Locus 7891

Sequence ID 3R_DroMel_CAF1
Location 21,142,315 – 21,142,451
Length 136
Max. P 0.994528
window12708 window12709

overview

Window 8

Location 21,142,315 – 21,142,411
Length 96
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.68
Mean single sequence MFE -28.16
Consensus MFE -22.06
Energy contribution -21.86
Covariance contribution -0.20
Combinations/Pair 1.09
Mean z-score -2.57
Structure conservation index 0.78
SVM decision value 2.49
SVM RNA-class probability 0.994528
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21142315 96 - 27905053
AAUCCCAGAUUUCGCAAACAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGCGGAGCUAUGGAAUAGAUACUU----------AGAAUGCACAAUAUUAAAUCG--------------
.......(((((......(((...(((..((((((.((((((((((.((...))))))))))))))))))..)))----------...))).........))))).-------------- ( -26.16)
>DroSec_CAF1 1463 110 - 1
AAUCCCAGAUUUCGCAAACAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGAGGAGCUAUGGAAUAGACACUUUUAUUAACACAGAAUUAACAAAAUUAAAUCGUUUA----------
...............((((..((((((((((((((.((((((((((........)))))))))))))))).)))))))).......((.((((.....)))).)))))).---------- ( -28.00)
>DroSim_CAF1 1969 110 - 1
AAUCCCAGAUUUCGCAAACAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGAGGAGCUAUGGAAUAGAAACUUUUAUUAACACCGAAUUAACAAUAUUAAAUCAUGUA----------
..........((((.......((((((((((((((.((((((((((........))))))))))))))).)))))))))......)))).....................---------- ( -28.82)
>DroEre_CAF1 1934 106 - 1
AACCCCAGGUUUCGCAAGCAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGAGGAGCUAUGGAGUAGAUACUU----------AGCAUGUAC----UUAAAUCGCAUAAACACCUUUU
.......(((((...(((.(((((.((((((((((.((((((((((........)))))))))))))))).))))----------..))))).)----)))))))............... ( -30.50)
>DroYak_CAF1 1954 110 - 1
AAUCCGAGAUUUCGCAAGCAUAUGGAGGUUCUAUUACCAUGGCUUCAGCAACGAGGAGCUAUGGAGUAGAAACUA----------AGAAUGUACAAUAUUAAAGCGUAUAAAUACCUGUU
..((((......(....)....))))(((((((((.((((((((((........)))))))))))))))).....----------....(((((...........)))))...))).... ( -27.30)
>consensus
AAUCCCAGAUUUCGCAAACAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGAGGAGCUAUGGAAUAGAAACUU__________AGAAUGAACAAUAUUAAAUCGUAUA__________
.((((((...............))).)))((((((.((((((((((........)))))))))))))))).................................................. (-22.06 = -21.86 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,142,336 – 21,142,451
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.61
Mean single sequence MFE -31.62
Consensus MFE -20.09
Energy contribution -21.31
Covariance contribution 1.23
Combinations/Pair 1.16
Mean z-score -1.53
Structure conservation index 0.64
SVM decision value 0.09
SVM RNA-class probability 0.577971
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21142336 115 - 27905053
UGGUGAUGACGACUGUAGCUUUAAGAACUCGCUAUACAUUAAUCCCAGAUUUCGCAAACAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGCGGAGCUAUGGAAUAGAUACUU-----
(((.(((......((((((...........)))))).....)))))).................(((..((((((.((((((((((.((...))))))))))))))))))..)))----- ( -32.40)
>DroSec_CAF1 1493 120 - 1
UGGUGAUGACGACUGUAGCUUUAAGAAAUCGCUAUACAUUAAUCCCAGAUUUCGCAAACAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGAGGAGCUAUGGAAUAGACACUUUUAUU
(((.(((......((((((...........)))))).....))))))..............((((((((((((((.((((((((((........)))))))))))))))).)))))))). ( -35.20)
>DroAna_CAF1 3726 116 - 1
GGCCGAUAAGGACUCAUCAUUUAAGAAAUCCUUGUUUCUUAAUCCUCGCUUUCACAAACAUAUGUCUGUCCUUUUGCCUUGGUUGUUGCAUAGAGGAGCGUUGGAAUCU--ACUU--AUU
....((((((..........(((((((((....)))))))))(((.((((...(((.((....)).)))((((((((..........))).)))))))))..)))....--.)))--))) ( -23.90)
>DroSim_CAF1 1999 120 - 1
UGGUGAUGACGACUGUAGUUUUAAGAAAUCGCUAUACAUAAAUCCCAGAUUUCGCAAACAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGAGGAGCUAUGGAAUAGAAACUUUUAUU
(((.(((......((((((...........)))))).....))))))..............((((((((((((((.((((((((((........))))))))))))))).))))))))). ( -33.00)
>DroEre_CAF1 1965 115 - 1
UGGUGACGACGACAGCGCCUUUAAGAAAUCGCUCUACAUAAACCCCAGGUUUCGCAAGCAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGAGGAGCUAUGGAGUAGAUACUU-----
.((((.(.......))))).............(((((...(((((((.....(....)....))).))))......((((((((((........)))))))))).))))).....----- ( -33.20)
>DroYak_CAF1 1989 115 - 1
UGGUGAUGAGGACGGCACCUUUAAGAAAUCGCUCUACACAAAUCCGAGAUUUCGCAAGCAUAUGGAGGUUCUAUUACCAUGGCUUCAGCAACGAGGAGCUAUGGAGUAGAAACUA-----
.((((.((....)).)))).....((((((.................))))))............((.(((((((.((((((((((........))))))))))))))))).)).----- ( -32.03)
>consensus
UGGUGAUGACGACUGUACCUUUAAGAAAUCGCUAUACAUAAAUCCCAGAUUUCGCAAACAUAUGGAGGUUCUAUUGCCAUGGCUUCAGCAUCGAGGAGCUAUGGAAUAGAAACUU_____
........................((((((.................)))))).............(((((((((.((((((((((........)))))))))))))))).)))...... (-20.09 = -21.31 +   1.23)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:19 2006