Locus 4433

Sequence ID 2L_DroMel_CAF1
Location 12,754,248 – 12,754,349
Length 101
Max. P 0.947903
window6973 window6974

overview

Window 3

Location 12,754,248 – 12,754,349
Length 101
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 85.40
Mean single sequence MFE -29.70
Consensus MFE -18.55
Energy contribution -18.59
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -2.00
Structure conservation index 0.62
SVM decision value 0.00
SVM RNA-class probability 0.536057
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12754248 101 + 22407834
UUGCAGAGUUAUGCAUAUUUCAUGUGCUGCUG-----CUGC------UGUGCUGC--CUUGGCUUAUGCUGCACAAAGCCUGAGCUCAUGUUCUCCCUAAUGCAACAGCAACAA
..(((((((...((((((...)))))).))).-----))))------(((((((.--...((((((.(((......))).))))))..(((..........))).)))).))). ( -29.30)
>DroSec_CAF1 31285 101 + 1
UUGCAGAGUUAUGCAUAUUUCAUGUGCUGCUG-----CUGC------UAUGCUGC--CUUGGCUUAUGCUGCACAAAGCCGGAGCUCAUGUUCUCCCUAAUGCAACAGCAACAA
..(((((((...((((((...)))))).))).-----))))------..(((((.--...(((....)))(((...((..(((((....)))))..))..)))..))))).... ( -29.40)
>DroSim_CAF1 31538 106 + 1
UUGCAGAGUUAUGCAUAUUUCAUGUGCUGCUGCUAUGCUGC------UAUGCUGC--CUUGGCUUAUGCUGCACAAAGCCGGAGCUCAUGUUCUCCCUAAUGCAACAGCAACAA
.((((......)))).....((((.(((.(.(((.((.(((------...((.((--....))....)).))))).))).).))).))))..........(((....))).... ( -28.70)
>DroEre_CAF1 32319 83 + 1
UUGCAGAGUUAUGCAUAUUUCAUGUGCUGCUA-----CUG--------------------------AGCUGCACAAAGCCGGAGCUCAUGCUCUCCCUAAUGCAACAGCAACAA
((((...((..(((((......(((((.(((.-----...--------------------------))).))))).((..(((((....)))))..)).))))))).))))... ( -24.30)
>DroYak_CAF1 31527 109 + 1
UUGCUGAGUUAUGCAUAUUUCAUGUGCUGCUG-----CUGCUGCUUCUGGGCUGCAGCUUGGCUUAUGCUGCACAAAGCCGGAGCUCAUGUUCUCUCUAAUGCAACAGCAACAA
((((((.....(((((......(((((....(-----((((.(((....))).)))))..(((....)))))))).((..(((((....)))))..)).))))).))))))... ( -36.80)
>consensus
UUGCAGAGUUAUGCAUAUUUCAUGUGCUGCUG_____CUGC______UAUGCUGC__CUUGGCUUAUGCUGCACAAAGCCGGAGCUCAUGUUCUCCCUAAUGCAACAGCAACAA
((((...((..(((((......(((((.((.....................................)).))))).((..(((((....)))))..)).))))))).))))... (-18.55 = -18.59 +   0.04)

alignment

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secondary structure

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dotplot

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Window 4

Location 12,754,248 – 12,754,349
Length 101
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 85.40
Mean single sequence MFE -34.64
Consensus MFE -22.52
Energy contribution -23.22
Covariance contribution 0.70
Combinations/Pair 1.00
Mean z-score -3.07
Structure conservation index 0.65
SVM decision value 1.38
SVM RNA-class probability 0.947903
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12754248 101 - 22407834
UUGUUGCUGUUGCAUUAGGGAGAACAUGAGCUCAGGCUUUGUGCAGCAUAAGCCAAG--GCAGCACA------GCAG-----CAGCAGCACAUGAAAUAUGCAUAACUCUGCAA
.((((((((((((......(((........)))..((((((.((.......))))))--))......------))))-----)))))))).........((((......)))). ( -35.30)
>DroSec_CAF1 31285 101 - 1
UUGUUGCUGUUGCAUUAGGGAGAACAUGAGCUCCGGCUUUGUGCAGCAUAAGCCAAG--GCAGCAUA------GCAG-----CAGCAGCACAUGAAAUAUGCAUAACUCUGCAA
.((((((((((((.....((((........)))).((((((.((.......))))))--))......------))))-----)))))))).........((((......)))). ( -38.60)
>DroSim_CAF1 31538 106 - 1
UUGUUGCUGUUGCAUUAGGGAGAACAUGAGCUCCGGCUUUGUGCAGCAUAAGCCAAG--GCAGCAUA------GCAGCAUAGCAGCAGCACAUGAAAUAUGCAUAACUCUGCAA
.(((.((((((((.....((((........)))).(((((((((.((..........--)).)))))------).)))...))))))))))).......((((......)))). ( -35.10)
>DroEre_CAF1 32319 83 - 1
UUGUUGCUGUUGCAUUAGGGAGAGCAUGAGCUCCGGCUUUGUGCAGCU--------------------------CAG-----UAGCAGCACAUGAAAUAUGCAUAACUCUGCAA
.((((((((((((((.((((.((((....))))...))))))))))).--------------------------...-----.))))))).........((((......)))). ( -26.30)
>DroYak_CAF1 31527 109 - 1
UUGUUGCUGUUGCAUUAGAGAGAACAUGAGCUCCGGCUUUGUGCAGCAUAAGCCAAGCUGCAGCCCAGAAGCAGCAG-----CAGCAGCACAUGAAAUAUGCAUAACUCAGCAA
.((((((((((((....(.(((........)))).(((((.((((((.........)))))).....))))).))))-----)))))))).........(((........))). ( -37.90)
>consensus
UUGUUGCUGUUGCAUUAGGGAGAACAUGAGCUCCGGCUUUGUGCAGCAUAAGCCAAG__GCAGCACA______GCAG_____CAGCAGCACAUGAAAUAUGCAUAACUCUGCAA
.((((((((((((((.((((((........))))..))..)))))))....((......))......................))))))).........((((......)))). (-22.52 = -23.22 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:38 2006