Locus 7913

Sequence ID 3L_DroMel_CAF1
Location 21,053,891 – 21,054,129
Length 238
Max. P 0.987361
window12899 window12900 window12901

overview

Window 9

Location 21,053,891 – 21,054,009
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.91
Mean single sequence MFE -31.76
Consensus MFE -25.82
Energy contribution -25.94
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -1.90
Structure conservation index 0.81
SVM decision value 1.20
SVM RNA-class probability 0.930000
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21053891 118 - 23771897
GGCCAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA-AAUUGUGGGGUACUUUUCUGCAAUGAUUCGCCAGUAUUUUUAAAUACUAA-AAAUACAAUUUGCAUACUCGUAUUACCU
.((.(((((...((((((((((.((......)).))))).-.((((..(((.....)))..))))...))))).(((((((((.....)))-)))))))))))))............... ( -32.50)
>DroSec_CAF1 108921 119 - 1
GGACAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCAAAAUUGUGGGGUACUUUUCUGCGAUGAUUCGCCAGUAUUUUUAAAUACUAA-AAAUAUAAUUUGCAUACUCGUAUUACCU
.(.((((((...((((((((((.((......)).)))))...((((..(((.....)))..))))...))))).(((((((((.....)))-)))))))))))))............... ( -29.90)
>DroSim_CAF1 15185 118 - 1
GGCCAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA-AAUUGUGGGGUACUUUUCUGCAAUGAUUCGCCAGUAUUUUUAAAUACUAA-AAUCACAAUUUGCAUACUCGUAUUACCU
((((..((.....))..))))((((((.....))))))((-(((((((((((.....((......))...)))((((((....))))))..-..))))))))))................ ( -31.40)
>DroEre_CAF1 31466 113 - 1
GGCCAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA-AAUUGUGGGGUACUUUUCUGCAAUGAUUCGCGAGUAUUUUUAAAUAGUAAAAAAUACAAUUUGCAU------AUUACCU
((((((.(((..((((....))))...)))...)))))).-.((((..(((.....)))..)))).....((((((((((((........))))))))...))))..------....... ( -30.90)
>DroYak_CAF1 2376 113 - 1
GGCAAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA-AAUUGUGGGGUACUUUUCUGCAAUGAUUCGCCAGUAUUUUUAAAUAGUAGAAAAUACAAUUUGCAU------AUUACCU
.(((((......((((((((((.((......)).))))).-.((((..(((.....)))..))))...))))).((((((((........))))))))..)))))..------....... ( -34.10)
>consensus
GGCCAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA_AAUUGUGGGGUACUUUUCUGCAAUGAUUCGCCAGUAUUUUUAAAUACUAA_AAAUACAAUUUGCAUACUCGUAUUACCU
...........(((((((((.((((((.....))))))....((((..(((.....)))..)))).....))).(((((((((.....))).))))))................)))))) (-25.82 = -25.94 +   0.12)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,053,969 – 21,054,089
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.33
Mean single sequence MFE -37.46
Consensus MFE -33.40
Energy contribution -34.08
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -1.80
Structure conservation index 0.89
SVM decision value 2.08
SVM RNA-class probability 0.987361
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21053969 120 - 23771897
AAACUGCUGGCCCAGGCGAAAAAUCUGCCAAACAAUUGUUAUCUGCCAGCGAACAGAGACAAUUGCCGCCUUUGUCUUUUGGCCAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA
....(((((((...((((.......)))).(((....)))....)))))))...((((((((.........))))))))(((((((.(((..((((....))))...)))...))))))) ( -39.90)
>DroSec_CAF1 109000 120 - 1
AAACUGCUGGCCUAGGCGAAAAAUCUGCCAAACAAUUGUUAUCUGCCAGCGAACAGAGACAAUUGCCACCUUUGUCUUUUGGACAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA
........(((((.((((.......))))...((((((((.((((........)))))))))))).((((((((((.....))))).....))))))))))((((((.....)))))).. ( -42.80)
>DroSim_CAF1 15263 115 - 1
A-----UUGGCCCAGGCGAAAAAUCUGCCAAACAAUUGUUAUCUGCCAGCGAACAGAGACAAUUGCCGCCUUUGUCUUUUGGCCAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA
.-----..((((..((((.......))))...((((((((.((((........)))))))))))).((((((.(((....))).......)))))).))))((((((.....)))))).. ( -36.90)
>DroEre_CAF1 31539 119 - 1
AAACUGC-GGCCCAGGCUAAAAAUCUGCCAAACAAUUGUUAUCUACCAGCGCACAGAGACAAUUGCCGCCUUUGUCUUUUGGCCAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA
.....((-(((...(((.........)))....(((((((.(((..........)))))))))))))))..........(((((((.(((..((((....))))...)))...))))))) ( -34.80)
>DroYak_CAF1 2449 120 - 1
AAACUGCUGGCCCAGGCUAAAAAUCUACCAAACAAUUGUUAUCUACCAGCGAACGGAGACAAUUGCCGCCUUUGUCUUUUGGCAAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA
....(((((((...((((..............((((((((.(((..........))))))))))).((((((((((....)))))......))))).)))))))))))............ ( -32.90)
>consensus
AAACUGCUGGCCCAGGCGAAAAAUCUGCCAAACAAUUGUUAUCUGCCAGCGAACAGAGACAAUUGCCGCCUUUGUCUUUUGGCCAAAUUCAGGGUGAGGCCGCCAGCGAAAUGUUGGCCA
........((((..((((.......))))...((((((((.((((........)))))))))))).((((((.(...(((....)))..))))))).))))((((((.....)))))).. (-33.40 = -34.08 +   0.68)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,054,009 – 21,054,129
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.37
Mean single sequence MFE -33.44
Consensus MFE -29.40
Energy contribution -29.64
Covariance contribution 0.24
Combinations/Pair 1.09
Mean z-score -1.69
Structure conservation index 0.88
SVM decision value 1.60
SVM RNA-class probability 0.967019
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21054009 120 + 23771897
AAAAGACAAAGGCGGCAAUUGUCUCUGUUCGCUGGCAGAUAACAAUUGUUUGGCAGAUUUUUCGCCUGGGCCAGCAGUUUCUUGUCAAUUCAUUGGCUUUAAUUGCUGUGUUUGCCGUUU
..........((((((((((((.(((((......)))))..))))))))).(((.((....))))).((((((((((((....(((((....)))))...)))))))).))))))).... ( -37.90)
>DroSec_CAF1 109040 116 + 1
AAAAGACAAAGGUGGCAAUUGUCUCUGUUCGCUGGCAGAUAACAAUUGUUUGGCAGAUUUUUCGCCUAGGCCAGCAGUUUCUUGUCAAUUCAUUGGCUUUAAUUGCUGUGUUUGCC----
.............(((((((((.(((((......)))))..))))))))).(((((((.....((....))((((((((....(((((....)))))...)))))))).)))))))---- ( -34.70)
>DroSim_CAF1 15303 111 + 1
AAAAGACAAAGGCGGCAAUUGUCUCUGUUCGCUGGCAGAUAACAAUUGUUUGGCAGAUUUUUCGCCUGGGCCAA-----UCUUGUCAAUUCAUUGGCUUUAAUUGCUGUGUUUGCC----
......((((.((((((((((..(((((......)))))...((((...((((((((((....((....)).))-----)).))))))...))))....)))))))))).))))..---- ( -32.50)
>DroEre_CAF1 31579 116 + 1
AAAAGACAAAGGCGGCAAUUGUCUCUGUGCGCUGGUAGAUAACAAUUGUUUGGCAGAUUUUUAGCCUGGGCC-GCAGUUUCUUGUCAAUUCAUUGGCUUUAAUUGCUGUGUUUGCCG---
....(.((((.((((((((((...(((((..(((.((((((.....)))))).))).......((....)))-))))......(((((....)))))..)))))))))).)))).).--- ( -32.90)
>DroYak_CAF1 2489 113 + 1
AAAAGACAAAGGCGGCAAUUGUCUCCGUUCGCUGGUAGAUAACAAUUGUUUGGUAGAUUUUUAGCCUGGGCCAGCAGUUUCUUGUCAAUUCAUUGGCUUUAAUUGCUGUGUUU-------
...(((((..((((((((..(((((((..((...((.....))...))..))).))))..)).)))...)))(((((((....(((((....)))))...))))))).)))))------- ( -29.20)
>consensus
AAAAGACAAAGGCGGCAAUUGUCUCUGUUCGCUGGCAGAUAACAAUUGUUUGGCAGAUUUUUCGCCUGGGCCAGCAGUUUCUUGUCAAUUCAUUGGCUUUAAUUGCUGUGUUUGCC____
......((((.((((((((((.........(((((((((((.....)))))(((.........)))...))))))........(((((....)))))..)))))))))).))))...... (-29.40 = -29.64 +   0.24)

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 13:00:39 2006