Locus 3202

Sequence ID 2R_DroMel_CAF1
Location 10,954,024 – 10,954,115
Length 91
Max. P 0.988823
window5264 window5265

overview

Window 4

Location 10,954,024 – 10,954,115
Length 91
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 79.73
Mean single sequence MFE -28.55
Consensus MFE -22.83
Energy contribution -22.95
Covariance contribution 0.12
Combinations/Pair 1.15
Mean z-score -2.36
Structure conservation index 0.80
SVM decision value 2.14
SVM RNA-class probability 0.988823
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10954024 91 + 20766785
UUGCUG-------------------CCAAAGUCUCAGGGAUGUUCGUACAUCACAGAACCAAUUUUUUUUGUUGGUUCUACCAACUAUGACAGUGGCUGGGACUUUGCCU
.....(-------------------.(((((((((((.(((((....)))))..(((((((((.......))))))))).(((.((.....)))))))))))))))).). ( -32.60)
>DroSec_CAF1 66531 89 + 1
UUGCUG-------------------CCAAAGUCUUAGGGAUGUUCGUACAUCACAGAACCAAUUU-UUUUGUUGGUCUUACCAACUAUGACAGUGGCUGGGACU-UGCCU
.....(-------------------(..(((((((((.(((((....)))))......(((....-....(((((.....)))))........)))))))))))-))).. ( -24.99)
>DroSim_CAF1 68786 89 + 1
UUGCUG-------------------CCAAAGUCUCAGGGAUGUUCGUACAUCACAGAACCAAUUU-UUUUGUUGGUCCUACCAACUAUGACAGUGGCUGGGACU-UGCCU
.....(-------------------(..(((((((((.(((((....)))))......(((....-....(((((.....)))))........)))))))))))-))).. ( -27.09)
>DroEre_CAF1 68646 106 + 1
AGGG--UCUUGUUACAAAGGCAAAGCCAAAGUCUCAGGCAUGCUCGUACAUCAGGGAACCAAUUU-UUUCGUUAAUUCCACCAACGAUGGCAGUGACUGGGACU-UGCCU
..((--..(((((.....)))))..)).(((((((((.(((((.(((.......((((..(((..-....)))..)))).......)))))).)).))))))))-).... ( -29.54)
>consensus
UUGCUG___________________CCAAAGUCUCAGGGAUGUUCGUACAUCACAGAACCAAUUU_UUUUGUUGGUCCUACCAACUAUGACAGUGGCUGGGACU_UGCCU
..........................((.((((((((...(((.((((......(((((((((.......)))))))))......)))))))....)))))))).))... (-22.83 = -22.95 +   0.12)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 10,954,024 – 10,954,115
Length 91
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 79.73
Mean single sequence MFE -27.20
Consensus MFE -17.19
Energy contribution -17.00
Covariance contribution -0.19
Combinations/Pair 1.22
Mean z-score -2.26
Structure conservation index 0.63
SVM decision value 1.27
SVM RNA-class probability 0.937974
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10954024 91 - 20766785
AGGCAAAGUCCCAGCCACUGUCAUAGUUGGUAGAACCAACAAAAAAAAUUGGUUCUGUGAUGUACGAACAUCCCUGAGACUUUGG-------------------CAGCAA
.(.(((((((.(((((((((...))).)))(((((((((.........))))))))).(((((....))))).))).))))))).-------------------)..... ( -28.10)
>DroSec_CAF1 66531 89 - 1
AGGCA-AGUCCCAGCCACUGUCAUAGUUGGUAAGACCAACAAAA-AAAUUGGUUCUGUGAUGUACGAACAUCCCUAAGACUUUGG-------------------CAGCAA
.(((.-.......))).((((((.((((((((..(((((.....-...)))))..)).(((((....)))))))...)))).)))-------------------)))... ( -23.70)
>DroSim_CAF1 68786 89 - 1
AGGCA-AGUCCCAGCCACUGUCAUAGUUGGUAGGACCAACAAAA-AAAUUGGUUCUGUGAUGUACGAACAUCCCUGAGACUUUGG-------------------CAGCAA
.(((.-.......))).((((((.(((((((((((((((.....-...))))))))).(((((....)))))))...)))).)))-------------------)))... ( -28.40)
>DroEre_CAF1 68646 106 - 1
AGGCA-AGUCCCAGUCACUGCCAUCGUUGGUGGAAUUAACGAAA-AAAUUGGUUCCCUGAUGUACGAGCAUGCCUGAGACUUUGGCUUUGCCUUUGUAACAAGA--CCCU
(((((-((((.(((.((.((((..(((..(.((((((((.....-...)))))))))..)))...).))))).))).)))).......)))))...........--.... ( -28.61)
>consensus
AGGCA_AGUCCCAGCCACUGUCAUAGUUGGUAGAACCAACAAAA_AAAUUGGUUCUGUGAUGUACGAACAUCCCUGAGACUUUGG___________________CAGCAA
...((.((((.(((................(((((((((.........))))))))).(((((....))))).))).)))).)).......................... (-17.19 = -17.00 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:53 2006