Locus 928

Sequence ID 3R_DroMel_CAF1
Location 3,115,955 – 3,116,057
Length 102
Max. P 0.968280
window1467 window1468

overview

Window 7

Location 3,115,955 – 3,116,057
Length 102
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 87.09
Mean single sequence MFE -31.35
Consensus MFE -22.16
Energy contribution -24.23
Covariance contribution 2.06
Combinations/Pair 1.04
Mean z-score -3.45
Structure conservation index 0.71
SVM decision value 1.62
SVM RNA-class probability 0.968280
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3115955 102 + 27905053
AAAAAAUGCGCAGUGUGGGUAAUUAAAAAAGUAGCAGCAGCCGCUUUUGAGCGUAGAAACGCACUAAUUUUCAGUAGUGCAUC--------ACA--CACCCACCCAUGCAGA
.........(((..((((((......(((((..((....))..)))))............((((((........))))))...--------...--.))))))...)))... ( -28.90)
>DroSec_CAF1 3660 110 + 1
AAAAAAUGCGCAGUGUGGGUAAUUAAAAAAGUAGCAGCAGCCGCUUUUGAGCGUAGAAACGCACUAAUUUUCAGUAGUGCAGCUCACCCAUACA--CACACACACAUGCAGA
.........(((((((((((......(((((..((....))..)))))((((((....))((((((........)))))).)))))))))))).--..........)))... ( -33.70)
>DroSim_CAF1 8982 112 + 1
AAAAAAUGCGCAGUGUGGGUAAUUAAAAAAGUAGCAGCAGCCGCUUUUGAGCGUAGAAACGCACUAAUUUUCAGUAGUGCAGCUCACCCACAAAUACACACACCCCUACAGA
.............(((((((......(((((..((....))..)))))((((((....))((((((........)))))).))))))))))).................... ( -31.90)
>DroYak_CAF1 7181 100 + 1
AAAAAAUGCGAAGUGUGGGUAAUUAAAAAAGUAGCAGCAGCCGCUUUUGAGCGUAGAAACGCACUAAUUUCCAGUAGUGCAGCUCACACACAC------------AUGCAGA
......((((..(((((.((......(((((..((....))..)))))((((((....))((((((........)))))).)))))).)))))------------.)))).. ( -30.90)
>consensus
AAAAAAUGCGCAGUGUGGGUAAUUAAAAAAGUAGCAGCAGCCGCUUUUGAGCGUAGAAACGCACUAAUUUUCAGUAGUGCAGCUCACCCACACA__CACACACCCAUGCAGA
............((((((((......(((((..((....))..)))))((((((....))((((((........)))))).))))................))))))))... (-22.16 = -24.23 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,115,955 – 3,116,057
Length 102
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 87.09
Mean single sequence MFE -35.17
Consensus MFE -21.38
Energy contribution -25.12
Covariance contribution 3.75
Combinations/Pair 1.00
Mean z-score -3.51
Structure conservation index 0.61
SVM decision value 0.65
SVM RNA-class probability 0.811603
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3115955 102 - 27905053
UCUGCAUGGGUGGGUG--UGU--------GAUGCACUACUGAAAAUUAGUGCGUUUCUACGCUCAAAAGCGGCUGCUGCUACUUUUUUAAUUACCCACACUGCGCAUUUUUU
...(((((((((((((--((.--------(((((((((.(....).)))))))))..)))))))(((((..((....))..)))))......)))))...)))......... ( -35.80)
>DroSec_CAF1 3660 110 - 1
UCUGCAUGUGUGUGUG--UGUAUGGGUGAGCUGCACUACUGAAAAUUAGUGCGUUUCUACGCUCAAAAGCGGCUGCUGCUACUUUUUUAAUUACCCACACUGCGCAUUUUUU
.......(((((((.(--(((..((((((((.((((((.(....).))))))((....))))))(((((..((....))..)))))......)))))))))))))))..... ( -35.90)
>DroSim_CAF1 8982 112 - 1
UCUGUAGGGGUGUGUGUAUUUGUGGGUGAGCUGCACUACUGAAAAUUAGUGCGUUUCUACGCUCAAAAGCGGCUGCUGCUACUUUUUUAAUUACCCACACUGCGCAUUUUUU
...........(((((((..(((((((((((.((((((.(....).))))))((....))))))(((((..((....))..)))))......))))))).)))))))..... ( -38.40)
>DroYak_CAF1 7181 100 - 1
UCUGCAU------------GUGUGUGUGAGCUGCACUACUGGAAAUUAGUGCGUUUCUACGCUCAAAAGCGGCUGCUGCUACUUUUUUAAUUACCCACACUUCGCAUUUUUU
..(((..------------(((((.((((((.((((((.(....).))))))((....))))))(((((..((....))..)))))......)).)))))...)))...... ( -30.60)
>consensus
UCUGCAUGGGUGUGUG__UGUGUGGGUGAGCUGCACUACUGAAAAUUAGUGCGUUUCUACGCUCAAAAGCGGCUGCUGCUACUUUUUUAAUUACCCACACUGCGCAUUUUUU
.............(((...((((((((((((.((((((.(....).))))))((....))))))(((((..((....))..)))))......))))))))..)))....... (-21.38 = -25.12 +   3.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:35 2006