Locus 6023

Sequence ID 2L_DroMel_CAF1
Location 16,976,567 – 16,976,666
Length 99
Max. P 0.925431
window9564 window9565

overview

Window 4

Location 16,976,567 – 16,976,666
Length 99
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 78.46
Mean single sequence MFE -27.00
Consensus MFE -16.97
Energy contribution -16.42
Covariance contribution -0.55
Combinations/Pair 1.35
Mean z-score -1.56
Structure conservation index 0.63
SVM decision value 0.38
SVM RNA-class probability 0.713718
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16976567 99 + 22407834
ACUUAUUUUCCGGAUG-------AUCAAGGGGA--AAAAUGUGCCGAGAUUGAUACACAAUGUUUGCAUUGUGUAACCAAUCCGCUUGAGUGGGUUACUAU------UCUCGUC
.....((..((.....-------.....))..)--)........(((((....(((((((((....)))))))))...(((((((....))))))).....------))))).. ( -28.70)
>DroSec_CAF1 84357 99 + 1
ACUUAUUUUCCGGAUG-------AUCAAGGGGA--AAAAAGUGCCGAGAUUGAUACACAAUGUUUGCAUUGUGUAACCAAUCCGCUUGAGUGAGUUACUAU------CCUCGUC
((((((((..((((((-------(((..((.(.--......).))..))))..(((((((((....)))))))))....)))))...))))))))......------....... ( -27.10)
>DroSim_CAF1 86111 85 + 1
--------------UG-------AUCAAGGGGA--AAAAAGUGCCGAGAUUGAUACACAAUGUUUGCAUUGUGUAACCAAUCCGCUUGAGUGAGUUACUAU------CCUCGUC
--------------..-------.....(((((--...(((((....(((((.(((((((((....)))))))))..)))))))))).((((...)))).)------))))... ( -24.80)
>DroEre_CAF1 86732 99 + 1
ACUUAUUUUCCGAAUG-------AUCAAGGGGA--AACAAGUGCCGAGAUUGAUACACAAUGUUUGCAUUGUGUAACCAAUCCGCUUGAGUGAGUUAGUAU------CCUCGUC
(((((((..((.....-------.....))..)--..((((((....(((((.(((((((((....)))))))))..))))))))))).))))))......------....... ( -27.00)
>DroYak_CAF1 85924 99 + 1
ACUUAUUUCCCGAAUG-------AUCAAGGGGA--AACAAGUGCCGAGAUUGAUACACAAAGUUUGCAUUGUGUAACCAAUCCGCUUCAGUGAGUUGGUAU------CCUCGUA
((((.((((((.....-------......))))--)).))))..((((.....(((((((.(....).)))))))(((((..(((....)))..)))))..------.)))).. ( -30.60)
>DroAna_CAF1 78128 114 + 1
UCUGAUAUCCCAGCUGCCAGAAUGUCGGGGAGAGAAAGUAGCUCUGAGAUUGAGAAAUACUGUUUGCAUUGUGUAACUAAUCCAGUUGGGUAAGCUACUACUGCUGCCUUUGUC
...((((.((((((((.((((((.((((((..(.....)..)))))).))).(....).))).((((.....))))......))))))))..(((.......))).....)))) ( -23.80)
>consensus
ACUUAUUUUCCGGAUG_______AUCAAGGGGA__AAAAAGUGCCGAGAUUGAUACACAAUGUUUGCAUUGUGUAACCAAUCCGCUUGAGUGAGUUACUAU______CCUCGUC
............................((((............((.(((((.(((((((((....)))))))))..)))))))(((....))).............))))... (-16.97 = -16.42 +  -0.55)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,976,567 – 16,976,666
Length 99
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 78.46
Mean single sequence MFE -26.52
Consensus MFE -14.19
Energy contribution -14.92
Covariance contribution 0.72
Combinations/Pair 1.06
Mean z-score -2.42
Structure conservation index 0.54
SVM decision value 1.17
SVM RNA-class probability 0.925431
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16976567 99 - 22407834
GACGAGA------AUAGUAACCCACUCAAGCGGAUUGGUUACACAAUGCAAACAUUGUGUAUCAAUCUCGGCACAUUUU--UCCCCUUGAU-------CAUCCGGAAAAUAAGU
..(((((------........((.(....).)).(((((.((((((((....))))))))))))))))))......(((--(((.......-------.....))))))..... ( -23.20)
>DroSec_CAF1 84357 99 - 1
GACGAGG------AUAGUAACUCACUCAAGCGGAUUGGUUACACAAUGCAAACAUUGUGUAUCAAUCUCGGCACUUUUU--UCCCCUUGAU-------CAUCCGGAAAAUAAGU
...(((.------.......)))......((((((((((.((((((((....))))))))))))))))..))(((((((--(((.......-------.....)))))).)))) ( -27.20)
>DroSim_CAF1 86111 85 - 1
GACGAGG------AUAGUAACUCACUCAAGCGGAUUGGUUACACAAUGCAAACAUUGUGUAUCAAUCUCGGCACUUUUU--UCCCCUUGAU-------CA--------------
(((((((------..(((.....)))...((((((((((.((((((((....))))))))))))))))..)).......--...))))).)-------).-------------- ( -25.40)
>DroEre_CAF1 86732 99 - 1
GACGAGG------AUACUAACUCACUCAAGCGGAUUGGUUACACAAUGCAAACAUUGUGUAUCAAUCUCGGCACUUGUU--UCCCCUUGAU-------CAUUCGGAAAAUAAGU
...(((.------.......)))......((((((((((.((((((((....))))))))))))))))..))(((((((--(.((...((.-------...)))).)))))))) ( -28.60)
>DroYak_CAF1 85924 99 - 1
UACGAGG------AUACCAACUCACUGAAGCGGAUUGGUUACACAAUGCAAACUUUGUGUAUCAAUCUCGGCACUUGUU--UCCCCUUGAU-------CAUUCGGGAAAUAAGU
...(((.------.......)))......((((((((((.((((((........))))))))))))))..))(((((((--((((...((.-------...))))))))))))) ( -32.20)
>DroAna_CAF1 78128 114 - 1
GACAAAGGCAGCAGUAGUAGCUUACCCAACUGGAUUAGUUACACAAUGCAAACAGUAUUUCUCAAUCUCAGAGCUACUUUCUCUCCCCGACAUUCUGGCAGCUGGGAUAUCAGA
.......(((...((.((((((...((....))...))))))))..)))...............(((((((.((((.....((.....)).....))))..)))))))...... ( -22.50)
>consensus
GACGAGG______AUAGUAACUCACUCAAGCGGAUUGGUUACACAAUGCAAACAUUGUGUAUCAAUCUCGGCACUUUUU__UCCCCUUGAU_______CAUCCGGAAAAUAAGU
..............................(((((((((.((((((((....))))))))))))))).))............................................ (-14.19 = -14.92 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:05 2006