Locus 6006

Sequence ID 2R_DroMel_CAF1
Location 18,865,225 – 18,865,324
Length 99
Max. P 0.816220
window9633 window9634

overview

Window 3

Location 18,865,225 – 18,865,324
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.69
Mean single sequence MFE -22.11
Consensus MFE -15.78
Energy contribution -16.78
Covariance contribution 1.00
Combinations/Pair 1.21
Mean z-score -1.50
Structure conservation index 0.71
SVM decision value 0.37
SVM RNA-class probability 0.709702
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18865225 99 + 20766785
---------------------UGUCGGAUAUCAAAACCGAAUAUCUUAGAAAGCAACCGUUUCAAAUUUCAUCUGAAGCAAACAGUCUAGAUUCUGCUUUUGAUAUCCUGCAAAUUGUCC
---------------------(((.(((((((((((.((...((((.(((........((((((.........))))))......)))))))..)).))))))))))).)))........ ( -24.24)
>DroSec_CAF1 40645 99 + 1
---------------------UGUCGGAUAUCAAAGCCGAAUUUCUUAGAAAGCAACCUUUUCAAAUUCCAUCUGAAGAAAAUAGUCUGGAUUCUGCUUUUGAUAUCCUGCAAAUUGUCC
---------------------(((.((((((((((((.(((((...((((........((((((.........))))))......))))))))).)).)))))))))).)))........ ( -24.84)
>DroSim_CAF1 40062 99 + 1
---------------------UGUCGGAUAUCAAAGCCGAAUUUCUUAGAAAGCAACCUUUUUAAAUUCCAUCUGAAGCAAACAGUCUAGAUUCUGCUUUUGAUAUCCUGCAAAUUGUCC
---------------------(((.((((((((((((.((((((.((((((((....)))))))).......(((.......)))...)))))).)).)))))))))).)))........ ( -25.70)
>DroEre_CAF1 42958 119 + 1
AUAAAAUGUCUCG-UUUCGUUGGUCGGAUAUCAAAGCCAAAUAUUUUAGAAAGCAACCGUGUCAUAUUCCAUCUGAAGCUAUCAGUCUAGACUCAGCCGUCGAUAUCCUGUAAUUUCAUC
.((((((((....-.....(((((..(....)...)))))))))))))(((((((...(((((.........((((.....))))....(((......))))))))..)))..))))... ( -17.00)
>DroYak_CAF1 42147 120 + 1
ACAAAAUGUCUCGGUUUCGUUUGUCGGAUAUCAAAGCCAAAUAUUUUAGAAAGCAACCGUGUCAUAUUCCAUCUGAAGCUAUCAGUCUAGACUCAGCCGUUGAUAUCCUGUAAUUUGUCC
(((..(((((.(((((..(((((...(((((....((...............))....))))).........((((.....))))..)))))..)))))..)))))..)))......... ( -18.76)
>consensus
_____________________UGUCGGAUAUCAAAGCCGAAUAUCUUAGAAAGCAACCGUUUCAAAUUCCAUCUGAAGCAAACAGUCUAGAUUCUGCUUUUGAUAUCCUGCAAAUUGUCC
.....................((..((((((((((((.((((...(((((........((((((.........))))))......))))))))).).)))))))))))..))........ (-15.78 = -16.78 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,865,225 – 18,865,324
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.69
Mean single sequence MFE -25.76
Consensus MFE -19.74
Energy contribution -18.94
Covariance contribution -0.80
Combinations/Pair 1.22
Mean z-score -1.50
Structure conservation index 0.77
SVM decision value 0.66
SVM RNA-class probability 0.816220
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18865225 99 - 20766785
GGACAAUUUGCAGGAUAUCAAAAGCAGAAUCUAGACUGUUUGCUUCAGAUGAAAUUUGAAACGGUUGCUUUCUAAGAUAUUCGGUUUUGAUAUCCGACA---------------------
........((..(((((((((((.(((((....(((((((....((((((...)))))))))))))...))))..(.....)).)))))))))))..))--------------------- ( -25.80)
>DroSec_CAF1 40645 99 - 1
GGACAAUUUGCAGGAUAUCAAAAGCAGAAUCCAGACUAUUUUCUUCAGAUGGAAUUUGAAAAGGUUGCUUUCUAAGAAAUUCGGCUUUGAUAUCCGACA---------------------
........((..((((((((((.((.((((..........(((((.(((.(((((((....))))).)).)))))))))))).))))))))))))..))--------------------- ( -25.50)
>DroSim_CAF1 40062 99 - 1
GGACAAUUUGCAGGAUAUCAAAAGCAGAAUCUAGACUGUUUGCUUCAGAUGGAAUUUAAAAAGGUUGCUUUCUAAGAAAUUCGGCUUUGAUAUCCGACA---------------------
........((..((((((((((.((.(((((((..(((.......))).)))).((((.((((....)))).))))...))).))))))))))))..))--------------------- ( -23.60)
>DroEre_CAF1 42958 119 - 1
GAUGAAAUUACAGGAUAUCGACGGCUGAGUCUAGACUGAUAGCUUCAGAUGGAAUAUGACACGGUUGCUUUCUAAAAUAUUUGGCUUUGAUAUCCGACCAACGAAA-CGAGACAUUUUAU
............(((((((((.(((..(((.....((((.....)))).(((((..((((...))))..)))))....)))..))))))))))))...........-............. ( -26.00)
>DroYak_CAF1 42147 120 - 1
GGACAAAUUACAGGAUAUCAACGGCUGAGUCUAGACUGAUAGCUUCAGAUGGAAUAUGACACGGUUGCUUUCUAAAAUAUUUGGCUUUGAUAUCCGACAAACGAAACCGAGACAUUUUGU
..(((((.....(((((((((.(((..(((.....((((.....)))).(((((..((((...))))..)))))....)))..))))))))))))......((....))......))))) ( -27.90)
>consensus
GGACAAUUUGCAGGAUAUCAAAAGCAGAAUCUAGACUGUUUGCUUCAGAUGGAAUUUGAAACGGUUGCUUUCUAAGAUAUUCGGCUUUGAUAUCCGACA_____________________
............(((((((((.(((.((((.....(((.......))).(((((..(((.....)))..)))))....)))).))))))))))))......................... (-19.74 = -18.94 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:15 2006