Locus 5660

Sequence ID X_DroMel_CAF1
Location 14,639,197 – 14,639,295
Length 98
Max. P 0.966079
window9194 window9195

overview

Window 4

Location 14,639,197 – 14,639,295
Length 98
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 75.62
Mean single sequence MFE -23.55
Consensus MFE -14.70
Energy contribution -13.93
Covariance contribution -0.77
Combinations/Pair 1.47
Mean z-score -1.59
Structure conservation index 0.62
SVM decision value 0.77
SVM RNA-class probability 0.846253
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14639197 98 + 22224390
AAAAACCAAAUCCCGCU---CCCAAAGGCCAUAAAAACGGC-------GGUGGCCAUUUGUCGGGCU--UUAGUAUUUUUAUUAGCAAGUACGCGAAAUUCGAUUUCCAU
.......(((((..(((---(.((((((((((.........-------.)))))).))))..)))).--...((((((........)))))).........))))).... ( -20.90)
>DroGri_CAF1 117577 103 + 1
ACAAAGGCAACCCAGAU---CCAAUAGGAACUGAAG--CUAGACAUGGAUUGUCCAGAUGUUUGUCUCAUGGGCAUUUUUAUUAGCAUGUGU--UGAAUUUCAGUUUCAU
..(((..((((.(((.(---((....))).)))..(--((((....(((.((((((((........)).)))))).)))..)))))....))--))..)))......... ( -22.80)
>DroSec_CAF1 109003 92 + 1
A-------AAUCCCGCCACCACCAAAGGCCAUAAAA--CGC-------GGUGGCCAUUUGUCGGGCU--UUAGUAUUUUUAUUAUCAAGUACGCGAAAUUCGAUUUCCAU
.-------.....(((..((..((((((((((....--...-------.)))))).))))..))...--...((((((........)))))))))............... ( -21.80)
>DroSim_CAF1 106756 99 + 1
AAAAACCAAAUCCCGCCACCACCAAAGGCCAUAAAA--CGC-------GGUGGCCAUUUGUCGGGCU--UUAGUAUUUUUAUUAUCAAGUACGCGAAAUUCGAUUUCCAU
.............(((..((..((((((((((....--...-------.)))))).))))..))...--...((((((........)))))))))............... ( -21.80)
>DroEre_CAF1 102712 96 + 1
AAAAACCAAAUCCCGCC---CCCAAAGGCCAUAAAA--CUU-------GGUGGCCAUUUGUUGGGCU--UUAGUGCUUUUAUUAGCAAGUGCGCGAAAUUCGAUUUCGAU
..............(((---(.((((((((((....--...-------.)))))).))))..)))).--...(..(((........)))..).((((((...)))))).. ( -27.10)
>DroYak_CAF1 105303 95 + 1
AAAAACCAAAUCCCGCC----CCAAUGGCCAUAAAA--CUC-------GGUGGCCAUUUGUUGGGCU--UUAGUACUUUUAUUAGCAAGUGCGCGAAAUUCGAUUUCCAU
.......(((((..(((----(.(((((((((....--...-------.)))))))))....)))).--...((((((........)))))).........))))).... ( -26.90)
>consensus
AAAAACCAAAUCCCGCC___CCCAAAGGCCAUAAAA__CGC_______GGUGGCCAUUUGUCGGGCU__UUAGUAUUUUUAUUAGCAAGUACGCGAAAUUCGAUUUCCAU
..............(((.....((((((((((.................)))))).))))...)))......((((((........)))))).................. (-14.70 = -13.93 +  -0.77)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 14,639,197 – 14,639,295
Length 98
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 75.62
Mean single sequence MFE -28.33
Consensus MFE -15.77
Energy contribution -17.53
Covariance contribution 1.76
Combinations/Pair 1.28
Mean z-score -2.23
Structure conservation index 0.56
SVM decision value 1.59
SVM RNA-class probability 0.966079
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14639197 98 - 22224390
AUGGAAAUCGAAUUUCGCGUACUUGCUAAUAAAAAUACUAA--AGCCCGACAAAUGGCCACC-------GCCGUUUUUAUGGCCUUUGGG---AGCGGGAUUUGGUUUUU
..(((((((((((..(((((....))...........((((--((.(((..(((((((....-------)))))))...))).)))))).---.)))..))))))))))) ( -32.40)
>DroGri_CAF1 117577 103 - 1
AUGAAACUGAAAUUCA--ACACAUGCUAAUAAAAAUGCCCAUGAGACAAACAUCUGGACAAUCCAUGUCUAG--CUUCAGUUCCUAUUGG---AUCUGGGUUGCCUUUGU
.........(((..((--((.((((...((....))...))))..........(((((((.....)))))))--..((((.(((....))---).))))))))..))).. ( -18.40)
>DroSec_CAF1 109003 92 - 1
AUGGAAAUCGAAUUUCGCGUACUUGAUAAUAAAAAUACUAA--AGCCCGACAAAUGGCCACC-------GCG--UUUUAUGGCCUUUGGUGGUGGCGGGAUU-------U
.........((((..((((((.((........)).)))...--.(((...((((.(((((..-------...--.....)))))))))..))).)))..)))-------) ( -22.50)
>DroSim_CAF1 106756 99 - 1
AUGGAAAUCGAAUUUCGCGUACUUGAUAAUAAAAAUACUAA--AGCCCGACAAAUGGCCACC-------GCG--UUUUAUGGCCUUUGGUGGUGGCGGGAUUUGGUUUUU
..(((((((((((..((((((.((........)).)))...--.(((...((((.(((((..-------...--.....)))))))))..))).)))..))))))))))) ( -30.30)
>DroEre_CAF1 102712 96 - 1
AUCGAAAUCGAAUUUCGCGCACUUGCUAAUAAAAGCACUAA--AGCCCAACAAAUGGCCACC-------AAG--UUUUAUGGCCUUUGGG---GGCGGGAUUUGGUUUUU
...((((((((((..(((.....((((......))))....--..(((..((((.(((((..-------...--.....)))))))))))---))))..)))))))))). ( -33.10)
>DroYak_CAF1 105303 95 - 1
AUGGAAAUCGAAUUUCGCGCACUUGCUAAUAAAAGUACUAA--AGCCCAACAAAUGGCCACC-------GAG--UUUUAUGGCCAUUGG----GGCGGGAUUUGGUUUUU
..(((((((((((..(((..((((........)))).....--..((((....(((((((..-------...--.....))))))))))----))))..))))))))))) ( -33.30)
>consensus
AUGGAAAUCGAAUUUCGCGCACUUGCUAAUAAAAAUACUAA__AGCCCAACAAAUGGCCACC_______GAG__UUUUAUGGCCUUUGGG___GGCGGGAUUUGGUUUUU
...((((((((((((((((((.((........)).)))........((((.....(((((...................))))).)))).....))))))))))))))). (-15.77 = -17.53 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:27 2006