Locus 5454

Sequence ID 3R_DroMel_CAF1
Location 14,403,868 – 14,403,967
Length 99
Max. P 0.958992
window8875 window8876

overview

Window 5

Location 14,403,868 – 14,403,967
Length 99
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 81.01
Mean single sequence MFE -16.98
Consensus MFE -12.74
Energy contribution -12.63
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -2.32
Structure conservation index 0.75
SVM decision value 1.50
SVM RNA-class probability 0.958992
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14403868 99 + 27905053
CAUGAAAGCUACAUCAUUCACAUGUUAAAUAAUAUUA----------CGCCUUGAAAGUAACUAGUCCAUCUAGUUACUCGCCACUCGUUCUAAUCGAACGAGCACAGC
.......(((...........................----------......(..(((((((((.....)))))))))..)..(((((((.....)))))))...))) ( -21.30)
>DroSec_CAF1 182530 98 + 1
---------UACA-CAUCCACAUGCUAAAUAAUAUUAAACAUAAGCACCCCUUGAAAGUAACUAGU-UAUCUAGUUACUCGUCACUCGUUAUAAUCGAACGAUCACAGC
---------....-.........(((..........................(((.(((((((((.-...)))))))))..))).(((((.......)))))....))) ( -15.90)
>DroSim_CAF1 174597 98 + 1
---------UACA-CAUUCACAUGCUAAAUAAUAUUAAACAUAAGCACCUCUUGAAAGUAACUAGU-UAUCUAGUUACUCGCCACUCGUUAUAAUCGAACGUUCACAGC
---------....-........((((.................)))).....(((((((((((((.-...))))))))).......((((.......)))))))).... ( -13.73)
>consensus
_________UACA_CAUUCACAUGCUAAAUAAUAUUAAACAUAAGCACCCCUUGAAAGUAACUAGU_UAUCUAGUUACUCGCCACUCGUUAUAAUCGAACGAUCACAGC
.......................(((...........................(..(((((((((.....)))))))))..)...(((((.......)))))....))) (-12.74 = -12.63 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,403,868 – 14,403,967
Length 99
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 81.01
Mean single sequence MFE -27.10
Consensus MFE -15.52
Energy contribution -15.97
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.46
Structure conservation index 0.57
SVM decision value 0.40
SVM RNA-class probability 0.722227
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14403868 99 - 27905053
GCUGUGCUCGUUCGAUUAGAACGAGUGGCGAGUAACUAGAUGGACUAGUUACUUUCAAGGCG----------UAAUAUUAUUUAACAUGUGAAUGAUGUAGCUUUCAUG
(((..((((((((.....)))))))))))((((((((((.....))))))))))..(((((.----------..((((((((((.....)))))))))).))))).... ( -35.20)
>DroSec_CAF1 182530 98 - 1
GCUGUGAUCGUUCGAUUAUAACGAGUGACGAGUAACUAGAUA-ACUAGUUACUUUCAAGGGGUGCUUAUGUUUAAUAUUAUUUAGCAUGUGGAUG-UGUA---------
(.(((((((....))))))).)...(((.((((((((((...-.)))))))))))))..(.(((((.(((........)))..))))).).....-....--------- ( -22.90)
>DroSim_CAF1 174597 98 - 1
GCUGUGAACGUUCGAUUAUAACGAGUGGCGAGUAACUAGAUA-ACUAGUUACUUUCAAGAGGUGCUUAUGUUUAAUAUUAUUUAGCAUGUGAAUG-UGUA---------
.......(((((((.......(...(((.((((((((((...-.)))))))))))))...)(((((.(((........)))..))))).))))))-)...--------- ( -23.20)
>consensus
GCUGUGAUCGUUCGAUUAUAACGAGUGGCGAGUAACUAGAUA_ACUAGUUACUUUCAAGGGGUGCUUAUGUUUAAUAUUAUUUAGCAUGUGAAUG_UGUA_________
((((...(((((.......))))).(((.((((((((((.....))))))))))))).........................))))....................... (-15.52 = -15.97 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:06 2006