Locus 5690

Sequence ID	X_DroMel_CAF1
Location	14,717,957 – 14,718,048
Length	91
Max. P	0.864591

overview

Window 9

Location	14,717,957 – 14,718,048
Length	91
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	79.82
Mean single sequence MFE	-24.92
Consensus MFE	-17.36
Energy contribution	-17.37
Covariance contribution	0.00
Combinations/Pair	1.19
Mean z-score	-1.84
Structure conservation index	0.70
SVM decision value	0.84
SVM RNA-class probability	0.864591
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14717957 91 + 22224390
CAUGUUGCCGGCUUCCGACAACCAGGCCAAAAGUUAGGCUAAAAAGCCGACUUUGAGCUUGACAUUGCACUGGGAAAAA---UGGUA----CACC--AAA
..(((.((((..((((......(((((..((((((.((((....))))))))))..))))).((......))))))...---)))))----))..--... ( -26.30)
>DroSec_CAF1 11356 88 + 1
CAUGUUGCCGGCUUCCGACAACCAGGCCAAAAGUUAGGCUAAAAAGCCAACUUUAAGCUUGACAUUGCACUGGAAAAAAAGU-GGUA----GG-------
...((((.(((...))).))))(((((..((((((.((((....))))))))))..)))))......((((........)))-)...----..------- ( -26.00)
>DroSim_CAF1 11667 94 + 1
CAUGUUGCCGGCUUCCGACAACCAGGCCAAAAGUUAGGCUAAAAAGCCGACUUAAAGCUUGACAUUGCACUGAAAAAAAAAUUGGUA----CACC--AAA
...((((.(((...))).))))(((((...(((((.((((....)))))))))...)))))....................((((..----..))--)). ( -23.50)
>DroEre_CAF1 8344 91 + 1
CAUGUUGCCGGCUUCCGACAACCAGGCCAAAAGUUAGGCUAAAGAGCCGAUUUCGAGCUUGACAUUGCACUGGGAACAA---UGGUA----CACC--AAA
..((((.(((((((.........)))))....((((((((...(((.....))).))))))))........)).)))).---(((..----..))--).. ( -25.60)
>DroYak_CAF1 10707 91 + 1
CAUGUUGCCGGCUUCCGACAACCAGGCCAAAAGUUAGGCUUACGAGCCGACUUUGAGCUUGACAUUACACUGUGAAAAA---UAGUA----CAUC--AAA
...((((.(((...))).))))(((((..((((((.((((....))))))))))..))))).......(((((.....)---)))).----....--... ( -26.00)
>DroAna_CAF1 9042 97 + 1
CGCUUUGCCGGCUUCCGACAAGCGGGCCAAAUCUUGAGCCAAAAUGCAGAUUUAAAGCUUGACAUACCACUGAGAGAAA---UAGGGGGUUUUCCGUGUA
.((((((((.((((.....)))).))).((((((...((......)))))))))))))...((((.((.(((.......---)))))((....)))))). ( -22.10)
>consensus
CAUGUUGCCGGCUUCCGACAACCAGGCCAAAAGUUAGGCUAAAAAGCCGACUUUAAGCUUGACAUUGCACUGGGAAAAA___UGGUA____CACC__AAA
...((((.(((...))).))))(((((...(((((.((((....)))))))))...)))))....................................... (-17.36 = -17.37 +   0.00)

alignment

secondary structure

dotplot

Window 0

Location	14,717,957 – 14,718,048
Length	91
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	79.82
Mean single sequence MFE	-25.40
Consensus MFE	-17.55
Energy contribution	-18.97
Covariance contribution	1.42
Combinations/Pair	1.05
Mean z-score	-1.28
Structure conservation index	0.69
SVM decision value	0.16
SVM RNA-class probability	0.614321
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14717957 91 - 22224390
UUU--GGUG----UACCA---UUUUUCCCAGUGCAAUGUCAAGCUCAAAGUCGGCUUUUUAGCCUAACUUUUGGCCUGGUUGUCGGAAGCCGGCAACAUG
...--..((----(((..---.........)))))....((.(((.(((((.((((....))))..))))).))).))((((((((...))))))))... ( -26.60)
>DroSec_CAF1 11356 88 - 1
-------CC----UACC-ACUUUUUUUCCAGUGCAAUGUCAAGCUUAAAGUUGGCUUUUUAGCCUAACUUUUGGCCUGGUUGUCGGAAGCCGGCAACAUG
-------..----...(-(((........))))......((.(((.((((((((((....)))).)))))).))).))((((((((...))))))))... ( -28.00)
>DroSim_CAF1 11667 94 - 1
UUU--GGUG----UACCAAUUUUUUUUUCAGUGCAAUGUCAAGCUUUAAGUCGGCUUUUUAGCCUAACUUUUGGCCUGGUUGUCGGAAGCCGGCAACAUG
.((--((..----..))))....................((.(((..((((.((((....))))..))))..))).))((((((((...))))))))... ( -26.50)
>DroEre_CAF1 8344 91 - 1
UUU--GGUG----UACCA---UUGUUCCCAGUGCAAUGUCAAGCUCGAAAUCGGCUCUUUAGCCUAACUUUUGGCCUGGUUGUCGGAAGCCGGCAACAUG
.((--((..----(..((---(((....)))))..)..))))((.(((((..((((....))))....)))))))...((((((((...))))))))... ( -25.00)
>DroYak_CAF1 10707 91 - 1
UUU--GAUG----UACUA---UUUUUCACAGUGUAAUGUCAAGCUCAAAGUCGGCUCGUAAGCCUAACUUUUGGCCUGGUUGUCGGAAGCCGGCAACAUG
.((--((((----(((..---...........)).)))))))(((.(((((.((((....))))..))))).)))...((((((((...))))))))... ( -25.22)
>DroAna_CAF1 9042 97 - 1
UACACGGAAAACCCCCUA---UUUCUCUCAGUGGUAUGUCAAGCUUUAAAUCUGCAUUUUGGCUCAAGAUUUGGCCCGCUUGUCGGAAGCCGGCAAAGCG
..((((((((........---)))))....))).........(((((((((((((......))...)))))).(((.((((.....)))).)))))))). ( -21.10)
>consensus
UUU__GGUG____UACCA___UUUUUCCCAGUGCAAUGUCAAGCUCAAAGUCGGCUUUUUAGCCUAACUUUUGGCCUGGUUGUCGGAAGCCGGCAACAUG
.......................................((.(((.(((((.((((....))))..))))).))).))((((((((...))))))))... (-17.55 = -18.97 +   1.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:08 2006