Locus 803

Sequence ID 3R_DroMel_CAF1
Location 2,732,841 – 2,732,949
Length 108
Max. P 0.919992
window1279 window1280

overview

Window 9

Location 2,732,841 – 2,732,949
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.46
Mean single sequence MFE -23.70
Consensus MFE -17.99
Energy contribution -17.55
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -1.93
Structure conservation index 0.76
SVM decision value 1.13
SVM RNA-class probability 0.919992
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2732841 108 + 27905053
AAUUGAUGGCAUCCAUUGCACAUAACGUGUAACUAAUGGCGCUCAUCAAUUGUGCUUUACAUCUCAAUCUGGCUUUGGCGAAA-AAA-U--------UCAGCCGGCUACA--AACAAAAA
((((((((((..(((((((((.....)))))....)))).)).))))))))..................(((((..((((((.-...-)--------)).))))))))..--........ ( -25.80)
>DroVir_CAF1 48023 109 + 1
AAUUGAUGGCAUCCAUUGCACAUAACGUGUAACUAAUGGCGCUCAUCAAUUCUGCUUUACAUCUCAAUCUGGCUAAGGCAGAA-AAA-UAAAAGAGCACAAGCGACAGCA--A-------
..((((((((..(((((((((.....)))))....)))).)).))))))((((((((((..((.......)).))))))))))-...-.............((....)).--.------- ( -27.50)
>DroPse_CAF1 28441 101 + 1
AAUUGAUGGCAUCCAUUGCACAUAACGUGUAACUAAUGGCGCUCAUCAAUUCUGCUUUACAUCUCAAUCUGGCUUUGGUGCAA-ACA-A--A-----AAAAC----------AGGAAAAA
((((((((((..(((((((((.....)))))....)))).)).))))))))................((((..((((......-.))-)--)-----....)----------)))..... ( -20.60)
>DroMoj_CAF1 49651 104 + 1
AAUUGAUGGCAUCCAUUGCACAUAACGUGUAACUAAUGGCGCUCAUCAAUUCUGCUUUACAUCUCAAUCUGGCCAAGGCAGCG-AAA-UAAAAGA-----AGAGCGAGCA--A-------
((((((((((..(((((((((.....)))))....)))).)).)))))))).(((((..............((....)).((.-...-.......-----...)))))))--.------- ( -24.14)
>DroAna_CAF1 8665 111 + 1
AAUUGAUGGCAUCCAUUGCACAUAACGUGUAACUAAUGGCGCUCAUCAAUUCUGCUUUACAUCUCAAUCUGGCUUUGGCGAAAAAAA-U--------ACAUCCAGCAGGAACAACAAAAA
..((((((((..(((((((((.....)))))....)))).)).))))))(((((((.............(.((....)).)......-.--------......))))))).......... ( -24.07)
>DroPer_CAF1 27492 102 + 1
AAUUGAUGGCAUCCAUUGCACAUAACGUGUAACUAAUGGCGCUCAUCAAUUCUGCUUUACAUCUCAAUCUGGCUUUGGUGCAA-AAAAA--A-----AAAAC----------AGGAAAAA
((((((((((..(((((((((.....)))))....)))).)).))))))))................((((..(((..(....-..)..--)-----))..)----------)))..... ( -20.10)
>consensus
AAUUGAUGGCAUCCAUUGCACAUAACGUGUAACUAAUGGCGCUCAUCAAUUCUGCUUUACAUCUCAAUCUGGCUUUGGCGAAA_AAA_U__A_____ACAACCG_CAGCA__A__AAAAA
((((((((((..(((((((((.....)))))....)))).)).)))))))).((((...((........)).....))))........................................ (-17.99 = -17.55 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,732,841 – 2,732,949
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.46
Mean single sequence MFE -26.77
Consensus MFE -18.15
Energy contribution -18.15
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.39
Structure conservation index 0.68
SVM decision value 0.30
SVM RNA-class probability 0.677712
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2732841 108 - 27905053
UUUUUGUU--UGUAGCCGGCUGA--------A-UUU-UUUCGCCAAAGCCAGAUUGAGAUGUAAAGCACAAUUGAUGAGCGCCAUUAGUUACACGUUAUGUGCAAUGGAUGCCAUCAAUU
((((.(((--((..((.(((.((--------(-...-.))))))...))))))).))))..........((((((((.((((((((.((.(((.....)))))))))).))))))))))) ( -26.60)
>DroVir_CAF1 48023 109 - 1
-------U--UGCUGUCGCUUGUGCUCUUUUA-UUU-UUCUGCCUUAGCCAGAUUGAGAUGUAAAGCAGAAUUGAUGAGCGCCAUUAGUUACACGUUAUGUGCAAUGGAUGCCAUCAAUU
-------.--.......((((.(((((((...-...-.(((((....).))))..)))).)))))))..((((((((.((((((((.((.(((.....)))))))))).))))))))))) ( -27.50)
>DroPse_CAF1 28441 101 - 1
UUUUUCCU----------GUUUU-----U--U-UGU-UUGCACCAAAGCCAGAUUGAGAUGUAAAGCAGAAUUGAUGAGCGCCAUUAGUUACACGUUAUGUGCAAUGGAUGCCAUCAAUU
......((----------(((((-----.--.-.((-((((......).)))))........)))))))((((((((.((((((((.((.(((.....)))))))))).))))))))))) ( -24.20)
>DroMoj_CAF1 49651 104 - 1
-------U--UGCUCGCUCU-----UCUUUUA-UUU-CGCUGCCUUGGCCAGAUUGAGAUGUAAAGCAGAAUUGAUGAGCGCCAUUAGUUACACGUUAUGUGCAAUGGAUGCCAUCAAUU
-------(--((((.((...-----((((..(-(((-.(((.....))).)))).)))).))..)))))((((((((.((((((((.((.(((.....)))))))))).))))))))))) ( -28.50)
>DroAna_CAF1 8665 111 - 1
UUUUUGUUGUUCCUGCUGGAUGU--------A-UUUUUUUCGCCAAAGCCAGAUUGAGAUGUAAAGCAGAAUUGAUGAGCGCCAUUAGUUACACGUUAUGUGCAAUGGAUGCCAUCAAUU
............(((((..((((--------.-((..(((.((....)).)))..)).))))..)))))((((((((.((((((((.((.(((.....)))))))))).))))))))))) ( -29.00)
>DroPer_CAF1 27492 102 - 1
UUUUUCCU----------GUUUU-----U--UUUUU-UUGCACCAAAGCCAGAUUGAGAUGUAAAGCAGAAUUGAUGAGCGCCAUUAGUUACACGUUAUGUGCAAUGGAUGCCAUCAAUU
......((----------(((((-----(--((..(-((((......).))))..))))....))))))((((((((.((((((((.((.(((.....)))))))))).))))))))))) ( -24.80)
>consensus
UUUUU__U__UGCUG_CGGUUGU_____U__A_UUU_UUCCGCCAAAGCCAGAUUGAGAUGUAAAGCAGAAUUGAUGAGCGCCAUUAGUUACACGUUAUGUGCAAUGGAUGCCAUCAAUU
...............................................((...((......))...))..((((((((.((((((((.((.(((.....)))))))))).))))))))))) (-18.15 = -18.15 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:33 2006