Locus 6909

Sequence ID X_DroMel_CAF1
Location 17,290,184 – 17,290,343
Length 159
Max. P 0.938393
window11300 window11301 window11302

overview

Window 0

Location 17,290,184 – 17,290,303
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.44
Mean single sequence MFE -40.44
Consensus MFE -34.26
Energy contribution -35.04
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -4.03
Structure conservation index 0.85
SVM decision value 1.23
SVM RNA-class probability 0.932981
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17290184 119 + 22224390
AAGCAAC-UGGCUCGCUGUGGAUAGAUAAUUCACAGACGAUGCCGAAUAAUAUGCCAUCCAAGUACAUGUACAUUUGGGUUUCCCGGGGAACCCGUAAAUAUGUGUGAUAUAUAGGUAAA
.......-(((((((((((((((.....)))))))).))).)))).......((((.......((((((((....((((((((....))))))))....)))))))).......)))).. ( -40.74)
>DroSim_CAF1 9014 119 + 1
AAGCAACUUGGCUCGCUGUGGAUAGAUAAUUCACAGACGAUGCCGAA-AAUAUGCCAUCCAAGUACAUGUACAUUUGGGUUUCCCGGGGAACCCGUAAAUAUGUGUGAUAUAUAGGUAAA
.......((((((((((((((((.....)))))))).))).))))).-....((((.......((((((((....((((((((....))))))))....)))))))).......)))).. ( -42.04)
>DroYak_CAF1 17628 120 + 1
AAGCAACUGGCUUCCCUGUGGAUAGAUAAUUCACAAUCGAAGCCGAAUAAUAUGCCAUCCAAGUACAUGUACAUGUGGGUUUCCCGGGGAACCCGUAAAUAUGUGUGAUAUAUAGGUAAA
.......(((((((..(((((((.....)))))))...))))))).......((((.......((((((((..((((((((((....))))))))))..)))))))).......)))).. ( -38.54)
>consensus
AAGCAACUUGGCUCGCUGUGGAUAGAUAAUUCACAGACGAUGCCGAAUAAUAUGCCAUCCAAGUACAUGUACAUUUGGGUUUCCCGGGGAACCCGUAAAUAUGUGUGAUAUAUAGGUAAA
.........((((((((((((((.....)))))))).))).)))........((((.......((((((((....((((((((....))))))))....)))))))).......)))).. (-34.26 = -35.04 +   0.78)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,290,223 – 17,290,343
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -32.77
Consensus MFE -32.47
Energy contribution -32.47
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.16
Structure conservation index 0.99
SVM decision value 1.27
SVM RNA-class probability 0.938393
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17290223 120 + 22224390
UGCCGAAUAAUAUGCCAUCCAAGUACAUGUACAUUUGGGUUUCCCGGGGAACCCGUAAAUAUGUGUGAUAUAUAGGUAAAUAUAUUAUUUUCAUAUAUGUCGAUGAGUGCGUUAACGCGU
.............((((((.....(((((((....((((((((....))))))))....)))))))((((((((...(((((...)))))...)))))))))))).))(((....))).. ( -32.70)
>DroSim_CAF1 9054 119 + 1
UGCCGAA-AAUAUGCCAUCCAAGUACAUGUACAUUUGGGUUUCCCGGGGAACCCGUAAAUAUGUGUGAUAUAUAGGUAAAUAUAUUAUUUUCAUAUAUGUCGAUGAGUGCGUUAACGCGU
.......-.....((((((.....(((((((....((((((((....))))))))....)))))))((((((((...(((((...)))))...)))))))))))).))(((....))).. ( -32.70)
>DroYak_CAF1 17668 120 + 1
AGCCGAAUAAUAUGCCAUCCAAGUACAUGUACAUGUGGGUUUCCCGGGGAACCCGUAAAUAUGUGUGAUAUAUAGGUAAAUAUAUUAUUUUCAUAUAUGUCGAUGAGUGCGUUAACGCGU
.............((((((.....(((((((..((((((((((....))))))))))..)))))))((((((((...(((((...)))))...)))))))))))).))(((....))).. ( -32.90)
>consensus
UGCCGAAUAAUAUGCCAUCCAAGUACAUGUACAUUUGGGUUUCCCGGGGAACCCGUAAAUAUGUGUGAUAUAUAGGUAAAUAUAUUAUUUUCAUAUAUGUCGAUGAGUGCGUUAACGCGU
.............((((((.....(((((((....((((((((....))))))))....)))))))((((((((...(((((...)))))...)))))))))))).))(((....))).. (-32.47 = -32.47 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,290,223 – 17,290,343
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -24.10
Consensus MFE -24.10
Energy contribution -24.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 1.00
SVM decision value 0.02
SVM RNA-class probability 0.544382
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17290223 120 - 22224390
ACGCGUUAACGCACUCAUCGACAUAUAUGAAAAUAAUAUAUUUACCUAUAUAUCACACAUAUUUACGGGUUCCCCGGGAAACCCAAAUGUACAUGUACUUGGAUGGCAUAUUAUUCGGCA
..(((....)))..(((((.(..((((((......((((((......))))))...((((......(((...)))((....))...)))).))))))..).))))).............. ( -24.10)
>DroSim_CAF1 9054 119 - 1
ACGCGUUAACGCACUCAUCGACAUAUAUGAAAAUAAUAUAUUUACCUAUAUAUCACACAUAUUUACGGGUUCCCCGGGAAACCCAAAUGUACAUGUACUUGGAUGGCAUAUU-UUCGGCA
..(((....)))..(((((.(..((((((......((((((......))))))...((((......(((...)))((....))...)))).))))))..).)))))......-....... ( -24.10)
>DroYak_CAF1 17668 120 - 1
ACGCGUUAACGCACUCAUCGACAUAUAUGAAAAUAAUAUAUUUACCUAUAUAUCACACAUAUUUACGGGUUCCCCGGGAAACCCACAUGUACAUGUACUUGGAUGGCAUAUUAUUCGGCU
..(((....)))..(((((.(..((((((......((((((......))))))...((((......(((...)))((....))...)))).))))))..).))))).............. ( -24.10)
>consensus
ACGCGUUAACGCACUCAUCGACAUAUAUGAAAAUAAUAUAUUUACCUAUAUAUCACACAUAUUUACGGGUUCCCCGGGAAACCCAAAUGUACAUGUACUUGGAUGGCAUAUUAUUCGGCA
..(((....)))..(((((.(..((((((......((((((......))))))...((((......(((...)))((....))...)))).))))))..).))))).............. (-24.10 = -24.10 +  -0.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:44 2006