Locus 7389

Sequence ID	2L_DroMel_CAF1
Location	20,554,750 – 20,554,929
Length	179
Max. P	0.985422

overview

Window 8

Location	20,554,750 – 20,554,857
Length	107
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	73.70
Mean single sequence MFE	-30.90
Consensus MFE	-15.24
Energy contribution	-14.47
Covariance contribution	-0.78
Combinations/Pair	1.21
Mean z-score	-2.42
Structure conservation index	0.49
SVM decision value	2.01
SVM RNA-class probability	0.985422
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20554750 107 + 22407834
GCAAUUGUUUUGGGCCUGGCCUAAUUGACAGCUGGCAAGUUAAUUAAGGCUAAUUAGUGGCCUAAUUGAUACGAAUGGGUUGU----AAAGUAUGGCUGUGAGCUGGGAGC-----
((.......((((((...))))))....(((((.((..((((((((.(((((.....))))))))))))).......(((..(----(...))..))))).)))))...))----- ( -31.50)
>DroPse_CAF1 120999 102 + 1
-GAAUUGUUUUUGGUCCAGCCUAAUUGACAGCUGACAAGUUAAUUAAGGUUAAUUAGGAUGCUAAUUGAUACGAAUGGGUUGG-------GCU------UGGGCCGAUAGCCAGUU
-.(((((((.((((((((((((((((...((((....)))).(((...(((((((((....)))))))))...))).))))))-------)).------)))))))).)).))))) ( -33.60)
>DroEre_CAF1 68609 97 + 1
GCAAUUGUUU-GGGCCCGGCCUAAUUGACAGCUGGCAAGUUAAUUAGGGCUAAUUAGUGGCCUAAUUGAUACGAAUGGCUUGC----AAGGCAUGGGUG---------AGC-----
..........-..(((((((((...((..(((((....((((((((((.(........).)))))))))).....)))))..)----))))).))))).---------...----- ( -30.30)
>DroYak_CAF1 71735 107 + 1
GCAAUUGUUUAGGGCCUGGCCUAAUUGACAGCUGGCAAGUUAAUUAAGGCUAAUUAGUGGCCUAAUUGAUACGAAUGGGUUGC----AAAGUAUGGGUGUGAGAUAGGAGC-----
((..((((((.(.((((((((((((((((.........))))))).))))).....(..(((((.(((...))).)))))..)----.......)))).).))))))..))----- ( -31.20)
>DroAna_CAF1 69970 93 + 1
-GAAUUGAUUUGGGUGCAGCCUAAUUGACAGCUGACAAGUUAAUUAGGGUUAAUUAGGGCUCUAAUUGAUACGAAUGGGUUGGCCUUAAAAUGC----------------------
-.......((((((..(((((((.(((.(....)....(((((((((((((......))))))))))))).))).)))))))..))))))....---------------------- ( -25.20)
>DroPer_CAF1 126518 102 + 1
-GAAUUGUUUUUGGUCCAGCCUAAUUGACAGCUGACAAGUUAAUUAAGGUUAAUUAGGAUGCUAAUUGAUACGAAUGGGUUGG-------GCU------UGGGCCGAUAGCCAGUU
-.(((((((.((((((((((((((((...((((....)))).(((...(((((((((....)))))))))...))).))))))-------)).------)))))))).)).))))) ( -33.60)
>consensus
_CAAUUGUUUUGGGCCCAGCCUAAUUGACAGCUGACAAGUUAAUUAAGGCUAAUUAGGGGCCUAAUUGAUACGAAUGGGUUGG____AAAGCAU_____UG_GC_G__AGC_____
............(((((((((((((((((.........))))))).))))(((((((....))))))).......))))))................................... (-15.24 = -14.47 +  -0.78)

alignment

secondary structure

dotplot

Window 9

Location	20,554,830 – 20,554,929
Length	99
Sequences	4
Columns	103
Reading direction	reverse
Mean pairwise identity	84.20
Mean single sequence MFE	-22.15
Consensus MFE	-16.06
Energy contribution	-15.12
Covariance contribution	-0.94
Combinations/Pair	1.27
Mean z-score	-2.84
Structure conservation index	0.72
SVM decision value	1.99
SVM RNA-class probability	0.984788
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20554830 99 - 22407834
UGGCUUAAAUCCAAUCAGCAACUUAAACCUUCACAUACACUGUUUACCGAAGGUCUUGCUGAUUUGAAUGCUGCUCCCAGCUCACAG----CCAUACUUUACA
(((((....((.(((((((((.....(((((((((.....))).....)))))).))))))))).))..((((....))))....))----)))......... ( -27.10)
>DroSec_CAF1 77581 103 - 1
AGGCUUAAAUCCAAUCAGCAACUUUAACCAGCACAUACAAUGUUCACCGAAGGUCUUGCUGAUUUGAAUGCUGCUCCCAGCUCACACCCACCCAUAUUUUACA
.((......((.(((((((((((((....((((.......)))).....)))))..)))))))).))..((((....))))......)).............. ( -19.40)
>DroSim_CAF1 78266 103 - 1
UGGCUUAAAUCCAAUCAGCAACUUUAACCUUCACAUAAACUGUUCACCGAAGGUCUUGCUGAUUUGAAUGCUGCUCCCAGCUCACACCCACCCAUAUUUUACA
(((......((.(((((((((.....(((((((((.....))).....)))))).))))))))).))..((((....))))..........)))......... ( -22.40)
>DroYak_CAF1 71815 99 - 1
UUGGAUAAGUCCAAUUAGCAAGCUUAACCUGCACAUACACUGUUUAUGAGAGCUCUGGCUGAUUUGAAUGGUGCUCCUAUCUCACAC----CCAUACUUUGCA
(((((....)))))...((((((.......)).....(((((((((....(((....)))....)))))))))..............----.......)))). ( -19.70)
>consensus
UGGCUUAAAUCCAAUCAGCAACUUUAACCUGCACAUACACUGUUCACCGAAGGUCUUGCUGAUUUGAAUGCUGCUCCCAGCUCACAC____CCAUACUUUACA
.........((.(((((((((((((.......(((.....)))......)))))..)))))))).))..((((....))))...................... (-16.06 = -15.12 +  -0.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:30 2006