Locus 6956

Sequence ID 3R_DroMel_CAF1
Location 18,330,460 – 18,330,595
Length 135
Max. P 0.945157
window11280 window11281

overview

Window 0

Location 18,330,460 – 18,330,556
Length 96
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 86.13
Mean single sequence MFE -19.28
Consensus MFE -14.26
Energy contribution -15.30
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -2.46
Structure conservation index 0.74
SVM decision value 1.35
SVM RNA-class probability 0.945157
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18330460 96 + 27905053
---------------CCUCCAUCUGGCCACCUGCCUGAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUUUUUGCCAG-UUUUU-U
---------------.......(((((....(((.(((.....)))))).(((((((((.((((...(((.......))).....)))).))))))))).)))))-.....-. ( -20.20)
>DroSec_CAF1 15958 97 + 1
---------------CCUCCAUCUGGCCACCUGCCUGAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUUUUUGCCAGCUUUUU-U
---------------.......(((((....(((.(((.....)))))).(((((((((.((((...(((.......))).....)))).))))))))).)))))......-. ( -20.00)
>DroSim_CAF1 16243 97 + 1
---------------CCUCCAUCUGGCCACCUGCCUGAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUUUUUGCCAGCUUUUU-U
---------------.......(((((....(((.(((.....)))))).(((((((((.((((...(((.......))).....)))).))))))))).)))))......-. ( -20.00)
>DroEre_CAF1 16368 112 + 1
GCUCUUUCCCCCUUACCACCACCUGCUCACCUGCCUGAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUU-UUGCCAGCUUUUUGU
........................((......)).....((((..(((.((((((((((.((((...(((.......))).....)))).)))))))-)))...)))..)))) ( -18.40)
>DroYak_CAF1 16780 88 + 1
-------CG-------CCCCACCUGCCCACGUGCCUGAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUU-UUGCC----------
-------.(-------(.............((((.(((.....)))))))(((((((((.((((...(((.......))).....)))).)))))))-)))).---------- ( -17.80)
>consensus
_______________CCUCCAUCUGGCCACCUGCCUGAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUUUUUGCCAGCUUUUU_U
......................(((((....(((.(((.....)))))).(((((((((.((((...(((.......))).....)))).))))))))).)))))........ (-14.26 = -15.30 +   1.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,330,481 – 18,330,595
Length 114
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 88.25
Mean single sequence MFE -17.52
Consensus MFE -11.84
Energy contribution -12.24
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.68
SVM decision value 0.14
SVM RNA-class probability 0.601439
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18330481 114 + 27905053
GAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUUUUUGCCAG-UUUUU-UGUUUUAUUGUGCCCCUUUUCCAUUUUUC-CCCACCCCAUU
..........((((((.....(((((.(((((.(((((((((......)))).........))))))))-))..)-))))...))))))................-........... ( -17.00)
>DroSec_CAF1 15979 116 + 1
GAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUUUUUGCCAGCUUUUU-UGUUUUAUUGUGCCCCUCUUCCACUUUCCCCCCACCCCAUU
..........(((((....((((.(((((..(((((((((((......)))))))..(......)...))))..)-)))))))))))))............................ ( -17.60)
>DroSim_CAF1 16264 116 + 1
GAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUUUUUGCCAGCUUUUU-UGUUUUAUUGUGCCCCUCUUCCACUUUCCCCCCACCCCAUU
..........(((((....((((.(((((..(((((((((((......)))))))..(......)...))))..)-)))))))))))))............................ ( -17.60)
>DroEre_CAF1 16404 111 + 1
GAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUU-UUGCCAGCUUUUUGUGUUUUAUUGUGCCCCUUUUCCAUUUUCCCC-----CCAUU
...(((((.((((((((((((.....(((..(((.(((((((......)))))))..))).-)))...))))))))))))..)))))....................-----..... ( -21.20)
>DroYak_CAF1 16802 94 + 1
GAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUU-UUGCC-----------------UGUACCCCUUUUACAUUUUUCCC-----CCAUU
........(((..((((((((((.((((...(((.......))).....)))).)))))))-))).)-----------------)).....................-----..... ( -14.20)
>consensus
GAAACAAUCAGCACAGAAAGUAACAACAAUUGAGCAAAAUACUUUCCUGUGUUUUUACUUUUUUGCCAGCUUUUU_UGUUUUAUUGUGCCCCUUUUCCAUUUUCCCCCCACCCCAUU
..........(((.(((((((((.((((...(((.......))).....)))).))))))))))))................................................... (-11.84 = -12.24 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:08 2006