Locus 2941

Sequence ID 3R_DroMel_CAF1
Location 7,871,534 – 7,871,685
Length 151
Max. P 0.905154
window4734 window4735

overview

Window 4

Location 7,871,534 – 7,871,651
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.75
Mean single sequence MFE -38.13
Consensus MFE -28.62
Energy contribution -29.10
Covariance contribution 0.48
Combinations/Pair 1.33
Mean z-score -3.21
Structure conservation index 0.75
SVM decision value 0.86
SVM RNA-class probability 0.868312
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7871534 117 + 27905053
--UUGAG-GUGGAGGGAACGAUUGCCUGGGUUUUCCGAAAUUAACAAGACAUUUAUGCGGACACACACACAAAGGUGUGUCUCCGGCAAUCGUAUUCCCAUCUUCUUCAUCAUCAACAAA
--.((((-(.((((((((((((((((..((....))......................(((.((((((......)))))).))))))))))))..)))).))).)))))........... ( -42.80)
>DroSec_CAF1 3327 116 + 1
--UUGA--GUGGAGGGAACGAUUGCCUGGGUUUUCUGGAAUUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUCCGGCAAUCGUAUUCCCAUCUUCUUCAUCAUCAACAAA
--.(((--(.(((((((((((((((((((((.(..((.......))..).)))))...((((((((((......)))))))))))))))))))..)))).)))..))))........... ( -43.70)
>DroSim_CAF1 3334 116 + 1
--UUGA--GUGGAGGGAACGAUUGCCUGGGUUUUCUGGAAUUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUCCGGCAAACGUAUUCCCAUCUUCUUCAUCAUCAACAAA
--.(((--(.((((((((((.((((((((((.(..((.......))..).)))))...((((((((((......))))))))))))))).)))..)))).)))..))))........... ( -39.10)
>DroEre_CAF1 3386 116 + 1
--UUGA--GUGGAGGCAACGAUUGCCUGGGUUUUCAGAAAUUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUCCGGCAAUCGUAUACCCAUCUUGUUCGUCAUCAACAAA
--..((--((((.(...(((((((((...(((((...........)))))........((((((((((......)))))))))))))))))))...)))).)))................ ( -38.50)
>DroYak_CAF1 3343 116 + 1
--UUGA--GUGGAGGCAACGAUUGCCUGGGUUUUCAGAAAUUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUUCGACAAUCGUAUCCCCAUCUUGUUCAUCAUCAACAAA
--..((--((((.((..(((((((.((((....))))....................(((((((((((......))))))))))).)))))))..))))).)))................ ( -33.80)
>DroAna_CAF1 801 110 + 1
GUCUGAGAAUGGA---UAUGCUGGCUUAGGGUUGUAAAAAUUAACAAGACAUUUAUGCAGGGACACACACAAAGGUGUGCUCCUGGAAAUCGUAGCCGCAUCCC-UCCCACAUC------
((..(((...(((---..(((.((((..(..((((........))))..).....(.((((..(((((......)))))..)))).)......)))))))))))-))..))...------ ( -30.90)
>consensus
__UUGA__GUGGAGGGAACGAUUGCCUGGGUUUUCAGAAAUUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUCCGGCAAUCGUAUUCCCAUCUUCUUCAUCAUCAACAAA
........((((.((..(((((((((..(((((....)))))................((((((((((......)))))))))))))))))))..))))))................... (-28.62 = -29.10 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 7,871,571 – 7,871,685
Length 114
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 85.07
Mean single sequence MFE -29.57
Consensus MFE -24.07
Energy contribution -24.13
Covariance contribution 0.06
Combinations/Pair 1.35
Mean z-score -2.72
Structure conservation index 0.81
SVM decision value 1.04
SVM RNA-class probability 0.905154
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7871571 114 + 27905053
UUAACAAGACAUUUAUGCGGACACACACACAAAGGUGUGUCUCCGGCAAUCGUAUUCCCAUCUUCUUCAUCAUCAACAAACUACUGACUUGGCAUAAAUUAGCCGAGUGAAAAA-
...............((((((.((((((......)))))).))).)))....................................(.(((((((........))))))).)....- ( -25.90)
>DroSec_CAF1 3363 114 + 1
UUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUCCGGCAAUCGUAUUCCCAUCUUCUUCAUCAUCAACAAACUACUGUCUUGGCAUAAAUUAGCCGAGUGAAAAA-
...............(((((((((((((......)))))))))).))).................((((......(((......)))((((((........))))))))))...- ( -29.70)
>DroSim_CAF1 3370 114 + 1
UUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUCCGGCAAACGUAUUCCCAUCUUCUUCAUCAUCAACAAACUACUGUCUUGGCAUAAAUUAGCCGAGUGAAAAA-
.....((((.....((((((((((((((......))))))))))(.....))))).....)))).((((......(((......)))((((((........))))))))))...- ( -29.90)
>DroEre_CAF1 3422 114 + 1
UUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUCCGGCAAUCGUAUACCCAUCUUGUUCGUCAUCAACAAACUACUGUCUUGGCAUAAAUUAGCCGAGUGAGACA-
..(((((((....(((((((((((((((......))))))))))(.....))))))....))))))).(((.((((((......)))((((((........)))))))))))).- ( -38.40)
>DroYak_CAF1 3379 115 + 1
UUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUUCGACAAUCGUAUCCCCAUCUUGUUCAUCAUCAACAAACUACUGUCUUGGCAUAAAUUAGCCGAGUGAGAAAG
..(((((((.....((((((((((((((......))))))))))(.....))))).....)))))))................((..((((((........))))))..)).... ( -31.90)
>DroAna_CAF1 838 97 + 1
UUAACAAGACAUUUAUGCAGGGACACACACAAAGGUGUGCUCCUGGAAAUCGUAGCCGCAUCCC-UCCCACAUC--------CCUAUGGCAACAUAAAUUAGCCGG---------
..........(((((((((((..(((((......)))))..)))).........((((......-.........--------....))))..))))))).......--------- ( -21.61)
>consensus
UUAACAAGACAUUUAUGCGGGGACACACACAAAGGUGUGUCUCCGGCAAUCGUAUUCCCAUCUUCUUCAUCAUCAACAAACUACUGUCUUGGCAUAAAUUAGCCGAGUGAAAAA_
.................(((((((((((......)))))))))))..........................................((((((........))))))........ (-24.07 = -24.13 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:20 2006