Locus 6073

Sequence ID 2L_DroMel_CAF1
Location 17,068,951 – 17,069,052
Length 101
Max. P 0.691879
window9658 window9659

overview

Window 8

Location 17,068,951 – 17,069,052
Length 101
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.63
Mean single sequence MFE -23.35
Consensus MFE -14.39
Energy contribution -14.62
Covariance contribution 0.22
Combinations/Pair 1.11
Mean z-score -1.84
Structure conservation index 0.62
SVM decision value 0.33
SVM RNA-class probability 0.691879
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17068951 101 + 22407834
------------UUC-UGUGCUUUCUUUUU---UUUU--UGUC-AUUCGGUGUUAUUUUAUUGGGACCGUCGACAUUAAAAUGUUAAUGAAGCCGCAUUAACAUAUGACGGUCAUAAAAA
------------...-((((((.((....(---((..--((((-...((((.(((......))).))))..))))..)))(((((((((......)))))))))..)).)).)))).... ( -24.10)
>DroPse_CAF1 20305 102 + 1
------------UUCAUUCGCUUUGUG------UUUUUGUGUCCUGUCUGUUCUGUUUUAUUGGGACUGGCGACAUUAAAAUGUUAAUGAAGCAGCAUUAACAUAUGACGGCCAUAAAAA
------------...............------((((((((.((((((.((((((......)))))).))))........(((((((((......))))))))).....)).)))))))) ( -23.60)
>DroSec_CAF1 32956 102 + 1
------------UUC-UGUGCUUUCUUUU----UUUUUGUGUC-UCUCGGUGUUAUUUUAUUGGGACCGUCGACAUUAAAAUGUUAAUGAAGCCGCAUUAACAUAUGACGGUCAUAAAAA
------------...-((((((.((....----.(((.(((((-...((((.(((......))).))))..))))).)))(((((((((......)))))))))..)).)).)))).... ( -24.60)
>DroEre_CAF1 32505 98 + 1
------------UUC-UGUGCUUU--------CCUUUUUUGUC-UUUCGGUGUUAUUUUAUUGGGACCGGCGACAUUAAAAUGUUAAUGAAGCCGCAUUAACAUAUGACGGUCAUAAAAA
------------...-((((((.(--------(.(((..((((-..(((((.(((......))).))))).))))..)))(((((((((......)))))))))..)).)).)))).... ( -23.70)
>DroYak_CAF1 31764 118 + 1
UUUUGCUUCUGCUUC-UGUGCUUUCUCUUUUUCUUUUUUUGUC-UUUCGGUGUUAUUUUAUUGGGACCGUCGACAUUAAAAUGUUAAUGAAGCCGCAUUAACAUAUGACGGUCAUAAAAA
....((....))...-((((((.((.........(((..((((-...((((.(((......))).))))..))))..)))(((((((((......)))))))))..)).)).)))).... ( -25.10)
>DroPer_CAF1 18354 87 + 1
------------UUCAUUCGCUUU---------------------GUCUGUUCUGUUUUAUUGGGACUGGCGACAUUAAAAUGUUAAUGAAGCAGCAUUAACAUAUGACGGCCAUAAAAA
------------.......(((((---------------------(((.((((((......)))))).))))).......(((((((((......))))))))).....)))........ ( -19.00)
>consensus
____________UUC_UGUGCUUUCU_______UUUUU_UGUC_UUUCGGUGUUAUUUUAUUGGGACCGGCGACAUUAAAAUGUUAAUGAAGCCGCAUUAACAUAUGACGGUCAUAAAAA
...............................................((((.(((......))).))))..(((......(((((((((......)))))))))......)))....... (-14.39 = -14.62 +   0.22)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,068,951 – 17,069,052
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.63
Mean single sequence MFE -17.53
Consensus MFE -12.56
Energy contribution -12.67
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -1.27
Structure conservation index 0.72
SVM decision value 0.12
SVM RNA-class probability 0.594001
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17068951 101 - 22407834
UUUUUAUGACCGUCAUAUGUUAAUGCGGCUUCAUUAACAUUUUAAUGUCGACGGUCCCAAUAAAAUAACACCGAAU-GACA--AAAA---AAAAAGAAAGCACA-GAA------------
.(((((((((((((..(((((((((......))))))))).........)))))))...))))))...........-....--....---..............-...------------ ( -17.80)
>DroPse_CAF1 20305 102 - 1
UUUUUAUGGCCGUCAUAUGUUAAUGCUGCUUCAUUAACAUUUUAAUGUCGCCAGUCCCAAUAAAACAGAACAGACAGGACACAAAAA------CACAAAGCGAAUGAA------------
......((((.(.((((((((((((......)))))))))....))).)))))((((...................)))).......------...............------------ ( -17.71)
>DroSec_CAF1 32956 102 - 1
UUUUUAUGACCGUCAUAUGUUAAUGCGGCUUCAUUAACAUUUUAAUGUCGACGGUCCCAAUAAAAUAACACCGAGA-GACACAAAAA----AAAAGAAAGCACA-GAA------------
.(((((((((((((..(((((((((......))))))))).........)))))))...))))))...........-..........----.............-...------------ ( -17.80)
>DroEre_CAF1 32505 98 - 1
UUUUUAUGACCGUCAUAUGUUAAUGCGGCUUCAUUAACAUUUUAAUGUCGCCGGUCCCAAUAAAAUAACACCGAAA-GACAAAAAAGG--------AAAGCACA-GAA------------
.(((((((((((.(((......))))(((..((((((....))))))..)))))))...))))))......(....-)..........--------........-...------------ ( -17.10)
>DroYak_CAF1 31764 118 - 1
UUUUUAUGACCGUCAUAUGUUAAUGCGGCUUCAUUAACAUUUUAAUGUCGACGGUCCCAAUAAAAUAACACCGAAA-GACAAAAAAAGAAAAAGAGAAAGCACA-GAAGCAGAAGCAAAA
.(((((((((((((..(((((((((......))))))))).........)))))))...))))))......(....-).....................((...-...)).......... ( -20.20)
>DroPer_CAF1 18354 87 - 1
UUUUUAUGGCCGUCAUAUGUUAAUGCUGCUUCAUUAACAUUUUAAUGUCGCCAGUCCCAAUAAAACAGAACAGAC---------------------AAAGCGAAUGAA------------
......((((.(.((((((((((((......)))))))))....))).)))))(((................)))---------------------............------------ ( -14.59)
>consensus
UUUUUAUGACCGUCAUAUGUUAAUGCGGCUUCAUUAACAUUUUAAUGUCGACGGUCCCAAUAAAAUAACACCGAAA_GACA_AAAAA_______AGAAAGCACA_GAA____________
.(((((((((((.((((((((((((......)))))))))....)))....)))))...))))))....................................................... (-12.56 = -12.67 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:38 2006