Locus 8369

Sequence ID 3R_DroMel_CAF1
Location 22,325,174 – 22,325,275
Length 101
Max. P 0.828191
window13484 window13485

overview

Window 4

Location 22,325,174 – 22,325,275
Length 101
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 82.94
Mean single sequence MFE -28.78
Consensus MFE -21.75
Energy contribution -23.12
Covariance contribution 1.36
Combinations/Pair 1.14
Mean z-score -1.84
Structure conservation index 0.76
SVM decision value 0.36
SVM RNA-class probability 0.702957
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22325174 101 + 27905053
CACCCU--------------UUUCCCUCAGUGUACGUAUGUACGCACGGGUGUGUGUAUUGAGUGUAUUGGUGCGUACCUCUGGAAUCCUUAUGAAUCCU-UUGCAUAUACACACA
......--------------...(((...((((((....))))))..)))(((((((((...(((((..((..((((.....((...)).))))...)).-.)))))))))))))) ( -28.30)
>DroSec_CAF1 42020 102 + 1
CACCCU--------------UUUCCCUCAGUGUACGUAUGUACGCACGGGUGUGUGUAUUGAGUGUAUUGGUGCGUACCUCUGGAAUCCUUAUGAAUCCUUUUGCAUACACACACA
......--------------....((...((((((....))))))..))((((((((((.(((.((((......))))))).(((.((.....)).)))......)))))))))). ( -29.80)
>DroSim_CAF1 40979 102 + 1
CACCCU--------------UUUCCCUCAGUGUACGCAUGUACGCACGGGUGUGUGUAUUGAGUGUAUUGGUGCGUACCUCUGGAAUCCUUAUGAAUCCUUUUGCAUACACACACA
......--------------.........(((((.(((.((((((((.((((..(.......)..)))).))))))))....(((.((.....)).)))...))).)))))..... ( -30.10)
>DroEre_CAF1 43372 102 + 1
ACCCUU--------------UUUCCCUCAGUGUGCGAGUGUACGCACGGGUGUGUGUAUCGAGUGUAUUGGUGCGUACCUCUGGAAUCCUUAUGAAUCCUUUUGCAUACACACACA
......--------------.........(((((((((.((((((((.((((..(.......)..)))).))))))))))).(((.((.....)).)))....))))))....... ( -34.10)
>DroYak_CAF1 42940 102 + 1
ACUCCU--------------UUUCUCUCAAUGUAUGGAUGUAUGCACGGGUGUGUGUAUCGAGUGUAUUGGUGCGUACCUCUGGAAUCCUUAUGAAUCCUUUUGCAUACACACACA
......--------------..............((..((((((((.(((.(((((((((((.....)))))))))))))).(((.((.....)).)))...))))))))..)).. ( -27.70)
>DroAna_CAF1 43412 103 + 1
UUCCUUGCCGAGAAACAGAAUUUUCCUUAGUGUCU-------------UGAGUGUGUAUCAAGUGUAUUGGUGCGUACCCCUGGAAUCCUUAUGAAUCCUUUCGCACACACACACA
........(((((.((.((.......)).)).)))-------------)).((((((..(((.....)))(((((.......(((.((.....)).)))...)))))))))))... ( -22.70)
>consensus
CACCCU______________UUUCCCUCAGUGUACGUAUGUACGCACGGGUGUGUGUAUCGAGUGUAUUGGUGCGUACCUCUGGAAUCCUUAUGAAUCCUUUUGCAUACACACACA
.............................((((((....))))))....((((((((((.(((.((((......))))))).(((.((.....)).)))......)))))))))). (-21.75 = -23.12 +   1.36)

alignment

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secondary structure

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dotplot

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Window 5

Location 22,325,174 – 22,325,275
Length 101
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 82.94
Mean single sequence MFE -28.87
Consensus MFE -23.77
Energy contribution -24.62
Covariance contribution 0.85
Combinations/Pair 1.15
Mean z-score -1.97
Structure conservation index 0.82
SVM decision value 0.71
SVM RNA-class probability 0.828191
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22325174 101 - 27905053
UGUGUGUAUAUGCAA-AGGAUUCAUAAGGAUUCCAGAGGUACGCACCAAUACACUCAAUACACACACCCGUGCGUACAUACGUACACUGAGGGAAA--------------AGGGUG
.((((((((......-.(((.((.....)).))).((((((........))).))).))))))))((((((((((....)))))).(....)....--------------.)))). ( -31.10)
>DroSec_CAF1 42020 102 - 1
UGUGUGUGUAUGCAAAAGGAUUCAUAAGGAUUCCAGAGGUACGCACCAAUACACUCAAUACACACACCCGUGCGUACAUACGUACACUGAGGGAAA--------------AGGGUG
...((((((((......(((.((.....)).))).((((((........))).))).))))))))((((((((((....)))))).(....)....--------------.)))). ( -31.10)
>DroSim_CAF1 40979 102 - 1
UGUGUGUGUAUGCAAAAGGAUUCAUAAGGAUUCCAGAGGUACGCACCAAUACACUCAAUACACACACCCGUGCGUACAUGCGUACACUGAGGGAAA--------------AGGGUG
...((((((((......(((.((.....)).))).((((((........))).))).))))))))((((((((((....)))))).(....)....--------------.)))). ( -31.40)
>DroEre_CAF1 43372 102 - 1
UGUGUGUGUAUGCAAAAGGAUUCAUAAGGAUUCCAGAGGUACGCACCAAUACACUCGAUACACACACCCGUGCGUACACUCGCACACUGAGGGAAA--------------AAGGGU
...((((((((.(....(((.((.....)).))).((((((........))).))))))))))))(((((((((......))))).(....)....--------------..)))) ( -31.50)
>DroYak_CAF1 42940 102 - 1
UGUGUGUGUAUGCAAAAGGAUUCAUAAGGAUUCCAGAGGUACGCACCAAUACACUCGAUACACACACCCGUGCAUACAUCCAUACAUUGAGAGAAA--------------AGGAGU
((((((((((((((...(((.((.....)).))).((((((........))).)))..............))))))))..))))))..........--------------...... ( -24.30)
>DroAna_CAF1 43412 103 - 1
UGUGUGUGUGUGCGAAAGGAUUCAUAAGGAUUCCAGGGGUACGCACCAAUACACUUGAUACACACUCA-------------AGACACUAAGGAAAAUUCUGUUUCUCGGCAAGGAA
.((((((((((((....(((.((.....)).)))....)))))))).......(((((.......)))-------------)))))).........((((((......)).)))). ( -23.80)
>consensus
UGUGUGUGUAUGCAAAAGGAUUCAUAAGGAUUCCAGAGGUACGCACCAAUACACUCAAUACACACACCCGUGCGUACAUACGUACACUGAGGGAAA______________AGGGUG
.((((((((((......(((.((.....)).))).((((((........))).))).))))))))))..(((((......)))))............................... (-23.77 = -24.62 +   0.85)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:52 2006