Locus 3106

Sequence ID 2R_DroMel_CAF1
Location 10,622,420 – 10,622,530
Length 110
Max. P 0.932481
window5125 window5126

overview

Window 5

Location 10,622,420 – 10,622,530
Length 110
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.18
Mean single sequence MFE -30.58
Consensus MFE -19.52
Energy contribution -20.55
Covariance contribution 1.03
Combinations/Pair 1.14
Mean z-score -1.82
Structure conservation index 0.64
SVM decision value 0.32
SVM RNA-class probability 0.685549
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10622420 110 + 20766785
AUCGUAUCCGUUUGCGUAAAAUUUUCAUUAAAUGUACACCCUUGUCUGGCCCAAGGGUGACUGGC--GGUAAGGAAUAUUUCUUCCUGGCACACAA-AACGGACAGGUUUUUG-------
(((...(((((((..((................((.((((((((.......))))))))))((.(--((.(((((....))))).))).)).)).)-))))))..))).....------- ( -29.70)
>DroSec_CAF1 64623 110 + 1
AUCGUAUCCGUUUGCGCAAAAUUUUCAUUAAAUGUACACCCUUGUCUGGCCCAAGGGUGACUGGC--GGUAAGGAAUAUUUCUUCCUGGCACACAA-AACGGACAGGUUUUUG-------
(((...(((((((.(((...((((.....))))((.((((((((.......))))))))))..))--)((.(((((......))))).)).....)-))))))..))).....------- ( -30.80)
>DroSim_CAF1 65204 110 + 1
AUCGUAUCCGUUUGCGCAAAAUUUUCAUUAAAUGUACACCCUUGUCUGGCCCAAGGGUGACUGGC--GGUAAGGAAUAUUUCUUCCUGGCACACAA-AACGGACAGGUUUUUG-------
(((...(((((((.(((...((((.....))))((.((((((((.......))))))))))..))--)((.(((((......))))).)).....)-))))))..))).....------- ( -30.80)
>DroEre_CAF1 64911 109 + 1
AUCAUAUCCGUUUGCGCAAAAUUUUCAUUAAAUGUACACCCUUGUCUCGCCUAAGGGUAACUGGC--GGU-AGGAAUAUUUCCUCCUGGCAAACAA-AACGGACAGGUUUUGG-------
......(((((((........................(((((((.......)))))))...((.(--((.-((((.....)))).))).))....)-))))))..........------- ( -25.50)
>DroYak_CAF1 71843 113 + 1
AUCGCAUCCGUUUUCGCAAAAUUUUCAUUAAAUGUACACCCUUGUCUCGCCUAAGGGUGACUGCUAAGGUAAGGAACAUUUCUUCCUGGCCCACAAAAACGGACAGGUAUUCG-------
(((...((((((((.(((..((((.....))))((.((((((((.......)))))))))))))...(((.(((((......))))).)))....))))))))..))).....------- ( -30.80)
>DroAna_CAF1 98650 101 + 1
----UGGCCGUUUUCGUGAAAUUUUCAUUAAAUUUA--CCCUUGUCUUUGACAGGGGUGGCUGAA--AGUAAGA---AUGUCUUCCAG----CGAA-AACGGC---AUUUUGGCCAAAAA
----..(((((((((((((.....))))......((--((((((((...))))))))))((((.(--((.....---....))).)))----))))-))))))---.............. ( -35.90)
>consensus
AUCGUAUCCGUUUGCGCAAAAUUUUCAUUAAAUGUACACCCUUGUCUGGCCCAAGGGUGACUGGC__GGUAAGGAAUAUUUCUUCCUGGCACACAA_AACGGACAGGUUUUUG_______
......((((((........................((((((((.......)))))))).........((.(((((......))))).)).......))))))................. (-19.52 = -20.55 +   1.03)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,622,420 – 10,622,530
Length 110
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.18
Mean single sequence MFE -33.65
Consensus MFE -21.19
Energy contribution -23.53
Covariance contribution 2.34
Combinations/Pair 1.21
Mean z-score -3.00
Structure conservation index 0.63
SVM decision value 1.22
SVM RNA-class probability 0.932481
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10622420 110 - 20766785
-------CAAAAACCUGUCCGUU-UUGUGUGCCAGGAAGAAAUAUUCCUUACC--GCCAGUCACCCUUGGGCCAGACAAGGGUGUACAUUUAAUGAAAAUUUUACGCAAACGGAUACGAU
-------......(.((((((((-(.(((((..(((((......)))))....--....((((((((((.......)))))))).))...............)))))))))))))).).. ( -35.50)
>DroSec_CAF1 64623 110 - 1
-------CAAAAACCUGUCCGUU-UUGUGUGCCAGGAAGAAAUAUUCCUUACC--GCCAGUCACCCUUGGGCCAGACAAGGGUGUACAUUUAAUGAAAAUUUUGCGCAAACGGAUACGAU
-------......(.((((((((-(.((((((.(((((......)))))....--))..((((((((((.......)))))))).))................))))))))))))).).. ( -35.30)
>DroSim_CAF1 65204 110 - 1
-------CAAAAACCUGUCCGUU-UUGUGUGCCAGGAAGAAAUAUUCCUUACC--GCCAGUCACCCUUGGGCCAGACAAGGGUGUACAUUUAAUGAAAAUUUUGCGCAAACGGAUACGAU
-------......(.((((((((-(.((((((.(((((......)))))....--))..((((((((((.......)))))))).))................))))))))))))).).. ( -35.30)
>DroEre_CAF1 64911 109 - 1
-------CCAAAACCUGUCCGUU-UUGUUUGCCAGGAGGAAAUAUUCCU-ACC--GCCAGUUACCCUUAGGCGAGACAAGGGUGUACAUUUAAUGAAAAUUUUGCGCAAACGGAUAUGAU
-------......(.((((((((-(.........((((((.....))))-.))--(((((((((((((.(......)))))))).))....(((....))).)).))))))))))).).. ( -28.30)
>DroYak_CAF1 71843 113 - 1
-------CGAAUACCUGUCCGUUUUUGUGGGCCAGGAAGAAAUGUUCCUUACCUUAGCAGUCACCCUUAGGCGAGACAAGGGUGUACAUUUAAUGAAAAUUUUGCGAAAACGGAUGCGAU
-------.........(((((((((((((((..(((((......)))))..))).....(((((((((.(......)))))))).))................))))))))))))..... ( -34.50)
>DroAna_CAF1 98650 101 - 1
UUUUUGGCCAAAAU---GCCGUU-UUCG----CUGGAAGACAU---UCUUACU--UUCAGCCACCCCUGUCAAAGACAAGGG--UAAAUUUAAUGAAAAUUUCACGAAAACGGCCA----
..............---((((((-((((----(((((((....---.....))--)))))).((((.((((...)))).)))--)....................)))))))))..---- ( -33.00)
>consensus
_______CAAAAACCUGUCCGUU_UUGUGUGCCAGGAAGAAAUAUUCCUUACC__GCCAGUCACCCUUGGGCCAGACAAGGGUGUACAUUUAAUGAAAAUUUUGCGCAAACGGAUACGAU
...............((((((((..(((((...(((((......)))))..........((((((((((.......)))))))).))................))))))))))))).... (-21.19 = -23.53 +   2.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:40 2006