Locus 4099

Sequence ID X_DroMel_CAF1
Location 10,827,697 – 10,827,794
Length 97
Max. P 0.990384
window6736 window6737

overview

Window 6

Location 10,827,697 – 10,827,794
Length 97
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 74.62
Mean single sequence MFE -27.97
Consensus MFE -17.96
Energy contribution -17.85
Covariance contribution -0.11
Combinations/Pair 1.12
Mean z-score -1.52
Structure conservation index 0.64
SVM decision value 0.88
SVM RNA-class probability 0.873654
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10827697 97 + 22224390
----------------CCACACCC---CCUUUGUCUGUGU-UUUUAAGCCGGCGGUGACACUUAGCCAAAUAUAAUAUGGCUUUUAUGUCAGCCACUUGCAGAAAAUUGCUUUGGAU
----------------........---((...((....((-((((..((.((.(((((((...(((((.........)))))....))))).)).)).)).)))))).))...)).. ( -21.50)
>DroEre_CAF1 51185 95 + 1
----------------CC---CUG---CCUGUGUCUGUGUGUUUUAAGCCGGCGGUGACACUUAGCCAAAUAUAAUAUGGCUUUUAUGUCAGCCACUUGCAGAAAAUUGCUUCGGAU
----------------..---...---.....(((((...(((((..((.((.(((((((...(((((.........)))))....))))).)).)).))..))))).....))))) ( -24.20)
>DroWil_CAF1 42008 103 + 1
--AAUGAGGGCAAGAACCAGGGCAGGGCGUGU----GA-------GUGCCAGCGGUGACACUUAGCCAAAUAUAAUAUGGCUUUUAUGUCAGCCACUUGCAGAAAAUUGCUUUGUC-
--.....((.......))..(((((((((...----..-------.(((.((.(((((((...(((((.........)))))....))))).)).)).)))......)))))))))- ( -31.20)
>DroYak_CAF1 46960 97 + 1
----------------CCACUCCC---CCUUUGUCUGUGU-UUUUAAGCCGGCGGUGACACUUAGCCAAAUAUAAUAUGGCUUUUAUGUCAGCCACUUGCAGAAAAUUGCUUUGGAU
----------------........---((...((....((-((((..((.((.(((((((...(((((.........)))))....))))).)).)).)).)))))).))...)).. ( -21.50)
>DroMoj_CAF1 50728 107 + 1
UGAAUGGGGGCGUGGUCGUGUG-UGGG----UGUUUGUGU-AUGUGUGCCGUCGGCGACACUUAGCCAAAUAUAAUAUGGCUUUUAUGUCAGCCACUUGCACAAAAUUGCUUU----
...........(..((..((((-..((----((.((((((-(.(((((((...))).))))..(((((.........)))))..)))).))).))))..))))..))..)...---- ( -32.40)
>DroAna_CAF1 51944 96 + 1
----------------CCAUGCCAGGGCCUUU----GUGU-UUGUAAGCCGGCGGUGACACUUAGCCAAAUAUAAUAUGGCUUUUAUGUCAGCCACUUGCAGAAAAUUGCUUUGGCU
----------------....((((((((..((----...(-(((((((..(((..(((((...(((((.........)))))....)))))))).)))))))).))..)))))))). ( -37.00)
>consensus
________________CCACGCCA___CCUUUGUCUGUGU_UUUUAAGCCGGCGGUGACACUUAGCCAAAUAUAAUAUGGCUUUUAUGUCAGCCACUUGCAGAAAAUUGCUUUGGAU
...............................................((.((.(((((((...(((((.........)))))....)))).))).)).))................. (-17.96 = -17.85 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,827,697 – 10,827,794
Length 97
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 74.62
Mean single sequence MFE -27.48
Consensus MFE -20.92
Energy contribution -20.95
Covariance contribution 0.03
Combinations/Pair 1.06
Mean z-score -2.40
Structure conservation index 0.76
SVM decision value 2.21
SVM RNA-class probability 0.990384
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10827697 97 - 22224390
AUCCAAAGCAAUUUUCUGCAAGUGGCUGACAUAAAAGCCAUAUUAUAUUUGGCUAAGUGUCACCGCCGGCUUAAAA-ACACAGACAAAGG---GGGUGUGG----------------
...........((((..((..((((.((((((...(((((.........)))))..))))))))))..))..))))-.((((..(.....---)..)))).---------------- ( -27.90)
>DroEre_CAF1 51185 95 - 1
AUCCGAAGCAAUUUUCUGCAAGUGGCUGACAUAAAAGCCAUAUUAUAUUUGGCUAAGUGUCACCGCCGGCUUAAAACACACAGACACAGG---CAG---GG----------------
..((...((.....((((...((((.((((((...(((((.........)))))..)))))))))).(........)...)))).....)---).)---).---------------- ( -24.80)
>DroWil_CAF1 42008 103 - 1
-GACAAAGCAAUUUUCUGCAAGUGGCUGACAUAAAAGCCAUAUUAUAUUUGGCUAAGUGUCACCGCUGGCAC-------UC----ACACGCCCUGCCCUGGUUCUUGCCCUCAUU--
-......((((...((.((((((((.((((((...(((((.........)))))..)))))))))))(((..-------..----....))).)))...))...)))).......-- ( -29.20)
>DroYak_CAF1 46960 97 - 1
AUCCAAAGCAAUUUUCUGCAAGUGGCUGACAUAAAAGCCAUAUUAUAUUUGGCUAAGUGUCACCGCCGGCUUAAAA-ACACAGACAAAGG---GGGAGUGG----------------
.(((...(((......)))(((((((((((((...(((((.........)))))..))))))..))).))))....-.............---.)))....---------------- ( -25.00)
>DroMoj_CAF1 50728 107 - 1
----AAAGCAAUUUUGUGCAAGUGGCUGACAUAAAAGCCAUAUUAUAUUUGGCUAAGUGUCGCCGACGGCACACAU-ACACAAACA----CCCA-CACACGACCACGCCCCCAUUCA
----..........(((((...((((.(((((...(((((.........)))))..)))))))))...)))))...-.........----....-...................... ( -26.20)
>DroAna_CAF1 51944 96 - 1
AGCCAAAGCAAUUUUCUGCAAGUGGCUGACAUAAAAGCCAUAUUAUAUUUGGCUAAGUGUCACCGCCGGCUUACAA-ACAC----AAAGGCCCUGGCAUGG----------------
.((((..(((......)))..((((.((((((...(((((.........)))))..)))))))))).(((((....-....----..))))).))))....---------------- ( -31.80)
>consensus
AUCCAAAGCAAUUUUCUGCAAGUGGCUGACAUAAAAGCCAUAUUAUAUUUGGCUAAGUGUCACCGCCGGCUUAAAA_ACACAGACAAAGG___GGGACUGG________________
.................((..((((.((((((...(((((.........)))))..))))))))))..))............................................... (-20.92 = -20.95 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:19 2006