Locus 321

Sequence ID X_DroMel_CAF1
Location 1,010,426 – 1,010,527
Length 101
Max. P 0.775602
window487 window488

overview

Window 7

Location 1,010,426 – 1,010,527
Length 101
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.04
Mean single sequence MFE -36.00
Consensus MFE -23.94
Energy contribution -24.50
Covariance contribution 0.56
Combinations/Pair 1.30
Mean z-score -2.69
Structure conservation index 0.67
SVM decision value 0.54
SVM RNA-class probability 0.775602
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1010426 101 + 22224390
AGU-------------UGCUCACG--UUGCGGUUGCAACUGCGACGUGCUUUAUCGCAGUCAGACGUUAAUUAAUCUGCAACGCCUGUU----CGUUGCAUUGUUGUGACUGCAGCAUCU
((.-------------((((((((--(((((((....))))))))))).......(((((((((((..........(((((((......----))))))).)))).))))))))))).)) ( -39.30)
>DroSim_CAF1 73094 101 + 1
AGU-------------UGCUCACG--UUGCGGUUGCAACUGCGACGUGCUUUAUCGCAGUCAGACGUUAAUUAAUCUGCAACGCCUGCU----CGUUGCAUUGUUGUGACUGCAGCAUCU
((.-------------((((((((--(((((((....))))))))))).......(((((((((((..........(((((((......----))))))).)))).))))))))))).)) ( -39.30)
>DroEre_CAF1 107260 105 + 1
AGU-------------UGCUCACG--UUGCGGUUGCAACUGCGACGUGCUUUAUCGCAGUCAGACGUUAAUUAAUCUGCAACGCCCGUUCGUUCGUUGCAUUGUUGUGACUGCAGCAUCU
((.-------------((((((((--(((((((....))))))))))).......(((((((((((..........(((((((..(....)..))))))).)))).))))))))))).)) ( -40.60)
>DroYak_CAF1 98761 101 + 1
AGU-------------UGCUCACG--UUGCGGUUGCAACUGCGACGUGCUUUAUCGCAGUCAGACGUUAAUUAAUCUGCAACGCCUGCU----CGUUGCAUUGUUGUGACUGCAGCAUCU
((.-------------((((((((--(((((((....))))))))))).......(((((((((((..........(((((((......----))))))).)))).))))))))))).)) ( -39.30)
>DroMoj_CAF1 185866 111 + 1
CGUUGGCUCUCUGAAUAGG--ACGGCGGGCGGCUUUGACUGCAACGUGCUUUAUCGCAG--AGACGCUAAUUAAUCUGUGACGCCUUC-----AACUCCAUUGUUGCGGCUGCUGCAUCU
.((((((((((((...((.--(((....((((......))))..))).))......)))--))).)))))).....(((..((((..(-----(((......)))).))).)..)))... ( -34.20)
>DroAna_CAF1 98603 101 + 1
UGU-------------UGCUCACG--UUGCGGUUGCAACUCCGACGUGCUUUAUCGCAUUCAGACGCUAAUUAAUCUGCAACGCCUGCU----UAUUGCAUUGUUGUGGCUUCUGCAUCU
...-------------(((.((((--(((.(((....))).))))))).............(((.(((.........((((((..(((.----....))).))))))))).))))))... ( -23.30)
>consensus
AGU_____________UGCUCACG__UUGCGGUUGCAACUGCGACGUGCUUUAUCGCAGUCAGACGUUAAUUAAUCUGCAACGCCUGCU____CGUUGCAUUGUUGUGACUGCAGCAUCU
...........................((((((..((((...(((.(((......))))))...............(((((((..........)))))))..))))..))))))...... (-23.94 = -24.50 +   0.56)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 1,010,426 – 1,010,527
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.04
Mean single sequence MFE -31.87
Consensus MFE -21.40
Energy contribution -22.07
Covariance contribution 0.67
Combinations/Pair 1.22
Mean z-score -2.20
Structure conservation index 0.67
SVM decision value 0.28
SVM RNA-class probability 0.667226
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1010426 101 - 22224390
AGAUGCUGCAGUCACAACAAUGCAACG----AACAGGCGUUGCAGAUUAAUUAACGUCUGACUGCGAUAAAGCACGUCGCAGUUGCAACCGCAA--CGUGAGCA-------------ACU
...(((((((((((......(((((((----......)))))))(((........)))))))))).......(((((.((.((....)).)).)--))))))))-------------... ( -34.00)
>DroSim_CAF1 73094 101 - 1
AGAUGCUGCAGUCACAACAAUGCAACG----AGCAGGCGUUGCAGAUUAAUUAACGUCUGACUGCGAUAAAGCACGUCGCAGUUGCAACCGCAA--CGUGAGCA-------------ACU
...(((((((((((......(((((((----......)))))))(((........)))))))))).......(((((.((.((....)).)).)--))))))))-------------... ( -34.00)
>DroEre_CAF1 107260 105 - 1
AGAUGCUGCAGUCACAACAAUGCAACGAACGAACGGGCGUUGCAGAUUAAUUAACGUCUGACUGCGAUAAAGCACGUCGCAGUUGCAACCGCAA--CGUGAGCA-------------ACU
...(((((((((((......(((((((..(....)..)))))))(((........)))))))))).......(((((.((.((....)).)).)--))))))))-------------... ( -36.40)
>DroYak_CAF1 98761 101 - 1
AGAUGCUGCAGUCACAACAAUGCAACG----AGCAGGCGUUGCAGAUUAAUUAACGUCUGACUGCGAUAAAGCACGUCGCAGUUGCAACCGCAA--CGUGAGCA-------------ACU
...(((((((((((......(((((((----......)))))))(((........)))))))))).......(((((.((.((....)).)).)--))))))))-------------... ( -34.00)
>DroMoj_CAF1 185866 111 - 1
AGAUGCAGCAGCCGCAACAAUGGAGUU-----GAAGGCGUCACAGAUUAAUUAGCGUCU--CUGCGAUAAAGCACGUUGCAGUCAAAGCCGCCCGCCGU--CCUAUUCAGAGAGCCAACG
.(((((..((((..((....))..)))-----)...)))))............((.(((--(((.((((..((.((..((.((....)).)).))..))--..))))))))))))..... ( -25.60)
>DroAna_CAF1 98603 101 - 1
AGAUGCAGAAGCCACAACAAUGCAAUA----AGCAGGCGUUGCAGAUUAAUUAGCGUCUGAAUGCGAUAAAGCACGUCGGAGUUGCAACCGCAA--CGUGAGCA-------------ACA
..........(((.......(((....----.))))))(((((.............(((((.(((......)))..)))))(((((....))))--)....)))-------------)). ( -27.21)
>consensus
AGAUGCUGCAGUCACAACAAUGCAACG____AGCAGGCGUUGCAGAUUAAUUAACGUCUGACUGCGAUAAAGCACGUCGCAGUUGCAACCGCAA__CGUGAGCA_____________ACU
....(((.............((((((.......(((((((((.........)))))))))..((((((.......))))))))))))..(((.....))))))................. (-21.40 = -22.07 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:40 2006