Locus 7064

Sequence ID	X_DroMel_CAF1
Location	17,717,327 – 17,717,478
Length	151
Max. P	0.799326

overview

Window 8

Location	17,717,327 – 17,717,443
Length	116
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	88.14
Mean single sequence MFE	-35.36
Consensus MFE	-25.36
Energy contribution	-25.56
Covariance contribution	0.20
Combinations/Pair	1.18
Mean z-score	-2.17
Structure conservation index	0.72
SVM decision value	0.61
SVM RNA-class probability	0.799326
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17717327 116 - 22224390
AAUUGAGCUGAGUGGUUGC-CCAUACUUUUCCACCAGCGCUUUUCCAGCUUUCCCAUUUCCCAUUGUCCUGCAGGAUAAAUGGCUGCCAUAGCGAUGGGUAAUCAGCACCUCAGUUG
(((((((.((..(((((((-((((..........(((((((.....)))............((((((((....)))).))))))))........))))))))))).)).))))))). ( -36.87)
>DroSec_CAF1 21718 116 - 1
AAUUGAGCUGAGUGGUUGC-CCAUACUUUUCCGCCAGCGCUUUUCCAGCUUUCCCACUUCCCAUUGUCCUGCAGGAUAAAUGGCUGCCAUGGCGAUGGGUAAUCAGCACCUCAGUUA
(((((((.((..(((((((-((((.......((((((((((.....)))...........(((((((((....)))).)))))..))..)))))))))))))))).)).))))))). ( -41.61)
>DroSim_CAF1 23822 116 - 1
AAUUGAGCUGAGUGGUUGC-CCAUACUUUUCCGCCAGCGCUUUUCCAGCUUUCCCACUUCCCAUUGUCCUGCAGGAUAAAUGGCUGCCAUGGCGAUGGGUAAUCAGCACCUCAGUUA
(((((((.((..(((((((-((((.......((((((((((.....)))...........(((((((((....)))).)))))..))..)))))))))))))))).)).))))))). ( -41.61)
>DroEre_CAF1 22855 116 - 1
AAUUGAGCAGAGUGGUUGC-UCAUACUUCUCCGCCAGCGCUUUUCCUGCAUUCCCAUAUCCCAUUUUCCUGCAGGAUUAAUGGCUGCCAUAGCGAUGUGUAAUUAGCACCUCAGUUG
(((((((..(..(((((((-.(((........((((.......(((((((...................)))))))....))))(((....)))))).))))))).)..))))))). ( -28.91)
>DroYak_CAF1 22942 116 - 1
AAUUGAGCAAAGUGGUUGCCUCAUACUUUUACGCCAGCGUUAUUCCCAU-UUUCCAUUUUCCAUUUUCCUGGAGGAUUAAUGGCUGUCAGAACGAUGGGUAAUUAGCAGCUCUGUUG
(((.((((((((((.........)))))).......((...((((((((-((((......(((((.(((....)))..)))))......))).)))))).)))..)).)))).))). ( -27.80)
>consensus
AAUUGAGCUGAGUGGUUGC_CCAUACUUUUCCGCCAGCGCUUUUCCAGCUUUCCCAUUUCCCAUUGUCCUGCAGGAUAAAUGGCUGCCAUAGCGAUGGGUAAUCAGCACCUCAGUUG
.....((((((((((((((.((((........((((..((.......))..............((((((....)))))).))))(((....))))))))))))))....))))))). (-25.36 = -25.56 +   0.20)

alignment

secondary structure

dotplot

Window 9

Location	17,717,367 – 17,717,478
Length	111
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	87.86
Mean single sequence MFE	-29.37
Consensus MFE	-18.98
Energy contribution	-19.50
Covariance contribution	0.52
Combinations/Pair	1.12
Mean z-score	-2.68
Structure conservation index	0.65
SVM decision value	0.36
SVM RNA-class probability	0.702814
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17717367 111 - 22224390
----CGGAAAA-GCAAUUGUUUGCCCUUUAACGAUUUUUUAAUUGAGCUGAGUGGUUGC-CCAUACUUUUCCACCAGCGCUUUUCCAGCUUUCCCAUUUCCCAUUGUCCUGCAGGAU
----.((((((-(((((((((........)))))))..........((((.((((....-..........))))))))))))))))...................((((....)))) ( -30.34)
>DroSec_CAF1 21758 111 - 1
----CGGAAAA-GCACUUGUUUAUCCUUUAACGAUUUUUUAAUUGAGCUGAGUGGUUGC-CCAUACUUUUCCGCCAGCGCUUUUCCAGCUUUCCCACUUCCCAUUGUCCUGCAGGAU
----.((((((-((.................(((((....))))).((((.((((....-..........))))))))))))))))...................((((....)))) ( -28.54)
>DroSim_CAF1 23862 111 - 1
----CGGAAAA-GCACUUGUUUAUCCUUUAACGAUUUUUUAAUUGAGCUGAGUGGUUGC-CCAUACUUUUCCGCCAGCGCUUUUCCAGCUUUCCCACUUCCCAUUGUCCUGCAGGAU
----.((((((-((.................(((((....))))).((((.((((....-..........))))))))))))))))...................((((....)))) ( -28.54)
>DroEre_CAF1 22895 115 - 1
UCUGCGGAAAA-GCACUUGCUUUUCCUUUAACGAUUUUUUAAUUGAGCAGAGUGGUUGC-UCAUACUUCUCCGCCAGCGCUUUUCCUGCAUUCCCAUAUCCCAUUUUCCUGCAGGAU
(((((((((((-((....)))))))).....(((((....))))).)))))(((.(.((-............)).).)))...(((((((...................))))))). ( -32.81)
>DroYak_CAF1 22982 113 - 1
---GCGGAAAGGGCACUUGUUUGCCCUUUAACGAUUUUUUAAUUGAGCAAAGUGGUUGCCUCAUACUUUUACGCCAGCGUUAUUCCCAU-UUUCCAUUUUCCAUUUUCCUGGAGGAU
---..((((((((((......)))))..(((((......(((.(((((((.....))).)))).....)))......))))).......-)))))((((((((......)))))))) ( -26.60)
>consensus
____CGGAAAA_GCACUUGUUUAUCCUUUAACGAUUUUUUAAUUGAGCUGAGUGGUUGC_CCAUACUUUUCCGCCAGCGCUUUUCCAGCUUUCCCAUUUCCCAUUGUCCUGCAGGAU
.....((((((.((.................(((((....))))).((((.((((...............))))))))))))))))....................(((....))). (-18.98 = -19.50 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:18 2006