Locus 926

Sequence ID 3L_DroMel_CAF1
Location 2,789,405 – 2,789,556
Length 151
Max. P 0.999271
window1425 window1426

overview

Window 5

Location 2,789,405 – 2,789,516
Length 111
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 83.01
Mean single sequence MFE -33.82
Consensus MFE -22.45
Energy contribution -22.98
Covariance contribution 0.53
Combinations/Pair 1.11
Mean z-score -2.53
Structure conservation index 0.66
SVM decision value 0.46
SVM RNA-class probability 0.744430
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2789405 111 + 23771897
UGGCGCGCUGUGUGUGCUUUGCGUUUAUUGAACUCGCGACGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAA----U-UU-UGUACAGCA-ACGGCAGCAGC
..((..(((((.(((((.(((((...........))))).))(((((((((((....)))))))))))...(((((((.((....)).----)-))-))))..)))-))))).))... ( -37.60)
>DroGri_CAF1 27068 106 + 1
UGU----UAGUGUGUGCUUUGCGUUUGUUGAACUCGCGCUGUGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAA---UUUUU-UGUACAGCA-GCA---ACAGC
...----...(((.((((..(((..(.....)..)))((((((((((((((((....)))))))))))....(((((((.........---.))))-)))))))))-)))---))).. ( -34.50)
>DroSim_CAF1 24510 111 + 1
UGGCGCGCUGUGUGUGCUUUGCGUUUAUUGAACUCGCGACGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAA----U-UU-UGUACAGCA-ACGGCAGCAGC
..((..(((((.(((((.(((((...........))))).))(((((((((((....)))))))))))...(((((((.((....)).----)-))-))))..)))-))))).))... ( -37.60)
>DroEre_CAF1 36622 102 + 1
UGGCGCGCUGUAUGUGCUUUGCGUUUAUUGAACUUGCGACGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAA----U-UU-UGUGCGGCA-AC---------
((.((((((((((..((.(((((...........))))).))(((((((((((....)))))))))))..)))))(((((.......)----)-))-)))))).))-..--------- ( -35.20)
>DroMoj_CAF1 28369 112 + 1
UGU----GUGUGAUUGCUUAGCGUUUGUUGAACUCGCCUUGUGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAAGUUUUUUU-UUUACAGCA-GCAGCAGCAGC
...----......(((((..((..((((((.....((.(((.(((((((((((....)))))))))))))).))(((((.((((....)))).)))-))..)))))-)..))))))). ( -31.40)
>DroAna_CAF1 24362 103 + 1
UG------AGUGUGUGCUUUGCGUUUAUUGAACUCCCGUCGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAA----U-UUUUGAACAGAAAACGGCAG----
.(------(((....))))(((((((.(((............(((((((((((....))))))))))).....(((((((.......)----)-)))))..))).)))).))).---- ( -26.60)
>consensus
UGG____CUGUGUGUGCUUUGCGUUUAUUGAACUCGCGACGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAA____U_UU_UGUACAGCA_ACGGCAGCAGC
.........((...((((.(((((((...))))..(((....(((((((((((....)))))))))))...)))........................))).)))).))......... (-22.45 = -22.98 +   0.53)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,789,443 – 2,789,556
Length 113
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 81.76
Mean single sequence MFE -27.52
Consensus MFE -21.60
Energy contribution -21.35
Covariance contribution -0.25
Combinations/Pair 1.05
Mean z-score -3.52
Structure conservation index 0.78
SVM decision value 3.48
SVM RNA-class probability 0.999271
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2789443 113 + 23771897
ACGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAAUUUUGUACAGCAACGGCAGCAGCAACAACAACAGCGCCGACAACGAAACGAAGUCAAAUGAAA
..(((((((((((((....)))))))))))...(((((((.((....)).)))))))..))...(((.((.............)))))(((..((...))..)))........ ( -30.32)
>DroSim_CAF1 24548 110 + 1
ACGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAAUUUUGUACAGCAACGGCAGCAGCAACA---ACAACGCCGACAACGAAACGAAGUCAAAUGAAA
..(((((((((((((....)))))))))))...(((((((.((....)).)))))))..))...(((..........---.....)))(((..((...))..)))........ ( -28.16)
>DroEre_CAF1 36660 88 + 1
ACGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAAUUUUGUGCGGCAAC------------------------AACAACGAGGCGAAGUCAAAUGAA-
.((((((((((((((....)))))))))))...(((....(((((......)))))...)))..------------------------.........)))............- ( -25.80)
>DroYak_CAF1 35810 88 + 1
ACGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAAUUUUGUGCGGCAAC------------------------AACAACGAGGCGAAGUCAAAUGAA-
.((((((((((((((....)))))))))))...(((....(((((......)))))...)))..------------------------.........)))............- ( -25.80)
>consensus
ACGCGGCAUGAGGUUAAUUGACCUCGUGCUUAAUGCAAAAAUAAAUAUAAUUUUGUACAGCAAC________________________AACAACGAAACGAAGUCAAAUGAA_
..(((((((((((((....)))))))))))...(((((((.((....)).)))))))..)).................................................... (-21.60 = -21.35 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:37 2006