Locus 6559

Sequence ID	3L_DroMel_CAF1
Location	17,354,131 – 17,354,230
Length	99
Max. P	0.951910

overview

Window 8

Location	17,354,131 – 17,354,230
Length	99
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	79.08
Mean single sequence MFE	-27.73
Consensus MFE	-16.46
Energy contribution	-16.65
Covariance contribution	0.19
Combinations/Pair	1.08
Mean z-score	-2.56
Structure conservation index	0.59
SVM decision value	1.42
SVM RNA-class probability	0.951910
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17354131 99 + 23771897
AC-CGAUCGUAUCAA-AUUCAAUGGACG-AUUGAAUU--UGAUCGAUGCCAA-GC-----U---AAGUUGGUUU-----AACUUCUAGGUCGAGUGUGGAAUACCAACUAAAGCAUCA
..-..((((.(((((-(((((((.....-))))))))--)))))))).....-((-----(---.(((((((..-----...(((((.(.....).))))).)))))))..))).... ( -29.30)
>DroVir_CAF1 43200 106 + 1
GUACGAUCGUAUCAAAAUUCAAUGGUCA-AUUGAAUUUUUGAUCGAUGCCAA-GC-----AAAAAAGUUGCUUC-----AACUUCUGGGUCGACACUGGGCUAGCAACUAAAGCAUCA
....(((((....((((((((((.....-)))))))))))))))(((((.((-((-----((.....)))))).-----.....((((.(((....))).))))........))))). ( -27.60)
>DroGri_CAF1 34053 93 + 1
UC-CGAUCGUAUCAAAAUUCAAUGGUCA-AUUGAAUUUUUGAUCGAUGCCAA-GC-----AGAAAAGUUGCCUC-----AA------------CACUGGGCUAGCAACUAAAGCAUCA
..-.(((((....((((((((((.....-)))))))))))))))((((((..-..-----.)...(((((((((-----(.------------...))))...))))))...))))). ( -25.00)
>DroWil_CAF1 40996 112 + 1
AC-CGAUCGUAUCAAAAUUCAAUGGUCAAAUUGAAUU--UGAUCGAUGCCCAAACUUUUGU---UGGUUGGUUUAUUUAAACUUCUAGGUCGAGUGUGGGAUACCAACUAAAGCAUCA
..-.(((((......((((((((......))))))))--)))))(((((.(((....)))(---((((((((..((((..((((.......))))...))))))))))))).))))). ( -27.90)
>DroMoj_CAF1 48053 105 + 1
GU-CGAUCGUAUCAAAAUUCAAUGGUCA-AUUGAAUUUUGGAUCGAUGCUGA-GC-----AAAAAAAUUGCCUC-----AACUUCUGGGUCGACUCUGGGCUAGCAACUAAAGCAUCA
..-.((((....(((((((((((.....-)))))))))))))))((((((((-((-----((.....))).)))-----.....((((.(((....))).)))).......)))))). ( -30.40)
>DroPer_CAF1 37447 100 + 1
AC-CGAUCGUAUCAAAAUUCAAUGGUCA-AUUGAAUU--UGAUCGAUGCCCA-GC-----U---AAGUUGGUUU-----AACUUCUAGGUCGAGUGUGGAAUACCAACUAAAGCAUCA
..-..((((.((((((.((((((.....-))))))))--)))))))).....-((-----(---.(((((((..-----...(((((.(.....).))))).)))))))..))).... ( -26.20)
>consensus
AC_CGAUCGUAUCAAAAUUCAAUGGUCA_AUUGAAUU__UGAUCGAUGCCAA_GC_____A___AAGUUGCUUC_____AACUUCUAGGUCGACUCUGGGAUACCAACUAAAGCAUCA
....(((((......((((((((......))))))))..)))))(((((................(((((((..............................)))))))...))))). (-16.46 = -16.65 +   0.19)

alignment

secondary structure

dotplot

Window 9

Location	17,354,131 – 17,354,230
Length	99
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	79.08
Mean single sequence MFE	-25.62
Consensus MFE	-18.94
Energy contribution	-18.36
Covariance contribution	-0.58
Combinations/Pair	1.15
Mean z-score	-1.90
Structure conservation index	0.74
SVM decision value	1.15
SVM RNA-class probability	0.922557
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17354131 99 - 23771897
UGAUGCUUUAGUUGGUAUUCCACACUCGACCUAGAAGUU-----AAACCAACUU---A-----GC-UUGGCAUCGAUCA--AAUUCAAU-CGUCCAUUGAAU-UUGAUACGAUCG-GU
.((((((..(((((((.......((((......).))).-----..))))))).---.-----..-..)))))).((((--((((((((-.....)))))))-))))).......-.. ( -26.10)
>DroVir_CAF1 43200 106 - 1
UGAUGCUUUAGUUGCUAGCCCAGUGUCGACCCAGAAGUU-----GAAGCAACUUUUUU-----GC-UUGGCAUCGAUCAAAAAUUCAAU-UGACCAUUGAAUUUUGAUACGAUCGUAC
.((((((..(((((((.........(((((......)))-----))))))))).....-----..-..))))))((((.((((((((((-.....)))))))))).....)))).... ( -27.10)
>DroGri_CAF1 34053 93 - 1
UGAUGCUUUAGUUGCUAGCCCAGUG------------UU-----GAGGCAACUUUUCU-----GC-UUGGCAUCGAUCAAAAAUUCAAU-UGACCAUUGAAUUUUGAUACGAUCG-GA
....((.......))..(((.((((------------..-----(((....)))..).-----))-).))).((((((.((((((((((-.....)))))))))).....)))))-). ( -25.30)
>DroWil_CAF1 40996 112 - 1
UGAUGCUUUAGUUGGUAUCCCACACUCGACCUAGAAGUUUAAAUAAACCAACCA---ACAAAAGUUUGGGCAUCGAUCA--AAUUCAAUUUGACCAUUGAAUUUUGAUACGAUCG-GU
....(((((.((((((.........((......)).((((....))))..))))---)).)))))....(.((((((((--((((((((......)))))).)))))).))))).-.. ( -22.80)
>DroMoj_CAF1 48053 105 - 1
UGAUGCUUUAGUUGCUAGCCCAGAGUCGACCCAGAAGUU-----GAGGCAAUUUUUUU-----GC-UCAGCAUCGAUCCAAAAUUCAAU-UGACCAUUGAAUUUUGAUACGAUCG-AC
.((((((..(((.....((((((..((......))..))-----).))).........-----))-).))))))(((((((((((((((-.....)))))))))))....)))).-.. ( -28.74)
>DroPer_CAF1 37447 100 - 1
UGAUGCUUUAGUUGGUAUUCCACACUCGACCUAGAAGUU-----AAACCAACUU---A-----GC-UGGGCAUCGAUCA--AAUUCAAU-UGACCAUUGAAUUUUGAUACGAUCG-GU
.(((((((.(((((((.......((((......).))).-----..))))))).---.-----..-.)))))))(((((--((((((((-.....)))))))))......)))).-.. ( -23.70)
>consensus
UGAUGCUUUAGUUGCUAGCCCACACUCGACCUAGAAGUU_____AAACCAACUU___A_____GC_UUGGCAUCGAUCA__AAUUCAAU_UGACCAUUGAAUUUUGAUACGAUCG_GU
.((((((..(((((((.........((......))...........)))))))...............))))))((((...((((((((......)))))))).......)))).... (-18.94 = -18.36 +  -0.58)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:20 2006