Locus 3153

Sequence ID 2R_DroMel_CAF1
Location 10,761,250 – 10,761,391
Length 141
Max. P 0.890043
window5195 window5196 window5197

overview

Window 5

Location 10,761,250 – 10,761,351
Length 101
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 93.83
Mean single sequence MFE -24.26
Consensus MFE -22.18
Energy contribution -22.02
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.36
Structure conservation index 0.91
SVM decision value 0.96
SVM RNA-class probability 0.890043
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10761250 101 + 20766785
------GUAUAUAAAUUGGUGACGUCAUAGGAAGGUGAACACCUGCAUUGAUUCACGGACGUGUUUAGUUUUUU-UUUACACUUCCUUUUGACAUUUAUGCCUGCCCA
------(((((......(....)((((.(((((((((((.......(((((..(((....))).))))).....-))))).))))))..))))...)))))....... ( -23.50)
>DroSec_CAF1 27184 102 + 1
------GUUUAUAAAUUGGUGACGUCAUAGGAAGGUGAACACCUGCAUUGAUUCACGGACGUGUUUAGUUUUUUCUUUACACUUCCUUUUGACAUUUAUGCCUGCCCA
------...(((((((.(((((.((((...(.((((....)))).)..))))))))(((.((((..((......))..)))).)))......))))))))........ ( -23.70)
>DroSim_CAF1 26805 101 + 1
------GUAUAUAAAUUGGUGACGUCAUAGGAAGGUGAACACCUGCAUUGAUUCACGGACGUGUUUAGUUUUUU-UUUACACUUCCUUUUGACAUUUAUGCCUGCCCA
------(((((......(....)((((.(((((((((((.......(((((..(((....))).))))).....-))))).))))))..))))...)))))....... ( -23.50)
>DroEre_CAF1 25266 99 + 1
------GUAUGUACAUUGGUGACGUCAUAGGAAGGUGAACACCUGCAUUGAUUCACGGACGUGUUCAGUUU--U-UUUACACUUCCUUUUGACAUUUAUGCCUGCCCA
------(((.(((....(....)((((.((((((.((((((((((..........)))..)))))))((..--.-...)).))))))..)))).....))).)))... ( -25.10)
>DroYak_CAF1 26090 106 + 1
AGGUACAUAUAUACAUUGGUGACGUCAUAGGAAGGUGAACACCUGCAUUGAUUCACGAACGUGUUUAGUUUU-U-UUUACACUUCCUUUUGACAUUUAUGCCUGCCCA
(((((............(....)((((.(((((((((((.......(((((..(((....))).)))))...-.-))))).))))))..)))).....)))))..... ( -25.50)
>consensus
______GUAUAUAAAUUGGUGACGUCAUAGGAAGGUGAACACCUGCAUUGAUUCACGGACGUGUUUAGUUUUUU_UUUACACUUCCUUUUGACAUUUAUGCCUGCCCA
.................(((((.((((.(((((((((((.......(((((..(((....))).)))))......))))).))))))..)))).))...)))...... (-22.18 = -22.02 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,761,250 – 10,761,351
Length 101
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 93.83
Mean single sequence MFE -21.19
Consensus MFE -19.04
Energy contribution -18.88
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.12
Structure conservation index 0.90
SVM decision value -0.02
SVM RNA-class probability 0.524127
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10761250 101 - 20766785
UGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA-AAAAAACUAAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCUAUGACGUCACCAAUUUAUAUAC------
.((((.((((....))))........((((...-..........))))))))((((.(((..(.((((....)))).)...)))..))))............------ ( -19.52)
>DroSec_CAF1 27184 102 - 1
UGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAAGAAAAAACUAAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCUAUGACGUCACCAAUUUAUAAAC------
.((((.((((....))))........((((..((......))..))))))))((((.(((..(.((((....)))).)...)))..))))............------ ( -20.80)
>DroSim_CAF1 26805 101 - 1
UGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA-AAAAAACUAAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCUAUGACGUCACCAAUUUAUAUAC------
.((((.((((....))))........((((...-..........))))))))((((.(((..(.((((....)))).)...)))..))))............------ ( -19.52)
>DroEre_CAF1 25266 99 - 1
UGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA-A--AAACUGAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCUAUGACGUCACCAAUGUACAUAC------
((..((.......((((((..((((((.((...-.--..))(((((((.(.(((......))).).))))))).)))))).))))))......))..))...------ ( -24.52)
>DroYak_CAF1 26090 106 - 1
UGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA-A-AAAACUAAACACGUUCGUGAAUCAAUGCAGGUGUUCACCUUCCUAUGACGUCACCAAUGUAUAUAUGUACCU
.(((((.((((..((((((..((((((((....-.-.......(((((.(.(((......))).).))))))).)))))).)))))).....)))).....))).)). ( -21.60)
>consensus
UGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA_AAAAAACUAAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCUAUGACGUCACCAAUUUAUAUAC______
.((((.((((....))))........((((..............))))))))((((.(((..(.((((....)))).)...)))..)))).................. (-19.04 = -18.88 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,761,272 – 10,761,391
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.07
Mean single sequence MFE -33.44
Consensus MFE -26.64
Energy contribution -29.04
Covariance contribution 2.40
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.80
SVM decision value 0.44
SVM RNA-class probability 0.737097
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10761272 119 - 20766785
GUGAGCUUGAGGCGCAAAGCGGCGCCUUAUUUGGACUUUCUGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA-AAAAAACUAAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCU
((((((.((((((((......))))))))((((.(((((((.((((........))))...))))))).))))-...........(((....))).............))))))...... ( -36.60)
>DroSec_CAF1 27206 120 - 1
GUGAGCUUGAGGCGCAAAGCGGCGCCUUAUUUGGACUUUCUGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAAGAAAAAACUAAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCU
((((((.((((((((......)))))))).(..(.....)..)((..((((.....(((...(((.((((..((......))..)))).))).)))....))))..))))))))...... ( -37.10)
>DroSim_CAF1 26827 119 - 1
GUGAGCUUGAGGCGCAAAGCGGCGCCUUAUUUGGACUUUCUGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA-AAAAAACUAAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCU
((((((.((((((((......))))))))((((.(((((((.((((........))))...))))))).))))-...........(((....))).............))))))...... ( -36.60)
>DroEre_CAF1 25288 107 - 1
GUGAGCUUG----------CGGCGCCUUAUUUGGACUUUCUGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA-A--AAACUGAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCU
(((((((((----------((........((((.(((((((.((((........))))...))))))).))))-.--....(((.(((....)))..))).)))))))..))))...... ( -28.50)
>DroYak_CAF1 26118 108 - 1
GUGAGCUUG----------CGGCGCCUUAUUUGGACUUUCUGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA-A-AAAACUAAACACGUUCGUGAAUCAAUGCAGGUGUUCACCUUCCU
(((((((((----------((........((((.(((((((.((((........))))...))))))).))))-.-.........(((....)))......)))))))..))))...... ( -28.40)
>consensus
GUGAGCUUGAGGCGCAAAGCGGCGCCUUAUUUGGACUUUCUGGGCAGGCAUAAAUGUCAAAAGGAAGUGUAAA_AAAAAACUAAACACGUCCGUGAAUCAAUGCAGGUGUUCACCUUCCU
((((((.((((((((......))))))))((((.(((((((.((((........))))...))))))).))))............(((....))).............))))))...... (-26.64 = -29.04 +   2.40)

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 10:48:47 2006