Locus 2187

Sequence ID	X_DroMel_CAF1
Location	5,923,786 – 5,923,890
Length	104
Max. P	0.923410

overview

Window 8

Location	5,923,786 – 5,923,890
Length	104
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	80.48
Mean single sequence MFE	-25.34
Consensus MFE	-17.22
Energy contribution	-17.78
Covariance contribution	0.56
Combinations/Pair	1.28
Mean z-score	-2.14
Structure conservation index	0.68
SVM decision value	1.15
SVM RNA-class probability	0.923410
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5923786 104 + 22224390
GUAUCUAAA-----CACAAUAUUUACCAAUGGGUUUUAGCACGGCUUAAUCGUGAAUGUAAACA--AGAUUACCCAUAAGCCGUGCACCAAUUG--CUUAAUUGGUAGCAAAG
.........-----........((((((((((((....((((((((((...((((.((....))--...))))...)))))))))).......)--))).))))))))..... ( -27.10)
>DroSec_CAF1 10399 104 + 1
GUAUUUAAA-----GACAAUAUUUACCAAUGGGUUUUAGCACGGUUUUAUCGUGAAUGUAAACA--AGAUUACCCAUAAACCGUGCACCUAUAG--CUGAAUUGGUAGCAAAG
.........-----........((((((((.((((.(((((((((((....((((.((....))--...))))....)))))))))...)).))--))..))))))))..... ( -24.60)
>DroSim_CAF1 11449 104 + 1
GUAUUUAAA-----GACAAUAUUUACCAAUGGGUUUUAGCACGGUUUAAUCGUGAAUGUAAACA--AGAUUACCCAUAAACCGUGCACCAAUAG--CUGAAUUGGUGGCAAAG
.........-----........((((((((.((((...((((((((((...((((.((....))--...))))...))))))))))......))--))..))))))))..... ( -25.10)
>DroEre_CAF1 10996 94 + 1
GAAUCGAAA-----GACAAUAUUUGCCAAUGGGUUUAGGCUCAGCUUAA------------GCAACAGAUUAACCAUAAAUCGUGCGCCACCAG--CUAGAUUGGUGGCAAAG
...((....-----))........(((.....((((((((...))))))------------))....((((.......))))).))((((((((--.....)))))))).... ( -26.10)
>DroYak_CAF1 13733 111 + 1
GAAUCGAAAGAAAAGACAAUAUUUACCAAUGGGUUUUAGCACGACUUAAUCGUAAGUGUAAGCA--AAAUUACCCAUAACUCGUGCACCAAUAGCACUGAAUUGGUGGCAAAG
...((....))...........(((((((((((((((.((((.(((((....)))))))..)).--)))..)))).......((((.......))))...))))))))..... ( -23.80)
>consensus
GUAUCUAAA_____GACAAUAUUUACCAAUGGGUUUUAGCACGGCUUAAUCGUGAAUGUAAACA__AGAUUACCCAUAAACCGUGCACCAAUAG__CUGAAUUGGUGGCAAAG
......................((((((((.(((....((((((((((...((((..............))))...)))))))))))))...........))))))))..... (-17.22 = -17.78 +   0.56)

alignment

secondary structure

dotplot

Window 9

Location	5,923,786 – 5,923,890
Length	104
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	80.48
Mean single sequence MFE	-24.38
Consensus MFE	-18.85
Energy contribution	-19.01
Covariance contribution	0.16
Combinations/Pair	1.32
Mean z-score	-1.82
Structure conservation index	0.77
SVM decision value	0.82
SVM RNA-class probability	0.858499
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5923786 104 - 22224390
CUUUGCUACCAAUUAAG--CAAUUGGUGCACGGCUUAUGGGUAAUCU--UGUUUACAUUCACGAUUAAGCCGUGCUAAAACCCAUUGGUAAAUAUUGUG-----UUUAGAUAC
.(((((((((((((...--.)))))))((((((((((((.((((...--...))))...))....))))))))))...........)))))).......-----......... ( -27.30)
>DroSec_CAF1 10399 104 - 1
CUUUGCUACCAAUUCAG--CUAUAGGUGCACGGUUUAUGGGUAAUCU--UGUUUACAUUCACGAUAAAACCGUGCUAAAACCCAUUGGUAAAUAUUGUC-----UUUAAAUAC
......(((((((...(--(.....))(((((((((((.(((((...--...)))).....).)).)))))))))........))))))).........-----......... ( -20.10)
>DroSim_CAF1 11449 104 - 1
CUUUGCCACCAAUUCAG--CUAUUGGUGCACGGUUUAUGGGUAAUCU--UGUUUACAUUCACGAUUAAACCGUGCUAAAACCCAUUGGUAAAUAUUGUC-----UUUAAAUAC
.((((((((((((....--..))))))((((((((((((.((((...--...))))...))....))))))))))...........)))))).......-----......... ( -27.30)
>DroEre_CAF1 10996 94 - 1
CUUUGCCACCAAUCUAG--CUGGUGGCGCACGAUUUAUGGUUAAUCUGUUGC------------UUAAGCUGAGCCUAAACCCAUUGGCAAAUAUUGUC-----UUUCGAUUC
....(((((((......--.)))))))(.(((((.....((((((..(((((------------((.....))))...)))..))))))....))))))-----......... ( -22.00)
>DroYak_CAF1 13733 111 - 1
CUUUGCCACCAAUUCAGUGCUAUUGGUGCACGAGUUAUGGGUAAUUU--UGCUUACACUUACGAUUAAGUCGUGCUAAAACCCAUUGGUAAAUAUUGUCUUUUCUUUCGAUUC
.(((((((..(((((.((((.......)))))))))((((((..(((--.((....(((((....)))))...)).))))))))))))))))..................... ( -25.20)
>consensus
CUUUGCCACCAAUUCAG__CUAUUGGUGCACGGUUUAUGGGUAAUCU__UGUUUACAUUCACGAUUAAGCCGUGCUAAAACCCAUUGGUAAAUAUUGUC_____UUUAGAUAC
.((((((((((((........))))))((((((((((............................))))))))))...........))))))..................... (-18.85 = -19.01 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:16 2006