Locus 6908

Sequence ID 2L_DroMel_CAF1
Location 19,272,019 – 19,272,163
Length 144
Max. P 0.880735
window11007 window11008

overview

Window 7

Location 19,272,019 – 19,272,131
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.18
Mean single sequence MFE -40.02
Consensus MFE -22.13
Energy contribution -23.72
Covariance contribution 1.59
Combinations/Pair 1.21
Mean z-score -2.04
Structure conservation index 0.55
SVM decision value 0.91
SVM RNA-class probability 0.880735
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19272019 112 - 22407834
GUCGGUGGAUGGCGAAGUAUAUGUAC---AUACUACCAACUGGAGGGAACUUGGGUGGCCGGAAGCUGAUUUCAGCGCCUGCCAGCCAACUUAUGUCACUGG-----GACUAGCUGACAG
((((((((.((((..(((((......---)))))....(((.(((....))).)))(((.((..((((....)))).)).))).)))).))...(((.....-----)))..)))))).. ( -39.00)
>DroSec_CAF1 13258 108 - 1
GUCGGUGGAUGGCGAAGGAU----AC---AUACUACCAACUGGAGUGAACUUGGGUGGCCGGAAGCUGAUUUCAGCCCCUGCCAGCCAACUUAUGUCACUGG-----GUCUAGCUGACAG
(((((((((((.(....)..----.)---)).)))))..(((((((((..((((.((((.((..((((....)))).)).)))).))))......))))...-----.)))))..))).. ( -41.10)
>DroSim_CAF1 20140 108 - 1
GUCGGUGGAUGGCGGAGUAU----AC---AUACUACCAACUGGAGUGAACUUGGGUGGCCGGAAGCUGAUUUCAGCGCCUGCCAGCCAACUUAUGUCACUGG-----GACUAGCUGACAG
((((((((.((((((((((.----..---.)))).)).(((.(((....))).)))(((.((..((((....)))).)).))).)))).))...(((.....-----)))..)))))).. ( -40.60)
>DroEre_CAF1 20007 93 - 1
---------------AGUAU----AC---AUACUUCCAGCUGGAGUGAACUCUGGUGGCCGGAAGCUGAUUUCAGCGCCUGCCAGGCAAUUUAUGUCACUGG-----GAGUAGCUGACAG
---------------.((..----..---.((((((((((..(((....)))..)((((.((..((((....)))).)).))))((((.....)))).))))-----)))))....)).. ( -38.40)
>DroYak_CAF1 19279 108 - 1
GUCGGUGGAUGCCGUAGUAU----AC---AUACUACCAACUGGAGUGAGCUCUGGUGGCCGGAAACUGAUUUCAGUGCCUGCCAGGCAACUUAUGUCACUGG-----CACUAGCUGACAG
((((((...((((((((((.----..---.))))))..((..(((....)))..))(((.((..((((....)))).)).))).((((.....))))...))-----))...)))))).. ( -42.40)
>DroAna_CAF1 35474 118 - 1
CUCCGUGGGUCGGGGGUCAUGGGAAUUUAAUGGUUGGAAGCGGAAUGG--CUGGGUGGCCGGAAGCUGAUUUCAGCGGCUGCCAAGCAACUUAUGUCACUGACUUGUAACUUGCUUGAAA
.(((((((.(....).)))))))..(((((.(((((.((((((....(--((.((..(((....((((....)))))))..)).))).((....))..))).))).)))))...))))). ( -38.60)
>consensus
GUCGGUGGAUGGCGAAGUAU____AC___AUACUACCAACUGGAGUGAACUUGGGUGGCCGGAAGCUGAUUUCAGCGCCUGCCAGCCAACUUAUGUCACUGG_____GACUAGCUGACAG
.........((((.........................(((.(((....))).)))(((.((..((((....)))).)).))).)))).....(((((((((.......)))).))))). (-22.13 = -23.72 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 19,272,054 – 19,272,163
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.40
Mean single sequence MFE -38.11
Consensus MFE -15.28
Energy contribution -15.50
Covariance contribution 0.22
Combinations/Pair 1.38
Mean z-score -2.19
Structure conservation index 0.40
SVM decision value 0.73
SVM RNA-class probability 0.834427
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19272054 109 - 22407834
---CGGGUAAAAAAACUACUGGGGAUU-UU----GGGCGGGUCGGUGGAUGGCGAAGUAUAUGUAC---AUACUACCAACUGGAGGGAACUUGGGUGGCCGGAAGCUGAUUUCAGCGCCU
---(.((((.......)))).).....-..----((((.((((((((((((..............)---)).))))).(((.(((....))).)))))))....((((....)))))))) ( -35.34)
>DroSec_CAF1 13293 104 - 1
---CGGGUAAA-AAACUACUGGGGAUU-UU----GGCCGGGUCGGUGGAUGGCGAAGGAU----AC---AUACUACCAACUGGAGUGAACUUGGGUGGCCGGAAGCUGAUUUCAGCCCCU
---..((((..-....))))((((.((-((----((((.....((((((((.(....)..----.)---)).))))).(((.(((....))).)))))))))))((((....)))))))) ( -40.20)
>DroSim_CAF1 20175 105 - 1
---CGGGUAAA-AAACUACUGGGGAUUUUU----GGCCGGGUCGGUGGAUGGCGGAGUAU----AC---AUACUACCAACUGGAGUGAACUUGGGUGGCCGGAAGCUGAUUUCAGCGCCU
---(((.((((-((.((.....)).)))))----).)))((((((((((((.........----.)---)).))))).(((.(((....))).)))))))((..((((....)))).)). ( -36.60)
>DroEre_CAF1 20042 85 - 1
-------CAAA-AAACUACUGGGGAUU-UU----GGCCGG---------------AGUAU----AC---AUACUUCCAGCUGGAGUGAACUCUGGUGGCCGGAAGCUGAUUUCAGCGCCU
-------....-.........(((.((-((----((((((---------------((((.----..---.))))))..((..(((....)))..))))))))))((((....)))).))) ( -33.50)
>DroYak_CAF1 19314 104 - 1
---CGAGCAAA-AAACUACUGCGGAUU-UU----GGCCGGGUCGGUGGAUGCCGUAGUAU----AC---AUACUACCAACUGGAGUGAGCUCUGGUGGCCGGAAACUGAUUUCAGUGCCU
---.((((...-....((((((((...-((----.((((...)))).))..)))))))).----..---.((((.((....)))))).))))....(((.....((((....))))))). ( -35.00)
>DroAna_CAF1 35514 116 - 1
UCCCAGGCUAA-GAACUACUGGAGUUU-CUUCCUGAGGGGCUCCGUGGGUCGGGGGUCAUGGGAAUUUAAUGGUUGGAAGCGGAAUGG--CUGGGUGGCCGGAAGCUGAUUUCAGCGGCU
(((((((((..-((.((((.(((((..-(((...)))..))))))))).))...)))).)))))........(((((((.(((..(((--((....)))))....))).))))))).... ( -48.00)
>consensus
___CGGGCAAA_AAACUACUGGGGAUU_UU____GGCCGGGUCGGUGGAUGGCGAAGUAU____AC___AUACUACCAACUGGAGUGAACUUGGGUGGCCGGAAGCUGAUUUCAGCGCCU
..................................((((((.(((........)))(((((.........))))).)).(((.(((....))).)))))))....((((....)))).... (-15.28 = -15.50 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:34 2006