Locus 6877

Sequence ID 2L_DroMel_CAF1
Location 19,236,743 – 19,236,885
Length 142
Max. P 0.697781
window10959 window10960

overview

Window 9

Location 19,236,743 – 19,236,861
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.61
Mean single sequence MFE -30.65
Consensus MFE -26.74
Energy contribution -26.79
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -1.43
Structure conservation index 0.87
SVM decision value 0.21
SVM RNA-class probability 0.636204
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19236743 118 + 22407834
GCAGUGCAAA-AUUUAUGGCAACAUUUAUGUGUCGUGUCGCGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCACUCACAC-ACAC
(.((((((..-((..(((....)))..))..(((((.....((((((........((((.....))))......)))))).....)))))..............)))))))....-.... ( -30.24)
>DroVir_CAF1 69103 119 + 1
GCAGUGCUAA-AUUUAUGGCAACAUUUAUGUGUCGUGUCGCGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGUACACACCCCACCG
....(((((.-.....)))))........(((..((((.(((((.(.(((.((((((((.....))))......((.(((.....)))))..)))).)))).)))))..))))..))).. ( -28.70)
>DroGri_CAF1 72871 120 + 1
CCAGUGCUAAAAUUUAUGGCAACAUUUAUGUGUCGUGUCGCGUGCGCGGUAAAUACCGGAAAUACCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCGUCAUGCACACAAGCCAACC
................((((.((((....)))).((((.(((((.(((((.((((((((.....))))......((.(((.....)))))..)))).))))))))))))))..))))... ( -34.80)
>DroSec_CAF1 56608 116 + 1
GCAGUGCAAA-AUUUAUGGCAACAUUUAUGUGUCGUGUCGCGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCACUCACAC-A--C
(.((((((..-((..(((....)))..))..(((((.....((((((........((((.....))))......)))))).....)))))..............)))))))....-.--. ( -30.24)
>DroMoj_CAF1 81076 119 + 1
GCAGUGCUAA-AUUUAUGGCAACAUUUAUGUGUCGUGUCGCGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCACACAGCCCACCC
((..(((((.-.....)))))((((....)))).((((.(((((.(.(((.((((((((.....))))......((.(((.....)))))..)))).)))).))))))))).))...... ( -30.70)
>DroAna_CAF1 107134 112 + 1
GCAGUACAAA-AUUUAUGGCAACAUUUAUGUGUCGUGUCGCGUGCGCGGUAAAUACCGGAAAUACCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCAC-------ACAC
...(.(((..-....(((....))).....))))((((.(((((.(.(((.((((((((.....))))......((.(((.....)))))..)))).)))).)))))))-------)).. ( -29.20)
>consensus
GCAGUGCAAA_AUUUAUGGCAACAUUUAUGUGUCGUGUCGCGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCACACACAC_ACCC
...((((........(((((..((((((((((......)))((((((........((((.....))))......)))))).)))))))..)))))..........))))........... (-26.74 = -26.79 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 19,236,782 – 19,236,885
Length 103
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 77.04
Mean single sequence MFE -20.89
Consensus MFE -16.19
Energy contribution -16.05
Covariance contribution -0.14
Combinations/Pair 1.05
Mean z-score -0.96
Structure conservation index 0.77
SVM decision value 0.34
SVM RNA-class probability 0.697781
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19236782 103 + 22407834
CGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCACUCACAC-ACACA-CACACUCACGCGGGAGUAGA-----ACA
.(((.(.(((.....((((.....))))...((.(((((((((((......)))))).......))))))))).)-.).))-)..((((......))))...-----... ( -21.41)
>DroVir_CAF1 69142 92 + 1
CGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGUACACACCCCACCGGUCCCCCCGUCC------------------
.(((.(.(((.....((((.....))))......(((((((((((......)))))).......)))))..)))))))(((.....)))...------------------ ( -18.61)
>DroGri_CAF1 72911 92 + 1
CGUGCGCGGUAAAUACCGGAAAUACCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCGUCAUGCACACAAGCCAACCAUCUUCCCACCC------------------
.(((((((.(.....((((.....)))).....).))).......((((((........)))))))))).......................------------------ ( -21.40)
>DroEre_CAF1 56296 103 + 1
CGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCACUCUCAC-ACACA-CACUACCAACCGGGAGUAGA-----ACA
.(((.(.(.......((((.....))))...((((((((((((((......)))))).......)))))).)).)-.).))-)(((.((....)).)))...-----... ( -21.61)
>DroMoj_CAF1 81115 92 + 1
CGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCACACAGCCCACCCACCACGCCCACG------------------
((((.(((.......((((.....))))......(((((((((((......)))))).......)))))...............))).))))------------------ ( -22.01)
>DroAna_CAF1 107173 102 + 1
CGUGCGCGGUAAAUACCGGAAAUACCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCAC-------ACACA-UCCAUUCGGCGGAGAGUAGAACAGAACA
.(((.(((.......((((.....))))......(((..((((((......))))))...))).))).)-------))...-((.((((......)))).))........ ( -20.30)
>consensus
CGUGCGCGGUAAAUACCGGAAAUGCCGGAAAGAAGUGCAUAAUAAAUGACGUUAUUAACCCACAUGCACACACAC_ACACA_CACACCCACC__________________
.(((((.(((.((((((((.....))))......((.(((.....)))))..)))).)))....)))))......................................... (-16.19 = -16.05 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:51 2006