Locus 5379

Sequence ID	X_DroMel_CAF1
Location	13,984,145 – 13,984,297
Length	152
Max. P	0.565671

overview

Window 1

Location	13,984,145 – 13,984,264
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	79.18
Mean single sequence MFE	-32.10
Consensus MFE	-15.70
Energy contribution	-18.54
Covariance contribution	2.84
Combinations/Pair	1.09
Mean z-score	-1.92
Structure conservation index	0.49
SVM decision value	0.05
SVM RNA-class probability	0.557827
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13984145 119 - 22224390
GGGAUACUGGGUACUGGAUUGUGGACUCUGUCGGUGGCUACCUGCUUGUGCCUCAGCUCAGAAUUCGGCAGCAAUUUUUAUCCAGCGUUCCUCUUGCACCGUUUUCCACCAUAUAUAUA
((((..(((((((..((((((((((.((((...(.(((.((......))))).)....)))).)))....))))))).)))))))..))))............................ ( -30.70)
>DroSec_CAF1 17339 109 - 1
-------UGGAUACUGGAUUGUGGAUUCUGUCUGUGGCUACCUGCUUGUGCCGCAGCUCAGAAUUCGGCAGCAGUUUUUAUCCAGCGUUCCUCUUGCACCGUUUUCCACCAUAUAU---
-------((((((..(((((((((((((((.(((((((.((......)))))))))..))))))))....))))))).))))))(((.......)))...................--- ( -34.70)
>DroSim_CAF1 17423 96 - 1
-------UGGAUACUGGAUUG-------------UGGCUACCUGCUUGUGCCGCAGCUCAGAAUUCGGCAGCAAUUUUUAUCCAGCGUUGCUCUUGCACCGUUUUCCACCAUAUAU---
-------((((..((((((((-------------((((.((......))))))))((((.(....).).))).......))))))((.(((....))).))...))))........--- ( -25.80)
>DroEre_CAF1 11856 104 - 1
G-GAU-------ACUGGAUUGUGGGUUCUGGCUGUGGCUACCA-C--UUGCCGCAGCUCAGAAUUCGGCAGCACAUUUUAUCCAGCGCUCCUCUUCCACCGUU-UCCACCAUAUAU---
(-((.-------((((((....((((((((((((((((.....-.--..)))))))).))))))))((.(((.(..........).)))))...))))..)).-))).........--- ( -39.30)
>DroYak_CAF1 18066 112 - 1
G-GAUACUGCAUACUGGAUUCUGGAUACUGUUUGUGGCUGCCA-C--UUGCCGCAACUCAGAAUUCGGCAGCAAUUUUUAUCCAGCGCUUCGCUUCCUCCGUUUUCCAGCAUAUAU---
(-((((.(((...(((((((((((.....(((.(((((.....-.--..)))))))))))))))))))..))).....)))))((((...))))......................--- ( -30.00)
>consensus
G_GAU__UGGAUACUGGAUUGUGGAUUCUGUCUGUGGCUACCUGCUUGUGCCGCAGCUCAGAAUUCGGCAGCAAUUUUUAUCCAGCGUUCCUCUUGCACCGUUUUCCACCAUAUAU___
.............((((((..(((((((((.(((((((...........)))))))..)))))))))............)))))).................................. (-15.70 = -18.54 +   2.84)

alignment

secondary structure

dotplot

Window 2

Location	13,984,184 – 13,984,297
Length	113
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	77.22
Mean single sequence MFE	-34.52
Consensus MFE	-18.53
Energy contribution	-21.37
Covariance contribution	2.84
Combinations/Pair	1.08
Mean z-score	-1.76
Structure conservation index	0.54
SVM decision value	0.06
SVM RNA-class probability	0.565671
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13984184 113 - 22224390
GACUCGAACUCUGUAUGCUGUAU-------UCUGGAUACUGGGAUACUGGGUACUGGAUUGUGGACUCUGUCGGUGGCUACCUGCUUGUGCCUCAGCUCAGAAUUCGGCAGCAAUUUUUA
...(((((.((((...(((((((-------((..(...)..)))))).((((((.((...((((.((........))))))...)).)))))).))).)))).)))))............ ( -31.80)
>DroSec_CAF1 17375 105 - 1
GACUCGAACUCUGUGUGCUGUAU-------UCUGGAUAC--------UGGAUACUGGAUUGUGGAUUCUGUCUGUGGCUACCUGCUUGUGCCGCAGCUCAGAAUUCGGCAGCAGUUUUUA
.....(((..((((.((((((((-------((.......--------.))))))........((((((((.(((((((.((......)))))))))..))))))))))))))))..))). ( -36.40)
>DroSim_CAF1 17459 92 - 1
GACUCGAACUCUGUGUGCUGUCU-------UCUGGAUAC--------UGGAUACUGGAUUG-------------UGGCUACCUGCUUGUGCCGCAGCUCAGAAUUCGGCAGCAAUUUUUA
...............(((((((.-------((..(...)--------..))..(((..(((-------------((((.((......)))))))))..))).....)))))))....... ( -28.20)
>DroEre_CAF1 11891 109 - 1
GACUCGAACUCUGUACGCUGUACGCUGUAUUCUGGAUACUG-GAU-------ACUGGAUUGUGGGUUCUGGCUGUGGCUACCA-C--UUGCCGCAGCUCAGAAUUCGGCAGCACAUUUUA
................(((((.....((((((........)-)))-------)).......(((((((((((((((((.....-.--..)))))))).))))))))))))))........ ( -40.00)
>DroYak_CAF1 18102 116 - 1
GACUCGAACUCUGUAUGCUGUAUGCUGUACUCUUGAUACUG-GAUACUGCAUACUGGAUUCUGGAUACUGUUUGUGGCUGCCA-C--UUGCCGCAACUCAGAAUUCGGCAGCAAUUUUUA
...............((((((((((.(((..(........)-..))).)))))(((((((((((.....(((.(((((.....-.--..))))))))))))))))))))))))....... ( -36.20)
>consensus
GACUCGAACUCUGUAUGCUGUAU_______UCUGGAUACUG_GAU__UGGAUACUGGAUUGUGGAUUCUGUCUGUGGCUACCUGCUUGUGCCGCAGCUCAGAAUUCGGCAGCAAUUUUUA
...............((((((.........((..(..................)..))....((((((((.(((((((...........)))))))..)))))))).))))))....... (-18.53 = -21.37 +   2.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:35 2006