Locus 5358

Sequence ID 3L_DroMel_CAF1
Location 14,770,131 – 14,770,228
Length 97
Max. P 0.990773
window8468 window8469

overview

Window 8

Location 14,770,131 – 14,770,228
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.31
Mean single sequence MFE -36.64
Consensus MFE -26.82
Energy contribution -28.10
Covariance contribution 1.28
Combinations/Pair 1.06
Mean z-score -3.14
Structure conservation index 0.73
SVM decision value 2.23
SVM RNA-class probability 0.990773
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14770131 97 + 23771897
AGUUGGCCA--CAUGUGGGGCUUGUUGUUGCCGGCUUUUGGCUAAGAAACAGCUGAGCUC---------------------GGCCAGCUGCUUUGUGUUUAUAUUUUUUUCACGAGCAUC
((((((((.--(....)((((((((((((...(((.....)))....)))))).))))))---------------------))))))))((((.(((.............)))))))... ( -34.72)
>DroSec_CAF1 13141 99 + 1
AGUUGGCCACACAUGUGGGGCUUGUUGUUGCCGGCUUUUGGCCAAGAAACAGCUGAGCUC---------------------GGCCAGCUGCUUUGUGUUUAUAUUUUUUUCACGAGCAUC
((((((((.((....))((((((((((((...(((.....)))....)))))).))))))---------------------))))))))((((.(((.............)))))))... ( -38.42)
>DroEre_CAF1 12829 97 + 1
AGUUGGCCA--CAUGUGGGGCUUGUUGUUGCCGGCUUUUGGCCAAGAAACAGCUGAGCUC---------------------GGCCAGCUGCUUUGUGUUUAUAUUUUUUCCACGAGCAUC
((((((((.--(....)((((((((((((...(((.....)))....)))))).))))))---------------------))))))))((((.(((.............)))))))... ( -36.12)
>DroYak_CAF1 13191 97 + 1
AGUUGGCCA--CAUGUGGGGCUUGUUGUUGCCGGCUUUUGGCCAAGAAACAGCUGAGCUC---------------------GGCCAGCUGCUUUGUGUUUAUAUUUUUUUCACGAGCAUC
((((((((.--(....)((((((((((((...(((.....)))....)))))).))))))---------------------))))))))((((.(((.............)))))))... ( -36.62)
>DroAna_CAF1 13231 117 + 1
ACCUCACCU--GCUGGGAGGCUUGUUGUUGCCGGCUUUUGACCAA-AAACAGCUGAGCUCCCCACAACAACAACAGGCCCCAACCAGCUGCUUUGUGUUUAUAUUUUUUUCACGAGCAAC
.........--(((((..(((((((((((((((((((((......-))).))))).))..........)))))))))))....)))))(((((.(((.............)))))))).. ( -37.32)
>consensus
AGUUGGCCA__CAUGUGGGGCUUGUUGUUGCCGGCUUUUGGCCAAGAAACAGCUGAGCUC_____________________GGCCAGCUGCUUUGUGUUUAUAUUUUUUUCACGAGCAUC
((((((((...(....)((((((((((((...(((.....)))....)))))).)))))).....................))))))))((((.(((.............)))))))... (-26.82 = -28.10 +   1.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,770,131 – 14,770,228
Length 97
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.31
Mean single sequence MFE -29.50
Consensus MFE -22.16
Energy contribution -22.12
Covariance contribution -0.04
Combinations/Pair 1.17
Mean z-score -2.15
Structure conservation index 0.75
SVM decision value 1.00
SVM RNA-class probability 0.897873
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14770131 97 - 23771897
GAUGCUCGUGAAAAAAAUAUAAACACAAAGCAGCUGGCC---------------------GAGCUCAGCUGUUUCUUAGCCAAAAGCCGGCAACAACAAGCCCCACAUG--UGGCCAACU
.......(((.............))).(((((((((((.---------------------..)).)))))))))....((((......(((........))).......--))))..... ( -23.04)
>DroSec_CAF1 13141 99 - 1
GAUGCUCGUGAAAAAAAUAUAAACACAAAGCAGCUGGCC---------------------GAGCUCAGCUGUUUCUUGGCCAAAAGCCGGCAACAACAAGCCCCACAUGUGUGGCCAACU
.......(((.............))).(((((((((((.---------------------..)).))))))))).(((((((......(((........))).........))))))).. ( -27.28)
>DroEre_CAF1 12829 97 - 1
GAUGCUCGUGGAAAAAAUAUAAACACAAAGCAGCUGGCC---------------------GAGCUCAGCUGUUUCUUGGCCAAAAGCCGGCAACAACAAGCCCCACAUG--UGGCCAACU
.......(((.............))).(((((((((((.---------------------..)).))))))))).(((((((......(((........))).......--))))))).. ( -29.74)
>DroYak_CAF1 13191 97 - 1
GAUGCUCGUGAAAAAAAUAUAAACACAAAGCAGCUGGCC---------------------GAGCUCAGCUGUUUCUUGGCCAAAAGCCGGCAACAACAAGCCCCACAUG--UGGCCAACU
.......(((.............))).(((((((((((.---------------------..)).))))))))).(((((((......(((........))).......--))))))).. ( -28.44)
>DroAna_CAF1 13231 117 - 1
GUUGCUCGUGAAAAAAAUAUAAACACAAAGCAGCUGGUUGGGGCCUGUUGUUGUUGUGGGGAGCUCAGCUGUUU-UUGGUCAAAAGCCGGCAACAACAAGCCUCCCAGC--AGGUGAGGU
....((((((.............)))......(((((..(((((.((((((((((...((((((......))))-))(((.....))))))))))))).))))))))))--....))).. ( -39.02)
>consensus
GAUGCUCGUGAAAAAAAUAUAAACACAAAGCAGCUGGCC_____________________GAGCUCAGCUGUUUCUUGGCCAAAAGCCGGCAACAACAAGCCCCACAUG__UGGCCAACU
.......(((.............))).(((((((((((........................)).))))))))).(((((((......(((........))).........))))))).. (-22.16 = -22.12 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:10 2006