Locus 3142

Sequence ID X_DroMel_CAF1
Location 8,362,630 – 8,362,790
Length 160
Max. P 0.988204
window5135 window5136 window5137

overview

Window 5

Location 8,362,630 – 8,362,750
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.42
Mean single sequence MFE -31.34
Consensus MFE -27.90
Energy contribution -27.94
Covariance contribution 0.04
Combinations/Pair 1.10
Mean z-score -1.63
Structure conservation index 0.89
SVM decision value 1.47
SVM RNA-class probability 0.957176
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8362630 120 - 22224390
AACACCCAAAUAACGAUAUAUAUUCGCUCGGCUGCGAAUAUGUAUCGCGGUGUUUUCGGCGUAGUUUUCAGUAAAUACGAUUUGGCGGACAUACACAACCAGCAGCGCGGAUAUUUUCUU
.....((.......(((((((((((((......)))))))))))))(((.((((....(.(((((((((((..........)))).)))).))).)....)))).))))).......... ( -34.30)
>DroSec_CAF1 27803 120 - 1
AACACCCAAAUAACGAUAUAUAUUCGCUCGACUGCGAAUAUGUAUCGCGGUGUUUUCGGCGUAGUUUUCAGUAAAUACGAUUCGGCGGACAUACAGAACCAGCAGCGCGAAUAUUUUCUU
((((((.......((((((((((((((......)))))))))))))).))))))((((.(((.((((((.(((....((......))....))).)))..))).)))))))......... ( -34.60)
>DroSim_CAF1 31000 120 - 1
AACACCCAAAGAACGAUAUAUAUUCGCUCGACUGCGAAUAUGUAUCGCGGUGUUUUCGGCGUAGUUUUCAGUAAAUACGUUUCGGCGGACAUACACAACCAGCAGCGCGAAUAUUUUCUU
........(((((.(((((((((((((......)))))))))))))(((.((((...((((((.((......)).))))))..((..(.......)..)))))).))).......))))) ( -34.00)
>DroEre_CAF1 25033 119 - 1
AACAUCCAAAUAACGAUAUAUAUUCGCACGACUACGAAUAUGUAUCGCGGUGUU-UUGGCGUAGUUUUCAGUAAAUACGAUUCGGCGGACAUACACAACCAGCAGCGCGAAUAUUUUCUU
..............((((((((((((........))))))))))))(((.((((-(((..((((((..(.((....))......)..))).))).)))..)))).)))(((....))).. ( -26.60)
>DroYak_CAF1 26762 120 - 1
AACAUCCAAAUAACGAUAUAUAUUCGCUCGACUUCGAAUAUGUAUCGCGGUGUUUUUGGCGUAGUUUUCAGCAAAUACGAUUCGGCGGACAUACACAACCAGCAGCGCGAAUAUUUUCUU
..............((((((((((((........))))))))))))(((.((((.(((..((((((....((..(......)..)).))).))).)))..)))).)))(((....))).. ( -27.20)
>consensus
AACACCCAAAUAACGAUAUAUAUUCGCUCGACUGCGAAUAUGUAUCGCGGUGUUUUCGGCGUAGUUUUCAGUAAAUACGAUUCGGCGGACAUACACAACCAGCAGCGCGAAUAUUUUCUU
..............(((((((((((((......)))))))))))))(((.((((((((.((..((...........))....)).))))...........)))).)))(((....))).. (-27.90 = -27.94 +   0.04)

alignment

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secondary structure

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dotplot

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Window 6

Location 8,362,670 – 8,362,790
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.91
Mean single sequence MFE -25.67
Consensus MFE -20.80
Energy contribution -20.84
Covariance contribution 0.04
Combinations/Pair 1.16
Mean z-score -1.93
Structure conservation index 0.81
SVM decision value 1.25
SVM RNA-class probability 0.936501
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8362670 120 + 22224390
UCGUAUUUACUGAAAACUACGCCGAAAACACCGCGAUACAUAUUCGCAGCCGAGCGAAUAUAUAUCGUUAUUUGGGUGUUUAAGCACUAACUUUAUUUAUUUUUUCCUAAAAAUUCCGCG
...................(((.(((((((((((((((.((((((((......)))))))).))))))......))))))).................((((((....)))))))).))) ( -27.80)
>DroSec_CAF1 27843 119 + 1
UCGUAUUUACUGAAAACUACGCCGAAAACACCGCGAUACAUAUUCGCAGUCGAGCGAAUAUAUAUCGUUAUUUGGGUGUUUAAGCACUAACUUUAUUUAUUUUUUCCUAAA-AUUUCGCG
...................(((.((((.....((((((.((((((((......)))))))).))))))......(((((....))))).......................-.))))))) ( -26.20)
>DroSim_CAF1 31040 119 + 1
ACGUAUUUACUGAAAACUACGCCGAAAACACCGCGAUACAUAUUCGCAGUCGAGCGAAUAUAUAUCGUUCUUUGGGUGUUUAAUCACUAACUUUAUUUAUUUUUUCCUACA-AUUUCGCG
......(((.(((.....(((((.(((.....((((((.((((((((......)))))))).))))))..))).)))))....))).))).....................-........ ( -25.40)
>DroEre_CAF1 25073 119 + 1
UCGUAUUUACUGAAAACUACGCCAA-AACACCGCGAUACAUAUUCGUAGUCGUGCGAAUAUAUAUCGUUAUUUGGAUGUUUAAGCAUUUAGUCUAUUUAUUUUUUUCUAACAAUUUCGCG
...........((((.....((..(-((((((((((((.(((((((((....))))))))).)))))).....)).)))))..))..((((...............))))...))))... ( -23.06)
>DroYak_CAF1 26802 120 + 1
UCGUAUUUGCUGAAAACUACGCCAAAAACACCGCGAUACAUAUUCGAAGUCGAGCGAAUAUAUAUCGUUAUUUGGAUGUUUAAGCACUUACUCUAUUUAUUUUUUCCUUAAAAUUUUGCG
..(((..((((..((((....(((((......((((((.(((((((........))))))).))))))..)))))..)))).))))..)))............................. ( -25.90)
>consensus
UCGUAUUUACUGAAAACUACGCCGAAAACACCGCGAUACAUAUUCGCAGUCGAGCGAAUAUAUAUCGUUAUUUGGGUGUUUAAGCACUAACUUUAUUUAUUUUUUCCUAAAAAUUUCGCG
...................(((.(((......((((((.((((((((......)))))))).))))))......(((((....))))).........................))).))) (-20.80 = -20.84 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,362,670 – 8,362,790
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.91
Mean single sequence MFE -28.98
Consensus MFE -23.84
Energy contribution -24.36
Covariance contribution 0.52
Combinations/Pair 1.07
Mean z-score -2.28
Structure conservation index 0.82
SVM decision value 2.11
SVM RNA-class probability 0.988204
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8362670 120 - 22224390
CGCGGAAUUUUUAGGAAAAAAUAAAUAAAGUUAGUGCUUAAACACCCAAAUAACGAUAUAUAUUCGCUCGGCUGCGAAUAUGUAUCGCGGUGUUUUCGGCGUAGUUUUCAGUAAAUACGA
(((.((.....................((((....))))(((((((.......((((((((((((((......)))))))))))))).))))))))).)))................... ( -32.20)
>DroSec_CAF1 27843 119 - 1
CGCGAAAU-UUUAGGAAAAAAUAAAUAAAGUUAGUGCUUAAACACCCAAAUAACGAUAUAUAUUCGCUCGACUGCGAAUAUGUAUCGCGGUGUUUUCGGCGUAGUUUUCAGUAAAUACGA
.((..(((-((((............))))))).))(((.(((((((.......((((((((((((((......)))))))))))))).)))))))..)))(((.((......)).))).. ( -30.80)
>DroSim_CAF1 31040 119 - 1
CGCGAAAU-UGUAGGAAAAAAUAAAUAAAGUUAGUGAUUAAACACCCAAAGAACGAUAUAUAUUCGCUCGACUGCGAAUAUGUAUCGCGGUGUUUUCGGCGUAGUUUUCAGUAAAUACGU
..((((.(-(((........))))................((((((.......((((((((((((((......)))))))))))))).))))))))))(((((.((......)).))))) ( -28.90)
>DroEre_CAF1 25073 119 - 1
CGCGAAAUUGUUAGAAAAAAAUAAAUAGACUAAAUGCUUAAACAUCCAAAUAACGAUAUAUAUUCGCACGACUACGAAUAUGUAUCGCGGUGUU-UUGGCGUAGUUUUCAGUAAAUACGA
...(((.(((((.......)))))...(((((...(((.(((((((.......(((((((((((((........))))))))))))).))))))-).))).))))))))........... ( -26.90)
>DroYak_CAF1 26802 120 - 1
CGCAAAAUUUUAAGGAAAAAAUAAAUAGAGUAAGUGCUUAAACAUCCAAAUAACGAUAUAUAUUCGCUCGACUUCGAAUAUGUAUCGCGGUGUUUUUGGCGUAGUUUUCAGCAAAUACGA
.............................(((..((((.(((((((((((...(((((((((((((........))))))))))))).......))))).)).))))..))))..))).. ( -26.10)
>consensus
CGCGAAAUUUUUAGGAAAAAAUAAAUAAAGUUAGUGCUUAAACACCCAAAUAACGAUAUAUAUUCGCUCGACUGCGAAUAUGUAUCGCGGUGUUUUCGGCGUAGUUUUCAGUAAAUACGA
(((........................((((....))))(((((((.......((((((((((((((......)))))))))))))).)))))))...)))................... (-23.84 = -24.36 +   0.52)

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 10:51:56 2006