Locus 8245

Sequence ID 3R_DroMel_CAF1
Location 22,073,228 – 22,073,379
Length 151
Max. P 0.924303
window13291 window13292

overview

Window 1

Location 22,073,228 – 22,073,345
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.78
Mean single sequence MFE -27.88
Consensus MFE -21.58
Energy contribution -22.06
Covariance contribution 0.48
Combinations/Pair 1.18
Mean z-score -1.80
Structure conservation index 0.77
SVM decision value 0.58
SVM RNA-class probability 0.788018
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22073228 117 + 27905053
AUAUUCUACGCAUACGAAAGUGAAAGAAGAGAACGGUUCUUGACUUAGACUCAUUAGCUAUUUAUAAGUAGAGUGCAUUCCCACUUUCGGAAUAGCUAAUGGGGUAAAACAAUACAC---
......(((...(((....))).(((..((((.....))))..)))...((((((((((((((....(.((((((......))))))).)))))))))))))))))...........--- ( -30.30)
>DroSec_CAF1 65237 116 + 1
AUAUUCCACGCAUUCGAAAGUGAAAGAAGAGAACGGUUCUUGACUUAGAGUCAUUAGCUAUUUAUAAAUAGAGUGCAUACCCACUUUCGGAAUAGC-AAUGGGGUAAAACAAUACAC---
.(((((((.((.((((((((((........(((..(((..((((.....))))..)))..))).........((....)).))))))))))...))-..)))))))...........--- ( -26.10)
>DroSim_CAF1 58666 117 + 1
AUAUUCCACGCAUUCGAAAGUGAAAGAAGAGAACGGUUCUUGACUUAGAGUCAUUAGCUAUUUAUAAAUAGAGUGCAUUCCCACUUUCGGAAUAGCUAAUGGGGUAAAACAAUACAC---
.(((((((.((.((((((((((.(((..((((.....))))..))).(((((((...(((((....))))).))).)))).))))))))))...))...)))))))...........--- ( -28.10)
>DroEre_CAF1 59873 116 + 1
CGAGUCUACGCAUUCGAAAGUGAAAGAAGAGAACGGUUCUCGAUUUAGAGUCAUUAGCUGUUUAUAAAUAGAGUGCAUUCCCACUUUCGGAAUGGCUAAUGUGGUAAAACAAUACA----
.....((((((.((((((((((......((((.....))))......(((((((...(((((....))))).))).)))).))))))))))...))....))))............---- ( -24.90)
>DroYak_CAF1 67759 120 + 1
CAGGUAUACGCAUUCGAAAGUGAAAGAGGAGAACGGUUCUGAAUUUAGAGUCAUUAGCUAUUUAUAAAUAGAGUGCAUUCCCACUUUCGGAAUAGCUAAUGAGCUAAAACAAUACACUGC
(((((((.....((((((((((.....((((.(((..((((....))))..).....(((((....))))).))...)))))))))))))).(((((....))))).....)))).))). ( -30.00)
>consensus
AUAUUCUACGCAUUCGAAAGUGAAAGAAGAGAACGGUUCUUGACUUAGAGUCAUUAGCUAUUUAUAAAUAGAGUGCAUUCCCACUUUCGGAAUAGCUAAUGGGGUAAAACAAUACAC___
.(((((((.((.((((((((((.(((..((((.....))))..))).(((((((...(((((....))))).))).)))).))))))))))...))...))))))).............. (-21.58 = -22.06 +   0.48)

alignment

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secondary structure

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dotplot

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Window 2

Location 22,073,268 – 22,073,379
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.94
Mean single sequence MFE -26.70
Consensus MFE -20.52
Energy contribution -20.68
Covariance contribution 0.16
Combinations/Pair 1.14
Mean z-score -2.18
Structure conservation index 0.77
SVM decision value 1.16
SVM RNA-class probability 0.924303
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22073268 111 + 27905053
UGACUUAGACUCAUUAGCUAUUUAUAAGUAGAGUGCAUUCCCACUUUCGGAAUAGCUAAUGGGGUAAAACAAUACAC---------AAAUAUAACCGCUCCCCAGGCAUCGAAGCCAUUU
.........((((((((((((((....(.((((((......))))))).))))))))))))))(((......)))..---------..................(((......))).... ( -28.20)
>DroSec_CAF1 65277 110 + 1
UGACUUAGAGUCAUUAGCUAUUUAUAAAUAGAGUGCAUACCCACUUUCGGAAUAGC-AAUGGGGUAAAACAAUACAC---------AAAUAUAACCGCUCCCCAGGCAUCGAAGCCAUUU
((((.....))))...(((((((......((((((......))))))..)))))))-..(((((.......(((...---------...))).......)))))(((......))).... ( -25.44)
>DroSim_CAF1 58706 111 + 1
UGACUUAGAGUCAUUAGCUAUUUAUAAAUAGAGUGCAUUCCCACUUUCGGAAUAGCUAAUGGGGUAAAACAAUACAC---------AAAUAUAACCGCUCCCCAGGCAUCGAAGCCAUUU
((((.....))))((((((((((......((((((......))))))..))))))))))(((((.......(((...---------...))).......)))))(((......))).... ( -28.24)
>DroEre_CAF1 59913 115 + 1
CGAUUUAGAGUCAUUAGCUGUUUAUAAAUAGAGUGCAUUCCCACUUUCGGAAUGGCUAAUGUGGUAAAACAAUACA-----ACACAAUCGAUACCCGUUCCCCAGGCAUCGAAGCCAUUG
(((....(((((((...(((((....))))).))).))))......))).(((((((..(((((((......))).-----.)))).(((((.((.(.....).)).)))))))))))). ( -25.00)
>DroYak_CAF1 67799 120 + 1
GAAUUUAGAGUCAUUAGCUAUUUAUAAAUAGAGUGCAUUCCCACUUUCGGAAUAGCUAAUGAGCUAAAACAAUACACUGCUACACCGAGUAUACCCGCUCCCCAGUCAUCGAAGCCAUUU
((.(((((..(((((((((((((......((((((......))))))..))))))))))))).))))).......((((.......((((......))))..))))..)).......... ( -26.60)
>consensus
UGACUUAGAGUCAUUAGCUAUUUAUAAAUAGAGUGCAUUCCCACUUUCGGAAUAGCUAAUGGGGUAAAACAAUACAC_________AAAUAUAACCGCUCCCCAGGCAUCGAAGCCAUUU
..........(((((((((((((......((((((......))))))..)))))))))))))..........................................(((......))).... (-20.52 = -20.68 +   0.16)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:39 2006