Locus 4773

Sequence ID 2R_DroMel_CAF1
Location 15,704,653 – 15,704,748
Length 95
Max. P 0.967398
window7674 window7675

overview

Window 4

Location 15,704,653 – 15,704,748
Length 95
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 82.22
Mean single sequence MFE -28.93
Consensus MFE -25.94
Energy contribution -25.97
Covariance contribution 0.03
Combinations/Pair 1.05
Mean z-score -2.53
Structure conservation index 0.90
SVM decision value 1.61
SVM RNA-class probability 0.967398
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15704653 95 + 20766785
-GACUUCUC--CU-GGUUCAAUC------CCCUUUGUUUUUGUAGGCGUCAACCUGCUCUUUAAGCCGCAUUAUUUAUGCGGCUGUUCAGCGAUAACGCGCUUGC
-((((....--..-)))).....------............((((((((.....((((.....((((((((.....))))))))....)))).....)))))))) ( -27.90)
>DroEre_CAF1 485432 95 + 1
-GACUUCUC--CU-GACUGCAUC------CCCUUUGUUUUUGUAGGCGUCAACCUGCUCUUUAAGCCGCAUUAUUUAUGCGGCUGUUCAGCGAUAACGCGCUUGC
-........--..-.........------............((((((((.....((((.....((((((((.....))))))))....)))).....)))))))) ( -27.30)
>DroWil_CAF1 928437 79 + 1
--------------------AGG------UCUUUUGUUUUUGUAGGCGUCAACCUGCUCUUUAAGCCACAUUAUUUAUGCGGCUGUUCAGCGAUAACGCGCUUGC
--------------------...------............((((((((.....((((.....((((.(((.....))).))))....)))).....)))))))) ( -21.90)
>DroYak_CAF1 502695 95 + 1
-GACUUCUU--CU-GGCUGAAUC------CCCUUUGUUUUUGUAGGCGUCAACCUGCUCUUUAAGCCGCAUUAUUUAUGCGGCUGUUCAGCGAUAACGCGCUUGC
-........--..-.(((((((.------............(((((......)))))......((((((((.....))))))))))))))).............. ( -28.50)
>DroMoj_CAF1 776774 90 + 1
--GCA----CUCU-UGUU--GUU------GGCGUUGUUUUUGUAGGCGUCAACCUGCUCUUUAAGCUGCAUUAUUUAUGCGGCUGCGCAGCGAUAACGCGCUUGC
--((.----(..(-((((--(((------(((.........(((((......)))))......((((((((.....)))))))))).))))))))).).)).... ( -30.60)
>DroAna_CAF1 470672 103 + 1
GGACUUGUU--CUUGGCCAAGUCCAGUCGCCUUUUGUUUUUGUAGGCGUCAACCUGCUCUUUAAGCCGCAUUAUUUAUGCGGCUGUUCAGCGAUAACGCGCUUGC
(((((((..--......))))))).................((((((((.....((((.....((((((((.....))))))))....)))).....)))))))) ( -37.40)
>consensus
_GACUUCU___CU_GGCU_AAUC______CCCUUUGUUUUUGUAGGCGUCAACCUGCUCUUUAAGCCGCAUUAUUUAUGCGGCUGUUCAGCGAUAACGCGCUUGC
.........................................((((((((.....((((.....((((((((.....))))))))....)))).....)))))))) (-25.94 = -25.97 +   0.03)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,704,653 – 15,704,748
Length 95
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 82.22
Mean single sequence MFE -27.05
Consensus MFE -22.70
Energy contribution -22.73
Covariance contribution 0.03
Combinations/Pair 1.05
Mean z-score -2.46
Structure conservation index 0.84
SVM decision value 1.25
SVM RNA-class probability 0.936210
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15704653 95 - 20766785
GCAAGCGCGUUAUCGCUGAACAGCCGCAUAAAUAAUGCGGCUUAAAGAGCAGGUUGACGCCUACAAAAACAAAGGG------GAUUGAACC-AG--GAGAAGUC-
...((.(((((((((((....((((((((.....)))))))).....))).)).))))))))...........((.------.......))-..--........- ( -26.00)
>DroEre_CAF1 485432 95 - 1
GCAAGCGCGUUAUCGCUGAACAGCCGCAUAAAUAAUGCGGCUUAAAGAGCAGGUUGACGCCUACAAAAACAAAGGG------GAUGCAGUC-AG--GAGAAGUC-
......(((((..((((....((((((((.....)))))))).....)))((((....))))...........)..------)))))....-..--........- ( -25.50)
>DroWil_CAF1 928437 79 - 1
GCAAGCGCGUUAUCGCUGAACAGCCGCAUAAAUAAUGUGGCUUAAAGAGCAGGUUGACGCCUACAAAAACAAAAGA------CCU--------------------
...((.(((((((((((....((((((((.....)))))))).....))).)).))))))))..............------...-------------------- ( -22.10)
>DroYak_CAF1 502695 95 - 1
GCAAGCGCGUUAUCGCUGAACAGCCGCAUAAAUAAUGCGGCUUAAAGAGCAGGUUGACGCCUACAAAAACAAAGGG------GAUUCAGCC-AG--AAGAAGUC-
((.((((......))))....((((((((.....))))))))......)).((((((..(((............))------)..))))))-..--........- ( -29.20)
>DroMoj_CAF1 776774 90 - 1
GCAAGCGCGUUAUCGCUGCGCAGCCGCAUAAAUAAUGCAGCUUAAAGAGCAGGUUGACGCCUACAAAAACAACGCC------AAC--AACA-AGAG----UGC--
(((..((((....))).((((((((((((.....)))).((((...)))).))))).)))................------...--....-.)..----)))-- ( -24.50)
>DroAna_CAF1 470672 103 - 1
GCAAGCGCGUUAUCGCUGAACAGCCGCAUAAAUAAUGCGGCUUAAAGAGCAGGUUGACGCCUACAAAAACAAAAGGCGACUGGACUUGGCCAAG--AACAAGUCC
((.((((......))))....((((((((.....))))))))......)).......(((((...........)))))...(((((((......--..))))))) ( -35.00)
>consensus
GCAAGCGCGUUAUCGCUGAACAGCCGCAUAAAUAAUGCGGCUUAAAGAGCAGGUUGACGCCUACAAAAACAAAGGG______GAUU_AGCC_AG___AGAAGUC_
...((.(((((((((((....((((((((.....)))))))).....))).)).))))))))........................................... (-22.70 = -22.73 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:57 2006