Locus 7725

Sequence ID 3R_DroMel_CAF1
Location 20,734,934 – 20,735,026
Length 92
Max. P 0.644022
window12457 window12458

overview

Window 7

Location 20,734,934 – 20,735,026
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 96.59
Mean single sequence MFE -18.20
Consensus MFE -16.27
Energy contribution -16.60
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.22
Structure conservation index 0.89
SVM decision value 0.23
SVM RNA-class probability 0.644022
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20734934 92 + 27905053
CAAACAGGUUUAAUAUCUGCGCCUAUUGACAGUCAAUAGAUUCAAGCAUUCUAAAUUGCAUUUACUGGCACUCGUAAACCGACUUAAGCUGC
......((((((.....(((..((((((.....))))))......(((........)))........)))....))))))............ ( -18.20)
>DroSec_CAF1 31233 91 + 1
CAAACAGGUUUAAUACCUGCGCAUAUUGACAGUCAAUAGAUUCAAGCAUUCUAAAUUGCAUUUACUGGCACUCGUAAACCGACU-AAGCUGC
....(((((.....))))).((.........((((.(((((....(((........)))))))).))))..(((.....)))..-..))... ( -15.80)
>DroSim_CAF1 32211 91 + 1
CAAACAGGUUUAAUACCUGCGCCUAUUGACAGUCAAUAGAUUCAAGCAUUCUAAAUUGCAUUUACUGGCACUCGUAAACCGACU-AAGCUGC
......((((((.....(((..((((((.....))))))......(((........)))........)))....))))))....-....... ( -18.20)
>DroEre_CAF1 36590 92 + 1
CAAACAGGUUUAAUUCCUGCGCCUAUUGACAGUCAAUAGAUUCAAGCAUUCUAAAUUGCAUUUACUGCCACUCGUAAACCGACUUAAGCUGC
......((((((......((..((((((.....))))))......(((........))).......))......))))))............ ( -17.00)
>DroYak_CAF1 33049 92 + 1
CAAACAGGUUUAAUACCUGCGCCUAUUGACAGUCAAUAGAUUCAAGCAUUCUAAAUUGCAUUUACUGGCACUCGUAAACCGACUUAAGCUGC
......((((((.....(((..((((((.....))))))......(((........)))........)))....))))))............ ( -18.20)
>DroAna_CAF1 31642 92 + 1
GAAACAGGUUUAAGGCUUGCGCCUAUUGACAGUCAAUAGAUUCAAGCAUUCUAAAUUGCAUUUACUGGCACUCGUAAACCGACUUAAGCUGC
......(((((((((((((...((((((.....))))))...))))).........(((........)))............)))))))).. ( -21.80)
>consensus
CAAACAGGUUUAAUACCUGCGCCUAUUGACAGUCAAUAGAUUCAAGCAUUCUAAAUUGCAUUUACUGGCACUCGUAAACCGACUUAAGCUGC
......((((((.....(((..((((((.....))))))......(((........)))........)))....))))))............ (-16.27 = -16.60 +   0.33)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,734,934 – 20,735,026
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 96.59
Mean single sequence MFE -21.88
Consensus MFE -20.25
Energy contribution -20.67
Covariance contribution 0.42
Combinations/Pair 1.08
Mean z-score -0.90
Structure conservation index 0.93
SVM decision value -0.05
SVM RNA-class probability 0.510398
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20734934 92 - 27905053
GCAGCUUAAGUCGGUUUACGAGUGCCAGUAAAUGCAAUUUAGAAUGCUUGAAUCUAUUGACUGUCAAUAGGCGCAGAUAUUAAACCUGUUUG
(((..((((((.(((((((........)))))).).))))))..)))(((..(((((((.....)))))))..)))................ ( -18.10)
>DroSec_CAF1 31233 91 - 1
GCAGCUU-AGUCGGUUUACGAGUGCCAGUAAAUGCAAUUUAGAAUGCUUGAAUCUAUUGACUGUCAAUAUGCGCAGGUAUUAAACCUGUUUG
(((...(-(((((((((((........))))))(((........)))..........))))))......)))((((((.....))))))... ( -21.00)
>DroSim_CAF1 32211 91 - 1
GCAGCUU-AGUCGGUUUACGAGUGCCAGUAAAUGCAAUUUAGAAUGCUUGAAUCUAUUGACUGUCAAUAGGCGCAGGUAUUAAACCUGUUUG
(((..((-(.(.(((........)))).))).))).......((((((((..(((((((.....)))))))..))))))))........... ( -22.90)
>DroEre_CAF1 36590 92 - 1
GCAGCUUAAGUCGGUUUACGAGUGGCAGUAAAUGCAAUUUAGAAUGCUUGAAUCUAUUGACUGUCAAUAGGCGCAGGAAUUAAACCUGUUUG
...(((((..(((.....))).(((((((.((((..((((((.....)))))).)))).))))))).)))))(((((.......)))))... ( -22.90)
>DroYak_CAF1 33049 92 - 1
GCAGCUUAAGUCGGUUUACGAGUGCCAGUAAAUGCAAUUUAGAAUGCUUGAAUCUAUUGACUGUCAAUAGGCGCAGGUAUUAAACCUGUUUG
((((.((((((.(((((((........)))))).).))))))((((((((..(((((((.....)))))))..))))))))....))))... ( -23.40)
>DroAna_CAF1 31642 92 - 1
GCAGCUUAAGUCGGUUUACGAGUGCCAGUAAAUGCAAUUUAGAAUGCUUGAAUCUAUUGACUGUCAAUAGGCGCAAGCCUUAAACCUGUUUC
((((.(((((...((((((........))))))............(((((..(((((((.....)))))))..))))))))))..))))... ( -23.00)
>consensus
GCAGCUUAAGUCGGUUUACGAGUGCCAGUAAAUGCAAUUUAGAAUGCUUGAAUCUAUUGACUGUCAAUAGGCGCAGGUAUUAAACCUGUUUG
((((((..(.(((.....))).)...)))...))).......((((((((..(((((((.....)))))))..))))))))........... (-20.25 = -20.67 +   0.42)

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 12:53:01 2006