Locus 2517

Sequence ID X_DroMel_CAF1
Location 6,687,473 – 6,687,624
Length 151
Max. P 0.648116
window4113 window4114

overview

Window 3

Location 6,687,473 – 6,687,590
Length 117
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 89.97
Mean single sequence MFE -22.52
Consensus MFE -17.04
Energy contribution -16.80
Covariance contribution -0.24
Combinations/Pair 1.14
Mean z-score -1.68
Structure conservation index 0.76
SVM decision value 0.24
SVM RNA-class probability 0.648116
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6687473 117 - 22224390
CGAUAUCUAUUUUUGGAUUUACCAAGGGUAAUUCCAUUAAUAAGCACUUAAUAGUUGGGCAAAUAAGCCGAAUACCAAGAAUGUAUAUUCACAUUGAAUGU--ACUAAUCAACUUAUAU
.......((((..((((.(((((...))))).))))..))))..........((((((((......))).............((((((((.....))))))--))....)))))..... ( -27.60)
>DroSec_CAF1 598 115 - 1
CGAUAUCUAUUUUUGGAUUCACCAAGGGUAAUUCCAUUAAUAAGCACCUAAUAGUUGGGCAAAUAAGCCGAAUACCAAAAAUGU--AUUCACAUUGUAUGU--ACUAAUCACCUAAUAU
.(((...((((..((((...(((...)))...))))..)))).(((..((((.....(((......)))((((((.......))--))))..))))..)))--....)))......... ( -20.30)
>DroSim_CAF1 634 115 - 1
CGAUAUCUAUUUUUGGAUUCACCAAGGGUAAUUCCAUUAAUAAGCACUUAAUAGUUGGGCAAAUAAGCCGAAUACCAAAAAUGU--AUUCACAUUGUGUGU--ACUAAUCACCCAAUAU
.(((...((((..((((...(((...)))...))))..)))).((((.((((.....(((......)))((((((.......))--))))..)))).))))--....)))......... ( -23.60)
>DroEre_CAF1 592 117 - 1
CGAUAUCUAUUUUUGGAUUCACCAAGGGUAAUUCCAUUAAUAAGUACUUAAUACUUGGGUAAAUAAGCCGAAUACCAAGAAUCU--AAUCGCAUUGUAUGUAUAUUUAUCACUUUAUAU
.((((..(((..((((((((......((((.(((......((((((.....))))))(((......))))))))))..))))))--))..((((...)))))))..))))......... ( -20.00)
>DroYak_CAF1 653 115 - 1
CGAUAUCUAUUUUUGGAUUCAACAAGGGUAAUUCCAUUAAUAAGUACUUAAUAGUUGGGUAAAUAAGCCGAAUACCCAGAAUGC--AUUCACAUUGUAUGU--AUUUAUGACUAAAUAU
.((.(((((....))))))).....(((....)))....((((((((.......(((((((...........))))))).((((--(.......)))))))--)))))).......... ( -21.10)
>consensus
CGAUAUCUAUUUUUGGAUUCACCAAGGGUAAUUCCAUUAAUAAGCACUUAAUAGUUGGGCAAAUAAGCCGAAUACCAAGAAUGU__AUUCACAUUGUAUGU__ACUAAUCACCUAAUAU
.((....(((((((((((((.....(((....)))......................(((......))))))).))))))))).....))............................. (-17.04 = -16.80 +  -0.24)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 6,687,511 – 6,687,624
Length 113
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 91.07
Mean single sequence MFE -26.16
Consensus MFE -19.92
Energy contribution -19.84
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.52
Structure conservation index 0.76
SVM decision value -0.01
SVM RNA-class probability 0.526206
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6687511 113 - 22224390
U------GCCUGUCUAAUGGAAGUCAUUGUCCAAUUUGUUCGAUAUCUAUUUUUGGAUUUACCAAGGGUAAUUCCAUUAAUAAGCACUUAAUAGUUGGGCAAAUAAGCCGAAUACCAAG
(------((.(((.((((((((...((((..(.....)..))))...(((((((((.....))))))))).))))))))))).))).......(((.(((......))).)))...... ( -26.20)
>DroSec_CAF1 634 113 - 1
U------GCCUGUCUAAUGGAAGCCAUUGUCCAAUUUGUUCGAUAUCUAUUUUUGGAUUCACCAAGGGUAAUUCCAUUAAUAAGCACCUAAUAGUUGGGCAAAUAAGCCGAAUACCAAA
(------((.(((.((((((((...((((..(.....)..))))...(((((((((.....))))))))).))))))))))).))).......(((.(((......))).)))...... ( -26.20)
>DroSim_CAF1 670 113 - 1
U------GCCUGUCUAAUGGAAGCCAUUGUCCAAUUUGUUCGAUAUCUAUUUUUGGAUUCACCAAGGGUAAUUCCAUUAAUAAGCACUUAAUAGUUGGGCAAAUAAGCCGAAUACCAAA
(------((.(((.((((((((...((((..(.....)..))))...(((((((((.....))))))))).))))))))))).))).......(((.(((......))).)))...... ( -26.20)
>DroEre_CAF1 630 119 - 1
UGUGUAUGUUUGUUUAAUGGAACCCAUUGUCCAAUUUGUUCGAUAUCUAUUUUUGGAUUCACCAAGGGUAAUUCCAUUAAUAAGUACUUAAUACUUGGGUAAAUAAGCCGAAUACCAAG
((.((((((((((((((((((((((((((..(.....)..))))........((((.....))))))))...)))))...((((((.....))))))..)))))))))...)))))).. ( -25.00)
>DroYak_CAF1 689 113 - 1
U------GUCUGUCCAGUGGCAGGCAUUGUCCAACUUGUUCGAUAUCUAUUUUUGGAUUCAACAAGGGUAAUUCCAUUAAUAAGUACUUAAUAGUUGGGUAAAUAAGCCGAAUACCCAG
(------(((((((....))))))))((..((((((((((.((.(((((....))))))))))))(((....)))..................)))))..))................. ( -27.20)
>consensus
U______GCCUGUCUAAUGGAAGCCAUUGUCCAAUUUGUUCGAUAUCUAUUUUUGGAUUCACCAAGGGUAAUUCCAUUAAUAAGCACUUAAUAGUUGGGCAAAUAAGCCGAAUACCAAG
.......((.(((.((((((((...((((..(.....)..))))...(((((((((.....))))))))).))))))))))).))........(((.(((......))).)))...... (-19.92 = -19.84 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:43 2006