Locus 9986

Sequence ID 3R_DroMel_CAF1
Location 26,740,471 – 26,740,568
Length 97
Max. P 0.877676
window15916 window15917

overview

Window 6

Location 26,740,471 – 26,740,568
Length 97
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 81.36
Mean single sequence MFE -23.89
Consensus MFE -17.22
Energy contribution -17.55
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.72
SVM decision value 0.90
SVM RNA-class probability 0.877676
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26740471 97 + 27905053
---UGCC--UAUUAU--UAUUGCUGUU-GAACAACCGCAAAUGGAUUUAACAUUACAGCCGCACUAAUCCACUGGGGAUCAAGUGGAGAUCAAGCGGCAUUAUCA
---....--......--...(((.(((-....))).)))((((.......))))...(((((.....((((((........))))))......)))))....... ( -25.00)
>DroVir_CAF1 56811 88 + 1
-----------------UAUUGUUAUUAAAACAACCACAAGGCAAUUUAAUAUUACAGCCGCACUAAUCCACUGGGGAUCAAGUGCAGAUCAAGCGGCAUUAUCA
-----------------...((((((((((....((....))...)))))))..)))(((((......((....))((((.......))))..)))))....... ( -18.60)
>DroPse_CAF1 54158 82 + 1
-----------------------UGUGGGGACAACCGCAAAUGGAUUUAAUAUUACAGCCGCACUAAUCCACUGGGGAUCAAGUGGAGAUCAAGCGGCAUUAUCA
-----------------------(((((......)))))..................(((((.....((((((........))))))......)))))....... ( -26.20)
>DroGri_CAF1 64425 88 + 1
-----------------UAUUGUUAUUAAAACAACCGCAAGGCAAUUUAAUAUUACAGCCGCACUAAUCCACUAGGGAUCAAGUGCAGAUCAAGCGGCAUUAUCA
-----------------..(((((.....)))))((((..(((..............)))(((((.((((.....))))..))))).......))))........ ( -22.64)
>DroAna_CAF1 53399 104 + 1
UGCUGCCGUUAUUAUUGUAUUAUUGUU-GAACAACCGCAAAUGGAUUUAAUAUUACAGCCGCACUAAUCCACUGGGGAUCAAGUGGAGAUCAAGCGGCAUUAUCA
...............((((....((((-(((...(((....))).))))))).))))(((((.....((((((........))))))......)))))....... ( -24.70)
>DroPer_CAF1 52273 82 + 1
-----------------------UGUGGGGACAACCGCAAAUGGAUUUAAUAUUACAGCCGCACUAAUCCACUGGGGAUCAAGUGGAGAUCAAGCGGCAUUAUCA
-----------------------(((((......)))))..................(((((.....((((((........))))))......)))))....... ( -26.20)
>consensus
_________________UAUUGUUGUU_GAACAACCGCAAAUGGAUUUAAUAUUACAGCCGCACUAAUCCACUGGGGAUCAAGUGGAGAUCAAGCGGCAUUAUCA
.........................................................(((((.....((((((........))))))......)))))....... (-17.22 = -17.55 +   0.33)

alignment

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secondary structure

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dotplot

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Window 7

Location 26,740,471 – 26,740,568
Length 97
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 81.36
Mean single sequence MFE -24.01
Consensus MFE -19.08
Energy contribution -18.72
Covariance contribution -0.36
Combinations/Pair 1.07
Mean z-score -1.99
Structure conservation index 0.79
SVM decision value 0.87
SVM RNA-class probability 0.871958
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26740471 97 - 27905053
UGAUAAUGCCGCUUGAUCUCCACUUGAUCCCCAGUGGAUUAGUGCGGCUGUAAUGUUAAAUCCAUUUGCGGUUGUUC-AACAGCAAUA--AUAAUA--GGCA---
......((((((((((..((((((.(....).)))))))))).)).(((((..((...(((((....).))))...)-))))))....--......--))))--- ( -24.00)
>DroVir_CAF1 56811 88 - 1
UGAUAAUGCCGCUUGAUCUGCACUUGAUCCCCAGUGGAUUAGUGCGGCUGUAAUAUUAAAUUGCCUUGUGGUUGUUUUAAUAACAAUA-----------------
.......(((((((((((..(............)..)))))).)))))(((..(((((((..(((....)))...))))))))))...----------------- ( -24.80)
>DroPse_CAF1 54158 82 - 1
UGAUAAUGCCGCUUGAUCUCCACUUGAUCCCCAGUGGAUUAGUGCGGCUGUAAUAUUAAAUCCAUUUGCGGUUGUCCCCACA-----------------------
.(((((((((((((((..((((((.(....).)))))))))).)))))(((((............)))))))))))......----------------------- ( -22.50)
>DroGri_CAF1 64425 88 - 1
UGAUAAUGCCGCUUGAUCUGCACUUGAUCCCUAGUGGAUUAGUGCGGCUGUAAUAUUAAAUUGCCUUGCGGUUGUUUUAAUAACAAUA-----------------
.......(((((..(..(((((((.(((((.....))))))))))))..(((((.....))))))..)))))((((.....))))...----------------- ( -25.00)
>DroAna_CAF1 53399 104 - 1
UGAUAAUGCCGCUUGAUCUCCACUUGAUCCCCAGUGGAUUAGUGCGGCUGUAAUAUUAAAUCCAUUUGCGGUUGUUC-AACAAUAAUACAAUAAUAACGGCAGCA
(((((..(((((((((..((((((.(....).)))))))))).))))).....))))).......((((.((((((.-..............)))))).)))).. ( -25.26)
>DroPer_CAF1 52273 82 - 1
UGAUAAUGCCGCUUGAUCUCCACUUGAUCCCCAGUGGAUUAGUGCGGCUGUAAUAUUAAAUCCAUUUGCGGUUGUCCCCACA-----------------------
.(((((((((((((((..((((((.(....).)))))))))).)))))(((((............)))))))))))......----------------------- ( -22.50)
>consensus
UGAUAAUGCCGCUUGAUCUCCACUUGAUCCCCAGUGGAUUAGUGCGGCUGUAAUAUUAAAUCCAUUUGCGGUUGUUC_AACAACAAUA_________________
.(((((((((((((((((..((((.(....).)))))))))).)))))(((((............)))))))))))............................. (-19.08 = -18.72 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:46:24 2006