Locus 4770

Sequence ID 2R_DroMel_CAF1
Location 15,687,367 – 15,687,470
Length 103
Max. P 0.800298
window7670 window7671

overview

Window 0

Location 15,687,367 – 15,687,470
Length 103
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 82.28
Mean single sequence MFE -30.40
Consensus MFE -15.18
Energy contribution -16.94
Covariance contribution 1.76
Combinations/Pair 1.05
Mean z-score -2.53
Structure conservation index 0.50
SVM decision value 0.61
SVM RNA-class probability 0.800298
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15687367 103 + 20766785
UGGGCACACAAAAUCC-CACUGGAAUCCGACC--CAAUGAAUAUGGCCACGGGGAAUCCAUCCGGAUACGUAUCC--CCCAACCACGGAUCCACAUGCCUUGCGUUCA
.(((((......((((-((.(((........)--)).))....(((....(((((((((....)))).....)))--))...))).)))).....)))))........ ( -25.60)
>DroSec_CAF1 564387 101 + 1
UGGGCACACGAAAUCC-CACUGGAAUCCGACC--CAAUGAAAAUGGCCACAGGGAAA----CCGGAUACGGAUCCCCCCCAACCAGGGAUCCACGUGCCUUGCGUUCA
.((((((.....((((-((.(((........)--)).))............((....----))))))..(((((((.........)))))))..))))))........ ( -34.60)
>DroSim_CAF1 468245 100 + 1
UGGGCACACAAAAUCC-CACUGGAAUCCGACC--CAAUGAAAAUGGCCACAGGGAAA----CCGGAUACGGAUCCC-CCCAACCAGGGAUCCACGUGCCUUGCGUUCA
.((((((.....((((-((.(((........)--)).))............((....----))))))..(((((((-........)))))))..))))))........ ( -35.40)
>DroEre_CAF1 467174 84 + 1
UGGGCACACAAAAUCC-CGCCGGAAUCCGACC--CAAUGAAAAUGGCCAAAGGGAAU----CCGGAUACGGAACCCC-------------CCA----CCUGGCGUUCA
.(((..........))-)(((((........(--((.(....)))).....(((..(----(((....))))..)))-------------...----.)))))..... ( -22.70)
>DroYak_CAF1 485131 99 + 1
UGGGCACAUAAAAUCCCCACCGGAAUCCGACCCCCCAUGAAAAUGGC-AAAGGGAAU----CCGGAUACGGAUCCCC---AAC-AACGAUCCACGUGCCUUGCGUUCA
.((((((............(((((.(((......((((....)))).-....))).)----))))....(((((...---...-...)))))..))))))........ ( -33.70)
>consensus
UGGGCACACAAAAUCC_CACUGGAAUCCGACC__CAAUGAAAAUGGCCACAGGGAAU____CCGGAUACGGAUCCCCCCCAACCAGGGAUCCACGUGCCUUGCGUUCA
.((((((............((((..(((........................)))......))))....((((((...........))))))..))))))........ (-15.18 = -16.94 +   1.76)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,687,367 – 15,687,470
Length 103
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 82.28
Mean single sequence MFE -39.90
Consensus MFE -17.66
Energy contribution -19.86
Covariance contribution 2.20
Combinations/Pair 1.08
Mean z-score -2.45
Structure conservation index 0.44
SVM decision value 0.23
SVM RNA-class probability 0.646045
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15687367 103 - 20766785
UGAACGCAAGGCAUGUGGAUCCGUGGUUGGG--GGAUACGUAUCCGGAUGGAUUCCCCGUGGCCAUAUUCAUUG--GGUCGGAUUCCAGUG-GGAUUUUGUGUGCCCA
.........((((((..((((((((((((((--((((.(((......))).))))))))..)))))...(((((--((......)))))))-))).))..)))))).. ( -41.00)
>DroSec_CAF1 564387 101 - 1
UGAACGCAAGGCACGUGGAUCCCUGGUUGGGGGGGAUCCGUAUCCGG----UUUCCCUGUGGCCAUUUUCAUUG--GGUCGGAUUCCAGUG-GGAUUUCGUGUGCCCA
.........((((((((((((((((((((.((((((.(((....)))----.)))))).)))))).....((((--((......)))))))-))).)))))))))).. ( -44.60)
>DroSim_CAF1 468245 100 - 1
UGAACGCAAGGCACGUGGAUCCCUGGUUGGG-GGGAUCCGUAUCCGG----UUUCCCUGUGGCCAUUUUCAUUG--GGUCGGAUUCCAGUG-GGAUUUUGUGUGCCCA
.........((((((..((((((((((((.(-((((.(((....)))----..))))).)))))).....((((--((......)))))))-))).))..)))))).. ( -44.10)
>DroEre_CAF1 467174 84 - 1
UGAACGCCAGG----UGG-------------GGGGUUCCGUAUCCGG----AUUCCCUUUGGCCAUUUUCAUUG--GGUCGGAUUCCGGCG-GGAUUUUGUGUGCCCA
((((.(((((.----.((-------------(((((.(((....)))----))))))))))))....)))).((--(((((((.(((....-))).))))...))))) ( -29.80)
>DroYak_CAF1 485131 99 - 1
UGAACGCAAGGCACGUGGAUCGUU-GUU---GGGGAUCCGUAUCCGG----AUUCCCUUU-GCCAUUUUCAUGGGGGGUCGGAUUCCGGUGGGGAUUUUAUGUGCCCA
.........((((((((((..((.-...---(((((((((....)))----))))))...-)).(((..(((.((((......)))).)))..))))))))))))).. ( -40.00)
>consensus
UGAACGCAAGGCACGUGGAUCCCUGGUUGGGGGGGAUCCGUAUCCGG____AUUCCCUGUGGCCAUUUUCAUUG__GGUCGGAUUCCAGUG_GGAUUUUGUGUGCCCA
.........(((((..(((((((.........)))))))..((((((........))...((((............))))))))(((.....)))......))))).. (-17.66 = -19.86 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:53 2006