Locus 4981

Sequence ID X_DroMel_CAF1
Location 12,993,640 – 12,993,773
Length 133
Max. P 0.861175
window8118 window8119

overview

Window 8

Location 12,993,640 – 12,993,736
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 83.85
Mean single sequence MFE -26.46
Consensus MFE -15.18
Energy contribution -17.46
Covariance contribution 2.28
Combinations/Pair 1.16
Mean z-score -2.07
Structure conservation index 0.57
SVM decision value -0.01
SVM RNA-class probability 0.529603
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12993640 96 - 22224390
CGACUAUCGAUAUUGCUUAUGUUUAUGGCUUGACACUGCAACUAUCGAGCGUUUGGGCAAACCAAUGUUUUCGAUCGAUAGUAGCAAGUGCUAGUA
(((((((.(((((.....))))).)))).))).((((((.((((((((.((.((((.....))))......)).)))))))).)).))))...... ( -26.90)
>DroSec_CAF1 4764 96 - 1
CGACCAUCGAUAUUGCUUAUGUUUGUGGUGUGACACUGCAACUAUCGAGCGUUUGAGCAAACCAAUGUGUUCGAUCGAUAGUACCAAGUGUUAUUA
..(((((.(((((.....))))).)))))((((((((...((((((((....(((((((........)))))))))))))))....)))))))).. ( -31.30)
>DroSim_CAF1 2009 96 - 1
CGACCAUCGAUAUUGCUUAUGUUUGUGGUGUGACACUGCAACUAUCGAGCGUUUGGGCAAACCAAUGUGUUCGAUCGAUAGUAGCAAGUGUUAUUA
..(((((.(((((.....))))).)))))((((((((((.((((((((.((.((((.....))))......)).)))))))).)).)))))))).. ( -34.90)
>DroEre_CAF1 1996 95 - 1
CGCCUAUCGAUGUUGCUUAUGUAUAUGCUGUGACACUGCAACUAUCGAACGUUCCUAAAAGCAAGUGUGUUCUAUCGAUAGUACCAAAUAUAAGU-
...(((((((((((((...(((..........)))..)))))....(((((..(..........)..))))).))))))))..............- ( -17.80)
>DroYak_CAF1 2024 96 - 1
CGUCUAUCGAUAUUGCUUAUGUUUAUGGUAUGACACUGCAACUAUCGUACGUCUUAUCAGACCAAUGUGUUCUAUCGAUAGUAGCAAAUUUAGGUA
.(((((((((((..((.(((.....(((((.(((..(((.......))).))).))))).....))).))..)))))))))..))........... ( -21.40)
>consensus
CGACUAUCGAUAUUGCUUAUGUUUAUGGUGUGACACUGCAACUAUCGAGCGUUUGAGCAAACCAAUGUGUUCGAUCGAUAGUAGCAAGUGUUAGUA
...((((.(((((.....))))).))))..(((((((((.((((((((.((.....(((......)))...)).)))))))).)).)))))))... (-15.18 = -17.46 +   2.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 12,993,656 – 12,993,773
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 89.23
Mean single sequence MFE -34.06
Consensus MFE -24.92
Energy contribution -24.80
Covariance contribution -0.12
Combinations/Pair 1.14
Mean z-score -2.29
Structure conservation index 0.73
SVM decision value 0.83
SVM RNA-class probability 0.861175
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12993656 117 - 22224390
UCGAUUUCAGAAGACGUUACUUGUCCGAACUUAUUGGCGACUAUCGAUAUUGCUUAUGUUUAUGGCUUGACACUGCAACUAUCGAGCGUUUGGGCAAACCAAUGUUUUCGAUCGAUA
((((((...(((((((((..((((((((((.....(....)..((((((((((...((((........))))..)))).))))))..))))))))))...))))))))))))))).. ( -38.30)
>DroSec_CAF1 4780 117 - 1
UCGAUUUCAGAAGACGUUACUUGUCCGAACUUAUCGGCGACCAUCGAUAUUGCUUAUGUUUGUGGUGUGACACUGCAACUAUCGAGCGUUUGAGCAAACCAAUGUGUUCGAUCGAUA
((((((...(((.(((((..(((..(((((.((((((......))))))..(((((((.(((..(((...)))..))).))).)))))))))..)))...))))).))))))))).. ( -35.40)
>DroSim_CAF1 2025 117 - 1
UCGAUUUCAGAAGACGUUACUUGUCCGAACUUAUCGGCGACCAUCGAUAUUGCUUAUGUUUGUGGUGUGACACUGCAACUAUCGAGCGUUUGGGCAAACCAAUGUGUUCGAUCGAUA
((((((...(((.(((((..((((((((((.((((((......))))))..(((((((.(((..(((...)))..))).))).))))))))))))))...))))).))))))))).. ( -40.70)
>DroEre_CAF1 2011 117 - 1
UCGAUUUCAGAAGACGUUAUUUGUCCGAACUUAUCGGCGCCUAUCGAUGUUGCUUAUGUAUAUGCUGUGACACUGCAACUAUCGAACGUUCCUAAAAGCAAGUGUGUUCUAUCGAUA
(((((...((((.((...((((((((((.....))))......((((((((((...(((..........)))..))))).)))))............)))))))).))))))))).. ( -26.50)
>DroYak_CAF1 2040 117 - 1
UCGAUUUCAGAAGACGAUAUUUGUCCGAACUUAUCGGCGUCUAUCGAUAUUGCUUAUGUUUAUGGUAUGACACUGCAACUAUCGUACGUCUUAUCAGACCAAUGUGUUCUAUCGAUA
(((((...((((.((((((..((.((((.....))))))..))))((((((((...((((........))))..)))).))))....((((....))))....)).))))))))).. ( -29.40)
>consensus
UCGAUUUCAGAAGACGUUACUUGUCCGAACUUAUCGGCGACUAUCGAUAUUGCUUAUGUUUAUGGUGUGACACUGCAACUAUCGAGCGUUUGAGCAAACCAAUGUGUUCGAUCGAUA
(((((....(((.(((((...((.((((.....))))))....((((((((((...((((........))))..)))).))))))..((((....)))).))))).))).))))).. (-24.92 = -24.80 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:28 2006