Locus 4995

Sequence ID 3L_DroMel_CAF1
Location 13,752,053 – 13,752,172
Length 119
Max. P 0.998538
window7890 window7891 window7892

overview

Window 0

Location 13,752,053 – 13,752,146
Length 93
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 94.08
Mean single sequence MFE -35.92
Consensus MFE -31.60
Energy contribution -31.76
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -2.32
Structure conservation index 0.88
SVM decision value 3.13
SVM RNA-class probability 0.998538
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13752053 93 + 23771897
GUUAGCAAAUUGCCUGGGUUUUGCAGAAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGUUGGCUGAUUUGGUAGCA----
((((.((((((((((.(((((.((((...((((((.....)).))))))))..))))).))))((((((......)))))))))))).)))).---- ( -37.30)
>DroSec_CAF1 158791 93 + 1
GUUAGCAAAUUGCCUGGGUUUUGCAGAAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGUUGGCUGAUUUGGUAGUG----
.(((.((((((((((.(((((.((((...((((((.....)).))))))))..))))).))))((((((......)))))))))))).)))..---- ( -33.40)
>DroSim_CAF1 171028 93 + 1
GUUAGCAAAUUGCCUGGGUUUUGCAGAAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGUUGGCUGAUUUGGUAGUG----
.(((.((((((((((.(((((.((((...((((((.....)).))))))))..))))).))))((((((......)))))))))))).)))..---- ( -33.40)
>DroEre_CAF1 165646 93 + 1
GUUAGCAAAUUGCCUGGGUCUUGCAGCAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGAUGGCUGAUUUGGUAGUG----
.(((.((((((((((.(((.(((.((((..(((((.....)).)))..)))))))))).))))(((((........))))))))))).)))..---- ( -35.70)
>DroYak_CAF1 170000 97 + 1
GUUAUCAAAUUGCCUGCGUUUUGCAGAAAUCGCGCAAACUGUGGCGGCUGCCCAAACUGAGGCGGCCGGAACUGGAUGGCUGAUUUGAUAGCGAUUG
(((((((((((((((((((..(......)..)))))..(.((..(((((((((.....).))))))))..)).)...))).)))))))))))..... ( -39.80)
>consensus
GUUAGCAAAUUGCCUGGGUUUUGCAGAAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGUUGGCUGAUUUGGUAGUG____
((((.((((((((((.(((((.((((...((((((.....)).))))))))..))))).))))(((((........))))))))))).))))..... (-31.60 = -31.76 +   0.16)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,752,053 – 13,752,146
Length 93
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 94.08
Mean single sequence MFE -24.16
Consensus MFE -22.02
Energy contribution -21.70
Covariance contribution -0.32
Combinations/Pair 1.08
Mean z-score -1.30
Structure conservation index 0.91
SVM decision value 0.72
SVM RNA-class probability 0.831994
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13752053 93 - 23771897
----UGCUACCAAAUCAGCCAACCAGUUCCGGCCGCCUCAGUUUGAGCAGCCGCCACAGUUUGCGCGAUUUCUGCAAAACCCAGGCAAUUUGCUAAC
----(((....(((((.((.(((..((..((((.((.((.....)))).))))..)).))).))..)))))..))).......(((.....)))... ( -22.30)
>DroSec_CAF1 158791 93 - 1
----CACUACCAAAUCAGCCAACCAGUUCCGGCCGCCUCAGUUUGAGCAGCCGCCACAGUUUGCGCGAUUUCUGCAAAACCCAGGCAAUUUGCUAAC
----......(((((..(((.....((..((((.((.((.....)))).))))..))..((((((.(....))))))).....))).)))))..... ( -22.00)
>DroSim_CAF1 171028 93 - 1
----CACUACCAAAUCAGCCAACCAGUUCCGGCCGCCUCAGUUUGAGCAGCCGCCACAGUUUGCGCGAUUUCUGCAAAACCCAGGCAAUUUGCUAAC
----......(((((..(((.....((..((((.((.((.....)))).))))..))..((((((.(....))))))).....))).)))))..... ( -22.00)
>DroEre_CAF1 165646 93 - 1
----CACUACCAAAUCAGCCAUCCAGUUCCGGCCGCCUCAGUUUGAGCAGCCGCCACAGUUUGCGCGAUUGCUGCAAGACCCAGGCAAUUUGCUAAC
----......(((((..(((..........))).((((..((((..((((((((((.....)).)))...))))).))))..)))).)))))..... ( -24.70)
>DroYak_CAF1 170000 97 - 1
CAAUCGCUAUCAAAUCAGCCAUCCAGUUCCGGCCGCCUCAGUUUGGGCAGCCGCCACAGUUUGCGCGAUUUCUGCAAAACGCAGGCAAUUUGAUAAC
.......((((((((..(((.....((..((((.((((......)))).))))..)).((((..(((.....))).))))...))).)))))))).. ( -29.80)
>consensus
____CACUACCAAAUCAGCCAACCAGUUCCGGCCGCCUCAGUUUGAGCAGCCGCCACAGUUUGCGCGAUUUCUGCAAAACCCAGGCAAUUUGCUAAC
..........(((((..(((.....((..((((.((.((.....)))).))))..))..((((((.(....))))))).....))).)))))..... (-22.02 = -21.70 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 2

Location 13,752,070 – 13,752,172
Length 102
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 97.06
Mean single sequence MFE -40.88
Consensus MFE -38.89
Energy contribution -38.95
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -2.04
Structure conservation index 0.95
SVM decision value 0.98
SVM RNA-class probability 0.894185
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13752070 102 + 23771897
GUUUUGCAGAAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGUUGGCUGAUUUGGUAGCAGUUGCUGUUGGUGGCGUUGUAGCUGC
.....((((..((.((((...(.(..(((((((((...((..((.(((((((......))))))).))..)))))))))))..).)...)))).))..)))) ( -42.60)
>DroSec_CAF1 158808 102 + 1
GUUUUGCAGAAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGUUGGCUGAUUUGGUAGUGGUUGCUGUUGGUGGCGUUGCAGCUGC
.....((((.....((((.(((.(..((.(((((.((((.(.((.((((((....)))))).)).)))))))))).))..).)))....)))).....)))) ( -40.10)
>DroSim_CAF1 171045 102 + 1
GUUUUGCAGAAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGUUGGCUGAUUUGGUAGUGGUUGCUGUUGGUGGCGUUGCAGCUGC
.....((((.....((((.(((.(..((.(((((.((((.(.((.((((((....)))))).)).)))))))))).))..).)))....)))).....)))) ( -40.10)
>DroEre_CAF1 165663 102 + 1
GUCUUGCAGCAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGAUGGCUGAUUUGGUAGUGGUUGCUGUUGGUGGCGUUGCAGCUGC
.....(((((....((((...(.(..(((((..((...((..((.((((((........)))))).))..))))..)))))..).)...))))....))))) ( -40.70)
>consensus
GUUUUGCAGAAAUCGCGCAAACUGUGGCGGCUGCUCAAACUGAGGCGGCCGGAACUGGUUGGCUGAUUUGGUAGUGGUUGCUGUUGGUGGCGUUGCAGCUGC
.....((((.....((((.(((.(..((.(((((.((((.(.((.((((((....)))))).)).)))))))))).))..).)))....)))).....)))) (-38.89 = -38.95 +   0.06)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:59 2006