Locus 7353

Sequence ID dm3.chr3L
Location 14,226,993 – 14,227,092
Length 99
Max. P 0.792126
window10127 window10128

overview

Window 7

Location 14,226,993 – 14,227,089
Length 96
Sequences 14
Columns 120
Reading direction reverse
Mean pairwise identity 63.85
Shannon entropy 0.72812
G+C content 0.45255
Mean single sequence MFE -33.76
Consensus MFE -7.33
Energy contribution -7.30
Covariance contribution -0.02
Combinations/Pair 2.17
Mean z-score -2.23
Structure conservation index 0.22
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.70
SVM RNA-class probability 0.792126
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 14226993 96 - 24543557
------------------AUCAUUAGGAAUGCCACGGUUUGGAAUU-CCAUGAUUAGGGAUUCCAGGAUUUGGAAUUCCAUGAUUAGGAAUGCCAGGAUUUGGGAUUCCAUCAUU-----
------------------.......(((((.(((...(((((.(((-((.((((((((((((((((...)))))))))).))))))))))).)))))...))).)))))......----- ( -39.40, z-score =  -4.14, R)
>droSim1.chr3L 13582239 96 - 22553184
------------------AUCAUUAGGAAUGCCACGGUUUGGAAUU-CCAUGAUUAGGGAUUCCAGGAUUGGGAAUACCAUGAUUAGGAAUGCCAGGAUUUGGGAUUCCAUCAUU-----
------------------.......(((((.(((...(((((.(((-((.((((((.(((((((.......))))).)).))))))))))).)))))...))).)))))......----- ( -34.80, z-score =  -2.88, R)
>droSec1.super_0 6372845 96 - 21120651
------------------AUCAUUAGGAAUGCCACGGUUUGGAAUU-CCAUGAUUAGGGAUUCCAGGAUUGGGAAUUCCAUGAUUAGGAAUGCCAGGAUUUGGGAUUCCAUCAUU-----
------------------.......(((((.(((...(((((.(((-((.((((((((((((((.......)))))))).))))))))))).)))))...))).)))))......----- ( -38.40, z-score =  -3.64, R)
>droEre2.scaffold_4784 14219166 101 - 25762168
------------------AUCAUUAGGAAUGCCGCGGUUUGGAAUU-CCAUGAUUAGGGAUUCCAGGAUUGGGAAUUCCAUGAUUGGGAAUGCCAGGAUUCGGGAUUCCAUCAUUAGGAA
------------------.......(((((.(((...(((((.(((-((.((((((((((((((.......)))))))).))))))))))).)))))...))).)))))........... ( -38.10, z-score =  -2.62, R)
>droYak2.chr3L 14324561 96 - 24197627
------------------AUCAUUAGGAAUGCCACGGUUGGGAAUU-CCAUGAUUAGGGAUUCCAGGAUUGGGAAUUCCAUGAUUGGGGAUUCCAGGAUUCGGGAUUCCAUCGUU-----
------------------.......(((((.((.......((((((-((.......)))))))).(((((.((((((((.......))))))))..))))))).)))))......----- ( -37.20, z-score =  -2.33, R)
>droAna3.scaffold_13337 18466010 96 + 23293914
------------------AUCAUUAGGAAUGCCACGAUUCGGAAUG-CCAUGAUUGGGGAUACCAGGAUUGGGAAUUCCAUGAUUGGGGAUACCAGGAUUGGGAAUACCGUCAAU-----
------------------.......((.((.((.(((((((((((.-(((...((((.....))))...)))..))))).....(((.....))))))))))).)).))......----- ( -28.20, z-score =  -0.69, R)
>dp4.chrXR_group6 6916498 96 - 13314419
------------------UUCGUUGGGAAUGCCAGGAUUUGGUAUU-CCCCUAUUGGGGAUACCAGGAUUUGGGAUUCCUUCGUUGGGAAUGCCAGGAUUUGGGAUUCCUUCGUU-----
------------------..((..((((((.(((((.((((((((.-((((....)))))))))))).(((((.((((((.....)))))).))))).))))).)))))).))..----- ( -44.10, z-score =  -3.81, R)
>droPer1.super_41 274448 96 - 728894
------------------UUCGUUGGGAAUGCCAGGAUUCGGUAUU-CCUACAUUGGGGAUGCCAGGAUUUGGGAUUCCUUCGUUGGGAAUGCCAGGAUUCGGUAUUCCUACAUU-----
------------------...((.(((((((((.((((((((((((-((((....((((((.((((...)))).))))))....)))))))))).)))))))))))))))))...----- ( -46.60, z-score =  -5.49, R)
>droWil1.scaffold_180949 3514038 96 - 6375548
------------------UGGGUUUGGUAUACCUGGAUUGGGUAGA-CCGCGAUUUGGGAUUCCUGGAUUGGGAAUGCCUUCGUUGGGGAUGCCAGGAUUGGGUAGACCACGGUU-----
------------------......((((.((((..(.(..((((..-((((((...((.((((((.....)))))).)).))))..))..))))..).)..)))).)))).....----- ( -37.10, z-score =  -2.62, R)
>droMoj3.scaffold_6680 8059378 96 + 24764193
------------------AGGAUUGGGCAUGCCGCGGUUUGGAAUG-CCAGGAUUGGGCAUACCGGGAUUAGGAAUGCCCGGGUUUGGCAUGCCAGGAUUUUCGAUUCCAGGAUU-----
------------------.......((((((((..(((.......)-))....((((((((.((.......)).))))))))....)))))))).(((........)))......----- ( -37.50, z-score =  -1.97, R)
>droGri2.scaffold_15110 21437788 96 - 24565398
------------------AGGAUUGGGCAUACCACGAGUUUCGAUU-CCAGGAUUGGGCAUGCCAGGAGUAGGGACUCCAGGAUUGAGCAUGCCAGGAAGCGGGACUCCAGGAUU-----
------------------.....(((.....))).((((..((.((-((.......((((((((((((((....))))).....)).))))))).)))).))..)))).......----- ( -34.90, z-score =  -2.24, R)
>anoGam1.chr3R 30836173 96 + 53272125
------------------GCGACCAAGAAGUUUGCGACCAAGAAUU-UUGCGACCAAGCAGUUUGCGAUCAGGAAUUUUACGACUAAGAAUUUUGCGACCAAGAAAUUUGCGAUC-----
------------------((((.(..(((((((........)))))-))((......)).).))))((((.((((((((.......))))))))((((.........))))))))----- ( -14.90, z-score =   0.96, R)
>droVir3.scaffold_13049 3121581 87 + 25233164
---------------------------CAAGCUGUGGUUUUCGACU-CCCGGCUUCGGUAUACCAUGAUUUGGUACGCCAGAAUUGGGUAUAUUAUGAUUGGGUACUCCGGGAUU-----
---------------------------.((((((.((.........-))))))))(((..((((.((((((((((..((.......))..))))).)))))))))..))).....----- ( -23.50, z-score =  -0.15, R)
>apiMel3.Group2 14092252 115 + 14465785
AUUGUUCAAAAUUUAAAAAUCGUUCGAAAUUCAAUCAUUCAAUUUGAAUUCAAUUCAAAAUUCGAUCAUUCAAAAUUCGAUCAUUCAAAAUUUGAUCGUUCGAAAUUCGAUCGUU-----
....................((.(((((.(((...........(((((((........)))))))............((((((.........))))))...))).))))).))..----- ( -17.90, z-score =   0.47, R)
>consensus
__________________AUCAUUAGGAAUGCCACGAUUUGGAAUU_CCAUGAUUAGGGAUUCCAGGAUUGGGAAUUCCAUGAUUGGGAAUGCCAGGAUUCGGGAUUCCAUCAUU_____
........................................................((.(((((.......((....)).......))))).)).(((........)))........... ( -7.33 =  -7.30 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,226,993 – 14,227,092
Length 99
Sequences 14
Columns 118
Reading direction reverse
Mean pairwise identity 62.04
Shannon entropy 0.80540
G+C content 0.45725
Mean single sequence MFE -34.47
Consensus MFE -6.92
Energy contribution -6.89
Covariance contribution -0.03
Combinations/Pair 2.14
Mean z-score -1.83
Structure conservation index 0.20
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.546749
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 14226993 99 - 24543557
UCCAUCAUUAGGAAUGCCACG---GUUUGGAAUUCCAUGAUUAGGGAU-UCCAGGAUUUGGAAUUCCAUGAUUAGGAAUGCCAGGAUUUGGGAUUCCAUCAUU---------------
..........(((((.(((..---.(((((.(((((.(((((((((((-(((((...)))))))))).))))))))))).)))))...))).)))))......--------------- ( -39.40, z-score =  -3.52, R)
>droSim1.chr3L 13582239 99 - 22553184
UCCAUCAUUAGGAAUGCCACG---GUUUGGAAUUCCAUGAUUAGGGAU-UCCAGGAUUGGGAAUACCAUGAUUAGGAAUGCCAGGAUUUGGGAUUCCAUCAUU---------------
..........(((((.(((..---.(((((.(((((.((((((.((((-(((.......))))).)).))))))))))).)))))...))).)))))......--------------- ( -34.80, z-score =  -2.23, R)
>droSec1.super_0 6372845 99 - 21120651
UCCAUCAUUAGGAAUGCCACG---GUUUGGAAUUCCAUGAUUAGGGAU-UCCAGGAUUGGGAAUUCCAUGAUUAGGAAUGCCAGGAUUUGGGAUUCCAUCAUU---------------
..........(((((.(((..---.(((((.(((((.(((((((((((-(((.......)))))))).))))))))))).)))))...))).)))))......--------------- ( -38.40, z-score =  -2.99, R)
>droEre2.scaffold_4784 14219169 101 - 25762168
UCCAUCAUUAGGAAUGCCGCG---GUUUGGAAUUCCAUGAUUAGGGAU-UCCAGGAUUGGGAAUUCCAUGAUUGGGAAUGCCAGGAUUCGGGAUUCCAUCAUUAG-------------
..........(((((.(((..---.(((((.(((((.(((((((((((-(((.......)))))))).))))))))))).)))))...))).)))))........------------- ( -38.10, z-score =  -2.37, R)
>droYak2.chr3L 14324561 99 - 24197627
UCCAUCAUUAGGAAUGCCACG---GUUGGGAAUUCCAUGAUUAGGGAU-UCCAGGAUUGGGAAUUCCAUGAUUGGGGAUUCCAGGAUUCGGGAUUCCAUCGUU---------------
..........(((((.((...---....((((((((.......)))))-))).(((((.((((((((.......))))))))..))))))).)))))......--------------- ( -37.20, z-score =  -1.58, R)
>droAna3.scaffold_13337 18466010 99 + 23293914
UCCAUCAUUAGGAAUGCCACG---AUUCGGAAUGCCAUGAUUGGGGAU-ACCAGGAUUGGGAAUUCCAUGAUUGGGGAUACCAGGAUUGGGAAUACCGUCAAU---------------
((((((((..(((((.((.((---((((((.((.((.......)).))-.)).)))))))).))))))))))(((.....))))))..((.....))......--------------- ( -28.60, z-score =  -0.02, R)
>dp4.chrXR_group6 6916498 99 - 13314419
UCCUUCGUUGGGAAUGCCAGG---AUUUGGUAUUCCCCUAUUGGGGAU-ACCAGGAUUUGGGAUUCCUUCGUUGGGAAUGCCAGGAUUUGGGAUUCCUUCGUU---------------
.....((..((((((.(((((---.((((((((.((((....))))))-)))))).(((((.((((((.....)))))).))))).))))).)))))).))..--------------- ( -44.10, z-score =  -3.09, R)
>droPer1.super_41 274448 99 - 728894
UCCUUCGUUGGGAAUGCCAGG---AUUCGGUAUUCCUACAUUGGGGAU-GCCAGGAUUUGGGAUUCCUUCGUUGGGAAUGCCAGGAUUCGGUAUUCCUACAUU---------------
......((.(((((((((.((---((((((((((((((....((((((-.((((...)))).))))))....)))))))))).)))))))))))))))))...--------------- ( -46.60, z-score =  -4.71, R)
>droWil1.scaffold_180949 3514038 99 - 6375548
--------------ACCUG-G---GUUUGGUAUACCUGGAUUGGGUAG-ACCGCGAUUUGGGAUUCCUGGAUUGGGAAUGCCUUCGUUGGGGAUGCCAGGAUUGGGUAGACCACGGUU
--------------(((..-(---.((((((((.((..(...(((((.-.((.(((((..((...))..)))))))..)))))...)..)).)))))))).)..))).(((....))) ( -40.30, z-score =  -2.80, R)
>droMoj3.scaffold_6680 8059378 99 + 24764193
UCCAGGAUUGGGCAUGCCGCG---GUUUGGAAUGCCAGGAUUGGGCAU-ACCGGGAUUAGGAAUGCCCGGGUUUGGCAUGCCAGGAUUUUCGAUUCCAGGAUU---------------
(((.......((((((((..(---((.......)))....((((((((-.((.......)).))))))))....)))))))).(((........))).)))..--------------- ( -40.60, z-score =  -2.09, R)
>droGri2.scaffold_15110 21437788 99 - 24565398
UCCAGGAUUGGGCAUACCACG---AGUUUCGAUUCCAGGAUUGGGCAU-GCCAGGAGUAGGGACUCCAGGAUUGAGCAUGCCAGGAAGCGGGACUCCAGGAUU---------------
(((.....(((.....))).(---(((..((.((((.......(((((-(((((((((....))))).....)).))))))).)))).))..))))..)))..--------------- ( -38.00, z-score =  -2.54, R)
>anoGam1.chr3R 30836173 99 + 53272125
UUUGCGACCAAGAAGUUUGCG---ACCAAGAAUUUUGCGACCAAGCAG-UUUGCGAUCAGGAAUUUUACGACUAAGAAUUUUGCGACCAAGAAAUUUGCGAUC---------------
...((((.(..(((((((...---.....)))))))((......)).)-.))))((((.((((((((.......))))))))((((.........))))))))--------------- ( -14.90, z-score =   1.14, R)
>droVir3.scaffold_13049 3121581 87 + 25233164
------------CAAGCUGUG---GUUUUCGACUCCCGGCUUCGGUAU-ACCAUGAUUUGGUACGCCAGAAUUGGGUAUAUUAUGAUUGGGUACUCCGGGAUU---------------
------------.((((((.(---(.........))))))))(((..(-(((.((((((((((..((.......))..))))).)))))))))..))).....--------------- ( -23.50, z-score =  -0.15, R)
>apiMel3.Group2 14092252 118 + 14465785
UCGAUUGUUCAAAAUUUAAAAAUCGUUCGAAAUUCAAUCAUUCAAUUUGAAUUCAAUUCAAAAUUCGAUCAUUCAAAAUUCGAUCAUUCAAAAUUUGAUCGUUCGAAAUUCGAUCGUU
.(((((..............))))).(((((.(((...........(((((((........)))))))............((((((.........))))))...))).)))))..... ( -18.14, z-score =   1.31, R)
>consensus
UCCAUCAUUAGGAAUGCCACG___GUUUGGAAUUCCAUGAUUAGGGAU_ACCAGGAUUGGGAAUUCCAUGAUUGGGAAUGCCAGGAUUCGGGAUUCCAUCAUU_______________
............................(((...((.......((.....)).......((.(((((.......))))).)).......))...)))..................... ( -6.92 =  -6.89 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:25:21 2011