Length 116
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 75.23
Mean single sequence MFE -52.59
Consensus MFE -30.32
Energy contribution -30.85
Covariance contribution 0.53
Combinations/Pair 1.21
Mean z-score -1.77
Structure conservation index 0.58
SVM decision value 0.85
SVM RNA-class probability 0.865600
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14838022 116 + 22224390
CAGGACACCAUCGACGAGGGUGGCGAGGUGGACUCCUCGCCGCCAAGUCGCGACAGUCGCGUGGUCAUCGAGGGUGCAGCCGUCUCCUCGGCCACCGUGG-GACCAUCGCCGCCAGU
..((.(......(((...((((((((((......))))))))))..)))((((..(((.((((((..((((((..((....))..))))))..)))))).-)))..)))).)))... ( -57.30)
>DroEre_CAF1 4082 110 + 1
CAGGACACCAUCGACGAGGGUGGCGAGGUGGACUCCUCGCCGCCAAGUCGCGACAGUCGCGUGGUCAUCGAGGGUGCAGC------CUCGGCCACCGUGG-GACCAUCGCCGCCAGU
..((.(......(((...((((((((((......))))))))))..)))((((..(((.((((((..((((((......)------)))))..)))))).-)))..)))).)))... ( -55.00)
>DroWil_CAF1 6017 114 + 1
CAGGAUACCAUCGAUGAGGGCGGCGAGGUUGACUCCUCCCCGCCCAGUCGUGACAGUCGUGUGGUCAUGGAGGGCGGAGGAACCAACACAACCAACGCAGUCACCAUUGCCUCU---
.(((.......(((((..(((.(((.(((((.....(((((((((..(((((((.........))))))).)))))).))).......)))))..))).)))..))))))))..--- ( -43.11)
>DroYak_CAF1 4111 116 + 1
CAGGACACCAUCGACGAGGGUGGCGAGGUGGACUCCUCGCCGCCAAGUCGCGACAGUCGCGUGGUUAUCGAGGGUGCAGCCGUCACCUCGGCCACCGUGG-GACCAUCGCCGCCAGU
..((.(......(((...((((((((((......))))))))))..)))((((..(((.((((((..((((((..((....))..))))))..)))))).-)))..)))).)))... ( -56.60)
>DroMoj_CAF1 4341 104 + 1
CAGGACACCAUCGACGAGGGCGGCGAGGUGGACUCGUCGCCACCCAGCCGGGACAGUCGUGUGGUCAUCGAUGGCGGUGCAGCCGCC---------ACA----GCCACGUCCACAGC
..(((((((((((((...(((((((((.....))))))))).(((....)))...)))).)))))....(.((((((.....)))))---------)).----.....))))..... ( -52.20)
>DroAna_CAF1 4208 105 + 1
CAGGACACCAUCGACGAGGGCGGCGAGGUGGACUCCUCCCCGCCCAGUCGCGACAGUCGUGUGGUCAUCGAAGGUGCCACAGGAGCAGCAGGC--GG----------UGGUGGCAGU
.....((((((((((..((((((.((((......)))).)))))).)))((..(..((.(((((.(((.....)))))))).)))..))....--))----------)))))..... ( -51.30)
>consensus
CAGGACACCAUCGACGAGGGCGGCGAGGUGGACUCCUCGCCGCCAAGUCGCGACAGUCGCGUGGUCAUCGAGGGUGCAGCAGCCACCUCGGCCACCGUGG_GACCAUCGCCGCCAGU
.....((((.((((.((.((((((((((......))))))))))....((((.....))))...)).)))).))))......................................... (-30.32 = -30.85 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:10 2006