Locus 4803

Sequence ID X_DroMel_CAF1
Location 12,489,792 – 12,489,912
Length 120
Max. P 0.717409
window7856 window7857

overview

Window 6

Location 12,489,792 – 12,489,912
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.06
Mean single sequence MFE -43.30
Consensus MFE -27.52
Energy contribution -27.75
Covariance contribution 0.23
Combinations/Pair 1.40
Mean z-score -1.47
Structure conservation index 0.64
SVM decision value -0.04
SVM RNA-class probability 0.513629
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12489792 120 + 22224390
CACUGCCCGCUAUGCCUCGAUCAAUGCCCAUCUGGGCAUCGAGCAGUCGCGGCGUGACGACAUGGAAUCGCUUGGAUACGUGAUGAUGUACUUCAAUCGCGGCGUACUGCCAUGGCAAGG
........((((((......((.((((((....)))))).))((((((((.((((((.(((((...(((((........))))).)))).).)))..))).))).))))))))))).... ( -45.80)
>DroGri_CAF1 23417 120 + 1
CACGGCGCGCUAUGCCUCGAUCAAUGCCCAUCUGGGCAUCGAGCAGUCGCGACGUGAUGACAUGGAAUCCUUGGGGUAUGUGAUGAUGUACUUCAAUCGCGGUGUCCUGCCCUGGCAGGG
((((.((((...(((.((((....(((((....))))))))))))..)))).))))..(((((.(.....(((((((((((....)))))))))))...).)))))((((....)))).. ( -50.10)
>DroSim_CAF1 20822 119 + 1
NNNNNNNNNNNNNNNNNNNNNNNAUGCCCAUUUGGGCAUCGAGCAGUCGCGGCGUGACGACAUG-AAUCGCUUGGAUACGUGAUGAUGUACUUCAAUCGCAGCGUACUGCCCUGGCAAGG
.......................((((((....))))))...((((((((.((((((.(((((.-.(((((........))))).)))).).)))..))).))).)))))(((....))) ( -36.10)
>DroWil_CAF1 32209 120 + 1
CACCGCUCGAUAUGCCUCGAUUAAUGCCCAUUUGGGUAUCGAACAAUCACGUCGUGAUGAUAUGGAAUCACUGGGCUAUGUGAUGAUGUACUUCAAUCGUGGUGUUUUGCCCUGGCAGGG
..((..((((......))))....((((.....(((((..(((((.(((((...(((.(.((((..(((((........)))))..))))).)))..))))))))))))))).)))))). ( -36.10)
>DroMoj_CAF1 25467 120 + 1
CACAGCCCGCUAUGCCUCGAUCAAUGCCCAUUUGGGCAUCGAGCAGUCCCGUCGCGACGACAUGGAGUCGCUUGGCUAUGUGAUGAUGUACUUCAAUCGGGGCGUGCUGCCCUGGCAGGG
.....(((((.(((((((((((.((((((....)))))).))(((...(((..(((((........))))).)))...)))..(((......))).)))))))))))(((....)))))) ( -48.60)
>DroAna_CAF1 26079 120 + 1
CACCGCCCGCUAUGCCUCGAUUAAUGCCCAUUUGGGCAUUGAACAAUCACGUCGCGACGACAUGGAGUCCCUUGGCUACGUAAUGAUGUACUUUAAUCGCGGCGUCCUGCCAUGGCAGGG
...........(((((.((((((((((((....)))))))))......((((((..(((.((.((....)).))....)))..)))))).......))).)))))(((((....))))). ( -43.10)
>consensus
CACCGCCCGCUAUGCCUCGAUCAAUGCCCAUUUGGGCAUCGAGCAGUCGCGUCGUGACGACAUGGAAUCGCUUGGCUACGUGAUGAUGUACUUCAAUCGCGGCGUACUGCCCUGGCAGGG
....................((.((((((....)))))).))...((((((...(((..((((...(((((........))))).))))...)))..))))))...((((....)))).. (-27.52 = -27.75 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 12,489,792 – 12,489,912
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.06
Mean single sequence MFE -41.42
Consensus MFE -27.49
Energy contribution -26.83
Covariance contribution -0.66
Combinations/Pair 1.43
Mean z-score -1.75
Structure conservation index 0.66
SVM decision value 0.39
SVM RNA-class probability 0.717409
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12489792 120 - 22224390
CCUUGCCAUGGCAGUACGCCGCGAUUGAAGUACAUCAUCACGUAUCCAAGCGAUUCCAUGUCGUCACGCCGCGACUGCUCGAUGCCCAGAUGGGCAUUGAUCGAGGCAUAGCGGGCAGUG
((.((((...(((((.(((.(((.(((..((((........)))).)))(((((.....)))))..))).))))))))(((((((((....)))))))))....))))....))...... ( -45.00)
>DroGri_CAF1 23417 120 - 1
CCCUGCCAGGGCAGGACACCGCGAUUGAAGUACAUCAUCACAUACCCCAAGGAUUCCAUGUCAUCACGUCGCGACUGCUCGAUGCCCAGAUGGGCAUUGAUCGAGGCAUAGCGCGCCGUG
.(((((....))))).((((((((((((.(.((((.(((............)))...))))).))).))))))..((.(((((((((....))))))))).)).(((.......)))))) ( -41.60)
>DroSim_CAF1 20822 119 - 1
CCUUGCCAGGGCAGUACGCUGCGAUUGAAGUACAUCAUCACGUAUCCAAGCGAUU-CAUGUCGUCACGCCGCGACUGCUCGAUGCCCAAAUGGGCAUNNNNNNNNNNNNNNNNNNNNNNN
........(((((((.(((.(((.(((..((((........)))).)))(((((.-...)))))..))).)))))))))).((((((....))))))....................... ( -36.50)
>DroWil_CAF1 32209 120 - 1
CCCUGCCAGGGCAAAACACCACGAUUGAAGUACAUCAUCACAUAGCCCAGUGAUUCCAUAUCAUCACGACGUGAUUGUUCGAUACCCAAAUGGGCAUUAAUCGAGGCAUAUCGAGCGGUG
...(((....)))...((((.(((((((.((........))...((((((((((........)))))((((....))))...........))))).)))))))..((.......)))))) ( -29.40)
>DroMoj_CAF1 25467 120 - 1
CCCUGCCAGGGCAGCACGCCCCGAUUGAAGUACAUCAUCACAUAGCCAAGCGACUCCAUGUCGUCGCGACGGGACUGCUCGAUGCCCAAAUGGGCAUUGAUCGAGGCAUAGCGGGCUGUG
..((((....))))(((((((((((.((......))))).....(((..(((..(((.(((((...)))))))).)))(((((((((....)))))))))....)))...).)))).))) ( -46.40)
>DroAna_CAF1 26079 120 - 1
CCCUGCCAUGGCAGGACGCCGCGAUUAAAGUACAUCAUUACGUAGCCAAGGGACUCCAUGUCGUCGCGACGUGAUUGUUCAAUGCCCAAAUGGGCAUUAAUCGAGGCAUAGCGGGCGGUG
.(((((....))))).(((((((((........)))....(((.(((...((((..(((((((...)))))))...))))(((((((....)))))))......)))...))).)))))) ( -49.60)
>consensus
CCCUGCCAGGGCAGGACGCCGCGAUUGAAGUACAUCAUCACAUAGCCAAGCGAUUCCAUGUCGUCACGACGCGACUGCUCGAUGCCCAAAUGGGCAUUGAUCGAGGCAUAGCGGGCGGUG
...((((.((((((.....((((..(((.(.....).))).........(((((.....))))).....)))).))))))(((((((....)))))))......))))............ (-27.49 = -26.83 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:30 2006