Locus 3509

Sequence ID 3R_DroMel_CAF1
Location 9,489,658 – 9,489,748
Length 90
Max. P 0.999886
window5637 window5638

overview

Window 7

Location 9,489,658 – 9,489,748
Length 90
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 92.94
Mean single sequence MFE -15.92
Consensus MFE -15.10
Energy contribution -15.27
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.79
Structure conservation index 0.95
SVM decision value 4.38
SVM RNA-class probability 0.999886
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9489658 90 + 27905053
UUAA-----------CUCUCUGCUAAAAACAUUCACAAUUUUAAUUACCAACAAUAUUAUAUAAAGAAUUGUCAAAUUCCUUAUAGCCAUUGUGAGUGUGA
....-----------.............(((((((((((..((((..........))))(((((.(((((....))))).)))))...))))))))))).. ( -16.00)
>DroSec_CAF1 119701 90 + 1
UUAA-----------CUCUCUGCUAAAAACAUUCACAAUUUUAAUUACCAACAAUAUUAUAUAAAGAAUUGUCAAAUUCCUUAUAGCCAUUGUGAGUGUGA
....-----------.............(((((((((((..((((..........))))(((((.(((((....))))).)))))...))))))))))).. ( -16.00)
>DroSim_CAF1 109805 90 + 1
UUAA-----------CUCUCUGCUAAAAACAUUCACAAUUUUAAUUACCAACAAUAUUAUAUAAAGAAUUGUCAAAUUCCUUAUAGCCAUUGUGAGUGUGA
....-----------.............(((((((((((..((((..........))))(((((.(((((....))))).)))))...))))))))))).. ( -16.00)
>DroEre_CAF1 127292 89 + 1
UUAA-----------CUCUCUGCUAAAAACAUUCACAAUUUUAAUUACCAACAAUAUUAUAUAAAGAAUUGUCAAAUUCCUUAUAGCCAUUGUGAGUGUG-
....-----------.............(((((((((((..((((..........))))(((((.(((((....))))).)))))...))))))))))).- ( -16.00)
>DroYak_CAF1 121763 89 + 1
UUAA-----------CUCUCUGCUAAAUACAUUCACAAUUUUAAUUACCAACAAUAUUAUAUAAAGAAUUGUCAAAUUCCUUAUAGCCAUUGUGAGUGUG-
....-----------............((((((((((((..((((..........))))(((((.(((((....))))).)))))...))))))))))))- ( -16.30)
>DroAna_CAF1 114203 99 + 1
UUAAAAACAAAACAUCUCUCUGCUAA-AACAUUCACAACUUAAUUUAAAAACAAUAUUAUAUAAAGAAUUGUCAAAUUCCUUAUAGCCAUUGUGAGUGUG-
..........................-.((((((((((..((((...........))))(((((.(((((....))))).)))))....)))))))))).- ( -15.20)
>consensus
UUAA___________CUCUCUGCUAAAAACAUUCACAAUUUUAAUUACCAACAAUAUUAUAUAAAGAAUUGUCAAAUUCCUUAUAGCCAUUGUGAGUGUG_
............................(((((((((((....................(((((.(((((....))))).)))))...))))))))))).. (-15.10 = -15.27 +   0.17)

alignment

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secondary structure

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dotplot

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Window 8

Location 9,489,658 – 9,489,748
Length 90
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 92.94
Mean single sequence MFE -16.80
Consensus MFE -15.28
Energy contribution -15.28
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.24
Structure conservation index 0.91
SVM decision value 0.44
SVM RNA-class probability 0.737031
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9489658 90 - 27905053
UCACACUCACAAUGGCUAUAAGGAAUUUGACAAUUCUUUAUAUAAUAUUGUUGGUAAUUAAAAUUGUGAAUGUUUUUAGCAGAGAG-----------UUAA
(((((((.((((((..(((((((((((....)))))))))))...)))))).)))(((....)))))))......(((((.....)-----------)))) ( -17.00)
>DroSec_CAF1 119701 90 - 1
UCACACUCACAAUGGCUAUAAGGAAUUUGACAAUUCUUUAUAUAAUAUUGUUGGUAAUUAAAAUUGUGAAUGUUUUUAGCAGAGAG-----------UUAA
(((((((.((((((..(((((((((((....)))))))))))...)))))).)))(((....)))))))......(((((.....)-----------)))) ( -17.00)
>DroSim_CAF1 109805 90 - 1
UCACACUCACAAUGGCUAUAAGGAAUUUGACAAUUCUUUAUAUAAUAUUGUUGGUAAUUAAAAUUGUGAAUGUUUUUAGCAGAGAG-----------UUAA
(((((((.((((((..(((((((((((....)))))))))))...)))))).)))(((....)))))))......(((((.....)-----------)))) ( -17.00)
>DroEre_CAF1 127292 89 - 1
-CACACUCACAAUGGCUAUAAGGAAUUUGACAAUUCUUUAUAUAAUAUUGUUGGUAAUUAAAAUUGUGAAUGUUUUUAGCAGAGAG-----------UUAA
-...((((((((((..(((((((((((....)))))))))))...))))))............((((.((.....)).)))).)))-----------)... ( -16.10)
>DroYak_CAF1 121763 89 - 1
-CACACUCACAAUGGCUAUAAGGAAUUUGACAAUUCUUUAUAUAAUAUUGUUGGUAAUUAAAAUUGUGAAUGUAUUUAGCAGAGAG-----------UUAA
-.(((.(((((((...(((((((((((....)))))))))))...(((.....)))......))))))).)))..(((((.....)-----------)))) ( -16.30)
>DroAna_CAF1 114203 99 - 1
-CACACUCACAAUGGCUAUAAGGAAUUUGACAAUUCUUUAUAUAAUAUUGUUUUUAAAUUAAGUUGUGAAUGUU-UUAGCAGAGAGAUGUUUUGUUUUUAA
-.(((.(((((((...(((((((((((....)))))))))))((((.(((....))))))).))))))).))).-..(((((((.....)))))))..... ( -17.40)
>consensus
_CACACUCACAAUGGCUAUAAGGAAUUUGACAAUUCUUUAUAUAAUAUUGUUGGUAAUUAAAAUUGUGAAUGUUUUUAGCAGAGAG___________UUAA
.....(((((((((..(((((((((((....)))))))))))...))))))...................(((.....))))))................. (-15.28 = -15.28 +  -0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:53 2006