Locus 1182

Sequence ID 2L_DroMel_CAF1
Location 3,223,750 – 3,223,939
Length 189
Max. P 0.699518
window1917 window1918

overview

Window 7

Location 3,223,750 – 3,223,870
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.82
Mean single sequence MFE -26.38
Consensus MFE -21.06
Energy contribution -21.06
Covariance contribution 0.00
Combinations/Pair 1.12
Mean z-score -1.53
Structure conservation index 0.80
SVM decision value 0.04
SVM RNA-class probability 0.551980
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3223750 120 + 22407834
UUUCGGUCCUUUGGCAAGAUUAAGAUUUAAAUAAUUUAUUUGAAGUACAUUUAAUUUGCUGGCAACACACAAAGAUAUCCCAGGCCAUUUCCCUGGCCCUCAUUUAUGGGCACAAUAAGU
....((..((((((((.(((((((.((((((((...)))))))).....))))))))))((....))..)))))....))((((.......))))((((........))))......... ( -25.30)
>DroSec_CAF1 57794 120 + 1
UUUCGGUCCUUUGGCAAGAUUAAGAUUUAAAUAAUUUAUUUGAAGUACAUUUAAUUUGCUGGCAACACACAAAGAUAUCCCAGGCCAUUUCCCUGGCCCCCAUUUAUGGGCACAAUAAGU
....((..((((((((.(((((((.((((((((...)))))))).....))))))))))((....))..)))))....))..(((((......)))))((((....)))).......... ( -25.40)
>DroSim_CAF1 56297 119 + 1
UUUCGGUCCUUUGCCAAGAUUAAGAUUUAAAUAAUUUAUUUGAAGUACAUUUAAUUUGCUGGCAACACACAAAGAUAUCCCAGGCCAU-UCCCUGGCCCCCAUUUAUGGGCACAAUAAGU
.....((((.((((((((((((((.((((((((...)))))))).....))))))))..)))))).................(((((.-....))))).........))))......... ( -25.20)
>DroEre_CAF1 54393 117 + 1
UU--GGCCCGUUGGCAAGAUUAAGAUUUAAAUAAUUUAGUUGAAGUACAUUUAAUUUGCUGGCAACACACAAAGAUAUUCCAGGUCAUUUCCC-GGCCCCCAUUUAUGGGCACAAUAAGU
((--(((((((..((((.....(((((.....))))).((((((.....))))))))))..))...................((((.......-)))).........)))).)))..... ( -24.40)
>DroYak_CAF1 53133 118 + 1
UU--GGCCCGUUGGCAAGAUUAAGAUUUAAAUAAUUUAUUUGAAGUACAUUUAAUUUGCUGGCAACACACAAUGAUAUCCCAGGCUAUUUCCCUGGCCCUCAUUUAUGGGCACAAUAAGU
((--(((((((..(((.(((((((.((((((((...)))))))).....))))))))))..)).......(((((....(((((.......)))))...)))))...)))).)))..... ( -31.60)
>consensus
UUUCGGUCCUUUGGCAAGAUUAAGAUUUAAAUAAUUUAUUUGAAGUACAUUUAAUUUGCUGGCAACACACAAAGAUAUCCCAGGCCAUUUCCCUGGCCCCCAUUUAUGGGCACAAUAAGU
.....(((((((((((.(((((((.((((((((...)))))))).....))))))))))((....))..)))).........(((((......))))).........))))......... (-21.06 = -21.06 +   0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 3,223,830 – 3,223,939
Length 109
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 94.73
Mean single sequence MFE -39.76
Consensus MFE -31.62
Energy contribution -31.70
Covariance contribution 0.08
Combinations/Pair 1.07
Mean z-score -1.70
Structure conservation index 0.80
SVM decision value 0.35
SVM RNA-class probability 0.699518
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3223830 109 - 22407834
AUGCUAGC--AAUCUCGGGUUACCAGGUUUAAGUGCACAUUUC-GGCCCGAAUGGGUCAACCUUUUGGCCCGACUUAUUGUGCCCAUAAAUGAGGGCCAGGGAAAUGGCCUG
(((...((--(((.((((((((..(((((.((((....)))).-(((((....))))))))))..))))))))...)))))...)))......((((((......)))))). ( -37.80)
>DroSec_CAF1 57874 109 - 1
AUGCUAGC--AAUCUCGGGUUACCAGGUUUAAGUGCGCAUUUC-GGCCCGAAUGGGUCAGCCUUUUGGCCCGACUUAUUGUGCCCAUAAAUGGGGGCCAGGGAAAUGGCCUG
......((--(((.((((((((..(((((...(....).....-(((((....))))))))))..))))))))...))))).((((....))))(((((......))))).. ( -40.20)
>DroSim_CAF1 56377 110 - 1
AUGCUAGCACAAUCUCGGGUUACCAGGUUUAAGUGCGCAUUUC-GGCCCGAAUGGGUCAGCCUUUUGGCCCGACUUAUUGUGCCCAUAAAUGGGGGCCAGGGA-AUGGCCUG
......(((((((.((((((((..(((((...(....).....-(((((....))))))))))..))))))))...)))))))(((....)))((((((....-.)))))). ( -44.00)
>DroEre_CAF1 54471 107 - 1
AUCCUAGC--AAUCUCGGGUUACC-GGUUUAAGUGCGCAUUUC-GGCCCGAAUGGGUCAGCCUUUUGGCCCGACUUAUUGUGCCCAUAAAUGGGGGCC-GGGAAAUGACCUG
.(((..((--(...((((....))-))......)))......(-(((((.((((((((.(((....)))..))))))))....(((....))))))))-))))......... ( -38.20)
>DroYak_CAF1 53211 109 - 1
AUCCUAGC--AAUCUCGGGUUACC-GGUUUAAGUGCGCAUUUUGGGCCCGAAUGGGUCAGCCUUUUGGCCCGACUUAUUGUGCCCAUAAAUGAGGGCCAGGGAAAUAGCCUG
.((((.((--(...((((....))-))......))).((((((((((.(.((((((((.(((....)))..))))))))).))))).))))))))).((((.......)))) ( -38.60)
>consensus
AUGCUAGC__AAUCUCGGGUUACCAGGUUUAAGUGCGCAUUUC_GGCCCGAAUGGGUCAGCCUUUUGGCCCGACUUAUUGUGCCCAUAAAUGGGGGCCAGGGAAAUGGCCUG
..............(((((((.....((........))......)))))))..((((((.(((..((((((..(...((((....))))..).)))))))))...)))))). (-31.62 = -31.70 +   0.08)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:41 2006