Locus 931

Sequence ID 3L_DroMel_CAF1
Location 2,795,441 – 2,795,597
Length 156
Max. P 0.932758
window1432 window1433

overview

Window 2

Location 2,795,441 – 2,795,557
Length 116
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 79.99
Mean single sequence MFE -31.06
Consensus MFE -23.26
Energy contribution -24.43
Covariance contribution 1.18
Combinations/Pair 1.35
Mean z-score -1.50
Structure conservation index 0.75
SVM decision value 0.58
SVM RNA-class probability 0.790001
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2795441 116 + 23771897
UGUUUGCAAUCGAUAAGCCAGGCUAA-AACUUAUGCACCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAGUGCACUUUUGGCUCUAAAGAAUAUUGCAGGUUUUAAAUUUCCA
.((((((....).)))))..((((..-..(....)..(((....)))))))...((((.(((((.(((((((((((..((((.......))))..)))))))))))))))).)))). ( -32.90)
>DroSec_CAF1 40661 117 + 1
UGUUUGCAAUCGAUAAGCCAGGCUAAAAACUUAUGCACCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAGUGCACUUUUGGCUCGAAAGGAUAUUGCAGGUUUUAAAUUUCCA
.((((((....).)))))..((((.....(....)..(((....)))))))...((((.(((((.(((((((((((..((((((...))))))..)))))))))))))))).)))). ( -37.00)
>DroSim_CAF1 30513 117 + 1
UGUUUGCAAUCGAUAAGCCAGGCUAAAAACUUAUGCACCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAGUGCACUUUUGGCUCGAAAGGAUAUUGCAGGUUUUAAAUUUCCA
.((((((....).)))))..((((.....(....)..(((....)))))))...((((.(((((.(((((((((((..((((((...))))))..)))))))))))))))).)))). ( -37.00)
>DroEre_CAF1 42573 116 + 1
UGUUUGCAGACGAUAAGCUGGGCCAA-AACUUAUGCACCCAAAUGGGAACCAGAGGAAUUUUGAUGGCCUGCAUUGCACAUUUGGCUCAAAAGGAUACUGCAGGUUUUAAAUUUCAA
..(((((((.........((((((((-(....((((((((....)))..(((..((....))..)))..)))))......)))))))))........)))))))............. ( -28.53)
>DroYak_CAF1 41935 116 + 1
UGUUUGCAAACGAUAAGCUAGGCUAA-AACUUAUGCACCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAUUGCACUUUUGGCUCAAAAGGAUAUUGAAGGUUUCAAACUUCCA
.....((.........((((((....-..)))).)).(((....))).))....((((.(((((.(((((.((.((..((((((...))))))..)).)).)))))))))).)))). ( -29.60)
>DroAna_CAF1 30502 99 + 1
UGUU-GGAAUCGAUUAGUCGG------AGCUCUGGCUCCCA--UGAGAGUUCAAGGACCUAU--UGGCAGACAGGACAUUUUUUC-------AGUUAUUUCAUGUUUGAUGUGUUUA
((((-....(((((..(((.(------((((((.(......--).)))))))...)))..))--)))..))))((((((....((-------((...........)))).)))))). ( -21.30)
>consensus
UGUUUGCAAUCGAUAAGCCAGGCUAA_AACUUAUGCACCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAGUGCACUUUUGGCUCAAAAGGAUAUUGCAGGUUUUAAAUUUCCA
..................................((.(((....))).))....((((.(((((.(((((((((((..((((((...))))))..)))))))))))))))).)))). (-23.26 = -24.43 +   1.18)

alignment

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secondary structure

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dotplot

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Window 3

Location 2,795,477 – 2,795,597
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.17
Mean single sequence MFE -31.23
Consensus MFE -21.83
Energy contribution -23.57
Covariance contribution 1.73
Combinations/Pair 1.34
Mean z-score -1.63
Structure conservation index 0.70
SVM decision value 1.22
SVM RNA-class probability 0.932758
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2795477 120 + 23771897
CCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAGUGCACUUUUGGCUCUAAAGAAUAUUGCAGGUUUUAAAUUUCCAUUUCUUGGGCAGGUGUUAAAUUGAGGCAAUAAUUGGCGUA
(((....))).(((((.((((.(((((.(((((((((((..((((.......))))..)))))))))))))))).)))).........((.(((.....)))...)).....)))))... ( -36.90)
>DroSec_CAF1 40698 120 + 1
CCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAGUGCACUUUUGGCUCGAAAGGAUAUUGCAGGUUUUAAAUUUCCAUUUCUUGGGCAGGUGUUAAAUUGAUGCAAUAAUUGUUAUA
(((....))).((((((((((.(((((.(((((((((((..((((((...))))))..)))))))))))))))).))))...)))..)))..(((((.....)))))............. ( -37.80)
>DroSim_CAF1 30550 120 + 1
CCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAGUGCACUUUUGGCUCGAAAGGAUAUUGCAGGUUUUAAAUUUCCAUUUCUUGAGCAGGUGUUAAAUUGAGGCAAUAAUUGUUAUA
(((....))).(((...((((.(((((.(((((((((((..((((((...))))))..)))))))))))))))).))))...((...(((....))).....)))))............. ( -38.00)
>DroEre_CAF1 42609 120 + 1
CCCAAAUGGGAACCAGAGGAAUUUUGAUGGCCUGCAUUGCACAUUUGGCUCAAAAGGAUACUGCAGGUUUUAAAUUUCAAUUUCUUGGCCAGGUGUUAAAUUGAGGCAAUCAUUGGCAUA
(((....))).......(((((((....((((((((.((..(.((((...)))).)..)).))))))))..))))))).........(((((.((((.......))))....)))))... ( -30.20)
>DroYak_CAF1 41971 119 + 1
CCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAUUGCACUUUUGGCUCAAAAGGAUAUUGAAGGUUUCAAACUUCCAAUU-UUGGGCAGGUGUUAAAUUGAGGCAAUAAUUGGUAUG
(((....))).(((((.((((.(((((.(((((.((.((..((((((...))))))..)).)).)))))))))).))))....-....((.(((.....)))...)).....)))))... ( -30.90)
>DroAna_CAF1 30532 90 + 1
CCCA--UGAGAGUUCAAGGACCUAU--UGGCAGACAGGACAUUUUUUC-------AGUUAUUUCAUGUUUGAUGUGUUUAUUGACU----------UUUAUUUAACCAAAU---------
...(--(((((((.(((((((.(((--..(((((...(((........-------.)))...)).)).)..))).)))).))))))----------)))))..........--------- ( -13.60)
>consensus
CCCAAAUGGGAGCCAGAGGAAUUUUGAUGGCCUGCAGUGCACUUUUGGCUCAAAAGGAUAUUGCAGGUUUUAAAUUUCCAUUUCUUGGGCAGGUGUUAAAUUGAGGCAAUAAUUGGUAUA
(((....))).(((...((((.(((((.(((((((((((..((((((...))))))..)))))))))))))))).))))........(((....))).......)))............. (-21.83 = -23.57 +   1.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:44 2006