Locus 2846

Sequence ID	X_DroMel_CAF1
Location	7,597,954 – 7,598,070
Length	116
Max. P	0.732532

overview

Window 9

Location	7,597,954 – 7,598,053
Length	99
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	83.11
Mean single sequence MFE	-32.73
Consensus MFE	-24.50
Energy contribution	-24.75
Covariance contribution	0.25
Combinations/Pair	1.03
Mean z-score	-1.45
Structure conservation index	0.75
SVM decision value	-0.02
SVM RNA-class probability	0.524552
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7597954 99 + 22224390
-----------ACGGACAUC----CCC--GCUUUCGCUCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUCGAAUCAG
-----------.(((.....----.))--)....(((....)))(((.(((.........))))))((((((...))))))(((((..(((((((.....)))))))..))))).. ( -30.30)
>DroPse_CAF1 17991 96 + 1
-----------GCGGACAUC---------GCCCGGGGUCCAGCGGCAAGCCAAUUAAAUGGACUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCAAGGAACCA
-----------.(((.....---------..)))((.(((....(((..(((......)))..)))((((((...))))))......((((((((.....)))))))).))).)). ( -29.80)
>DroSim_CAF1 15783 99 + 1
-----------ACGGACAUC----CCC--GCUUUCGCUCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUCGAAUCAG
-----------.(((.....----.))--)....(((....)))(((.(((.........))))))((((((...))))))(((((..(((((((.....)))))))..))))).. ( -30.30)
>DroYak_CAF1 16563 109 + 1
GCAACGGACA-ACGGACAGC----CCC--GCUUUUGCUCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUGGAAUCAG
........((-(.(..((((----((.--(((........)))((....))........))))))..)))).........((((((..(((((((.....)))))))..)))))). ( -33.70)
>DroAna_CAF1 15671 111 + 1
-----GGACACAGGGACACCGGGACCGGGACACGAGGUCCAGCGGCAGGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUCGGAUCCG
-----.......((....)).((((((((...(.((((((((((((((.(((......))).))))((((((...))))))......))))).).)))).).....))))).))). ( -40.10)
>DroPer_CAF1 18540 96 + 1
-----------GCGGACAUC---------GCCCGGGGUCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCAAGGAACCA
-----------.(((.....---------..)))((.(((.(((((...(((......))))))))((((((...))))))......((((((((.....)))))))).))).)). ( -32.20)
>consensus
___________ACGGACAUC____CCC__GCUCGCGCUCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUCGAAUCAG
.............(((.....................))).(((((...(((......))))))))((((((...))))))(((((..(((((((.....)))))))..))))).. (-24.50 = -24.75 +   0.25)

alignment

secondary structure

dotplot

Window 0

Location	7,597,974 – 7,598,070
Length	96
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	86.61
Mean single sequence MFE	-28.39
Consensus MFE	-23.42
Energy contribution	-23.67
Covariance contribution	0.25
Combinations/Pair	1.04
Mean z-score	-2.03
Structure conservation index	0.82
SVM decision value	0.43
SVM RNA-class probability	0.732532
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7597974 96 + 22224390
UCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUCGAAUCAGCACCC---CCACCACAGCC-C
....((((....))........(((.(((((((((...))))))(((((..(((((((.....)))))))..))))).))).))---).......)).-. ( -30.00)
>DroPse_CAF1 18008 94 + 1
UCCAGCGGCAAGCCAAUUAAAUGGACUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCAAGGAACCAC-CCG---CAUCCCCAGCC--
....((((((..(((......)))..))).............(((.(((.((((((((.....))))))))..))).)))-.))---)..........-- ( -26.10)
>DroSec_CAF1 15236 96 + 1
UCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUCGAAUCAGU-CCC---CCACCUCACCCCU
....(((((...(((......))))))))((((((...))))))(((((..(((((((.....)))))))..)))))...-...---............. ( -26.40)
>DroSim_CAF1 15803 96 + 1
UCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUCGAAUCAGU-CCC---CAACCUCACCGCC
....((((..((..........(((((((((((((...)))))))((((..(((((((.....)))))))..))))))))-)).---....))..)))). ( -28.66)
>DroAna_CAF1 15703 93 + 1
UCCAGCGGCAGGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUCGGAUCCGC-CCCUCCGG--C----GCCG
.......((((.(((......))).))))((((((...))))))(((((..(((((((.....)))))))..)))))(((-(.....))--)----)... ( -32.60)
>DroPer_CAF1 18557 94 + 1
UCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCAAGGAACCAC-CCA---CAUCCCCAGCC--
....((((....)).......((((...(((((((...))))))).....((((((((.....)))))))).((......-)).---....)))))).-- ( -26.60)
>consensus
UCCAGCGGCAAGCCAAUUAAAUGGGCUGCACUUGAUUAUUAAGUGAUUUAUGCUGAGCACCUGGCUUAGCUCGAAUCAGC_CCC___CAACCCCAGCC__
....(((((...(((......))))))))((((((...))))))(((((..(((((((.....)))))))..)))))....................... (-23.42 = -23.67 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:57 2006