Locus 3490

Sequence ID 3R_DroMel_CAF1
Location 9,425,395 – 9,425,491
Length 96
Max. P 0.900170
window5608 window5609

overview

Window 8

Location 9,425,395 – 9,425,491
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 81.13
Mean single sequence MFE -20.01
Consensus MFE -16.10
Energy contribution -16.49
Covariance contribution 0.39
Combinations/Pair 1.13
Mean z-score -2.08
Structure conservation index 0.80
SVM decision value 1.01
SVM RNA-class probability 0.900170
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9425395 96 + 27905053
UGGGGUGCAUUUAGGUCUAAAGCGGCAUUUAAAAUAUUUACACAGCUGCCGCAAAACUAUGUGCACACAGACAAACAAAAGCACACUUGUACGCAC
..(.(((((............((((((...................)))))).......(((((................)))))..))))).).. ( -21.10)
>DroPse_CAF1 54244 78 + 1
UAGGGUGCAUUUAGGUCUAAAGCGGCAUUUAAAAUAUUUACACAGCUGCCGCAAAACUAUGUGCACACAA----AUA--------------CACAC
....((((((.(((.......((((((...................))))))....))).))))))....----...--------------..... ( -19.31)
>DroEre_CAF1 61009 90 + 1
UUGGGUGCAUUUAGGUCUAAAGCGGCAUUUAAAAUAUUUACACAGCUGCCGCAAAACUAUGUGCACACGC----ACAC--ACACACUUGUACGCAC
.((.(((((.....((.....((((((...................)))))).......(((((....))----))).--)).....))))).)). ( -23.51)
>DroWil_CAF1 59111 88 + 1
UUGAGUACAUUUAAGUCUAAAAGGGCGUUUAAAAUAUUUACACAGAUGCCGCAAAACUAUGUGCACCCAG----ACAC--AC--ACACACACCCAC
..............((((.....(((((((.............)))))))(((........)))....))----))..--..--............ ( -13.32)
>DroYak_CAF1 57086 88 + 1
UGGUGUGCAUUUGGGUCUAAAGCGGCAUUUAAAAUAUUUACACAGCUGCCGCAAAACUAUGUGCACACUC----AC----ACACACUUGUACGCAC
.(((((((((.(((.......((((((...................))))))....))).))))))))).----..----................ ( -23.51)
>DroPer_CAF1 54894 78 + 1
UAGGGUGCAUUUAGGUCUAAAGCGGCAUUUAAAAUAUUUACACAGCUGCCGCAAAACUAUGUGCACACAA----AUA--------------UACAC
....((((((.(((.......((((((...................))))))....))).))))))....----...--------------..... ( -19.31)
>consensus
UAGGGUGCAUUUAGGUCUAAAGCGGCAUUUAAAAUAUUUACACAGCUGCCGCAAAACUAUGUGCACACAA____ACA___AC__ACUUGUACGCAC
....((((((.(((.......((((((...................))))))....))).)))))).............................. (-16.10 = -16.49 +   0.39)

alignment

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secondary structure

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dotplot

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Window 9

Location 9,425,395 – 9,425,491
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 81.13
Mean single sequence MFE -23.21
Consensus MFE -15.86
Energy contribution -15.92
Covariance contribution 0.06
Combinations/Pair 1.12
Mean z-score -1.57
Structure conservation index 0.68
SVM decision value 0.27
SVM RNA-class probability 0.661658
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9425395 96 - 27905053
GUGCGUACAAGUGUGCUUUUGUUUGUCUGUGUGCACAUAGUUUUGCGGCAGCUGUGUAAAUAUUUUAAAUGCCGCUUUAGACCUAAAUGCACCCCA
((((((....((((((................)))))).((((.((((((..((...........))..))))))...))))....)))))).... ( -25.69)
>DroPse_CAF1 54244 78 - 1
GUGUG--------------UAU----UUGUGUGCACAUAGUUUUGCGGCAGCUGUGUAAAUAUUUUAAAUGCCGCUUUAGACCUAAAUGCACCCUA
(((((--------------(((----....)))))))).((((.((((((..((...........))..))))))...)))).............. ( -19.90)
>DroEre_CAF1 61009 90 - 1
GUGCGUACAAGUGUGU--GUGU----GCGUGUGCACAUAGUUUUGCGGCAGCUGUGUAAAUAUUUUAAAUGCCGCUUUAGACCUAAAUGCACCCAA
((((((.........(--((((----((....)))))))((((.((((((..((...........))..))))))...))))....)))))).... ( -27.20)
>DroWil_CAF1 59111 88 - 1
GUGGGUGUGUGU--GU--GUGU----CUGGGUGCACAUAGUUUUGCGGCAUCUGUGUAAAUAUUUUAAACGCCCUUUUAGACUUAAAUGUACUCAA
.((((((..(..--.(--(.((----(((((((.....(((((((((.(....))))))).))).....)))))....)))).)).)..)))))). ( -20.80)
>DroYak_CAF1 57086 88 - 1
GUGCGUACAAGUGUGU----GU----GAGUGUGCACAUAGUUUUGCGGCAGCUGUGUAAAUAUUUUAAAUGCCGCUUUAGACCCAAAUGCACACCA
((((((.....(((((----((----......)))))))((((.((((((..((...........))..))))))...))))....)))))).... ( -27.00)
>DroPer_CAF1 54894 78 - 1
GUGUA--------------UAU----UUGUGUGCACAUAGUUUUGCGGCAGCUGUGUAAAUAUUUUAAAUGCCGCUUUAGACCUAAAUGCACCCUA
(((((--------------((.----...)))))))...((((.((((((..((...........))..))))))...)))).............. ( -18.70)
>consensus
GUGCGUACAAGU__GU___UGU____CUGUGUGCACAUAGUUUUGCGGCAGCUGUGUAAAUAUUUUAAAUGCCGCUUUAGACCUAAAUGCACCCAA
..............................(((((....((((.((((((..((...........))..))))))...)))).....))))).... (-15.86 = -15.92 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:25 2006