Locus 8386

Sequence ID 3R_DroMel_CAF1
Location 22,357,724 – 22,357,821
Length 97
Max. P 0.791875
window13509 window13510

overview

Window 9

Location 22,357,724 – 22,357,821
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.74
Mean single sequence MFE -25.06
Consensus MFE -14.45
Energy contribution -16.13
Covariance contribution 1.68
Combinations/Pair 1.12
Mean z-score -1.68
Structure conservation index 0.58
SVM decision value 0.08
SVM RNA-class probability 0.575778
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22357724 97 + 27905053
-------UAU-----UAUUAUA---AAUCUA-----CUGAAAACACUCAAAUUUGGUCGGAA-UAACUGCCGAGUUGGCAUCACAACUGCGAAUUUAGAGUGUGAAAU--AUGGCAAAGG
-------...-----.......---...(((-----......(((((((((((((.((((..-......))))((((......))))..))))))).)))))).....--.)))...... ( -21.20)
>DroSec_CAF1 65440 112 + 1
AAGCGCUUAUGUUUUUACUAUACUUUAUCUG-----CUAAGAACACUCCAAUUUGGGGGGAA-UAACUGACAAAUUGGCAUCACAACUGCGAAUUUGGAGUGUGAAAU--AUGGCAGAGG
...........................((((-----(((...(((((((((((((..((...-...))..))))((.(((.......))).)).))))))))).....--.))))))).. ( -28.60)
>DroSim_CAF1 69435 105 + 1
-------UAUGUUUUUACUAUAUUUUAUCUA-----CUAAAAACACUCCAAUUUGUCCGGAA-UAACUGCCAAUUUGGCAUCACAACUACGAAUUUAGAGUGUGAAAU--AUGGCAGAGG
-------.....((((.(((((((((.....-----......((((((.(((((((..((..-....((((.....))))......)))))))))..)))))))))))--)))).)))). ( -21.00)
>DroEre_CAF1 67790 101 + 1
-----------UUCUUAUU-UA---AAUCUGGUAGCCUAA-AACACUCCAAUUUGGGCGGCA-AAACUGCCGAAUUGGCAUCACAACUGCGAAUUCGGAGUGUGAAAU--AUGACAGAGG
-----------........-..---..((((.........-.(((((((......(((((..-...)))))(((((.(((.......))).)))))))))))).....--....)))).. ( -32.31)
>DroYak_CAF1 67348 105 + 1
-----------UUUGUAUU-UA---ACUCUGGUAGCCUAAAAACACUCCAAUUUGGCUGGAAAAAACUACACAAUUGGCAUCACAACUGCGAAUUCAGAGUGUGAAAUAUAUGGCAGAGG
-----------........-..---.(((((.((........(((((((((((.(..(((......)))..))))))(((.......))).......))))))........)).))))). ( -22.19)
>consensus
_______UAU_UUUUUAUUAUA___AAUCUG_____CUAAAAACACUCCAAUUUGGCCGGAA_UAACUGCCAAAUUGGCAUCACAACUGCGAAUUUAGAGUGUGAAAU__AUGGCAGAGG
...........................((((...........((((((((((((((.(((......)))))))))))(((.......))).......))))))...........)))).. (-14.45 = -16.13 +   1.68)

alignment

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secondary structure

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dotplot

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Window 0

Location 22,357,724 – 22,357,821
Length 97
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.74
Mean single sequence MFE -21.77
Consensus MFE -17.91
Energy contribution -17.39
Covariance contribution -0.52
Combinations/Pair 1.29
Mean z-score -1.13
Structure conservation index 0.82
SVM decision value 0.59
SVM RNA-class probability 0.791875
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22357724 97 - 27905053
CCUUUGCCAU--AUUUCACACUCUAAAUUCGCAGUUGUGAUGCCAACUCGGCAGUUA-UUCCGACCAAAUUUGAGUGUUUUCAG-----UAGAUU---UAUAAUA-----AUA-------
..(((((...--.....((((((.(((((.(..(..((((((((.....)))).)))-)..)...).))))))))))).....)-----))))..---.......-----...------- ( -17.12)
>DroSec_CAF1 65440 112 - 1
CCUCUGCCAU--AUUUCACACUCCAAAUUCGCAGUUGUGAUGCCAAUUUGUCAGUUA-UUCCCCCCAAAUUGGAGUGUUCUUAG-----CAGAUAAAGUAUAGUAAAAACAUAAGCGCUU
..(((((...--.....(((((((....((((....))))....((((((.......-.......))))))))))))).....)-----))))........................... ( -19.96)
>DroSim_CAF1 69435 105 - 1
CCUCUGCCAU--AUUUCACACUCUAAAUUCGUAGUUGUGAUGCCAAAUUGGCAGUUA-UUCCGGACAAAUUGGAGUGUUUUUAG-----UAGAUAAAAUAUAGUAAAAACAUA-------
...((((((.--...(((((..(((......))).)))))........))))))...-.(((((.....)))))(((((((((.-----((.........)).))))))))).------- ( -23.80)
>DroEre_CAF1 67790 101 - 1
CCUCUGUCAU--AUUUCACACUCCGAAUUCGCAGUUGUGAUGCCAAUUCGGCAGUUU-UGCCGCCCAAAUUGGAGUGUU-UUAGGCUACCAGAUU---UA-AAUAAGAA-----------
..((((....--.....((((((((((((.(((.......))).)))))(((.....-.))).........))))))).-.........))))..---..-........----------- ( -25.81)
>DroYak_CAF1 67348 105 - 1
CCUCUGCCAUAUAUUUCACACUCUGAAUUCGCAGUUGUGAUGCCAAUUGUGUAGUUUUUUCCAGCCAAAUUGGAGUGUUUUUAGGCUACCAGAGU---UA-AAUACAAA-----------
.(((((...........((((((..(...((((((((......))))))))..(((......)))....)..))))))...........))))).---..-........----------- ( -22.15)
>consensus
CCUCUGCCAU__AUUUCACACUCUAAAUUCGCAGUUGUGAUGCCAAUUCGGCAGUUA_UUCCGCCCAAAUUGGAGUGUUUUUAG_____CAGAUU___UAUAAUAAAAA_AUA_______
..((((...........(((((((((..((((....))))((((.....))))................)))))))))...........))))........................... (-17.91 = -17.39 +  -0.52)

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 13:10:17 2006