Locus 4152

Sequence ID 2L_DroMel_CAF1
Location 11,953,387 – 11,953,500
Length 113
Max. P 0.979494
window6546 window6547

overview

Window 6

Location 11,953,387 – 11,953,500
Length 113
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.06
Mean single sequence MFE -33.77
Consensus MFE -26.24
Energy contribution -26.10
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -3.12
Structure conservation index 0.78
SVM decision value 1.46
SVM RNA-class probability 0.955770
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11953387 113 + 22407834
AUUUCGUUUCAUUUUGGAUGUUUUAUUCUCGCACCAUAGAUGCCACUAAGAGAUCACGGGUUGUAUAAAAAUUACCCCGUGAAUUCUUCCAGUGCCAUUAACUGUGCCGAGAU-------
..........................((((((((....((((.(((((((((.(((((((..(((.......)))))))))).)))))..)))).))))....))).))))).------- ( -33.10)
>DroVir_CAF1 156887 106 + 1
------------GUUGUACGUAAUAU-CCCGCACCAUAGAUGCCACUAAGAGAUCACGGGC-GUGUUAUAAAAACCCCGUGAAUUCUUCCAGUGCCAUUAACUGUGCCGAGAUGCAGAGC
------------...........(((-((.((((....((((.(((((((((.(((((((.-((.........))))))))).)))))..)))).))))....)))).).))))...... ( -32.00)
>DroGri_CAF1 156051 106 + 1
------------UCUGCACGUAAUAU-CCCGCACCAUAGAUGCCACUAAGAGAUCACGGGC-GUGUUAAAAUAACCCCGUGAAUUCUUCCAGUGCCAUUAACUGUGCCGAGAUGCAGAAC
------------((((((.......(-((.((((....((((.(((((((((.(((((((.-((.........))))))))).)))))..)))).))))....)))).).)))))))).. ( -36.41)
>DroSec_CAF1 172722 113 + 1
AUUUCGUUUCACUUUGGAUGUUUUAUUCUCGCACCAUAGAUGCCACUAAGAGAUCACGGGUUGUAUAAAAAUUACCCCGUGAAUUCUUCCAGUGCCAUUAACUGUGUCGAGAU-------
..........................((((((((....((((.(((((((((.(((((((..(((.......)))))))))).)))))..)))).))))....))).))))).------- ( -33.10)
>DroEre_CAF1 147731 112 + 1
AUUUCGUUUCAU-UCGGAUGUUUUAUUCUCGCACCAUAGAUGCCACUAAGAGAUCACGGGUUGUAUCAAAAGUACCCCGUGAAUUCUUCCAGUGCCAUUAACUGUGCCGAGAU-------
..((((......-.))))........((((((((....((((.(((((((((.(((((((..((((.....))))))))))).)))))..)))).))))....))).))))).------- ( -35.00)
>DroMoj_CAF1 165410 106 + 1
------------GUUGAACGUAAUAU-CCCGCACCAUAGAUGCCACUAAGAGAUCACGGGC-GUGUUAGAAAAACCCCGUGAAUUCUUCCAGUGCCAUUAACUGUGCCGAGAUGCGAAAC
------------......(((...((-((.((((....((((.(((((((((.(((((((.-((.........))))))))).)))))..)))).))))....)))).).)))))).... ( -33.00)
>consensus
____________UUUGGACGUAAUAU_CCCGCACCAUAGAUGCCACUAAGAGAUCACGGGC_GUAUUAAAAUAACCCCGUGAAUUCUUCCAGUGCCAUUAACUGUGCCGAGAU_______
..............................((((....((((.(((((((((.(((((((..((.........))))))))).)))))..)))).))))....))))............. (-26.24 = -26.10 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 11,953,387 – 11,953,500
Length 113
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.06
Mean single sequence MFE -37.05
Consensus MFE -33.21
Energy contribution -32.96
Covariance contribution -0.25
Combinations/Pair 1.04
Mean z-score -3.34
Structure conservation index 0.90
SVM decision value 1.84
SVM RNA-class probability 0.979494
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11953387 113 - 22407834
-------AUCUCGGCACAGUUAAUGGCACUGGAAGAAUUCACGGGGUAAUUUUUAUACAACCCGUGAUCUCUUAGUGGCAUCUAUGGUGCGAGAAUAAAACAUCCAAAAUGAAACGAAAU
-------.(((((.(((.((..(((.(((((..(((..(((((((...............))))))))))..))))).)))..)).)))))))).......................... ( -36.26)
>DroVir_CAF1 156887 106 - 1
GCUCUGCAUCUCGGCACAGUUAAUGGCACUGGAAGAAUUCACGGGGUUUUUAUAACAC-GCCCGUGAUCUCUUAGUGGCAUCUAUGGUGCGGG-AUAUUACGUACAAC------------
.......((((((.(((.((..(((.(((((..(((..(((((((((.........))-.))))))))))..))))).)))..)).)))))))-))............------------ ( -36.30)
>DroGri_CAF1 156051 106 - 1
GUUCUGCAUCUCGGCACAGUUAAUGGCACUGGAAGAAUUCACGGGGUUAUUUUAACAC-GCCCGUGAUCUCUUAGUGGCAUCUAUGGUGCGGG-AUAUUACGUGCAGA------------
..(((((((((((.(((.((..(((.(((((..(((..(((((((((.........))-.))))))))))..))))).)))..)).)))))))-).......))))))------------ ( -40.91)
>DroSec_CAF1 172722 113 - 1
-------AUCUCGACACAGUUAAUGGCACUGGAAGAAUUCACGGGGUAAUUUUUAUACAACCCGUGAUCUCUUAGUGGCAUCUAUGGUGCGAGAAUAAAACAUCCAAAGUGAAACGAAAU
-------.(((((.(((.((..(((.(((((..(((..(((((((...............))))))))))..))))).)))..)).)))))))).......................... ( -36.26)
>DroEre_CAF1 147731 112 - 1
-------AUCUCGGCACAGUUAAUGGCACUGGAAGAAUUCACGGGGUACUUUUGAUACAACCCGUGAUCUCUUAGUGGCAUCUAUGGUGCGAGAAUAAAACAUCCGA-AUGAAACGAAAU
-------.(((((.(((.((..(((.(((((..(((..(((((((((((....).)))..))))))))))..))))).)))..)).)))))))).............-............ ( -36.30)
>DroMoj_CAF1 165410 106 - 1
GUUUCGCAUCUCGGCACAGUUAAUGGCACUGGAAGAAUUCACGGGGUUUUUCUAACAC-GCCCGUGAUCUCUUAGUGGCAUCUAUGGUGCGGG-AUAUUACGUUCAAC------------
.......((((((.(((.((..(((.(((((..(((..(((((((((.........))-.))))))))))..))))).)))..)).)))))))-))............------------ ( -36.30)
>consensus
_______AUCUCGGCACAGUUAAUGGCACUGGAAGAAUUCACGGGGUAAUUUUAACAC_ACCCGUGAUCUCUUAGUGGCAUCUAUGGUGCGAG_AUAAAACAUCCAAA____________
.........((((.(((.((..(((.(((((..(((..(((((((...............))))))))))..))))).)))..)).)))))))........................... (-33.21 = -32.96 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:49 2006