Locus 3915

Sequence ID 2R_DroMel_CAF1
Location 12,900,940 – 12,901,073
Length 133
Max. P 0.849161
window6320 window6321

overview

Window 0

Location 12,900,940 – 12,901,035
Length 95
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 75.57
Mean single sequence MFE -35.63
Consensus MFE -19.84
Energy contribution -20.77
Covariance contribution 0.92
Combinations/Pair 1.29
Mean z-score -1.74
Structure conservation index 0.56
SVM decision value 0.57
SVM RNA-class probability 0.783681
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12900940 95 - 20766785
---------------------GGGGGGAGUCUACCCCAAGUGGGUGGCUGGUGGCUUAAUGCCCAAAUUCAUGACAUACUUCAAGGCGCUGCCAGUGACCCAAGACCAAAAUUUAU
---------------------((((((......))))...(((((.(((((..((.....(((.....................)))))..))))).)))))...))......... ( -35.50)
>DroSec_CAF1 24250 96 - 1
--------------------AGGUGGGGGUCUGCCCCAAGUGGGUGGCUGGUGGCUUAAUGCCCAAAUUCAUGGCAUACUUCAAGGCGUUGCCGGCGACCCAAGACCAAAAUUUAU
--------------------.(((.((((....))))...(((((.(((((..((...(((((.........))))).((....)).))..))))).)))))..)))......... ( -40.30)
>DroSim_CAF1 11818 97 - 1
-----------------UGGAGGAGGGGG--CGCCCCAAGUGGGUGUGUGGUGGCUUAAUGCCCAAAUUCAUGGCAUACUUCAAGGCGCUGCCGGCGACCCAAGACCAAAAUUUAU
-----------------(((....((.((--((((((....))((((((.(((((.....))).......)).)))))).....)))))).))((....))....)))........ ( -31.61)
>DroEre_CAF1 26301 85 - 1
-------------------------------UGCCCCAAGUGGGUGGUUGGUGGCUUAAUGCCCAAAUUCAUGGCAUACUUCAAGGCGCUGCCGGCGACCCAAGACCGAAAUUUAU
-------------------------------.........(((((.(((((..((...(((((.........))))).((....)).))..))))).))))).............. ( -27.60)
>DroYak_CAF1 25452 106 - 1
CUCGUCAGU--------UGGGUGGCAUGG--CCCCCCAAGUGGAUGGUUGCUGGCUUAAUGCCGAAAUUCAUGGCAUACUUCAAGGCGCUGCCGGCGACCCAAGACCGAAAUUUAU
.((((((.(--------((((.(((...)--)).))))).)))..((((((((((...((((((.......)))))).((....))....))))))))))......)))....... ( -39.00)
>DroAna_CAF1 24695 110 - 1
GUCCCCACCGGGCAGGGCUUUGGAGUGGG--UGGGUCUAGUG----GGCGGUGGCUUAAUGUCCAAAUUCAUGGCAUACUUCAAGGCGCUGCCGACGACCCUAGACCGAAAUUUAU
(((((((((((((...))))..).)))))--.(((((..((.----(((((((.(((.(((.(((......)))))).....))).))))))).)))))))..))).......... ( -39.80)
>consensus
_____________________GGAGGGGG__UGCCCCAAGUGGGUGGCUGGUGGCUUAAUGCCCAAAUUCAUGGCAUACUUCAAGGCGCUGCCGGCGACCCAAGACCAAAAUUUAU
........................................(((((.(((((((((...(((((.........))))).((....)).))))))))).))))).............. (-19.84 = -20.77 +   0.92)

alignment

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secondary structure

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dotplot

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Window 1

Location 12,900,980 – 12,901,073
Length 93
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 78.98
Mean single sequence MFE -23.18
Consensus MFE -15.40
Energy contribution -14.96
Covariance contribution -0.44
Combinations/Pair 1.16
Mean z-score -1.88
Structure conservation index 0.66
SVM decision value 0.78
SVM RNA-class probability 0.849161
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12900980 93 + 20766785
UGUCAUGAAUUUGGGCAUUAAGCCACCAGCCACCCACUUGGGGUAGACUCCCCCC---------------CCCCUUCAUUUUCCUAGACAAUUUGAGGCAAUCAUGCA
.(.(((((.....(((.....)))....(((........((((..(......)..---------------)))).(((..((.......))..))))))..)))))). ( -21.90)
>DroSec_CAF1 24290 94 + 1
UGCCAUGAAUUUGGGCAUUAAGCCACCAGCCACCCACUUGGGGCAGACCCCCACCU--------------CCCUCUCAUUUUCCUAGACAAUUUGAGGCAAUCAUGCA
.((.((((.....(((.....)))....(((.......(((((.....)))))...--------------.....(((..((.......))..))))))..)))))). ( -21.90)
>DroSim_CAF1 11858 97 + 1
UGCCAUGAAUUUGGGCAUUAAGCCACCACACACCCACUUGGGGCG--CCCCCUCCUCCA---------CCCCCUCUCAUUUUCCUAGACAAUUUGAGGCAAUCAUGCA
.((.((((....((((.....(((.(((..........)))))))--))).........---------...((((..(((.((...)).)))..))))...)))))). ( -21.40)
>DroEre_CAF1 26341 81 + 1
UGCCAUGAAUUUGGGCAUUAAGCCACCAACCACCCACUUGGGGCA---------------------------CCCCCACUUUCGUAGACAAUUUGAGGCAAUCAUGCA
(((((((((..((((......(((.((((........))))))).---------------------------..))))..)))))...(.....).))))........ ( -21.30)
>DroYak_CAF1 25492 106 + 1
UGCCAUGAAUUUCGGCAUUAAGCCAGCAACCAUCCACUUGGGGGG--CCAUGCCACCCAACUGACGAGCCCCCCUUCAUUUUCCUAGACAAUUUGAGGCAAUCAUGCA
((((.(((((((((((.....)))...............((((((--(..((.((......)).)).)))))))............)).)))))).))))........ ( -29.40)
>consensus
UGCCAUGAAUUUGGGCAUUAAGCCACCAACCACCCACUUGGGGCA__CCCCCCCC_______________CCCCCUCAUUUUCCUAGACAAUUUGAGGCAAUCAUGCA
.(.(((((.....(((.....)))........(((....)))...............................(((((..((.......))..)))))...)))))). (-15.40 = -14.96 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:12 2006