Locus 3961

Sequence ID 3L_DroMel_CAF1
Location 11,502,917 – 11,503,049
Length 132
Max. P 0.972303
window6169 window6170 window6171

overview

Window 9

Location 11,502,917 – 11,503,013
Length 96
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 82.39
Mean single sequence MFE -27.70
Consensus MFE -21.17
Energy contribution -21.17
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.76
SVM decision value 0.84
SVM RNA-class probability 0.864551
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11502917 96 - 23771897
UGGAGGUCCUUGGCAUUAUUUGGCACUUGAUGGAAUAACUAUUAGUUAGAGUGCCACCGCUAAUGCUA-AUG-------CUA-AUGCCCCAAUCCCACCGUAUGC
(((.(((..(((((((((..(((((((((((((.....))))).....))))))))..((....))))-)))-------)))-).)))))).............. ( -29.70)
>DroSim_CAF1 7432 85 - 1
UGGAGGUCCUUGGCAUUAUUUGGCACUUGAUGGAAUAACUAUUAGUUAGAGUGCCACCGCUAAUGCCC-AUG-------CUA-AUGCCCC-----------AUGC
(((.(((..(((((((....(((((((((((((.....))))).....))))))))..((....))..-)))-------)))-).)))))-----------)... ( -26.60)
>DroYak_CAF1 7489 100 - 1
AGGAGGUCCUUGGCAUUAUUUGGCACUUGAUGGAAUAACUAUUAGUUAGAGUGCCACCGCUAAUGCACCAUGCCCCAUGCCAUAUGCCACA-----ACCACAUGC
....(((...((((((....(((((((((((((.....))))).....))))))))..((....))..........))))))...)))...-----......... ( -26.80)
>consensus
UGGAGGUCCUUGGCAUUAUUUGGCACUUGAUGGAAUAACUAUUAGUUAGAGUGCCACCGCUAAUGCAC_AUG_______CUA_AUGCCCCA_____ACC__AUGC
.((....))..(((((....(((((((((((((.....))))).....))))))))..((....)).................)))))................. (-21.17 = -21.17 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,502,948 – 11,503,049
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 95.32
Mean single sequence MFE -26.77
Consensus MFE -24.33
Energy contribution -25.00
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.78
Structure conservation index 0.91
SVM decision value 1.41
SVM RNA-class probability 0.951368
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11502948 101 + 23771897
CAUUAGCGGUGGCACUCUAACUAAUAGUUAUUCCAUCAAGUGCCAAAUAAUGCCAAGGACCUCCACAUCGCACAUCGAUCUGUGUGACGCCGCCACCAACA
.....(((((((((((.((((.....))))........))))))............((....))...(((((((......))))))).)))))........ ( -26.20)
>DroSec_CAF1 7412 97 + 1
CAUUAGCGGUGGCACUCUAACUAAUAGUUUUUCCAUCAAGUGCCAAAUAAUGCCAAGGACCUCCACAUCGCACAUCGAUCUGUGUGCCGCCGCCAAC----
.....((((((((((.(.(((.....)))..........((((((.....))....((....)).....))))........).))))))))))....---- ( -26.20)
>DroSim_CAF1 7452 97 + 1
CAUUAGCGGUGGCACUCUAACUAAUAGUUAUUCCAUCAAGUGCCAAAUAAUGCCAAGGACCUCCACAUCGCACAUCGAUCUGUGUGCCGCCGCCAAC----
.....((((((((((.(((((.....)))).........((((((.....))....((....)).....))))........).))))))))))....---- ( -27.90)
>consensus
CAUUAGCGGUGGCACUCUAACUAAUAGUUAUUCCAUCAAGUGCCAAAUAAUGCCAAGGACCUCCACAUCGCACAUCGAUCUGUGUGCCGCCGCCAAC____
.....((((((((((.(((((.....)))).........((((((.....))....((....)).....))))........).))))))))))........ (-24.33 = -25.00 +   0.67)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,502,948 – 11,503,049
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 95.32
Mean single sequence MFE -36.63
Consensus MFE -33.70
Energy contribution -34.37
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.00
Structure conservation index 0.92
SVM decision value 1.69
SVM RNA-class probability 0.972303
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11502948 101 - 23771897
UGUUGGUGGCGGCGUCACACAGAUCGAUGUGCGAUGUGGAGGUCCUUGGCAUUAUUUGGCACUUGAUGGAAUAACUAUUAGUUAGAGUGCCACCGCUAAUG
.(((((((((.(((((.((((......)))).))))).).......((((((..((((((...((((((.....)))))))))))))))))))))))))). ( -34.70)
>DroSec_CAF1 7412 97 - 1
----GUUGGCGGCGGCACACAGAUCGAUGUGCGAUGUGGAGGUCCUUGGCAUUAUUUGGCACUUGAUGGAAAAACUAUUAGUUAGAGUGCCACCGCUAAUG
----((((((((.(((((....(((((.(((((((((.(((...))).))))).....))))))))).......(((.....))).))))).)))))))). ( -37.30)
>DroSim_CAF1 7452 97 - 1
----GUUGGCGGCGGCACACAGAUCGAUGUGCGAUGUGGAGGUCCUUGGCAUUAUUUGGCACUUGAUGGAAUAACUAUUAGUUAGAGUGCCACCGCUAAUG
----((((((((.(((((....(((((.(((((((((.(((...))).))))).....)))))))))....((((.....))))..))))).)))))))). ( -37.90)
>consensus
____GUUGGCGGCGGCACACAGAUCGAUGUGCGAUGUGGAGGUCCUUGGCAUUAUUUGGCACUUGAUGGAAUAACUAUUAGUUAGAGUGCCACCGCUAAUG
....((((((((.(((((....(((((.(((((((((.(((...))).))))).....))))))))).......(((.....))).))))).)))))))). (-33.70 = -34.37 +   0.67)

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 11:11:06 2006