Locus 7572

Sequence ID	X_DroMel_CAF1
Location	18,844,189 – 18,844,399
Length	210
Max. P	0.952149

overview

Window 8

Location	18,844,189 – 18,844,296
Length	107
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	64.00
Mean single sequence MFE	-39.12
Consensus MFE	-10.91
Energy contribution	-10.55
Covariance contribution	-0.36
Combinations/Pair	1.33
Mean z-score	-2.92
Structure conservation index	0.28
SVM decision value	1.42
SVM RNA-class probability	0.952149
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18844189 107 + 22224390
AAGGGGGUACGGGAUAAGAAGAAGAGGAGCGGGGGGGGGGGGGCUAAGGG-----UGGCUCUCGUCACUAGCUGUUUUUUUUUUUA----UUAUUCCUACUACUUCUUGGCCC---UUU-
(((((((((.(((((((.((((((((((((((.((((.((((((((....-----)))))))).)).))..)))))))))))))).----))))))))))).(.....).)))---)).- ( -42.00)
>DroSec_CAF1 80826 94 + 1
AAGGUGGUACGGUAUAAGAAGAAGAGGAGCGGG-------GGGCUAAGGG-----UGGCUCUCGUCACUAGCUGUUUUUCUUUU----------UCCUACUACUUCUUGGCCC---UUU-
.((((((((.((...(((((((((((.(((.((-------((((((....-----)))))))).......))).))))))))))----------)))))))))))........---...- ( -31.00)
>DroEre_CAF1 78311 96 + 1
AAGGGGGUAAGGGAUGCGGAGAAGAGUGGAAGG-GAGUGGGGGCUAAGGG-----UGGCUCUCGUCACUAGCU-----------------UUUUUCCUACCACUUCUUGGCCCGGCUUU-
...(((.(((((..((.((((((((((...((.-((.(((((((((....-----))))))))))).)).)))-----------------)))))))...))..))))).)))......- ( -36.60)
>DroYak_CAF1 78436 106 + 1
AAGGGGGUA-GGGAUAAGAAGAAGAGCG---GG-GAGUGGGGGCUAAGGG-----UGGCUCUCGUCACUAGCUGCUUUUUUUUUUCCCCCUUUUCCCUAGUACUUCUUGGCCU---UUU-
.((((((.(-(((..(((((((((((((---(.-.(((((((((((....-----)))))))...))))..))))))))))))))..)))).))))))...............---...- ( -43.00)
>DroPer_CAF1 118099 93 + 1
-A-GUGGCA--GUGGCAGUGGCAGUGGCACUGG----CAGGCACCAAGGGGCAGCAGGCACUCGUCACUAAACAUUUUUGUU----------------GUUGCUCCUUGGUCC---UCCU
-(-(((.((--.((.(...).)).)).))))((----.(((.(((((((((((((.(((....)))....((((....))))----------------)))))))))))))))---))). ( -43.00)
>consensus
AAGGGGGUA_GGGAUAAGAAGAAGAGGAGCGGG_G_GUGGGGGCUAAGGG_____UGGCUCUCGUCACUAGCUGUUUUUUUUUU______UU_UUCCUACUACUUCUUGGCCC___UUU_
........................................(((((((((.......(((....)))..(((.........................))).....)))))))))....... (-10.91 = -10.55 +  -0.36)

alignment

secondary structure

dotplot

Window 9

Location	18,844,296 – 18,844,399
Length	103
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.45
Mean single sequence MFE	-36.80
Consensus MFE	-15.85
Energy contribution	-15.32
Covariance contribution	-0.53
Combinations/Pair	1.16
Mean z-score	-2.52
Structure conservation index	0.43
SVM decision value	0.64
SVM RNA-class probability	0.809112
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18844296 103 + 22224390
--------------UCUUCCCGGCUG-GC--UCAUUUCGCCUUUGACUGUUAAUAGCUUUAAUGCUGUUUUAUGGCAUUUCGUGGAGAAGAAAGGGCCACAGUUUAGUGGGCCAAGGGGA
--------------..(((((...((-((--(((((........((((((.((((((......))))))....(((.((((........))))..))))))))).))))))))).))))) ( -36.20)
>DroPse_CAF1 112265 112 + 1
CCCACGCUUGGGCUUCCUUCUGGCUUUGCCGCCGCCUCUCCUUUGACUGUUAAUAGCUUUAAUGCUGUUUUAUGGCAUUUCGUGGAG---A--GAGCAACAACUGA-UGGGGCAUGUG--
((((((.((((((..((....))....)))...((((((((..(((.((((((((((......)))))....)))))..))).))))---)--).))..))).)).-)))).......-- ( -35.40)
>DroSec_CAF1 80920 103 + 1
--------------UCUUCCCGGCUG-GC--UCAUUUCUCCUUUGACUGUUAAUAGCUUUAAUGCUGUUUUAUGGCAUUUCGUGGAGAAGAAAAGGCCACAGUUUAGUGGGCCAAGGGGA
--------------..(((((...((-((--(((((........((((((.((((((......))))))....(((.((((........))))..))))))))).))))))))).))))) ( -35.00)
>DroEre_CAF1 78407 100 + 1
--------------CCUUCCCGGCUG-GC--UCAUUUCUCCUUCGGCUGUUAAUAGCUUUAAUGCUGUUUUAUGGCAUUUCGUGGAG---AAAGGGCCACAGUUUAGUGGGGCAAGGAGA
--------------(((((((.((((-((--((.(((((((....(((((.((((((......))))))..))))).......))))---)))))))).......))).))).))))... ( -40.71)
>DroYak_CAF1 78542 100 + 1
--------------UCUUGCCGGCUG-GC--UCAUUUCUCCUUUGGCUGUUAAUAGCUUUAAUGCUGUUUUAUGGCAUUUCGUGGAG---AAAGGGCCACAGUUUAGUGGGGCAAGGGGA
--------------(((((((...((-((--((.(((((((....(((((.((((((......))))))..))))).......))))---)))))))))((......)).)))))))... ( -39.20)
>DroPer_CAF1 118192 112 + 1
CCCACGCUUGGGCUUCUUUCUGGCUUUGCCGCCGCCUCUCCUUUGACUGUUAAUAGCUUUAAUGCUGUUUUAUGGCAUUUCGUGGAG---A--GAGCAACAACUGA-UGGGGCAUGUG--
((((((.((((((........(((...))))))((((((((..(((.((((((((((......)))))....)))))..))).))))---)--).))..))).)).-)))).......-- ( -34.30)
>consensus
______________UCUUCCCGGCUG_GC__UCAUUUCUCCUUUGACUGUUAAUAGCUUUAAUGCUGUUUUAUGGCAUUUCGUGGAG___AAAGGGCCACAGUUUAGUGGGGCAAGGGGA
...................((.((((.((........((((..(((.((((((((((......)))))....)))))..))).))))........)).......)))).))......... (-15.85 = -15.32 +  -0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:20 2006