Locus 7798

Sequence ID	2L_DroMel_CAF1
Location	22,009,346 – 22,009,454
Length	108
Max. P	0.650340

overview

Window 0

Location	22,009,346 – 22,009,454
Length	108
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	83.21
Mean single sequence MFE	-36.44
Consensus MFE	-27.98
Energy contribution	-27.02
Covariance contribution	-0.97
Combinations/Pair	1.32
Mean z-score	-1.58
Structure conservation index	0.77
SVM decision value	0.12
SVM RNA-class probability	0.593408
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22009346 108 + 22407834
UGUUCCAGCAGCAGUAGCUCCACCUCCAGCUCUUCAAACUCCUCGAAAUCAGAGUUAAAUAUGCUAAUUAAGGAAACUAUGCCCCUUCCCAGGAAAUUGGUGAGGGGU
......(((((.((.((((........)))))).).(((((..........))))).....)))).....((....))..((((((..((((....))))..)))))) ( -29.10)
>DroVir_CAF1 41170 99 + 1
UGCUC---CAGCAGCAGCUCG------ACCUCCUCCAGCUCGUCCAAGUCCGAGCUGAACAUGCUCAUCAAGGAGACAAUGCCGCUGCCCAGGAAGCUGGUGCGCGGC
(((((---(((((.(((((((------..((...............))..)))))))....))))......)))).))..(((((.((((((....)))).))))))) ( -39.36)
>DroPse_CAF1 70272 108 + 1
UGCUCCAGCAGCAGCAGCACCUCCACCACCUCCUCGAACUCCUCCAAAUCGGAGCUGAAUAUGCUCAUCAAGGAAACGAUGCCGCUGCCCCGGAAGCUGGUGCGCGGC
.((.(((((.(((((.(((.((((..........(((...........)))((((.......)))).....)))...).))).))))).......))))).))..... ( -30.90)
>DroMoj_CAF1 55281 102 + 1
UGCUCGAGCAGCAGCAGCUCC------AACUCGUCCAGCUCGUCCAAGUCGGAGCUGAACAUGCUCAUCAAGGAGACGAUGCCGCUGCCCCGGAAGCUGGUGCGCGGC
.....(((((....(((((((------.(((.(..(.....)..).))).)))))))....))))).....(....)...(((((.((.((((...)))).))))))) ( -42.40)
>DroAna_CAF1 51003 108 + 1
UGCUCCAGCAGCAGCAGCUCCACCUCCAGCUCCUCCAACUCCUCCAAGUCGGAGCUGAACAUGCUGAUCAAGGAGACGAUGCCGCUGCCCAGGAAACUGGUGCGCGGC
..((((..(((((.(((((((..((.....................))..)))))))....))))).....)))).....(((((.((((((....)))).))))))) ( -45.60)
>DroPer_CAF1 71079 108 + 1
UGCUCCAGCAGCAGCAGCACCUCCACCACAUCCUCGAACUCCUCCAAAUCGGAGCUGAAUAUGCUCAUCAAGGAAACGAUGCCGCUGCCCCGGAAGCUGGUGCGCGGC
.((.(((((..(.(((((..........(((..(((..((((........)))).)))..)))..((((..(....)))))..)))))....)..))))).))..... ( -31.30)
>consensus
UGCUCCAGCAGCAGCAGCUCC_CC_CCACCUCCUCCAACUCCUCCAAAUCGGAGCUGAACAUGCUCAUCAAGGAAACGAUGCCGCUGCCCAGGAAGCUGGUGCGCGGC
.........((((.(((((((.............................)))))))....))))......(....)...(((((.((((.(....).)).))))))) (-27.98 = -27.02 +  -0.97)

alignment

secondary structure

dotplot

Window 1

Location	22,009,346 – 22,009,454
Length	108
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	83.21
Mean single sequence MFE	-46.00
Consensus MFE	-31.36
Energy contribution	-31.53
Covariance contribution	0.17
Combinations/Pair	1.37
Mean z-score	-2.14
Structure conservation index	0.68
SVM decision value	0.24
SVM RNA-class probability	0.650340
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 22009346 108 - 22407834
ACCCCUCACCAAUUUCCUGGGAAGGGGCAUAGUUUCCUUAAUUAGCAUAUUUAACUCUGAUUUCGAGGAGUUUGAAGAGCUGGAGGUGGAGCUACUGCUGCUGGAACA
..((((..(((......)))..))))(((((((((((((...((((...(((((((((........)))).)))))..)))).))).))))))).))).......... ( -32.50)
>DroVir_CAF1 41170 99 - 1
GCCGCGCACCAGCUUCCUGGGCAGCGGCAUUGUCUCCUUGAUGAGCAUGUUCAGCUCGGACUUGGACGAGCUGGAGGAGGU------CGAGCUGCUGCUG---GAGCA
...........(((((...(((((((((.(((((((((((((......)))(((((((........)))))))))))))).------)))))))))))))---)))). ( -45.40)
>DroPse_CAF1 70272 108 - 1
GCCGCGCACCAGCUUCCGGGGCAGCGGCAUCGUUUCCUUGAUGAGCAUAUUCAGCUCCGAUUUGGAGGAGUUCGAGGAGGUGGUGGAGGUGCUGCUGCUGCUGGAGCA
.....((.(((((..(.(.((((.(..(((((..(((((((((((....))))(((((........))))))))))))..)))))..).)))).).)..))))).)). ( -47.90)
>DroMoj_CAF1 55281 102 - 1
GCCGCGCACCAGCUUCCGGGGCAGCGGCAUCGUCUCCUUGAUGAGCAUGUUCAGCUCCGACUUGGACGAGCUGGACGAGUU------GGAGCUGCUGCUGCUCGAGCA
(((((......)).....((((((((((.(((((.....)))))........((((((((((((..(.....)..))))))------))))))))))))))))).)). ( -50.20)
>DroAna_CAF1 51003 108 - 1
GCCGCGCACCAGUUUCCUGGGCAGCGGCAUCGUCUCCUUGAUCAGCAUGUUCAGCUCCGACUUGGAGGAGUUGGAGGAGCUGGAGGUGGAGCUGCUGCUGCUGGAGCA
.....((.(((((......(((((((((..(..((((......(((.(.(((((((((........))))))))).).)))))))..)..)))))))))))))).)). ( -52.60)
>DroPer_CAF1 71079 108 - 1
GCCGCGCACCAGCUUCCGGGGCAGCGGCAUCGUUUCCUUGAUGAGCAUAUUCAGCUCCGAUUUGGAGGAGUUCGAGGAUGUGGUGGAGGUGCUGCUGCUGCUGGAGCA
.....((.(((((......((((((((((((...(((.......((((.(((((((((........)))))).))).))))...)))))))))))))))))))).)). ( -47.40)
>consensus
GCCGCGCACCAGCUUCCGGGGCAGCGGCAUCGUCUCCUUGAUGAGCAUAUUCAGCUCCGACUUGGAGGAGUUGGAGGAGGUGG_GG_GGAGCUGCUGCUGCUGGAGCA
.....((.(((((......(((((((((.(((((.....))))).....(((((((((........)))))).)))..............)))))))))))))).)). (-31.36 = -31.53 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:08 2006