Locus 5750

Sequence ID 2R_DroMel_CAF1
Location 18,207,181 – 18,207,274
Length 93
Max. P 0.713213
window9210 window9211

overview

Window 0

Location 18,207,181 – 18,207,274
Length 93
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 77.93
Mean single sequence MFE -24.50
Consensus MFE -17.00
Energy contribution -16.95
Covariance contribution -0.05
Combinations/Pair 1.24
Mean z-score -1.26
Structure conservation index 0.69
SVM decision value 0.38
SVM RNA-class probability 0.713213
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18207181 93 + 20766785
---------------AUUUGGU-GGGUACCUUAAACCACUCAAUGGUGGGUUCCGGCUUGCCCUCCACUUUGCAGUUGAGCGUGGCGGGUUCAUUCUUCUUAACGACCA
---------------....(((-.((.((((...((((.....)))))))).)).))).((((.((((...((......)))))).))))................... ( -25.90)
>DroVir_CAF1 32052 90 + 1
C------------------GCU-ACAUACCUUAUACCACUCAAUGGUGGGCUCCGGCUUGCCCUCCACCUUGCAAUUGAGUGUUGCGGGCUCAUUUUUCUUGACCACCA
(------------------((.-.............((((((((((.((((........)))).)))........)))))))..)))((.(((.......))))).... ( -23.09)
>DroWil_CAF1 4872 88 + 1
------------------U--U-UCUUACCUUAAACCAUUCUAUUGUUGGCUCUGGUUUGCCUUCCACUUUACAAUUAAGUGUGGCUGGUUCAUUCUUCUUAACCACCA
------------------.--.-.........((((((..(((....)))...))))))(((...(((((.......))))).)))(((((..........)))))... ( -15.60)
>DroYak_CAF1 5197 93 + 1
---------------AUUGGGU-GGUUACCUUAAACCACUCGAUGGUGGGUUCCGGCUUGCCCUCCACUUUGCAGUUGAGCGUGGCGGGCUCAUUCUUCUUGACGACCA
---------------(((((((-((((......)))))))))))(((.(..........((((.((((...((......)))))).))))(((.......)))).))). ( -33.70)
>DroMoj_CAF1 27494 105 + 1
ACAUAUAUUUGAUUA----GUUAAUCUACCUUAUACCACUCAAUGGUGGGCUCCGGCUUGCCCUCCACUUUGCAAUUGAGCGUGGCGGGUUCAUUCUUCUUGACGACCA
...((((...((((.----...)))).....))))((((....(((.((((........)))).)))....((......))))))..((((...((.....)).)))). ( -22.90)
>DroAna_CAF1 6024 92 + 1
---------------AUGU-AU-CCUUACCUUGUACCACUCGAUGGUGGGCUCCGGCUUGCCCUCCACCUUGCAGUUGAGUGUGGCUGGUUCAUUCUUCUUGACCACCA
---------------....-..-.............((((((((((.((((........)))).)))........)))))))(((.((((.((.......))))))))) ( -25.80)
>consensus
__________________UGGU_ACUUACCUUAAACCACUCAAUGGUGGGCUCCGGCUUGCCCUCCACUUUGCAAUUGAGCGUGGCGGGUUCAUUCUUCUUGACCACCA
............................((.....((((......)))).....))...((((.(((((((......))).)))).))))................... (-17.00 = -16.95 +  -0.05)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,207,181 – 18,207,274
Length 93
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 77.93
Mean single sequence MFE -25.40
Consensus MFE -16.36
Energy contribution -17.45
Covariance contribution 1.09
Combinations/Pair 1.21
Mean z-score -1.33
Structure conservation index 0.64
SVM decision value 0.17
SVM RNA-class probability 0.616209
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18207181 93 - 20766785
UGGUCGUUAAGAAGAAUGAACCCGCCACGCUCAACUGCAAAGUGGAGGGCAAGCCGGAACCCACCAUUGAGUGGUUUAAGGUACCC-ACCAAAU---------------
((((((((......))))).(((.((((((......))...)))).)))...(((..((.((((......)))).))..)))....-.)))...--------------- ( -24.90)
>DroVir_CAF1 32052 90 - 1
UGGUGGUCAAGAAAAAUGAGCCCGCAACACUCAAUUGCAAGGUGGAGGGCAAGCCGGAGCCCACCAUUGAGUGGUAUAAGGUAUGU-AGC------------------G
.((.(.(((.......))).)))((.(((..(.((..(..(((((.((((........)))).)))))..)..)).....)..)))-.))------------------. ( -25.60)
>DroWil_CAF1 4872 88 - 1
UGGUGGUUAAGAAGAAUGAACCAGCCACACUUAAUUGUAAAGUGGAAGGCAAACCAGAGCCAACAAUAGAAUGGUUUAAGGUAAGA-A--A------------------
((((((((..........)))).(((.(((((.......)))))...)))..))))((((((.........)))))).........-.--.------------------ ( -19.10)
>DroYak_CAF1 5197 93 - 1
UGGUCGUCAAGAAGAAUGAGCCCGCCACGCUCAACUGCAAAGUGGAGGGCAAGCCGGAACCCACCAUCGAGUGGUUUAAGGUAACC-ACCCAAU---------------
((((...............((((.((((((......))...)))).))))..(((..((.((((......)))).))..))).)))-)......--------------- ( -28.60)
>DroMoj_CAF1 27494 105 - 1
UGGUCGUCAAGAAGAAUGAACCCGCCACGCUCAAUUGCAAAGUGGAGGGCAAGCCGGAGCCCACCAUUGAGUGGUAUAAGGUAGAUUAAC----UAAUCAAAUAUAUGU
(((((.(((.......)))(((.(((((((......))..(((((.((((........)))).)))))..)))))....))).)))))..----............... ( -27.10)
>DroAna_CAF1 6024 92 - 1
UGGUGGUCAAGAAGAAUGAACCAGCCACACUCAACUGCAAGGUGGAGGGCAAGCCGGAGCCCACCAUCGAGUGGUACAAGGUAAGG-AU-ACAU---------------
(((((((((.......)).)))).)))......((..(..(((((.((((........)))).)))))..)..))...........-..-....--------------- ( -27.10)
>consensus
UGGUCGUCAAGAAGAAUGAACCCGCCACACUCAACUGCAAAGUGGAGGGCAAGCCGGAGCCCACCAUUGAGUGGUAUAAGGUAAGC_ACCA__________________
...................(((.(((((((......))..(((((.((((........)))).)))))..)))))....)))........................... (-16.36 = -17.45 +   1.09)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:27 2006