Locus 3607

Sequence ID 2L_DroMel_CAF1
Location 10,517,831 – 10,518,020
Length 189
Max. P 0.618053
window5695 window5696

overview

Window 5

Location 10,517,831 – 10,517,951
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.89
Mean single sequence MFE -41.55
Consensus MFE -21.27
Energy contribution -21.97
Covariance contribution 0.70
Combinations/Pair 1.36
Mean z-score -2.13
Structure conservation index 0.51
SVM decision value 0.17
SVM RNA-class probability 0.618053
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10517831 120 - 22407834
GGGUGCAUAUCUCGAAGCUCAGCUUCACUAGCUGGCUGUUGUUGAUGGUCAGCGAUUUGAGGGUGCGCGGAAAUCCCUUGAUGGGAUACUCGCUCCGCUUGCUGAUUACCAUGCGCACCU
((((((.........(((.(((((.....))))))))((...((.((((((((((.....(((.(((.(...(((((.....))))).).))))))..)))))))))).)).)))))))) ( -48.30)
>DroVir_CAF1 6960 120 - 1
GCGUACAAAUCUCAAAGCUGAGCUUCAUCAAUUGGAUAUUGUUGAUGGUCAGCGAUUUGAGAGUGCGCGGAAAACCUUUAACUGGAUAUUCGCUGCGUUUAUUGAUGGUCAUGCGCAGCU
((((((...((((((.(((((.(.(((.((((.....)))).))).).)))))...))))))))))))(((...((.......))...)))(((((((....((.....)).))))))). ( -44.00)
>DroGri_CAF1 6781 120 - 1
GCGUGCAAAUCUCAAAGCUGAGCUUCAUCAACUGUAUAUUGUUGAUGCUCAGAGAUUUGAGAGUUCGCGGAAAACCUUUAAUGGGGUAUUCGCUGCGCUUGUUGAUUGACAUACGCUGCU
.((((.((.(((((((.((((((...((((((........))))))))))))...))))))).))))))(((.(((((....))))).)))((.(((..((((....))))..))).)). ( -45.50)
>DroMoj_CAF1 8495 120 - 1
GCGUGCAAAUCUCGAAGCUCAGCUUCACCAAUUGAAUAUUUUUGAUGGUCAGCGAUUUGAGGGUGCGCGGAAAACCUUUGAUGGGAUACUCGCUACGCUUGUUGAUUGUCAUGCGCAGCU
(((((((......(((((...)))))................(((..((((((.....(((.(((.((((....(((.....)))....))))))).)))))))))..)))))))).)). ( -37.00)
>DroAna_CAF1 6302 120 - 1
GCGAGCAUAUCUCGAAACUGAGCUUCACCAGUUGACUGUUGUUGAUUGUUAACGACUUCAGGGUGCGUGGAAAACCCUUUAUGGGAUACUCGCUCCUCUUGCUGAUGACCAUGCGCACCU
.((((.....)))).(((((........)))))((..((((((((...)))))))).))(((((((((((....(((.....)))......((.......))......)))))))).))) ( -35.70)
>DroPer_CAF1 5538 120 - 1
GCGUGCAGAUCUCAAAGCUGAGUUUAACCAGCUGGCUGUUGUUUAUGGUCAGAGACUUGAGGGUCCGAGGGAAGCCCUUGAUGGGGUAUUCACUGCGCUUGCUGACCACCAUCCUCUGCU
....(((((((((..(((((........)))))((((((.....)))))).))))..((..((((..(((((.(((((....))))).))).))((....)).))))..))...))))). ( -38.80)
>consensus
GCGUGCAAAUCUCAAAGCUGAGCUUCACCAACUGGAUAUUGUUGAUGGUCAGCGAUUUGAGGGUGCGCGGAAAACCCUUGAUGGGAUACUCGCUGCGCUUGCUGAUUACCAUGCGCAGCU
(((((((..(((((((.((((.(.(((.((((.....)))).))).).))))...)))))))....((((....(((.....)))....))))..................))))).)). (-21.27 = -21.97 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 10,517,911 – 10,518,020
Length 109
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 88.51
Mean single sequence MFE -37.32
Consensus MFE -29.22
Energy contribution -29.58
Covariance contribution 0.36
Combinations/Pair 1.16
Mean z-score -2.36
Structure conservation index 0.78
SVM decision value 0.10
SVM RNA-class probability 0.582646
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10517911 109 - 22407834
--GAUAACUAAUUAGUCAAUCCACCUUGGUCAGCUUGUUACCGCUGACAUCCAGCUUUGUGAGGUUGCGCAGGGUGCAUAUCUCGAAGCUCAGCUUCACUAGCUGGCUGUU
--..........................((((((........))))))..((((((..(((((((((.((.(((.......)))...)).))))))))).))))))..... ( -36.80)
>DroSec_CAF1 6245 109 - 1
--GAUAACUUAAUGGUCAAUCCACCUUGGUCAGCUUGUUACCGCUGACAUCCAGCUUGGUGAGGUUGCGCAAGGUGCAUAUCUCGAAGCUCAGCUUCACCAGCUGGCUGUU
--(.((((....((..(((......)))..))....)))).)...((((.((((((.((((((((((.((.((((....))))....)).)))))))))))))))).)))) ( -40.30)
>DroSim_CAF1 6252 109 - 1
--GAUAACAUAAUGGUCAAUCCACCUUGGUCAGCUUGUUACCGCUGACAUCCAGCUUGGUGAGGUUGCGCAGGGUGCAUAUCUCGAAGCUCAGCUUCACUAGCUGGCUGUU
--(.(((((...((..(((......)))..))...))))).)...((((.((((((.((((((((((.((.(((.......)))...)).)))))))))))))))).)))) ( -41.70)
>DroEre_CAF1 6371 109 - 1
--GAUAACUUAUUGGCCAACCCACCUUGGUCAGCUUGUUACCGCUGAUAUCCAGCUUUGUGAGGUUGCGCAGGGUGCAUAUCUCGAAGCUCAGCUUCACCAGCUGGCUGUU
--(.((((...((((((((......))))))))...)))).)...((((.((((((..(((((((((.((.(((.......)))...)).))))))))).)))))).)))) ( -38.70)
>DroYak_CAF1 6430 109 - 1
--GAUAACUUAUUGGUCAAUCCACCUUGGUCAGCUUGUUACCGCUGACAUCCAGCUUUGUGAGGUUGCGCAGGGUGCAUAUUUCGAAGCUCAGCUUCACCAGCUGGCUGUU
--(.((((...(((..(((......)))..)))...)))).)...((((.((((((..(((((((((.((.(((.......)))...)).))))))))).)))))).)))) ( -35.50)
>DroMoj_CAF1 8575 110 - 1
UUGA-AAUUGAUUUGUAUGGUAACCUGGGUUAGCUUGUUGCCGCUGAUAUCGAGCGUUGUUAGGUUGCGCAGCGUGCAAAUCUCGAAGCUCAGCUUCACCAAUUGAAUAUU
....-....(((((((((((((((((((....(((((.............)))))....)))))))))....))))))))))..(((((...))))).............. ( -30.92)
>consensus
__GAUAACUUAUUGGUCAAUCCACCUUGGUCAGCUUGUUACCGCUGACAUCCAGCUUUGUGAGGUUGCGCAGGGUGCAUAUCUCGAAGCUCAGCUUCACCAGCUGGCUGUU
............................((((((........))))))..(((((...(((((((((.((.(((.......)))...)).)))))))))..)))))..... (-29.22 = -29.58 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:46 2006