Locus 6746

Sequence ID 3R_DroMel_CAF1
Location 17,768,942 – 17,769,035
Length 93
Max. P 0.839161
window10956 window10957

overview

Window 6

Location 17,768,942 – 17,769,035
Length 93
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 78.96
Mean single sequence MFE -29.23
Consensus MFE -16.64
Energy contribution -16.95
Covariance contribution 0.31
Combinations/Pair 1.10
Mean z-score -2.09
Structure conservation index 0.57
SVM decision value 0.74
SVM RNA-class probability 0.839161
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17768942 93 + 27905053
AACAACUACAGCGUAUUGGCCCAAAUGUUU-GAAUGGUUUCCGCGUGGAUGCUGCUGCGUCCAUUAGAAAGGCAUUUGCAGGCGAUGCUGUUGC
.......(((((((....((((((((((((-(((....)))...((((((((....)))))))).....)))))))))..))).)))))))... ( -31.30)
>DroPse_CAF1 61053 74 + 1
----CCUGCCACGUAUCGGCCCAAAUGAUGAAAAUGGUUUCCGCGUGGAUGCUGCGGCCUCCAUUAGAAAGGCAUUUG----------------
----..((((...(((((.......)))))..(((((...((((((....)).))))...))))).....))))....---------------- ( -19.60)
>DroSec_CAF1 57411 93 + 1
AACAACUACAUCGUAUCGGCCCAAAUGUUU-GAAUGGUUUCCGCGUGGAUGCUGCUGCAUCCAUUAGAAAGGCAUUUGCAGGCGAUGCUGUUGC
..((((..((((((....((..((((((((-(((....)))...((((((((....)))))))).....))))))))))..))))))..)))). ( -31.10)
>DroEre_CAF1 63029 93 + 1
AAGAACAACAGCAUAUCGGCCCAAAUGUUU-GAAUGGUUUCCGCGUGGAUGCUGCUGCGUCCAUUAGAAAGGCAUUUGCAGCCGAUGUUGUUGC
.....((((((((..(((((.(((((((((-(((....)))...((((((((....)))))))).....)))))))))..))))))))))))). ( -36.80)
>DroYak_CAF1 61655 90 + 1
---AACAACAGCUUAUCGGCCCAAAUGUUU-GAAUGGUUUCCGCGUGGAUGCUGCUGCGUCCAUUAGAAAGGCAUUUGCAACCGAUGUUGUUGC
---..(((((((..(((((..(((((((((-(((....)))...((((((((....)))))))).....)))))))))...)))))))))))). ( -32.80)
>DroPer_CAF1 60889 74 + 1
----CCUGCCACGAAUCGGCCCAAAUGCUGAAAAUGGUUUCCGCGUGGAUGCUGCGGCCUCCAUUAGAAAGGCAUUUG----------------
----...(((.......))).((((((((...(((((...((((((....)).))))...))))).....))))))))---------------- ( -23.80)
>consensus
___AACUACAGCGUAUCGGCCCAAAUGUUU_GAAUGGUUUCCGCGUGGAUGCUGCUGCGUCCAUUAGAAAGGCAUUUGCAG_CGAUG_UGUUGC
.....................((((((((........((((...((((((((....))))))))..))))))))))))................ (-16.64 = -16.95 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,768,942 – 17,769,035
Length 93
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 78.96
Mean single sequence MFE -25.02
Consensus MFE -15.13
Energy contribution -14.47
Covariance contribution -0.67
Combinations/Pair 1.21
Mean z-score -1.55
Structure conservation index 0.60
SVM decision value 0.13
SVM RNA-class probability 0.599176
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17768942 93 - 27905053
GCAACAGCAUCGCCUGCAAAUGCCUUUCUAAUGGACGCAGCAGCAUCCACGCGGAAACCAUUC-AAACAUUUGGGCCAAUACGCUGUAGUUGUU
((.(((((...(((..((((((.........((((.((....)).)))).(.(....))....-...)))))))))......))))).)).... ( -21.80)
>DroPse_CAF1 61053 74 - 1
----------------CAAAUGCCUUUCUAAUGGAGGCCGCAGCAUCCACGCGGAAACCAUUUUCAUCAUUUGGGCCGAUACGUGGCAGG----
----------------((((((.......(((((...((((.........))))...))))).....)))))).((((.....))))...---- ( -19.90)
>DroSec_CAF1 57411 93 - 1
GCAACAGCAUCGCCUGCAAAUGCCUUUCUAAUGGAUGCAGCAGCAUCCACGCGGAAACCAUUC-AAACAUUUGGGCCGAUACGAUGUAGUUGUU
(((((.((((((...((....))........(((((((....)))))))..(((...(((...-.......))).)))...)))))).))))). ( -30.10)
>DroEre_CAF1 63029 93 - 1
GCAACAACAUCGGCUGCAAAUGCCUUUCUAAUGGACGCAGCAGCAUCCACGCGGAAACCAUUC-AAACAUUUGGGCCGAUAUGCUGUUGUUCUU
((((((.((((((((.((((((.........((((.((....)).)))).(.(....))....-...))))))))))))..)).)))))).... ( -28.90)
>DroYak_CAF1 61655 90 - 1
GCAACAACAUCGGUUGCAAAUGCCUUUCUAAUGGACGCAGCAGCAUCCACGCGGAAACCAUUC-AAACAUUUGGGCCGAUAAGCUGUUGUU---
((((((.((((((((.((((((.........((((.((....)).)))).(.(....))....-...)))))))))))))..).)))))).--- ( -25.90)
>DroPer_CAF1 60889 74 - 1
----------------CAAAUGCCUUUCUAAUGGAGGCCGCAGCAUCCACGCGGAAACCAUUUUCAGCAUUUGGGCCGAUUCGUGGCAGG----
----------------(((((((......(((((...((((.........))))...)))))....))))))).((((.....))))...---- ( -23.50)
>consensus
GCAACA_CAUCG_CUGCAAAUGCCUUUCUAAUGGACGCAGCAGCAUCCACGCGGAAACCAUUC_AAACAUUUGGGCCGAUACGCUGUAGUU___
......................((........))..(((((.((......))((...(((...........))).)).....)))))....... (-15.13 = -14.47 +  -0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:57 2006