Locus 5922

Sequence ID	X_DroMel_CAF1
Location	15,277,734 – 15,277,857
Length	123
Max. P	0.828544

overview

Window 4

Location	15,277,734 – 15,277,830
Length	96
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	84.78
Mean single sequence MFE	-35.88
Consensus MFE	-27.98
Energy contribution	-27.70
Covariance contribution	-0.28
Combinations/Pair	1.14
Mean z-score	-1.72
Structure conservation index	0.78
SVM decision value	0.02
SVM RNA-class probability	0.544405
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15277734 96 - 22224390
GUCCU-------UGCCAGAUAGC--GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCGCAGCCGAAGGCGUUUGUCGACCCGGCAACCCGAACUUUAUC
.....-------.........((--.((((((((..((...((((((((((....)))))))))).(((...)))))..)))))))).))............... ( -38.50)
>DroPse_CAF1 103718 96 - 1
CACGC-------UGCCAGAUAGUGUGGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCACACCCGAAGGCGGUUGCCGACCCGAG--ACCGAAACUGAAU
(((((-------((.....)))))))((((((((((.(((.((((((((((....)))))))))).....))).))))...))))))...--............. ( -35.90)
>DroEre_CAF1 90236 96 - 1
GUCCA-------UGCCAGAUAGC--GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCGCAGCCGAAGGCGUUUGUCGACCCGACAACCCGAACUUUAUC
(((..-------(((......))--)((((((((..((...((((((((((....)))))))))).(((...)))))..)))))))))))............... ( -37.30)
>DroYak_CAF1 89652 96 - 1
GUCCU-------UGCCAGAUAGC--GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCGCAACCGAAGGCGUUUGUCGACCCGACAACCCGAACUUUAUC
(((..-------(((......))--)((((((((..((...((((((((((....))))))))))...(....).))..)))))))))))............... ( -33.50)
>DroAna_CAF1 88319 101 - 1
CUCCAGUGCCAGGGCCAGAUAGU--GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCAAAGCCGAAGGCGUUUGUCGACCCG--AACCCGAACUUUAUC
....(((....(((.((.....)--)((((((((..((....(((((((((....)))))))))..(((...)))))..)))))))).--..)))..)))..... ( -34.20)
>DroPer_CAF1 103501 96 - 1
CACGC-------UGCCAGAUAGUGUGGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCACACCCGAAGGCGGUUGCCGACCCGAG--ACCGAAACUGAAU
(((((-------((.....)))))))((((((((((.(((.((((((((((....)))))))))).....))).))))...))))))...--............. ( -35.90)
>consensus
CUCCA_______UGCCAGAUAGC__GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCACAGCCGAAGGCGUUUGUCGACCCGACAACCCGAACUUUAUC
..........................((((((((.......((((((((((....))))))))))((((....).))).)))))))).................. (-27.98 = -27.70 +  -0.28)

alignment

secondary structure

dotplot

Window 5

Location	15,277,759 – 15,277,857
Length	98
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	76.86
Mean single sequence MFE	-36.03
Consensus MFE	-24.23
Energy contribution	-24.82
Covariance contribution	0.59
Combinations/Pair	1.18
Mean z-score	-1.46
Structure conservation index	0.67
SVM decision value	0.71
SVM RNA-class probability	0.828544
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15277759 98 - 22224390
G--GGAGGGGGGUGG---G---GGGUGGCUAAGAGGUCCU-------UGCCAGAUAGC--GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCGCAGCCGAAGGCGUUUG
.--.......((..(---(---((.(........).))))-------..))....(((--.((.....)).)))..((((((((((....)))))))))).(((...)))..... ( -33.10)
>DroSec_CAF1 101795 101 - 1
GGGGGAGGGGGGUAG---G--GAGGGGGCCAAGAGGUCCU-------UGCCAGAUAGC--GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCGCAGCCGAAGGCGUUUG
...........((..---(--(..((((((....))))))-------..))..))(((--.((.....)).)))..((((((((((....)))))))))).(((...)))..... ( -35.90)
>DroEre_CAF1 90261 101 - 1
GCGCUGGCUGGAUCG---A--AGGGGGGCUAAGAGGUCCA-------UGCCAGAUAGC--GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCGCAGCCGAAGGCGUUUG
((.(((((((((((.---.--.((....))....))))))-------.)))))...))--...(((...(((((..((((((((((....)))))))))))))))..)))..... ( -40.80)
>DroYak_CAF1 89677 93 - 1
---------GGAUCUA--A--AGAGGGGCUAAGAGGUCCU-------UGCCAGAUAGC--GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCGCAACCGAAGGCGUUUG
---------((.....--.--..(((((((....))))))-------)(((((.((((--...)))).)))))...((((((((((....))))))))))..))........... ( -32.20)
>DroAna_CAF1 88342 111 - 1
--CGUGGCGGGAUGGCAGGAUGGCGGGCCGGAGUGCUCCAGUGCCAGGGCCAGAUAGU--GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCAAAGCCGAAGGCGUUUG
--(.((((.(((..(((...(((....)))...))))))...)))).)(((.......--.((.....))(((((..(((((((((....))))))))))))))...)))..... ( -39.30)
>DroPer_CAF1 103524 100 - 1
GCGUC--CGAGAA-G---G--UAGAGGGUAGAGCACACGC-------UGCCAGAUAGUGUGGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCACACCCGAAGGCGGUUG
((..(--(.....-)---)--....((((.((((.(((((-------((.....)))))))((.....)).)))).((((((((((....))))))))))))))....))..... ( -34.90)
>consensus
G_GGG_GCGGGAUCG___G__AGGGGGGCUAAGAGGUCCU_______UGCCAGAUAGC__GGGGUUGACUGGCUUAGUGACUUGGUCAGAGCUAAGUCGCAGCCGAAGGCGUUUG
.........................(((((....))))).........(((((.((((.....)))).)))))...((((((((((....))))))))))((((....).))).. (-24.23 = -24.82 +   0.59)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:42 2006