Locus 4149

Sequence ID 2L_DroMel_CAF1
Location 11,951,393 – 11,951,544
Length 151
Max. P 0.994551
window6541 window6542

overview

Window 1

Location 11,951,393 – 11,951,504
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.43
Mean single sequence MFE -29.38
Consensus MFE -19.20
Energy contribution -20.24
Covariance contribution 1.04
Combinations/Pair 1.23
Mean z-score -2.32
Structure conservation index 0.65
SVM decision value 2.49
SVM RNA-class probability 0.994551
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11951393 111 - 22407834
CUGCUGUUGUGGCAGUUGGAGUUUUUUGAAAUCUGAGAUGGGAAGAUAG-UUCUUCUUAUCUAGGUACUUACUUUUUGGUAGUACAGCUGCAAA--------UUUUAUAUCAUACACAUC
(((((.....)))))(((.((((.........((.(((((((((((...-.)))))))))))))(((((.(((....)))))))))))).))).--------.................. ( -30.40)
>DroSec_CAF1 170760 109 - 1
CUGCUGUUGUGGCAGUUGCAGCUUUUUGAAAUCUGAGAUGGGAAGAUAG-UUCUUCUAAUCUAGGUACAUACUUUUUGGUAGUACAGCUGCACU--------UUU--CAUUAUACACAUC
(((((.....))))).(((((((.........((.((((.((((((...-.)))))).))))))((((.((((....)))))))))))))))..--------...--............. ( -32.90)
>DroSim_CAF1 137187 109 - 1
CUGCUGUUGUGGCAGUUGCAGCUUUUUGAAAUCUGAGAUGGGAAGAUAG-UUCUUCUUAUCUAGGUACUUACUUUUUGGUAGUACAGCUGCACU--------UUU--UAUUACACACAUC
(((((.....))))).(((((((.........((.(((((((((((...-.)))))))))))))(((((.(((....)))))))))))))))..--------...--............. ( -36.10)
>DroEre_CAF1 145593 101 - 1
CUGCUGUUGCGCCAGUUGCUGUUUUCCGAAAACAGAGAUGCCAAGAUA--CUUUUCUUAUCUAGGUACUUACUU-UAAGUAGUACAAAUACACGGGA----------------AGAUAAC
..((((......))))...((((((((.......(((.((((.(((((--.......))))).)))))))....-...(((.......)))...)))----------------))))).. ( -20.30)
>DroYak_CAF1 141100 113 - 1
CUGCUGUUGCAGCAGUUGCUGUUUUCCGAAAACAGAGAUGGCAAGAUAGAUUCUUCUUAUCUAGGUAC----UU-UGAAUAGUACUGAAAUACAGGAGCUUAGAA--UAUUGUAAGUAAC
((((((...))))))...((((((((.........((((((.((((.....)))).)))))).(((((----(.-.....)))))))))).))))..(((((.(.--...).)))))... ( -27.20)
>consensus
CUGCUGUUGUGGCAGUUGCAGUUUUUUGAAAUCUGAGAUGGGAAGAUAG_UUCUUCUUAUCUAGGUACUUACUUUUUGGUAGUACAGCUGCACA________UUU__UAUUAUACACAUC
(((((.....))))).((.((((............(((((((((((.....)))))))))))..((((.((((....)))))))))))).))............................ (-19.20 = -20.24 +   1.04)

alignment

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secondary structure

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dotplot

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Window 2

Location 11,951,425 – 11,951,544
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.77
Mean single sequence MFE -34.34
Consensus MFE -26.92
Energy contribution -27.80
Covariance contribution 0.88
Combinations/Pair 1.12
Mean z-score -1.52
Structure conservation index 0.78
SVM decision value 0.16
SVM RNA-class probability 0.611136
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11951425 119 - 22407834
ACGACAGGCGAAAUCGAAAUUGCAGUGCCAAAGUUGCCGCCUGCUGUUGUGGCAGUUGGAGUUUUUUGAAAUCUGAGAUGGGAAGAUAG-UUCUUCUUAUCUAGGUACUUACUUUUUGGU
............(((((((....((((((((((...(((.(((((.....))))).)))...)))).........(((((((((((...-.))))))))))).))))))....))))))) ( -35.50)
>DroSec_CAF1 170790 119 - 1
ACGACAGGCGAAAUCGAAAUUGCAGUGUCAAAGUUGCCGCCUGCUGUUGUGGCAGUUGCAGCUUUUUGAAAUCUGAGAUGGGAAGAUAG-UUCUUCUAAUCUAGGUACAUACUUUUUGGU
..((((.((((........))))..))))((((((((...(((((.....)))))..)))))))).....((((.((((.((((((...-.)))))).)))))))).............. ( -35.10)
>DroSim_CAF1 137217 119 - 1
ACGACAGGCGAAAUCGAAAUUGCAGUGCCAAAGUUGCCGCCUGCUGUUGUGGCAGUUGCAGCUUUUUGAAAUCUGAGAUGGGAAGAUAG-UUCUUCUUAUCUAGGUACUUACUUUUUGGU
............(((((((....((((((((((((((...(((((.....)))))..))))))))..........(((((((((((...-.))))))))))).))))))....))))))) ( -40.60)
>DroEre_CAF1 145617 117 - 1
ACGACAGGCGAAAUCGAAAUUGCAGUGCCAAAGUUGCCGCCUGCUGUUGCGCCAGUUGCUGUUUUCCGAAAACAGAGAUGCCAAGAUA--CUUUUCUUAUCUAGGUACUUACUU-UAAGU
.((((.((((.......(((.((((.((..........)))))).))).)))).))))((((((.....))))))((.((((.(((((--.......))))).)))))).....-..... ( -27.70)
>DroYak_CAF1 141138 115 - 1
AGGACAGGCGAAAUCGAAAUUGCAGUGCCAAAGUUGCCGCCUGCUGUUGCAGCAGUUGCUGUUUUCCGAAAACAGAGAUGGCAAGAUAGAUUCUUCUUAUCUAGGUAC----UU-UGAAU
....(((((((........))))((((((.....(((((.((.((((((((((....)))))........))))))).)))))(((((((....)).))))).)))))----))-))... ( -32.80)
>consensus
ACGACAGGCGAAAUCGAAAUUGCAGUGCCAAAGUUGCCGCCUGCUGUUGUGGCAGUUGCAGUUUUUUGAAAUCUGAGAUGGGAAGAUAG_UUCUUCUUAUCUAGGUACUUACUUUUUGGU
.......((((........)))).(((((((((((((...(((((.....)))))..))))))))..........(((((((((((.....))))))))))).)))))............ (-26.92 = -27.80 +   0.88)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:44 2006