Locus 8298

Sequence ID 3L_DroMel_CAF1
Location 21,744,545 – 21,744,676
Length 131
Max. P 0.979019
window13581 window13582 window13583

overview

Window 1

Location 21,744,545 – 21,744,665
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.13
Mean single sequence MFE -24.04
Consensus MFE -22.44
Energy contribution -21.88
Covariance contribution -0.56
Combinations/Pair 1.22
Mean z-score -1.50
Structure conservation index 0.93
SVM decision value 1.03
SVM RNA-class probability 0.903752
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21744545 120 - 23771897
ACCGAACAGAUCAGACCAGAUAUAGGAACGAUCUUGGCUGUCAGACUUAUCGAUUAAGCCAAGAUUAAUGUUACACAUUGGGCAGAAACAGACAAUUAAUUAGAAACCUAAACUGCUACA
......((((((......))).((((...(((((((((((((.((....)))))..))))))))))((((.....))))...........................))))..)))..... ( -22.10)
>DroSec_CAF1 26308 120 - 1
ACCGAACAGAUCAGACCAGAUAUAGGAACGGUCUUGGCUGUCGGGCUUAUCGAUUAAGCCAAGAUUAAUGCUACACAUUGGGCAGAAACAGACAAUUAAUUAGAAACCUAAACUUCUACA
.................(((..((((...(((((((((((((((.....)))))..))))))))))..((((........))))......................))))....)))... ( -26.10)
>DroSim_CAF1 31189 120 - 1
ACCGAACAGAUCAGACCAGAUAUAGGAACGAUCUUGGCUGUCGGGCUUAUCGAUUAAGCCAAGAUUAAUGCUACACAUUGGGCAGAAACAGACAAUUAAUUAGAAACCUAAACUGCUACA
......((((((......))).((((...(((((((((((((((.....)))))..))))))))))..((((........))))......................))))..)))..... ( -28.20)
>DroEre_CAF1 12640 116 - 1
ACCAAACAGAUCACA----AUAUAGGAACGAUCUUGGCUGUCGGGCUUAUCGAUUAAGCCAAGAUUAAUGUUACACAUUGAGCAGAAACAGACAAUUAAUUAGAAACCUAAACUGCUACA
.............((----((.....((((((((((((((((((.....)))))..))))))))))...)))....))))(((((((........))..((((....)))).)))))... ( -24.10)
>DroYak_CAF1 84460 106 - 1
----------UCGCA----AUAUAGGAACGAUCUUGGCUGUCAAUUUUAUCGAUUAAGUCAAGAUUAAUGUUACACAUUAAGCAGAAACAGACAAUUAAUUAGAAACCUAAACUGCUAAA
----------..(((----.(.((((...(((((((((((((.........)))..))))))))))((((.....))))...........................)))).).))).... ( -19.70)
>consensus
ACCGAACAGAUCAGACCAGAUAUAGGAACGAUCUUGGCUGUCGGGCUUAUCGAUUAAGCCAAGAUUAAUGUUACACAUUGGGCAGAAACAGACAAUUAAUUAGAAACCUAAACUGCUACA
......................((((...(((((((((((((((.....)))))..))))))))))..((((........))))......................)))).......... (-22.44 = -21.88 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 21,744,585 – 21,744,676
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 93.59
Mean single sequence MFE -23.40
Consensus MFE -19.25
Energy contribution -19.62
Covariance contribution 0.38
Combinations/Pair 1.08
Mean z-score -1.98
Structure conservation index 0.82
SVM decision value 0.56
SVM RNA-class probability 0.781467
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21744585 91 + 23771897
CAAUGUGUAACAUUAAUCUUGGCUUAAUCGAUAAGUCUGACAGCCAAGAUCGUUCCUAUAUCUGGUCUGAUCUGUUCGGUUCGAUAUACAC
....(((((......(((((((((...(((.......))).)))))))))........((((.(..((((.....))))..)))))))))) ( -21.10)
>DroSec_CAF1 26348 91 + 1
CAAUGUGUAGCAUUAAUCUUGGCUUAAUCGAUAAGCCCGACAGCCAAGACCGUUCCUAUAUCUGGUCUGAUCUGUUCGGUUCGAUGUACAC
....(((((.((((((((..((((((.....)))))).(((((...((((((..........))))))...))))).)))).))))))))) ( -26.30)
>DroSim_CAF1 31229 91 + 1
CAAUGUGUAGCAUUAAUCUUGGCUUAAUCGAUAAGCCCGACAGCCAAGAUCGUUCCUAUAUCUGGUCUGAUCUGUUCGGUUCGAUGUACAC
....(((((.((((((((.(((((...(((.......))).)))))((((((..((.......))..))))))....)))).))))))))) ( -24.80)
>DroEre_CAF1 12680 87 + 1
CAAUGUGUAACAUUAAUCUUGGCUUAAUCGAUAAGCCCGACAGCCAAGAUCGUUCCUAUAU----UGUGAUCUGUUUGGUUCGAUAUACAC
...((((((.......((((((((...(((.......))).))))))))(((..((.(((.----.......)))..))..))))))))). ( -21.40)
>consensus
CAAUGUGUAACAUUAAUCUUGGCUUAAUCGAUAAGCCCGACAGCCAAGAUCGUUCCUAUAUCUGGUCUGAUCUGUUCGGUUCGAUAUACAC
....(((((...........((((((.....))))))(((..(((.((((((..((.......))..))))))....))))))...))))) (-19.25 = -19.62 +   0.38)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,744,585 – 21,744,676
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 93.59
Mean single sequence MFE -24.98
Consensus MFE -23.26
Energy contribution -23.32
Covariance contribution 0.06
Combinations/Pair 1.07
Mean z-score -2.26
Structure conservation index 0.93
SVM decision value 1.83
SVM RNA-class probability 0.979019
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21744585 91 - 23771897
GUGUAUAUCGAACCGAACAGAUCAGACCAGAUAUAGGAACGAUCUUGGCUGUCAGACUUAUCGAUUAAGCCAAGAUUAAUGUUACACAUUG
(((((.......((......(((......)))...))...(((((((((((((.((....)))))..)))))))))).....))))).... ( -22.00)
>DroSec_CAF1 26348 91 - 1
GUGUACAUCGAACCGAACAGAUCAGACCAGAUAUAGGAACGGUCUUGGCUGUCGGGCUUAUCGAUUAAGCCAAGAUUAAUGCUACACAUUG
((((((((..(..(((.(((.(((((((............)))).)))))))))((((((.....))))))....)..))).))))).... ( -28.10)
>DroSim_CAF1 31229 91 - 1
GUGUACAUCGAACCGAACAGAUCAGACCAGAUAUAGGAACGAUCUUGGCUGUCGGGCUUAUCGAUUAAGCCAAGAUUAAUGCUACACAUUG
((((((((....((......(((......)))...))...(((((((((((((((.....)))))..)))))))))).))).))))).... ( -26.90)
>DroEre_CAF1 12680 87 - 1
GUGUAUAUCGAACCAAACAGAUCACA----AUAUAGGAACGAUCUUGGCUGUCGGGCUUAUCGAUUAAGCCAAGAUUAAUGUUACACAUUG
(((((.......((............----.....))...(((((((((((((((.....)))))..)))))))))).....))))).... ( -22.93)
>consensus
GUGUACAUCGAACCGAACAGAUCAGACCAGAUAUAGGAACGAUCUUGGCUGUCGGGCUUAUCGAUUAAGCCAAGAUUAAUGCUACACAUUG
((((((((....((......(((......)))...))...(((((((((((((((.....)))))..)))))))))).))).))))).... (-23.26 = -23.32 +   0.06)

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 13:11:57 2006