Locus 152

Sequence ID X_DroMel_CAF1
Location 543,206 – 543,355
Length 149
Max. P 0.907124
window241 window242 window243

overview

Window 1

Location 543,206 – 543,322
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.31
Mean single sequence MFE -42.88
Consensus MFE -31.70
Energy contribution -31.18
Covariance contribution -0.52
Combinations/Pair 1.21
Mean z-score -2.22
Structure conservation index 0.74
SVM decision value 0.84
SVM RNA-class probability 0.863348
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 543206 116 + 22224390
GGCACUCAGAAUAGCCCGCUCAAAGUUGAGUGAAGUUGGCCAUUUCGAGUGAUUGUGCGCUGGUUGUGAGAGGAAACUGCACAGUGAGGCGAGGCUGUCAUGUUUGCGGUUUGAGU----
.(((..((..((((((((((((....))))))......(((....(.((((......)))).)(((((..((....)).)))))...)))..))))))..))..))).........---- ( -38.50)
>DroSec_CAF1 5978 116 + 1
GCCACUCAGAAUAGCCCGCUCAAAGUUGAGUGAAGUUGGCCAUUUUGAGUGACUGUGCGCUGAUUGUGAGAGGAAACUGCACAGUGAGGCGAAGCUGGCAUGUUUGCGGUUUGAGU----
((((((((((((.(((((((((....)))))).....))).))))))))).(((((((((.....))...((....)))))))))..))).((((((.((....))))))))....---- ( -44.70)
>DroSim_CAF1 6476 116 + 1
GCCACUCAGAAUAGCCCGCUCAAAGUUGAGUGAAGUUGGCCAUUUCGAGUGACUGUGCGCUGGUUGUGAGAGGAAACUGCACAGUGAGGCGAAGCUGGCAUGUUUGCGGUUUGAGU----
...(((((((...((.((((((....))))))......(((((((((..(.(((((((((.....))...((....))))))))).)..))))).))))......))..)))))))---- ( -43.80)
>DroEre_CAF1 7669 120 + 1
GCCACUCAAAAUAGCCUGCUCAAAGUUGAGUGAAGUUGGCCGUUUUGAGUGACUGUGCGCUGGCUUCGAGAGGAAAUCGCACAGUGAGGCGAAGCUGCCAUGUUUGUGGUUUGAGUCGGG
(((((((((((..(((.(((((....)))))......)))..)))))))).((((((((.(..(((....)))..).))))))))..)))((..(.(((((....)))))..)..))... ( -45.90)
>DroYak_CAF1 10925 120 + 1
GCCACUCAAAAUAGCCUGCUCAAAGUUGAGUGAAGUUGCCCAUUUCGAGUGACUUUGCGCUGGAUUUGAGAGGAAACUGCACAGUGGUGCGCAGCUGCCAUGUUUGUGGCUUGAGUUGAG
.((.((((((....((.((.((((((((..((((((.....))))))..)))))))).)).)).)))))).)).....((((....)))).((((((((((....)))))...))))).. ( -41.50)
>consensus
GCCACUCAGAAUAGCCCGCUCAAAGUUGAGUGAAGUUGGCCAUUUCGAGUGACUGUGCGCUGGUUGUGAGAGGAAACUGCACAGUGAGGCGAAGCUGCCAUGUUUGCGGUUUGAGU____
(((((((.((((.(((((((((....)))))).....))).)))).)))))(((((((.((.......))((....)))))))))...)).((((((.((....))))))))........ (-31.70 = -31.18 +  -0.52)

alignment

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secondary structure

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dotplot

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Window 2

Location 543,206 – 543,322
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.31
Mean single sequence MFE -32.21
Consensus MFE -23.49
Energy contribution -24.05
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.51
Structure conservation index 0.73
SVM decision value 1.05
SVM RNA-class probability 0.907124
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 543206 116 - 22224390
----ACUCAAACCGCAAACAUGACAGCCUCGCCUCACUGUGCAGUUUCCUCUCACAACCAGCGCACAAUCACUCGAAAUGGCCAACUUCACUCAACUUUGAGCGGGCUAUUCUGAGUGCC
----........(((.....(((..((...)).))).((((.((......))))))....)))......((((((.(((((((..((.((........))))..))))))).)))))).. ( -25.80)
>DroSec_CAF1 5978 116 - 1
----ACUCAAACCGCAAACAUGCCAGCUUCGCCUCACUGUGCAGUUUCCUCUCACAAUCAGCGCACAGUCACUCAAAAUGGCCAACUUCACUCAACUUUGAGCGGGCUAUUCUGAGUGGC
----.........(((....))).......(((..(((((((.(((.............)))))))))).(((((.(((((((..((.((........))))..))))))).)))))))) ( -31.42)
>DroSim_CAF1 6476 116 - 1
----ACUCAAACCGCAAACAUGCCAGCUUCGCCUCACUGUGCAGUUUCCUCUCACAACCAGCGCACAGUCACUCGAAAUGGCCAACUUCACUCAACUUUGAGCGGGCUAUUCUGAGUGGC
----.........(((....))).......(((..(((((((.(((.............)))))))))).(((((.(((((((..((.((........))))..))))))).)))))))) ( -30.72)
>DroEre_CAF1 7669 120 - 1
CCCGACUCAAACCACAAACAUGGCAGCUUCGCCUCACUGUGCGAUUUCCUCUCGAAGCCAGCGCACAGUCACUCAAAACGGCCAACUUCACUCAACUUUGAGCAGGCUAUUUUGAGUGGC
.....................(((......)))..((((((((.((((.....))))....))))))))(((((((((..(((...((((........))))..)))..))))))))).. ( -36.00)
>DroYak_CAF1 10925 120 - 1
CUCAACUCAAGCCACAAACAUGGCAGCUGCGCACCACUGUGCAGUUUCCUCUCAAAUCCAGCGCAAAGUCACUCGAAAUGGGCAACUUCACUCAACUUUGAGCAGGCUAUUUUGAGUGGC
..........((((......))))(((((((((....))))))))).....................((((((((((((((.(...((((........))))..).)))))))))))))) ( -37.10)
>consensus
____ACUCAAACCGCAAACAUGCCAGCUUCGCCUCACUGUGCAGUUUCCUCUCACAACCAGCGCACAGUCACUCGAAAUGGCCAACUUCACUCAACUUUGAGCGGGCUAUUCUGAGUGGC
...................................(((((((....................)))))))((((((.(((((((..((.((........))))..))))))).)))))).. (-23.49 = -24.05 +   0.56)

alignment

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secondary structure

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dotplot

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Window 3

Location 543,246 – 543,355
Length 109
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 84.64
Mean single sequence MFE -38.42
Consensus MFE -26.37
Energy contribution -25.93
Covariance contribution -0.44
Combinations/Pair 1.27
Mean z-score -1.91
Structure conservation index 0.69
SVM decision value 0.34
SVM RNA-class probability 0.694050
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 543246 109 + 22224390
CAUUUCGAGUGAUUGUGCGCUGGUUGUGAGAGGAAACUGCACAGUGAGGCGAGGCUGUCAUGUUUGCGGUUUGAGU-------CCAUGGCAUUGUGAGUUGGAGCCGAAAAUAUGU
..(((((..(.(((((((((.....))...((....))))))))).)..)))))....(((((((.((((((.((.-------.(((......)))..)).)))))).))))))). ( -34.90)
>DroSec_CAF1 6018 109 + 1
CAUUUUGAGUGACUGUGCGCUGAUUGUGAGAGGAAACUGCACAGUGAGGCGAAGCUGGCAUGUUUGCGGUUUGAGU-------CCGUGGCAUGGUGAGUUGGAGCCGGAAAUAUGU
(((((((..(.(((((((((.....))...((....))))))))).)..))))).))((((((((.((((((.((.-------.((........))..)).)))))).)))))))) ( -37.40)
>DroSim_CAF1 6516 109 + 1
CAUUUCGAGUGACUGUGCGCUGGUUGUGAGAGGAAACUGCACAGUGAGGCGAAGCUGGCAUGUUUGCGGUUUGAGU-------CCGUGGCAUGGUGAGUUGGAGCCGGAAAUAUGU
(((((((..(.(((((((((.....))...((....))))))))).)..))))).))((((((((.((((((.((.-------.((........))..)).)))))).)))))))) ( -39.50)
>DroEre_CAF1 7709 116 + 1
CGUUUUGAGUGACUGUGCGCUGGCUUCGAGAGGAAAUCGCACAGUGAGGCGAAGCUGCCAUGUUUGUGGUUUGAGUCGGGCUGCCACGGCAUGUUGAGUUGAUGCCGAAAACAUGU
.((((((..(.((((((((.(..(((....)))..).)))))))).)..))))))...(((((((.(((((..(.((((..(((....)))..)))).)..).)))).))))))). ( -43.10)
>DroYak_CAF1 10965 116 + 1
CAUUUCGAGUGACUUUGCGCUGGAUUUGAGAGGAAACUGCACAGUGGUGCGCAGCUGCCAUGUUUGUGGCUUGAGUUGAGCUGCCAAGGCAUGUUGAGUUGCAGCCGAUAACAUGU
((..((.((((......)))).))..))..((....))((((....))))((((((..((((((((..((((.....))))..)..)))))))...)))))).............. ( -37.20)
>consensus
CAUUUCGAGUGACUGUGCGCUGGUUGUGAGAGGAAACUGCACAGUGAGGCGAAGCUGCCAUGUUUGCGGUUUGAGU_______CCAUGGCAUGGUGAGUUGGAGCCGAAAAUAUGU
..(((((..(.(((((((.((.......))((....))))))))).)..)))))....(((((((.((((((.((........(....).........)).)))))).))))))). (-26.37 = -25.93 +  -0.44)

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 09:37:21 2006