Locus 7597

Sequence ID 3R_DroMel_CAF1
Location 20,366,655 – 20,366,801
Length 146
Max. P 0.579378
window12257 window12258

overview

Window 7

Location 20,366,655 – 20,366,764
Length 109
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 78.78
Mean single sequence MFE -26.48
Consensus MFE -14.87
Energy contribution -15.32
Covariance contribution 0.45
Combinations/Pair 1.35
Mean z-score -1.72
Structure conservation index 0.56
SVM decision value 0.09
SVM RNA-class probability 0.579378
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20366655 109 - 27905053
CAGCUGUUGAUUCAGUUUCAAAAAACUCCUGUUGCGC--AAUUAAGAAAUAUCGAUGUCAAUGAUAUUUCAAUAUCAGAUUCCCUGAAUCGAACAGCACGGGCAAUUCCAA
..(((((((((((((..((....(((....)))....--......(((((((((.......))))))))).......))....))))))).))))))..(((....))).. ( -27.30)
>DroSec_CAF1 8260 109 - 1
CAGCUAUUGAUUCAGUUUCAAAAAACUCCUGUUGCGC--AGUUAAGAAAUAUCGAUGUGAAUGAUAUUUCAACAUCAGAUUCCCUGAAUCGAACUGCACGGGCAAUUCAAA
......((((...(((((....)))))(((((...((--((((..(((((((((.......)))))))))....((((.....))))....)))))))))))....)))). ( -25.20)
>DroSim_CAF1 9323 109 - 1
CAGCUGUUGAUUCAGUUUCAAAAAACUCCUGUUGCGC--AGUUAAGAAAUAUCGAUGUGAAUGAUAUUUCAAUACCAGAUUCCCUGAAUCGAACUGCACGGGCAAUUCAAA
.(((((......)))))..........(((((...((--((((..(((((((((.......))))))))).......(((((...))))).)))))))))))......... ( -26.10)
>DroEre_CAF1 8303 109 - 1
CAGCUGUUGAUUCAGUUCCAAAAAAAUUCUAUUGCGG--AAGUAAGAAAUUUCGAUGUGAAUGAUAAUUCGAUAUCGGAUUCCCUAAAUCGAACUGCACGGGCAAUUGAAA
(((.((((..(.((((((........((((..(((..--..)))))))..((((((((((((....)))).))))))))...........)))))).)..)))).)))... ( -25.60)
>DroYak_CAF1 9371 109 - 1
CAGCUGUUGAUUCAGUUCCAAAAAACUUCUGUGCCAG--AGGUAAGAAAUAUCAAUUUGAAUGAUGUUUCGAUAUCCGAUUCCUUGAAUCGAACUGCACGGGAAAUAGGAA
..((((......))))(((.......((((((((.((--.((((.(((((((((.......)))))))))..))))((((((...))))))..))))))))))....))). ( -30.40)
>DroAna_CAF1 8753 109 - 1
CAGUUGUUGAUUCAGUUCCAAAAGAACCCAGCUCCCGUCAAGUCGGCUAGUCCC--ACCAAUGAGCUGUCACUGGCGGACUCGCUCAAUCGAACUGCCCGCUCCGUUGGAA
((((((((((....((((.....)))).........((..((((.((((((..(--(.(.....).))..)))))).)))).)))))))..))))).(((......))).. ( -24.30)
>consensus
CAGCUGUUGAUUCAGUUCCAAAAAACUCCUGUUGCGC__AAGUAAGAAAUAUCGAUGUGAAUGAUAUUUCAAUAUCAGAUUCCCUGAAUCGAACUGCACGGGCAAUUCAAA
..((..(((((((((........(((....)))............(((((((((.......))))))))).............)))))))))...)).............. (-14.87 = -15.32 +   0.45)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 20,366,695 – 20,366,801
Length 106
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 80.30
Mean single sequence MFE -24.21
Consensus MFE -16.13
Energy contribution -16.05
Covariance contribution -0.08
Combinations/Pair 1.36
Mean z-score -1.30
Structure conservation index 0.67
SVM decision value 0.01
SVM RNA-class probability 0.537938
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20366695 106 - 27905053
AUCUGUUUC-UAGGACCUUAAUUCCAGCUGUUCUUGCACAGCUGUUGAUUCAGUUUCAAAAAACUCCUGUUGCGC--AAUUAAGAAAUAUCGAUGUCAAUGAUAUUUCA
....((..(-.((((.........(((((((......)))))))((((.......)))).....)))))..))..--......(((((((((.......))))))))). ( -23.50)
>DroSec_CAF1 8300 106 - 1
AUCUGUUUC-UAGGACCUUGAUUCCAGCUAUUCUUGCGCAGCUAUUGAUUCAGUUUCAAAAAACUCCUGUUGCGC--AGUUAAGAAAUAUCGAUGUGAAUGAUAUUUCA
.........-..(((.......)))........(((((((((..((((.......)))).........)))))))--))....(((((((((.......))))))))). ( -21.50)
>DroSim_CAF1 9363 106 - 1
AUCUGUUUC-UAGGACCUUGAUUCCAGCUGUUCUUGCGCAGCUGUUGAUUCAGUUUCAAAAAACUCCUGUUGCGC--AGUUAAGAAAUAUCGAUGUGAAUGAUAUUUCA
..((((...-(((((...(((.(((((((((......)))))))..)).)))((((....)))))))))....))--))....(((((((((.......))))))))). ( -27.30)
>DroEre_CAF1 8343 107 - 1
AUCUAUUUUUCAGAACCUUGAUUCCAGCUGUUCUUGCGCAGCUGUUGAUUCAGUUCCAAAAAAAUUCUAUUGCGG--AAGUAAGAAAUUUCGAUGUGAAUGAUAAUUCG
(((.(..((((.((((..(((.(((((((((......)))))))..)).))))))).............((((..--..))))))))..).)))..((((....)))). ( -25.10)
>DroYak_CAF1 9411 107 - 1
AUCUCUUUUUCAGAACCUUGAUUCCUGCUGUUCUUGCGCAGCUGUUGAUUCAGUUCCAAAAAACUUCUGUGCCAG--AGGUAAGAAAUAUCAAUUUGAAUGAUGUUUCG
......((((..((((..(((.((..(((((......)))))....)).)))))))..))))(((((((...)))--))))..(((((((((.......))))))))). ( -26.90)
>DroAna_CAF1 8793 106 - 1
UUCCGUUUC-CAGAACCUUGAUUCCAGCUGUACUGGCCCAGUUGUUGAUUCAGUUCCAAAAGAACCCAGCUCCCGUCAAGUCGGCUAGUCCC--ACCAAUGAGCUGUCA
....((((.-..((((..(((.((((((((........))))))..)).))))))).....)))).(((((((((......)))........--......))))))... ( -20.93)
>consensus
AUCUGUUUC_CAGAACCUUGAUUCCAGCUGUUCUUGCGCAGCUGUUGAUUCAGUUCCAAAAAACUCCUGUUGCGC__AAGUAAGAAAUAUCGAUGUGAAUGAUAUUUCA
............((((..(((.(((((((((......)))))))..)).)))))))...........................(((((((((.......))))))))). (-16.13 = -16.05 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:46 2006