Locus 1713

Sequence ID 2L_DroMel_CAF1
Location 4,704,187 – 4,704,278
Length 91
Max. P 0.901819
window2747 window2748

overview

Window 7

Location 4,704,187 – 4,704,278
Length 91
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 78.45
Mean single sequence MFE -16.22
Consensus MFE -9.03
Energy contribution -9.62
Covariance contribution 0.59
Combinations/Pair 1.24
Mean z-score -1.65
Structure conservation index 0.56
SVM decision value -0.02
SVM RNA-class probability 0.524580
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4704187 91 + 22407834
UGCGAAUUUCAUUUUCCAACAGGAAAUUAAUUUCGCUUCCUCUCCGAAAUUAUCCUGGCAGACCAAGUUAAAAUGAUCAAAAAUUAUUUCG-
((((((.......)))...(((((...((((((((.........))))))))))))))))..........(((((((.....)))))))..- ( -15.00)
>DroSec_CAF1 133435 91 + 1
UGCGAAUUUAAUUUUCCAACAGGAAAUUAAUUUCGCUUCCUCUCCGAAAUUAUCCUGGCAGACCAAGUUAAAAUUGUCAAAAAUUAAUUCG-
..((((((.((((((....(((((...((((((((.........)))))))))))))...(((.((.......))))).))))))))))))- ( -18.00)
>DroSim_CAF1 128572 91 + 1
UGCGAAUUUCAUUUUCCAACAGGAAAUUAAUUUCGCUUCCUCUCCGAAAUUAUCCUGGCAGACCAAGUUAAAAUUGUCAAAAAUUAAUUCG-
..((((((..(((((....(((((...((((((((.........)))))))))))))...(((.((.......))))).))))).))))))- ( -16.40)
>DroEre_CAF1 140036 90 + 1
UGCGAAUUUAAUUUUCCAACAGGAAAUUAAUUUCGCUUCCUCUAUGAAAUUAUUCUGGUGGACCAAGUUAAAU-UGUCAAAAAUUAAAUCG-
.(((((.(((((((((.....))))))))).))))).(((.(((.(((....)))))).)))...........-.................- ( -18.90)
>DroYak_CAF1 138670 80 + 1
UGCGAAUUUAAUUUUUCAACAGGAAAUUAAUUUCGCUUCCUUUCUGGAAUUAUUCUGGCAGACCAAGUUAAAU-UG------AUUAA-----
.(((((.(((((((((.....))))))))).)))))((((.....))))......(((....)))........-..------.....----- ( -16.00)
>DroAna_CAF1 149633 87 + 1
UGGAAAUUUAUUAUACCAACAGGAAAUUAAUUUCAUUUCCGGCUUGAAAUAAUC-----GCAUCAAGUUUGAGUUAACUCUAUACAGUUUGU
.((((((..((((..((....))....))))...))))))(((((((.......-----...))))))).(((....)))............ ( -13.00)
>consensus
UGCGAAUUUAAUUUUCCAACAGGAAAUUAAUUUCGCUUCCUCUCCGAAAUUAUCCUGGCAGACCAAGUUAAAAUUGUCAAAAAUUAAUUCG_
.(((((.(((((((.((....))))))))).))))).............(((.(.(((....))).).)))..................... ( -9.03 =  -9.62 +   0.59)

alignment

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secondary structure

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dotplot

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Window 8

Location 4,704,187 – 4,704,278
Length 91
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 78.45
Mean single sequence MFE -19.55
Consensus MFE -12.07
Energy contribution -13.85
Covariance contribution 1.78
Combinations/Pair 1.12
Mean z-score -2.03
Structure conservation index 0.62
SVM decision value 1.02
SVM RNA-class probability 0.901819
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4704187 91 - 22407834
-CGAAAUAAUUUUUGAUCAUUUUAACUUGGUCUGCCAGGAUAAUUUCGGAGAGGAAGCGAAAUUAAUUUCCUGUUGGAAAAUGAAAUUCGCA
-((((((.(((((.(((((........)))))....))))).))))))........(((((.(((.(((((....))))).)))..))))). ( -22.00)
>DroSec_CAF1 133435 91 - 1
-CGAAUUAAUUUUUGACAAUUUUAACUUGGUCUGCCAGGAUAAUUUCGGAGAGGAAGCGAAAUUAAUUUCCUGUUGGAAAAUUAAAUUCGCA
-....((..(((((((.((((....(((((....)))))..)))))))))))..))(((((.(((((((((....)).))))))).))))). ( -23.80)
>DroSim_CAF1 128572 91 - 1
-CGAAUUAAUUUUUGACAAUUUUAACUUGGUCUGCCAGGAUAAUUUCGGAGAGGAAGCGAAAUUAAUUUCCUGUUGGAAAAUGAAAUUCGCA
-....((..(((((((.((((....(((((....)))))..)))))))))))..))(((((.(((.(((((....))))).)))..))))). ( -21.80)
>DroEre_CAF1 140036 90 - 1
-CGAUUUAAUUUUUGACA-AUUUAACUUGGUCCACCAGAAUAAUUUCAUAGAGGAAGCGAAAUUAAUUUCCUGUUGGAAAAUUAAAUUCGCA
-....((..(((.(((.(-(((....((((....))))...))))))).)))..))(((((.(((((((((....)).))))))).))))). ( -18.30)
>DroYak_CAF1 138670 80 - 1
-----UUAAU------CA-AUUUAACUUGGUCUGCCAGAAUAAUUCCAGAAAGGAAGCGAAAUUAAUUUCCUGUUGAAAAAUUAAAUUCGCA
-----.....------..-.......((((....)))).....((((.....))))(((((.(((((((.........))))))).))))). ( -15.20)
>DroAna_CAF1 149633 87 - 1
ACAAACUGUAUAGAGUUAACUCAAACUUGAUGC-----GAUUAUUUCAAGCCGGAAAUGAAAUUAAUUUCCUGUUGGUAUAAUAAAUUUCCA
......(((((.(((((......))))).))))-----)(((((.((((.(.((((((.......)))))).))))).)))))......... ( -16.20)
>consensus
_CGAAUUAAUUUUUGACAAUUUUAACUUGGUCUGCCAGGAUAAUUUCAGAGAGGAAGCGAAAUUAAUUUCCUGUUGGAAAAUUAAAUUCGCA
.....................(((.(((((....))))).)))((((.....))))(((((.(((((((((....)).))))))).))))). (-12.07 = -13.85 +   1.78)

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 10:09:13 2006