Locus 1391

Sequence ID X_DroMel_CAF1
Location 4,178,664 – 4,178,824
Length 160
Max. P 0.500000
window2218 window2219

overview

Window 8

Location 4,178,664 – 4,178,784
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 89.25
Mean single sequence MFE -23.79
Consensus MFE -16.69
Energy contribution -17.25
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -1.56
Structure conservation index 0.70
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4178664 120 - 22224390
UUUCAGAAAAGGUAAACAUUACCCCUACUGUUUGCUUAUGUUUAUUUCAAAAUAGCAGUGGGAAAAGUUUGUUUACCACAUUCACCGCAAUCGAUCACGAAUUUUUUCAGUUUAUGCUAC
.....(((((((((((((.....(((((((((.....................))))))))).......)))))))).............(((....)))...)))))(((....))).. ( -24.60)
>DroSec_CAF1 11296 119 - 1
UUUCAGAAAAGGUAAACAUUACCCCUACUGUUUGCUUAUGUUUAUUUCAAAAAGCCAGUGGGAAAAGUUUGUUUAACACAUUCACCGCAAUCGAUCACGAAUUU-UUCAAUUUAUGCUAC
.....((((((((..........(((((((...((((.((.......))..)))))))))))....(..(((.....)))..))))....(((....)))..))-)))............ ( -19.00)
>DroEre_CAF1 11476 118 - 1
UUUCGGAAAAGGUAAACAUCACCCCAACUGUUUGCUUAUGUUUAUUUCAAAA-GGCAGUGGGAAAAGUUUAUUUACCACAUUCGCCGCAAUUGAUCACGAAUUU-UUCAGUUUAUGCUAC
.((((((..(((((((((..........))))))))).........((((..-(((((((((.(((.....))).)).)))).)))....)))))).))))...-...(((....))).. ( -22.00)
>DroYak_CAF1 12460 108 - 1
UUUCUGAAAAGGUAAACAUUACCCCUACUGUUUGCUUAUAUUUAUUUCGAAA-AGCAGUGGGA-AAGUUUGUUUACCACAUUCACCGCAAUCGAUCACGAAUUU-UUCAGU---------
...(((((((((((((((.....((((((((((..................)-))))))))).-.....)))))))).............(((....)))..))-))))).--------- ( -29.57)
>consensus
UUUCAGAAAAGGUAAACAUUACCCCUACUGUUUGCUUAUGUUUAUUUCAAAA_AGCAGUGGGAAAAGUUUGUUUACCACAUUCACCGCAAUCGAUCACGAAUUU_UUCAGUUUAUGCUAC
.....(((..((((((((.....(((((((((.....................))))))))).......)))))))).............(((....))).....)))............ (-16.69 = -17.25 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 4,178,704 – 4,178,824
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.28
Mean single sequence MFE -23.80
Consensus MFE -17.84
Energy contribution -18.15
Covariance contribution 0.31
Combinations/Pair 1.14
Mean z-score -1.44
Structure conservation index 0.75
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4178704 120 - 22224390
GUACAUCCGUACAUACAUACAUCAAGGGUUUGGCAUCUGCUUUCAGAAAAGGUAAACAUUACCCCUACUGUUUGCUUAUGUUUAUUUCAAAAUAGCAGUGGGAAAAGUUUGUUUACCACA
((((....))))..............((...(((....))).))......((((((((.....(((((((((.....................))))))))).......))))))))... ( -26.00)
>DroSec_CAF1 11335 103 - 1
A-----------------AGAUCAAGGAUUUGGCAUCUGCUUUCAGAAAAGGUAAACAUUACCCCUACUGUUUGCUUAUGUUUAUUUCAAAAAGCCAGUGGGAAAAGUUUGUUUAACACA
.-----------------............((((.((((....))))..(((((((((.((....)).)))))))))................))))(((..(((......)))..))). ( -19.50)
>DroEre_CAF1 11515 102 - 1
-----------------UACAUCAAGGGUGUAGCAUCUGCUUUCGGAAAAGGUAAACAUCACCCCAACUGUUUGCUUAUGUUUAUUUCAAAA-GGCAGUGGGAAAAGUUUAUUUACCACA
-----------------(((((.....))))).....((((((..(((((((((((((..........))))))))).......))))..))-))))((((.(((......))).)))). ( -22.11)
>DroYak_CAF1 12490 101 - 1
-----------------UACAUCAAGGGUAAAGCAUCUGCUUUCUGAAAAGGUAAACAUUACCCCUACUGUUUGCUUAUAUUUAUUUCGAAA-AGCAGUGGGA-AAGUUUGUUUACCACA
-----------------.........((.(((((....))))))).....((((((((.....((((((((((..................)-))))))))).-.....))))))))... ( -27.57)
>consensus
_________________UACAUCAAGGGUUUAGCAUCUGCUUUCAGAAAAGGUAAACAUUACCCCUACUGUUUGCUUAUGUUUAUUUCAAAA_AGCAGUGGGAAAAGUUUGUUUACCACA
..........................((...(((....))).))......((((((((.....(((((((((.....................))))))))).......))))))))... (-17.84 = -18.15 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:10 2006