Locus 5951

Sequence ID 3L_DroMel_CAF1
Location 15,935,455 – 15,935,549
Length 94
Max. P 0.999308
window9507 window9508

overview

Window 7

Location 15,935,455 – 15,935,549
Length 94
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 69.86
Mean single sequence MFE -24.18
Consensus MFE -15.35
Energy contribution -14.11
Covariance contribution -1.24
Combinations/Pair 1.33
Mean z-score -2.18
Structure conservation index 0.63
SVM decision value 2.49
SVM RNA-class probability 0.994571
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15935455 94 + 23771897
-CAACUAGAAAAUUAGUAUAGAUAAAAGUGAUAGCAUGAUAG----GUUAGAUGGUUAAAAAAACCC--GUAG------GCUAGGGUUUUGGUAAGCAUCGUCCUUG
-..(((((....))))).......................((----(...((((.(((..(((((((--....------....)))))))..))).))))..))).. ( -22.00)
>DroSec_CAF1 37212 95 + 1
ACAACUAGGAAAGAUGUAUAGAUAAAAUUGAUAGCAUGAUAG----GUUAGAUGGUUAAAAAAACCC--GAAC------GCUAGGGUUUUGGUAAGCAUCGUCCUUG
......((((.....................((((.......----))))((((.(((..(((((((--....------....)))))))..))).)))).)))).. ( -22.30)
>DroEre_CAF1 34964 97 + 1
-CAACUAGGAGAGAUGUAUAGAUAAAAGUGAUAGCACGAUAGGGAGGCUAGAUGGUUAAAAAAACCC--UAAG------U-UAGGGUUUUGAUAAGCAUCGUCCUUA
-.....((((.....................((((.(........)))))((((.(((..(((((((--((..------.-)))))))))..))).)))).)))).. ( -24.70)
>DroYak_CAF1 34490 98 + 1
-CUACUAGGAGAGAUGUAUAGAUAAAAGUGAUAGCAUGAUAGGAAGGCUAGAUGGUUAAGAAAACCC--UUAG------UUUAGGGUUUUGGUAAGCAUCGUCCUUG
-.....((((.....................((((...........))))((((.(((..(((((((--(...------...))))))))..))).)))).)))).. ( -24.50)
>DroAna_CAF1 8249 94 + 1
-CAACUA------------AGAUUAAAAGGAUUGCGUGCCUGGGGGGCAAGGUGGUCAAUGAAUCGCCCGAGCAAUCGAACAAGCAAUUCAGCAAGCACCUUAUCCG
-......------------.........((((...(((((((((..((..((((((......))))))(((....))).....))..)))))...))))...)))). ( -27.40)
>consensus
_CAACUAGGAAAGAUGUAUAGAUAAAAGUGAUAGCAUGAUAGG__GGCUAGAUGGUUAAAAAAACCC__GAAG______GCUAGGGUUUUGGUAAGCAUCGUCCUUG
...............................((((...........))))((((.(((..(((((((................)))))))..))).))))....... (-15.35 = -14.11 +  -1.24)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,935,455 – 15,935,549
Length 94
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 69.86
Mean single sequence MFE -20.16
Consensus MFE -13.23
Energy contribution -11.47
Covariance contribution -1.76
Combinations/Pair 1.50
Mean z-score -2.73
Structure conservation index 0.66
SVM decision value 3.50
SVM RNA-class probability 0.999308
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15935455 94 - 23771897
CAAGGACGAUGCUUACCAAAACCCUAGC------CUAC--GGGUUUUUUUAACCAUCUAAC----CUAUCAUGCUAUCACUUUUAUCUAUACUAAUUUUCUAGUUG-
..(((..((((.(((..(((((((....------....--)))))))..))).))))...)----)).......................((((......))))..- ( -15.60)
>DroSec_CAF1 37212 95 - 1
CAAGGACGAUGCUUACCAAAACCCUAGC------GUUC--GGGUUUUUUUAACCAUCUAAC----CUAUCAUGCUAUCAAUUUUAUCUAUACAUCUUUCCUAGUUGU
..(((..((((.(((..(((((((....------....--)))))))..))).))))...)----)).......................(((.((.....)).))) ( -15.40)
>DroEre_CAF1 34964 97 - 1
UAAGGACGAUGCUUAUCAAAACCCUA-A------CUUA--GGGUUUUUUUAACCAUCUAGCCUCCCUAUCGUGCUAUCACUUUUAUCUAUACAUCUCUCCUAGUUG-
..((((.((((.(((..(((((((((-.------..))--)))))))..))).))))(((((........).)))).....................)))).....- ( -21.30)
>DroYak_CAF1 34490 98 - 1
CAAGGACGAUGCUUACCAAAACCCUAAA------CUAA--GGGUUUUCUUAACCAUCUAGCCUUCCUAUCAUGCUAUCACUUUUAUCUAUACAUCUCUCCUAGUAG-
..((((.((((.(((..((((((((...------...)--)))))))..))).))))((((...........)))).....................)))).....- ( -19.40)
>DroAna_CAF1 8249 94 - 1
CGGAUAAGGUGCUUGCUGAAUUGCUUGUUCGAUUGCUCGGGCGAUUCAUUGACCACCUUGCCCCCCAGGCACGCAAUCCUUUUAAUCU------------UAGUUG-
.((((((((((.((..(((((((((((..(....)..)))))))))))..)).))))))(((.....))).....)))).........------------......- ( -29.10)
>consensus
CAAGGACGAUGCUUACCAAAACCCUAGA______CUUC__GGGUUUUUUUAACCAUCUAGCC__CCUAUCAUGCUAUCACUUUUAUCUAUACAUCUCUCCUAGUUG_
.......((((.(((..(((((((................)))))))..))).)))).................................................. (-13.23 = -11.47 +  -1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:00 2006